Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 21 of 310
Found at i:5524678 original size:9 final size:9
Alignment explanation
Indices: 5524492--5524680 Score: 81
Period size: 10 Copynumber: 20.7 Consensus size: 9
5524482 TTTGTATTTT
5524492 TTTTATATAA
1 TTTT-TATAA
5524502 TTTTTATAA
1 TTTTTATAA
*
5524511 GTTTATATCAA
1 -TTTTTAT-AA
*
5524522 TTTTAAT-A
1 TTTTTATAA
*
5524530 TTTTTAATAT
1 TTTTT-ATAA
*
5524540 TTTTTACAA
1 TTTTTATAA
*
5524549 TTTTTATTAG
1 TTTTTA-TAA
5524559 TTTTTA-AGA
1 TTTTTATA-A
*
5524568 ATTTTA-AA
1 TTTTTATAA
5524576 TTTTTA-AA
1 TTTTTATAA
**
5524584 AATTTATATA
1 TTTTTATA-A
*
5524594 TTTTAAATAA
1 TTTT-TATAA
*
5524604 GTTTTATTAA
1 TTTTTA-TAA
*
5524614 -TTTAAT-A
1 TTTTTATAA
5524621 TTTTTATAA
1 TTTTTATAA
*
5524630 CTTATTAT-A
1 -TTTTTATAA
5524639 TTTTTAT-A
1 TTTTTATAA
5524647 TATTTT-TAA
1 T-TTTTATAA
* *
5524656 TATTTACAA
1 TTTTTATAA
5524665 GTTTTTATAA
1 -TTTTTATAA
5524675 TTTTTA
1 TTTTTA
5524681 ATCATTTTAA
Statistics
Matches: 135, Mismatches: 27, Indels: 35
0.69 0.14 0.18
Matches are distributed among these distances:
7 1 0.01
8 36 0.27
9 43 0.32
10 50 0.37
11 5 0.04
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:5525170 original size:11 final size:11
Alignment explanation
Indices: 5525140--5525179 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
5525130 AATTGTATTG
*
5525140 TATTTATGATT
1 TATTTATAATT
5525151 TAAATTTATAATT
1 T--ATTTATAATT
5525164 TATTTATAATT
1 TATTTATAATT
5525175 TATTT
1 TATTT
5525180 TAAAAAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TATTTATAATT
Found at i:5525215 original size:19 final size:19
Alignment explanation
Indices: 5525174--5525218 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5525164 TATTTATAAT
* *
5525174 TTATTTTAAAAAAGTATAT
1 TTATTTTAAAAAAATATAC
5525193 TTATTTTAAAAAAATA-AGC
1 TTATTTTAAAAAAATATA-C
5525212 TTATTTT
1 TTATTTT
5525219 CATTTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
TTATTTTAAAAAAATATAC
Found at i:5525929 original size:5 final size:5
Alignment explanation
Indices: 5525919--5525966 Score: 78
Period size: 5 Copynumber: 9.4 Consensus size: 5
5525909 AACTGTGAAA
*
5525919 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
5525967 CACACAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 36 0.90
6 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:5529990 original size:5 final size:5
Alignment explanation
Indices: 5529980--5530017 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
5529970 ATTTGTGAAA
*
5529980 AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
5530018 CACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:5534136 original size:28 final size:28
Alignment explanation
Indices: 5534103--5534158 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
5534093 CCAAAATAAT
5534103 ATCAAAACATCCACTTGTTGGATAAATG
1 ATCAAAACATCCACTTGTTGGATAAATG
5534131 ATCAAAACATCCACTTGTTGGATAAATG
1 ATCAAAACATCCACTTGTTGGATAAATG
5534159 GACTCATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (28 bp):
ATCAAAACATCCACTTGTTGGATAAATG
Found at i:5535197 original size:23 final size:25
Alignment explanation
Indices: 5535157--5535206 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
5535147 AATCAATCAT
*
5535157 AATTAATCACG-AATTAAAT-TTAA
1 AATTAATCACGAAATAAAATATTAA
5535180 AATTAATCTA-GAAATAAAATATTAA
1 AATTAATC-ACGAAATAAAATATTAA
5535205 AA
1 AA
5535207 AAAACTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 9 0.39
24 8 0.35
25 6 0.26
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (25 bp):
AATTAATCACGAAATAAAATATTAA
Found at i:5536068 original size:44 final size:44
Alignment explanation
Indices: 5536019--5536150 Score: 219
Period size: 44 Copynumber: 3.0 Consensus size: 44
5536009 ATTAATGTAA
* *
5536019 TATTTGGTAGTTCAAAATTAGCTGAAAGCTCTAGAAGAGCTAAT
1 TATTTGGTAGTACAAAATTAGTTGAAAGCTCTAGAAGAGCTAAT
*
5536063 TATTTGGCAGTACAAAATTAGTTGAAAGCTCTAGAAGAGCTAAT
1 TATTTGGTAGTACAAAATTAGTTGAAAGCTCTAGAAGAGCTAAT
* *
5536107 TATTTAGTAGTACAAAATTAGTTGAAAACTCTAGAAGAGCTAAT
1 TATTTGGTAGTACAAAATTAGTTGAAAGCTCTAGAAGAGCTAAT
5536151 ATTAATGAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 82 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (44 bp):
TATTTGGTAGTACAAAATTAGTTGAAAGCTCTAGAAGAGCTAAT
Found at i:5537293 original size:13 final size:13
Alignment explanation
Indices: 5537275--5537299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5537265 AAAATTATTT
5537275 GAGAATTTTTTTG
1 GAGAATTTTTTTG
5537288 GAGAATTTTTTT
1 GAGAATTTTTTT
5537300 TAAACTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
GAGAATTTTTTTG
Found at i:5542956 original size:16 final size:17
Alignment explanation
Indices: 5542935--5542970 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
5542925 TAAAGAGAGA
5542935 GAAATAA-TACTTGGAT
1 GAAATAATTACTTGGAT
5542951 GAAATAATTACTTGGAT
1 GAAATAATTACTTGGAT
5542968 GAA
1 GAA
5542971 TTATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (17 bp):
GAAATAATTACTTGGAT
Found at i:5546166 original size:14 final size:14
Alignment explanation
Indices: 5546122--5546167 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
5546112 AGTTAATAAA
5546122 TTCTC-TTTAAGTT
1 TTCTCTTTTAAGTT
*
5546135 TT-TCTTTTCAAGAAT
1 TTCTCTTTT-AAG-TT
5546150 TTCTCTTTTAAGTT
1 TTCTCTTTTAAGTT
5546164 TTCT
1 TTCT
5546168 TTTAAAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
12 2 0.07
13 5 0.19
14 8 0.30
15 6 0.22
16 6 0.22
ACGTcount: A:0.17, C:0.15, G:0.07, T:0.61
Consensus pattern (14 bp):
TTCTCTTTTAAGTT
Found at i:5548475 original size:23 final size:23
Alignment explanation
Indices: 5548447--5548491 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
5548437 AAGAAATGTA
5548447 AGAAATTGAATTAAGAAGGCATT
1 AGAAATTGAATTAAGAAGGCATT
5548470 AGAAATTGAATTAAGAAGGCAT
1 AGAAATTGAATTAAGAAGGCAT
5548492 ACCTTGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.04, G:0.22, T:0.24
Consensus pattern (23 bp):
AGAAATTGAATTAAGAAGGCATT
Found at i:5549884 original size:49 final size:49
Alignment explanation
Indices: 5549718--5549956 Score: 316
Period size: 49 Copynumber: 4.8 Consensus size: 49
5549708 TGAGGTCGCA
* * * * *
5549718 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
5549769 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
*
5549819 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
5549868 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
5549917 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
5549957 CTTTGGCTAC
Statistics
Matches: 169, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
49 91 0.54
50 45 0.27
51 33 0.20
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:5549898 original size:99 final size:100
Alignment explanation
Indices: 5549711--5549958 Score: 347
Period size: 99 Copynumber: 2.5 Consensus size: 100
5549701 TCTATTGTGA
* * *
5549711 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
* **
5549776 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
5549811 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTA
*
5549874 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
5549910 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAACT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACT
5549959 TTGGCTACAA
Statistics
Matches: 129, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
98 41 0.32
99 46 0.36
100 1 0.01
101 41 0.32
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:5553846 original size:38 final size:38
Alignment explanation
Indices: 5553794--5554039 Score: 206
Period size: 38 Copynumber: 6.0 Consensus size: 38
5553784 ATTGATTCAT
*
5553794 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
5553832 TAACGTGGTACTAAGTGGATATGCGACGGTTACATATAGTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
5553873 ATTCATTAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
5553917 TAACGTGGTACTAAGTGGATATGCCACGGTTACATATAGTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
5553958 ATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATA
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
5554002 TAACGT-GTGCTAAGTGGATTTGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
5554039 T
1 T
5554040 TAATTTGAAA
Statistics
Matches: 168, Mismatches: 22, Indels: 37
0.74 0.10 0.16
Matches are distributed among these distances:
37 28 0.17
38 63 0.38
39 2 0.01
40 4 0.02
41 4 0.02
44 3 0.02
45 4 0.02
46 2 0.01
47 58 0.35
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:5553885 original size:85 final size:85
Alignment explanation
Indices: 5553742--5554032 Score: 512
Period size: 85 Copynumber: 3.4 Consensus size: 85
5553732 ACATATTGAT
* *
5553742 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTACTAAGTGGATATGCCACGGTTACATATAGTGATTCATTAACGTGGTGCTA
5553807 AGTGGATATACCACAGTTAA
66 AGTGGATATACCACAGTTAA
*
5553827 ACATGTAACGTGGTACTAAGTGGATATGCGACGGTTACATATAGTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTACTAAGTGGATATGCCACGGTTACATATAGTGATTCATTAACGTGGTGCTA
5553892 AGTGGATATACCACAGTTAA
66 AGTGGATATACCACAGTTAA
5553912 ACATGTAACGTGGTACTAAGTGGATATGCCACGGTTACATATAGTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTACTAAGTGGATATGCCACGGTTACATATAGTGATTCATTAACGTGGTGCTA
*
5553977 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACAGTTAA
* * *
5553997 ACATATAACGT-GTGCTAAGTGGATTTGCCACGGTTA
1 ACATGTAACGTGGTACTAAGTGGATATGCCACGGTTA
5554033 TACATGTTAA
Statistics
Matches: 198, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
84 23 0.12
85 175 0.88
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTACTAAGTGGATATGCCACGGTTACATATAGTGATTCATTAACGTGGTGCTA
AGTGGATATACCACAGTTAA
Found at i:5554015 original size:37 final size:38
