Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007911.1 Hibiscus syriacus cultivar Beakdansim tig00110307_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: 1972160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:325 original size:3 final size:3
Alignment explanation
Indices: 317--409 Score: 186
Period size: 3 Copynumber: 31.0 Consensus size: 3
307 TGAGTGGTTT
317 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
365 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
410 GAGGAGGAGG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:414 original size:3 final size:3
Alignment explanation
Indices: 408--466 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
398 AAGAAGAAGA
408 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
456 AGG AGG AGG AG
1 AGG AGG AGG AG
467 AGAAGAAGAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:2503 original size:15 final size:17
Alignment explanation
Indices: 2473--2510 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
2463 GGCGGTACGA
2473 TTTAGTTTCATATCG-AT
1 TTTA-TTTCATATCGAAT
2490 TTTATTTC-TATCGAAT
1 TTTATTTCATATCGAAT
2506 TTTAT
1 TTTAT
2511 ATTTACGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 11 0.55
17 4 0.20
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.58
Consensus pattern (17 bp):
TTTATTTCATATCGAAT
Found at i:3561 original size:20 final size:20
Alignment explanation
Indices: 3536--3608 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
3526 GCAGCCTTCG
3536 TGCATCGATGCATAACAGGA
1 TGCATCGATGCATAACAGGA
* **
3556 TGCATCGATGCAAAACCTTGA
1 TGCATCGATGCATAA-CAGGA
3577 TGCATCGATGCATAGA-AGGA
1 TGCATCGATGCATA-ACAGGA
3597 TGCATCGATGCA
1 TGCATCGATGCA
3609 CTAATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 28 0.62
21 16 0.36
22 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (20 bp):
TGCATCGATGCATAACAGGA
Found at i:3855 original size:34 final size:29
Alignment explanation
Indices: 3787--3846 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
3777 AAACTTTGAA
*
3787 TAAATTCAATTAATTCCAAAAACATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
*
3816 TAAATTCAATTCAAGTCCAAATACCATTTTG
1 TAAATTCAATT-AAGTCCAAA-AACATTTTG
3847 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 8 0.30
31 8 0.30
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.37
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:5113 original size:19 final size:20
Alignment explanation
Indices: 5070--5117 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
5060 TCTAAATCCT
*
5070 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
5090 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
5109 TTTTCAAAA
1 TTTTCAAAA
5118 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:5802 original size:23 final size:23
Alignment explanation
Indices: 5772--5825 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
5762 CGATAACCGA
5772 AACGGTTTGTAAATAGGGGTCGG
1 AACGGTTTGTAAATAGGGGTCGG
5795 AACGGTTTGTAAATAGGGGTCGG
1 AACGGTTTGTAAATAGGGGTCGG
*
5818 AATGGTTT
1 AACGGTTT
5826 ATGAGTTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.07, G:0.37, T:0.30
Consensus pattern (23 bp):
AACGGTTTGTAAATAGGGGTCGG
Found at i:6059 original size:34 final size:32
Alignment explanation
Indices: 5997--6066 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
5987 ACCTTACAAC
* *
5997 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
6029 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
6063 TCCC
1 TCCC
6067 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:6467 original size:21 final size:20
Alignment explanation
Indices: 6423--6496 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
6413 GCAGCCTTTG
*
6423 TGCATAGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
**
6443 TGCATCGATGCACAACCTTGA
1 TGCATCGATGCACAA-CAGGA
6464 TGCATCGATGCACATA-AGGA
1 TGCATCGATGCACA-ACAGGA
*
6484 TGCATTGATGCAC
1 TGCATCGATGCAC
6497 TAATTGCATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 28 0.61
21 17 0.37
22 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:6542 original size:20 final size:19
Alignment explanation
Indices: 6517--6573 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 19
6507 CGGTGTTTGA
6517 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCA-G
*
6537 GTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCAC---TGCAG
6559 GTGCATGGATGCACT
1 GTGCATGGATGCACT
6574 TTGACACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 1 0.03
20 13 0.41
22 14 0.44
23 4 0.12
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (19 bp):
GTGCATGGATGCACTGCAG
Found at i:6564 original size:22 final size:23
Alignment explanation
Indices: 6531--6573 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6521 ATGGATGCAC
6531 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
6554 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
6574 TTGACACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:6685 original size:29 final size:31
Alignment explanation
Indices: 6653--6712 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
6643 AAACTTTGAA
*
6653 TAAATTAAATT-AATTCCAAA-AACATTTTG
1 TAAATTAAATTCAAGTCCAAACAACATTTTG
* *
6682 TAAATTCAATTCAAGTCCAAACACCATTTTG
1 TAAATTAAATTCAAGTCCAAACAACATTTTG
6713 CCTTAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 10 0.38
30 8 0.31
31 8 0.31
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.35
Consensus pattern (31 bp):
TAAATTAAATTCAAGTCCAAACAACATTTTG
Found at i:7781 original size:7 final size:7
Alignment explanation
Indices: 7769--7793 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7759 TTAGAAAAAA
7769 AAAACTC
1 AAAACTC
7776 AAAACTC
1 AAAACTC
7783 AAAACTC
1 AAAACTC
7790 AAAA
1 AAAA
7794 GAAAACTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAACTC
Found at i:9378 original size:31 final size:32
Alignment explanation
Indices: 9338--9400 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
9328 TTTTTATTCG
*
9338 AATTCCTTAAATTATTTCATCATAACGTTCTA
1 AATTCCTTAAATTATTTCATCATAACATTCTA
*
9370 AATT-CTTAAATTATTTCATCCTAACATTCTA
1 AATTCCTTAAATTATTTCATCATAACATTCTA
9401 CATTATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (32 bp):
AATTCCTTAAATTATTTCATCATAACATTCTA
Found at i:9546 original size:23 final size:22
Alignment explanation
Indices: 9520--9567 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
9510 ATTTTATATA
* *
9520 TAAATTATATATTATAAATTTTT
1 TAAATT-TAAATTATAAATGTTT
9543 TAAAATTTAAATTATAAATGTTT
1 T-AAATTTAAATTATAAATGTTT
9566 TA
1 TA
9568 TGTGATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 1 0.05
23 16 0.73
24 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAAATTTAAATTATAAATGTTT
Found at i:10810 original size:24 final size:24
Alignment explanation
Indices: 10782--10876 Score: 75
Period size: 24 Copynumber: 4.0 Consensus size: 24
10772 CATTTAAATG
*
10782 ATAAACGAACACAAATGAATGAAC
1 ATAAACGAACACAAATAAATGAAC
** **
10806 ATAAACGAACGGATGTAAATGAAC
1 ATAAACGAACACAAATAAATGAAC
* *
10830 ATAAAGGAACAC-AATAAACGAAC
1 ATAAACGAACACAAATAAATGAAC
* * * * *
10853 GTTAACTAACACAAACAAACGAAC
1 ATAAACGAACACAAATAAATGAAC
10877 TGTTGAGAAA
Statistics
Matches: 54, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 16 0.30
24 38 0.70
ACGTcount: A:0.56, C:0.18, G:0.14, T:0.13
Consensus pattern (24 bp):
ATAAACGAACACAAATAAATGAAC
Found at i:10971 original size:17 final size:18
Alignment explanation
Indices: 10937--10973 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
10927 TTTAAGATTT
10937 TATATTCGATTCAAAATTA
1 TATATTCGATTC-AAATTA
10956 TATATTCGATTC-AATTA
1 TATATTCGATTCAAATTA
10973 T
1 T
10974 TCAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATTCGATTCAAATTA
Found at i:11275 original size:18 final size:18
Alignment explanation
Indices: 11249--11314 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
11239 AAGCAAAATG
*
11249 GGTACCGATACCATGACA
1 GGTATCGATACCATGACA
11267 GGTATCGATACCATGACA
1 GGTATCGATACCATGACA
11285 GGTATCGATACCATGACA
1 GGTATCGATACCATGACA
11303 GGTATCGATACC
1 GGTATCGATACC
11315 TATTTACATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (18 bp):
GGTATCGATACCATGACA
Found at i:19402 original size:14 final size:13
Alignment explanation
Indices: 19374--19400 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19364 TATAATGGGG
19374 AGTAATTTTTCAA
1 AGTAATTTTTCAA
19387 AGTAATTTTTCAA
1 AGTAATTTTTCAA
19400 A
1 A
19401 AGACAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
AGTAATTTTTCAA
Found at i:19509 original size:13 final size:13
Alignment explanation
Indices: 19491--19517 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19481 AAATGTTTAA
19491 TGAATTTTAAGAT
1 TGAATTTTAAGAT
19504 TGAATTTTAAGAT
1 TGAATTTTAAGAT
19517 T
1 T
19518 TTATATTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TGAATTTTAAGAT
Found at i:19553 original size:17 final size:18
Alignment explanation
Indices: 19519--19555 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
19509 TTTAAGATTT
19519 TATATTCGATTCAAAATTA
1 TATATTCGATTC-AAATTA
19538 TATATTCGATTC-AATTA
1 TATATTCGATTCAAATTA
19555 T
1 T
19556 TCGAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATTCGATTCAAATTA
Found at i:20906 original size:176 final size:177
Alignment explanation
Indices: 20602--20975 Score: 653
Period size: 176 Copynumber: 2.1 Consensus size: 177
20592 CAATAAATGA
*
20602 ACATAAACGAACATAAATGAATTTTAGGATTATATTTTATTTAATTGTTTTGATCTTTTTTTATT
