Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009066.1 Hibiscus syriacus cultivar Beakdansim tig00112490_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 821833
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:777129 original size:13 final size:13
Alignment explanation
Indices: 777113--777137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
777103 GTTTACCCGA
777113 CCCGACCCGTTGT
1 CCCGACCCGTTGT
777126 CCCGACCCGTTG
1 CCCGACCCGTTG
777138 ACCGTTGACC
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:0.08, C:0.48, G:0.24, T:0.20
Consensus pattern (13 bp):
CCCGACCCGTTGT
Found at i:777210 original size:29 final size:29
Alignment explanation
Indices: 777148--777223 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
777138 ACCGTTGACC
*** *
777148 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGAAATG
*
777177 TGTGCTATTCTGGGAATTAATTCGAAATG
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* *
777206 GGTGCTATTTTGGTAATT
1 GGTGCTATTCTGGGAATT
777224 TTTTTAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.21, C:0.09, G:0.26, T:0.43
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATG
Found at i:783563 original size:10 final size:11
Alignment explanation
Indices: 783536--783565 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
783526 GAACGCTGGA
783536 AACCGGTTTTG
1 AACCGGTTTTG
783547 AACCGGTTTTG
1 AACCGGTTTTG
783558 -ACCGGTTT
1 AACCGGTTT
783566 GCTGGTCACG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:785869 original size:29 final size:29
Alignment explanation
Indices: 785827--785901 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
785817 TTTTTTTAAA
* * ***
785827 AATTACCAAAATAGCACCCATTTCGAATT
1 AATTCCCAAAATAGCACCAAAACCGAATT
*
785856 AATTCCCAGAATAGCA-CAAAACCGAATT
1 AATTCCCAAAATAGCACCAAAACCGAATT
785884 AATTCCCAAAATAGCACC
1 AATTCCCAAAATAGCACC
785902 GGTCAACGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.44, C:0.27, G:0.08, T:0.21
Consensus pattern (29 bp):
AATTCCCAAAATAGCACCAAAACCGAATT
Found at i:785956 original size:26 final size:25
Alignment explanation
Indices: 785899--785958 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
785889 CCAAAATAGC
*
785899 ACCGGTCAACGGTCAACGGGTCGGG
1 ACCGGTCAACGGTAAACGGGTCGGG
* * *
785924 TCGGGTCAACGGGTAAACGGGTCGTG
1 ACCGGTCAAC-GGTAAACGGGTCGGG
785950 ACCGGTCAA
1 ACCGGTCAA
785959 ACCGGTCAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (25 bp):
ACCGGTCAACGGTAAACGGGTCGGG
Found at i:785970 original size:10 final size:10
Alignment explanation
Indices: 785950--785993 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
785940 ACGGGTCGTG
785950 ACCGGTC-AA
1 ACCGGTCAAA
785959 ACCGGTCAAA
1 ACCGGTCAAA
*
785969 ACCGGT-TAA
1 ACCGGTCAAA
785978 ACCGGTCAAA
1 ACCGGTCAAA
785988 ACCGGT
1 ACCGGT
785994 TTCCAGCGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.34, C:0.30, G:0.23, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:785994 original size:19 final size:19
Alignment explanation
Indices: 785950--785994 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
785940 ACGGGTCGTG
*
785950 ACCGGTCAAACCGGTCAAA
1 ACCGGTTAAACCGGTCAAA
785969 ACCGGTTAAACCGGTCAAA
1 ACCGGTTAAACCGGTCAAA
785988 ACCGGTT
1 ACCGGTT
785995 TCCAGCGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (19 bp):
ACCGGTTAAACCGGTCAAA
Found at i:788875 original size:21 final size:20
Alignment explanation
Indices: 788789--788945 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
788779 AAATGACCAA
**
788789 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
788808 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
788828 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
788848 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
788869 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
788889 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
788909 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
788930 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
788946 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:788898 original size:41 final size:41
Alignment explanation
Indices: 788789--788945 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
788779 AAATGACCAA
* **
788789 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
788828 CAGAATCGCAAATC-AGTTTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
788869 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
788910 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
788946 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:789005 original size:20 final size:20
Alignment explanation
Indices: 788912--789121 Score: 183
Period size: 20 Copynumber: 10.5 Consensus size: 20
788902 CGATTTTCCA
* ** *
788912 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
788932 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
788952 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
788972 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
788992 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTATCCGT
* *
789012 ATATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
789032 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
789052 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
789072 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
789092 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
789112 AAATCACAAC
1 AAATCGCAAC
789122 ACTGAAATTT
Statistics
Matches: 155, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 151 0.97
21 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:789103 original size:60 final size:60
Alignment explanation
Indices: 788932--789121 Score: 206
Period size: 60 Copynumber: 3.2 Consensus size: 60
788922 GCGAATATGA
* * * **