Alignment explanation
Indices: 5553964--5554037 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 38
5553954 AGTGATTCAT
5553964 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATA
* * *
5554002 TAACGT-GTGCTAAGTGGATTTGCCACGGTTATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
5554038 GTTAATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 27 0.82
38 6 0.18
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATA
Found at i:5565548 original size:32 final size:32
Alignment explanation
Indices: 5565507--5565570 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
5565497 ATGGAGACGG
5565507 GTTAAGGGTGTTACAATAATAATATCAACTAA
1 GTTAAGGGTGTTACAATAATAATATCAACTAA
*
5565539 GTTAAGGGTGTTGCAATAATAATATCAACTAA
1 GTTAAGGGTGTTACAATAATAATATCAACTAA
5565571 CTAAGCAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.31
Consensus pattern (32 bp):
GTTAAGGGTGTTACAATAATAATATCAACTAA
Found at i:5566036 original size:46 final size:46
Alignment explanation
Indices: 5565970--5566061 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
5565960 CTAAGGTAAA
5565970 AAAATTCTTTACCCAAGCAACTAGTCTAGGTTAAGTTCACAAATTT
1 AAAATTCTTTACCCAAGCAACTAGTCTAGGTTAAGTTCACAAATTT
5566016 AAAATTCTTTACCCAAGCAACTAGTCTAGGTTAAGTTCACAAATTT
1 AAAATTCTTTACCCAAGCAACTAGTCTAGGTTAAGTTCACAAATTT
5566062 TTTTTAATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (46 bp):
AAAATTCTTTACCCAAGCAACTAGTCTAGGTTAAGTTCACAAATTT
Found at i:5566522 original size:32 final size:33
Alignment explanation
Indices: 5566458--5566523 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
5566448 TAGTGTTTTT
* * *
5566458 AATATTTTATATTTAATAGTATAATTTATTAAA
1 AATAATTTATATTTAATAGTAAAATATATTAAA
5566491 AATAATTTATATTT-ATAGTAAAGATAT-TTAAA
1 AATAATTTATATTTAATAGTAAA-ATATATTAAA
5566523 A
1 A
5566524 TTAGACTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (33 bp):
AATAATTTATATTTAATAGTAAAATATATTAAA
Found at i:5567022 original size:19 final size:19
Alignment explanation
Indices: 5566978--5567022 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
5566968 TTGTGTGTTT
*
5566978 AATTAGGCTTAATTAAGTGA
1 AATTA-GCTTAATTAAGAGA
*
5566998 ATTTAGCTTAATTAAGAGA
1 AATTAGCTTAATTAAGAGA
5567017 AATTAG
1 AATTAG
5567023 AAAAAAGGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (19 bp):
AATTAGCTTAATTAAGAGA
Found at i:5567693 original size:14 final size:15
Alignment explanation
Indices: 5567676--5567704 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5567666 GAAATGAAAT
5567676 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
5567690 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
5567705 GAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:5568542 original size:70 final size:70
Alignment explanation
Indices: 5568463--5568708 Score: 332
Period size: 70 Copynumber: 3.4 Consensus size: 70
5568453 ATGTGAACAA
5568463 ATTGGAAATTAAAAGTGATTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTA
1 ATTGGAAATTAAAAGTGATTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTA
5568528 TAATG
66 TAATG
5568533 ATTGGAAATTAAAAGTGATTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTA
1 ATTGGAAATTAAAAGTGATTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTA
5568598 TAATG
66 TAATG
* *
5568603 ATTGGAAATTAAAAGTGATTTGAATTGAA-TCAAATTGAATTAAATGAAGAAAATATGTGAGTAT
1 ATTGGAAATTAAAAGTGATTTGAATT-AAGT--AATTGAATT--AT---G-AATTATGTGAATAT
*
5568667 TTGAAATGTATATTG
57 TTGAAA-GTATAATG
* * *
5568682 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAATTAA-AAGTGATTTGAATT
5568709 TGATTGGAAA
Statistics
Matches: 159, Mismatches: 6, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
70 97 0.61
71 2 0.01
72 9 0.06
74 2 0.01
77 1 0.01
78 18 0.11
79 17 0.11
80 13 0.08
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (70 bp):
ATTGGAAATTAAAAGTGATTTGAATTAAGTAATTGAATTATGAATTATGTGAATATTTGAAAGTA
TAATG
Found at i:5568543 original size:34 final size:34
Alignment explanation
Indices: 5568505--5568613 Score: 93
Period size: 34 Copynumber: 3.1 Consensus size: 34
5568495 TTGAATTATG
5568505 AATTATGTGAATATTTGAAAGTATAATGATTGGA
1 AATTATGTGAATATTTGAAAGTATAATGATTGGA
* * *
5568539 AATTA---AAAGTGATTTGAATTAAGTA-ATTGAATTATG-
1 AATTATGTGAA-T-ATTTG-A--AAGTATAATG-ATT-GGA
5568575 AATTATGTGAATATTTGAAAGTATAATGATTGGA
1 AATTATGTGAATATTTGAAAGTATAATGATTGGA
5568609 AATTA
1 AATTA
5568614 AAAGTGATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 24
0.66 0.07 0.28
Matches are distributed among these distances:
31 2 0.04
32 1 0.02
33 6 0.11
34 19 0.33
35 6 0.11
36 14 0.25
37 6 0.11
38 1 0.02
39 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (34 bp):
AATTATGTGAATATTTGAAAGTATAATGATTGGA
Found at i:5568579 original size:36 final size:36
Alignment explanation
Indices: 5568469--5568579 Score: 101
Period size: 36 Copynumber: 3.1 Consensus size: 36
5568459 ACAAATTGGA
5568469 AATTAAAAGTGATTTGAATTAAGTAATTGAATTATG
1 AATTAAAAGTGATTTGAATTAAGTAATTGAATTATG
* * *
5568505 AATT--ATGTGAATATTTG-A--AAGTATAATG-ATT-GG
1 AATTAAAAGTG---ATTTGAATTAAGTA-ATTGAATTATG
5568538 AAATTAAAAGTGATTTGAATTAAGTAATTGAATTATG
1 -AATTAAAAGTGATTTGAATTAAGTAATTGAATTATG
5568575 AATTA
1 AATTA
5568580 TGTGAATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 24
0.66 0.07 0.28
Matches are distributed among these distances:
33 6 0.11
34 17 0.30
35 6 0.11
36 22 0.39
37 6 0.11
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (36 bp):
AATTAAAAGTGATTTGAATTAAGTAATTGAATTATG
Found at i:5575516 original size:40 final size:40
Alignment explanation
Indices: 5575443--5575518 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
5575433 ACACATCATG
* * *
5575443 TGGGGATAAAATTAACCCACCTACCCCTGCACACCAAATA
1 TGGGGATAAAATCAACCCACCTAACCCTACACACCAAATA
* * *
5575483 TGGGGATAAAATCGACCCATCTAACCTTACACACCA
1 TGGGGATAAAATCAACCCACCTAACCCTACACACCA
5575519 TAAAGCACCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCTAACCCTACACACCAAATA
Found at i:5575680 original size:41 final size:41
Alignment explanation
Indices: 5575602--5575680 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
5575592 AGATCCTTCT
* **
5575602 TTCAACTTCATCAAACCCACCTCAATGCAATGTATCATTCC
1 TTCAACTTCATCAAACCCACCCCAATGCAATACATCATTCC
5575643 TTCAACTTCATCAAACCCACCCCAATGCAATACATCAT
1 TTCAACTTCATCAAACCCACCCCAATGCAATACATCAT
5575681 ACACGAATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.34, C:0.35, G:0.04, T:0.27
Consensus pattern (41 bp):
TTCAACTTCATCAAACCCACCCCAATGCAATACATCATTCC
Found at i:5577296 original size:23 final size:23
Alignment explanation
Indices: 5577259--5577344 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
5577249 CTTTGCCTAG
* * *
5577259 CAGGCACTTTATGTGTCGTATTT
1 CAGGCACCTCATGTGTCGTATAT
*
5577282 CAGGCACCTCGTGTGTC--ATAT
1 CAGGCACCTCATGTGTCGTATAT
*
5577303 CAGGTACCTCATGTGTCGT-T-T
1 CAGGCACCTCATGTGTCGTATAT
* *
5577324 CAGGTA-CTTATGTGTCGTATA
1 CAGGCACCTCATGTGTCGTATA
5577345 CTGATCAGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
20 11 0.21
21 26 0.50
22 1 0.02
23 14 0.27
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (23 bp):
CAGGCACCTCATGTGTCGTATAT
Found at i:5577338 original size:20 final size:21
Alignment explanation
Indices: 5577269--5577341 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
5577259 CAGGCACTTT
*
5577269 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTCG--TTTCAGGTACCTC
* * *
5577292 GTGTGTCATATCAGGTACCTC
1 ATGTGTCGTTTCAGGTACCTC
*
5577313 ATGTGTCGTTTCAGGTA-CTT
1 ATGTGTCGTTTCAGGTACCTC
5577333 ATGTGTCGT
1 ATGTGTCGT
5577342 ATACTGATCA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.26
21 25 0.60
23 6 0.14
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (21 bp):
ATGTGTCGTTTCAGGTACCTC
Found at i:5579978 original size:14 final size:14
Alignment explanation
Indices: 5579959--5579985 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5579949 TTAAGTACTG
5579959 AATTTAAGTGATAA
1 AATTTAAGTGATAA
5579973 AATTTAAGTGATA
1 AATTTAAGTGATA
5579986 TATTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (14 bp):
AATTTAAGTGATAA
Found at i:5584801 original size:19 final size:19
Alignment explanation
Indices: 5584777--5584815 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5584767 AAGAAAATGA
5584777 GGTCCTTGGTTCTTCATGT
1 GGTCCTTGGTTCTTCATGT
5584796 GGTCCTTGGTTCTTCATGT
1 GGTCCTTGGTTCTTCATGT
5584815 G
1 G
5584816 TTGGGGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.21, G:0.28, T:0.46
Consensus pattern (19 bp):
GGTCCTTGGTTCTTCATGT
Found at i:5592804 original size:25 final size:24
Alignment explanation
Indices: 5592762--5592857 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 24
5592752 TTGATTAAAT
*
5592762 GCTCTT-TGGAGCTGCCCGTTATAG
1 GCTCTTAT-GAGCTTCCCGTTATAG
*
5592786 GCTCTTTATGAGCTTCCCGTTAATAA
1 GCTC-TTATGAGCTTCCCGTT-ATAG
** * *
5592812 GCTCGAATAAGCTTCCCATTATATG
1 GCTCTTATGAGCTTCCCGTTATA-G
**
5592837 GCTCACATGAGCTTCCCGTTA
1 GCTCTTATGAGCTTCCCGTTA
5592858 CTGTGCTTGA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
24 7 0.12
25 42 0.74
26 8 0.14
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGTTATAG
Found at i:5600617 original size:26 final size:26
Alignment explanation
Indices: 5600587--5600658 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
5600577 GGCGCACCGC
*
5600587 AGCTCTTTGTGAG-TGTCCCG-TTATAT
1 AGCTCTTTGTGAGCT-TCCCGATTA-AA
* *
5600613 GGCTCTTCGTGAGCTTCCCGATTAAA
1 AGCTCTTTGTGAGCTTCCCGATTAAA
*
5600639 AGCTCTTTGTGAGCTACCCG
1 AGCTCTTTGTGAGCTTCCCG
5600659 TTAGTGCTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
26 34 0.89
27 4 0.11
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.35
Consensus pattern (26 bp):
AGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:5600801 original size:25 final size:26
Alignment explanation
Indices: 5600746--5600809 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
5600736 AGGCTCTTTG
**
5600746 TGAGCTTCCCGTT-AATAAGCTCGGA
1 TGAGCTTCCCGTTAAATAAGCTCACA
* *
5600771 TAAGCTTCCCGTTAAAT-GGCTCACA
1 TGAGCTTCCCGTTAAATAAGCTCACA
*
5600796 TGAGCTTCCTGTTA
1 TGAGCTTCCCGTTA
5600810 CTGTGCTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 29 0.91
26 3 0.09
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (26 bp):
TGAGCTTCCCGTTAAATAAGCTCACA
Found at i:5603414 original size:93 final size:93
Alignment explanation
Indices: 5603302--5603473 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
5603292 CGCCCATAAG
* *
5603302 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
5603367 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
5603395 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
5603460 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
5603474 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:5603470 original size:46 final size:46
Alignment explanation
Indices: 5603295--5603470 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
5603285 TGTAACCCGC
* * *
5603295 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
5603341 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
5603391 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
5603434 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
5603471 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:5610648 original size:19 final size:20
Alignment explanation
Indices: 5610624--5610661 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
5610614 GGTACCACCA
5610624 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
5610643 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
5610662 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:5611001 original size:93 final size:93
Alignment explanation
Indices: 5610891--5611061 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
5610881 GCCCCTAAGT
* *
5610891 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
5610956 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
5610984 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
5611049 CGAGTTCGGATGC
66 CGAGTTCGGATGC
5611062 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:5611058 original size:46 final size:46
Alignment explanation
Indices: 5610886--5611058 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
5610876 AACCCGCCCC
* * * *
5610886 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
5610932 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
5610980 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
5611025 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5611059 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:5611515 original size:30 final size:30
Alignment explanation
Indices: 5611481--5611540 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
5611471 ATTTAATACG
5611481 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
5611511 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
5611541 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:5617667 original size:23 final size:23
Alignment explanation
Indices: 5617641--5617697 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
5617631 GGACCCAAGT
5617641 TGAATTAATTCTAAATCCATTTG
1 TGAATTAATTCTAAATCCATTTG
*
5617664 TGAATTAATTCTAAATCCATTTT
1 TGAATTAATTCTAAATCCATTTG
5617687 TGAATTAATTC
1 TGAATTAATTC
5617698 ACTTGTGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (23 bp):
TGAATTAATTCTAAATCCATTTG
Found at i:5620775 original size:82 final size:82
Alignment explanation
Indices: 5620680--5620841 Score: 288
Period size: 82 Copynumber: 2.0 Consensus size: 82
5620670 TTAATACATT
5620680 CGGTAAAATATATACAATCAATATTTTGTATGAATCAAATTCAAATATTAATTATATTCTGTCCA
1 CGGTAAAATATATACAATCAATATTTTGTATGAATCAAATTCAAATATTAATTATATTCTGTCCA
5620745 AAAGAATATTAATTTCC
66 AAAGAATATTAATTTCC
* * * *
5620762 CGGTAAATTATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCA
1 CGGTAAAATATATACAATCAATATTTTGTATGAATCAAATTCAAATATTAATTATATTCTGTCCA
5620827 AAAGAATATTAATTT
66 AAAGAATATTAATTT
5620842 TCATGTCTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (82 bp):
CGGTAAAATATATACAATCAATATTTTGTATGAATCAAATTCAAATATTAATTATATTCTGTCCA
AAAGAATATTAATTTCC
Found at i:5620926 original size:138 final size:138
Alignment explanation
Indices: 5620762--5621067 Score: 492
Period size: 139 Copynumber: 2.2 Consensus size: 138
5620752 ATTAATTTCC
* *
5620762 CGGTAAATTATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCA
1 CGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATGATATTCTTTCCA
*
5620827 AAAGAA-TATTAATTTTCATGTCTTTTATATTTTGA-CTGAAATGT-ATTAATATAATTGTTTAT
66 AAAGAAGT-TTAATTTTCATGTCTTTTATATTTTGATC-GAAAT-TAATTAATATAACTGTTTAT
5620889 ATTAATAAATT
128 ATTAATAAATT
* * *
5620900 TGGTAAAATATATACAATGAATATTTTTGTATGAATTAAATTCATATATTAATGATATTCTTTCC
1 CGGTAAAATATATACAATTAATA-TTTTGTATGAATCAAATTCATATATTAATGATATTCTTTCC
5620965 AAAAGAAGTTTAATTTTCATGTCTTTTATATTTTGATCGAAATTAATTAATATAACTGTTTATAT
65 AAAAGAAGTTTAATTTTCATGTCTTTTATATTTTGATCGAAATTAATTAATATAACTGTTTATAT
5621030 TAATAAATT
130 TAATAAATT
*
5621039 CGATAAAATATATACAATTAATATTTTGT
1 CGGTAAAATATATACAATTAATATTTTGT
5621068 TTATATTAAT
Statistics
Matches: 155, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
138 27 0.17
139 126 0.81
140 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (138 bp):
CGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATGATATTCTTTCCA
AAAGAAGTTTAATTTTCATGTCTTTTATATTTTGATCGAAATTAATTAATATAACTGTTTATATT
AATAAATT
Found at i:5621740 original size:13 final size:13
Alignment explanation
Indices: 5621722--5621746 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5621712 CTTTTATCGA
5621722 AATTTGAAAACTC
1 AATTTGAAAACTC
5621735 AATTTGAAAACT
1 AATTTGAAAACT
5621747 ATGATCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTTGAAAACTC
Found at i:5629223 original size:133 final size:133
Alignment explanation
Indices: 5629053--5629333 Score: 508
Period size: 133 Copynumber: 2.1 Consensus size: 133
5629043 CGCTGAAGCG
* *
5629053 GATCCAAGATGATTTAACATTTCTGTATTATCAGAGAACAAATCGAAGAAATAGATTTGGCCTCT
1 GATCCAAGATGATTTAACATTTCTATATTATCAGAGAACAAATCGAAGAAATAGATTTGGCATCT
*
5629118 CCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAA
66 CCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTCTTCACATCGAA
5629183 GTA
131 GTA
*
5629186 GATCCAAGATGATTTAACATTTCTATATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCT
1 GATCCAAGATGATTTAACATTTCTATATTATCAGAGAACAAATCGAAGAAATAGATTTGGCATCT
*
5629251 CCATATTCGATGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTCTTCACATCGAA
66 CCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTCTTCACATCGAA
5629316 GTA
131 GTA
*
5629319 AATCCAAGATGATTT
1 GATCCAAGATGATTT
5629334 GGCATCCTTG
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 142 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (133 bp):
GATCCAAGATGATTTAACATTTCTATATTATCAGAGAACAAATCGAAGAAATAGATTTGGCATCT
CCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTCTTCACATCGAA
GTA
Found at i:5629699 original size:47 final size:47
Alignment explanation
Indices: 5629648--5629795 Score: 143
Period size: 47 Copynumber: 3.3 Consensus size: 47
5629638 TTTGACGGAG
*
5629648 AGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGTTTACATCGA
1 AGCAGATCCAAGACATAGCAGATTTGACCTTCATGTGTTTACATCGA
* * * * *
5629695 AGCAGATCCAAG--AT----GATTTGGCATCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCCAAGACATAGCAGATTTGACCT-TCATGTGTTTACATC--GA
*
5629736 AGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGTTTACATCGA
1 AGCAGATCCAAGACATAGCAGATTTGACCTTCATGTGTTTACATCGA
5629783 AGCAGATCCAAGA
1 AGCAGATCCAAGA
5629796 TGATTTGGCA
Statistics
Matches: 76, Mismatches: 13, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
39 1 0.01
40 4 0.05
41 23 0.30
42 2 0.03
43 2 0.03
45 2 0.03
46 2 0.03
47 35 0.46
48 4 0.05
49 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (47 bp):
AGCAGATCCAAGACATAGCAGATTTGACCTTCATGTGTTTACATCGA
Found at i:5629740 original size:41 final size:41
Alignment explanation
Indices: 5629695--5629831 Score: 109
Period size: 41 Copynumber: 3.2 Consensus size: 41
5629685 TTTACATCGA
5629695 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
* * * * * *
5629736 AGCAGATCGAAGACATAGCAGATTTGACCT-TCATGTGTTTACATC--GA
1 AGCAGATCCAAG--AT----GATTTGGCATCTC-TGT-ATTAGA-CGGGG
*
5629783 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
5629824 AGCAGATC
1 AGCAGATC
5629832 GAAAACATAA
Statistics
Matches: 71, Mismatches: 13, Indels: 24
0.66 0.12 0.22
Matches are distributed among these distances:
40 4 0.06
41 31 0.44
42 2 0.03
43 2 0.03
45 2 0.03
46 2 0.03
47 23 0.32
48 4 0.06
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (41 bp):
AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
Found at i:5629770 original size:88 final size:88
Alignment explanation
Indices: 5629621--5630248 Score: 592
Period size: 88 Copynumber: 7.2 Consensus size: 88
5629611 CGAAGAAATA
** *
5629621 GATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGT
5629686 TTACATCGAAGCAGATCCAAGAT
66 TTACATCGAAGCAGATCCAAGAT
*
5629709 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGT
5629774 TTACATCGAAGCAGATCCAAGAT
66 TTACATCGAAGCAGATCCAAGAT
* * * * * *
5629797 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAAACATAACAGAGTGGACCTTCA-----
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGT
5629857 -T---T-GAAGCAGATCCAAGAT
66 TTACATCGAAGCAGATCCAAGAT
* *
5629875 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGT
5629940 TTACATCGAAGCAGATCCAAGAT
66 TTACATCGAAGCAGATCCAAGAT
* * * * * * * *
5629963 GACAAATTTGGCATCTCTTTATTAGATGCAGAGCAAATC--AGAGATAACAGATTTAACATCTC-
1 G----ATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATTTGACCT-TCA
* * * * *
5630025 TGTATTGT-CA--GATAGTAAATCGAAGAAACA
61 TGTGTT-TACATCGA-AGCAGATCCAAG--A-T
** * * * *
5630055 GATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAACAGATCTGACCTTCGGATGT
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATTTGACCTTC--ATGT
* * *
5630120 CTTGACATCGAAGTAGATCCAAGAT
64 GTTTACATCGAAGCAGATCCAAGAT
** * * * *
5630145 GATTTGGCATC-CTTGCGTT-GAC-AATGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGT
1 GATTTGGCATCTC-TGTATTAGACGGA-GAGCAGATCGAAGACATAGCAGATTTGACCTTCATGT
* * * *
5630207 GTTTACGTTGAAGCAGATCTAGGAT
64 GTTTACATCGAAGCAGATCCAAGAT
*
5630232 GATTTAGCATCTCTGTA
1 GATTTGGCATCTCTGTA
5630249 CTGTCAGAGA
Statistics
Matches: 444, Mismatches: 65, Indels: 63
0.78 0.11 0.11
Matches are distributed among these distances:
78 70 0.16
79 1 0.00
82 1 0.00
84 1 0.00
87 34 0.08
88 189 0.43
89 43 0.10
90 51 0.11
91 5 0.01
92 37 0.08
93 10 0.02
94 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (88 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGT
TTACATCGAAGCAGATCCAAGAT
Found at i:5630153 original size:90 final size:88
Alignment explanation
Indices: 5629859--5630155 Score: 262
Period size: 90 Copynumber: 3.3 Consensus size: 88
5629849 GACCTTCATT
* * * *
5629859 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGATGGAGAGCAGATCGAAGACATAACAGA
* *
5629924 TCTGACCTTCATGTGTTTACATC
66 TCTGACCTTCATGTATTGACATC
* * * *
5629947 GAAGCAGATCCAAGATGACAAATTTGGCATCTCTTTATTAGATGCAGAGCAAATC--AGAGATAA
1 GAAGCAGATCCAAGATG----ATTTGGCATCTCTATATTAGATGGAGAGCAGATCGAAGACATAA
* * * *
5630010 CAGATTTAACATCTC-TGTATTGTCA--
62 CAGATCTGACCT-TCATGTATTGACATC
* * * * * *
5630035 GATAGTAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAA
1 GA-AGCAGATCCAAG--A-TGATTTGGCATCTCTATATTAGATGGAGAGCAGATCGAAGACATAA
*
5630100 CAGATCTGACCTTCGGATGTCTTGACATC
62 CAGATCTGACCTTC--ATGTATTGACATC
*
5630129 GAAGTAGATCCAAGATGATTTGGCATC
1 GAAGCAGATCCAAGATGATTTGGCATC
5630156 CTTGCGTTGA
Statistics
Matches: 162, Mismatches: 31, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
88 48 0.30
89 11 0.07
90 49 0.30
91 4 0.02
92 38 0.23
93 10 0.06
94 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (88 bp):
GAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGATGGAGAGCAGATCGAAGACATAACAGA
TCTGACCTTCATGTATTGACATC
Found at i:5630383 original size:78 final size:77
Alignment explanation
Indices: 5630276--5630491 Score: 342
Period size: 78 Copynumber: 2.8 Consensus size: 77
5630266 AAAGAAACAA
** *
5630276 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGG-GAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
5630341 CAGATCCAAGATG
65 CAGATCCAAGATG
* * *
5630354 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAAACACAGCAGATCTGACCTTTATTGAAG
1 ATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
5630419 CAGATCCAAGATG
65 CAGATCCAAGATG
*
5630432 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCAT
1 ATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
5630492 GTGTTTACAT
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
78 124 0.98
79 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (77 bp):
ATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGC
AGATCCAAGATG
Found at i:5630391 original size:556 final size:558
Alignment explanation
Indices: 5629710--5630889 Score: 1511
Period size: 556 Copynumber: 2.1 Consensus size: 558
5629700 ATCCAAGATG
* * * *
5629710 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATTTGACCTTCATGTGTT
1 ATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCA-----T
** *
5629775 TACATCGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAAACAT
61 T--ATCGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAAACAC
5629840 AACAGAGT-GGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAG
124 AACAGA-TCGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAG
*
5629904 CAGATCGAAGACATAGCAGATCTGACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAAA
188 CAGATCAAAGACATAGCAGATCTGACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAAA
* *
5629969 TTTGGCATCTCTTTATTAGATGCAGAGCAAATCAGAGATAACAGATTTAACATCTCTGTATT-G-
253 TTTGGCATCTCTGTATTAGACGCAGAGCAAATCAGAGATAACAGATTTAACATCTCTGTATTAGA
* * *
5630032 TCAGATAGTAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACA
318 T-AGAGAGCAAATCGAAGAAACAGATTTGGCATCTCCATATTAGATGGAGAGCAGATC-AA-ACA
* * * * * * * * *
5630097 TAACAGATCTGACCT-TC-GGA-TGTCTTGACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
380 TAACAAATCTGACATCTCTGGACTGTC-AGACAAC-AAATAGA-ACAAAAAGAATTGGCAT-C-T
* * *
5630159 GC-GTT-GAC-AATGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGTTGAAGC
440 CCAATTCGACGAA-GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGC
*
5630221 AGATCTAGGATGATTTAGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAA
504 AGATCTAAGATGATTTAGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAA
*
5630276 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCA-T-T-G
1 ATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTATCG
*
5630338 AAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAAACACAGCAGAT
66 AAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAAACACAACAGAT
* *
5630403 CTGACCTTTATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAA
131 CGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAA
* *
5630468 AGACATAGCAGATCTGACCTTCATGTGTTTACATTGAAGCAGATCCAAGATGACAGATTTGGCAT
196 AGACATAGCAGATCTGACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAAATTTGGCAT
** * ** * *
5630533 CTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGATGGGGAGC
261 CTCTGTATTAGACGCAGAGCAAATCAGAGATAACAGATTTAACATCTCTGTATTAGATAGAGAGC
* * * * * ** * * * *
5630598 AGATTGAATAAGCAGATTTGGCGTCTCTGTATTAGATGGGGAGTAGATCAAAGATAACAAATTTG
326 AAATCGAAGAAACAGATTTGGCATCTCCATATTAGATGGAGAGCAGATCAAACATAACAAATCTG
* * * * * *
5630663 GCATCTCTGTACTGTCAGAGAACAAATGGAAGAAAAAGAATTGGCATCTCCATATTCGACGGAGA
391 ACATCTCTGGACTGTCAGACAACAAATAGAACAAAAAGAATTGGCATCTCCA-ATTCGACGAAGA
* * * *
5630728 GCAGATCGAAGACATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATTTAAGATGTTTT
455 GCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTT
* * * * *
5630793 GGCATCTCTGTACTGTTAGAGAACAAATCGAAGAAATAG
520 AGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAA
* *
5630832 ATTTGGCATCTCTATATTCGACGGAGAGCAGATAGAAGACATAGCAGATCTAACCTTC
1 ATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTC
5630890 GGATGTTTTC
Statistics
Matches: 536, Mismatches: 68, Indels: 30
0.85 0.11 0.05
Matches are distributed among these distances:
553 2 0.00
554 1 0.00
555 28 0.05
556 394 0.74
557 51 0.10
558 5 0.01
560 1 0.00
566 54 0.10
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (558 bp):
ATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTATCG
AAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAAACACAACAGAT
CGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAA
AGACATAGCAGATCTGACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAAATTTGGCAT
CTCTGTATTAGACGCAGAGCAAATCAGAGATAACAGATTTAACATCTCTGTATTAGATAGAGAGC
AAATCGAAGAAACAGATTTGGCATCTCCATATTAGATGGAGAGCAGATCAAACATAACAAATCTG
ACATCTCTGGACTGTCAGACAACAAATAGAACAAAAAGAATTGGCATCTCCAATTCGACGAAGAG
CAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTA
GCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAA
Found at i:5630584 original size:45 final size:45
Alignment explanation
Indices: 5630431--5630673 Score: 226
Period size: 45 Copynumber: 5.4 Consensus size: 45
5630421 GATCCAAGAT
* * *
5630431 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATC--AGAGATAACA
* * * * * * * *
5630478 GATCTGACCT-TCATGTGTTTACAT-TGAAGCAGATCCA-AGATGACA
1 GATTTGGCATCTC-TGT-ATTAGATGGGGAGCAGAT-CAGAGATAACA
* * *
5630523 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAGAGATAACA
*
5630568 GATTTGGCATCTCTGTATTAGATGGGGAGCAGAT-TGA-ATAAGCA
1 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAGAGATAA-CA
* * *
5630612 GATTTGGCGTCTCTGTATTAGATGGGGAGTAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAGAGATAACA
*
5630657 AATTTGGCATCTCTGTA
1 GATTTGGCATCTCTGTA
5630674 CTGTCAGAGA
Statistics
Matches: 156, Mismatches: 31, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
43 4 0.03
44 41 0.26
45 79 0.51
46 9 0.06
47 18 0.12
48 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAGAGATAACA
Found at i:5630897 original size:131 final size:133
Alignment explanation
Indices: 5630658--5630931 Score: 365
Period size: 131 Copynumber: 2.1 Consensus size: 133
5630648 AAGATAACAA
*
5630658 ATTTGGCATCTCTGTACTGTCAGAGAACAAATGGAAGAAAAAGAATTGGCATCTCCATATTCGAC
1 ATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAAAAGAATTGGCATCTCCATATTCGAC
* * * ** * * **
5630723 GGAGAGCAGATCGAAGACATAGTAGATTTGGCTTTCACGTGTTTACGC-T-GAAGTAGATTTAAG
66 GGAGAGCAGATAGAAGACATAGCAGATCTAACCTTCACGTGTTTACACATCGAAGTAGATCCAAG
5630786 ATG
131 ATG
* * * * *
5630789 TTTTGGCATCTCTGTACTGTTAGAGAACAAATCGAAGAAATAGATTTGGCATCTCTATATTCGAC
1 ATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAAAAGAATTGGCATCTCCATATTCGAC
* *
5630854 GGAGAGCAGATAGAAGACATAGCAGATCTAACCTTC-GGATGTTTTCACATCGAAGTAGATCCAA
66 GGAGAGCAGATAGAAGACATAGCAGATCTAACCTTCACG-TGTTTACACATCGAAGTAGATCCAA
5630918 GATG
130 GATG
5630922 ATTTGGCATC
1 ATTTGGCATC
5630932 CTTGCGTTGA
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
130 1 0.01
131 96 0.79
132 1 0.01
133 24 0.20
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (133 bp):
ATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAAAAGAATTGGCATCTCCATATTCGAC
GGAGAGCAGATAGAAGACATAGCAGATCTAACCTTCACGTGTTTACACATCGAAGTAGATCCAAG
ATG
Found at i:5631158 original size:78 final size:78
Alignment explanation
Indices: 5631048--5631420 Score: 604
Period size: 78 Copynumber: 4.8 Consensus size: 78
5631038 CGAAGAAACA
** * * *
5631048 GATTTGGCATCTCCATATTTGATGGAGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
5631113 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
5631126 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
5631191 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
5631204 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
5631269 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* **
5631282 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCT-GACCTTCATTGA
5631346 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * *
5631360 GATTTGGCATCTCTATATTATACGGGGAGCAGATCGAAGACATAGCAGATTTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCAT
5631421 GTGTTTACAT
Statistics
Matches: 279, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
77 1 0.00
78 277 0.99
79 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:5631498 original size:45 final size:46
Alignment explanation
Indices: 5631360--5631633 Score: 235
Period size: 45 Copynumber: 6.1 Consensus size: 46
5631350 GATCCAAGAT
* * *
5631360 GATTTGGCATCTCTATATTATACGGGGAGCAGATC-GAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAG--ATAACA
* * * * * * *
5631407 GATTTGACCT-TCATGTGTTTACATC--GAAGCAGATC-CAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCAGAAGATAACA
* * *
5631452 GATTTGGCATCTCGGTATTAGACGGGGAGTAAATCAG-AGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
* *
5631497 GATTTGGCATCTCTGTATTAGACGGGGAGCAGAT-TGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
* * *
5631541 GATTTGGCGTCTTTGTATTAGACGGGGAACAGATC-GAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
* * * *
5631586 GATTTGGCGTCTCTATATTAGACGGAGAGCAGATCA-AAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
5631631 GAT
1 GAT
5631634 ATCGCCTTCC
Statistics
Matches: 183, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 44 0.24
45 107 0.58
46 4 0.02
47 22 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (46 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACA
Found at i:5631559 original size:89 final size:90
Alignment explanation
Indices: 5631434--5631633 Score: 253
Period size: 89 Copynumber: 2.2 Consensus size: 90
5631424 TTTACATCGA
* **
5631434 AGCAGATCCAAGAT-GACAGATTTGGCATCTCGGTATTAGACGGGGAGTAAATC-AGAGATAACA
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCGGTATTAGACGGGGAACAAATCGA-AGATAACA
* *
5631497 GATTTGGCATCTCTGTATTAGACGGGG
64 GATTTGGCATCTCTATATTAGACGGAG
** * ** *
5631524 AGCAGATTGAAGA-AGCAGATTTGGCGTCTTTGTATTAGACGGGGAACAGATCGAAGATAACAGA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCGGTATTAGACGGGGAACAAATCGAAGATAACAGA
*
5631588 TTTGGCGTCTCTATATTAGACGGAG
66 TTTGGCATCTCTATATTAGACGGAG
5631613 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
5631634 ATCGCCTTCC
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 74 0.79
90 20 0.21
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCGGTATTAGACGGGGAACAAATCGAAGATAACAGA
TTTGGCATCTCTATATTAGACGGAG
Found at i:5632056 original size:35 final size:37
Alignment explanation
Indices: 5631985--5632082 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
5631975 ATAATCTTCA
5631985 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
5632023 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
5632058 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
5632083 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:5632082 original size:17 final size:19
Alignment explanation
Indices: 5631985--5632075 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
5631975 ATAATCTTCA
5631985 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5632004 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5632023 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5632040 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5632058 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
5632076 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5632101 original size:22 final size:22
Alignment explanation
Indices: 5631985--5632098 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
5631975 ATAATCTTCA
5631985 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5632004 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5632023 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5632040 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5632058 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
5632080 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
5632099 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:5632389 original size:17 final size:17
Alignment explanation
Indices: 5632365--5632399 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5632355 TGTTTCCCTG
*
5632365 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
5632383 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
5632400 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:5633279 original size:35 final size:37
Alignment explanation
Indices: 5633208--5633305 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
5633198 ATAATCTTCA
5633208 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
5633246 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
5633281 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
5633306 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:5633305 original size:17 final size:19
Alignment explanation
Indices: 5633208--5633298 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
5633198 ATAATCTTCA
5633208 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5633227 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5633246 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5633263 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5633281 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
5633299 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5633324 original size:22 final size:22
Alignment explanation
Indices: 5633208--5633321 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
5633198 ATAATCTTCA
5633208 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5633227 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5633246 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5633263 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5633281 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
5633303 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
5633322 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:5633612 original size:17 final size:17
Alignment explanation
Indices: 5633588--5633622 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5633578 TGTTTCCCAG
*
5633588 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
5633606 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
5633623 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:5636621 original size:13 final size:13
Alignment explanation
Indices: 5636603--5636629 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5636593 CCTCGACAGG
5636603 GACACGCCCGTGT
1 GACACGCCCGTGT
5636616 GACACGCCCGTGT
1 GACACGCCCGTGT
5636629 G
1 G
5636630 CAATTTCTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:5640204 original size:25 final size:25
Alignment explanation
Indices: 5640148--5640204 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
5640138 ATTTAATTAA
5640148 TAAAAATTATTAATAATTCAATAAAT
1 TAAAAATTA-TAATAATTCAATAAAT
*
5640174 TGAAAAATTA-AATAATTGAATAAAAT
1 T-AAAAATTATAATAATTCAAT-AAAT
5640200 TAAAA
1 TAAAA
5640205 TTTAGGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 14 0.50
26 6 0.21
27 8 0.29
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
TAAAAATTATAATAATTCAATAAAT
Found at i:5640961 original size:22 final size:19
Alignment explanation
Indices: 5640922--5640963 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
5640912 TGCAAAGTTG
5640922 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
5640941 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
5640963 A
1 A
5640964 AAGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:5643907 original size:17 final size:17
Alignment explanation
Indices: 5643885--5643925 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
5643875 AAGTACGCAC
5643885 TGGACTAGACTTACCCA
1 TGGACTAGACTTACCCA
5643902 TGGACTAGACTTACCCA
1 TGGACTAGACTTACCCA
*
5643919 TGAACTA
1 TGGACTA
5643926 TTTTCTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (17 bp):
TGGACTAGACTTACCCA
Found at i:5647196 original size:32 final size:32
Alignment explanation
Indices: 5647134--5647198 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
5647124 AACTAAGTAA
*
5647134 ACTAAACAAATAAATCTCAAATGCACGATTTC
1 ACTAAACAAATAAATCTCAAATACACGATTTC
* *
5647166 ACTAAACAAATAAATCTCAAATATATGATTTC
1 ACTAAACAAATAAATCTCAAATACACGATTTC
5647198 A
1 A
5647199 AAATACAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
ACTAAACAAATAAATCTCAAATACACGATTTC
Found at i:5658195 original size:17 final size:17
Alignment explanation
Indices: 5658175--5658208 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5658165 ACACATACTA
*
5658175 TTTATTCATTAGATTTT
1 TTTATGCATTAGATTTT
*
5658192 TTTATGCATTTGATTTT
1 TTTATGCATTAGATTTT
5658209 AGTAAATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.65
Consensus pattern (17 bp):
TTTATGCATTAGATTTT
Found at i:5679306 original size:24 final size:25
Alignment explanation