1 ACATAAATGAACATAAATGAATTTTAGGATTATATTTTATTTAATTGTTTTGATCTTTTTTTATT
* * * *
20667 TGTATTTAAAATTAATTGAGTTTTAAAATATTTATGGGTATCAGATTAAATTTTATTGGGCTTTA
66 TGAATTTAAAATTAATTGAATTGTAAAATATTTATGGGTATCAGATTAAAATTTATTGGGCTTTA
20732 ATATTTTAAATGGGTCTAGAGAGATTGGTCTAAACATAAATGAACGC
131 ATATTTTAAATGGGTCTAGAGAGATTGGTCTAAACATAAATGAACGC
20779 ACATAAATGAACATAAATGAATTTTAGGATTATATTTTATTTAATTGTTTTGATC-TTTTTTATT
1 ACATAAATGAACATAAATGAATTTTAGGATTATATTTTATTTAATTGTTTTGATCTTTTTTTATT
*
20843 TGAATTTAAAATTAATTGAATTGTAAAATATTTATGGGTATCATATTAAAATTTATTGGGCTTTA
66 TGAATTTAAAATTAATTGAATTGTAAAATATTTATGGGTATCAGATTAAAATTTATTGGGCTTTA
*
20908 ATATTTTAAATGGGTCTAGAGAGATTGGTCTACACATAAATGAACGC
131 ATATTTTAAATGGGTCTAGAGAGATTGGTCTAAACATAAATGAACGC
*
20955 ATATAAACT-AACATAAATGAA
1 ACATAAA-TGAACATAAATGAA
20976 CATAAACAAA
Statistics
Matches: 188, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
176 133 0.71
177 55 0.29
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (177 bp):
ACATAAATGAACATAAATGAATTTTAGGATTATATTTTATTTAATTGTTTTGATCTTTTTTTATT
TGAATTTAAAATTAATTGAATTGTAAAATATTTATGGGTATCAGATTAAAATTTATTGGGCTTTA
ATATTTTAAATGGGTCTAGAGAGATTGGTCTAAACATAAATGAACGC
Found at i:20973 original size:24 final size:24
Alignment explanation
Indices: 20941--21055 Score: 126
Period size: 24 Copynumber: 4.8 Consensus size: 24
20931 ATTGGTCTAC
* *
20941 ACATAAATGAACGCATATAAACT-A
1 ACATAAATGAACGAACATAAA-TGA
* * *
20965 ACATAAATGAAC-ATAAACAAACGA
1 ACATAAATGAACGA-ACATAAATGA
**
20989 ACATAAACAAACGAACATAAATGA
1 ACATAAATGAACGAACATAAATGA
*
21013 ACATAAATGAACGAACGTAAATGA
1 ACATAAATGAACGAACATAAATGA
21037 ACATAAATGAACGAACATA
1 ACATAAATGAACGAACATA
21056 GTACCGAACA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
24 74 0.99
25 1 0.01
ACGTcount: A:0.58, C:0.16, G:0.10, T:0.16
Consensus pattern (24 bp):
ACATAAATGAACGAACATAAATGA
Found at i:20992 original size:14 final size:14
Alignment explanation
Indices: 20973--21009 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
20963 TAACATAAAT
20973 GAACATAAACAAAC
1 GAACATAAACAAAC
20987 GAACATAAACAAAC
1 GAACATAAACAAAC
21001 GAACATAAA
1 GAACATAAA
21010 TGAACATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.65, C:0.19, G:0.08, T:0.08
Consensus pattern (14 bp):
GAACATAAACAAAC
Found at i:21014 original size:10 final size:10
Alignment explanation
Indices: 21001--21048 Score: 60
Period size: 10 Copynumber: 4.4 Consensus size: 10
20991 ATAAACAAAC
21001 GAACATAAAT
1 GAACATAAAT
21011 GAACATAAAT
1 GAACATAAAT
21021 GAACGAACGTAAAT
1 GAAC--A--TAAAT
21035 GAACATAAAT
1 GAACATAAAT
21045 GAAC
1 GAAC
21049 GAACATAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 23 0.68
12 2 0.06
14 9 0.26
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (10 bp):
GAACATAAAT
Found at i:21014 original size:38 final size:38
Alignment explanation
Indices: 20959--21033 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
20949 GAACGCATAT
*
20959 AAACTAACATAAATGAACATAAACAAACGAACATAAAC
1 AAACGAACATAAATGAACATAAACAAACGAACATAAAC
** *
20997 AAACGAACATAAATGAACATAAATGAACGAACGTAAA
1 AAACGAACATAAATGAACATAAACAAACGAACATAAA
21034 TGAACATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.61, C:0.16, G:0.09, T:0.13
Consensus pattern (38 bp):
AAACGAACATAAATGAACATAAACAAACGAACATAAAC
Found at i:21028 original size:14 final size:13
Alignment explanation
Indices: 20973--21055 Score: 61
Period size: 14 Copynumber: 6.5 Consensus size: 13
20963 TAACATAAAT
*
20973 GAACATAAACAAAC
1 GAACATAAA-TAAC
*
20987 GAACATAAACAAAC
1 GAACATAAA-TAAC
21001 GAACATAAAT---
1 GAACATAAATAAC
21011 GAACATAAATGAAC
1 GAACATAAAT-AAC
*
21025 GAACGTAAAT---
1 GAACATAAATAAC
21035 GAACATAAATGAAC
1 GAACATAAAT-AAC
21049 GAACATA
1 GAACATA
21056 GTACCGAACA
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
10 19 0.33
14 39 0.67
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.13
Consensus pattern (13 bp):
GAACATAAATAAC
Found at i:26906 original size:11 final size:11
Alignment explanation
Indices: 26886--26920 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
26876 TCTTTTTGAA
*
26886 TTCTTTTTCTT
1 TTCTTCTTCTT
*
26897 TTTTTCTTCTT
1 TTCTTCTTCTT
26908 TTCTTCTTCTT
1 TTCTTCTTCTT
26919 TT
1 TT
26921 GTCTTTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTCTTCTTCTT
Found at i:26908 original size:28 final size:28
Alignment explanation
Indices: 26873--26939 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
26863 CTTGGCTTTG
26873 CTTTCTTTTTGAATTCTTTT-TCTTTTT
1 CTTTCTTTTTGAATTCTTTTGTCTTTTT
* **
26900 TTCTTCTTTTCT-TCTTCTTTTGTCTTTTT
1 CT-TTCTTTT-TGAATTCTTTTGTCTTTTT
26929 CTTTCTTTTTG
1 CTTTCTTTTTG
26940 CACTCCAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
27 2 0.06
28 21 0.66
29 9 0.28
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.75
Consensus pattern (28 bp):
CTTTCTTTTTGAATTCTTTTGTCTTTTT
Found at i:26914 original size:19 final size:19
Alignment explanation
Indices: 26887--26938 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
26877 CTTTTTGAAT
*
26887 TCTTTTTCTTT-TTTTCT-
1 TCTTTTTCTTTCTTTTTTG
26904 TC-TTTTC-TTCTTCTTTTG
1 TCTTTTTCTTTCTT-TTTTG
26922 TCTTTTTCTTTCTTTTT
1 TCTTTTTCTTTCTTTTT
26939 GCACTCCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.07
16 7 0.24
17 5 0.17
18 2 0.07
19 8 0.28
20 5 0.17
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (19 bp):
TCTTTTTCTTTCTTTTTTG
Found at i:26927 original size:7 final size:6
Alignment explanation
Indices: 26886--26932 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
26876 TCTTTTTGAA
* *
26886 TTCTTT TTCTTT TT-TTC TTC-TT TTCTTC TTCTTT TGTCTTT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT T-TCTTT TTCTTT
26933 CTTTTTGCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 8 0.24
6 20 0.59
7 6 0.18
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:32580 original size:20 final size:21
Alignment explanation
Indices: 32557--32597 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
32547 AAATCTAATT
32557 GGTATAAATACT-ACCTCAAG
1 GGTATAAATACTCACCTCAAG
*
32577 GGTATCAATACTCACCTCAAG
1 GGTATAAATACTCACCTCAAG
32598 TATCGATACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
GGTATAAATACTCACCTCAAG
Found at i:32606 original size:19 final size:19
Alignment explanation
Indices: 32557--32606 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
32547 AAATCTAATT
*
32557 GGTATAAATACTACCTCAA
1 GGTATCAATACTACCTCAA
32576 GGGTATCAATACTCACCTCAA
1 -GGTATCAATACT-ACCTCAA
*
32597 -GTATCGATAC
1 GGTATCAATAC
32607 CAAAATAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 9 0.33
20 11 0.41
21 7 0.26
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (19 bp):
GGTATCAATACTACCTCAA
Found at i:36396 original size:17 final size:16
Alignment explanation
Indices: 36341--36396 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
36331 ATATTTTAGA
*
36341 AAAATTAAGATATCATT
1 AAAATTAAAATAT-ATT
36358 AAAATTATTAAA-ATATT
1 AAAATTA--AAATATATT
36375 AAAAATTAAAATGATATT
1 -AAAATTAAAAT-ATATT
36393 AAAA
1 AAAA
36397 AAATTAAGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
16 3 0.09
17 14 0.42
18 14 0.42
19 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (16 bp):
AAAATTAAAATATATT
Found at i:43667 original size:26 final size:27
Alignment explanation
Indices: 43611--43683 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 27
43601 AGATAGAAGG
* * *
43611 AAATAACTGAAATACCCTTAAACTATG
1 AAATAACTAAAATACCCCTAAACTATA
* *
43638 AAAT-ACTAAAATACCCCTAAAGTGTA
1 AAATAACTAAAATACCCCTAAACTATA
*
43664 AAATGAATTAAAATATCCCC
1 AAAT-AACTAAAATA-CCCC
43684 AAGCTTTGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
26 21 0.57
27 4 0.11
28 8 0.22
29 4 0.11
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.25
Consensus pattern (27 bp):
AAATAACTAAAATACCCCTAAACTATA
Found at i:44751 original size:32 final size:32
Alignment explanation
Indices: 44710--44851 Score: 117
Period size: 32 Copynumber: 4.4 Consensus size: 32
44700 CCTAAGGTGA
* *
44710 CCTTGGGTAGGCTCTGAGGCCCCAAGGCATTT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGCATTC
* * *
44742 CCTTGGGTAGGCTATAAGGTCCCAAGGTACTT-
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGCA-TTC
* * * * *
44774 TCTTGGGTAGGCTCTTAGGCCCTAAGGTACTC
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGCATTC
* * *
44806 CCTTGGGTAGACT-AACAGGCCCCAAGACATTC
1 CCTTGGGTAGGCTCTA-AGGCCCCAAGGCATTC
* *
44838 CCTTAGGTTGGCTC
1 CCTTGGGTAGGCTC
44852 CTACGCCCAA
Statistics
Matches: 85, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
31 1 0.01
32 82 0.96
33 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (32 bp):
CCTTGGGTAGGCTCTAAGGCCCCAAGGCATTC
Found at i:44830 original size:64 final size:64
Alignment explanation
Indices: 44711--44831 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
44701 CTAAGGTGAC
* * * *
44711 CTTGGGTAGGCTCTGAGGCCCCAAGGCATTTCCTTGGGTAGGCTATAAGGTCCCAAGGTACTTT
1 CTTGGGTAGGCTCTGAGGCCCCAAGGCACTCCCTTGGGTAGACTATAAGGCCCCAAGGTACTTT
* * *
44775 CTTGGGTAGGCTCTTAGGCCCTAAGGTACTCCCTTGGGTAGACTA-ACAGGCCCCAAG
1 CTTGGGTAGGCTCTGAGGCCCCAAGGCACTCCCTTGGGTAGACTATA-AGGCCCCAAG
44832 ACATTCCCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
63 1 0.02
64 48 0.98
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.26
Consensus pattern (64 bp):
CTTGGGTAGGCTCTGAGGCCCCAAGGCACTCCCTTGGGTAGACTATAAGGCCCCAAGGTACTTT
Found at i:50083 original size:22 final size:22
Alignment explanation
