Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 112 of 207
Found at i:33707381 original size:26 final size:29
Alignment explanation
Indices: 33707343--33707406 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
33707333 AATCACTCTT
* *
33707343 TTTTTTTTCAATTTCG-ATTTTTT-TTTC
1 TTTTTTTTCAATTCCGAATTTTTTACTTC
33707370 TTTTTTTT-AATTCCGAATTTTTTACTTC
1 TTTTTTTTCAATTCCGAATTTTTTACTTC
33707398 TTCTTTTTT
1 TT-TTTTTT
33707407 TCTTCAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 6 0.19
27 15 0.47
28 5 0.16
29 6 0.19
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.72
Consensus pattern (29 bp):
TTTTTTTTCAATTCCGAATTTTTTACTTC
Found at i:33707469 original size:12 final size:12
Alignment explanation
Indices: 33707452--33707506 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
33707442 GAATACAAAC
33707452 TTTTTTTTTGAA
1 TTTTTTTTTGAA
33707464 TTTTTTTTTGAA
1 TTTTTTTTTGAA
* *
33707476 TTTCTTTTTCAA
1 TTTTTTTTTGAA
33707488 GTTTTTTTTT--A
1 -TTTTTTTTTGAA
33707499 TTTTTTTT
1 TTTTTTTT
33707507 ACAATACCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
10 8 0.21
11 1 0.03
12 22 0.56
13 8 0.21
ACGTcount: A:0.13, C:0.04, G:0.05, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:33713065 original size:13 final size:13
Alignment explanation
Indices: 33713005--33713065 Score: 74
Period size: 13 Copynumber: 4.8 Consensus size: 13
33712995 ACGGTATTGT
33713005 AAAAAAAA-TCGA
1 AAAAAAAATTCGA
33713017 ATAAAAAAA-TCGA
1 A-AAAAAAATTCGA
*
33713030 AAAAAAATTTCGA
1 AAAAAAAATTCGA
33713043 AAAAAAAATTC-A
1 AAAAAAAATTCGA
33713055 AAAAAGAAATT
1 AAAAA-AAATT
33713066 GTATTCAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
12 13 0.30
13 31 0.70
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.16
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:33714149 original size:13 final size:12
Alignment explanation
Indices: 33714118--33714146 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33714108 GTGTGAGATA
33714118 GAAAAGAAAATT
1 GAAAAGAAAATT
33714130 GAAAAGAAAATT
1 GAAAAGAAAATT
33714142 GAAAA
1 GAAAA
33714147 AGAGAGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (12 bp):
GAAAAGAAAATT
Found at i:33716393 original size:11 final size:10
Alignment explanation
Indices: 33716368--33716428 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
33716358 ACCAATAAAA
33716368 TAAA-TGAGC
1 TAAATTGAGC
*
33716377 TGAATTGTAGC
1 TAAATTG-AGC
33716388 TAAATTGAGC
1 TAAATTGAGC
**
33716398 TCGATTGAGC
1 TAAATTGAGC
33716408 TGAAA-TGAGC
1 T-AAATTGAGC
*
33716418 TCAATTGAGC
1 TAAATTGAGC
33716428 T
1 T
33716429 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:33716429 original size:20 final size:20
Alignment explanation
Indices: 33716369--33716429 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
33716359 CCAATAAAAT
*
33716369 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
33716389 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
33716410 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
33716430 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:33721453 original size:11 final size:12
Alignment explanation
Indices: 33721432--33721466 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
33721422 TTAGTAGTTT
33721432 CTCGAAAAAAAA
1 CTCGAAAAAAAA
33721444 CTCGAAAAAAAA
1 CTCGAAAAAAAA
*
33721456 TTC-AAAAAAAA
1 CTCGAAAAAAAA
33721467 AATTTTGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.69, C:0.14, G:0.06, T:0.11
Consensus pattern (12 bp):
CTCGAAAAAAAA
Found at i:33721530 original size:12 final size:13
Alignment explanation
Indices: 33721508--33721557 Score: 77
Period size: 13 Copynumber: 3.9 Consensus size: 13
33721498 GGATATCAAG
33721508 TTGTG-AAAAAAA
1 TTGTGAAAAAAAA
33721520 TT-TGAAAAAAAAA
1 TTGTG-AAAAAAAA
33721533 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
33721546 TTGTGAAAAAAA
1 TTGTGAAAAAAA
33721558 GAGAGCTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.06
12 2 0.06
13 29 0.83
14 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:33721536 original size:25 final size:27
Alignment explanation
Indices: 33721508--33721557 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
33721498 GGATATCAAG
33721508 TTGTG-AAAAAAATT-TGAAAAAAAAA
1 TTGTGAAAAAAAATTGTGAAAAAAAAA
33721533 TTGTGAAAAAAAATTGTGAAAAAAA
1 TTGTGAAAAAAAATTGTGAAAAAAA
33721558 GAGAGCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 5 0.22
26 9 0.39
27 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (27 bp):
TTGTGAAAAAAAATTGTGAAAAAAAAA
Found at i:33733045 original size:16 final size:17
Alignment explanation
Indices: 33733016--33733058 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
33733006 TTTTTTAAAT
33733016 TTTTATTGAATTTTTTG-
1 TTTT-TTGAATTTTTTGA
*
33733033 TTTTTTGATTTTTTTGA
1 TTTTTTGAATTTTTTGA
33733050 CTTTTTTGA
1 -TTTTTTGA
33733059 CTGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 11 0.48
17 4 0.17
18 8 0.35
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (17 bp):
TTTTTTGAATTTTTTGA
Found at i:33737595 original size:10 final size:10
Alignment explanation
Indices: 33737579--33737636 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
33737569 CAACTCCGAC
33737579 CAGCTCAATT
1 CAGCTCAATT
* *
33737589 GAGCTCATTT
1 CAGCTCAATT
33737599 CAGCTCAA-T
1 CAGCTCAATT
33737608 CGAGCTCAATT
1 C-AGCTCAATT
*
33737619 TAGCTACAATT
1 CAGCT-CAATT
33737630 CAGCTCA
1 CAGCTCA
33737637 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:33737602 original size:20 final size:20
Alignment explanation
Indices: 33737579--33737639 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
33737569 CAACTCCGAC
33737579 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
33737599 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
33737620 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
33737640 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:33739940 original size:18 final size:18
Alignment explanation
Indices: 33739919--33739953 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33739909 AGAAAAGAAA
33739919 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
33739937 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
33739954 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:33742037 original size:10 final size:10
Alignment explanation
Indices: 33742021--33742078 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
33742011 CAACTCCGAC
33742021 CAGCTCAATT
1 CAGCTCAATT
* *
33742031 GAGCTCATTT
1 CAGCTCAATT
33742041 CAGCTCAA-T
1 CAGCTCAATT
33742050 CGAGCTCAATT
1 C-AGCTCAATT
*
33742061 TAGCTACAATT
1 CAGCT-CAATT
33742072 CAGCTCA
1 CAGCTCA
33742079 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:33742044 original size:20 final size:20
Alignment explanation
Indices: 33742021--33742081 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
33742011 CAACTCCGAC
33742021 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
33742041 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
33742062 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
33742082 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:33743825 original size:20 final size:20
Alignment explanation
Indices: 33743802--33743886 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
33743792 AAGCTCAAAC
*
33743802 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGTGAGCTAAATT
*
33743822 GAGCTCAAA-CGAGCTAAATT
1 GAGCT-AAAGTGAGCTAAATT
* *
33743842 GAGCTCAAGCGAGCTAAATT
1 GAGCTAAAGTGAGCTAAATT
* * * *
33743862 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGTGAGCTAAATT
33743882 GAGCT
1 GAGCT
33743887 GGGAAAAACT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.04
20 50 0.91
21 3 0.05
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (20 bp):
GAGCTAAAGTGAGCTAAATT
Found at i:33743826 original size:10 final size:10
Alignment explanation
Indices: 33743802--33743886 Score: 57
