Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 213 of 284
Found at i:70689357 original size:27 final size:27
Alignment explanation
Indices: 70689296--70689358 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
70689286 TTGAAATCAT
* * * *
70689296 GTTCGCTAGTTTGTTTGGTAAGCTGGA
1 GTTCGCCAGTCTGTTTGGTAACCAGGA
*
70689323 GTTTGCCAGTCTGTTTGGTGAACCAGG-
1 GTTCGCCAGTCTGTTTGGT-AACCAGGA
70689350 GTTCGCCAG
1 GTTCGCCAG
70689359 GTAAGTTATG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.14, C:0.17, G:0.33, T:0.35
Consensus pattern (27 bp):
GTTCGCCAGTCTGTTTGGTAACCAGGA
Found at i:70693350 original size:16 final size:16
Alignment explanation
Indices: 70693329--70693360 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70693319 GTGACCATGA
70693329 GATAAAATATAATTGT
1 GATAAAATATAATTGT
*
70693345 GATAAAATATGATTGT
1 GATAAAATATAATTGT
70693361 ATTGAGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (16 bp):
GATAAAATATAATTGT
Found at i:70693915 original size:13 final size:13
Alignment explanation
Indices: 70693897--70693921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70693887 CATAATGGGT
70693897 AATTAAACTTGAA
1 AATTAAACTTGAA
70693910 AATTAAACTTGA
1 AATTAAACTTGA
70693922 GAATGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTAAACTTGAA
Found at i:70695326 original size:19 final size:19
Alignment explanation
Indices: 70695294--70695347 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
70695284 TTATGCGCTT
70695294 ATGCACCAAGATGCACTTC
1 ATGCACCAAGATGCACTTC
* *
70695313 ATGTACCAATATGCACTTC
1 ATGCACCAAGATGCACTTC
*
70695332 GTGCACCAAGATGCAC
1 ATGCACCAAGATGCAC
70695348 ATTGTGTGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (19 bp):
ATGCACCAAGATGCACTTC
Found at i:70695359 original size:19 final size:20
Alignment explanation
Indices: 70695337--70695408 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 20
70695327 ACTTCGTGCA
70695337 CCAAG-ATGCACATTGTGTG
1 CCAAGAATGCACATTGTGTG
*
70695356 CCAAGAATGTAC-TTCGTGTG
1 CCAAGAATGCACATT-GTGTG
* * *
70695376 -CTAGTATGCACTTTGTGTG
1 CCAAGAATGCACATTGTGTG
*
70695395 CCAA-TATGCACATT
1 CCAAGAATGCACATT
70695409 ACGTGACAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 29 0.67
20 14 0.33
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (20 bp):
CCAAGAATGCACATTGTGTG
Found at i:70707375 original size:24 final size:24
Alignment explanation
Indices: 70707340--70707388 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
70707330 CATTAAATTA
*
70707340 TTAGTAAGTTTATATTTTGGTCAT
1 TTAGTAAATTTATATTTTGGTCAT
70707364 TTAGTAAATTTATATTTTGGTCAT
1 TTAGTAAATTTATATTTTGGTCAT
70707388 T
1 T
70707389 CCACTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (24 bp):
TTAGTAAATTTATATTTTGGTCAT
Found at i:70716010 original size:20 final size:20
Alignment explanation
Indices: 70715985--70716032 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
70715975 AGAGTTTTTG
* *
70715985 AAAATTTTAGTTATACC-CTT
1 AAAATTTTAATTA-ACCTCCT
70716005 AAAATTTTAATTAACCTCCT
1 AAAATTTTAATTAACCTCCT
70716025 AAAATTTT
1 AAAATTTT
70716033 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATTTTAATTAACCTCCT
Found at i:70716048 original size:30 final size:31
Alignment explanation
Indices: 70716005--70716072 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
70715995 TTATACCCTT
*
70716005 AAAATTTTAATT-AACCTCCT-AAAATTTTTA
1 AAAATTTTAATTAAACCT-CTGAAAAATTTTA
*
70716035 AAAATTATT-ATTAAACCTTTGAAAAATTTTA
1 AAAATT-TTAATTAAACCTCTGAAAAATTTTA
70716066 AAAATTT
1 AAAATTT
70716073 CTATTAGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (31 bp):
AAAATTTTAATTAAACCTCTGAAAAATTTTA
Found at i:70716282 original size:30 final size:31
Alignment explanation
Indices: 70716240--70716308 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
70716230 TATGTGTATT
* **
70716240 AAAATGATATATATAATCTTAA-AATTTATA
1 AAAATAATATATATAATCAAAATAATTTATA
* *
70716270 GAAATAATATATATATTCAAAATAATTTATA
1 AAAATAATATATATAATCAAAATAATTTATA
70716301 AAAATAAT
1 AAAATAAT
70716309 TAAACATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAATAATATATATAATCAAAATAATTTATA
Found at i:70720582 original size:3 final size:3
Alignment explanation
Indices: 70720568--70720597 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
70720558 ATTCAATACC
*
70720568 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
70720598 CTTACCATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:70732799 original size:5 final size:5
Alignment explanation
Indices: 70732789--70732814 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
70732779 TTGAACTTCA
70732789 ATCAT ATCAT ATCAT ATCAT ATCAT A
1 ATCAT ATCAT ATCAT ATCAT ATCAT A
70732815 CGCGAGTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (5 bp):
ATCAT
Found at i:70739730 original size:43 final size:43
Alignment explanation
Indices: 70739621--70739733 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
70739611 CCGAGATGTG
* * * **
70739621 ATTACATGTAAGACCATGTCTGGAACATTGGCATTGTATTGAA
1 ATTACGTGTAAGACCTTGTCTGGGACATTGGCATCATATTGAA
*
70739664 ATTACGTGTAAGA-CTATTTCTGGGACATTGGCATCATATT-ATA
1 ATTACGTGTAAGACCT-TGTCTGGGACATTGGCATCATATTGA-A
*
70739707 ATTTCGTGTAAGACCTTGTCTGGGACA
1 ATTACGTGTAAGACCTTGTCTGGGACA
70739734 GTGACATCGA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 2 0.03
43 55 0.93
44 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (43 bp):
ATTACGTGTAAGACCTTGTCTGGGACATTGGCATCATATTGAA
Found at i:70739760 original size:43 final size:43
Alignment explanation
Indices: 70739622--70739760 Score: 115
Period size: 43 Copynumber: 3.2 Consensus size: 43
70739612 CGAGATGTGA
* * * * *
70739622 TTACATGTAAGACCATGTCTGGAACATTGGCATTG-TATTGAAA
1 TTACATGTAAGACCTTGTCTGGGACATTGGCATCGATA-TGTAT
* *
70739665 TTACGTGTAAGA-CTATTTCTGGGACATTGGCATC-ATAT-TAT
1 TTACATGTAAGACCT-TGTCTGGGACATTGGCATCGATATGTAT
* * * *
70739706 AATTTCGTGTAAGACCTTGTCTGGGACAGTGACATCGATATGTAT
1 --TTACATGTAAGACCTTGTCTGGGACATTGGCATCGATATGTAT
70739751 TTACATGTAA
1 TTACATGTAA
70739761 TACCATATCT
Statistics
Matches: 76, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
41 1 0.01
42 2 0.03
43 64 0.84
44 6 0.08
45 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.35
Consensus pattern (43 bp):
TTACATGTAAGACCTTGTCTGGGACATTGGCATCGATATGTAT
Found at i:70746423 original size:9 final size:9
Alignment explanation
Indices: 70746409--70746458 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
70746399 GTAAGTATAA
70746409 AATTAACCG
1 AATTAACCG
* *
70746418 AATTAATCA
1 AATTAACCG
70746427 AATTAACCG
1 AATTAACCG
*
70746436 AATTACCCG
1 AATTAACCG
*
70746445 AATTAACTG
1 AATTAACCG
70746454 AATTA
1 AATTA
70746459 TTTGTATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:70746493 original size:5 final size:6
Alignment explanation
Indices: 70746478--70746518 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
70746468 AATTATATGT
*
70746478 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA --TTTTTA TTTTTA TTT
70746519 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:70747369 original size:12 final size:12
Alignment explanation
Indices: 70747360--70747384 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70747350 TGTGATTCGA
70747360 ACCCTGATTCAG
1 ACCCTGATTCAG
70747372 ACCCTGATTCAG
1 ACCCTGATTCAG
70747384 A
1 A
70747385 ATTTCAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
ACCCTGATTCAG
Found at i:70752705 original size:14 final size:13
Alignment explanation
Indices: 70752657--70752696 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
70752647 CGACCCCCNT
70752657 TTCCCTTTCTTTC
1 TTCCCTTTCTTTC
*
70752670 TTCCCTCTCCTTTC
1 TTCCCT-TTCTTTC
*
70752684 TTCTCTTTCTTTC
1 TTCCCTTTCTTTC
70752697 CCTTTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (13 bp):
TTCCCTTTCTTTC
Found at i:70752705 original size:23 final size:22
Alignment explanation
Indices: 70752664--70752709 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
70752654 CNTTTCCCTT
70752664 TCTTTCTTCCCTCTCCTTTCTTC
1 TCTTTCTTCCCTCTCCTTT-TTC
*
70752687 TCTTTCTTTCCCT-TTCTTTTTC
1 TCTTTC-TTCCCTCTCCTTTTTC
70752709 T
1 T
70752710 GCTTCCACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 11 0.52
24 6 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (22 bp):
TCTTTCTTCCCTCTCCTTTTTC
Found at i:70759616 original size:43 final size:41
Alignment explanation
Indices: 70759463--70759624 Score: 128
Period size: 43 Copynumber: 3.8 Consensus size: 41
70759453 CCGAGATGTG
* * ** *
70759463 ATTACATGTAAGACCATGTATAGGACATTGGAATTGTATTGAG
1 ATTACATGTAAGACCATGTATGGGACA-TGGCATCATATT-AT
* * *
70759506 ATTATATGTAAGACTATGTCTGGGACATTGGCATCATATTAT
1 ATTACATGTAAGACCATGTATGGGACA-TGGCATCATATTAT
* * * *
70759548 AATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTAT
1 -ATTACATGTAAGACCATGTATGGGACA-TGGCATC-ATAT-TAT
* *
70759593 -TTACATGTAAGACCATATATGGGATATGGCAT
1 ATTACATGTAAGACCATGTATGGGACATGGCAT
70759625 TGTACGGGTT
Statistics
Matches: 95, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 7 0.07
43 81 0.85
44 4 0.04
45 3 0.03
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (41 bp):
ATTACATGTAAGACCATGTATGGGACATGGCATCATATTAT
Found at i:70764761 original size:6 final size:6
Alignment explanation
Indices: 70764743--70764778 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
70764733 GCAAATGGGT
*
70764743 CATTTC TCATTTC CATTTC CATTTC CATTTT CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTT
70764779 TTTGAGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (6 bp):
CATTTC
Found at i:70768066 original size:26 final size:26
Alignment explanation
Indices: 70768035--70768142 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
70768025 TGAAATGCCC
70768035 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
70768061 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
70768087 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
70768113 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
70768139 ATCA
1 ATCA
70768143 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:70769586 original size:90 final size:90
Alignment explanation
Indices: 70769433--70769618 Score: 345
Period size: 90 Copynumber: 2.1 Consensus size: 90
70769423 AGGGTAAAAA
* *
70769433 TGTGAAATACATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCTAACATGGGTGTA
1 TGTGAAATAAATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
70769498 TTCAAATTTTGAATATTTTGTGTTT
66 TTCAAATTTTGAATATTTTGTGTTT
*
70769523 TGTGAAATAAATGAAACATATGGGCTTGTATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
1 TGTGAAATAAATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
70769588 TTCAAATTTTGAATATTTTGTGTTT
66 TTCAAATTTTGAATATTTTGTGTTT
70769613 TGTGAA
1 TGTGAA
70769619 TTAGGGACTA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (90 bp):
TGTGAAATAAATGAAACATATGGGCTTATATGGACTAGGGGTAAATTCGGCCAAACATGGGTGTA
TTCAAATTTTGAATATTTTGTGTTT
Found at i:70776342 original size:10 final size:10
Alignment explanation
Indices: 70776329--70776362 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
70776319 AAAGGCATCC
70776329 AAAAAGAAAA
1 AAAAAGAAAA
70776339 AAAAAGTATAAA
1 AAAAAG-A-AAA
70776351 AAAAAGAAAA
1 AAAAAGAAAA
70776361 AA
1 AA
70776363 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 11 0.50
11 2 0.09
12 9 0.41
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:70776961 original size:8 final size:8
Alignment explanation
Indices: 70776950--70777003 Score: 65
Period size: 8 Copynumber: 6.5 Consensus size: 8
70776940 AATCAAAATC
*
70776950 AAAACAAA
1 AAAATAAA
70776958 AAAATAAA
1 AAAATAAA
70776966 AAAA-AATA
1 AAAATAA-A
70776974 AAAATTTAAA
1 AAAA--TAAA
70776984 AAAATAAA
1 AAAATAAA
70776992 AAAATAAA
1 AAAATAAA
70777000 AAAA
1 AAAA
70777004 AAGAAAGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
7 2 0.05
8 32 0.78
10 5 0.12
11 2 0.05
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAATAAA
Found at i:70776961 original size:14 final size:12
Alignment explanation
Indices: 70776932--70777005 Score: 55
Period size: 12 Copynumber: 6.1 Consensus size: 12
70776922 AAGAAGATTG
*
70776932 AAATAAAAAATCA
1 AAATAAAAAA-AA
70776945 AAATCAAAACAAAA
1 AAAT-AAAA-AAAA
70776959 AAAT--AAAAAA
1 AAATAAAAAAAA
**
70776969 AAATAAAAATTTA
1 AAATAAAAA-AAA
*
70776982 AAA-AAATAAAA
1 AAATAAAAAAAA
70776993 AAATAAAAAAAA
1 AAATAAAAAAAA
70777005 A
1 A
70777006 GAAAGAAAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
10 8 0.17
11 6 0.12
12 15 0.31
13 8 0.17
14 9 0.19
15 2 0.04
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (12 bp):
AAATAAAAAAAA
Found at i:70776971 original size:18 final size:17
Alignment explanation
Indices: 70776936--70777005 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
70776926 AGATTGAAAT
*
70776936 AAAAAATCAAAATCAAAACA
1 AAAAAAT-AAAA--AAAAAA
*
70776956 AAAAAATAAAAAAAAAT
1 AAAAAATAAAAAAAAAA
* * *
70776973 AAAAATTTAAAAAAATA
1 AAAAAATAAAAAAAAAA
70776990 AAAAAATAAAAAAAAA
1 AAAAAATAAAAAAAAA
70777006 GAAAGAAAAG
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 30 0.73
19 4 0.10
20 7 0.17
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAA
Found at i:70778185 original size:64 final size:64
Alignment explanation
Indices: 70778106--70778229 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 64
70778096 TCATTCATAA
*
70778106 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * *
70778170 CACATCTAGTTAGGAGCATCTGATTCATTTTGATCATAGCATCCTAGTTATTTGGCATAA
1 CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAA
70778230 ACATAGATAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATCTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:70778395 original size:45 final size:44
Alignment explanation
Indices: 70778302--70778674 Score: 160
Period size: 45 Copynumber: 8.3 Consensus size: 44
70778292 GAATTCACAA
* * *
70778302 CTTATCTCCCTGAAGTTGCAGTAGAGCA-ACATTGAA-AT-GACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAC--TAAAGATAG-CA-AT
70778347 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGC-AAT
* ** *
70778392 CTTATTTCCCTGAAGTTGCAGTGGAATAGGTTGAAGCTATAA-ATAAACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGG---A-GCAG-A-CTA-AAGAT-AGCA-AT
* * * * *
70778444 CTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T---CATAGCAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAA-T
** * *
70778485 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-T-GACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAG-CA-AT
* * **
70778529 CTTATTTCCCTGAAGTTGCAGTGGAGCAGACCAAAGACGGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGC-AAT
* * * * * * ** *
70778574 CTTATCTCCATGTA-TCGACAATGGAGCAGATTTAAGCCA-CAACC
1 CTTATCTCCCTGAAGTTG-CAGTGGAGCAGACTAAAGATAGCAA-T
** * *
70778618 CTTATCTTTCTGAAGTTGCAGTGGAGCAGACTCAATATA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAA-T
*
70778662 CTTATCTTCCTGA
1 CTTATCTCCCTGA
70778675 GGTAACAAGG
Statistics
Matches: 249, Mismatches: 52, Indels: 55
0.70 0.15 0.15
Matches are distributed among these distances:
40 1 0.00
41 29 0.12
42 3 0.01
43 3 0.01
44 80 0.32
45 85 0.34
46 6 0.02
47 1 0.00
48 4 0.02
49 3 0.01
50 1 0.00
51 6 0.02
52 27 0.11
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAT
Found at i:70778464 original size:97 final size:93
Alignment explanation
Indices: 70778341--70778520 Score: 227
Period size: 93 Copynumber: 1.9 Consensus size: 93
70778331 CATTGAAATG
* * * * *
70778341 ACAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAA-TCTTATTTCCCTGA
1 ACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T---CATAGC-AAGCCTTATCTCCCTGA
*
70778405 AGTTGCAGTGGAATAGGTTGAAGCTATAAATAA
61 AGTTGCAGTGGAACAGGTTGAAGCTATAAATAA
* *
70778438 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAGCCTTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAGCCTTATCTCCCTGAAGTTG
*
70778503 CAGTGGAGCAGGTTGAAG
66 CAGTGGAACAGGTTGAAG
70778521 TGACAGGTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 2 0.03
93 38 0.52
96 1 0.01
97 32 0.44
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (93 bp):
ACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAGCCTTATCTCCCTGAAGTTG
CAGTGGAACAGGTTGAAGCTATAAATAA
Found at i:70778754 original size:177 final size:176
Alignment explanation
Indices: 70778548--70778966 Score: 468
Period size: 177 Copynumber: 2.4 Consensus size: 176
70778538 CTGAAGTTGC
* * * * *
70778548 AGTGGAGCAGACCAAAGACGGCAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * *
70778613 CAACCCTTATCT-TTCTGAAGTTGC-AGTGGAGCAGACTCAATATACAAGTCTTATCTTCCTGAG
66 CAACCCTTATCTCTT-TGAAGTAGCAAG-AGAGCAGACTCAAGATACAAGTCTTATCTTCCTGAG
* * * * *
70778676 GTAACAAGGAAGCAGACTGAAGATTGAAGATGTTATCTCGCTAAGCAGT
129 GTAACAAGGAAGCAAAATGAAGATTGAAGAT-CTATCTCCCTAAGCAAT
*
70778725 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATCTT-AGCC
1 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGAT-TTAAGCC
* * * ** ** *** *
70778789 ACTAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGGAGATTGTAGTCTTATCTTCTTGAGG
65 ACAACCCTTATCTCTTTGAAGTAGCAAGAGAGCAGACTCAAGATACAAGTCTTATCTTCCTGAGG
** * *
70778854 TAGTAAGGAAGCAAAATGGAGATTGAAGATCTATTTCCCTAAGCAAT
130 TAACAAGGAAGCAAAATGAAGATTGAAGATCTATCTCCCTAAGCAAT
* * * *
70778901 TGTGGAGCAGATAG-AGAATGGCGAGTCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCC
1 AGTGGAGCAGATCGAAG-ATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC
70778965 AC
65 AC
70778967 CAGTCCTATT
Statistics
Matches: 203, Mismatches: 34, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
175 4 0.02
176 68 0.33
177 125 0.62
178 6 0.03
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (176 bp):
AGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
CAACCCTTATCTCTTTGAAGTAGCAAGAGAGCAGACTCAAGATACAAGTCTTATCTTCCTGAGGT
AACAAGGAAGCAAAATGAAGATTGAAGATCTATCTCCCTAAGCAAT
Found at i:70780708 original size:121 final size:121
Alignment explanation
Indices: 70780488--70780733 Score: 300
Period size: 121 Copynumber: 2.0 Consensus size: 121
70780478 TACTCATATA
* * * * *
70780488 TTAATATATATACATAATATTTATATTAAAATTAATTTTATTCTATATACATTATTAAATCTATG
1 TTAATATATATACATAATATTCATAGTAAAATTAATTTGATCCTATATACATTATTAAATCCATG
* * * *
70780553 TTATTTTATACATATAATTTCTTCTAAATTTATTTATATACATATTTATGTTTTTT
66 TTATTTTATACATATAATTGCTTCTAAATCTATTTATATACATATATATGTGTTTT
* * **
70780609 TTAATTTAT-TACATATATAATTCATAGTAAAATTAATTTGATCCTATGTACA-TATTCGATCCC
1 TTAATATATATACATA-AT-ATTCATAGTAAAATTAATTTGATCCTATATACATTATTAAAT-CC
* * *
70780672 ATGTTATTTT-TACATATAGTTGCTTCTAAATCTATTTATGTATATATATATGTGTTTT
63 ATGTTATTTTATACATATAATTGCTTCTAAATCTATTTATATACATATATATGTGTTTT
70780730 TTAA
1 TTAA
70780734 AACCCATTAT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
120 6 0.06
121 61 0.58
122 39 0.37
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.52
Consensus pattern (121 bp):
TTAATATATATACATAATATTCATAGTAAAATTAATTTGATCCTATATACATTATTAAATCCATG