Indices: 50055--50098 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
50045 CGGCATGCTT
50055 TAACACTATTGGATACATTCTG
1 TAACACTATTGGATACATTCTG
50077 TAACACTATTGGATACATTCTG
1 TAACACTATTGGATACATTCTG
50099 AATCTCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (22 bp):
TAACACTATTGGATACATTCTG
Found at i:51495 original size:20 final size:20
Alignment explanation
Indices: 51466--51505 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51456 AATAATCACA
*
51466 TAAAACCATAATGTAATATT
1 TAAAAACATAATGTAATATT
*
51486 TAAAAACATAATTTAATATT
1 TAAAAACATAATGTAATATT
51506 ATACTATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (20 bp):
TAAAAACATAATGTAATATT
Found at i:53286 original size:21 final size:21
Alignment explanation
Indices: 53257--53336 Score: 142
Period size: 21 Copynumber: 3.8 Consensus size: 21
53247 GTATAGGGAG
*
53257 TATCAATACTCCTTTAGTGAA
1 TATCGATACTCCTTTAGTGAA
53278 TATCGATACTCCTTTAGTGAA
1 TATCGATACTCCTTTAGTGAA
53299 TATCGATACTCCTTTAGTGAA
1 TATCGATACTCCTTTAGTGAA
53320 TATCGATACTTCCTTTA
1 TATCGATAC-TCCTTTA
53337 ATATTTTTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
21 50 0.88
22 7 0.12
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (21 bp):
TATCGATACTCCTTTAGTGAA
Found at i:61194 original size:15 final size:14
Alignment explanation
Indices: 61166--61203 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
61156 GCAGAGAGAG
61166 AAATAAAGATAAAAT
1 AAATAAA-ATAAAAT
61181 AAAATAAAATAAAAT
1 -AAATAAAATAAAAT
61196 AAATAAAA
1 AAATAAAA
61204 AGATATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 7 0.32
16 7 0.32
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:61201 original size:4 final size:5
Alignment explanation
Indices: 61166--61203 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
61156 GCAGAGAGAG
61166 AAATA AAGATA AAATA AAATA AAATA AAAT- AAATA AAA
1 AAATA AA-ATA AAATA AAATA AAATA AAATA AAATA AAA
61204 AGATATAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.71
6 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:63844 original size:14 final size:14
Alignment explanation
Indices: 63825--63886 Score: 99
Period size: 14 Copynumber: 4.5 Consensus size: 14
63815 CTTTTGATGG
* *
63825 TTATGTGTATATGA
1 TTATGTGGATGTGA
63839 TTATGTGGATGTGA
1 TTATGTGGATGTGA
63853 TTATGTGGATGTGA
1 TTATGTGGATGTGA
63867 TTATGTGGATGTGA
1 TTATGTGGATGTGA
63881 -TATGTG
1 TTATGTG
63887 AATATGTGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
13 6 0.13
14 40 0.87
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (14 bp):
TTATGTGGATGTGA
Found at i:64072 original size:23 final size:23
Alignment explanation
Indices: 64042--64140 Score: 148
Period size: 23 Copynumber: 4.3 Consensus size: 23
64032 GTCAAGGGTT
64042 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
*
64065 CTATGTGGTCCTTCGGGAAAAAAC
1 CTATGTGGTCCTTCGGG-ACAAAC
*
64089 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAC
*
64112 CTATGTGGTCCTTTGGGACAAA-
1 CTATGTGGTCCTTCGGGACAAAC
64134 -TATGTGG
1 CTATGTGG
64141 CACTGCAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.10
23 42 0.59
24 22 0.31
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAC
Found at i:75671 original size:31 final size:30
Alignment explanation
Indices: 75631--75703 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
75621 GAAAAGTTAT
* *
75631 ATTTCGGTCACTTACGCTATTGATTTATTAA
1 ATTTTGGTCACTTACGCTA-TCATTTATTAA
* * * *
75662 ATTTTGGTCACCTATGCTATCATTTGTTAC
1 ATTTTGGTCACTTACGCTATCATTTATTAA
*
75692 ATTTTAGTCACT
1 ATTTTGGTCACT
75704 GAACAGTTAG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.47
Consensus pattern (30 bp):
ATTTTGGTCACTTACGCTATCATTTATTAA
Found at i:75809 original size:30 final size:30
Alignment explanation
Indices: 75775--75833 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
75765 TTTGATCCCA
*
75775 AAACTATAGATGAAATATCAATTTAACTCT
1 AAACTATAGATAAAATATCAATTTAACTCT
* * *
75805 AAACTTTAGATAAAATGTCAATTTGACTC
1 AAACTATAGATAAAATATCAATTTAACTC
75834 ATGAATTCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (30 bp):
AAACTATAGATAAAATATCAATTTAACTCT
Found at i:76164 original size:14 final size:16
Alignment explanation
Indices: 76133--76166 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
76123 CCATAAATTT
76133 TTATAATGTTTTTATG
1 TTATAATGTTTTTATG
76149 TTATAAT-TTTTT-TG
1 TTATAATGTTTTTATG
76163 TTAT
1 TTAT
76167 GCTTATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 5 0.28
16 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (16 bp):
TTATAATGTTTTTATG
Found at i:76191 original size:46 final size:46
Alignment explanation
Indices: 76141--76229 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
76131 TTTTATAATG
* *
76141 TTTTTATGTTATAATTTTTTTGTTATGCTTATAATACTAATTAAAT
1 TTTTTATGTTACAATGTTTTTGTTATGCTTATAATACTAATTAAAT
* * * * *
76187 TTTTTTTGTTACGATGTTTTTGTTATGTTTCTAATATTAATTA
1 TTTTTATGTTACAATGTTTTTGTTATGCTTATAATACTAATTA
76230 TAAATTTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (46 bp):
TTTTTATGTTACAATGTTTTTGTTATGCTTATAATACTAATTAAAT
Found at i:79854 original size:24 final size:24
Alignment explanation
Indices: 79827--79933 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
79817 AAACGGAGAT
*
79827 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
79851 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
79875 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
79899 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
79923 ATCAGAAATCA
1 ATCAGAAATCA
79934 GATAAAATAT
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:79933 original size:48 final size:48
Alignment explanation
Indices: 79827--79935 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
79817 AAACGGAGAT
* * * *
79827 ATCAGAAATCAAAACATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
79875 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
79923 ATCAGAAATCAGA
1 ATCAGAAATCAGA
79936 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.22
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:81078 original size:18 final size:18
Alignment explanation
Indices: 81057--81092 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
81047 CTTCCATCCG
*
81057 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
81075 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
81093 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:83694 original size:24 final size:24
Alignment explanation
Indices: 83667--83773 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
83657 AAACGGAGAT
*
83667 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
83691 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
83715 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
83739 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
83763 ATCAGAAATCA
1 ATCAGAAATCA
83774 GATAAAATAT
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:83773 original size:48 final size:48
Alignment explanation
Indices: 83667--83775 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
83657 AAACGGAGAT
* * * *
83667 ATCAGAAATCAAAACATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
83715 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
83763 ATCAGAAATCAGA
1 ATCAGAAATCAGA
83776 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.22
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:84921 original size:18 final size:18
Alignment explanation
Indices: 84900--84935 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
84890 CTTCCATCCG
*
84900 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
84918 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
84936 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:86276 original size:18 final size:18
Alignment explanation
Indices: 86253--86322 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 18
86243 TCTGGTCAAC
86253 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
86271 GGTCAA-----CGAGTCG
1 GGTCAACGGGTCGGGTCG
* *
86284 GGTAAACGGGTCGGGTTG
1 GGTCAACGGGTCGGGTCG
86302 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
86320 GGT
1 GGT
86323 TGTGACCGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
13 11 0.27
18 30 0.73
ACGTcount: A:0.14, C:0.19, G:0.49, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:86294 original size:31 final size:31
Alignment explanation
Indices: 86257--86317 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
86247 GTCAACGGTC
86257 AACGGGTCGGGTCGGGTCAACGAGTCGGGTA
1 AACGGGTCGGGTCGGGTCAACGAGTCGGGTA
* *
86288 AACGGGTCGGGTTGGGTCAACGGGTCGGGT
1 AACGGGTCGGGTCGGGTCAACGAGTCGGGT
86318 CGGGTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.48, T:0.18
Consensus pattern (31 bp):
AACGGGTCGGGTCGGGTCAACGAGTCGGGTA
Found at i:91328 original size:30 final size:32
Alignment explanation
Indices: 91294--91357 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
91284 TTAATTTTAA
91294 TTTTAATAAAAA-TATAATTAATTTA-TATTT
1 TTTTAATAAAAATTATAATTAATTTAGTATTT
* *
91324 TTTTATTAAAAATTATAATTATTTTAGTATTT
1 TTTTAATAAAAATTATAATTAATTTAGTATTT
91356 TT
1 TT
91358 ATTTGTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 11 0.37
31 12 0.40
32 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (32 bp):
TTTTAATAAAAATTATAATTAATTTAGTATTT
Found at i:91358 original size:30 final size:30
Alignment explanation
Indices: 91294--91360 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