Period size: 10 Copynumber: 8.5 Consensus size: 10
33743792 AAGCTCAAAC
*
33743802 GAGCTAAAGT
1 GAGCTAAATT
*
33743812 AAGCTAAATT
1 GAGCTAAATT
*
33743822 GAGCTCAAA-C
1 GAGCT-AAATT
33743832 GAGCTAAATT
1 GAGCTAAATT
* **
33743842 GAGCTCAAGC
1 GAGCTAAATT
33743852 GAGCTAAATT
1 GAGCTAAATT
* *
33743862 AAGCT-CATGT
1 GAGCTAAAT-T
*
33743872 GAGCTAAATC
1 GAGCTAAATT
33743882 GAGCT
1 GAGCT
33743887 GGGAAAAACT
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
9 5 0.09
10 45 0.82
11 5 0.09
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (10 bp):
GAGCTAAATT
Found at i:33743856 original size:30 final size:30
Alignment explanation
Indices: 33743793--33743856 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
33743783 ACTTAAGCCA
**
33743793 AGCTCAAACGAGCTAAAGTAAGCTAAATTG
1 AGCTCAAACGAGCTAAAGTAAGCTAAAGCG
* * *
33743823 AGCTCAAACGAGCTAAATTGAGCTCAAGCG
1 AGCTCAAACGAGCTAAAGTAAGCTAAAGCG
33743853 AGCT
1 AGCT
33743857 AAATTAAGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (30 bp):
AGCTCAAACGAGCTAAAGTAAGCTAAAGCG
Found at i:33746005 original size:15 final size:14
Alignment explanation
Indices: 33745969--33746010 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
33745959 TCTATTGAGC
33745969 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
33745983 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
33745997 GAGTGAAAAGAAAA
1 GAG-AAAAAGAAAA
33746011 GGAAAGAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:33753576 original size:20 final size:20
Alignment explanation
Indices: 33753530--33753576 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
33753520 AGCTCGTTTC
*
33753530 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
33753550 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
33753570 CAGCTCA
1 CAGCTCA
33753577 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:33756224 original size:23 final size:22
Alignment explanation
Indices: 33756172--33756224 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
33756162 TCCACGTCTT
*
33756172 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
33756194 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
33756217 TTTCTTTT
1 TTTCTTTT
33756225 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:33758043 original size:30 final size:30
Alignment explanation
Indices: 33758009--33758105 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
33757999 TAAACTAAAA
33758009 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
33758039 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
33758069 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
33758098 ATGAGCTA
1 -TGAGCTA
33758106 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:33760273 original size:12 final size:12
Alignment explanation
Indices: 33760258--33760288 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33760248 TTCTTTTTGC
33760258 TTTTCAAAGGCT
1 TTTTCAAAGGCT
33760270 TTTTCAAAGGCT
1 TTTTCAAAGGCT
33760282 TTTTCAA
1 TTTTCAA
33760289 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:33760365 original size:6 final size:6
Alignment explanation
Indices: 33760349--33760398 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
33760339 TTTCTTTTTA
*
33760349 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
33760398 T
1 T
33760399 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:33760381 original size:37 final size:37
Alignment explanation
Indices: 33760338--33760408 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
33760328 CTTGCCTCTC
33760338 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
33760375 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
33760409 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:33760409 original size:16 final size:16
Alignment explanation
Indices: 33760334--33760394 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
33760324 GCCTCTTGCC
*
33760334 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
33760350 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
33760366 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
33760382 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
33760395 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:33761326 original size:28 final size:27
Alignment explanation
Indices: 33761282--33761358 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 27
33761272 GACTTTTCAC
*
33761282 TTTTTTTTTCTTCTTTTTTTTAACTCGA
1 TTTTTTTTACTT-TTTTTTTTAACTCGA
***
33761310 TTTTTTTTCACTTTTTTTTTTTTTTCGA
1 TTTTTTTT-ACTTTTTTTTTTAACTCGA
*
33761338 TTTTTTTTGAATTTTTTTTTT
1 TTTTTTTT-ACTTTTTTTTTT
33761359 CTGAATTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 39 0.93
29 3 0.07
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (27 bp):
TTTTTTTTACTTTTTTTTTTAACTCGA
Found at i:33761330 original size:17 final size:17
Alignment explanation
Indices: 33761310--33761345 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
33761300 TTTAACTCGA
33761310 TTTTTTTTC-ACTTTTTT
1 TTTTTTTTCGA-TTTTTT
33761327 TTTTTTTTCGATTTTTT
1 TTTTTTTTCGATTTTTT
33761344 TT
1 TT
33761346 GAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.06, C:0.08, G:0.03, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCGATTTTTT
Found at i:33761356 original size:15 final size:15
Alignment explanation
Indices: 33761338--33761366 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
33761328 TTTTTTTCGA
33761338 TTTTTTT-TGAATTT
1 TTTTTTTCTGAATTT
33761352 TTTTTTTCTGAATTT
1 TTTTTTTCTGAATTT
33761367 CTTCTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTTTTTCTGAATTT
Found at i:33763101 original size:30 final size:30
Alignment explanation
Indices: 33763067--33763163 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
33763057 TAAACTAAAA
33763067 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
33763097 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
33763127 TGAGCTGAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
33763156 ATGAGCTA
1 -TGAGCTA
33763164 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 44 0.90
31 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:33765742 original size:10 final size:11
Alignment explanation
Indices: 33765712--33765741 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
33765702 AATAAATTCA
33765712 AAAAAAAAAGG
1 AAAAAAAAAGG
33765723 AAAAAAAAAGG
1 AAAAAAAAAGG
33765734 AAAAAAAA
1 AAAAAAAA
33765742 GAAGTGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:33765753 original size:25 final size:23
Alignment explanation
Indices: 33765711--33765756 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
33765701 GAATAAATTC
33765711 AAAAAAAAAAGGAAAAAAAAAGG
1 AAAAAAAAAAGGAAAAAAAAAGG
*
33765734 AAAAAAAAGAAGTGACAAAAAAA
1 AAAAAAAA-AAG-GAAAAAAAAA
33765757 TTGAGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 3 0.15
25 9 0.45
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAGGAAAAAAAAAGG
Found at i:33772591 original size:11 final size:11
Alignment explanation
Indices: 33772575--33772606 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
33772565 TAGTAGTTTC
33772575 TTCAAAAAAAA
1 TTCAAAAAAAA
33772586 TTC-AAAAAAA
1 TTCAAAAAAAA
33772596 TTCAAAAAAAA
1 TTCAAAAAAAA
33772607 ATTGGTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:33772669 original size:16 final size:16
Alignment explanation
Indices: 33772648--33772704 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
33772638 TATCAAGTTG
33772648 AAAAAAAATCGTGAAA
1 AAAAAAAATCGTGAAA
*
33772664 AAAAAAATTCGTGAAA
1 AAAAAAAATCGTGAAA
***
33772680 AAAAATTTTTCGTGAAA
1 AAAAA-AAATCGTGAAA
33772697 AAAAAAAA
1 AAAAAAAA
33772705 GAAGCTAGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 20 0.59
17 14 0.41
ACGTcount: A:0.65, C:0.05, G:0.11, T:0.19
Consensus pattern (16 bp):
AAAAAAAATCGTGAAA
Found at i:33772670 original size:17 final size:17