788932 AAATCGCAACGCGAA-CACATAAATCGCAACGTGTATCCGTAAATCGCAACGCGT-ATGGGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAACGTGTATCCGTAAATCGCAACG-ATAATCCGT
* ** *
788992 AAATCGCAACGCGTTTCCGTATATCGCAACGTGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGATAATCCGT
* * * *
789052 AAATCGCAACGAGAATCTGTAAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-TGTATCCGTAAATCGCAACGATAATCCGT
*
789112 AAATCACAAC
1 AAATCGCAAC
789122 ACTGAAATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 1 0.01
60 108 0.97
61 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (60 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGATAATCCGT
Found at i:789843 original size:24 final size:24
Alignment explanation
Indices: 789804--789850 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
789794 AAATTTGGTC
789804 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
789828 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
789851 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:790040 original size:12 final size:12
Alignment explanation
Indices: 790023--790047 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
790013 ATATAATCCT
790023 GAAGAAGAAAAA
1 GAAGAAGAAAAA
790035 GAAGAAGAAAAA
1 GAAGAAGAAAAA
790047 G
1 G
790048 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:792378 original size:34 final size:33
Alignment explanation
Indices: 792326--792415 Score: 121
Period size: 34 Copynumber: 2.7 Consensus size: 33
792316 CGGAAATTAC
*
792326 AATCGCAACGCGAAATGAAAATCCCAAC-ATGTA-
1 AATCGCAATGCGAAATGAAAATCCCAACGA-G-AG
*
792359 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAG
792393 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
792416 GCAATGCGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
33 23 0.44
34 28 0.54
35 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAG
Found at i:792387 original size:53 final size:53
Alignment explanation
Indices: 792307--792471 Score: 174
Period size: 52 Copynumber: 3.1 Consensus size: 53
792297 GCATTTGACT
** * * * *
792307 ATCGCAACACGGAAATTACAATCGCAACGCGA-AAT-GAAAATCCCAACATGTAA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG-AAATCCCAA-ATGAAA
* * *
792360 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGAAATCCCAAATGAAA
* * * *
792413 ATCGCAATGC-GAAATGAAAATCGCAACGTGAGAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGAAATCCCAAATGAAA
792465 ATCGCAA
1 ATCGCAA
792472 CGAGAGAATC
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
52 48 0.48
53 42 0.42
54 9 0.09
55 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGAAATCCCAAATGAAA
Found at i:792413 original size:33 final size:32
Alignment explanation
Indices: 792326--792545 Score: 144
Period size: 33 Copynumber: 6.5 Consensus size: 32
792316 CGGAAATTAC
* *
792326 AATCGCAACGCGAAATGAAAATCCCAAC-ATGTA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-G-A
792359 AATCGCAATGCGGAAATGAAAATCGCAACGAGA
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGA
* *
792392 GAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 -AATCGCAATGCGAAATGAAAATCGCAACGAGA
* * * * *
792425 AAT-GAAAAT-CGCAACGTGAGAATCGCAATGCGA
1 AATCG-CAATGCG-AA-ATGAAAATCGCAACGAGA
* * *
792458 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-G-A
792497 AATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGA
792529 GAATCGCAATGCGAAAT
1 -AATCGCAATGCGAAAT
792546 ATAAACGCAT
Statistics
Matches: 154, Mismatches: 16, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
31 5 0.03
32 10 0.06
33 82 0.53
34 29 0.19
35 2 0.01
36 2 0.01
38 9 0.06
39 8 0.05
40 7 0.05
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (32 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGA
Found at i:792446 original size:52 final size:52
Alignment explanation
Indices: 792358--792523 Score: 221
Period size: 52 Copynumber: 3.2 Consensus size: 52
792348 CCCAACATGT
*
792358 AAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGC-GAAATGAAAATCGCAACGTGAGAATCGCAATGCGAAATGA
792411 AAATCGCAATGCGAAATGAAAATCGCAACGTGAGAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGTGAGAATCGCAATGCGAAATGA
* * * * *
792463 AAATCGCAACGAGAGAATCG-CAAT-GCGAA-ATGAAAATCGCAATGCGAAATGA
1 AAATCGCAATGCGA-AAT-GAAAATCGC-AACGTGAGAATCGCAATGCGAAATGA
792515 AAATCGCAA
1 AAATCGCAA
792524 CGAGAGAATC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
52 83 0.80
53 20 0.19
54 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGTGAGAATCGCAATGCGAAATGA
Found at i:792494 original size:85 final size:85
Alignment explanation
Indices: 792326--792545 Score: 379
Period size: 85 Copynumber: 2.6 Consensus size: 85
792316 CGGAAATTAC
* * *
792326 AATCGCAACGCGAAATGAAAATCCCAACATGTA-AATCGCAATGCGGAAATGAAAATCGCAACGA
1 AATCGCAATGCGAAATGAAAATCGCAACGTG-AGAATCGCAATGC-GAAATGAAAATCGCAACGA
792390 GAGAATCGCAATGCGAAATGAA
64 GAGAATCGCAATGCGAAATGAA
792412 AATCGCAATGCGAAATGAAAATCGCAACGTGAGAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAATGCGAAATGAAAATCGCAACGTGAGAATCGCAATGCGAAATGAAAATCGCAACGAGA
792477 GAATCGCAATGCGAAATGAA
66 GAATCGCAATGCGAAATGAA
*
792497 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGTGAGAATCGCAATGCGAAAT
792546 ATAAACGCAT
Statistics
Matches: 129, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
85 90 0.70
86 39 0.30
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (85 bp):
AATCGCAATGCGAAATGAAAATCGCAACGTGAGAATCGCAATGCGAAATGAAAATCGCAACGAGA
GAATCGCAATGCGAAATGAA
Found at i:792524 original size:52 final size:52
Alignment explanation
Indices: 792393--792545 Score: 213
Period size: 52 Copynumber: 2.9 Consensus size: 52
792383 GCAACGAGAG
* * * * *
792393 AATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGTGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCG-AA-ATGAA
792445 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