91284 TTAATTTTAA
* *
91294 TTTTAATAAAAATATAATTAATTTATATTT
1 TTTTATTAAAAATATAATTAATTTATATAT
91324 TTTTATTAAAAATTATAATT-ATTT-TAGTAT
1 TTTTATTAAAAA-TATAATTAATTTATA-TAT
91354 TTTTATT
1 TTTTATT
91361 TGTTTAGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 2 0.06
30 24 0.73
31 7 0.21
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTTATTAAAAATATAATTAATTTATATAT
Found at i:92923 original size:22 final size:22
Alignment explanation
Indices: 92896--92939 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
92886 ATTTAGATTT
92896 TTGGTGTCTTTATTTTTAAAGA
1 TTGGTGTCTTTATTTTTAAAGA
92918 TTGGTGTCTTTATTTTTAAAGA
1 TTGGTGTCTTTATTTTTAAAGA
92940 AATATTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.55
Consensus pattern (22 bp):
TTGGTGTCTTTATTTTTAAAGA
Found at i:98139 original size:69 final size:71
Alignment explanation
Indices: 98051--98202 Score: 220
Period size: 70 Copynumber: 2.2 Consensus size: 71
98041 CACTAATTTC
* * * * *
98051 AAAAGTAATTAAACCAAAAAA-TTAGA-GGCAAGACTTAAGTTATTTAACTTTAAAATTGGTAAT
1 AAAAATAATTAAACCAAAAAAGTTAGATGCCAA-AATTAAGTTATTTAACTTTAAAACTGATAAT
98114 GTCTT-A
65 GTCTTAA
*
98120 AAAAATAATTAAACCAAAAAAGTTAGATGCCAAAATTAATTTATTTAACTTTAAAACTGATAATG
1 AAAAATAATTAAACCAAAAAAGTTAGATGCCAAAATTAAGTTATTTAACTTTAAAACTGATAATG
98185 TCTTAA
66 TCTTAA
98191 AAAAATAATTAA
1 AAAAATAATTAA
98203 TTTTTTTTAG
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
69 20 0.27
70 37 0.50
71 17 0.23
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (71 bp):
AAAAATAATTAAACCAAAAAAGTTAGATGCCAAAATTAAGTTATTTAACTTTAAAACTGATAATG
TCTTAA
Found at i:100628 original size:23 final size:22
Alignment explanation
Indices: 100587--100661 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
100577 ATGAAATATC
* * *
100587 AAAAAATTAATAAAC-ATAATT
1 AAAAAAATAAAAAACAATAATA
*
100608 AAAATAATAAAATAACAATAATA
1 AAAAAAATAAAA-AACAATAATA
*
100631 AAAAAAATTAAAAACAATGAA-A
1 AAAAAAATAAAAAACAAT-AATA
*
100653 ACAAAAATA
1 AAAAAAATA
100662 GAATAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
21 9 0.21
22 17 0.40
23 17 0.40
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.20
Consensus pattern (22 bp):
AAAAAAATAAAAAACAATAATA
Found at i:100672 original size:12 final size:12
Alignment explanation
Indices: 100607--100680 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 12
100597 TAAACATAAT
100607 TAAAATAATAAAA
1 TAAAATAA-AAAA
100620 TAACAATAATAAAA
1 TAA-AATAA-AAAA
100634 -AAAATTAAAAACAA
1 TAAAA-T-AAAA-AA
*
100648 TGAAAA-CAAAAA
1 T-AAAATAAAAAA
*
100660 TAGAATAAAAAA
1 TAAAATAAAAAA
100672 TAAAATAAA
1 TAAAATAAA
100681 CATAAGTACA
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
11 3 0.06
12 18 0.36
13 11 0.22
14 14 0.28
16 4 0.08
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.18
Consensus pattern (12 bp):
TAAAATAAAAAA
Found at i:102491 original size:136 final size:135
Alignment explanation
Indices: 102248--102620 Score: 484
Period size: 135 Copynumber: 2.8 Consensus size: 135
102238 GATTGAAATA
* * *
102248 AGGTTGAACAAGTTATTCTCATTATGAACTTGTTCT-A-TCTCATCGAATGAGTTCTTCTCATTA
1 AGGTTGAACAAGCTATTCTCATTATGAACTTCTTCTCACTCT-ATCGGATGAGTTCTTCTCATTA
* *
102311 TGAACTCTCCA-TCGGAAATGTCAATCCCTCAAGCG-GCGCGTCACTGATTTGAAATGCCATGAA
65 TGAACTCTCCATTC-GAAATGTTAATCCCTCAAGCGAG-GCATCACTGATTTGAAATGCCATG-A
**
102374 TCGAGTGAT
127 TCGAACGAT
*
102383 AGGTTGAACAAGCTATTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTAT
1 AGGTTGAACAAGCTATTCTCATTATGAACTTCTTCTCACTCTATCGGATGAGTTCTTCTCATTAT
* * * * *
102448 GAACTATCCATTTGAAAGGTTAATCCCTCAAGCGAGGCATCACTGATTTGAAATGTCGTGATCGA
66 GAACTCTCCATTCGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTTGAAATGCCATGATCGA
102513 ACGAT
131 ACGAT
** * * *
102518 AGGTCAAACAAGCTCTTCTCATTATGAACTTCTTCTCATTCTGTCGGATGAGTTCTTCTCATTAT
1 AGGTTGAACAAGCTATTCTCATTATGAACTTCTTCTCACTCTATCGGATGAGTTCTTCTCATTAT
** * *
102583 GAACTCTTTATTCGAAATGATGATCCCTCAAGCGAGGC
66 GAACTCTCCATTCGAAATGTTAATCCCTCAAGCGAGGC
102621 GTAGTTTGTT
Statistics
Matches: 208, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
135 132 0.63
136 71 0.34
137 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (135 bp):
AGGTTGAACAAGCTATTCTCATTATGAACTTCTTCTCACTCTATCGGATGAGTTCTTCTCATTAT
GAACTCTCCATTCGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTTGAAATGCCATGATCGA
ACGAT
Found at i:102724 original size:39 final size:39
Alignment explanation
Indices: 102646--103208 Score: 815
Period size: 39 Copynumber: 14.5 Consensus size: 39
102636 AAAAACAATA
* * *
102646 TCAAGTGAGAT-AAATCTTCGGTTTCGAGTGAAAATATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* * *
102684 TCAAGTGAGATAAAATATTCTGTTTCGAGTGAAACAATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* * *
102723 TCAAGCGAGATAAAATCTTCTATTTCAAGTGAAACAATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* *
102762 TCAAGTGAGATAAAATCTTCTATTTCGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
*
102801 TCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* *
102840 TCAAGTGAGATGAAATCTTCTGTTTCGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
*
102879 TCAAGGGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
*
102918 TCAAGCGAGATAAAATCTTCTGTTTCAAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* *
102957 TCAAGCGAAATGAAATCTTCTGTTTCGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* * *
102996 TCAAGCGAAATGAAATCTTCTATTTCGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* * *
103035 TCAAGTGAGATGAAATCTTCTGTTTCAAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* *
103074 TCAAGCGAGATGAAATCTTCTGTTTCGTGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* * * *
103113 TCAAGCGAGATAAAATCTTATATTTCAATTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* * *
103152 TCAAGCAAGATGAAATCTTCTGTTTCGAGTGAAACAATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
103191 TCAAGCGAGAT-AAATCTT
1 TCAAGCGAGATAAAATCTT
103209 GTTTTAAAAC
Statistics
Matches: 478, Mismatches: 46, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
38 18 0.04
39 460 0.96
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (39 bp):
TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
Found at i:103328 original size:77 final size:77
Alignment explanation
Indices: 103214--103501 Score: 409
Period size: 77 Copynumber: 3.8 Consensus size: 77
103204 ATCTTGTTTT
* * * * * *
103214 AAAACAATCTTTAGTGAAATGAAATGTATTCTTTCGAGTAAAAATTGTGTCAAGCGATACAAATC
1 AAAACAATCTTGAGTGAAATGAAATATCTTATTTCGAGTAAAAATTGTCTCAAGCGAGACAAATC
*
103279 TTGTTTTAAGAA
66 TTATTTTAAGAA
* ** *
103291 AAAACAATCTTGAGTTAAATGAAATATCTTATTTCGAGT-AAAACGGTCTCAAGCGAGAAAAATC
1 AAAACAATCTTGAGTGAAATGAAATATCTTATTTCGAGTAAAAATTGTCTCAAGCGAGACAAATC
103355 TTATTTTAAG-A
66 TTATTTTAAGAA
* * * *
103366 AAAATAATCTTGAGTGAAATGAAATATCTTATTTCAAGTAAAAAATATCTCAAGCGAGACAAATC
1 AAAACAATCTTGAGTGAAATGAAATATCTTATTTCGAGTAAAAATTGTCTCAAGCGAGACAAATC
103431 TTATTTTAAGAA
66 TTATTTTAAGAA
* *
103443 AAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAATTGTCTCAAGCGAGA
1 AAAACAATCTTGAGTGAAATGAAATATCTTATTTCGAGTAAAAATTGTCTCAAGCGAGA
103502 GAAAATTGTT
Statistics
Matches: 185, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
75 37 0.20
76 60 0.32
77 88 0.48
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.31
Consensus pattern (77 bp):
AAAACAATCTTGAGTGAAATGAAATATCTTATTTCGAGTAAAAATTGTCTCAAGCGAGACAAATC
TTATTTTAAGAA
Found at i:103438 original size:152 final size:151
Alignment explanation
Indices: 103174--103529 Score: 445
Period size: 152 Copynumber: 2.4 Consensus size: 151
103164 AAATCTTCTG
* * * *
103174 TTTCGAGTGAAACAATCTCAAGCGAGATAAATCTTGTTTT----AAAACAATCTTTAGTGAAATG
1 TTTCGAGTAAAACAGTCTCAAGCGAGAAAAATCTT-TTTTAAGAAAAACAATCTTGAGTGAAATG
* * * * * * * *
103235 AAATGTATTCTTTCGAGTAAAAATTGTGTCAAGCGATACAAATCTTGTTTTAAGAAAAAACAATC
65 AAATATATTATTTCAAGTAAAAAATATCTCAAGCGAGACAAATCTTATTTTAAGAAAAAACAATC
*
103300 TTGAGTTAAATGAAATATCTTA
130 TTGAGTGAAATGAAATATCTTA
* *
103322 TTTCGAGTAAAACGGTCTCAAGCGAGAAAAATCTTATTTTAAGAAAAATAATCTTGAGTGAAATG
1 TTTCGAGTAAAACAGTCTCAAGCGAGAAAAATCTT-TTTTAAGAAAAACAATCTTGAGTGAAATG
*
103387 AAATATCTTATTTCAAGTAAAAAATATCTCAAGCGAGACAAATCTTATTTTAAGAAAAAACAATC
65 AAATATATTATTTCAAGTAAAAAATATCTCAAGCGAGACAAATCTTATTTTAAGAAAAAACAATC
* *
103452 TTGAGTGAAATGAAATGTCTTC
130 TTGAGTGAAATGAAATATCTTA
103474 TTTCGAGTAAAA-ATTGTCTCAAGCGAGAGAAAAT-TGTTTTTAAAGAAAAACAATCT
1 TTTCGAGTAAAACA--GTCTCAAGCGAGA-AAAATCT-TTTTT-AAGAAAAACAATCT
103530 CAAGTGAGAT
Statistics
Matches: 178, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
148 35 0.20
152 106 0.60
153 18 0.10
154 19 0.11
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (151 bp):
TTTCGAGTAAAACAGTCTCAAGCGAGAAAAATCTTTTTTAAGAAAAACAATCTTGAGTGAAATGA
AATATATTATTTCAAGTAAAAAATATCTCAAGCGAGACAAATCTTATTTTAAGAAAAAACAATCT
TGAGTGAAATGAAATATCTTA
Found at i:105541 original size:28 final size:28
Alignment explanation
Indices: 105453--105534 Score: 157
Period size: 28 Copynumber: 3.0 Consensus size: 28
105443 TATTTTGTTA
105453 GGGTCGGG-TTTTTTAAGTGTGATATTC
1 GGGTCGGGTTTTTTTAAGTGTGATATTC
105480 GGGTCGGGTTTTTTTAAGTGTGATATTC
1 GGGTCGGGTTTTTTTAAGTGTGATATTC
105508 GGGTCGGGTTTTTTTAAGTGTGATATT
1 GGGTCGGGTTTTTTTAAGTGTGATATT
105535 TGAGTCGAGT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 8 0.15
28 46 0.85
ACGTcount: A:0.15, C:0.06, G:0.33, T:0.46
Consensus pattern (28 bp):
GGGTCGGGTTTTTTTAAGTGTGATATTC
Found at i:106151 original size:18 final size:17
Alignment explanation