TTATTTTATACATATAATTGCTTCTAAATCTATTTATATACATATATATGTGTTTT
Found at i:70789826 original size:44 final size:43
Alignment explanation
Indices: 70789765--70789924 Score: 159
Period size: 42 Copynumber: 3.8 Consensus size: 43
70789755 ATAGGACTCC
* *
70789765 GATATGAGATT-CGTGTAAGACCACGTTTGGGACATTGGCATT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATT
* * * * *
70789807 GATTTGTGATTTACGTGTAAGACTATGTCTGGGATATTGGCATC
1 GATATGTGA-TTACGTGTAAGACCACGTCTGGGACATTGGCATT
* * *
70789851 G-TATATAAGTTA-GTGTAAGACC-CTGTCTGGGACAGTGGCA-T
1 GATATGTGA-TTACGTGTAAGACCAC-GTCTGGGACATTGGCATT
*
70789892 GATATGTGATTACATGTAAGACCACGTCTGGGA
1 GATATGTGATTACGTGTAAGACCACGTCTGGGA
70789925 TGTTGGTGAT
Statistics
Matches: 93, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 4 0.04
42 52 0.56
43 10 0.11
44 27 0.29
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATT
Found at i:70791242 original size:28 final size:29
Alignment explanation
Indices: 70791210--70791267 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
70791200 CTAATATTAG
70791210 TAAATATATACATGTAGTA-AAGCAACTA
1 TAAATATATACATGTAGTATAAGCAACTA
70791238 TAAATATATACATGTAGTATAAGCAACTA
1 TAAATATATACATGTAGTATAAGCAACTA
70791267 T
1 T
70791268 GGTATGTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (29 bp):
TAAATATATACATGTAGTATAAGCAACTA
Found at i:70791925 original size:22 final size:23
Alignment explanation
Indices: 70791875--70791931 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
70791865 CCTTCAAAAA
* *
70791875 TCTATCAAATTTC-ATTGAAATT
1 TCTATCAAAATTCTATTCAAATT
*
70791897 T-TCTCAAAATTCTA-TCAAATT
1 TCTATCAAAATTCTATTCAAATT
70791918 TCTATCAAAATTCT
1 TCTATCAAAATTCT
70791932 TTGTTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.37, C:0.18, G:0.02, T:0.44
Consensus pattern (23 bp):
TCTATCAAAATTCTATTCAAATT
Found at i:70791931 original size:11 final size:11
Alignment explanation
Indices: 70791868--70791931 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
70791858 AATATTCCCT
*
70791868 TCAAAAATCTA
1 TCAAAATTCTA
*
70791879 TCAAATTTC-A
1 TCAAAATTCTA
** * *
70791889 TTGAAATTTTC
1 TCAAAATTCTA
70791900 TCAAAATTCTA
1 TCAAAATTCTA
*
70791911 TCAAATTTCTA
1 TCAAAATTCTA
70791922 TCAAAATTCT
1 TCAAAATTCT
70791932 TTGTTTAAAA
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
10 6 0.15
11 33 0.85
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.41
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:70792193 original size:47 final size:45
Alignment explanation
Indices: 70792066--70792197 Score: 149
Period size: 47 Copynumber: 2.8 Consensus size: 45
70792056 AGTGATAATT
* *
70792066 TTAAATTTTCAATACTATTCGATATTTTTTTAAATTATGCAATTTAA
1 TTAAA-TTTCAATACTATT-GATATTTTTTTCATTTATGCAATTTAA
* *
70792113 TTAAATTTGTAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAATT-TAA
*
70792161 TTACAATTTCAATACTGCTTGAT-TTTTTTTCATTTAT
1 TTA-AATTTCAATACT-ATTGATATTTTTTTCATTTAT
70792198 AATGTTTGCA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
46 3 0.04
47 46 0.63
48 19 0.26
49 5 0.07
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (45 bp):
TTAAATTTCAATACTATTGATATTTTTTTCATTTATGCAATTTAA
Found at i:70797511 original size:126 final size:127
Alignment explanation
Indices: 70797279--70797519 Score: 405
Period size: 126 Copynumber: 1.9 Consensus size: 127
70797269 ATTTATAGCC
*
70797279 TTATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACATGGGAGCTATTTCCAGAAATTTTAC
1 TTATTTTTCTACAAACTACTGTAGCAAAAGAGCATCCACATGGGAGCTATTTCCAGAAATTTTAC
70797344 TGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTTTT-CAAAAACGTCTATTCAGAA
66 TGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTTTTCCAAAAACGTCTATTCAGAA
* * * *
70797405 TTATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGC
1 TTATTTTTCTACAAACTACTGTAGCAAAAGAGCATCCACATGGGAGCTATTTCCAGAAATTTTAC
*
70797470 TGACAGTGCATCCTGCTTGAAGCGTTTTTCGATACTA-TTTTTCCAAAAAC
66 TGACAGTGCATCCTGCTTGAAGCG-TTTTCGACACTATTTTTTCCAAAAAC
70797520 ATCTGCTCAA
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
126 89 0.83
127 18 0.17
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (127 bp):
TTATTTTTCTACAAACTACTGTAGCAAAAGAGCATCCACATGGGAGCTATTTCCAGAAATTTTAC
TGACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTTTTCCAAAAACGTCTATTCAGAA
Found at i:70798260 original size:21 final size:22
Alignment explanation
Indices: 70798235--70798286 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
70798225 AACCCAAAAA
* *
70798235 AACCCTTAA-CTTAAAAACCCT
1 AACCCTAAACCTTAAAAACCAT
70798256 AACCCTAAACCTTAAAAACCAT
1 AACCCTAAACCTTAAAAACCAT
70798278 AACCCTAAA
1 AACCCTAAA
70798287 TCAATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (22 bp):
AACCCTAAACCTTAAAAACCAT
Found at i:70798609 original size:27 final size:26
Alignment explanation
Indices: 70798579--70798655 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
70798569 ATAAGTATAA
*
70798579 AATTAGCCGAATTAATCGAATTAA-TAG
1 AATTA-CCGAATTAACCGAATTAACT-G
* *
70798606 AATTACCTGAATTACCCAAATTAACTG
1 AATTACC-GAATTAACCGAATTAACTG
*
70798633 AATTAACCAAATTAACCGAATTA
1 AATT-ACCGAATTAACCGAATTA
70798656 TTTGTATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 35 0.85
28 4 0.10
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (26 bp):
AATTACCGAATTAACCGAATTAACTG
Found at i:70798627 original size:18 final size:18
Alignment explanation
Indices: 70798606--70798655 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
70798596 GAATTAATAG
*
70798606 AATTACCTGAATTACCCA
1 AATTACCTGAATTAACCA
*
70798624 AATTAACTGAATTAACCA
1 AATTACCTGAATTAACCA
70798642 AATTAACC-GAATTA
1 AATT-ACCTGAATTA
70798656 TTTGTATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (18 bp):
AATTACCTGAATTAACCA
Found at i:70798686 original size:6 final size:6
Alignment explanation
Indices: 70798675--70798721 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
70798665 TATTATATGT
*
70798675 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
70798722 ATTAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 28 0.76
7 8 0.22
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:70798762 original size:13 final size:13
Alignment explanation
Indices: 70798746--70798770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70798736 AATTTTTATG
70798746 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
70798759 ATTGGGTTGGGT
1 ATTGGGTTGGGT
70798771 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:70798770 original size:18 final size:18
Alignment explanation
Indices: 70798747--70798784 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
70798737 ATTTTTATGA
70798747 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
70798765 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
70798783 TT
1 TT
70798785 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:70799276 original size:25 final size:25
Alignment explanation
Indices: 70799255--70799311 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
70799245 AGTTGATTTG
70799255 AATATGTGATTAAATAGATGATATT
1 AATATGTGATTAAATAGATGATATT
70799280 AATATGTGATTAAATAGATGATATT
1 AATATGTGATTAAATAGATGATATT
70799305 AATATGT
1 AATATGT
70799312 TTGAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (25 bp):
AATATGTGATTAAATAGATGATATT
Found at i:70799283 original size:13 final size:13
Alignment explanation
Indices: 70799267--70799308 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
70799257 TATGTGATTA
70799267 AATAGATGATATT
1 AATAGATGATATT
*
70799280 AATATG-TGAT-TA
1 AATA-GATGATATT
70799292 AATAGATGATATT
1 AATAGATGATATT
70799305 AATA
1 AATA
70799309 TGTTTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 1 0.04
12 9 0.38
13 13 0.54
14 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (13 bp):
AATAGATGATATT
Found at i:70802145 original size:27 final size:27
Alignment explanation
Indices: 70802058--70802152 Score: 70
Period size: 27 Copynumber: 3.4 Consensus size: 27
70802048 AACTTACGAA
**
70802058 TTGGTACCTAAACTATACTCTTTTTCCCATC
1 TTGGTACCTAAA-T-TA-T-TTTTTCCCAAG
* * *
70802089 TTGGTATCT--ATTTTTTTTGTCTCAAG
1 TTGGTACCTAAATTATTTTT-TCCCAAG
70802115 -TGGTACCTAAATTATTTTTTCCCAAG
1 TTGGTACCTAAATTATTTTTTCCCAAG
*
70802141 TTGGTACTTAAA
1 TTGGTACCTAAA
70802153 CTTTTTAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
25 11 0.22
26 11 0.22
27 19 0.37
28 1 0.02
29 1 0.02
31 8 0.16
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (27 bp):
TTGGTACCTAAATTATTTTTTCCCAAG
Found at i:70802158 original size:26 final size:26
Alignment explanation
Indices: 70802101--70802158 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
70802091 GGTATCTATT
*
70802101 TTTTTTGTCTCAAGTGGTACCTAAA-
1 TTTTTTGTCCCAAGTGGTACCTAAAC
* *
70802126 TTATTTTTTCCCAAGTTGGTACTTAAAC
1 TT-TTTTGTCCCAAG-TGGTACCTAAAC
70802154 TTTTT
1 TTTTT
70802159 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.07
26 10 0.37
27 13 0.48
28 2 0.07
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (26 bp):
TTTTTTGTCCCAAGTGGTACCTAAAC
Found at i:70802328 original size:31 final size:33
Alignment explanation
Indices: 70802293--70802372 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 33
70802283 TATTCATTTT
70802293 CCTTTTTTTCTTTTACATTCTCTCTCT-T-TCG
1 CCTTTTTTTCTTTTACATTCTCTCTCTCTCTCG
70802324 CCTTTTTTTCTTTTACATTCTCTCTCTCTCTCG
1 CCTTTTTTTCTTTTACATTCTCTCTCTCTCTCG
70802357 CCTTTTCTTTTCTTTT
1 CC-TTT-TTTTCTTTT
70802373 CTTCTTTCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