792497 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
792546 ATAAACGCAT
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
52 82 0.88
53 8 0.09
54 3 0.03
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:792663 original size:52 final size:53
Alignment explanation
Indices: 792551--792666 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
792541 GAAATATAAA
792551 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
792604 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
792656 CGCATTGCGAT
1 CGCATTGCGAT
792667 AGTCATTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:792674 original size:19 final size:19
Alignment explanation
Indices: 792569--792666 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
792559 GATTCTCTCG
792569 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
792589 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
792608 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
792622 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
792641 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
792660 TTGCGAT
1 TTGCGAT
792667 AGTCATTTTG
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:792798 original size:13 final size:14
Alignment explanation
Indices: 792767--792804 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
792757 TTCGCATCAA
*
792767 TTACAAATCAACTT
1 TTACAAATCATCTT
792781 TTACAAATCATC-T
1 TTACAAATCATCTT
792794 TTACAAATCAT
1 TTACAAATCAT
792805 TAAACAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (14 bp):
TTACAAATCATCTT
Found at i:792886 original size:12 final size:12
Alignment explanation
Indices: 792869--792904 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
792859 CAACTTTACA
792869 AATCAATTAAAC
1 AATCAATTAAAC
**
792881 AATCAAAAAAAC
1 AATCAATTAAAC
792893 AATCAATTAAAC
1 AATCAATTAAAC
792905 TATTGAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:794809 original size:33 final size:32
Alignment explanation
Indices: 794762--794841 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 32
794752 CGCGAAACCA
*
794762 AAATCGCAACGCGAAATGAAAATCGCAACGAC-
1 AAATCGCAATGCGAAATGAAAATCGCAACG-CG
794794 AGAATCGCAATGCGAAATGAAAATCGCAACGCG
1 A-AATCGCAATGCGAAATGAAAATCGCAACGCG
794827 AAATGCGCAATGCGA
1 AAAT-CGCAATGCGA
794842 TGCGATTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
32 5 0.11
33 39 0.89
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (32 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGCG
Found at i:794830 original size:19 final size:19
Alignment explanation
Indices: 794726--794831 Score: 114
Period size: 19 Copynumber: 5.8 Consensus size: 19
794716 TAGTTTACTT
* *
794726 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
794746 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
794765 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
794784 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
794798 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
794817 TCGCAACGCGAAATG
1 TCGCAACGCGAAATG
794832 CGCAATGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
14 8 0.11
16 5 0.07
17 5 0.07
19 43 0.59
20 12 0.16
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:795296 original size:91 final size:93
Alignment explanation
Indices: 794986--795357 Score: 700
Period size: 93 Copynumber: 4.1 Consensus size: 93
794976 ATGGATTGCA
794986 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
795050 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
795078 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
795143 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
795171 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTA-TTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
795234 TAGCAGAATTGGCAGCAACCGAAC-AAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
795261 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAG-T
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
795325 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
795353 TTACT
1 TTACT
795358 AAGCAATCTA
Statistics
Matches: 275, Mismatches: 1, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
90 33 0.12
91 81 0.29
92 43 0.16
93 118 0.43
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:795309 original size:183 final size:185
Alignment explanation
Indices: 794986--795357 Score: 698
Period size: 183 Copynumber: 2.0 Consensus size: 185
794976 ATGGATTGCA
794986 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
795050 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
795115 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAG-TTAGCAGAATTGGCAGCAACCGAACAAAT
795171 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTA-TTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
795234 TAGCAGAATTGGCAGCAACCGAAC-AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
795298 ATTTCACAGTGTTAAAGAATACACAGTTAGCAGAATTGGCAGCAACCGAATAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTAGCAGAATTGGCAGCAACCGAACAAAT
795353 TTACT
1 TTACT
795358 AAGCAATCTA
Statistics
Matches: 185, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
182 33 0.18
183 66 0.36
184 50 0.27
185 11 0.06
186 25 0.14
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:797065 original size:14 final size:14
Alignment explanation
Indices: 797046--797135 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
797036 TTGAAATGAA
797046 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
797060 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
797079 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
797093 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
797112 AATCGCAACGAGAG
1 AATCGCAACGAGAG
797126 AATCGCAACG
1 AATCGCAACG
797136 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:797078 original size:33 final size:33
