Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004208.1 Hibiscus syriacus cultivar Beakdansim tig00009213_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: 95472
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:881 original size:14 final size:13
Alignment explanation
Indices: 862--896 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
852 TCCCGTGGCA
862 TTTCTTCGGGGACT
1 TTTCTTCGGGGA-T
876 TTTCTTCGGGGAT
1 TTTCTTCGGGGAT
889 TTCTCTTC
1 TT-TCTTC
897 TTCTTCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 3 0.15
14 17 0.85
ACGTcount: A:0.06, C:0.23, G:0.23, T:0.49
Consensus pattern (13 bp):
TTTCTTCGGGGAT
Found at i:1121 original size:22 final size:23
Alignment explanation
Indices: 1090--1133 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1080 ATCATCAAAA
*
1090 TCCGAGTATTTACCAAGATCAAG
1 TCCGAGTATTGACCAAGATCAAG
1113 TCCG-GTATTGACCAAGATCAA
1 TCCGAGTATTGACCAAGATCAA
1134 TTTCGAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (23 bp):
TCCGAGTATTGACCAAGATCAAG
Found at i:1968 original size:20 final size:20
Alignment explanation
Indices: 1943--2029 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
1933 AAATTCAGTG
*
1943 TTGCGACAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
**
1963 TTGCGATAGTCAGAATCGTG
1 TTGCGATAGTCAGAATCGCA
*
1983 TTGCGATAGTCAGAATCACA
1 TTGCGATAGTCAGAATCGCA
*
2003 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCA
2023 TTGCGAT
1 TTGCGAT
2030 TTACATATTC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCA
Found at i:2036 original size:20 final size:20
Alignment explanation
Indices: 2013--2088 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
2003 TTGCGATAGT
*
2013 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
*
2033 CATATTCGCCTTGCGATTTA
1 CATATTCGCATTGCGATTTA
2053 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
2073 CATATTCGCA-TGCGAT
1 CATATTCGCATTGCGAT
2089 AGTCGGAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 6 0.11
20 47 0.89
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:2047 original size:40 final size:39
Alignment explanation
Indices: 2003--2092 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 39
1993 CAGAATCACA
2003 TTGCGATAGTCATAATCGCATTGCGATTTACATATTCGCC
1 TTGCGATAGTCATAATCGCATTGCGATTTACATATTCG-C
* *
2043 TTGCGAT-TTACATATTCGCATTGCGATTTACATATTCGC
1 TTGCGATAGT-CATAATCGCATTGCGATTTACATATTCGC
*
2082 ATGCGATAGTC
1 TTGCGATAGTC
2093 GGAAAATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
39 9 0.20
40 35 0.80
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (39 bp):
TTGCGATAGTCATAATCGCATTGCGATTTACATATTCGC
Found at i:2117 original size:21 final size:21
Alignment explanation
Indices: 2093--2151 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
2083 TGCGATAGTC
2093 GGAAAATCGCAACGCGAATTT
1 GGAAAATCGCAACGCGAATTT
2114 GGAAAATCGCAACGCGAATTT
1 GGAAAATCGCAACGCGAATTT
*
2135 GGAAAATCGCAATGCGA
1 GGAAAATCGCAACGCGA
2152 TAGTCAATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
GGAAAATCGCAACGCGAATTT
Found at i:4621 original size:72 final size:71
Alignment explanation
Indices: 4488--4634 Score: 183
Period size: 72 Copynumber: 2.0 Consensus size: 71
4478 TGTCACCTTG
4488 GAGATTTTTTCTCTAAACAAAGTTTCGACTCGCTAGAGACAATTTTTCTTAAAAATAAATTTTGT
1 GAGATTTTTTCTCTAAACAAAGTTTCGACTCGCTAGAGACAA-TTTTCTTAAAAATAAATTTTGT
4553 CTCACTT
65 CTCACTT
* * * * *
4560 GAGATTGTTTTCTCTAAAAACAAA-TTTTGTCTCGCTTGAGACAA-TTTCTATCAAAA-CAATTT
1 GAGATT-TTTTCTCT--AAACAAAGTTTCGACTCGCTAGAGACAATTTTCT-TAAAAATAAATTT
4622 TGTCTCACTT
62 TGTCTCACTT
4632 GAG
1 GAG
4635 GCGGTATTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
72 29 0.44
73 13 0.20
74 17 0.26
75 7 0.11
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (71 bp):
GAGATTTTTTCTCTAAACAAAGTTTCGACTCGCTAGAGACAATTTTCTTAAAAATAAATTTTGTC
TCACTT
Found at i:4633 original size:35 final size:37
Alignment explanation
Indices: 4532--4634 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 37
4522 AGAGACAATT
* ***
4532 TTTCT-TAAAAATAAATTTTGTCTCACTTGAGATTGT
1 TTTCTATAAAAACAAATTTTGTCTCACTTGAGATCAA
* *
4568 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGA-CAA
1 TTTCTATAAAAACAAATTTTGTCTCACTTGAGATCAA
*
4604 TTTCTATCAAAAC-AATTTTGTCTCACTTGAG
1 TTTCTATAAAAACAAATTTTGTCTCACTTGAG
4635 GCGGTATTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
35 17 0.29
36 16 0.28
37 25 0.43
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (37 bp):
TTTCTATAAAAACAAATTTTGTCTCACTTGAGATCAA
Found at i:5055 original size:36 final size:34
Alignment explanation
Indices: 4973--5056 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 34
4963 AATACTGTTT
* * **
4973 TTTCCTCAAAACAAATTTCATCTCTTTGAGATTG
1 TTTCCTCGAAACAAATTTCATCTCTTTAAGACAG
* *
5007 TTTCCCTTGAAACAAATTTTATCTCTCTTAAGACAG