31 27 0.60
32 1 0.02
33 5 0.11
34 3 0.07
35 9 0.20
ACGTcount: A:0.05, C:0.30, G:0.03, T:0.62
Consensus pattern (33 bp):
CCTTTTTTTCTTTTACATTCTCTCTCTCTCTCG
Found at i:70803000 original size:25 final size:25
Alignment explanation
Indices: 70802972--70803021 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
70802962 AAAAAGTAGT
*
70802972 TTAGATACCAATTAAAAAAATTTAA
1 TTAGATACCAATTAAAAAAAATTAA
70802997 TTAGATACCAATTAAAAAAAATTAA
1 TTAGATACCAATTAAAAAAAATTAA
70803022 GTACCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (25 bp):
TTAGATACCAATTAAAAAAAATTAA
Found at i:70808004 original size:21 final size:21
Alignment explanation
Indices: 70807978--70808019 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
70807968 GATACCCAGT
70807978 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
*
70807999 AAAAGGTATCGGTACTTTTTG
1 AAAAGGTATCGATACTTTTTG
70808020 TAATTGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:70810609 original size:16 final size:17
Alignment explanation
Indices: 70810576--70810610 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
70810566 TGAAAATAAG
*
70810576 AAGTTAAATTTAGTTTA
1 AAGTGAAATTTAGTTTA
70810593 AAGTGAAATTT-GTTTA
1 AAGTGAAATTTAGTTTA
70810609 AA
1 AA
70810611 AATATAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
AAGTGAAATTTAGTTTA
Found at i:70818766 original size:14 final size:14
Alignment explanation
Indices: 70818743--70818772 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
70818733 TTGAAAATAT
70818743 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
70818757 GTTGATTTGGATTG
1 GTTGAATTGGATTG
70818771 GT
1 GT
70818773 CTCGATAAAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:70822917 original size:91 final size:91
Alignment explanation
Indices: 70822762--70822942 Score: 344
Period size: 91 Copynumber: 2.0 Consensus size: 91
70822752 TTGTATCAAA
* *
70822762 GTGTTTAATATGTCAGCAAGTTAAAGCTGAACATCAGGTATCTTCGGGGTTATTTCAGCCAATTA
1 GTGTTTAATATGTCAGCAAGTTAAAGCTGAACATCAGGTACCTTCGGGGTTACTTCAGCCAATTA
70822827 CTATACCGGAATGGAAATGGAAAAGG
66 CTATACCGGAATGGAAATGGAAAAGG
70822853 GTGTTTAATATGTCAGCAAGTTAAAGCTGAACATCAGGTACCTTCGGGGTTACTTCAGCCAATTA
1 GTGTTTAATATGTCAGCAAGTTAAAGCTGAACATCAGGTACCTTCGGGGTTACTTCAGCCAATTA
70822918 CTATACCGGAATGGAAATGGAAAAG
66 CTATACCGGAATGGAAATGGAAAAG
70822943 AATCACTATG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (91 bp):
GTGTTTAATATGTCAGCAAGTTAAAGCTGAACATCAGGTACCTTCGGGGTTACTTCAGCCAATTA
CTATACCGGAATGGAAATGGAAAAGG
Found at i:70823737 original size:104 final size:104
Alignment explanation
Indices: 70823557--70823765 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
70823547 ATTGAATTTC
70823557 AAGTCGGTGACAAGGTATTCCTGAAAGTGTCTCCTTGGAAGAAAGTCCTCCAATTCGGTCGAAAG
1 AAGTCGGTGACAAGGTATTCCTGAAAGTGTCTCCTTGGAAGAAAGTCCTCCAATTCGGTCGAAAG
70823622 GGAAAACTGAGTCCAAAATTTATCGGGCCATATGAAATA
66 GGAAAACTGAGTCCAAAATTTATCGGGCCATATGAAATA
70823661 AAGTCGGTGACAAGGTATTCCTGAAAGTGTCTCCTTGGAAGAAAGTCCTCCAATTCGGTCGAAAG
1 AAGTCGGTGACAAGGTATTCCTGAAAGTGTCTCCTTGGAAGAAAGTCCTCCAATTCGGTCGAAAG
*
70823726 GGAAAACTGAGTCCAAGATTTATCGGGCCATATGAAATA
66 GGAAAACTGAGTCCAAAATTTATCGGGCCATATGAAATA
70823765 A
1 A
70823766 TAGAAAGAAT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (104 bp):
AAGTCGGTGACAAGGTATTCCTGAAAGTGTCTCCTTGGAAGAAAGTCCTCCAATTCGGTCGAAAG
GGAAAACTGAGTCCAAAATTTATCGGGCCATATGAAATA
Found at i:70826952 original size:14 final size:14
Alignment explanation
Indices: 70826929--70826958 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
70826919 TTGAAAATAT
70826929 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
70826943 GTTGATTTGGATTG
1 GTTGAATTGGATTG
70826957 GT
1 GT
70826959 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:70839516 original size:16 final size:16
Alignment explanation
Indices: 70839497--70839527 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70839487 CTTCTTCACT
70839497 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
70839513 TACTTACTTACTTAA
1 TACTCACTTACTTAA
70839528 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:70839533 original size:20 final size:20
Alignment explanation
Indices: 70839494--70839533 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
70839484 AAACTTCTTC
* *
70839494 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
70839514 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
70839534 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:70839909 original size:55 final size:53
Alignment explanation
Indices: 70839719--70839973 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
70839709 ACACGGGTAC
* * * * *
70839719 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
70839768 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
70839821 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
70839876 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
70839929 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
70839974 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 47 0.27
54 14 0.08
55 72 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:70839910 original size:108 final size:110
Alignment explanation
Indices: 70839766--70839966 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
70839756 ATCCTTTTGA
* *
70839766 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
70839829 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
70839874 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
70839939 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
70839967 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:70842128 original size:14 final size:14
Alignment explanation
Indices: 70842111--70842166 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
70842101 ACTGAAGACG
70842111 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
*
70842125 AAGACAAAAAGACAAA
1 AAGA-AAAAA-AGAAA
*
70842141 AAGAAAAAGAGAAA
1 AAGAAAAAAAGAAA
*
70842155 AAGAGAAAAAGA
1 AAGAAAAAAAGA
70842167 GAGAAAGAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 18 0.51
15 9 0.26
16 8 0.23
ACGTcount: A:0.79, C:0.04, G:0.18, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:70842141 original size:22 final size:22
Alignment explanation
Indices: 70842111--70842166 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
70842101 ACTGAAGACG
70842111 AAGAAAAAAAGAAAAAGACAAA
1 AAGAAAAAAAGAAAAAGACAAA
* *
70842133 AAGACAAAAAGAAAAAGAGAAA
1 AAGAAAAAAAGAAAAAGACAAA
*
70842155 AAGAGAAAAAGA
1 AAGAAAAAAAGA
70842167 GAGAAAGAGA
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:0.79, C:0.04, G:0.18, T:0.00
Consensus pattern (22 bp):
AAGAAAAAAAGAAAAAGACAAA
Found at i:70842177 original size:8 final size:8
Alignment explanation
Indices: 70842112--70842176 Score: 80
Period size: 8 Copynumber: 8.4 Consensus size: 8
70842102 CTGAAGACGA
*
70842112 AGAAAAAA
1 AGAAAAAG
70842120 AGAAAAAG
1 AGAAAAAG
*
70842128 ACAAAAAG
1 AGAAAAAG
*
70842136 A-CAAAA-
1 AGAAAAAG
70842142 AGAAAAAG
1 AGAAAAAG
70842150 AGAAAAAG
1 AGAAAAAG
70842158 AGAAAAAG
1 AGAAAAAG
*
70842166 AGAGAAAG
1 AGAAAAAG
70842174 AGA
1 AGA
70842177 GGGGGGAGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
6 1 0.02
7 8 0.16
8 41 0.82
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (8 bp):
AGAAAAAG
Found at i:70846247 original size:36 final size:36
Alignment explanation
Indices: 70846187--70846304 Score: 139
Period size: 36 Copynumber: 3.3 Consensus size: 36
70846177 GACACAATGG
* * * **
70846187 AGAAATTGAAGA-ATTGAGACATGAGATTGTTGTACT
1 AGAAATTG-AGATACTGAAACATGAGATTGCTACACT
* *
70846223 AGAAATTGAGATACTGAAATATGAGATTGCTACATT
1 AGAAATTGAGATACTGAAACATGAGATTGCTACACT
**
70846259 AGAAATTGAGATACTGAAACATGAGATTGAAACACT
1 AGAAATTGAGATACTGAAACATGAGATTGCTACACT
70846295 AGAAATTGAG
1 AGAAATTGAG
70846305 TTTGGTTGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
35 3 0.04
36 67 0.96
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (36 bp):
AGAAATTGAGATACTGAAACATGAGATTGCTACACT
Found at i:70848987 original size:16 final size:17
Alignment explanation
Indices: 70848949--70848987 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
70848939 TTTATTATTT
*
70848949 ATAACATATATATAAAT
1 ATAACATATATATAAAC
70848966 AT-ACATATA-ATAAAC
1 ATAACATATATATAAAC
70848981 ATAACAT
1 ATAACAT
70848988 TTATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 7 0.35
16 11 0.55
17 2 0.10
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAACATATATATAAAC
Found at i:70850239 original size:36 final size:35
Alignment explanation
Indices: 70850180--70850261 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 35
70850170 GACACAGTAG
*
70850180 AGAAATTGAAGAACTGAAACATGAGATTGTTGCACA
1 AGAAATTG-AGAACTGAAACATGAGATTGATGCACA
*
70850216 AGAAATTGAGATACT-AAAGCATGAGATTGATGCACT
1 AGAAATTGAGA-ACTGAAA-CATGAGATTGATGCACA
70850252 AGAAATTGAG
1 AGAAATTGAG
70850262 TTTGGTGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 6 0.14
36 36 0.86
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (35 bp):
AGAAATTGAGAACTGAAACATGAGATTGATGCACA
Found at i:70853388 original size:77 final size:76
Alignment explanation
Indices: 70853222--70853428 Score: 200
Period size: 77 Copynumber: 2.7 Consensus size: 76
70853212 TTTTTTTTTC
* * ** * *
70853222 AATTGTCATTTTATCAAAAATTGAATTTGTTTTCAAAAAAAAGGTTGAGCCTTGAGATTGCTGTT
1 AATTGTCATTTTATAAAAAATCGAATTTCCTTTCAAAAAAAAGGTTGAGCCTTAAGATTGCTATT
*
70853287 GAAGTCCTTCT