Alignment explanation
Indices: 797038--797152 Score: 230
Period size: 33 Copynumber: 3.5 Consensus size: 33
797028 TCTTTTGGTT
797038 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
797071 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
797104 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
797137 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
797153 TGCGATTTTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:797084 original size:19 final size:19
Alignment explanation
Indices: 797060--797157 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
797050 GCAACGAGAG
797060 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
797079 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
797093 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
797112 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
797126 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
797145 AATCGCAATGCGA
1 AATCGCAACGCGA
797158 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:797188 original size:14 final size:14
Alignment explanation
Indices: 797169--797225 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
797159 TTTGGTTTCG
797169 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
797183 CGTTGCGATTTTCATAT
1 CGTTGCGA--TTC-TCT
797200 CGCTTTGCGATTCTCT
1 CG--TTGCGATTCTCT
797216 CGTTGCGATT
1 CGTTGCGATT
797226 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:797208 original size:33 final size:33
Alignment explanation
Indices: 797166--797230 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
797156 GATTTTGGTT
797166 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
*
797199 TCGCTTTGCGATTCTCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCAT
797231 TTCTCTCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.45
Consensus pattern (33 bp):
TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
Found at i:797266 original size:41 final size:41
Alignment explanation
Indices: 797209--797286 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
797199 TCGCTTTGCG
*
797209 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
797250 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
797287 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:797271 original size:20 final size:21
Alignment explanation
Indices: 797210--797285 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
797200 CGCTTTGCGA
797210 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
797231 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
797251 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
797272 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
797286 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:797407 original size:33 final size:33
Alignment explanation
Indices: 797365--797435 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
797355 AATACTAACT
797365 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
797398 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
797431 TGAAA
1 TGAAA
797436 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:797667 original size:22 final size:22
Alignment explanation
Indices: 797615--797669 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
797605 TGGTTGTGAG
**
797615 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
* **
797637 TGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
797659 GGATTTCTTCG
1 GGATTTCTTCG
797670 CGTAGAGAGT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.38, T:0.25
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:797840 original size:20 final size:20
Alignment explanation
Indices: 797815--798008 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
797805 CTTTAAATAT
797815 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
797835 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
797857 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
797876 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
797896 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
797916 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
797936 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
797956 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
797976 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
797996 CGCGTTGCGATTT
1 CGCGTTGCGATTT
798009 TGTAAAATCG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:798002 original size:60 final size:60
Alignment explanation
Indices: 797815--798008 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
797805 CTTTAAATAT
* ** *
797815 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACAGATA
* *** * *
797876 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
* * * * *
797936 CACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
797996 CGCGTTGCGATTT
1 CGCGTTGCGATTT
798009 TGTAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
Found at i:798025 original size:21 final size:20
Alignment explanation
Indices: 797975--798072 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
797965 ATTTATGTGT
* * * *
797975 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
797995 TCGCGTTGCGATTTTGTAAAA
1 TCGCATTGCGATTTTG-AAAA
* * **
798016 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
798036 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
798057 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
798073 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:798048 original size:61 final size:60
Alignment explanation
Indices: 797975--798132 Score: 169
Period size: 61 Copynumber: 2.6 Consensus size: 60
797965 ATTTATGTGT
*
797975 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGTAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGTAAAAT-G-ATATGCG-ATTCTGACGA