Indices: 5679274--5679321 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
5679264 CGAAATACCA
5679274 AAAATA-TT-TACATGAGATATATG
1 AAAATATTTATACATGAGATATATG
*
5679297 AAAATGATTTATACATGATATATAT
1 AAAAT-ATTTATACATGAGATATAT
5679322 ATAGATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 1 0.05
25 2 0.10
26 13 0.62
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (25 bp):
AAAATATTTATACATGAGATATATG
Found at i:5684305 original size:46 final size:45
Alignment explanation
Indices: 5684212--5684297 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
5684202 TACATCTCAC
* *
5684212 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
5684258 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
5684298 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:5686051 original size:74 final size:75
Alignment explanation
Indices: 5685928--5686076 Score: 255
Period size: 74 Copynumber: 2.0 Consensus size: 75
5685918 TTGGGACATG
5685928 CCCATGTCCCCAGCCCGTGTAACTCTCTATTTGTGACATCAGCAAAACAATTTGAACCACACGGC
1 CCCATGTCCCCAGCCCGTGTAAC-CTCTATTTGTGACATCAGCAAAACAATTTGAACCACACGGC
5685993 CAGGCCACACT
65 CAGGCCACACT
* *
5686004 CCCATGTCCTCAGCCCGTGTAA-CTCTATTTGTGACATCAGCAAAACAATTTGAACTACACGGCC
1 CCCATGTCCCCAGCCCGTGTAACCTCTATTTGTGACATCAGCAAAACAATTTGAACCACACGGCC
*
5686068 AGGCTACAC
66 AGGCCACAC
5686077 GTCCGTGTGC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
74 49 0.70
76 21 0.30
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.22
Consensus pattern (75 bp):
CCCATGTCCCCAGCCCGTGTAACCTCTATTTGTGACATCAGCAAAACAATTTGAACCACACGGCC
AGGCCACACT
Found at i:5687386 original size:154 final size:154
Alignment explanation
Indices: 5687106--5687414 Score: 618
Period size: 154 Copynumber: 2.0 Consensus size: 154
5687096 AAGCATGAGG
5687106 TAAAAATATGTATAAATTATGGTTTATCAAATACCCCCACACTTAAGTGTTTGCTTGTCTTTAAG
1 TAAAAATATGTATAAATTATGGTTTATCAAATACCCCCACACTTAAGTGTTTGCTTGTCTTTAAG
5687171 CAAAATTTTCAACTCAAAATCAAAATAAATTCTTCTCAATTTATAATTCTCATCAATAGTATCTC
66 CAAAATTTTCAACTCAAAATCAAAATAAATTCTTCTCAATTTATAATTCTCATCAATAGTATCTC
5687236 AAAATAATTCATAAGTAATCATAC
131 AAAATAATTCATAAGTAATCATAC
5687260 TAAAAATATGTATAAATTATGGTTTATCAAATACCCCCACACTTAAGTGTTTGCTTGTCTTTAAG
1 TAAAAATATGTATAAATTATGGTTTATCAAATACCCCCACACTTAAGTGTTTGCTTGTCTTTAAG
5687325 CAAAATTTTCAACTCAAAATCAAAATAAATTCTTCTCAATTTATAATTCTCATCAATAGTATCTC
66 CAAAATTTTCAACTCAAAATCAAAATAAATTCTTCTCAATTTATAATTCTCATCAATAGTATCTC
5687390 AAAATAATTCATAAGTAATCATAC
131 AAAATAATTCATAAGTAATCATAC
5687414 T
1 T
5687415 TTGAAAATTC
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 155 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (154 bp):
TAAAAATATGTATAAATTATGGTTTATCAAATACCCCCACACTTAAGTGTTTGCTTGTCTTTAAG
CAAAATTTTCAACTCAAAATCAAAATAAATTCTTCTCAATTTATAATTCTCATCAATAGTATCTC
AAAATAATTCATAAGTAATCATAC
Found at i:5696609 original size:51 final size:51
Alignment explanation
Indices: 5696518--5696688 Score: 130
Period size: 51 Copynumber: 3.4 Consensus size: 51
5696508 GGCCTTCACA
* ***
5696518 TAGTACCACACTTGTGACCAAAGCTATCTTTTACACATAGT-GACCTGCAAT
1 TAGTACCACACATGTGACCAAAGCTATCGGGTACACATAGTAG-CCTGCAAT
* * ** *
5696569 TAGTACCACACATGTGATCGAAGCTATCGGGTACGTATAGTAGCCTGCACT
1 TAGTACCACACATGTGACCAAAGCTATCGGGTACACATAGTAGCCTGCAAT
* ** * * * * * * *
5696620 TAGTACTACACATGCAACCTAA-CAATCTGGTACACGTAATAGCCAGCACT
1 TAGTACCACACATGTGACCAAAGCTATCGGGTACACATAGTAGCCTGCAAT
* *
5696670 TAGTACTACACACGTGACC
1 TAGTACCACACATGTGACC
5696689 TAAAACCATT
Statistics
Matches: 95, Mismatches: 24, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
50 37 0.39
51 57 0.60
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTACCACACATGTGACCAAAGCTATCGGGTACACATAGTAGCCTGCAAT
Found at i:5699629 original size:51 final size:50
Alignment explanation
Indices: 5699545--5699684 Score: 163
Period size: 50 Copynumber: 2.8 Consensus size: 50
5699535 AGTTATCTTT
* * * * *
5699545 TACACATAGTGGCCTGCACTTAGTACCATACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTATACATGTGACCGAA-CCATCCGG
* * * *
5699596 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGG
1 TACACATAGTAGCCTGCACTTAGTACTATACATGTGACCGAACCATCCGG
* * *
5699646 TACACGTAGTAGCCTACACTTAGTACTATACACGTGACC
1 TACACATAGTAGCCTGCACTTAGTACTATACATGTGACC
5699685 TAAAACCATT
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 39 0.53
51 35 0.47
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTATACATGTGACCGAACCATCCGG
Found at i:5699667 original size:50 final size:51
Alignment explanation
Indices: 5699600--5699731 Score: 149
Period size: 52 Copynumber: 2.6 Consensus size: 51
5699590 ATCGGGTACG
* **
5699600 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AACCATCCGGTACA
1 CATAGTAGCCTACACTTAGTACTACACATGCGACCTAAACCATCCGAAACA
* * * * ***
5699650 CGTAGTAGCCTACACTTAGTACTATACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTACACTTAGTACTACACATGCGACCT-AAACCATCCGAAACA
*
5699702 CATAGTAGCCTACACATAGTACTACACATG
1 CATAGTAGCCTACACTTAGTACTACACATG
5699732 TGTTTTCACA
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
50 31 0.47
52 35 0.53
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (51 bp):
CATAGTAGCCTACACTTAGTACTACACATGCGACCTAAACCATCCGAAACA
Found at i:5701474 original size:25 final size:26
Alignment explanation
Indices: 5701445--5701516 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 26
5701435 AGCTCGTGAG
*
5701445 AGCTTACCTATT-CTCAACTTGTATA
1 AGCTTACCTATTACTCAACTCGTATA
* *
5701470 AGCTTA-CTATTACTCAGCTCGTATG
1 AGCTTACCTATTACTCAACTCGTATA
5701495 AGCTTA-CTGATTA--CAACTCGTA
1 AGCTTACCT-ATTACTCAACTCGTA
5701517 AGAGCATACC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 13 0.32
25 24 0.59
26 4 0.10
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (26 bp):
AGCTTACCTATTACTCAACTCGTATA
Found at i:5701521 original size:24 final size:25
Alignment explanation
Indices: 5701437--5701530 Score: 63
Period size: 25 Copynumber: 3.8 Consensus size: 25
5701427 CCGATTTTAG
*
5701437 CTCGTGAGAGCTTACCT-ATT-CTCAA
1 CTCGTAAGAGCTTA-CTGATTAC-CAA
* *
5701462 CTTGTATA-AGCTTACT-ATTACTCAG
1 CTCGTA-AGAGCTTACTGATTAC-CAA
*
5701487 CTCGTATGAGCTTACTGATTA-CAA
1 CTCGTAAGAGCTTACTGATTACCAA
* *
5701511 CTCGTAAGAGCATACCGATT
1 CTCGTAAGAGCTTACTGATT
5701531 CAGAACTGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
24 24 0.43
25 27 0.48
26 5 0.09
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (25 bp):
CTCGTAAGAGCTTACTGATTACCAA
Found at i:5701545 original size:24 final size:24
Alignment explanation
Indices: 5701487--5701549 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
5701477 TATTACTCAG
* *
5701487 CTCGTATGAGCTTACTGATTACAA
1 CTCGTATGAGCATACCGATTACAA
* *
5701511 CTCGTAAGAGCATACCGATTCAGAA
1 CTCGTATGAGCATACCGATT-ACAA
5701536 CT-GTATGAGCATAC
1 CTCGTATGAGCATAC
5701550 ATGTACAGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (24 bp):
CTCGTATGAGCATACCGATTACAA
Found at i:5714622 original size:25 final size:25
Alignment explanation
Indices: 5714594--5714682 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 25
5714584 TTGTCGATTC
*
5714594 TCAGCTCGTATGAGCTTATCGTTAT
1 TCAGCTCGTATGAGCTTACCGTTAT
* * *
5714619 TCAGCTCGCATGAGTTTACCGTTAC
1 TCAGCTCGTATGAGCTTACCGTTAT
*
5714644 TCAGCTCATATGAGCTTACCG--AT
1 TCAGCTCGTATGAGCTTACCGTTAT
5714667 TACAGCTCGTATGAGC
1 T-CAGCTCGTATGAGC
5714683 ATACATGTAC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
23 2 0.04
24 13 0.24
25 39 0.72
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (25 bp):
TCAGCTCGTATGAGCTTACCGTTAT
Found at i:5717117 original size:14 final size:14
Alignment explanation
Indices: 5717098--5717127 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5717088 TATTTAGTAT
5717098 GTATAATCACTTTA
1 GTATAATCACTTTA
*
5717112 GTATAATCATTTTA
1 GTATAATCACTTTA
5717126 GT
1 GT
5717128 TCAGTTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (14 bp):
GTATAATCACTTTA
Found at i:5721746 original size:23 final size:23
Alignment explanation
Indices: 5721716--5721764 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
5721706 TCTTTTTAAA
5721716 TTACTAATTAGATATATTTGTGC
1 TTACTAATTAGATATATTTGTGC
5721739 TTACTAATTAGATATATTTGTGC
1 TTACTAATTAGATATATTTGTGC
5721762 TTA
1 TTA
5721765 GGTTAGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (23 bp):
TTACTAATTAGATATATTTGTGC
Found at i:5723053 original size:48 final size:48
Alignment explanation
Indices: 5722986--5723078 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
5722976 GTTGAAATGC
*
5722986 GTTTTCAAGCACCTCTGAAGCATTCATTTTTATTATTTGATGAAACGT
1 GTTTTCAAGCACCTCTGAAGCATTCATTATTATTATTTGATGAAACGT
* * * *
5723034 GTTTTGAATCACCTTTGAAGCTTTCATTATTATTATTTGATGAAA
1 GTTTTCAAGCACCTCTGAAGCATTCATTATTATTATTTGATGAAA
5723079 AAGCATCTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (48 bp):
GTTTTCAAGCACCTCTGAAGCATTCATTATTATTATTTGATGAAACGT
Found at i:5740965 original size:93 final size:93
Alignment explanation
Indices: 5740858--5741028 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
5740848 GCCCCTAAGT
* *
5740858 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5740923 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
5740951 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5741016 CGAGTTCGGATGC
66 CGAGTTCGGATGC
5741029 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:5741025 original size:46 final size:46
Alignment explanation
Indices: 5740853--5741025 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
5740843 AACCCGCCCC
* * *
5740853 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
5740899 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
5740947 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