66 GAAATCCTTCT
* * **
70853298 AATTATCAATTTATAAAAGAATCGAATTTCCTTTCAAAAAATGGGTTGAGCCTTAAGATTG-TCA
1 AATTGTCATTTTATAAAA-AATCGAATTTCCTTTCAAAAAAAAGGTTGAGCCTTAAGATTGCT-A
*
70853362 TTGAAATCCTTTT
64 TTGAAATCCTTCT
* * * * ** * **
70853375 AGTTGTCATTTTATGAAAAATCAAATATGTTTTCTAAAAAAAGGTCAAGCCTTA
1 AATTGTCATTTTATAAAAAATCGAATTTCCTTTCAAAAAAAAGGTTGAGCCTTA
70853429 GTGTCATCGT
Statistics
Matches: 104, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
76 43 0.41
77 61 0.59
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (76 bp):
AATTGTCATTTTATAAAAAATCGAATTTCCTTTCAAAAAAAAGGTTGAGCCTTAAGATTGCTATT
GAAATCCTTCT
Found at i:70858190 original size:77 final size:76
Alignment explanation
Indices: 70858024--70858230 Score: 200
Period size: 77 Copynumber: 2.7 Consensus size: 76
70858014 TTTTTTTTTC
* * ** * *
70858024 AATTGTCATTTTATCAAAAATTGAATTTGTTTTCAAAAAAAAGGTTGAGCCTTGAGATTGCTGTT
1 AATTGTCATTTTATAAAAAATCGAATTTCCTTTCAAAAAAAAGGTTGAGCCTTAAGATTGCTATT
*
70858089 GAAGTCCTTCT
66 GAAATCCTTCT
* * **
70858100 AATTATCAATTTATAAAAGAATCGAATTTCCTTTCAAAAAATGGGTTGAGCCTTAAGATTG-TCA
1 AATTGTCATTTTATAAAA-AATCGAATTTCCTTTCAAAAAAAAGGTTGAGCCTTAAGATTGCT-A
*
70858164 TTGAAATCCTTTT
64 TTGAAATCCTTCT
* * * * ** * **
70858177 AGTTGTCATTTTATGAAAAATCAAATATGTTTTCTAAAAAAAGGTCAAGCCTTA
1 AATTGTCATTTTATAAAAAATCGAATTTCCTTTCAAAAAAAAGGTTGAGCCTTA
70858231 GTGTCATCGT
Statistics
Matches: 104, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
76 43 0.41
77 61 0.59
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (76 bp):
AATTGTCATTTTATAAAAAATCGAATTTCCTTTCAAAAAAAAGGTTGAGCCTTAAGATTGCTATT
GAAATCCTTCT
Found at i:70861128 original size:24 final size:23
Alignment explanation
Indices: 70861101--70861148 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
70861091 TTTTAAAAAA
70861101 TAATATTGCGGCAATTTTTTCTTT
1 TAAT-TTGCGGCAATTTTTTCTTT
* * *
70861125 TAATTTGTGGGAATTTTTTTTTT
1 TAATTTGCGGCAATTTTTTCTTT
70861148 T
1 T
70861149 GCTTGTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.19, C:0.06, G:0.15, T:0.60
Consensus pattern (23 bp):
TAATTTGCGGCAATTTTTTCTTT
Found at i:70861286 original size:16 final size:17
Alignment explanation
Indices: 70861219--70861291 Score: 66
Period size: 16 Copynumber: 4.5 Consensus size: 17
70861209 ATAATCAATT
70861219 AATATTTT-TATATTTA
1 AATATTTTATATATTTA
*
70861235 AA-ATTATT-TA-ATTTG
1 AATATT-TTATATATTTA
* *
70861250 ATTAATTTAATATATTTA
1 AAT-ATTTTATATATTTA
70861268 AATATTTTATATA-TTA
1 AATATTTTATATATTTA
70861284 AATATTTT
1 AATATTTT
70861292 TTAAAAACAC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
15 8 0.17
16 18 0.39
17 14 0.30
18 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (17 bp):
AATATTTTATATATTTA
Found at i:70864703 original size:14 final size:14
Alignment explanation
Indices: 70864684--70864710 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
70864674 AACTTCTAAT
70864684 AATTTTAAATTTTA
1 AATTTTAAATTTTA
70864698 AATTTTAAATTTT
1 AATTTTAAATTTT
70864711 TTATATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTTAAATTTTA
Found at i:70865506 original size:19 final size:19
Alignment explanation
Indices: 70865473--70865518 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
70865463 AATAATTATG
*
70865473 TTTTAATATTTAAAATGT-AA
1 TTTT-ATATTCAAAAT-TAAA
70865493 TTTTATATTCAAAATTAAA
1 TTTTATATTCAAAATTAAA
70865512 TTTTATA
1 TTTTATA
70865519 AATAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 19 0.79
20 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTATATTCAAAATTAAA
Found at i:70866885 original size:20 final size:19
Alignment explanation
Indices: 70866849--70866890 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
70866839 TTTTATGAGC
70866849 TTTTTATAATTTTAAA-TA
1 TTTTTATAATTTTAAATTA
70866867 TTTTTATATATTTTAAAATTA
1 TTTTTATA-ATTTT-AAATTA
70866888 TTT
1 TTT
70866891 GTTAATATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
20 3 0.14
21 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTATAATTTTAAATTA
Found at i:70887111 original size:11 final size:12
Alignment explanation
Indices: 70887080--70887114 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
70887070 GTATGTTTGA
70887080 AAAATTTTTATG
1 AAAATTTTTATG
70887092 AAAATTTTTATG
1 AAAATTTTTATG
70887104 AAAATTTTTAT
1 AAAATTTTTAT
70887115 TATTTACTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (12 bp):
AAAATTTTTATG
Found at i:70887185 original size:15 final size:15
Alignment explanation
Indices: 70887167--70887195 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70887157 ATATTTATAA
70887167 AATTATTATTATTAT
1 AATTATTATTATTAT
70887182 AATTATTATTATTA
1 AATTATTATTATTA
70887196 GATAGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:70888942 original size:8 final size:8
Alignment explanation
Indices: 70888929--70888967 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
70888919 CTAGATCGGC
70888929 AAAAGCCG
1 AAAAGCCG
70888937 AAAAGCCG
1 AAAAGCCG
*
70888945 AAAAGCAG
1 AAAAGCCG
*
70888953 AAATGCCG
1 AAAAGCCG
*
70888961 GAAAGCC
1 AAAAGCC
70888968 ATCATTTTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.49, C:0.23, G:0.26, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:70893069 original size:19 final size:19
Alignment explanation
Indices: 70893045--70893081 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
70893035 GTTATAAATT
*
70893045 TAATTATGTTAAATTATAA
1 TAATTATATTAAATTATAA
*
70893064 TAATTATATTATATTATA
1 TAATTATATTAAATTATA
70893082 TTATGAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TAATTATATTAAATTATAA
Found at i:70894047 original size:11 final size:11
Alignment explanation
Indices: 70894031--70894055 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
70894021 GAATTTAAGG
70894031 TAGAAATTGAA
1 TAGAAATTGAA
70894042 TAGAAATTGAA
1 TAGAAATTGAA
70894053 TAG
1 TAG
70894056 GAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
TAGAAATTGAA
Found at i:70894857 original size:70 final size:64
Alignment explanation
Indices: 70894807--70894928 Score: 183
Period size: 64 Copynumber: 1.9 Consensus size: 64
70894797 AATTATGAAT
70894807 TATGTGAATATTTGAAA-GTATATTGATTGAAAATTAAAAGTGATTTGAATTGAATGAAGAAAA
1 TATGTGAATATTTGAAATGTATATTGATTGAAAATTAAAAGTGATTTGAATTGAATGAAGAAAA
* * * *
70894870 TATGTGAGTATTTGAAATGTATATTGATTGGAAAGTAATTAGTGATTTGAATTTGAATG
1 TATGTGAATATTTGAAATGTATATTGATTGAAAATTAA-AAGTGATTTGAA-TTGAATG
70894929 GAAAATGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
63 16 0.31
64 18 0.35
65 11 0.21
66 7 0.13
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.39
Consensus pattern (64 bp):
TATGTGAATATTTGAAATGTATATTGATTGAAAATTAAAAGTGATTTGAATTGAATGAAGAAAA
Found at i:70894866 original size:406 final size:406
Alignment explanation
Indices: 70894114--70894926 Score: 1626
Period size: 406 Copynumber: 2.0 Consensus size: 406
70894104 AAATTATCTT
70894114 AATTTTTCGTAGCTAATATCGCACTCGAGGCATCCACGAAGAAAGGAAAAGAAAAAATGGACGAG
1 AATTTTTCGTAGCTAATATCGCACTCGAGGCATCCACGAAGAAAGGAAAAGAAAAAATGGACGAG
70894179 GAGTAGACACGAGAATCATGGTTTGTATTACTATAATTCAAATCTATTTATTATTAATTTTTATA
66 GAGTAGACACGAGAATCATGGTTTGTATTACTATAATTCAAATCTATTTATTATTAATTTTTATA
70894244 TTTTAATTAAAATGCATGGTAAGTAAAATTAGGTAAGCAATTGAAATGATAATATTGATTTGAAT
131 TTTTAATTAAAATGCATGGTAAGTAAAATTAGGTAAGCAATTGAAATGATAATATTGATTTGAAT
70894309 GAAATTGATTCAAAAATGTTTATGGCTATTGAAATTGAATGTGAACAACTTGGAAATTAAAGTGA
196 GAAATTGATTCAAAAATGTTTATGGCTATTGAAATTGAATGTGAACAACTTGGAAATTAAAGTGA
70894374 TTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTATATTGATTGAAAATTAAA
261 TTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTATATTGATTGAAAATTAAA
70894439 AGTGATTTGAATTGAATGAAGAAAATATGTGAGTATTTGAAATGTATATTGATTGGAAAGTAATT
326 AGTGATTTGAATTGAATGAAGAAAATATGTGAGTATTTGAAATGTATATTGATTGGAAAGTAATT
70894504 AGTGATTTGAATTTGA
391 AGTGATTTGAATTTGA
70894520 AATTTTTCGTAGCTAATATCGCACTCGAGGCATCCACGAAGAAAGGAAAAGAAAAAATGGACGAG
1 AATTTTTCGTAGCTAATATCGCACTCGAGGCATCCACGAAGAAAGGAAAAGAAAAAATGGACGAG
70894585 GAGTAGACACGAGAATCATGGTTTGTATTACTATAATTCAAATCTATTTATTATTAATTTTTATA
66 GAGTAGACACGAGAATCATGGTTTGTATTACTATAATTCAAATCTATTTATTATTAATTTTTATA
70894650 TTTTAATTAAAATGCATGGTAAGTAAAATTAGGTAAGCAATTGAAATGATAATATTGATTTGAAT
131 TTTTAATTAAAATGCATGGTAAGTAAAATTAGGTAAGCAATTGAAATGATAATATTGATTTGAAT
70894715 GAAATTGATTCAAAAATGTTTATGGCTATTGAAATTGAATGTGAACAACTTGGAAATTAAAGTGA
196 GAAATTGATTCAAAAATGTTTATGGCTATTGAAATTGAATGTGAACAACTTGGAAATTAAAGTGA
70894780 TTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTATATTGATTGAAAATTAAA
261 TTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTATATTGATTGAAAATTAAA
70894845 AGTGATTTGAATTGAATGAAGAAAATATGTGAGTATTTGAAATGTATATTGATTGGAAAGTAATT
326 AGTGATTTGAATTGAATGAAGAAAATATGTGAGTATTTGAAATGTATATTGATTGGAAAGTAATT
70894910 AGTGATTTGAATTTGA
391 AGTGATTTGAATTTGA
70894926 A
1 A
70894927 TGGAAAATGA
Statistics
Matches: 407, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
406 407 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (406 bp):
AATTTTTCGTAGCTAATATCGCACTCGAGGCATCCACGAAGAAAGGAAAAGAAAAAATGGACGAG
GAGTAGACACGAGAATCATGGTTTGTATTACTATAATTCAAATCTATTTATTATTAATTTTTATA
TTTTAATTAAAATGCATGGTAAGTAAAATTAGGTAAGCAATTGAAATGATAATATTGATTTGAAT
GAAATTGATTCAAAAATGTTTATGGCTATTGAAATTGAATGTGAACAACTTGGAAATTAAAGTGA
TTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTATATTGATTGAAAATTAAA
AGTGATTTGAATTGAATGAAGAAAATATGTGAGTATTTGAAATGTATATTGATTGGAAAGTAATT
AGTGATTTGAATTTGA
Found at i:70895309 original size:21 final size:21