Indices: 106114--106160 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
106104 TATGGAATTG
*
106114 GATTCCAATTCCTGACA
1 GATTCCAATTCCTCACA
*
106131 GATTCTAATTCCTTCACA
1 GATTCCAATTCC-TCACA
106149 GATTCCAATTCC
1 GATTCCAATTCC
106161 CTCATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:108706 original size:11 final size:11
Alignment explanation
Indices: 108685--108717 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
108675 CATAATTAAA
108685 AAAATAAAAAAC
1 AAAA-AAAAAAC
108697 AAAAAAAAAAC
1 AAAAAAAAAAC
108708 AAAAAAAAAA
1 AAAAAAAAAA
108718 TAATGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:108741 original size:11 final size:12
Alignment explanation
Indices: 108685--108752 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 12
108675 CATAATTAAA
*
108685 AAAATAAAAAAC
1 AAAATAAAAAAT
*
108697 AAAA-AAAAAAC
1 AAAATAAAAAAT
108708 AAAA-AAAAAAT
1 AAAATAAAAAAT
*
108719 AATGAAAAAAAAAT
1 AA--AATAAAAAAT
*
108733 AGAATAAAAAAT
1 AAAATAAAAAAT
108745 AAAATAAA
1 AAAATAAA
108753 CATAAGTACA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
11 19 0.39
12 20 0.41
13 2 0.04
14 8 0.16
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.10
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:108741 original size:26 final size:25
Alignment explanation
Indices: 108698--108746 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
108688 ATAAAAAACA
108698 AAAAAAAAACAAAAAAAAAATAATG
1 AAAAAAAAACAAAAAAAAAATAATG
* *
108723 AAAAAAAAATAGAATAAAAAATAA
1 AAAAAAAAACA-AAAAAAAAATAA
108747 AATAAACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.10
Consensus pattern (25 bp):
AAAAAAAAACAAAAAAAAAATAATG
Found at i:108870 original size:29 final size:27
Alignment explanation
Indices: 108838--108893 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
108828 AATAAGAAAT
108838 TAATAGTGACCAAAATGCAAAAATTAAAA
1 TAATAGT-ACCAAAAT-CAAAAATTAAAA
* *
108867 TAATAGTAGCTAAATCAAAAATTAAAA
1 TAATAGTACCAAAATCAAAAATTAAAA
108894 AGTAACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.48
28 6 0.24
29 7 0.28
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.23
Consensus pattern (27 bp):
TAATAGTACCAAAATCAAAAATTAAAA
Found at i:113426 original size:3 final size:3
Alignment explanation
Indices: 113418--113447 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
113408 CGTCTTTTAA
113418 TAT TAT TAT ATAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA
113448 ATATAACAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:115236 original size:2 final size:2
Alignment explanation
Indices: 115229--115275 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
115219 CAAATTATTA
115229 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115271 AT AT A
1 AT AT A
115276 GTTGATATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117078 original size:27 final size:29
Alignment explanation
Indices: 117027--117084 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
117017 TGTCTTTTAC
117027 TTTGTAAACATATATAGTATATAA-TATAT
1 TTTGTAAACATATATA-TATATAATTATAT
*
117056 TTTGTAAACATATAT-TATTTAATTATAT
1 TTTGTAAACATATATATATATAATTATAT
117084 T
1 T
117085 ATATATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 6 0.22
28 6 0.22
29 15 0.56
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (29 bp):
TTTGTAAACATATATATATATAATTATAT
Found at i:117280 original size:2 final size:2
Alignment explanation
Indices: 117273--117299 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
117263 ATCAAATTAT
117273 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
117300 TTAGTTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120111 original size:21 final size:21
Alignment explanation
Indices: 120087--120132 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
120077 AAATGATTGA
120087 TGAAGCAAGGAAGTTCCAAGT
1 TGAAGCAAGGAAGTTCCAAGT
120108 TGAAGCAAGGAAGTTCCAAGT
1 TGAAGCAAGGAAGTTCCAAGT
120129 TGAA
1 TGAA
120133 TCTAGGGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (21 bp):
TGAAGCAAGGAAGTTCCAAGT
Found at i:122857 original size:53 final size:53
Alignment explanation
Indices: 122767--122914 Score: 172
Period size: 53 Copynumber: 2.8 Consensus size: 53
122757 GACGGATCCT
* * * *
122767 CTCCCTCTTG-TTCAGGGATTAAGGAACTCGAACAATCTTCTAAAAATGGGTTCG
1 CTCCCTATTGCTTCAGGGAGT-A-GAACTCAAACAATCTTCTAAAAACGGGTTCG
* * ****
122821 CTCTCTATTGCTTCAGGGAGTAGAACTCAAATAATCTTCTGCTTACGGGTTCG
1 CTCCCTATTGCTTCAGGGAGTAGAACTCAAACAATCTTCTAAAAACGGGTTCG
*
122874 CTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTA
1 CTCCCTATTGCTTCAGGGAGTAGAACTCAAACAATCTTCTA
122915 GTGTGATTCT
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 61 0.77
54 9 0.11
55 9 0.11
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (53 bp):
CTCCCTATTGCTTCAGGGAGTAGAACTCAAACAATCTTCTAAAAACGGGTTCG
Found at i:123365 original size:22 final size:21
Alignment explanation
Indices: 123337--123407 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
123327 ACAAATGACC
123337 CGAAAGATTTAATCATCATGCT
1 CGAAAGATTT-ATCATCATGCT
* * *
123359 CGAAAGACTTA-C-TGATGACC
1 CGAAAGATTTATCATCATG-CT
* *
123379 CGAAGGATTTCATTATCATGCT
1 CGAAAGATTT-ATCATCATGCT
123401 CGAAAGA
1 CGAAAGA
123408 CTTACTGACG
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
19 4 0.11
20 10 0.28
21 2 0.06
22 16 0.44
23 4 0.11
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (21 bp):
CGAAAGATTTATCATCATGCT
Found at i:123377 original size:42 final size:42
Alignment explanation
Indices: 123289--123549 Score: 198
Period size: 42 Copynumber: 6.3 Consensus size: 42
123279 AGGTCTTATG
* * * *
123289 GATGACCCGAAGGATTT-ATCATCTTGTTCGAGAA-ACTCACA
1 GATGACCCGAAGGATTTAATCATCATGCTCGA-AAGACTTACT
* *
123330 AATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
* *
123372 GATGACCCGAAGGATTTCATTATCATGCTCGAAAGACTTAC-
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
* ** * * * * * * **
123413 --TGA-CGGATTTGCTTCACT-ACTC-TTC-CGTGAAGGCTTAAA
1 GATGACCCGA-AGGATTTAATCA-TCATGCTCG-AAAGACTTACT
* * * *
123452 AATTACCCGAAGGATTTAATTATCATGCTCGAAAGACTTATT
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
* *
123494 GATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
123536 GATGACCCGAAGGA
1 GATGACCCGAAGGA
123550 CTTATAAATT
Statistics
Matches: 168, Mismatches: 40, Indels: 23
0.73 0.17 0.10
Matches are distributed among these distances:
37 2 0.01
38 13 0.08
39 9 0.05
41 26 0.15
42 116 0.69
43 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (42 bp):
GATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACT
Found at i:123484 original size:22 final size:21
Alignment explanation
Indices: 123459--123526 Score: 50
Period size: 22 Copynumber: 3.2 Consensus size: 21
123449 AAAAATTACC
123459 CGAAGGATTTAATTATCATGCT
1 CGAAGGATTT-ATTATCATGCT
* * * *
123481 CGAAAGACTTATTGAT--GGCC
1 CGAAGGATTTATT-ATCATGCT
*
123501 CGAAGGATTTCATCATCATGCT
1 CGAAGGATTT-ATTATCATGCT
123523 CGAA
1 CGAA
123527 AGACTTACTG
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
20 12 0.36
21 5 0.15
22 16 0.48
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (21 bp):
CGAAGGATTTATTATCATGCT
Found at i:123868 original size:214 final size:214
Alignment explanation
Indices: 123494--123885 Score: 703
Period size: 214 Copynumber: 1.8 Consensus size: 214
123484 AAGACTTATT
* * * *
123494 GATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTATAAAT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAAACTTACTGATGACCCGAAGGACTTATAAAT
*
123559 TGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTAATCTTCTCAAAACATCGTTTTTC
66 TGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTAATCTTCTCAAAACATCATTTTTC
123624 ATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGAATTATCAT
131 ATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGAATTATCAT
123689 CTTTCTCTAAAGGCTTACA
196 CTTTCTCTAAAGGCTTACA
* * *
123708 GATGACCCGAAGGATTTAAGCGTCATGCTCGAAAAACTTATTGATGGCCCGAAGGACTTATAAAT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAAACTTACTGATGACCCGAAGGACTTATAAAT
*
123773 TGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTCAAAACATCATTTTTC
66 TGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTAATCTTCTCAAAACATCATTTTTC
123838 ATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTACGGATGG
131 ATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTACGGATGG
123886 TTTGCTTCAC
Statistics
Matches: 169, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
214 169 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (214 bp):
GATGACCCGAAGGATTTAAGCATCATGCTCGAAAAACTTACTGATGACCCGAAGGACTTATAAAT
TGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTAATCTTCTCAAAACATCATTTTTC
ATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGAATTATCAT
CTTTCTCTAAAGGCTTACA
Found at i:138638 original size:42 final size:42
Alignment explanation
Indices: 138591--138940 Score: 558
Period size: 42 Copynumber: 8.3 Consensus size: 42
138581 CCAAAATTTA
*
138591 TAAATCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
* * *
138633 TAAATCCTTCGGGTAATCAATAAGTCTTCCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
*
138675 TAAATCC-TCTGGGTCATCAGTAAGTCTTCCGAGCATGATGCT
1 TAAATCCTTC-GGGTCATCAGTAAGTCTTTCGAGCATGATGCT
138717 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
*
138759 TAAATCCTTTGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
*
138801 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
*