* * * * * * **
798036 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGTAAAATGATATGCGATTCTGACGA
*
798097 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTGT
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGT
798133 TGGTCATTTT
Statistics
Matches: 80, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 22 0.28
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGTAAAATGATATGCGATTCTGACGA
Found at i:798067 original size:41 final size:41
Alignment explanation
Indices: 797975--798131 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
797965 ATTTATGTGT
* * *
797975 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGTAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
798016 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
798057 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
798097 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
798132 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:802294 original size:55 final size:55
Alignment explanation
Indices: 802228--802428 Score: 179
Period size: 55 Copynumber: 3.5 Consensus size: 55
802218 AGCCATCAAC
802228 GATTTCAACTTCACGATGAAGGATATCGTACCCACAAGCAACAATGCAACACTTG
1 GATTTCAACTTCACGATGAAGGATATCGTACCCACAAGCAACAATGCAACACTTG
** ** * *
802283 GATTTCAACTTCACGATGAAGGATATCCAATTCA-AAGCTCAACTTCACAATGAAGGAACCATCC
1 GATTTCAACTTCACGATGAAGGATATCGTACCCACAAG--C-A----ACAAT---GCAA-CA-CT
**
802347 AC
54 TG
* * *
802349 GATTTCATCTTCACGATGAAGGATATCGTTCCCACAAGCAACAATGCAACCCTTG
1 GATTTCAACTTCACGATGAAGGATATCGTACCCACAAGCAACAATGCAACACTTG
*
802404 GATTTCAACTTCACGACGAAGGATA
1 GATTTCAACTTCACGATGAAGGATA
802429 CCCAATTCAA
Statistics
Matches: 112, Mismatches: 21, Indels: 26
0.70 0.13 0.16
Matches are distributed among these distances:
54 3 0.03
55 54 0.48
56 2 0.02
57 4 0.04
60 5 0.04
61 5 0.04
64 4 0.04
65 3 0.03
66 29 0.26
67 3 0.03
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.23
Consensus pattern (55 bp):
GATTTCAACTTCACGATGAAGGATATCGTACCCACAAGCAACAATGCAACACTTG
Found at i:802361 original size:66 final size:66
Alignment explanation
Indices: 802283--802496 Score: 209
Period size: 66 Copynumber: 3.4 Consensus size: 66
802273 GCAACACTTG
*
802283 GATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAATGAAGGAACCATCCA
1 GATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTAACAATGAAGGAACCATCCA
802348 C
66 C
* * * * * *
802349 GATTTCATCTTCACGATGAAGGATAT-C-GTTC---CCACAAGC--AACAAT---GCAACC--CT
1 GATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAA-CTTAACAATGAAGGAACCATCC
**
802402 TG
65 AC
* * * * *
802404 GATTTCAACTTCACGACGAAGGATACCCAATTCAAAGCTCAACTTTATAATGAAGGAGCCATCCA
1 GATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTAACAATGAAGGAACCATCCA
802469 C
66 C
802470 GATTTCAACTTCACGATGAAGGATATC
1 GATTTCAACTTCACGATGAAGGATATC
802497 GTGCCTAATG
Statistics
Matches: 111, Mismatches: 24, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
55 24 0.22
56 1 0.01
57 8 0.07
59 1 0.01
60 9 0.08
61 8 0.07
62 1 0.01
64 7 0.06
65 1 0.01
66 51 0.46
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (66 bp):
GATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTAACAATGAAGGAACCATCCA
C
Found at i:802361 original size:121 final size:121
Alignment explanation
Indices: 802142--802498 Score: 624
Period size: 121 Copynumber: 3.0 Consensus size: 121
802132 TCATATTTGG
802142 AAGCAACAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTT
1 AAGCAACAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTT
* *
802207 CACAACGAAGGAGCCATCAACGATTTCAACTTCACGATGAAGGATATCGTACCCAC
66 CACAATGAAGGAGCCATCCACGATTTCAACTTCACGATGAAGGATATCGTACCCAC
* *
802263 AAGCAACAATGCAACACTTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTT
1 AAGCAACAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTT
* * *
802328 CACAATGAAGGAACCATCCACGATTTCATCTTCACGATGAAGGATATCGTTCCCAC
66 CACAATGAAGGAGCCATCCACGATTTCAACTTCACGATGAAGGATATCGTACCCAC
*
802384 AAGCAACAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATACCCAATTCAAAGCTCAACTT
1 AAGCAACAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTT
* *
802449 TATAATGAAGGAGCCATCCACGATTTCAACTTCACGATGAAGGATATCGT
66 CACAATGAAGGAGCCATCCACGATTTCAACTTCACGATGAAGGATATCGT
802499 GCCTAATGGA
Statistics
Matches: 222, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 222 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (121 bp):
AAGCAACAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTT
CACAATGAAGGAGCCATCCACGATTTCAACTTCACGATGAAGGATATCGTACCCAC
Found at i:802801 original size:85 final size:85
Alignment explanation
Indices: 802558--802846 Score: 345
Period size: 85 Copynumber: 3.5 Consensus size: 85
802548 TAGCCCAGTG
** * * *
802558 CAACATAATTCAAGGCGAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTCGATTACATTCAGC
1 CAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* * * *
802623 TCAAATGCATATCCAACTTA
66 TCAAAGGCACATCAAATTTA
* * * * * *
802643 CATCATAACTCAAGGTGAGAAGGGTTATCTGT---C-AAGACCTTCGAGTTCGATTATACTAAGC
1 CAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
* *
802704 TTAAAGGAACATCAAATTTA
66 TCAAAGGCACATCAAATTTA
* * *
802724 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAAGACCTTAGAGTTCGATTACACTCAGC
1 CAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
802789 TCAAAGGCACATCAAATTTA
66 TCAAAGGCACATCAAATTTA
* *
802809 CAACATAGCTCAAAGCGAGAA-GGCTATCTATCAACAAA
1 CAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAA
802847 AGCAGTAGCA
Statistics
Matches: 175, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
81 67 0.38
82 1 0.01
84 16 0.09
85 91 0.52
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (85 bp):
CAACATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGC
TCAAAGGCACATCAAATTTA
Found at i:803375 original size:2 final size:2