Alignment explanation
Indices: 70895261--70895316 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
70895251 AGGCACTTTA
* *
70895261 TGTGTCCTATCAGACACCTCG
1 TGTGTCGTATCAGGCACCTCG
70895282 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
70895303 TGTGTCGTTTCAGG
1 TGTGTCGTATCAGG
70895317 AATTTATGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.32
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:70901005 original size:13 final size:13
Alignment explanation
Indices: 70900989--70901013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70900979 AATAAAAATA
70900989 AAAATTAAATAAC
1 AAAATTAAATAAC
70901002 AAAATTAAATAA
1 AAAATTAAATAA
70901014 AACAAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATTAAATAAC
Found at i:70911514 original size:44 final size:44
Alignment explanation
Indices: 70911465--70911553 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
70911455 CCGGTAAGTC
* *
70911465 ACCTTTTGTTGATTAAACTATTTTATATAAAATAATCTTATGAA
1 ACCTTTTCTTGATTAAACTATTTCATATAAAATAATCTTATGAA
*
70911509 ACCTTTTCTTGATTAAACTATTTCATATAAAATTATCTTATGAA
1 ACCTTTTCTTGATTAAACTATTTCATATAAAATAATCTTATGAA
70911553 A
1 A
70911554 ACGCTAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (44 bp):
ACCTTTTCTTGATTAAACTATTTCATATAAAATAATCTTATGAA
Found at i:70912963 original size:18 final size:18
Alignment explanation
Indices: 70912942--70912976 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70912932 TAATATTATA
70912942 AAATAAAATAATTATTTC
1 AAATAAAATAATTATTTC
* *
70912960 AAATATAATTATTATTT
1 AAATAAAATAATTATTT
70912977 TTATATGTAA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAAAATAATTATTTC
Found at i:70913266 original size:13 final size:13
Alignment explanation
Indices: 70913248--70913276 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
70913238 ACGATATATT
70913248 TATTAATTAAAAA
1 TATTAATTAAAAA
70913261 TATTAATTAAAAA
1 TATTAATTAAAAA
70913274 TAT
1 TAT
70913277 AAAAAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:70917637 original size:20 final size:19
Alignment explanation
Indices: 70917603--70917640 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
70917593 TTAATATATT
*
70917603 TATTTTATTTTACCACACG
1 TATTTCATTTTACCACACG
70917622 TATTTCATTATTACCACAC
1 TATTTCATT-TTACCACAC
70917641 ACTTATCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.45
Consensus pattern (19 bp):
TATTTCATTTTACCACACG
Found at i:70918296 original size:11 final size:11
Alignment explanation
Indices: 70918280--70918304 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
70918270 AAAACCATAA
70918280 ATAAATCAATC
1 ATAAATCAATC
70918291 ATAAATCAATC
1 ATAAATCAATC
70918302 ATA
1 ATA
70918305 GCATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAATCAATC
Found at i:70920549 original size:27 final size:26
Alignment explanation
Indices: 70920532--70920591 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
70920522 TATTTTTTAA
70920532 CTTTTTTTTC-TC-TCTTTTCTTTTTT
1 CTTTTTTTTCTTCTTCTTTT-TTTTTT
70920557 CTTTTTTTTCTTCTTCTTTTTTTTTT
1 CTTTTTTTTCTTCTTCTTTTTTTTTT
*
70920583 GTTTTTTTT
1 CTTTTTTTT
70920592 GCTTTTTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 10 0.31
26 16 0.50
27 6 0.19
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (26 bp):
CTTTTTTTTCTTCTTCTTTTTTTTTT
Found at i:70920554 original size:16 final size:16
Alignment explanation
Indices: 70920535--70920568 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
70920525 TTTTTAACTT
70920535 TTTTTTCTCTCTTTTC
1 TTTTTTCTCTCTTTTC
* *
70920551 TTTTTTCTTTTTTTTC
1 TTTTTTCTCTCTTTTC
70920567 TT
1 TT
70920569 CTTCTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCTCTCTTTTC
Found at i:70920554 original size:25 final size:27
Alignment explanation
Indices: 70920526--70920581 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
70920516 ATTTTTTATT
70920526 TTTTAACTTTTTTTTC-TC-TCTTTTC
1 TTTTAACTTTTTTTTCTTCTTCTTTTC
** *
70920551 TTTTTTCTTTTTTTTCTTCTTCTTTTT
1 TTTTAACTTTTTTTTCTTCTTCTTTTC
70920578 TTTT
1 TTTT
70920582 TGTTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 14 0.54
26 2 0.08
27 10 0.38
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTTAACTTTTTTTTCTTCTTCTTTTC
Found at i:70920558 original size:7 final size:7
Alignment explanation
Indices: 70920509--70920599 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
70920499 AATCATCAAA
70920509 CTTTTTT
1 CTTTTTT
*
70920516 ATTTTTT
1 CTTTTTT
*
70920523 ATTTTTT
1 CTTTTTT
***
70920530 AACTTTT
1 CTTTTTT
*
70920537 -TTTTCT
1 CTTTTTT
*
70920543 CTCTTTT
1 CTTTTTT
70920550 CTTTTTT
1 CTTTTTT
70920557 CTTTTTT
1 CTTTTTT
70920564 -TTCTTCTT
1 CTT-TT-TT
70920572 CTTTTTT
1 CTTTTTT
70920579 -TTTTGTT
1 CTTTT-TT
70920586 -TTTTTT
1 CTTTTTT
70920592 GCTTTTTT
1 -CTTTTTT
70920600 GTCTTTTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
6 11 0.16
7 45 0.66
8 10 0.15
9 2 0.03
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.81
Consensus pattern (7 bp):
CTTTTTT
Found at i:70920561 original size:22 final size:21
Alignment explanation
Indices: 70920533--70920582 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
70920523 ATTTTTTAAC
*
70920533 TTTTTTTTCTCTCTT-TTCTT
1 TTTTTTTTTTCTCTTCTTCTT
*
70920553 TTTTCTTTTTTTTCTTCTTCTT
1 TTTT-TTTTTTCTCTTCTTCTT
70920575 TTTTTTTT
1 TTTTTTTT
70920583 GTTTTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 13 0.50
22 9 0.35
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTTTTCTCTTCTTCTT
Found at i:70920587 original size:9 final size:9
Alignment explanation
Indices: 70920551--70920609 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
70920541 CTCTCTTTTC
*
70920551 TTTTTTCTT
1 TTTTTTGTT
*
70920560 TTTTTTCTT
1 TTTTTTGTT
* *
70920569 CTTCTT-TT
1 TTTTTTGTT
70920577 TTTTTTGTT
1 TTTTTTGTT
*
70920586 TTTTTTG-C
1 TTTTTTGTT
70920594 TTTTTTGTCT
1 TTTTTTGT-T
70920604 TTTTTT
1 TTTTTT
70920610 TTGTGGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
8 13 0.32
9 22 0.54
10 6 0.15
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:70920587 original size:25 final size:27
Alignment explanation
Indices: 70920533--70920608 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 27
70920523 ATTTTTTAAC
*
70920533 TTTTTTTTCTCTCTTTTCTTTTTTCTT
1 TTTTTTTTCTCTCTTTTCTTTTTTCGT
70920560 TTTTTTCTTCT-TCTTTT-TTTTTT-GT
1 TTTTTT-TTCTCTCTTTTCTTTTTTCGT
* *
70920585 TTTTTTTGCT-TTTTTGTCTTTTTT
1 TTTTTTTTCTCTCTTT-TCTTTTTT
70920609 TTTGTGGAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 7 0.16
25 8 0.19
26 12 0.28
27 12 0.28
28 4 0.09
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (27 bp):
TTTTTTTTCTCTCTTTTCTTTTTTCGT
Found at i:70921279 original size:18 final size:18
Alignment explanation
Indices: 70921256--70921293 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
70921246 GGATACTCCC
70921256 CGTGATCAATGATGACAG
1 CGTGATCAATGATGACAG
70921274 CGTGATCAATGATGACAG
1 CGTGATCAATGATGACAG
70921292 CG
1 CG
70921294 GTCACGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (18 bp):
CGTGATCAATGATGACAG
Found at i:70931231 original size:96 final size:96
Alignment explanation
Indices: 70931019--70931242 Score: 241
Period size: 96 Copynumber: 2.3 Consensus size: 96
70931009 ACATCACCTC
* * * * * * * *
70931019 GTGGATAAACCATTGGTCATTACAGATAAACTACCAATGATGAAATTATTGGTGGATGAACCATC
1 GTGGATGAACCACTGGTCGTTGCAGATAAACTACCAACGATAAAAATATTGGTGGATGAACCACC
**
70931084 CATCGATGTAGATAAAAGCTATTAGCAAATT
66 CATCGATAAAGATAAAAGCTATTAGCAAATT
** ** * * *
70931115 GTGGATGAATTACTAATCGTTGCAGATGAATTACTAACGATAAAAATATTGGTGGATGAACCACC
1 GTGGATGAACCACTGGTCGTTGCAGATAAACTACCAACGATAAAAATATTGGTGGATGAACCACC
* * * * *
70931180 CATTGGTAAAGATAAAAGCTGTTAGTACATT
66 CATCGATAAAGATAAAAGCTATTAGCAAATT
*
70931211 GTGGATGAACCACTGGTCGTTGTAGATAAACT
1 GTGGATGAACCACTGGTCGTTGCAGATAAACT
70931243 GTAGATTGAA
Statistics
Matches: 99, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
96 99 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (96 bp):
GTGGATGAACCACTGGTCGTTGCAGATAAACTACCAACGATAAAAATATTGGTGGATGAACCACC
CATCGATAAAGATAAAAGCTATTAGCAAATT
Found at i:70931268 original size:49 final size:49
Alignment explanation
Indices: 70931213--70931341 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
70931203 AGTACATTGT
* * * *
70931213 GGATGAACCACTGGTCGTTGTAGATAAACTGTAGATTGAAATACGTTGC
1 GGATGAACCACTGGTCATTGTAGATAAACTGCAGACTAAAATACGTTGC
* * * ** *
70931262 GGATGAAACACTGGTCATTATAGATAAACAT-CCGACTAAAATGTGTTGT
1 GGATGAACCACTGGTCATTGTAGATAAAC-TGCAGACTAAAATACGTTGC
*
70931311 GGATGAACCACTGGTCATTGCAGATAAACTG
1 GGATGAACCACTGGTCATTGTAGATAAACTG
70931342 ATGACTCTTC
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.02
49 63 0.97
50 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (49 bp):
GGATGAACCACTGGTCATTGTAGATAAACTGCAGACTAAAATACGTTGC
Found at i:70931432 original size:33 final size:34
Alignment explanation
Indices: 70931390--70931470 Score: 112
Period size: 33 Copynumber: 2.4 Consensus size: 34
70931380 ATGCAACATG
*
70931390 ACATGCTTATAAC-AGATCAATACGGTAGCAA-AA
1 ACATGCTTATAACAAG-TCAATACAGTAGCAATAA
*
70931423 ACATGCTTATAACAAGTCAATACAGTAGCAATTA
1 ACATGCTTATAACAAGTCAATACAGTAGCAATAA
*
70931457 TCATGCTTATAACA
1 ACATGCTTATAACA
70931471 TAACAACAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.63
34 16 0.37
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (34 bp):
ACATGCTTATAACAAGTCAATACAGTAGCAATAA
Found at i:70936435 original size:105 final size:105