138843 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
* * * *
138885 TAAATCCTTCGGGCCATCTGTAAGCCTTTCGAGCATGATGAT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
* *
138927 TAAGTCCTCCGGGT
1 TAAATCCTTCGGGT
138941 AATCTAAAGC
Statistics
Matches: 292, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
41 2 0.01
42 288 0.99
43 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCT
Found at i:138990 original size:37 final size:37
Alignment explanation
Indices: 138947--139066 Score: 195
Period size: 37 Copynumber: 3.2 Consensus size: 37
138937 GGGTAATCTA
**
138947 AAGCCTTCACCGAAGAGTGGTGAAGCAAATCCATCAT
1 AAGCCTTCATGGAAGAGTGGTGAAGCAAATCCATCAT
138984 AAGCCTTCATGGAAGAGTGGTGAAGCAAATCCATCAT
1 AAGCCTTCATGGAAGAGTGGTGAAGCAAATCCATCAT
* *
139021 AAGCCTTCATGGAAGAGTAGTGAAGCAGATCCATCAGT
1 AAGCCTTCATGGAAGAGTGGTGAAGCAAATCCATCA-T
139059 AAGCCTTC
1 AAGCCTTC
139067 TGAGCATGAC
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
37 69 0.88
38 9 0.12
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (37 bp):
AAGCCTTCATGGAAGAGTGGTGAAGCAAATCCATCAT
Found at i:139144 original size:37 final size:37
Alignment explanation
Indices: 139093--139203 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
139083 GTCCTCCGGG
* *
139093 CAATCTAAAGCCTTCACCGAAGAGTAGTGAAGCAAAT
1 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
* *
139130 CAATTTTAAGCCTTCACCAAAGAGTAGTGAAACAAAT
1 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
*
139167 CAATCTTAAGCCTTCACAAAAGAGTAGTGAAGCAAAT
1 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
139204 TCAGATCTGA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (37 bp):
CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
Found at i:139177 original size:153 final size:153
Alignment explanation
Indices: 138898--139200 Score: 437
Period size: 153 Copynumber: 2.0 Consensus size: 153
138888 ATCCTTCGGG
* * *
138898 CCATCTGTAAGCCTTTCGAGCATGATGATTAAGTCCTCCGGGTAATCTAAAGCCTTCACCGAAGA
1 CCATCAGTAAGCCTTTCGAGCATGACGATTAAGTCCTCCGGGCAATCTAAAGCCTTCACCGAAGA
* * *** * * *
138963 GTGGTGAAGCAAATCCATCATAAGCCTTCATGGAAGAGTGGTGAAGCAAATCCATCATAAGCCTT
66 GTAGTGAAGCAAATCAATCATAAGCCTTCACCAAAGAGTAGTGAAACAAATCAATCATAAGCCTT
***
139028 CATGGAAGAGTAGTGAAGCAGAT
131 CACAAAAGAGTAGTGAAGCAGAT
139051 CCATCAGTAAGCC-TTCTGAGCATGACGATTAAGTCCTCCGGGCAATCTAAAGCCTTCACCGAAG
1 CCATCAGTAAGCCTTTC-GAGCATGACGATTAAGTCCTCCGGGCAATCTAAAGCCTTCACCGAAG
** *
139115 AGTAGTGAAGCAAATCAATTTTAAGCCTTCACCAAAGAGTAGTGAAACAAATCAATCTTAAGCCT
65 AGTAGTGAAGCAAATCAATCATAAGCCTTCACCAAAGAGTAGTGAAACAAATCAATCATAAGCCT
139180 TCACAAAAGAGTAGTGAAGCA
130 TCACAAAAGAGTAGTGAAGCA
139201 AATTCAGATC
Statistics
Matches: 132, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
152 3 0.02
153 129 0.98
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (153 bp):
CCATCAGTAAGCCTTTCGAGCATGACGATTAAGTCCTCCGGGCAATCTAAAGCCTTCACCGAAGA
GTAGTGAAGCAAATCAATCATAAGCCTTCACCAAAGAGTAGTGAAACAAATCAATCATAAGCCTT
CACAAAAGAGTAGTGAAGCAGAT
Found at i:139410 original size:111 final size:111
Alignment explanation
Indices: 139205--139772 Score: 860
Period size: 111 Copynumber: 5.2 Consensus size: 111
139195 GAAGCAAATT
* * *
139205 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCTCTTTTTCAAGATTTGATATTCCTTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
* * * * * *
139270 AGTGACAGTGGAACAAATCTGCCCCGATTCAATGAATCAGCTTTCC
66 AGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCC
139316 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
* *
139381 AGTGACAGCGGAACAAGTCTACTCTGATTCATTGAATCAGCTTTCC
66 AGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCC
* *
139427 CAGATCTGATGTTCCCTCAGAGGAAGCGGAATAGA--TCTCTCTTTCAAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
* * * *
139490 AGTGACAGTGGAACAAGTTTACTCTGATTCAACGAATCAACTTTTC
66 AGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCC
139536 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCT-TTT-AAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
*
139599 AGTGACAGCGGAACAAGTCTACTATGATTCAATGAATCAACTTTCC
66 AGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCC
* *
139645 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATC-CATCTTTTTCAAGATTTGATATTTCCT
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTC-TCTCTTTCAAGATTTGATATTCCCT
* * *
139709 GAGTGACAGCGGAACAAGTCTAC-CTTGATTTAATGAATCAACATCCC
65 GAGTGACAGCGGAACAAGTCTACTC-TGATTCAATGAATCAACTTTCC
*
139756 CAGATATGATATTCCCT
1 CAGATCTGATATTCCCT
139773 GAGTGATAGC
Statistics
Matches: 421, Mismatches: 30, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
108 1 0.00
109 200 0.48
110 6 0.01
111 214 0.51
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (111 bp):
CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
AGTGACAGCGGAACAAGTCTACTCTGATTCAATGAATCAACTTTCC
Found at i:139936 original size:3 final size:3
Alignment explanation
Indices: 139928--139963 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
139918 CGTCTTTTAA
139928 TAT TAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA
139964 ATATAACAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:146896 original size:32 final size:32
Alignment explanation
Indices: 146860--146952 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 32
146850 CACGTTACTC
*
146860 AAAGTGATGATGTGGCATGTAGCATGTCATAT
1 AAAGTGATGATATGGCATGTAGCATGTCATAT
* * * *
146892 AAAGTAATGATATAGCATGTGGCATGTCGTAT
1 AAAGTGATGATATGGCATGTAGCATGTCATAT
* **
146924 AAAGTGATGATATGACATGTTTCATGTCA
1 AAAGTGATGATATGGCATGTAGCATGTCA
146953 GCAACTGAGC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (32 bp):
AAAGTGATGATATGGCATGTAGCATGTCATAT
Found at i:147924 original size:15 final size:15
Alignment explanation
Indices: 147904--147933 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
147894 ACTGTATAGA
*
147904 TTGTTGCATTGGTTG
1 TTGTTGCAATGGTTG
147919 TTGTTGCAATGGTTG
1 TTGTTGCAATGGTTG
147934 GTGTAGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.33, T:0.50
Consensus pattern (15 bp):
TTGTTGCAATGGTTG
Found at i:148615 original size:54 final size:54
Alignment explanation
Indices: 148552--148891 Score: 416
Period size: 54 Copynumber: 6.3 Consensus size: 54
148542 TTTGGGGTGA
* * * *
148552 ACACGTAGTGTCGATACGATCGTTCATAAACTTATTATGAATTCCGTGGGTTGC
1 ACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCTGTGGGTTGC
* * * * *
148606 ACACTTAGTGCCGATACGGTCATTCATAAACATTTTATAAATTCTATGGGTTGC
1 ACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCTGTGGGTTGC
* * * *
148660 GCACTTAGTGTCGATACGATCGTTCATAAACATATTATAAATTATGTGGGTT-C
1 ACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCTGTGGGTTGC
* ** * * *
148713 AACACTTAGTGTCGATACGGCCGTTCATAAACAAATTATGAGTTCTGTGAGTTGC
1 -ACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCTGTGGGTTGC
* *
148768 ACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGC
1 ACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCTGTGGGTTGC
* *
148822 ACACTTAGTGCCAATAC-AGTCGTTCATAAACATATTATGAATT-TCCTGGGTTGC
1 ACACTTAGTGCCGATACGA-TCGTTCATAAACATATTATGAATTCT-GTGGGTTGC
*
148876 ACACTTAGTGCTGATA
1 ACACTTAGTGCCGATA
148892 GTACACATAG
Statistics
Matches: 247, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.01
54 244 0.99
55 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (54 bp):
ACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCTGTGGGTTGC
Found at i:148753 original size:162 final size:162
Alignment explanation
Indices: 148530--148885 Score: 466
Period size: 162 Copynumber: 2.2 Consensus size: 162
148520 TGTTTCAAAT
* * * * * * **
148530 TATTATAATTTATTTGGGGTGAACACGTAGTGTCGATACGATCGTTCATAAACTTATTATGAATT
1 TATTATAAATTATCTGGGTTCAACACTTAGTGTCGATACGACCGTTCATAAACAAATTATGAATT
* *
148595 CCGTGGGTTGCACACTTAGTGCCGATACGGTCATTCATAAACATTTTATAAATTCTATGGGTTGC
66 CCGTGAGTTGCACACTTAGTGCCGATACGGTCATTCATAAACATATTATAAATTCTATGGGTTGC
* * *
148660 GCACTTAGTGTCGATAC-GATCGTTCATAAACA
131 ACACTTAGTGCCAATACAG-TCGTTCATAAACA
* * *
148692 TATTATAAATTATGTGGGTTCAACACTTAGTGTCGATACGGCCGTTCATAAACAAATTATGAGTT
1 TATTATAAATTATCTGGGTTCAACACTTAGTGTCGATACGACCGTTCATAAACAAATTATGAATT
* * * * *
148757 CTGTGAGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGC
66 CCGTGAGTTGCACACTTAGTGCCGATACGGTCATTCATAAACATATTATAAATTCTATGGGTTGC
148822 ACACTTAGTGCCAATACAGTCGTTCATAAACA
131 ACACTTAGTGCCAATACAGTCGTTCATAAACA
*
148854 TATTATGAATT-TCCTGGGTTGC-ACACTTAGTG
1 TATTATAAATTAT-CTGGGTT-CAACACTTAGTG
148886 CTGATAGTAC
Statistics
Matches: 169, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
161 1 0.01
162 166 0.98
163 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (162 bp):
TATTATAAATTATCTGGGTTCAACACTTAGTGTCGATACGACCGTTCATAAACAAATTATGAATT
CCGTGAGTTGCACACTTAGTGCCGATACGGTCATTCATAAACATATTATAAATTCTATGGGTTGC
ACACTTAGTGCCAATACAGTCGTTCATAAACA
Found at i:155506 original size:18 final size:19
Alignment explanation
Indices: 155479--155520 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
155469 AAAACCAGAA
*
155479 CCCC-AGGGGGTATCGATT
1 CCCCTAGGGGGAATCGATT
*
155497 CCCCTAGGGGGAATCGGTT
1 CCCCTAGGGGGAATCGATT
155516 CCCCT
1 CCCCT
155521 TCAAAGGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.14, C:0.33, G:0.31, T:0.21
Consensus pattern (19 bp):
CCCCTAGGGGGAATCGATT
Found at i:155549 original size:22 final size:23
Alignment explanation
Indices: 155502--155562 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
155492 CGATTCCCCT