Alignment explanation
Indices: 33772648--33772704 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
33772638 TATCAAGTTG
33772648 AAAAAAAA-TCGTG-AA
1 AAAAAAAATTCGTGAAA
33772663 AAAAAAAATTCGTGAAA
1 AAAAAAAATTCGTGAAA
***
33772680 AAAAATTTTTCGTGAAA
1 AAAAAAAATTCGTGAAA
33772697 AAAAAAAA
1 AAAAAAAA
33772705 GAAGCTAGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 8 0.24
16 5 0.15
17 21 0.62
ACGTcount: A:0.65, C:0.05, G:0.11, T:0.19
Consensus pattern (17 bp):
AAAAAAAATTCGTGAAA
Found at i:33774551 original size:33 final size:34
Alignment explanation
Indices: 33774503--33774568 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
33774493 ATCACTCTCC
*
33774503 CTCATTTAAATGTCG-TCCATTGCATGTGGAACAT
1 CTCATTTAAATGTCGTTCCA-TGCATGTAGAACAT
*
33774537 CTCA-TTAATTGTCGTTCCATGCATGTAGAACA
1 CTCATTTAAATGTCGTTCCATGCATGTAGAACA
33774569 ACATCTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 21 0.72
34 8 0.28
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (34 bp):
CTCATTTAAATGTCGTTCCATGCATGTAGAACAT
Found at i:33774579 original size:34 final size:33
Alignment explanation
Indices: 33774507--33774579 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
33774497 CTCTCCCTCA
* * *
33774507 TTTAAATGTCGTCCATTGCATGTGGAACATCTC
1 TTTAATTGTCGTCCATTGCATGTAGAACAACTC
*
33774540 ATTAATTGTCGTTCCA-TGCATGTAGAACAACATC
1 TTTAATTGTCG-TCCATTGCATGTAGAACAAC-TC
33774574 TTTAAT
1 TTTAAT
33774580 GCATGTCTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (33 bp):
TTTAATTGTCGTCCATTGCATGTAGAACAACTC
Found at i:33777705 original size:20 final size:20
Alignment explanation
Indices: 33777659--33777705 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33777649 AGCTTGTTTC
*
33777659 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
33777679 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
33777699 CAGCTCA
1 CAGCTCA
33777706 ATTTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:33779248 original size:11 final size:11
Alignment explanation
Indices: 33779232--33779269 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
33779222 AAAAAAAAAA
33779232 TTTTGAATTTT
1 TTTTGAATTTT
33779243 TTTTGAATTTTT
1 TTTTGAA-TTTT
33779255 TTTTGAATTTT
1 TTTTGAATTTT
33779266 TTTT
1 TTTT
33779270 TCAAATTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTGAATTTT
Found at i:33779277 original size:13 final size:12
Alignment explanation
Indices: 33779232--33779270 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
33779222 AAAAAAAAAA
33779232 TTTTGAA-TTTT
1 TTTTGAATTTTT
33779243 TTTTGAATTTTT
1 TTTTGAATTTTT
33779255 TTTTGAATTTTT
1 TTTTGAATTTTT
33779267 TTTT
1 TTTT
33779271 CAAATTTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTGAATTTTT
Found at i:33782370 original size:24 final size:20
Alignment explanation
Indices: 33782342--33782394 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 20
33782332 GAAGTTGAAG
33782342 GAAAAGATTGAAAAAGAGAGACAA
1 GAAAA-ATTGAAAAA-A-AGA-AA
33782366 GAAAAA-TGAAAAAAAGAAA
1 GAAAAATTGAAAAAAAGAAA
33782385 GAAAAATTGA
1 GAAAAATTGA
33782395 GGGAGTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 8 0.29
20 6 0.21
21 1 0.04
22 7 0.25
23 1 0.04
24 5 0.18
ACGTcount: A:0.68, C:0.02, G:0.21, T:0.09
Consensus pattern (20 bp):
GAAAAATTGAAAAAAAGAAA
Found at i:33786010 original size:20 final size:20
Alignment explanation
Indices: 33785987--33786033 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33785977 GGGTTAAAAT
*
33785987 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33786007 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33786027 TGAGCTG
1 TGAGCTG
33786034 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33789173 original size:12 final size:12
Alignment explanation
Indices: 33789156--33789180 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33789146 CCTTATACAC
33789156 ATTACACATTGA
1 ATTACACATTGA
33789168 ATTACACATTGA
1 ATTACACATTGA
33789180 A
1 A
33789181 ATCAGATTTT
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTACACATTGA
Found at i:33797752 original size:10 final size:10
Alignment explanation
Indices: 33797737--33797805 Score: 70
Period size: 10 Copynumber: 6.9 Consensus size: 10
33797727 ACGAGCTCAA
33797737 TGAGCTGAAT
1 TGAGCTGAAT
33797747 TGAGCTCGAA-
1 TGAGCT-GAAT
33797757 TGAGCTGAAT
1 TGAGCTGAAT
*
33797767 TAAGCTAGAAT
1 TGAGCT-GAAT
*
33797778 T-AGCTGACT
1 TGAGCTGAAT
* *
33797787 TGAGCTCAAG
1 TGAGCTGAAT
33797797 TGAGCTGAA
1 TGAGCTGAA
33797806 CCACATGAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
9 7 0.14
10 34 0.69
11 8 0.16
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:33797758 original size:20 final size:19
Alignment explanation
Indices: 33797729--33797805 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
33797719 AGCTAATAAC
33797729 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
33797748 GAGCTCGAATGAGCTGAATT
1 GAGCTC-AATGAGCTGAATT
* * * *
33797768 AAGCTAGAATTAGCTGACTT
1 GAGCT-CAATGAGCTGAATT
33797788 GAGCTCAAGTGAGCTGAA
1 GAGCTCAA-TGAGCTGAA
33797806 CCACATGAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
19 8 0.17
20 39 0.83
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:33806429 original size:70 final size:70
Alignment explanation
Indices: 33806311--33806447 Score: 247
Period size: 70 Copynumber: 2.0 Consensus size: 70
33806301 TTGCATGCCC
*
33806311 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTTCTTTATTGCTGC
1 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
33806376 TGTTG
66 TGTTG
* *
33806381 AACATCACCTTAAATGCATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
1 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
33806446 TG
66 TG
33806448 ATTTAATTCA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (70 bp):
AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
TGTTG
Found at i:33808308 original size:15 final size:16
Alignment explanation
Indices: 33808269--33808309 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
33808259 AACAACACTC
33808269 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
33808285 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
33808299 CTTTCTTTTTC
1 CTTTCTTTTTC
33808310 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:33809449 original size:26 final size:27
Alignment explanation
Indices: 33809403--33809465 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 27
33809393 CAATCACTCT
* *
33809403 TTTTTTTTTCAATTTCGA-TTTTTTTC
1 TTTTTTTTTCAATTCCAATTTTTTTTC
33809429 TTTTTTTTT-AATTCCAAATTTTTTTTC
1 TTTTTTTTTCAATTCC-AATTTTTTTTC
33809456 TTCTTTTTTT
1 TT-TTTTTTT
33809466 TCTTCAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 5 0.16
26 10 0.31
27 10 0.31
28 7 0.22
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTTTTTTTCAATTCCAATTTTTTTTC
Found at i:33809528 original size:12 final size:12
Alignment explanation
Indices: 33809511--33809554 Score: 79
Period size: 12 Copynumber: 3.6 Consensus size: 12
33809501 GAATACAAAC
33809511 TTTTTTTTTGAA
1 TTTTTTTTTGAA
33809523 TTTTTTTTTCGAA
1 TTTTTTTTT-GAA
33809536 TTTTTTTTTGAA
1 TTTTTTTTTGAA
33809548 TTTTTTT
1 TTTTTTT
33809555 ACAATACCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 19 0.61
13 12 0.39
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:33809529 original size:13 final size:13
Alignment explanation
Indices: 33809511--33809554 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
33809501 GAATACAAAC
33809511 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
*
33809524 TTTTTTTTCGAA-
1 TTTTTTTTTGAAT
33809536 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
33809549 TTTTTT
1 TTTTTT
33809555 ACAATACCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:33810817 original size:70 final size:70
Alignment explanation
Indices: 33810699--33810835 Score: 247
Period size: 70 Copynumber: 2.0 Consensus size: 70
33810689 TTGCATGCCC
*