Alignment explanation
Indices: 70936253--70936552 Score: 395
Period size: 105 Copynumber: 2.9 Consensus size: 105
70936243 TCCTCATTGA
* * * * * **
70936253 AATACAATACCTACATTTCACAAATCGGTA-TGAGAAATGCCATACCTATGTTTCTTAACTCAGT
1 AATACCATACCTACATTTCACAACTCGGTATTGA-TAATACCATACCTACGTTTCAAAACTCAGT
*
70936317 ATGGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
65 ATGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
* * *
70936358 AATACCATACCTACATTTCATAACTCGGTATTGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCGGTATTGATAATACCATACCTACGTTTCAAAACTCAGTA
* **
70936423 TAGATGATACCATACCTACGTTTCACAACTTGGTATGGTT
66 TGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
** * * * *
70936463 AATACCATACCTATGTTTCACAACTCAGTATAGATGATACCATACCTACGTTTCAAAACTCAATA
1 AATACCATACCTACATTTCACAACTCGGTATTGATAATACCATACCTACGTTTCAAAACTCAGTA
*
70936528 TGGATGATACCATACCTATGTTTCA
66 TGGATGATACCATACCTACGTTTCA
70936553 TACTTTGTCA
Statistics
Matches: 170, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
105 168 0.99
106 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (105 bp):
AATACCATACCTACATTTCACAACTCGGTATTGATAATACCATACCTACGTTTCAAAACTCAGTA
TGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
Found at i:70936567 original size:35 final size:35
Alignment explanation
Indices: 70936253--70936552 Score: 350
Period size: 35 Copynumber: 8.6 Consensus size: 35
70936243 TCCTCATTGA
* * * *
70936253 AATACAATACCTACATTTCACAAATCGGTATGAGA-
1 AATACCATACCTACGTTTCACAACTCAGTATG-GAT
* * **
70936288 AATGCCATACCTATGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
70936323 AATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * * *
70936358 AATACCATACCTACATTTCATAACTCGGTATTGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
70936393 AATACCATACCTACGTTTCACAACTCAGTATAGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* ** *
70936428 GATACCATACCTACGTTTCACAACTTGGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
70936463 AATACCATACCTATGTTTCACAACTCAGTATAGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
70936498 GATACCATACCTACGTTTCAAAACTCAATATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
70936533 GATACCATACCTATGTTTCA
1 AATACCATACCTACGTTTCA
70936553 TACTTTGTCA
Statistics
Matches: 225, Mismatches: 39, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
34 2 0.01
35 223 0.99
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:70942422 original size:61 final size:61
Alignment explanation
Indices: 70942357--70942493 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 61
70942347 CAGTGTTAAC
* * *
70942357 TGGGCCTTAGCCCATATCAATATTAATTTGGGCCATAG-CCTCTTAC-AGTATC-AGAGTATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
** *
70942418 TGGGCC-TAGCCCATATCGGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
70942478 TGGGCCTT-GCCCATAT
1 TGGGCCTTAGCCCATAT
70942494 TAACATAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
60 47 0.71
61 17 0.26
62 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (61 bp):
TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:70943774 original size:330 final size:330
Alignment explanation
Indices: 70943173--70943833 Score: 1288
Period size: 330 Copynumber: 2.0 Consensus size: 330
70943163 CACAAATGCC
70943173 GGCTTTTCGGCTTTTGCCGATCTAGTCTATGAGTGGGTGTCGTTTACACACCTGTTTCTTGACGA
1 GGCTTTTCGGCTTTTGCCGATCTAGTCTATGAGTGGGTGTCGTTTACACACCTGTTTCTTGACGA
*
70943238 AACGTTGACGAGTTCCACACACGAGTTGCCTACAATCACTTACTAACACGTTAAACTATGAATCC
66 AACATTGACGAGTTCCACACACGAGTTGCCTACAATCACTTACTAACACGTTAAACTATGAATCC
70943303 ATAACAACTTAACACATCAAACCCTTACCATATTTGGCCCTTAACACCTTAGGCACTAAAGTTCT
131 ATAACAACTTAACACATCAAACCCTTACCATATTTGGCCCTTAACACCTTAGGCACTAAAGTTCT
70943368 TACCTTTTCCGGAAAAATAGAATAGATCTAATTCTGGTCGTTCCAAATATCCAAGCCCTCGATTA
196 TACCTTTTCCGGAAAAATAGAATAGATCTAATTCTGGTCGTTCCAAATATCCAAGCCCTCGATTA
70943433 GTAGCCTTTAATCCAAACTAGAGCAAAACAAATCAAATAACACCACTAAACCCTTTTAGTTTAGT
261 GTAGCCTTTAATCCAAACTAGAGCAAAACAAATCAAATAACACCACTAAACCCTTTTAGTTTAGT
70943498 CGACA
326 CGACA
70943503 GGCTTTTCGGCTTTTGCCGATCTAGTCTATGAGTGGGTGTCGTTTACACACCTGTTT-TTCGACG
1 GGCTTTTCGGCTTTTGCCGATCTAGTCTATGAGTGGGTGTCGTTTACACACCTGTTTCTT-GACG
*
70943567 AAACATTGACGAGTTCCACACACGAGTTGCCTACAATCAGTTACTAACACGTTAAACTATGAATC
65 AAACATTGACGAGTTCCACACACGAGTTGCCTACAATCACTTACTAACACGTTAAACTATGAATC
70943632 CATAACAACTTAACACATCAAACCCTTACCATATTTGGCCCTTAACACCTTAGGCACTAAAGTTC
130 CATAACAACTTAACACATCAAACCCTTACCATATTTGGCCCTTAACACCTTAGGCACTAAAGTTC
70943697 TTACCTTTTCCGGAAAAATAGAATAGATCTAATTCTGGTCGTTCCAAATATCCAAGCCCTCGATT
195 TTACCTTTTCCGGAAAAATAGAATAGATCTAATTCTGGTCGTTCCAAATATCCAAGCCCTCGATT
70943762 AGTAGCCTTTAATCCAAACTAGAGCAAAACAAATCAAATAACACCACTAAACCCTTTTAGTTTAG
260 AGTAGCCTTTAATCCAAACTAGAGCAAAACAAATCAAATAACACCACTAAACCCTTTTAGTTTAG
70943827 TCGACA
325 TCGACA
70943833 G
1 G
70943834 ACACCCTTTG
Statistics
Matches: 328, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
329 2 0.01
330 326 0.99
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (330 bp):
GGCTTTTCGGCTTTTGCCGATCTAGTCTATGAGTGGGTGTCGTTTACACACCTGTTTCTTGACGA
AACATTGACGAGTTCCACACACGAGTTGCCTACAATCACTTACTAACACGTTAAACTATGAATCC
ATAACAACTTAACACATCAAACCCTTACCATATTTGGCCCTTAACACCTTAGGCACTAAAGTTCT
TACCTTTTCCGGAAAAATAGAATAGATCTAATTCTGGTCGTTCCAAATATCCAAGCCCTCGATTA
GTAGCCTTTAATCCAAACTAGAGCAAAACAAATCAAATAACACCACTAAACCCTTTTAGTTTAGT
CGACA
Found at i:70945268 original size:15 final size:15
Alignment explanation
Indices: 70945231--70945259 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70945221 TTTCCCTATC
70945231 TAATAATAATAATTA
1 TAATAATAATAATTA
70945246 TAATAATAATAATT
1 TAATAATAATAATT
70945260 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:70949505 original size:29 final size:29
Alignment explanation
Indices: 70949461--70949541 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
70949451 GAAGAGGTGG
* *
70949461 AGAACTTGTTCGTTGAGAGTTCGCGATGA
1 AGAACTTGTTCATTGAGAGTTCGCGACGA
*
70949490 AGAACTTGTTCATTGAGAGTTCGCTACGA
1 AGAACTTGTTCATTGAGAGTTCGCGACGA
*
70949519 AGAACTTGTTCATTGAGAATTCG
1 AGAACTTGTTCATTGAGAGTTCG
70949542 TGTCAAGATG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (29 bp):
AGAACTTGTTCATTGAGAGTTCGCGACGA
Found at i:70956991 original size:39 final size:40
Alignment explanation
Indices: 70956896--70957157 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
70956886 TTGAATGATG
*
70956896 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
70956934 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
70956975 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
70957014 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
70957053 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
70957092 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
70957131 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
70957158 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:70965910 original size:40 final size:40
Alignment explanation
Indices: 70965821--70966084 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
70965811 TTGAATGATG
* *
70965821 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
70965860 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
70965900 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
70965939 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
70965979 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
70966019 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
70966060 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
70966085 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:70966102 original size:120 final size:118
Alignment explanation
Indices: 70965821--70966117 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
70965811 TTGAATGATG
* *
70965821 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
70965881 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
70965939 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
70966004 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
70966060 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
70966118 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:70967466 original size:26 final size:25
Alignment explanation
Indices: 70967437--70967500 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
70967427 ATTTTCTCAA
* *
70967437 AAATTTAAAATTATTAATGATTTAAT
1 AAATTTAAAATT-TTAATAATTAAAT
*
70967463 AAATTGAAAATTTTAATAATTAAAT
1 AAATTTAAAATTTTAATAATTAAAT
*
70967488 AAAATTAAAATTT
1 AAATTTAAAATTT
70967501 AGGAGAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 22 0.67
26 11 0.33
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
AAATTTAAAATTTTAATAATTAAAT
Found at i:70968072 original size:17 final size:18
Alignment explanation
Indices: 70968045--70968078 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
70968035 AATAAAATAT
70968045 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
70968063 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
70968079 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:70969530 original size:9 final size:8
Alignment explanation
Indices: 70969502--70969578 Score: 54
Period size: 7 Copynumber: 9.6 Consensus size: 8
70969492 AAATAGTGTA
70969502 TATATTAT
1 TATATTAT
70969510 T-TATATAT
1 TATAT-TAT
*
70969518 TAT-TCAT
1 TATATTAT
70969525 TATATTATT
1 TATATTA-T
70969534 TATATTAT
1 TATATTAT
70969542 TATA-TAT
1 TATATTAT