155502 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
*
155525 AGGGGGGATCGGTTCCCCTTC-A
1 AGGGGGAATCGGTTCCCCTTCAA
* *
155547 AGGGGGTATCGATTCC
1 AGGGGGAATCGGTTCC
155563 ATCTGCCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCCTTCAA
Found at i:162584 original size:45 final size:45
Alignment explanation
Indices: 162520--163422 Score: 1241
Period size: 45 Copynumber: 20.1 Consensus size: 45
162510 TATAATTTAT
* * *
162520 TTTCATTTATGGAATCCTTTTATGTCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
*
162565 TTTCATTTATGGCATCCTTTCATGTCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * *
162610 TTTCATTTATGGCATCCTTTCATACCGATAATACATCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* *
162655 TTTCATTTATGGCATCCTCTCATGCCGATAATGCACCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* **
162700 TTTCATTTATGGCATCCTTTCATGCCAATAATGCACTATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* *
162745 TTTCATTTATGGCATCATTTCATGCTGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* *
162790 TTTCATTTATGGCATCCTTTCATACCGATAATGCAACGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * *
162835 TTTCATTTATGGAATCCTTTCATGCTGATAATGCAACGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * * **
162880 TTTCATTTATGACATTCTTTCATGCCGATAATACATTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* *
162925 TTTCATTTATGGCATCATTTCATGCCGATAATGCACCGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * * **
162970 TTTCATTTATGGAATCATTTCATGCCGATTATGCACCGTTATATA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * * * **
163015 TTTCATTTATGGAATCATTTCATACTGATAATGCACAATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* **
163060 TTTCATTTATGGCATCCTTTCATGCTGATAATGCATTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
*
163105 TTTCATTTATGGCATCCTTTCATGCCGATAATACACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * * **
163150 TTTCATTTATGGCATCCTTTCATGCTGATTATGCACCATTATATA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * *
163195 TTTCATTTATGGCATCTTTTCATACTGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
** * * *
163240 TTAT-ATTTATGGCATTATATCATGACGATAATGCACTGTTATGCA
1 TT-TCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* *
163285 TTTCATTTATGGCATCATTTCATGCCGATAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* *
163330 TTTCATTTATGGCATCCTTTCATGCCAATAATTCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * *
163375 TTTCATTTATGACATCCTTTCATTCCAATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
163420 TTT
1 TTT
163423 AGTCTTTTAT
Statistics
Matches: 767, Mismatches: 89, Indels: 4
0.89 0.10 0.00
Matches are distributed among these distances:
44 1 0.00
45 765 1.00
46 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
Found at i:166693 original size:54 final size:54
Alignment explanation
Indices: 166627--167018 Score: 493
Period size: 54 Copynumber: 7.2 Consensus size: 54
166617 TTCTTTGGTA
* ** * *
166627 TGCACACGTAGTGCCGATATAGTTGTTCATAAACTTATTATGAATTTCGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
* * *
166681 TGCACACTTAGTGCTGATATGGTCGTTCATAAACATATTAT-AAATTCTGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTC-GTGGGT
* * * *
166735 TGCACACTTAGTGTCGATACGGTCATTCATAAACATATTATAAATTTTGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
* * * *
166789 TGCATATTTAGTGCAGATACGGTCGTTTATAAACATATTATGAA-TTCTGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTC-GTGGGT
* * *
166843 TGCACACTTAGTGCCGATACGATCATTCATAAACATATTATGAATTTCATGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
* * *
166897 TGCATACTTAGTGCCCGATACGGTCGATCATAAACATATTATGAA-TTCTGTGTGT
1 TGCACACTTAGTG-CCGATACGGTCGTTCATAAACATATTATGAATTTC-GTGGGT
** * *
166952 TGCACACTTAGTGTTGATACGATCGTTCATAAACATATTATGAATTACGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
167006 TGCACACTTAGTG
1 TGCACACTTAGTG
167019 TTGATAGTAC
Statistics
Matches: 291, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
53 7 0.02
54 231 0.79
55 53 0.18
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (54 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGGT
Found at i:166971 original size:109 final size:108
Alignment explanation
Indices: 166652--167018 Score: 554
Period size: 108 Copynumber: 3.4 Consensus size: 108
166642 GATATAGTTG
* * *
166652 TTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGCTGATATGGTCGTTCATAAACAT
1 TTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTGCAGATACGGTCGTTCATAAACAT
* *
166717 ATTATAAATTCTGTGGGTTGCACACTTAGTGTCGATACGGTCA
66 ATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACGATCA
* * * * *
166760 TTCATAAACATATTATAAATTTTGTGGGTTGCATATTTAGTGCAGATACGGTCGTTTATAAACAT
1 TTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTGCAGATACGGTCGTTCATAAACAT
*
166825 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGATCA
66 ATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACGATCA
* * * *
166868 TTCATAAACATATTATGAATTTCATGGGTTGCATACTTAGTGCCCGATACGGTCGATCATAAACA
1 TTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTG-CAGATACGGTCGTTCATAAACA
* * *
166933 TATTATGAATTCTGTGTGTTGCACACTTAGTGTTGATACGATCG
65 TATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACGATCA
*
166977 TTCATAAACATATTATGAATTACGTGGGTTGCACACTTAGTG
1 TTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTG
167019 TTGATAGTAC
Statistics
Matches: 233, Mismatches: 25, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
108 135 0.58
109 98 0.42
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (108 bp):
TTCATAAACATATTATGAATTTCGTGGGTTGCACACTTAGTGCAGATACGGTCGTTCATAAACAT
ATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATACGATCA
Found at i:184246 original size:17 final size:19
Alignment explanation
Indices: 184218--184266 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
184208 TATTTTGAAA
184218 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
184236 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
184255 CACCGATGCACT
1 CATCGATGCACT
184267 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:184246 original size:64 final size:66
Alignment explanation
Indices: 184086--184246 Score: 204
Period size: 66 Copynumber: 2.5 Consensus size: 66
184076 AATTAAATTG
* *
184086 AACATCGAATGCATTTCATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATG-
184150 AA
65 AA
* * * * *
184152 AACATCGAATGCATTTGATGCTTCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGAT-TTTATG
184215 -A
65 AA
*
184216 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
184247 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 30 0.36
66 49 0.58
67 5 0.06
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (66 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGA
A
Found at i:190049 original size:24 final size:24
Alignment explanation
Indices: 190017--190097 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
190007 TCTATGCTTA
*
190017 GTGCATCGATGCATCCTTTTGAAT
1 GTGCATCGATGCATCCTCTTGAAT
* * *
190041 GTGCATCGATTCATCATGTTG-A-
1 GTGCATCGATGCATCCTCTTGAAT
*
190063 -TGCACCGATGCA-CGC-CTTGAAT
1 GTGCATCGATGCATC-CTCTTGAAT
190085 GTGCATCGATGCA
1 GTGCATCGATGCA
190098 CATGGTCATG
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
20 4 0.09
21 11 0.24
23 12 0.27
24 18 0.40
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (24 bp):
GTGCATCGATGCATCCTCTTGAAT
Found at i:190087 original size:44 final size:43
Alignment explanation
Indices: 190035--190117 Score: 121
Period size: 44 Copynumber: 1.9 Consensus size: 43
190025 ATGCATCCTT
* * *
190035 TTGAATGTGCATCGATTCATCATGTTGATGCACCGATGCACGCC
1 TTGAATGTGCATCGATGCA-CATGGTCATGCACCGATGCACGCC
*
190079 TTGAATGTGCATCGATGCACATGGTCATGCATCGATGCA
1 TTGAATGTGCATCGATGCACATGGTCATGCACCGATGCA
190118 TCTGTCGGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 17 0.49
44 18 0.51
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (43 bp):
TTGAATGTGCATCGATGCACATGGTCATGCACCGATGCACGCC
Found at i:190522 original size:2 final size:2
Alignment explanation
Indices: 190515--190542 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
190505 GAAATTTAAA
190515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
190543 TATGATTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:191697 original size:21 final size:21
Alignment explanation
Indices: 191655--191698 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
191645 ACTCCGGGAG
* *
191655 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
191676 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
191697 CT
1 CT
191699 CCTCCAGCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:192262 original size:2 final size:2
Alignment explanation
Indices: 192255--192293 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
192245 CAGGTTAAGC
192255 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
192294 TTAATCAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:192886 original size:66 final size:63
Alignment explanation
Indices: 192808--192967 Score: 189
Period size: 66 Copynumber: 2.5 Consensus size: 63
192798 AATTAAATTG
* *
192808 AACATCGAATGCATTTTATGCATCGATGCACATACAATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACAATGCACCGATGCACTCAGGATATTT-TG-
192872 AA
63 -A
* * * * *
192874 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACAATGCACCGATGCACTCAGGATATTTTGA
*
192938 AACATCGAATGCACTTGATGCATCG-TGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