33810699 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTTCTTTATTGCTGC
1 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
33810764 TGTTG
66 TGTTG
* *
33810769 AACATCACCTTAAATGCATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
1 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
33810834 TG
66 TG
33810836 ATTTAATTCA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (70 bp):
AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
TGTTG
Found at i:33813141 original size:40 final size:40
Alignment explanation
Indices: 33813043--33813305 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
33813033 TCCTCGTTCA
* * * * *
33813043 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
33813082 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
33813122 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33813162 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33813202 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
33813242 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
33813282 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33813306 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:33821077 original size:40 final size:40
Alignment explanation
Indices: 33820979--33821241 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
33820969 TCCTCGTTCA
* * * * *
33820979 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
33821018 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
33821058 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33821098 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33821138 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
33821178 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
33821218 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33821242 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:33832403 original size:20 final size:20
Alignment explanation
Indices: 33832380--33832426 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
33832370 GGGTTAATAT
*
33832380 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
33832400 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
33832420 TGAGCTG
1 TGAGCTG
33832427 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:33834791 original size:21 final size:21
Alignment explanation
Indices: 33834765--33834827 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
33834755 TTGGTATTTG
33834765 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
33834786 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
33834807 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
33834828 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:33840030 original size:24 final size:24
Alignment explanation
Indices: 33839998--33840043 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
33839988 AAGGTATTGT
33839998 TGATGTGAGCTTGCCTACGAACAA
1 TGATGTGAGCTTGCCTACGAACAA
33840022 TGATGTGAGCTTGCCTACGAAC
1 TGATGTGAGCTTGCCTACGAAC
33840044 CAAATGGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (24 bp):
TGATGTGAGCTTGCCTACGAACAA
Found at i:33841555 original size:12 final size:12
Alignment explanation
Indices: 33841538--33841571 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
33841528 TTGTAGATTC
33841538 AAAAAAAAATCA
1 AAAAAAAAATCA
*
33841550 AAAAAAAAATCG
1 AAAAAAAAATCA
33841562 AAAAAAAAAT
1 AAAAAAAAAT
33841572 TTGAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (12 bp):
AAAAAAAAATCA
Found at i:33841556 original size:13 final size:13
Alignment explanation
Indices: 33841538--33841583 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
33841528 TTGTAGATTC
33841538 AAAAAAAAATC-A
1 AAAAAAAAATCGA
33841550 AAAAAAAAATCGA
1 AAAAAAAAATCGA
* *
33841563 AAAAAAAATTTGA
1 AAAAAAAAATCGA
33841576 AAAAAAAA
1 AAAAAAAA
33841584 TTGCATACGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.35
13 20 0.65
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (13 bp):
AAAAAAAAATCGA
Found at i:33841584 original size:13 final size:13
Alignment explanation
Indices: 33841534--33841585 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
33841524 TAAATTGTAG
33841534 ATTC-AAAAAAAA
1 ATTCGAAAAAAAA
33841546 A-TC-AAAAAAAA
1 ATTCGAAAAAAAA
*
33841557 AATCGAAAAAAAA
1 ATTCGAAAAAAAA
*
33841570 ATTTGAAAAAAAA
1 ATTCGAAAAAAAA
33841583 ATT
1 ATT
33841586 GCATACGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
11 11 0.31
12 3 0.08
13 22 0.61
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.17
Consensus pattern (13 bp):
ATTCGAAAAAAAA
Found at i:33843403 original size:27 final size:27
Alignment explanation
Indices: 33843365--33843421 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
33843355 GTTAAACAAG
*
33843365 AGAGGAAAAAGAAAAAGAGAATGAAAA
1 AGAGCAAAAAGAAAAAGAGAATGAAAA
* ** *
33843392 AGAGCAAAAAGAGATTGAGAGTGAAAA
1 AGAGCAAAAAGAAAAAGAGAATGAAAA
33843419 AGA
1 AGA
33843422 AATTGAAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.63, C:0.02, G:0.28, T:0.07
Consensus pattern (27 bp):
AGAGCAAAAAGAAAAAGAGAATGAAAA
Found at i:33850501 original size:13 final size:13
Alignment explanation
Indices: 33850480--33850514 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33850470 ATAAGTTGTT
* *
33850480 GTTAGTTAAATTA
1 GTTAATTAAATAA
33850493 GTTAATTAAATAA
1 GTTAATTAAATAA
33850506 GTTAATTAA
1 GTTAATTAA
33850515 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:33850762 original size:23 final size:23
Alignment explanation
Indices: 33850736--33850799 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
33850726 ATTTTCCAGA
33850736 CGAATTTAATGTATGTCTT-TGGC
1 CGAATTTAATGTATGT-TTCTGGC
33850759 CGAATTTAATGTATGTTTCTGGC
1 CGAATTTAATGTATGTTTCTGGC
*
33850782 CGAATTTAATGCATGTTT
1 CGAATTTAATGTATGTTT
33850800 TAAATGGTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 2 0.05
23 37 0.95
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.44
Consensus pattern (23 bp):
CGAATTTAATGTATGTTTCTGGC
Found at i:33856223 original size:18 final size:18
Alignment explanation
Indices: 33856202--33856236 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33856192 TTTTTCTTTT
33856202 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
33856220 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
33856237 TTTTTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:33859177 original size:20 final size:20
Alignment explanation
Indices: 33859148--33859201 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33859138 GTTTTTTCCC
*
33859148 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33859168 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33859188 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33859202 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33859183 original size:30 final size:30
Alignment explanation
Indices: 33859148--33859221 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33859138 GTTTTTTCCC
33859148 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33859178 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33859208 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33859222 TGGCTTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33859211 original size:20 final size:20
Alignment explanation
Indices: 33859148--33859212 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33859138 GTTTTTTCCC
* * * *
33859148 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33859168 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33859187 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33859208 AGCTC
1 AGCTC
33859213 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33859824 original size:22 final size:22
Alignment explanation
Indices: 33859794--33859837 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33859784 TTTGGTATTT
33859794 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