5740992 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5741026 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:5741482 original size:30 final size:30
Alignment explanation
Indices: 5741448--5741507 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
5741438 ATTTAATACG
5741448 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
5741478 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
5741508 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:5743600 original size:31 final size:31
Alignment explanation
Indices: 5743562--5743620 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
5743552 TTGAATGAGT
5743562 TAAATTTGATTATAAAGATCAAGAAAAGTAA
1 TAAATTTGATTATAAAGATCAAGAAAAGTAA
*
5743593 TAAATTTGATTATAAAGATCAATAAAAG
1 TAAATTTGATTATAAAGATCAAGAAAAG
5743621 CAACGTACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.54, C:0.03, G:0.12, T:0.31
Consensus pattern (31 bp):
TAAATTTGATTATAAAGATCAAGAAAAGTAA
Found at i:5745541 original size:26 final size:26
Alignment explanation
Indices: 5745505--5745557 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
5745495 GACAATATGA
5745505 TTGACTATGAATGACTTTTATTTGGT
1 TTGACTATGAATGACTTTTATTTGGT
* *
5745531 TTGACTGTGAATGATTTTTATTTGGT
1 TTGACTATGAATGACTTTTATTTGGT
5745557 T
1 T
5745558 ATGAAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.06, G:0.21, T:0.53
Consensus pattern (26 bp):
TTGACTATGAATGACTTTTATTTGGT
Found at i:5750578 original size:25 final size:23
Alignment explanation
Indices: 5750526--5750596 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
5750516 AAGCTAATTG
*
5750526 TAAAATAAATCAATATATAAAAA-A
1 TAAAATAAAACAA-A-ATAAAAATA
5750550 TAAAAATAAAACAAAATAAAAATA
1 T-AAAATAAAACAAAATAAAAATA
*
5750574 TTAAATAAAACAAAATAAGAAAT
1 TAAAATAAAACAAAATAA-AAAT
5750597 GATGATGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 23 0.55
24 8 0.19
25 11 0.26
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.21
Consensus pattern (23 bp):
TAAAATAAAACAAAATAAAAATA
Found at i:5750610 original size:3 final size:3
Alignment explanation
Indices: 5750604--5750924 Score: 307
Period size: 3 Copynumber: 107.7 Consensus size: 3
5750594 AATGATGATG
* * *
5750604 ATA ATA ATA ATA ACA ATA ATA ATA GTA ATA ATA A-A A-A ATA ATA ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
5750650 ATA GTA A-A AAA ATA A-A ATA A-A ATA ATA GTA ATA ATA ATG ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
5750695 ATG ATA ATAA ATA ATA ATA GTA ATA ATA ATG ATA ATAA ATA ATA GTA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * *
5750742 AAA ATA ATA ATA ATA ATA ATA ATA ATA GTA ACA ATA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
5750790 ATAA ATA ATA ATA GTA A-A A-A ATA ATA ACA ATA ATA GA-A ACA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
5750834 ATA ATG ATA ATAA ATA ATA GTA AAA ATA ATA ATA ATA ATA ATA ATT
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
5750880 ATAA ATA ATA ATA GTA AAA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
5750925 GATGATGATG
Statistics
Matches: 258, Mismatches: 48, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
2 15 0.06
3 228 0.88
4 15 0.06
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:5750929 original size:3 final size:3
Alignment explanation
Indices: 5750923--5750954 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
5750913 AATAATAATA
5750923 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
5750955 AAATAATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:5759925 original size:18 final size:17
Alignment explanation
Indices: 5759899--5759933 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5759889 AATATTAAGA
*
5759899 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5759916 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5759934 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5759945 original size:120 final size:120
Alignment explanation
Indices: 5759792--5760075 Score: 455
Period size: 120 Copynumber: 2.4 Consensus size: 120
5759782 TAATTGAAAA
* * *
5759792 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
5759856 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
5759911 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
5759976 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
5760031 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
5760076 ATGATTAAGA
Statistics
Matches: 151, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 132 0.87
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:5760047 original size:18 final size:17
Alignment explanation
Indices: 5760019--5760053 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5760009 ATTATTAAGA
*
5760019 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5760036 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5760054 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5760186 original size:156 final size:157
Alignment explanation
Indices: 5760007--5760322 Score: 589
Period size: 156 Copynumber: 2.0 Consensus size: 157
5759997 ATAAGAATAT
5760007 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
5760072 AAATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
5760137 TAATCATTTACCAAAACAATTTTCTGC
131 TAATCATTTACCAAAACAATTTTATGC
*
5760164 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
5760228 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
5760293 TAATCATTTACCAAAACAATTTTATGC
131 TAATCATTTACCAAAACAATTTTATGC
5760320 TAA
1 TAA
5760323 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
156 149 0.96
157 6 0.04
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATCATTTACCAAAACAATTTTATGC
Found at i:5760203 original size:18 final size:18
Alignment explanation
Indices: 5760175--5760223 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
5760165 AATTATAAGA
5760175 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
5760192 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
5760208 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
5760224 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:5760209 original size:16 final size:16
Alignment explanation
Indices: 5760175--5760229 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
5760165 AATTATAAGA
5760175 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
5760192 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
5760208 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
5760222 ATGTTTAA
1 AT-TTTAA
5760230 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:5760439 original size:44 final size:45
Alignment explanation
Indices: 5760374--5760464 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
5760364 ACCTCTATTC
* *
5760374 CATTCAACCAAACACAAGATTA-CTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
5760418 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
5760463 CA
1 CA
5760465 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 19 0.46
45 22 0.54
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:5760466 original size:16 final size:16
Alignment explanation
Indices: 5760445--5760513 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
5760435 GATTAGCTAT
5760445 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5760461 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
5760478 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5760494 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5760510 TACA
1 TACA
5760514 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5760487 original size:33 final size:32
Alignment explanation
Indices: 5760445--5760513 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
5760435 GATTAGCTAT
5760445 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
5760478 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
5760510 TACA
1 TACA
5760514 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:5762770 original size:14 final size:15
Alignment explanation
Indices: 5762714--5762773 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 15
5762704 TCATAAAATA
*
5762714 TAAACCCCTAACCCC
1 TAAACCCCTAACCCT
5762729 T-AACCCCTAACCCT
1 TAAACCCCTAACCCT
*
5762743 TAAA--CC-GA-CCT
1 TAAACCCCTAACCCT
5762754 TAAACCCC-AACCCT
1 TAAACCCCTAACCCT
5762768 TAAACC
1 TAAACC
5762774 ATATAAACCT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 7 0.18
12 1 0.03
13 5 0.13
14 22 0.58
15 3 0.08
ACGTcount: A:0.35, C:0.47, G:0.02, T:0.17
Consensus pattern (15 bp):
TAAACCCCTAACCCT
Found at i:5763080 original size:39 final size:40
Alignment explanation
Indices: 5762986--5763167 Score: 133
Period size: 39 Copynumber: 4.6 Consensus size: 40
5762976 CAAATATTTT
* * * * *
5762986 TCTATAGCAGCGTTTTTCAGAAAA-CGTCGCTAATACTTGA-
1 TCTATAGCGGCGTTTTTCA-AAAAGCGCCACTAATGC-TCAC
* *
5763026 TCTATAGTGGCGTTTTTCAAAAAGTGCCACTAATGCTC-C
1 TCTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGCTCAC
* * *
5763065 TCTATAGCGGCGTTTTTCAGAAAGCGCCGCTAATGGTCGAC
1 TCTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGCTC-AC
* * ** *
5763106 -CTATAGCGACG-TTTTCAAAAAGCACTGCTAGTGCTCGAC
1 TCTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGCTC-AC
* *
5763145 -CTATAGCGGTGTTTTTAAAAAAG
1 TCTATAGCGGCGTTTTTCAAAAAG
5763168 TACCGCTAAT
Statistics
Matches: 116, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 70 0.60
40 45 0.39
41 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (40 bp):
TCTATAGCGGCGTTTTTCAAAAAGCGCCACTAATGCTCAC
Found at i:5763149 original size:79 final size:79
Alignment explanation
Indices: 5762986--5763179 Score: 185
Period size: 79 Copynumber: 2.5 Consensus size: 79
5762976 CAAATATTTT
* * * * * * * * *
5762986 TCTATAGCAGCGTTTTTCAGAAAACGTCGCTAATACTTGATCTATAGTGGCGTTTTTCAAAAAGT