*
70969549 TTTATTTAT
1 TATA-TTAT
* *
70969558 AAATTTTAT
1 -TATATTAT
70969567 TATA-TAT
1 TATATTAT
70969574 TATAT
1 TATAT
70969579 ATTTTACTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
7 21 0.40
8 15 0.28
9 16 0.30
10 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:70969539 original size:21 final size:21
Alignment explanation
Indices: 70969500--70969594 Score: 86
Period size: 23 Copynumber: 4.3 Consensus size: 21
70969490 AAAAATAGTG
70969500 TATATATTATTTATA-TATTA
1 TATATATTATTTATATTATTA
70969520 TTCATTATATTATTTATATTATTA
1 -T-A-TATATTATTTATATTATTA
*
70969544 TATATTTTATTTATAAATT-TTA
1 TATATATTATTTAT--ATTATTA
* * *
70969566 TTATATATTATATATTTTACTA
1 -TATATATTATTTATATTATTA
70969588 TATATAT
1 TATATAT
70969595 CATTCCTTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
21 21 0.34
22 7 0.11
23 29 0.47
24 5 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATATTATTTATATTATTA
Found at i:70969542 original size:12 final size:12
Alignment explanation
Indices: 70969500--70969582 Score: 63
Period size: 12 Copynumber: 7.1 Consensus size: 12
70969490 AAAAATAGTG
70969500 TATA-TATTATT
1 TATATTATTATT
70969511 TATA-TATTATT
1 TATATTATTATT
*
70969522 CAT-TATATTATT
1 TATAT-TATTATT
70969534 TATATTATTA--
1 TATATTATTATT
70969544 TATATT-TTATT
1 TATATTATTATT
70969555 TATAAATT-TTATT
1 TAT--ATTATTATT
70969568 ATATATTATATATT
1 -TATATTAT-TATT
70969582 T
1 T
70969583 TACTATATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
9 3 0.05
10 6 0.10
11 16 0.27
12 17 0.28
13 11 0.18
14 7 0.12
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATTATTATT
Found at i:70969546 original size:42 final size:39
Alignment explanation
Indices: 70969500--70969590 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 39
70969490 AAAAATAGTG
*
70969500 TATATATTATTTATATATTATTCATTATATTATT-TATATTAT
1 TATATATTATTTATAAATT-TT-ATTATA-TATTATATATT-T
70969542 TATATATTTTATTTATAAATTTTATTATATATTATATATTT
1 TATATA--TTATTTATAAATTTTATTATATATTATATATTT
70969583 TACTATAT
1 TA-TATAT
70969591 ATATCATTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
40 1 0.02
41 7 0.16
42 22 0.50
43 2 0.05
44 12 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (39 bp):
TATATATTATTTATAAATTTTATTATATATTATATATTT
Found at i:70969573 original size:44 final size:44
Alignment explanation
Indices: 70969500--70969594 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
70969490 AAAAATAGTG
* *
70969500 TATATATTATTTATATATTATTCATTATATTATTTATATTATTA
1 TATATATTATTTATATATTATTCATTATATTATATATATTACTA
* * *
70969544 TATATTTTATTTATAAATT-TT-ATTATATATTATATATTTTACTA
1 TATATATTATTTATATATTATTCA-T-TATATTATATATATTACTA
70969588 TATATAT
1 TATATAT
70969595 CATTCCTTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
42 1 0.02
43 3 0.07
44 39 0.91
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (44 bp):
TATATATTATTTATATATTATTCATTATATTATATATATTACTA
Found at i:70981610 original size:44 final size:44
Alignment explanation
Indices: 70981554--70982135 Score: 743
Period size: 44 Copynumber: 13.2 Consensus size: 44
70981544 GTAGATCACC
* * * *
70981554 GATAGCAGATTTGACGTCTCTGTATTGTCAGAAAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
70981598 GATAATAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
70981642 GATGACAGATTTGGCGTCTCTGTATTGTCAGAAAGCAAATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
70981686 GATAATAGACTTGGCGTCTCTGTATTGAAAGAGAACAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
70981730 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATTGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* ** *
70981774 GATGACAGATTTGGCCCCTCTGTATTGACAGAGAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
70981818 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * ** * *
70981862 GATAACATATTTGGCATCTCTGTATTGTTAGAAAGCAAATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * * *
70981906 GATGACAGATTTGGCATCTCTGTATTGTCAAAGAGCAGATCGAT
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
70981950 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * * *
70981994 GATGACAGATTTGGCGTCTTTGTATTGTCATAGAGTAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
70982038 GATAACAGATTTGACGTCTCTGTATTGACAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
70982082 GATAGCAGATTTGGTGTCTCTGTATTAACAGAGAGCAGATC-AGA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA-A
70982126 GATAACAGAT
1 GATAACAGAT
70982136 CTGACATTTG
Statistics
Matches: 466, Mismatches: 71, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
43 1 0.00
44 465 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (44 bp):
GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
Found at i:70983864 original size:12 final size:12
Alignment explanation
Indices: 70983822--70983904 Score: 54
Period size: 12 Copynumber: 7.1 Consensus size: 12
70983812 AAAAATAGTG
70983822 TATA-TATTATT
1 TATATTATTATT
70983833 TATA-TATTATT
1 TATATTATTATT
*
70983844 CAT-TATATTATT
1 TATAT-TATTATT
70983856 TATATTATTA--
1 TATATTATTATT
*
70983866 TACATT-TTATT
1 TATATTATTATT
70983877 TATAAATT-TTATT
1 TAT--ATTATTATT
70983890 ATATATTATATATT
1 -TATATTAT-TATT
70983904 T
1 T
70983905 TACTATATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
9 3 0.05
10 5 0.09
11 15 0.26
12 17 0.29
13 11 0.19
14 7 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTATTATT
Found at i:70983880 original size:21 final size:23
Alignment explanation
Indices: 70983824--70983876 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
70983814 AAATAGTGTA
*
70983824 TATATTATTTATATATTATTCAT
1 TATATTATTTATATATTATACAT
70983847 TATATTATTTATATTATTATACAT
1 TATATTATTTATA-TATTATACAT
*
70983871 TTTATT
1 TATATT
70983877 TATAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TATATTATTTATATATTATACAT
Found at i:71015568 original size:12 final size:14
Alignment explanation
Indices: 71015524--71015569 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
71015514 ATTAATAAAA
* *
71015524 TTCTCTTTAAGTTT
1 TTCTCTTGAAGATT
*
71015538 TTCTCTTGAAGAAT
1 TTCTCTTGAAGATT
71015552 TTCTCTTG-AG-TT
1 TTCTCTTGAAGATT
71015564 TTCTCT
1 TTCTCT
71015570 GAGAATAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 7 0.25
13 2 0.07
14 19 0.68
ACGTcount: A:0.15, C:0.17, G:0.11, T:0.57
Consensus pattern (14 bp):
TTCTCTTGAAGATT
Found at i:71018163 original size:19 final size:16
Alignment explanation
Indices: 71018125--71018157 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
71018115 GCATCATCAG
71018125 TTTTAGGCAAAAATAA
1 TTTTAGGCAAAAATAA
71018141 TTTTAGGCAAAAATAA
1 TTTTAGGCAAAAATAA
71018157 T
1 T
71018158 ATTTTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (16 bp):
TTTTAGGCAAAAATAA
Found at i:71020344 original size:62 final size:62
Alignment explanation
Indices: 71020212--71020548 Score: 196
Period size: 62 Copynumber: 5.4 Consensus size: 62
71020202 CAACCCATTG
* * * ** * **
71020212 TCTCAAATTCGAAGTCAGTGAGTTCCACAGCCTAGACACATACCCTTGTGTTAGCCCATGTG
1 TCTCAGATCCGAAGTCAGTGAGTTACATGGCCTAGACACATACCCTTGTGTTAGCCCGTGCA
* * * *
71020274 TCTCAGATCCGAAGCCAGTGAGTTACATGGCCTAGACACATGCCCGTGTATTAGCCCGTGCA
1 TCTCAGATCCGAAGTCAGTGAGTTACATGGCCTAGACACATACCCTTGTGTTAGCCCGTGCA
* * * * * * *
71020336 TTTTAGATCC-AGAGTCTGTAAGTTACATGGCCTGGACACACACCCTTGTGTTAGCCCGTGTAA
1 TCTCAGATCCGA-AGTCAGTGAGTTACATGGCCTAGACACATACCCTTGTGTTAGCCCGTG-CA
* * * ** * * * **
71020399 TC-CAAATCCAAATTTTGTGAGTTACATGGCCT-GA-ACACACGCCTGTGTGTCAGCTCGTGTG
1 TCTCAGATCCGAAGTCAGTGAGTTACATGGCCTAGACACATAC-CCT-TGTGTTAGCCCGTGCA
* * * * * ** * * * * ** **
71020460 TTTTAGATCTGAATTCAGAGAGTTACACAGCCTGGACACACACTCGTGTGTTAGCCTATGTT
1 TCTCAGATCCGAAGTCAGTGAGTTACATGGCCTAGACACATACCCTTGTGTTAGCCCGTGCA
* *
71020522 TCTTAGAACCGAAGTCAGTGAGTTACA
1 TCTCAGATCCGAAGTCAGTGAGTTACA
71020549 CAGCTTGGAC
Statistics
Matches: 212, Mismatches: 55, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
60 6 0.03
61 7 0.03
62 187 0.88
63 6 0.03
64 6 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (62 bp):
TCTCAGATCCGAAGTCAGTGAGTTACATGGCCTAGACACATACCCTTGTGTTAGCCCGTGCA
Found at i:71020543 original size:124 final size:124
Alignment explanation
Indices: 71020224--71020548 Score: 309
Period size: 124 Copynumber: 2.6 Consensus size: 124
71020214 TCAAATTCGA
* * * * * * *
71020224 AGTCAGTGAGTTCCACAGCCTAGACACATACCCTTGTGTTAGCCCATGTGTCTCAGATCCGAAGC
1 AGTCAGAGAGTTACACAGCCTGGACACACACCCTTGTGTTAGCCCATGTATCTCAGAACCGAAGT
* *
71020289 CAGTGAGTTACATGGCCTAGACACATGCCCGTGTATTAGCCCGTGCATTTTAGATCCAG
66 CAGTGAGTTACATGGCCTAGACACACGCCCGTGTATCAGCCCGTGCATTTTAGATCCAG
* ** * *
71020348 AGTCTGTA-AGTTACATGGCCTGGACACACACCCTTGTGTTAGCCCGTGTAATC-CA-AATCCAA
1 AGTCAG-AGAGTTACACAGCCTGGACACACACCCTTGTGTTAGCCCATGT-ATCTCAGAA-CCGA
* ** * * * ** *
71020410 ATTTTGTGAGTTACATGGCCT-GAACACACGCCTGTGTGTCAGCTCGTGTGTTTTAGAT-CTG
63 AGTCAGTGAGTTACATGGCCTAG-ACACACGCCCGTGTATCAGCCCGTGCATTTTAGATCCAG
* * * * * *
71020471 AATTCAGAGAGTTACACAGCCTGGACACACACTCGTGTGTTAGCCTATGTTTCTTAGAACCGAAG
1 -AGTCAGAGAGTTACACAGCCTGGACACACACCCTTGTGTTAGCCCATGTATCTCAGAACCGAAG
71020536 TCAGTGAGTTACA
65 TCAGTGAGTTACA
71020549 CAGCTTGGAC
Statistics
Matches: 156, Mismatches: 37, Indels: 16
0.75 0.18 0.08
Matches are distributed among these distances:
123 7 0.04
124 145 0.93
125 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (124 bp):
AGTCAGAGAGTTACACAGCCTGGACACACACCCTTGTGTTAGCCCATGTATCTCAGAACCGAAGT
CAGTGAGTTACATGGCCTAGACACACGCCCGTGTATCAGCCCGTGCATTTTAGATCCAG
Done.