33859816 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
33859838 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:33863853 original size:10 final size:11
Alignment explanation
Indices: 33863831--33863866 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
33863821 AAAAGAGAAG
33863831 AAATTCAAAAA
1 AAATTCAAAAA
33863842 AAATTCAAAAA
1 AAATTCAAAAA
33863853 AAA-TCGAAAAA
1 AAATTC-AAAAA
33863864 AAA
1 AAA
33863867 GAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 2 0.08
11 22 0.92
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.14
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:33866129 original size:24 final size:24
Alignment explanation
Indices: 33866098--33866152 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
33866088 ACGGTATTAT
**
33866098 AAAAAAATATAT-AAAAAAATTTGA
1 AAAAAAAT-TATGAAAAAAATTCAA
*
33866122 AAAAAAATTTTGAAAAAAATTCAA
1 AAAAAAATTATGAAAAAAATTCAA
33866146 AAAAAAA
1 AAAAAAA
33866153 GTTTGTATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAAAAATTATGAAAAAAATTCAA
Found at i:33866142 original size:12 final size:13
Alignment explanation
Indices: 33866110--33866140 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
33866100 AAAAATATAT
33866110 AAAAAAA-TTTGA
1 AAAAAAATTTTGA
33866122 AAAAAAATTTTGA
1 AAAAAAATTTTGA
33866135 AAAAAA
1 AAAAAA
33866141 TTCAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (13 bp):
AAAAAAATTTTGA
Found at i:33866149 original size:12 final size:12
Alignment explanation
Indices: 33866098--33866152 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
33866088 ACGGTATTAT
* *
33866098 AAAAAAATATAT
1 AAAAAAATTTAA
*
33866110 AAAAAAATTTGA
1 AAAAAAATTTAA
**
33866122 AAAAAAATTTTG
1 AAAAAAATTTAA
*
33866134 AAAAAAATTCAA
1 AAAAAAATTTAA
33866146 AAAAAAA
1 AAAAAAA
33866153 GTTTGTATTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (12 bp):
AAAAAAATTTAA
Found at i:33866157 original size:24 final size:24
Alignment explanation
Indices: 33866110--33866157 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33866100 AAAAATATAT
** *
33866110 AAAAAAATTTGAAAAAAAATTTTG
1 AAAAAAATTCAAAAAAAAAGTTTG
33866134 AAAAAAATTCAAAAAAAAAGTTTG
1 AAAAAAATTCAAAAAAAAAGTTTG
33866158 TATTCAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (24 bp):
AAAAAAATTCAAAAAAAAAGTTTG
Found at i:33866261 original size:31 final size:32
Alignment explanation
Indices: 33866190--33866266 Score: 104
Period size: 31 Copynumber: 2.4 Consensus size: 32
33866180 TGTATTTAGT
* **
33866190 ATTGAAGAAAAAAAAGAAGAAAAAAATTTCGGA
1 ATTGAA-AAAAAAAAGAAGAAAAAAATATCAAA
33866223 ATT-AAAAAAAAAAGAAGAAAAAAA-ATCAAA
1 ATTGAAAAAAAAAAGAAGAAAAAAATATCAAA
33866253 ATTGAAAAAAAAAA
1 ATTGAAAAAAAAAA
33866267 TGAGTGATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 6 0.15
31 29 0.73
32 2 0.05
33 3 0.08
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.13
Consensus pattern (32 bp):
ATTGAAAAAAAAAAGAAGAAAAAAATATCAAA
Found at i:33867104 original size:21 final size:20
Alignment explanation
Indices: 33867075--33867120 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
33867065 AATCTTGAAT
*
33867075 GAAATTGAGAGAAGAAAAAAA
1 GAAAATGAGAG-AGAAAAAAA
* *
33867096 GAAAATGAGAGTGAGAAAAA
1 GAAAATGAGAGAGAAAAAAA
33867116 GAAAA
1 GAAAA
33867121 AAGAATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (20 bp):
GAAAATGAGAGAGAAAAAAA
Found at i:33867136 original size:6 final size:6
Alignment explanation
Indices: 33867127--33867156 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
33867117 AAAAAAGAAT
*
33867127 TTGAGA TTGAGA TTGAGA TTGATA TTGAGA
1 TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA
33867157 AAAAAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (6 bp):
TTGAGA
Found at i:33868687 original size:9 final size:9
Alignment explanation
Indices: 33868669--33868697 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
33868659 CTGGAATAAA
33868669 TTAA-TTAG
1 TTAAGTTAG
33868677 TTAAGTTAG
1 TTAAGTTAG
33868686 TTAAGTTAG
1 TTAAGTTAG
33868695 TTA
1 TTA
33868698 TTTTAGCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (9 bp):
TTAAGTTAG
Found at i:33871365 original size:69 final size:68
Alignment explanation
Indices: 33871246--33871377 Score: 169
Period size: 69 Copynumber: 1.9 Consensus size: 68
33871236 GAAAGAGATT
*
33871246 GAAAAAGAAATTGAATGAAAACAAAAAGAAAAAGAAATTTCAAAATAAAAAGAAATCGAAAAAGT
1 GAAAAAGAAAATGAATGAAAACAAAAAGAAAAAGAAATTTCAAAATAAAAA-AAATCGAAAAAGT
33871311 GAGA
65 GAGA
* * * * *
33871315 GAAAAAGAAAATGAA-GAAAAGAAAATTGAAAAAGAAA-TTGAGAATGAAAAAAAATTGAAAAAG
1 GAAAAAGAAAATGAATGAAAACAAAA-AGAAAAAGAAATTTCAAAAT-AAAAAAAATCGAAAAAG
33871378 AAAAAGCGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
68 26 0.47
69 29 0.53
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.13
Consensus pattern (68 bp):
GAAAAAGAAAATGAATGAAAACAAAAAGAAAAAGAAATTTCAAAATAAAAAAAATCGAAAAAGTG
AGA
Found at i:33871369 original size:17 final size:18
Alignment explanation
Indices: 33871335--33871383 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
33871325 ATGAAGAAAA
33871335 GAAAATTGAAAAAGAAATT
1 GAAAA-TGAAAAAGAAATT
*
33871354 GAGAATGAAAAA-AAATT
1 GAAAATGAAAAAGAAATT
*
33871371 GAAAAAGAAAAAG
1 GAAAATGAAAAAG
33871384 CGAAAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.58
18 7 0.27
19 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.14
Consensus pattern (18 bp):
GAAAATGAAAAAGAAATT
Found at i:33871378 original size:29 final size:27
Alignment explanation
Indices: 33871315--33871381 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 27
33871305 AAAAGTGAGA
33871315 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAGAAAATT
*
33871342 GAAAAAGAAATTGAGAATGAAAA-AAAATT
1 GAAAAAGAAAAT--GAA-GAAAAGAAAATT
33871371 GAAAAAGAAAA
1 GAAAAAGAAAA
33871382 AGCGAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 11 0.31
29 19 0.54
30 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (27 bp):
GAAAAAGAAAATGAAGAAAAGAAAATT
Found at i:33871435 original size:33 final size:33
Alignment explanation
Indices: 33871398--33871460 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
33871388 AAAAGAAATT
33871398 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
33871431 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
33871461 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:33874557 original size:20 final size:20
Alignment explanation
Indices: 33874534--33874587 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33874524 AGTTTTTCCC
*
33874534 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33874554 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33874574 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33874588 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33874569 original size:30 final size:30
Alignment explanation
Indices: 33874534--33874607 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33874524 AGTTTTTCCC
33874534 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33874564 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33874594 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33874608 TGGCTTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33874597 original size:20 final size:20
Alignment explanation
Indices: 33874534--33874598 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33874524 AGTTTTTCCC
* * * *
33874534 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33874554 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33874573 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33874594 AGCTC
1 AGCTC
33874599 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33881297 original size:23 final size:23
Alignment explanation
Indices: 33881267--33881325 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
33881257 CCTTTTTGAA
*
33881267 CCATTTCCCTTTCAAACCAAATT
1 CCATTTCCATTTCAAACCAAATT