Alignment explanation
Indices: 803368--803394 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
803358 ATCATATAAC
803368 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
803395 CAAACCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:804485 original size:27 final size:26
Alignment explanation
Indices: 804427--804487 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
804417 TAATCCATTA
*
804427 TTATTATATATATATAATTATATTTT
1 TTATTATATATATATAATTATATTGT
804453 TGTATTATATATATAT-ATATATATTAGT
1 T-TATTATATATATATAAT-TATATT-GT
804481 TTATTAT
1 TTATTAT
804488 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 3 0.10
27 26 0.84
28 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (26 bp):
TTATTATATATATATAATTATATTGT
Found at i:804539 original size:21 final size:21
Alignment explanation
Indices: 804487--804540 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
804477 TAGTTTATTA
*
804487 TTTTATTTTCATTATATCTAT
1 TTTTATTTTCTTTATATCTAT
804508 TTTTATTTTCTTTATATCTAT
1 TTTTATTTTCTTTATATCTAT
804529 TTTTATTTTCTT
1 TTTTATTTTCTT
804541 CTTGCTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTTTCTTTATATCTAT
Found at i:804646 original size:18 final size:17
Alignment explanation
Indices: 804637--804751 Score: 80
Period size: 19 Copynumber: 6.7 Consensus size: 17
804627 TAATTTTTAT
804637 TATTTTTTTATTTTGTA
1 TATTTTTTTATTTTGTA
804654 TA---TTTTATTTTGTA
1 TATTTTTTTATTTTGTA
*
804668 TATGTTTTTATTATT-TA
1 TATTTTTTTATT-TTGTA
* *
804685 T-TATTTTTATTTCTGTT
1 TATTTTTTTATTT-TGTA
* *
804702 TATTTATTTTCTTTTTGTT
1 TATTT-TTTT-ATTTTGTA
804721 TATTTTATTTACTTTT-TA
1 TATTTT-TTTA-TTTTGTA
804739 TATTTATTTTATT
1 TATTT-TTTTATT
804752 AATATTATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
14 14 0.17
15 1 0.01
16 10 0.12
17 16 0.20
18 15 0.19
19 21 0.26
20 3 0.04
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (17 bp):
TATTTTTTTATTTTGTA
Found at i:804661 original size:14 final size:14
Alignment explanation
Indices: 804642--804670 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
804632 TTTATTATTT
804642 TTTTATTTTGTATA
1 TTTTATTTTGTATA
804656 TTTTATTTTGTATA
1 TTTTATTTTGTATA
804670 T
1 T
804671 GTTTTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTTTATTTTGTATA
Found at i:804682 original size:34 final size:33
Alignment explanation
Indices: 804639--804730 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 33
804629 ATTTTTATTA
804639 TTTTTTTATTTTGTATATTTTATTT-TGTATAT
1 TTTTTTTATTTTGTATATTTTATTTCTGTATAT
*
804671 GTTTTTATTATTTAT-TAT-TTTTATTTCTGTTTAT
1 -TTTTT-TTATTT-TGTATATTTTATTTCTGTATAT
*
804705 TTATTTTCT-TTTTGTTTATTTTATTT
1 TT-TTTT-TATTTTGTATATTTTATTT
804731 ACTTTTTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
32 1 0.02
33 21 0.42
34 27 0.54
35 1 0.02
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.76
Consensus pattern (33 bp):
TTTTTTTATTTTGTATATTTTATTTCTGTATAT
Found at i:804725 original size:19 final size:19
Alignment explanation
Indices: 804681--804737 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
804671 GTTTTTATTA
804681 TTTA-TTATTTT-TATTTCTG
1 TTTATTTATTTTCT-TTT-TG
804700 TTTATTTATTTTCTTTTTG
1 TTTATTTATTTTCTTTTTG
*
804719 TTTATTTTATTTACTTTTT
1 TTTA-TTTATTTTCTTTTT
804738 ATATTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 10 0.29
20 23 0.68
21 1 0.03
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTATTTATTTTCTTTTTG
Found at i:804731 original size:9 final size:9
Alignment explanation
Indices: 804631--804761 Score: 55
Period size: 9 Copynumber: 14.9 Consensus size: 9
804621 TGTCTTTAAT
804631 TTTTA-TTA
1 TTTTATTTA
804639 TTTT-TTTA
1 TTTTATTTA
* *
804647 TTTTGTATA
1 TTTTATTTA
804656 TTTTATTT-
1 TTTTATTTA
* *
804664 TGTATATGT-
1 T-TTTATTTA
804673 TTTTA-TTA
1 TTTTATTTA
804681 -TTTA-TTA
1 TTTTATTTA
*
804688 TTTTTATTTC
1 -TTTTATTTA
804698 TGTTTATTTA
1 T-TTTATTTA
* *
804708 TTTTCTTTT
1 TTTTATTTA
804717 TGTTTATTT-
1 T-TTTATTTA
804726 TATTTACTTT-
1 T-TTTA-TTTA
*
804736 TTATATTTA
1 TTTTATTTA
*
804745 TTTTATTAA
1 TTTTATTTA
*
804754 TATTATTT
1 TTTTATTT
804762 TTCCTTTATC
Statistics
Matches: 94, Mismatches: 18, Indels: 21
0.71 0.14 0.16
Matches are distributed among these distances:
7 8 0.09
8 18 0.19
9 48 0.51
10 20 0.21
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (9 bp):
TTTTATTTA
Found at i:804743 original size:47 final size:45
Alignment explanation
Indices: 804631--804819 Score: 125
Period size: 47 Copynumber: 4.0 Consensus size: 45
804621 TGTCTTTAAT
* * * *
804631 TTTTA-TTATTTTTTTATTTTGTATATTTTATTTTGTATATGTTT-
1 TTTTATTTATTTTTTTATTTTGTTTA-TTTATTTTATTTTTGTTTA
*
804675 TTATTATTTATTATTTTTATTTCTGTTTATTTATTTTCTTTTTGTTTA
1 TT-TTATTTATT-TTTTTATTT-TGTTTATTTATTTTATTTTTGTTTA
* * * *
804723 TTTTATTTACTTTTTATATTTAT-TTTATTAATATTATTTTTCCTTTA
1 TTTTATTTA-TTTTTTTATTT-TGTTTATTTATTTTATTTTT-GTTTA
* * * * *
804770 TCTTTCTTTACTCTTTTTATTTTATCTTCTTTATTTCATTTGTT-TTTA
1 T-TTTATTTA-TTTTTTTATTTTGT-TTATTTATTTTATTT-TTGTTTA
804818 TT
1 TT
804820 ACTTTTTTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 19
0.76 0.11 0.12
Matches are distributed among these distances:
44 2 0.02
45 3 0.03
46 20 0.17
47 47 0.40
48 32 0.27
49 11 0.09
50 2 0.02
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.73
Consensus pattern (45 bp):
TTTTATTTATTTTTTTATTTTGTTTATTTATTTTATTTTTGTTTA
Found at i:805614 original size:121 final size:121
Alignment explanation
Indices: 805450--805672 Score: 383
Period size: 121 Copynumber: 1.8 Consensus size: 121
805440 TCTTGAGCAC
* *
805450 GATATCCTTCTTCGTGAAGTTGAAATTATGGACGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATTATGGACGACTCATTCGTTGTGAAGTTGAGCTTTGAATT
805515 GGATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTGCATTGCTGCTTGTGGGCAT
66 GGATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTGCATTGCTGCTTGTGGGCAT
* * *
805571 GATATCCTTCGTCGTGAAGTTGAAATTGTGGATGACTCTTTCGTTGTGAAGTTGAGCTTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATTATGGACGACTCATTCGTTGTGAAGTTGAGCTTTGAATT
* *
805636 GGATATCCTTCGTTGTGAAGTTGAAATCCAAGGGTTG
66 GGATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTG
805673 TTTAACCAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 95 1.00
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.36
Consensus pattern (121 bp):
GATATCCTTCGTCGTGAAGTTGAAATTATGGACGACTCATTCGTTGTGAAGTTGAGCTTTGAATT
GGATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTGCATTGCTGCTTGTGGGCAT
Found at i:805801 original size:65 final size:64
Alignment explanation
Indices: 805626--805794 Score: 238
Period size: 65 Copynumber: 2.7 Consensus size: 64
805616 GTGAAGTTGA
* * *
805626 GCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAA---GGGT-TGTTTAACCAAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTGAGTAAGTTTAACCAAATTG
* * * *
805686 GTTTTGAGTTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTTGAGTAAGTTTCACCAAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATC-TGAGTAAGTTTAACCAAATTG
805751 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCT
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCT
805795 CAAGTAAATT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
60 37 0.39
64 4 0.04
65 53 0.56
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (64 bp):
GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTGAGTAAGTTTAACCAAATTG
Found at i:805901 original size:64 final size:64
Alignment explanation
Indices: 805816--806172 Score: 502
Period size: 64 Copynumber: 5.6 Consensus size: 64
805806 TTTTGTTTCA
* * * * *
805816 AGTCCAATATCCTTCGTTGTGAAGCTGAAATTGACTTTGAATGAAACTGAAAAGTTGTTTGTTG
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
*
805880 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTTTTTGTTG
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
* * *
805944 AGTCCAATATCCTTCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
* * ** *
806008 ACTCCAATAT-ACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAAGTAAAAAGTTGTTT-TTA
1 AGTCCAATATCA-TTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
* * *
806071 AGTCCAATATCATTCACTGTGAAGTTGAAATTGACTCTGAAGGAAACTGGAAAGTTATTTGTTG
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
* * * *
806135 AGTCCAATGTCCTCCGCTGTGAAGTTGAAATTGGCTCT
1 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCT
806173 AAAAGCTGCA
Statistics
Matches: 259, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
63 53 0.20
64 206 0.80
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (64 bp):
AGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
Found at i:806119 original size:191 final size:192
Alignment explanation
Indices: 805818--806172 Score: 568
Period size: 191 Copynumber: 1.9 Consensus size: 192
805808 TTGTTTCAAG
* * * * *
805818 TCCAATATCCTTCGTTGTGAAGCTGAAATTGACTTTGAATGAAACTGAAAAGTTGTTTGTTGAGT
1 TCCAATATACTTCGCTGTGAAGCTGAAATTGACTCTGAATGAAACTAAAAAGTTGTTTGTTAAGT
* * *
805883 CCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTTTTTGTTGAGTC
66 CCAATATCATTCACTGTGAAGTTGAAATTGACTCTGAAGGAAACTGGAAAGTTATTTGTTGAGTC
*
805948 CAATATCCTTCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAC
131 CAATATCCTCCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAC
* *
806010 TCCAATATACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAAGTAAAAAGTTGTTT-TTAAGT
1 TCCAATATACTTCGCTGTGAAGCTGAAATTGACTCTGAATGAAACTAAAAAGTTGTTTGTTAAGT
806074 CCAATATCATTCACTGTGAAGTTGAAATTGACTCTGAAGGAAACTGGAAAGTTATTTGTTGAGTC
66 CCAATATCATTCACTGTGAAGTTGAAATTGACTCTGAAGGAAACTGGAAAGTTATTTGTTGAGTC
* * * *
806139 CAATGTCCTCCGCTGTGAAGTTGAAATTGGCTCT
131 CAATATCCTCCACTGTGAAGTTAAAATTGACTCT
806173 AAAAGCTGCA
Statistics
Matches: 148, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
191 96 0.65
192 52 0.35
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (192 bp):
TCCAATATACTTCGCTGTGAAGCTGAAATTGACTCTGAATGAAACTAAAAAGTTGTTTGTTAAGT
CCAATATCATTCACTGTGAAGTTGAAATTGACTCTGAAGGAAACTGGAAAGTTATTTGTTGAGTC
CAATATCCTCCACTGTGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAC
Found at i:810918 original size:33 final size:37
Alignment explanation
Indices: 810881--811016 Score: 97
Period size: 33 Copynumber: 4.1 Consensus size: 37
810871 AAGAGTAAAG
*
810881 AAAGAT-AAAAG-AAA-AAAATAATA-TTAAT-AAAAT
1 AAAGATAAAAAGTAAATAAAATAA-ACATAATGAAAAT
810914 AAAGATAAAAAGTAAATAAAATAAACATAATGAAAAT
1 AAAGATAAAAAGTAAATAAAATAAACATAATGAAAAT
* *
810951 AAAGA-AACAA--AAACAAAAGTAAA-A-AAT--AAAT
1 AAAGATAAAAAGTAAATAAAA-TAAACATAATGAAAAT
* *
810982 AAA-AT--AAA-TAAATAAAATAAACAAAATAAAAAT
1 AAAGATAAAAAGTAAATAAAATAAACATAATGAAAAT
811015 AA
1 AA
811017 TAAAAATTAA
Statistics
Matches: 86, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
29 6 0.07
30 9 0.10
31 10 0.12
33 15 0.17
34 13 0.15
35 8 0.09
36 15 0.17
37 10 0.12
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (37 bp):
AAAGATAAAAAGTAAATAAAATAAACATAATGAAAAT
Found at i:810921 original size:6 final size:5
Alignment explanation
Indices: 810906--811021 Score: 52
Period size: 5 Copynumber: 23.4 Consensus size: 5
810896 AAATAATATT
810906 AATAA AATAA AGATAA AA-AGTA AATAA AATAA ACAT-- AATGAA AATAA
1 AATAA AATAA A-ATAA AATA--A AATAA AATAA A-ATAA AAT-AA AATAA
* * *
810953 AGA-AA CA-AA AACAA AAGTAA AAAATA AATAA AAT-A AAT-A AATAA
1 A-ATAA AATAA AATAA AA-TAA AATA-A AATAA AATAA AATAA AATAA
* *
810997 AAT-A AACAA AATAA AA-AT AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
811022 ATTAAAGACA
Statistics
Matches: 87, Mismatches: 9, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
3 2 0.02
4 20 0.23
5 42 0.48
6 22 0.25
7 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:810952 original size:9 final size:9