192968 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
62 1 0.01
63 4 0.05
64 25 0.30
66 49 0.58
67 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACAATGCACCGATGCACTCAGGATATTTTGA
Found at i:197207 original size:257 final size:255
Alignment explanation
Indices: 196751--197263 Score: 872
Period size: 257 Copynumber: 2.0 Consensus size: 255
196741 GTAAGCACTT
196751 TAAACATATTTTAATTAACTCAAAAATATTTCATATATATAAAACAATTTAGAAAACATATTTTT
1 TAAACATATTTTAATTAACTCAAAAATATTTCATATATATAAAACAATTTAGAAAACATATTTTT
196816 CAAAACATTTTGGACTTTGAATTATTTTATTAAGTCCAAAATCAATATTACAAATATTTGTTATA
66 CAAAACATTTTGGACTTTGAATTATTTTATTAAGTCCAAAATCAATATTACAAATATTTGTTATA
* * ** *
196881 TTAAAATATTAGTTTAATAATTTTTTCCTTTTTATTATATCAAAAGTTTTTTAAAAAATCTTTTT
131 TTAAAATATTAATTTAACAATTTTCCCCTTTTTATTATATCAAAAGTTTTTTAAAAAATCATTTT
196946 TTTTGACAATAGCTCC-TTTTAG-AAAATATTTAATCTCTCTCTCTCTCTGAGAAATAAATTTC
196 TTTTGACAATAGCTCCTTTTTAGAAAAATATTTAA----TCTCTCTCTCTGAGAAATAAATTTC
197008 TAAACATATTTTAATTAACTCAAAAATATTTCATATATATAAAACAATTTAGAAAACATATTTTT
1 TAAACATATTTTAATTAACTCAAAAATATTTCATATATATAAAACAATTTAGAAAACATATTTTT
* *
197073 CAAAACATTTTGGCCTTTGAATTATTTTATTAAGTCCAAAATCAATATTACAAATATTTTTTATA
66 CAAAACATTTTGGACTTTGAATTATTTTATTAAGTCCAAAATCAATATTACAAATATTTGTTATA
*
197138 TTAAAATATTAATTTAACAATTTTCCCCTTTTTGA-TATAAT-AAAAGTTTTTTGAAAAATCATT
131 TTAAAATATTAATTTAACAATTTTCCCCTTTTT-ATTAT-ATCAAAAGTTTTTTAAAAAATCATT
197201 TTTTTTGACAATAGCTCCTTTTTAGAAAAATATTTAATCTCTCTCTCTGAGAAATAAATTTC
194 TTTTTTGACAATAGCTCCTTTTTAGAAAAATATTTAATCTCTCTCTCTGAGAAATAAATTTC
197263 T
1 T
197264 CCACTTACTT
Statistics
Matches: 244, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
255 26 0.11
257 198 0.81
258 9 0.04
259 11 0.05
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (255 bp):
TAAACATATTTTAATTAACTCAAAAATATTTCATATATATAAAACAATTTAGAAAACATATTTTT
CAAAACATTTTGGACTTTGAATTATTTTATTAAGTCCAAAATCAATATTACAAATATTTGTTATA
TTAAAATATTAATTTAACAATTTTCCCCTTTTTATTATATCAAAAGTTTTTTAAAAAATCATTTT
TTTTGACAATAGCTCCTTTTTAGAAAAATATTTAATCTCTCTCTCTGAGAAATAAATTTC
Found at i:204116 original size:90 final size:90
Alignment explanation
Indices: 203963--204240 Score: 423
Period size: 90 Copynumber: 3.1 Consensus size: 90
203953 GGTAAGACCT
* * *
203963 TACGGACCTAAGCATACCCTTGGGTAGGCCCT-TAGGCCCCAAGGCATATCCTTAGGTTAGTTCC
1 TACGGACCTAAGGATACCCTTGGGTAGG-CCTATAGGCCCCAAGGAATATCCTTAGGTTGGTTCC
204027 CTTTTACTGTGTGCTTAGGGTAACCC
65 CTTTTACTGTGTGCTTAGGGTAACCC
* * *
204053 TACGGACCTAAGGATACCCTTGGGTAGGCCTATAGTCCCTAAGGAATATCCTTATGTTGGTTCCC
1 TACGGACCTAAGGATACCCTTGGGTAGGCCTATAGGCCCCAAGGAATATCCTTAGGTTGGTTCCC
*
204118 TTTTGCTGTGTGCTTAGGGTAACCC
66 TTTTACTGTGTGCTTAGGGTAACCC
* * *
204143 TACGGACCTAAGGATACACTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGGTTGGCTCCC
1 TACGGACCTAAGGATACCCTTGGGTAGGCCTATAGGCCCCAAGGAATATCCTTAGGTTGGTTCCC
* *
204208 TTTTTCTATGTGCTTAGGGTAAACCC
66 TTTTACTGTGTGCTTAGGGT-AACCC
204234 TACGGAC
1 TACGGAC
204241 TTAGTTCTGG
Statistics
Matches: 171, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
89 3 0.02
90 156 0.91
91 12 0.07
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (90 bp):
TACGGACCTAAGGATACCCTTGGGTAGGCCTATAGGCCCCAAGGAATATCCTTAGGTTGGTTCCC
TTTTACTGTGTGCTTAGGGTAACCC
Found at i:212414 original size:20 final size:20
Alignment explanation
Indices: 212331--212406 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
212321 TAGGTTGCAG
* *
212331 TATCGATATTGTTCATATAG
1 TATCGATATTGTTCATTTAC
212351 TATCGATATTGTTCATTTAC
1 TATCGATATTGTTCATTTAC
*
212371 TATTGATATTGTTCATTTAC
1 TATCGATATTGTTCATTTAC
212391 TATCGATATTGTTCAT
1 TATCGATATTGTTCAT
212407 GTAATATCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (20 bp):
TATCGATATTGTTCATTTAC
Found at i:212426 original size:40 final size:40
Alignment explanation
Indices: 212331--212427 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
212321 TAGGTTGCAG
* * * * *
212331 TATCGATATTGTTCATATAGTATCGATATTGTTCATTTAC
1 TATCAATATTCTTCATATACTATCGATATTGTTCATGTAA
** * *
212371 TATTGATATTGTTCATTTACTATCGATATTGTTCATGTAA
1 TATCAATATTCTTCATATACTATCGATATTGTTCATGTAA
*
212411 TATCAATGTTCTTCATA
1 TATCAATATTCTTCATA
212428 GAGTACTGAT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (40 bp):
TATCAATATTCTTCATATACTATCGATATTGTTCATGTAA
Found at i:212564 original size:21 final size:21
Alignment explanation
Indices: 212508--212575 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
212498 TTGAGTACCA
* *
212508 ATACTACATGATGAAGTATCT
1 ATACTACTTGATGGAGTATCT
*
212529 ATAATACTTGATGGAGTATCT
1 ATACTACTTGATGGAGTATCT
212550 ATACTACTT-AGTGGAGTA-CT
1 ATACTACTTGA-TGGAGTATCT
212570 AGTACT
1 A-TACT
212576 CCCCAACATC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.10
21 37 0.90
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (21 bp):
ATACTACTTGATGGAGTATCT
Found at i:216255 original size:13 final size:13
Alignment explanation
Indices: 216237--216262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
216227 ACGACTAGAG
216237 GAGCTAGCGAGCT
1 GAGCTAGCGAGCT
216250 GAGCTAGCGAGCT
1 GAGCTAGCGAGCT
216263 AAGGCAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.15
Consensus pattern (13 bp):
GAGCTAGCGAGCT
Found at i:216452 original size:85 final size:84
Alignment explanation
Indices: 216310--216479 Score: 304
Period size: 85 Copynumber: 2.0 Consensus size: 84
216300 GCGCTTCGAA
*
216310 GGCTTATTCCTCTCCCCTTTGATGTTATTTCTCATTTGATTTGGGTTGTTAGAACGAATGATTTA
1 GGCTTATTCCTCTCCCCTTTGACGTTATTTCTCATTTGATTTGGGTTGTTAGAACGAATGATTTA
216375 TATGAATCTTTTCATGGAT
66 TATGAATCTTTTCATGGAT
*
216394 GGCTTCTTCCTCCTCCCCTTTGACGTTATTTCTCATTTGATTTGGGTTGTTAGAACGAATGATTT
1 GGCTTATTCCT-CTCCCCTTTGACGTTATTTCTCATTTGATTTGGGTTGTTAGAACGAATGATTT
*
216459 CTATGAATCTTTTCATGGAT
65 ATATGAATCTTTTCATGGAT
216479 G
1 G
216480 ATTCGAACCC
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
84 10 0.12
85 72 0.88
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (84 bp):
GGCTTATTCCTCTCCCCTTTGACGTTATTTCTCATTTGATTTGGGTTGTTAGAACGAATGATTTA
TATGAATCTTTTCATGGAT
Found at i:238880 original size:16 final size:16
Alignment explanation
Indices: 238855--238885 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
238845 ACATGTAACT
*
238855 ATATGCTCCTAAATGC
1 ATATGATCCTAAATGC
238871 ATATGATCCTAAATG
1 ATATGATCCTAAATG
238886 AGCTCTTAGA
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:0.19, G:0.13, T:0.32
Consensus pattern (16 bp):
ATATGATCCTAAATGC
Found at i:245698 original size:42 final size:43
Alignment explanation
Indices: 245624--245705 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
245614 TGGTCATACG
* *
245624 CCGCGAAAAACATGAAAAAATATAAGGAAACTAAAAAGTAGAA
1 CCGCGAAAAACATGAAAAAAGATAAGAAAACTAAAAAGTAGAA
*
245667 CCGCGAAAAACTTG-AAAAAGATAAGAAAACTAAAAAGTA
1 CCGCGAAAAACATGAAAAAAGATAAGAAAACTAAAAAGTA
245706 AAACTATCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 23 0.64
43 13 0.36
ACGTcount: A:0.60, C:0.12, G:0.16, T:0.12
Consensus pattern (43 bp):
CCGCGAAAAACATGAAAAAAGATAAGAAAACTAAAAAGTAGAA
Found at i:247460 original size:20 final size:20
Alignment explanation
Indices: 247431--247469 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
247421 ATTTCACCAC
*
247431 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
247451 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
247470 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:252963 original size:23 final size:23
Alignment explanation
Indices: 252936--253004 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
252926 CACCACAGCT
252936 CGTATAAATGCACCGATGTGCCA
1 CGTATAAATGCACCGATGTGCCA
* *
252959 CGTATAATTGCACCG-TAGTGCCG
1 CGTATAAATGCACCGAT-GTGCCA
* *
252982 CGTAGAAATGCACCGAAGTGCCA
1 CGTATAAATGCACCGATGTGCCA
253005 TATAAGGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTATAAATGCACCGATGTGCCA
Found at i:253270 original size:21 final size:23
Alignment explanation
Indices: 253221--253272 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
253211 TTTCACATTT
*
253221 TCACATAAACACGTAGTTCACTT
1 TCACATAAACACGTAGTTCACTG
253244 TCACATAAA-ACGTAGATT-A-TG
1 TCACATAAACACGTAG-TTCACTG
253265 TCACATAA
1 TCACATAA
253273 GTTGAATCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 9 0.33
22 7 0.26
23 11 0.41
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (23 bp):
TCACATAAACACGTAGTTCACTG
Found at i:253486 original size:2 final size:2
Alignment explanation
Indices: 253479--253509 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
253469 TTCATCTTCC
253479 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
253510 GTCCTGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:255108 original size:11 final size:11
Alignment explanation
Indices: 255092--255122 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
255082 TTTAAGATAA
255092 CTTAAGCTTTC
1 CTTAAGCTTTC
255103 CTTAAGCTTTC
1 CTTAAGCTTTC
255114 CTTAAGCTT
1 CTTAAGCTT
255123 AGTTATCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.10, T:0.45
Consensus pattern (11 bp):
CTTAAGCTTTC
Found at i:258132 original size:23 final size:23
Alignment explanation
Indices: 258095--258158 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
258085 CAACTTGTAT
258095 AAATGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * * *
258118 AATTTCACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
258141 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
258159 TATAAGGTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Done.