**
33881290 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCAAACCAAATT
* *
33881313 ACATTACCATTTC
1 CCATTTCCATTTC
33881326 GTACCAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.02, T:0.37
Consensus pattern (23 bp):
CCATTTCCATTTCAAACCAAATT
Found at i:33881326 original size:23 final size:23
Alignment explanation
Indices: 33881282--33881333 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
33881272 TCCCTTTCAA
* *
33881282 ACCAAATTCCATTTCCATTTCGT
1 ACCAAATTACATTACCATTTCGT
33881305 ACCAAATTACATTACCATTTCGT
1 ACCAAATTACATTACCATTTCGT
33881328 ACCAAA
1 ACCAAA
33881334 CCCAAACCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.33
Consensus pattern (23 bp):
ACCAAATTACATTACCATTTCGT
Found at i:33885143 original size:20 final size:20
Alignment explanation
Indices: 33885096--33885143 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
33885086 AGTAAGCTCG
33885096 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
33885116 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
33885136 GTTGAGCT
1 GTTGAGCT
33885144 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:33886869 original size:48 final size:48
Alignment explanation
Indices: 33886814--33886919 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
33886804 TTGTCTTTTC
*
33886814 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
33886862 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
33886910 TTTCTTTTTC
1 TTTCTTTTTC
33886920 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:33887990 original size:13 final size:13
Alignment explanation
Indices: 33887948--33887983 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
33887938 ATATACTTCG
33887948 ATTTTTTTTTTGA
1 ATTTTTTTTTTGA
33887961 ATTTTTTTTTTGA
1 ATTTTTTTTTTGA
33887974 ATTTTTTTTT
1 ATTTTTTTTT
33887984 CAAATTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (13 bp):
ATTTTTTTTTTGA
Found at i:33889558 original size:20 final size:20
Alignment explanation
Indices: 33889511--33889558 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
33889501 AGTAAGCTCG
33889511 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
33889531 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
33889551 GTTGAGCT
1 GTTGAGCT
33889559 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:33900193 original size:18 final size:17
Alignment explanation
Indices: 33900161--33900196 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
33900151 AAGGAAGACA
33900161 AAAAAGAAATCAAAAAG
1 AAAAAGAAATCAAAAAG
*
33900178 AAAAAGAGAATGAAAAAG
1 AAAAAGA-AATCAAAAAG
33900196 A
1 A
33900197 GCAAAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.06
Consensus pattern (17 bp):
AAAAAGAAATCAAAAAG
Found at i:33901412 original size:56 final size:55
Alignment explanation
Indices: 33901296--33901413 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
33901286 TGCATGCTTT
* * * *
33901296 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
33901350 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
33901406 CATTAAAT
1 CATTAAAT
33901414 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:33902062 original size:20 final size:20
Alignment explanation
Indices: 33902037--33902091 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
33902027 ACGAGTTAAA
* *
33902037 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
33902057 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
33902077 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
33902092 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:33903002 original size:16 final size:15
Alignment explanation
Indices: 33902976--33903005 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
33902966 TTTCAATCCA
33902976 TCATCCCAATCAAAG
1 TCATCCCAATCAAAG
33902991 TCATCACCAATCAAA
1 TCATC-CCAATCAAA
33903006 AATTGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
TCATCCCAATCAAAG
Found at i:33904540 original size:11 final size:11
Alignment explanation
Indices: 33904526--33904566 Score: 73
Period size: 11 Copynumber: 3.6 Consensus size: 11
33904516 AATACAAATT
33904526 TTTTTTTTGAA
1 TTTTTTTTGAA
33904537 TTTTTTTTGAA
1 TTTTTTTTGAA
33904548 TTTTTTTTTGAA
1 -TTTTTTTTGAA
33904560 TTTTTTT
1 TTTTTTT
33904567 CCTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:33904542 original size:12 final size:12
Alignment explanation
Indices: 33904525--33904566 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
33904515 GAATACAAAT
33904525 TTTTTTTTTGAA
1 TTTTTTTTTGAA
33904537 -TTTTTTTTGAA
1 TTTTTTTTTGAA
33904548 TTTTTTTTTGAA
1 TTTTTTTTTGAA
33904560 TTTTTTT
1 TTTTTTT
33904567 CCTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:33904574 original size:23 final size:23
Alignment explanation
Indices: 33904523--33904576 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
33904513 TTGAATACAA
**
33904523 ATTTTTTTTTTGAATTTTTTTTG
1 ATTTTTTTTTTGAATTTTTTTCC
*
33904546 AATTTTTTTTTGAATTTTTTTCC
1 ATTTTTTTTTTGAATTTTTTTCC
33904569 -TTTTTTTT
1 ATTTTTTTT
33904577 ACAATACCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.78
Consensus pattern (23 bp):
ATTTTTTTTTTGAATTTTTTTCC
Found at i:33905734 original size:56 final size:55
Alignment explanation
Indices: 33905618--33905735 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
33905608 TGCATGCTTT
* * * *
33905618 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
33905672 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
33905728 CATTAAAT
1 CATTAAAT
33905736 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:33906383 original size:20 final size:20
Alignment explanation
Indices: 33906358--33906412 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
33906348 ACGAGTTAAA
* *
33906358 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
33906378 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
33906398 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
33906413 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:33910827 original size:13 final size:12
Alignment explanation
Indices: 33910797--33910852 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
33910787 AATGTGAAAC
*
33910797 AAAAAGAAATTG
1 AAAAAGAAGTTG
33910809 AAAAAGAAGTTG
1 AAAAAGAAGTTG
*
33910821 AAGAAAGAAG-AG
1 AA-AAAGAAGTTG
*
33910833 AAAATG-AGTTAG
1 AAAAAGAAGTT-G
33910845 AAAAAGAA
1 AAAAAGAA
33910853 ACAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 22 0.63
13 8 0.23
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.12
Consensus pattern (12 bp):
AAAAAGAAGTTG
Found at i:33920609 original size:27 final size:26
Alignment explanation
Indices: 33920579--33920647 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
33920569 CCTCACGTGG
33920579 TAAAATGACTGCTATGCCCCTATGCTA
1 TAAAATGACTG-TATGCCCCTATGCTA
* * *
33920606 TAAAATGACTATTATTCCCCTATGTTA
1 TAAAATGACT-GTATGCCCCTATGCTA
33920633 TAAAATGACTGTATG
1 TAAAATGACTGTATG
33920648 ATTTATGTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (26 bp):
TAAAATGACTGTATGCCCCTATGCTA
Found at i:33920968 original size:34 final size:32
Alignment explanation
Indices: 33920925--33920988 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 32
33920915 TGTTACTATC
33920925 ACTATAATGGGCTAAGGCCCACACTGATACTGAT
1 ACTATAATGGGCTAAGGCCCA-ACTGA-ACTGAT
*
33920959 ACTATAATGGGCTAGGGCCCAACTGAACTG
1 ACTATAATGGGCTAAGGCCCAACTGAACTG
33920989 GACTGTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 4 0.14
33 5 0.17
34 20 0.69
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (32 bp):
ACTATAATGGGCTAAGGCCCAACTGAACTGAT
Found at i:33928064 original size:27 final size:27
Alignment explanation
Indices: 33928027--33928172 Score: 233
Period size: 27 Copynumber: 5.4 Consensus size: 27
33928017 AAACTATTAA
33928027 AAAATGACTGTTATG-CCCTCATG-TAGT
1 AAAATGACTGTTATGCCCCT-ATGTTA-T
*
33928054 AAAATGACTGTTATGCCCCTATGCTAT
1 AAAATGACTGTTATGCCCCTATGTTAT
*
33928081 AAAATGACTGTTAAGCCCCTATGTTAT