1 TCTATAGCGGCGTTTTTCAGAAAGCGCCGCTAATGCTCGACCTATAGCGACGTTTTTCAAAAAGC
*
5763051 GCCACTAATGCTCC
66 ACCACTAATGCTCC
*
5763065 TCTATAGCGGCGTTTTTCAGAAAGCGCCGCTAATGGTCGACCTATAGCGACG-TTTTCAAAAAGC
1 TCTATAGCGGCGTTTTTCAGAAAGCGCCGCTAATGCTCGACCTATAGCGACGTTTTTCAAAAAGC
** *
5763129 ACTGCTAGTGCTCGAC
66 ACCACTAATGCTC--C
* * * **
5763145 -CTATAGCGGTGTTTTTAAAAAAGTACCGCTAATGC
1 TCTATAGCGGCGTTTTTCAGAAAGCGCCGCTAATGC
5763180 CACTAAAGCT
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
78 20 0.22
79 72 0.77
80 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (79 bp):
TCTATAGCGGCGTTTTTCAGAAAGCGCCGCTAATGCTCGACCTATAGCGACGTTTTTCAAAAAGC
ACCACTAATGCTCC
Found at i:5763312 original size:40 final size:40
Alignment explanation
Indices: 5763228--5763312 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
5763218 TTTTGTGGCG
* * *
5763228 TTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGCGGCG
1 TTTTTCAAAAAGCACCGCTAATGCTCAATCTATACCAGCA
*** *
5763268 TTTTTCAAAAAGTGTCGCTAATGCTCAATCTGTACCAGCA
1 TTTTTCAAAAAGCACCGCTAATGCTCAATCTATACCAGCA
5763308 TTTTT
1 TTTTT
5763313 TCTTCCAACG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (40 bp):
TTTTTCAAAAAGCACCGCTAATGCTCAATCTATACCAGCA
Found at i:5763463 original size:29 final size:29
Alignment explanation
Indices: 5763430--5763487 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
5763420 ATTGAATTTA
5763430 TTTATAAAGTTTTTAA-TATTTCA-TTAATT
1 TTTATAAA-TTTTTAATTATTT-ATTTAATT
*
5763459 TTTATGAATTTTTAATTATTTATTTAATT
1 TTTATAAATTTTTAATTATTTATTTAATT
5763488 ATTGTTGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTATAAATTTTTAATTATTTATTTAATT
Found at i:5764846 original size:12 final size:12
Alignment explanation
Indices: 5764825--5764858 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5764815 TATATATTTT
*
5764825 AAAATTATATAA
1 AAAATAATATAA
5764837 AAAATAATATAA
1 AAAATAATATAA
*
5764849 AAATTAATAT
1 AAAATAATAT
5764859 GGGTCGGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:5765362 original size:12 final size:13
Alignment explanation
Indices: 5765347--5765375 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5765337 AAAAAAATAT
5765347 TAAAATA-ATACA
1 TAAAATATATACA
5765359 TAAAATATATACA
1 TAAAATATATACA
5765372 TAAA
1 TAAA
5765376 TGGAGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAATATATACA
Found at i:5770040 original size:8 final size:9
Alignment explanation
Indices: 5770022--5770048 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
5770012 AACACTCCAC
5770022 TTTCTTTTT
1 TTTCTTTTT
5770031 TTTCTTTTT
1 TTTCTTTTT
5770040 TTTCTTTTT
1 TTTCTTTTT
5770049 ACCATGAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:5771110 original size:20 final size:20
Alignment explanation
Indices: 5771069--5771110 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
5771059 TTAGATAAAG
* *
5771069 AAAAATATATAAATGTAGTA
1 AAAAATACATAAATGTACTA
5771089 AAAAATACATATAAT-TACTA
1 AAAAATACATA-AATGTACTA
5771109 AA
1 AA
5771111 TATTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAATACATAAATGTACTA
Found at i:5771729 original size:15 final size:15
Alignment explanation
Indices: 5771695--5771729 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5771685 TTTAAAATAT
*
5771695 ATATAAATTATAAAG
1 ATATAAATTATAAAA
*
5771710 TTATAAATTATAAAA
1 ATATAAATTATAAAA
5771725 ATATA
1 ATATA
5771730 TACAATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (15 bp):
ATATAAATTATAAAA
Found at i:5771750 original size:28 final size:29
Alignment explanation
Indices: 5771718--5771823 Score: 84
Period size: 27 Copynumber: 3.8 Consensus size: 29
5771708 AGTTATAAAT
5771718 TATAAAAATATATACA-ATTAAATATATA
1 TATAAAAATATATACATATTAAATATATA
** *
5771746 TATAAAGGCTATA-ACATTTTGAAA-A-ATA
1 TATAAA-AATATATACATATT-AAATATATA
5771774 TATAAAAATATATA-ATATATAAAT-T-TA
1 TATAAAAATATATACATAT-TAAATATATA
*
5771801 TA-AAAAATATATAAATATATAAA
1 TATAAAAATATATACATAT-TAAA
5771824 AAGAACTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
26 11 0.17
27 23 0.36
28 20 0.31
29 7 0.11
30 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (29 bp):
TATAAAAATATATACATATTAAATATATA
Found at i:5771793 original size:19 final size:18
Alignment explanation
Indices: 5771767--5771825 Score: 75
Period size: 19 Copynumber: 3.3 Consensus size: 18
5771757 TAACATTTTG
*
5771767 AAAAATATATAAAAATAT
1 AAAAATATATAAATATAT
* *
5771785 -ATAATATATAAATTTAT
1 AAAAATATATAAATATAT
5771802 AAAAAATATATAAATATAT
1 -AAAAATATATAAATATAT
5771821 AAAAA
1 AAAAA
5771826 GAACTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 14 0.41
18 5 0.15
19 15 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATATATAAATATAT
Found at i:5771816 original size:8 final size:8
Alignment explanation
Indices: 5771693--5771823 Score: 59
Period size: 8 Copynumber: 15.1 Consensus size: 8
5771683 TTTTTAAAAT
5771693 ATATATAA
1 ATATATAA
5771701 AT-TATAA
1 ATATATAA
5771708 AGT-TATAA
1 A-TATATAA
*
5771716 ATTATAAAA
1 A-TATATAA
5771725 ATATATACA
1 ATATATA-A
* *
5771734 ATTAAATAT
1 A-TATATAA
5771743 ATATATAA
1 ATATATAA
**
5771751 AGGCTATAA
1 A-TATATAA
* *
5771760 CATTTTGAAAA
1 -A-TAT-ATAA
5771771 ATATATAA
1 ATATATAA
*
5771779 AAATATATA
1 ATATATA-A
5771788 ATATATAA
1 ATATATAA
*
5771796 ATTTATAAAAA
1 A--TAT-ATAA
5771807 ATATATAA
1 ATATATAA
5771815 ATATATAA
1 ATATATAA
5771823 A
1 A
5771824 AAGAACTAAA
Statistics
Matches: 93, Mismatches: 19, Indels: 22
0.69 0.14 0.16
Matches are distributed among these distances:
7 6 0.06
8 44 0.47
9 25 0.27
10 11 0.12
11 7 0.08
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (8 bp):
ATATATAA
Found at i:5783238 original size:22 final size:20
Alignment explanation
Indices: 5783213--5783265 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
5783203 AATATATCAT
*
5783213 GTTATATGTTAGACTTGGCTTG
1 GTTATATGTT-GAATTGG-TTG
5783235 GTTATAATGCTTGAATTGGTTG
1 GTTAT-ATG-TTGAATTGGTTG
5783257 G-TATATGTT
1 GTTATATGTT
5783266 TGCAAGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.07
20 3 0.11
21 3 0.11
22 9 0.32
23 9 0.32
24 2 0.07
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (20 bp):
GTTATATGTTGAATTGGTTG
Found at i:5790039 original size:15 final size:14
Alignment explanation
Indices: 5790009--5790046 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
5789999 ACAAGAAAAC
5790009 AGAAAAGTTAGAGA
1 AGAAAAGTTAGAGA
5790023 AGAAAACGTTA-AGGA
1 AGAAAA-GTTAGA-GA
5790038 AGAAAAGTT
1 AGAAAAGTT
5790047 TCTGTAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.55, C:0.03, G:0.26, T:0.16
Consensus pattern (14 bp):
AGAAAAGTTAGAGA
Found at i:5790120 original size:6 final size:6
Alignment explanation
Indices: 5790103--5790134 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
5790093 TGGGATGTGT
*
5790103 GGGAGA GTGAGA GGGAGA GGGAGA GGGAGA GG
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GG
5790135 AACGTGGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.66, T:0.03
Consensus pattern (6 bp):
GGGAGA
Found at i:5796572 original size:8 final size:8
Alignment explanation
Indices: 5796559--5796583 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5796549 CTTATCAACC
5796559 AATAATTA
1 AATAATTA
5796567 AATAATTA
1 AATAATTA
5796575 AATAATTA
1 AATAATTA
5796583 A
1 A
5796584 TTAAAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATAATTA
Found at i:5803230 original size:47 final size:47
Alignment explanation
Indices: 5803156--5803359 Score: 206
Period size: 47 Copynumber: 4.4 Consensus size: 47
5803146 GATTTCTTGT
**
5803156 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGA
* *
5803202 GTGCCAGTTTAAGACCATGTCTGGGACATGGCATCGG-CATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAGAGATGA
*
5803250 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-GATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGA-GATGA
* * * * * * *
5803297 -TAGCTAGTGTAAGACGTGTCTAGAACATGCTTCGGCTA-AGAG-T-C
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGA
*
5803341 GTGCTAGTGTAAGACATGT
1 GTGCCAGTGTAAGACATGT
5803360 TCGGAACATG
Statistics
Matches: 134, Mismatches: 16, Indels: 18
0.80 0.10 0.11
Matches are distributed among these distances:
44 16 0.12
45 2 0.01
46 24 0.18
47 68 0.51
48 24 0.18
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGA
Found at i:5803317 original size:94 final size:93
Alignment explanation
Indices: 5803156--5803468 Score: 275
Period size: 94 Copynumber: 3.3 Consensus size: 93
5803146 GATTTCTTGT
* *
5803156 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGT-GCCAGTTTAAGACCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-TATGA-TAGCTAGTATAAGACCA
5803219 TGTCTGGGACATGGCATCGGCATAGAGATGA
64 TGTCTGGGACATGGCATCGGC-TAGAGATGA
* * *
5803250 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCTAGTGTAAGA-CGT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAT-ATGATAGCTAGTATAAGACCAT
* * * *
5803314 GTCTAGAACAT-GCTTCGGCTA-AGA-GTC
65 GTCTGGGACATGGCATCGGCTAGAGATG-A
* * * * *
5803341 GTGCTAGTGTAAGACATGT-TCGGAACATGGATCAG-CACGTATATACGAGAGCTAGTATAAGAC
1 GTGCCAGTGTAAGACATGTCT-GGGACATGCATCGGCCACG-ATAT--GATAGCTAGTATAAGAC
* * *
5803404 CATATCTGGGACATGGCATCGACCTCGATGATGA
62 CATGTCTGGGACATGGCATCG-GCTAGA-GATGA
* *
5803438 -TAGCCTGTGTGAGACCATGTCTGGGACATGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACATGC
5803469 CATCAGCAAC
Statistics
Matches: 174, Mismatches: 28, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
90 7 0.04
91 34 0.20
92 16 0.09
93 17 0.10
94 56 0.32
95 17 0.10
96 2 0.01
97 11 0.06
98 13 0.07
99 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (93 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATGATAGCTAGTATAAGACCATG
TCTGGGACATGGCATCGGCTAGAGATGA
Done.