Alignment explanation
Indices: 810863--811020 Score: 56
Period size: 9 Copynumber: 16.9 Consensus size: 9
810853 TAAAGAAGAT
810863 AAAATAAA-
1 AAAATAAAG
*
810871 AAGAGTAAAG
1 AA-AATAAAG
810881 AAAGATAAAAG
1 AAA-AT-AAAG
*
810892 AAAA-AAAT
1 AAAATAAAG
* * *
810900 AATATTAAT
1 AAAATAAAG
810909 AAAATAAAG
1 AAAATAAAG
*
810918 ATAA-AAAG
1 AAAATAAAG
* *
810926 TAAATAAAAT
1 AAAAT-AAAG
*
810936 AAACATAATG
1 AAA-ATAAAG
810946 AAAATAAAG
1 AAAATAAAG
* *
810955 AAACAAAAAC
1 AAA-ATAAAG
*
810965 AAAAGTAAAAA
1 AAAA-T-AAAG
810976 ATAAATAAA-
1 A-AAATAAAG
*
810985 ATAAATAAAT
1 A-AAATAAAG
*
810995 AAAATAAAC
1 AAAATAAAG
811004 AAAATAAA-
1 AAAATAAAG
811012 AATAATAAA
1 AA-AATAAA
811021 AATTAAAGAC
Statistics
Matches: 115, Mismatches: 21, Indels: 27
0.71 0.13 0.17
Matches are distributed among these distances:
8 16 0.14
9 57 0.50
10 25 0.22
11 14 0.12
12 3 0.03
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (9 bp):
AAAATAAAG
Found at i:811155 original size:15 final size:13
Alignment explanation
Indices: 810885--811012 Score: 66
Period size: 13 Copynumber: 9.5 Consensus size: 13
810875 GTAAAGAAAG
* *
810885 ATAAAAGAAAAAA
1 ATAAAATAAATAA
* *
810898 ATAATATTAATAAA
1 ATAAAATAAAT-AA
810912 ATAAAGATAAAAAGTAA
1 ATAAA-AT--AAA-TAA
*
810929 ATAAAATAAACATA
1 ATAAAATAAATA-A
*
810943 ATGAAAATAAAGAA
1 AT-AAAATAAATAA
*
810957 ACAAAA-ACAA-AA
1 ATAAAATA-AATAA
*
810969 GT-AAA-AAATAA
1 ATAAAATAAATAA
810980 ATAAAATAAATAA
1 ATAAAATAAATAA
*
810993 ATAAAATAAACAAA
1 ATAAAATAAA-TAA
811007 ATAAAA
1 ATAAAA
811013 ATAATAAAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 23
0.71 0.10 0.18
Matches are distributed among these distances:
10 2 0.02
11 7 0.08
12 6 0.07
13 30 0.33
14 22 0.24
15 11 0.12
16 2 0.02
17 9 0.10
18 1 0.01
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (13 bp):
ATAAAATAAATAA
Found at i:811171 original size:2 final size:2
Alignment explanation
Indices: 811164--811216 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
811154 TAAAATAAAA
*
811164 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
811204 AT A- AT -T AT AT AT A
1 AT AT AT AT AT AT AT A
811217 ATAATAATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
1 4 0.09
2 42 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:811217 original size:10 final size:11
Alignment explanation
Indices: 811163--811227 Score: 77
Period size: 10 Copynumber: 6.3 Consensus size: 11
811153 ATAAAATAAA
811163 AATATATATAT
1 AATATATATAT
811174 -ATATATATAT
1 AATATATATAT
811184 -ATATATATAT
1 AATATATATAT
*
811194 AATATAAAATAT
1 AATAT-ATATAT
811206 AAT-TATATAT
1 AATATATATAT
811216 AATA-ATA-AT
1 AATATATATAT
811225 AAT
1 AAT
811228 GGATTAAAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
9 5 0.10
10 31 0.63
11 5 0.10
12 8 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AATATATATAT
Found at i:811274 original size:17 final size:17
Alignment explanation
Indices: 811254--811288 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
811244 GAAATAAAAT
* *
811254 AAGAAGCCAAATTTAAA
1 AAGAAACCAAAGTTAAA
811271 AAGAAACCAAAGTTAAA
1 AAGAAACCAAAGTTAAA
811288 A
1 A
811289 TCGGATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.11, G:0.11, T:0.14
Consensus pattern (17 bp):
AAGAAACCAAAGTTAAA
Found at i:812315 original size:2 final size:2
Alignment explanation
Indices: 812308--812346 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
812298 ATATGTAATA
812308 AT AT AT AT -T GAT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
812347 TTATGTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 31 0.91
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:818223 original size:19 final size:19
Alignment explanation
Indices: 818199--818238 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
818189 AAAAAGAAAC
* *
818199 AAAAAAATCAACGAAAAAG
1 AAAAAAAGCAAAGAAAAAG
818218 AAAAAAAGCAAAGAAAAAG
1 AAAAAAAGCAAAGAAAAAG
818237 AA
1 AA
818239 GACAAGAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (19 bp):
AAAAAAAGCAAAGAAAAAG
Found at i:820278 original size:207 final size:206
Alignment explanation
Indices: 819898--820342 Score: 479
Period size: 207 Copynumber: 2.1 Consensus size: 206
819888 TATCTCCAGT
* * *
819898 TTGACCCGATCTCCTCAATGCGAAGGAGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACA
1 TTGACCC-AGCTCCTCAACGCGAA-G-GAGCAGCGTCATCCTCAGACAATCAGACTTCCTCAACA
* * *
819963 CGAAGGAACAATGTTGTCTCCAAATTATCGCCTGATTGACCTGATTTCTCAACACGAAGGAACAA
63 CGAAGGAACAATATTGCCTCCAAATTATCGCCTGATGGACCTGATTTCTCAACACGAAGGAACAA
* * * * *
820028 CGTCATCTTCAACAAATAATTTACCCAAAACGAATAGATCTCTTTAACACGGATAAGCAGT-TAC
128 CGTCATCTTCAACAAATAATTCACCCAAAACGAATAAATCTCTTCAACAAGGATAAGCAATGT-C
* *
820092 GTCTTCAACATCAAA
192 ATCTTCAACACCAAA
* * **
820107 TTGACCCTAGCTCCTCAACGCGAAGGAGCAGCGTCATCCTCTGACAATCAGACTTCCTTAATTC-
1 TTGACCC-AGCTCCTCAACGCGAAGGAGCAGCGTCATCCTCAGACAATCAGACTTCCTCAACACG
** * * **
820171 AAGGGAACCGTATTGCCTCCAAATTATC-TCTGATGGATCTGATTTCCTCAACGTGAAGGAACAA
65 AA-GGAACAATATTGCCTCCAAATTATCGCCTGATGGACCTGATTT-CTCAACACGAAGGAACAA
* ** * ** * *
820235 CGTCATC-TCCAGTAATAATTCATCTGAAA-GTGATCAAATCTCTTCAACAAGGATTAGCAATGT
128 CGTCATCTTCAACAAATAATTCACCCAAAACG-AAT-AAATCTCTTCAACAAGGATAAGCAATGT
820298 CATCTTCAACACCAAA
191 CATCTTCAACACCAAA
*
820314 TTGACCC-GATCCTCAACGCGAAGGAGCAG
1 TTGACCCAGCTCCTCAACGCGAAGGAGCAG
820343 TGCCATCATC
Statistics
Matches: 198, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
205 22 0.11
206 33 0.17
207 120 0.61
208 2 0.01
209 21 0.11
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (206 bp):
TTGACCCAGCTCCTCAACGCGAAGGAGCAGCGTCATCCTCAGACAATCAGACTTCCTCAACACGA
AGGAACAATATTGCCTCCAAATTATCGCCTGATGGACCTGATTTCTCAACACGAAGGAACAACGT
CATCTTCAACAAATAATTCACCCAAAACGAATAAATCTCTTCAACAAGGATAAGCAATGTCATCT
TCAACACCAAA
Done.