1 AAAATGACTGTTATGCCCCTATGTTAT
33928108 AAAATGACTGTTATGCCCCTATGTTAT
1 AAAATGACTGTTATGCCCCTATGTTAT
*
33928135 AAAATGACAGTTATGCCCCTATGTTAT
1 AAAATGACTGTTATGCCCCTATGTTAT
33928162 AAAATGACTGT
1 AAAATGACTGT
33928173 ATGATTTATG
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 106 0.95
28 6 0.05
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (27 bp):
AAAATGACTGTTATGCCCCTATGTTAT
Found at i:33930481 original size:24 final size:26
Alignment explanation
Indices: 33930448--33930500 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
33930438 TTTAATTATA
33930448 ATTTAATATAAACACAT-ATAATATT
1 ATTTAATATAAACACATAATAATATT
*
33930473 ATTT-ATATAAACATATAAATAATATT
1 ATTTAATATAAACACAT-AATAATATT
33930499 AT
1 AT
33930501 ATTTTTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 11 0.44
25 4 0.16
26 10 0.40
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTTAATATAAACACATAATAATATT
Found at i:33930612 original size:45 final size:44
Alignment explanation
Indices: 33930550--33930640 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
33930540 TGTATGTATT
** * * **
33930550 TGAAGGTCAAATTGATAGAATTTGTAAATGTGAAGGGTTAAATG
1 TGAAGGTCAAACAGATAGAATGTGTAAATATGAAGGACTAAATG
*
33930594 TGAAGGATCAAACAGATAGAATGTGTAAGTATGAAGGACTAAATG
1 TGAAGG-TCAAACAGATAGAATGTGTAAATATGAAGGACTAAATG
33930639 TG
1 TG
33930641 TTATTATACT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 6 0.15
45 33 0.85
ACGTcount: A:0.41, C:0.04, G:0.27, T:0.27
Consensus pattern (44 bp):
TGAAGGTCAAACAGATAGAATGTGTAAATATGAAGGACTAAATG
Found at i:33932532 original size:353 final size:353
Alignment explanation
Indices: 33931884--33932589 Score: 1358
Period size: 353 Copynumber: 2.0 Consensus size: 353
33931874 TTTTTCTTTT
*
33931884 TTATGATTACTATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
1 TTATGATTACCATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
*
33931949 ACGATCTAGTTCAGAAACCAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
66 ACGATCTAGTTCAGAAAACAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
33932014 TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
131 TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
* *
33932079 GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGAACCGCAGAGGCCATGGTTGG
196 GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGAACCACAGAGGCCATGGTAGG
*
33932144 TCTATAAGCAGTATCTTCTTGAACACAACGCAACCCAAGCTGGATACATCTCGTTATTTCACTTC
261 TCTATAAGCAGTATCTTCTTGAACACAAAGCAACCCAAGCTGGATACATCTCGTTATTTCACTTC
33932209 TCGAGCCATCCCTCAGAATTGGATCTAC
326 TCGAGCCATCCCTCAGAATTGGATCTAC
33932237 TTATGATTACCATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
1 TTATGATTACCATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
33932302 ACGATCTAGTTCAGAAAACAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
66 ACGATCTAGTTCAGAAAACAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
33932367 TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
131 TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
33932432 GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGAACCACAGAGGCCATGGTAGG
196 GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGAACCACAGAGGCCATGGTAGG
*
33932497 TCTATAAGCAGTATCTTCTTGAACACAAAGCAACCCAAGCTGGATACATCTCGTTTTTTCACTTC
261 TCTATAAGCAGTATCTTCTTGAACACAAAGCAACCCAAGCTGGATACATCTCGTTATTTCACTTC
33932562 TCGAGCCATCCCTCAGAATTGGATCTAC
326 TCGAGCCATCCCTCAGAATTGGATCTAC
33932590 AACTTCCAAA
Statistics
Matches: 347, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
353 347 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (353 bp):
TTATGATTACCATGTAAGAGAAAATATGTTATGGAAGTACAAAGTACCATCTTCAAACTTCAATG
ACGATCTAGTTCAGAAAACAAAGCCTAATTGACAGAGACTTGGACGGTTTCTCTTTTAGATTGAT
TAGAGAAGGATGATGACTTCGACTTCGTTTCTCTCTCCCTGATGGAATGCATAGACAATGGAGGT
GCCGATGGCATTGGAAGAGAGATGGAATAGCTACTAAGCATGAGAACCACAGAGGCCATGGTAGG
TCTATAAGCAGTATCTTCTTGAACACAAAGCAACCCAAGCTGGATACATCTCGTTATTTCACTTC
TCGAGCCATCCCTCAGAATTGGATCTAC
Found at i:33935707 original size:49 final size:48
Alignment explanation
Indices: 33935653--33935746 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 48
33935643 TTTTTTTTGG
* * * *
33935653 AGGCACCAACTTTCAATGAATTATTTTTTAGTGTTAATTCTAGATGTGA
1 AGGCACCAACTTTCAATGAATTA-CTTTAAGTATTAACTCTAGATGTGA
*
33935702 AGGCACCAACTTTCAATGGATTACTTTAAGTATTAACTCTAGATG
1 AGGCACCAACTTTCAATGAATTACTTTAAGTATTAACTCTAGATG
33935747 GGACGACACT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 18 0.45
49 22 0.55
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (48 bp):
AGGCACCAACTTTCAATGAATTACTTTAAGTATTAACTCTAGATGTGA
Found at i:33938322 original size:26 final size:27
Alignment explanation
Indices: 33938292--33938407 Score: 89
Period size: 27 Copynumber: 4.3 Consensus size: 27
33938282 CATAAAAGCT
33938292 TTTC-TTTCATGA-TTCACTACAAAGAC
1 TTTCTTTTCAT-ATTTCACTACAAAGAC
* *
33938318 TTTCTTTTCATATTTCGCTACAAAGGC
1 TTTCTTTTCATATTTCACTACAAAGAC
** *
33938345 TTTTCTCTTGT-AT-TTTGTC-ACAAAGGC
1 -TTTCT-TT-TCATATTTCACTACAAAGAC
* *
33938372 TTTCCTTTCATATTTCACCACAAAGAC
1 TTTCTTTTCATATTTCACTACAAAGAC
*
33938399 TTTCCTTTC
1 TTTCTTTTC
33938408 TTGACATGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
24 1 0.01
25 4 0.05
26 13 0.18
27 42 0.57
28 9 0.12
29 4 0.05
30 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (27 bp):
TTTCTTTTCATATTTCACTACAAAGAC
Found at i:33939153 original size:15 final size:16
Alignment explanation
Indices: 33939133--33939162 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33939123 GTCCCATAAA
33939133 TTAAAAAT-ATATATC
1 TTAAAAATAATATATC
33939148 TTAAAAATAATATAT
1 TTAAAAATAATATAT
33939163 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAAATAATATATC
Found at i:33939876 original size:30 final size:30
Alignment explanation
Indices: 33939804--33939876 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
33939794 TGCAACTAAG
** *
33939804 TTAGGGGCTTAATTAAAATTTTTAAAATTT
1 TTAGGGGCTTAATTAAAATCCTTAAAACTT
** *
33939834 TTAATGGTTTAATTAAAATCCTTAAAACTT
1 TTAGGGGCTTAATTAAAATCCTTAAAACTT
33939864 TTAGGGGCTTAAT
1 TTAGGGGCTTAAT
33939877 GAGGATCTCC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.44
Consensus pattern (30 bp):
TTAGGGGCTTAATTAAAATCCTTAAAACTT
Found at i:33939940 original size:63 final size:60
Alignment explanation
Indices: 33939855--33940001 Score: 165
Period size: 63 Copynumber: 2.4 Consensus size: 60
33939845 ATTAAAATCC
* * *
33939855 TTAAAACTTTTAG-GGGCTTAATGAGGATCTCCAAAAAATTTGGAGAGTCTAATTAAAATTATT
1 TTAAAAATTTTAGAAGGCTTAATGAGAATCTCCAAAAAA-TTGG-GAGTCTAATTAAAA--ATT
* ** *
33939918 TTAAAAATTTTAGAAGGC-TAATGAGAATTTTTAAAAAATTGGGGGTCTAATTAAAAATT
1 TTAAAAATTTTAGAAGGCTTAATGAGAATCTCCAAAAAATTGGGAGTCTAATTAAAAATT
33939977 TTAAAAATTATTA-AAGGCTTAATGA
1 TTAAAAATT-TTAGAAGGCTTAATGA
33940002 TAACTTTTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
59 17 0.23
60 9 0.12
61 13 0.18
62 4 0.05
63 28 0.38
64 3 0.04
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (60 bp):
TTAAAAATTTTAGAAGGCTTAATGAGAATCTCCAAAAAATTGGGAGTCTAATTAAAAATT
Found at i:33940016 original size:59 final size:60
Alignment explanation
Indices: 33939887--33940014 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 60
33939877 GAGGATCTCC
* *
33939887 AAAAAATTTGGAGAGTCTAATTAAAATTATTTTAAAAATTTTAGAAGGCTAATGAGAATTTTT
1 AAAAAA-TTGG-GGGTCTAATTAAAA-TATTTTAAAAATTTTAGAAGGCTAATGAGAACTTTT
*
33939950 AAAAAATTGGGGGTCTAATTAAAA-ATTTTAAAAATTATTA-AAGGCTTAATGATAACTTTT
1 AAAAAATTGGGGGTCTAATTAAAATATTTTAAAAATT-TTAGAAGGC-TAATGAGAACTTTT
*
33940010 CAAAA
1 AAAAA
33940015 TTTTAGGGGC
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
59 17 0.29
60 19 0.32
61 13 0.22
62 4 0.07
63 6 0.10
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (60 bp):
AAAAAATTGGGGGTCTAATTAAAATATTTTAAAAATTTTAGAAGGCTAATGAGAACTTTT
Found at i:33942461 original size:109 final size:108
Alignment explanation
Indices: 33942294--33942697 Score: 603
Period size: 109 Copynumber: 3.7 Consensus size: 108
33942284 GATAAACCAG
* * * *
33942294 AAATCGAAACCCAGTACCTTAGGGCACG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * * *
33942358 TTGAAATTTTTGAAGGGGTATTTAGCTATTTGGTTGAATGAGAA
66 TTGAAATTTTTGAA-GGATATTAAGCCATTTGGTTGAACGAGAA
*
33942402 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
33942467 TTGAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTT--GAAGGATATTAAGCCATTTGGTTGAACGAGAA
* * * *
33942512 AAATCGACATCCAGCACCTTAGAGCATGTTTTCTCGAATTTCCAAATGCAAAACATTGTCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
33942577 TTGAAATTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTT-TGAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
33942621 AAATCGACACCCAGCACCTTAAGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
33942686 TAGAAATATTTT
66 TTGAAAT-TTTT
33942698 TCTTTTTTGA
Statistics
Matches: 267, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
108 25 0.09
109 142 0.53
110 98 0.37
111 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (108 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTGAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:33943340 original size:12 final size:12
Alignment explanation
Indices: 33943332--33943378 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
33943322 TATATAAAAG
33943332 CAATAATAATAA
1 CAATAATAATAA
*
33943344 TAATAATAATAA
1 CAATAATAATAA
33943356 CAATAATAATAA
1 CAATAATAATAA
33943368 CAATAATAATA
1 CAATAATAATA
33943379 TGAAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (12 bp):
CAATAATAATAA
Found at i:33943341 original size:3 final size:3
Alignment explanation
Indices: 33943333--33943378 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
33943323 ATATAAAAGC
* *
33943333 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33943379 TGAAATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:33945130 original size:125 final size:125
Alignment explanation
Indices: 33944973--33946604 Score: 2933
Period size: 125 Copynumber: 13.1 Consensus size: 125
33944963 AGATTTGTCA
* *
33944973 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGTTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
* *
33945038 TACATCACTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
33945098 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
* *
33945163 TGCATTGCTTGGGGCGTAAGATTCGCTGTTGTAGCTGTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
* *
33945223 TTTAATCTATTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATGTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
* *
33945288 TGAATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
33945348 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
*
33945413 TGCATTGCTTGGGGCGTAAGATTCGCTGTTGTAG-TTGTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTT-TAATCAAGATTCACCGATGTGGC
*
33945473 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATGTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
* *
33945538 TGCTTTGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
* *
33945598 TTTAATCTTTTTAACTGCAATGTTGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAT
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
* *
33945663 TGCATTGCTTGGGGCGTAAGATTCGCTGTTTTAGCTTTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
33945723 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
*
33945788 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTGTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
* * *
33945848 TTTAATCTTTTTAACTACAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATGTATTCCAG
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
33945913 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
33945973 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
* * *
33946038 TGCATTGCTTGGGGTGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGAC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
*
33946098 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATGTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
*
33946163 TGCATCGCTTGGGGCATAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
*
33946223 TTTAATCTTTTTAACTGCAATGTCGAAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
* * *
33946288 TGTATTGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
*
33946348 TTTAATCTTTTTAACTACAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
33946413 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
*
33946473 TTTAATCTTTTTAACTGCAATGTCGGAGAAAAAAGATTCACCAATTTGGCTTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
* *
33946538 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTTACCGAGGTGGC
66 TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
33946598 TTTAATC
1 TTTAATC
33946605 GTTTGAATTG
Statistics
Matches: 1446, Mismatches: 59, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
124 2 0.00
125 1442 1.00
126 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (125 bp):
TTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCAC
TGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGC
Found at i:33947821 original size:42 final size:43
Alignment explanation
Indices: 33947775--33947876 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
33947765 TGCCACGATC
*
33947775 TGATCAAAATTTGAGCT-GCTCTGATCACCTCATCCCCCAATT-
1 TGATCAAAATTTGAGCTCGCTCTGATCACCTAATCCCCC-ATTA
* **
33947817 TGATCCAAAATTTGAG-TCGCTCTGATCACTTAATGTCCCATTA
1 TGAT-CAAAATTTGAGCTCGCTCTGATCACCTAATCCCCCATTA
33947860 TGATCAAAAGTTTGAGC
1 TGATCAAAA-TTTGAGC
33947877 CGCCCTTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
42 13 0.25
43 38 0.75
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (43 bp):
TGATCAAAATTTGAGCTCGCTCTGATCACCTAATCCCCCATTA
Found at i:33949339 original size:22 final size:23
Alignment explanation
Indices: 33949296--33949340 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
33949286 TTAATATAAA
*
33949296 ATTATATTATTTATAATTTATAT
1 ATTATATTATTTATAACTTATAT
33949319 ATTA-ATT-TTTATCAACTTATAT
1 ATTATATTATTTAT-AACTTATAT
33949341 TAGAATTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTATATTATTTATAACTTATAT
Found at i:33949612 original size:21 final size:20
Alignment explanation
Indices: 33949529--33949619 Score: 57
Period size: 19 Copynumber: 4.6 Consensus size: 20
33949519 ATAAATACAC
*
33949529 TTATAAACATATTAAATCGAG
1 TTATAAACAT-TTAAATCAAG
* *
33949550 TTATAAA-ATTT-CATCCAAA
1 TTATAAACATTTAAAT-CAAG
* * *
33949569 TTAAAAAC-TTTCAAAT-TAT
1 TTATAAACATTT-AAATCAAG
33949588 TTATAAACATATTAAATCAAG
1 TTATAAACAT-TTAAATCAAG
33949609 TTATAAA-ATTT
1 TTATAAACATTT
33949620 CATCCAAATT
Statistics
Matches: 53, Mismatches: 10, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
18 2 0.04
19 23 0.43
20 9 0.17
21 19 0.36
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
TTATAAACATTTAAATCAAG
Found at i:33949621 original size:59 final size:59
Alignment explanation
Indices: 33949529--33949647 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
33949519 ATAAATACAC
*
33949529 TTATAAACATATTAAATCGAGTTATAAAATTTCATCCAAATTAAAAACTTTCAAATTAT
1 TTATAAACATATTAAATCAAGTTATAAAATTTCATCCAAATTAAAAACTTTCAAATTAT
33949588 TTATAAACATATTAAATCAAGTTATAAAATTTCATCCAAATTAAAAACTTTCAAATTAT
1 TTATAAACATATTAAATCAAGTTATAAAATTTCATCCAAATTAAAAACTTTCAAATTAT
33949647 T
1 T
33949648 ATCTTCGAGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.38
Consensus pattern (59 bp):
TTATAAACATATTAAATCAAGTTATAAAATTTCATCCAAATTAAAAACTTTCAAATTAT
Found at i:33951204 original size:16 final size:16
Alignment explanation
Indices: 33951183--33951214 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33951173 ATTTTGTTGC
33951183 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
33951199 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
33951215 CTTTCAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTACTTTTTCA
Done.