1 TTT-CCTCGAAACAAATTTCATCTCT-TTAAGACAG
5043 TTTCTCTCGAAACA
1 TTTC-CTCGAAACA
5057 TAAAAACCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 3 0.08
35 20 0.50
36 17 0.43
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (34 bp):
TTTCCTCGAAACAAATTTCATCTCTTTAAGACAG
Found at i:5190 original size:68 final size:67
Alignment explanation
Indices: 4998--5329 Score: 459
Period size: 68 Copynumber: 4.9 Consensus size: 67
4988 TTTCATCTCT
* * *
4998 TTGAGATTGTTTCCCTTGAAACAAATTTTATCTCTCTTAAGACAGTTTCTCTCGAAACATAAAAA
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAAAA
* *
5063 CCT
65 ACA
* *
5066 TTGAGATTGTTTCTCTTGAAATAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAAA
1 TTGAGATTGTTTCCCTTGAAA-CAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAAA
5131 AACA
64 AACA
* *
5135 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTCTCTCTTGAAACAAAAAAA
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAAA
5200 CA
66 CA
* *
5202 TTGAGATTGTTTCCCTTAAAACAAAGTCTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAAAA
1 TTGAGATTGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAA
* *
5266 TCT
65 ACA
* ** * *
5269 TTGAGATTATTTCCCTCAAAACAAATATTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAA
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
5330 TTATCCCTAA
Statistics
Matches: 240, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
66 31 0.13
67 63 0.26
68 85 0.35
69 61 0.25
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAAA
CA
Found at i:5663 original size:123 final size:123
Alignment explanation
Indices: 5434--5682 Score: 338
Period size: 123 Copynumber: 2.0 Consensus size: 123
5424 GATAGCCATA
* * * * *
5434 CTTCCTCATCGCATAGGAACCGTGTTATCTCTATTATCCCTAAAGATGGCTAGACATCCTCATCA
1 CTTCCTCATCACATAAGAACCGTGTTATCTCCATTATCCCTAAAGATGGCCACACATCCTCATCA
* *
5499 CGTAGGAACTGTGTCATCCACCGACCAAATCTCCTCATCACGTAGGAGTC-GCGTCACC
66 CGTAGGAACCGTGCCATCCACCGACCAAATCTCCTCATCACGTAGGAG-CAGCGTCACC
* * * **
5557 CTTCCTCATCACGTAAGAATCGTGTTATCTCCATTATCCCTAAATATGGCCACATGTCCTCATCA
1 CTTCCTCATCACATAAGAACCGTGTTATCTCCATTATCCCTAAAGATGGCCACACATCCTCATCA
* * **
5622 CGTAGGAACCGTGCCATCCACCGACCAGATCTTCTTTTCACGTAGGAGCAGCGTCACC
66 CGTAGGAACCGTGCCATCCACCGACCAAATCTCCTCATCACGTAGGAGCAGCGTCACC
5680 CTT
1 CTT
5683 AGATAACCAG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
122 1 0.01
123 108 0.99
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (123 bp):
CTTCCTCATCACATAAGAACCGTGTTATCTCCATTATCCCTAAAGATGGCCACACATCCTCATCA
CGTAGGAACCGTGCCATCCACCGACCAAATCTCCTCATCACGTAGGAGCAGCGTCACC
Found at i:15463 original size:33 final size:30
Alignment explanation
Indices: 15395--15460 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
15385 CATCCCCATA
*
15395 CCCACCTAATATTTTTCAATCCACCACCCG
1 CCCACCTAATACTTTTCAATCCACCACCCG
15425 CCCACCTAATACTTTTCAATCCACCACCCG
1 CCCACCTAATACTTTTCAATCCACCACCCG
15455 CCCACC
1 CCCACC
15461 ACCCATGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.48, G:0.03, T:0.23
Consensus pattern (30 bp):
CCCACCTAATACTTTTCAATCCACCACCCG
Found at i:19520 original size:25 final size:25
Alignment explanation
Indices: 19463--19514 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
19453 ACCAATCAAG
19463 TAATTAAACCTATAGTCATACAACA
1 TAATTAAACCTATAGTCATACAACA
19488 TAATTAAACCTATAGTCATACAACA
1 TAATTAAACCTATAGTCATACAACA
19513 TA
1 TA
19515 CATAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.29
Consensus pattern (25 bp):
TAATTAAACCTATAGTCATACAACA
Found at i:21150 original size:54 final size:54
Alignment explanation
Indices: 21010--21574 Score: 842
Period size: 54 Copynumber: 10.3 Consensus size: 54
21000 ACTTTATAAT
** * * ***
21010 TTGCACATTTAGTGCCAATACGGAAATTCATAAACTTATTATGAATTACGGGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTC-TTAGG
* *
21065 TTGCACACATAGTGCCAATACAGAAAGTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
* *
21119 TTGCACACATAGTGCAAATACGCAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
* * *
21173 TTGTACACATAGTGCCAATACGGAAATTCAGAAACTCAATATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
* *
21227 TAGCACAAATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
* *
21281 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTATGAATTTTTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTC-------ATTATGAATTTCTTAGG
* * *
21342 TTGCACACATAGTACCAATACAGAAATTCATAAACTCATTATTAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
*
21396 TTGCACACATAGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
*
21450 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
*
21504 TTGCACATATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
21558 TTGCACACATAGTGCCA
1 TTGCACACATAGTGCCA
21575 TTCGGTAATC
Statistics
Matches: 464, Mismatches: 39, Indels: 15
0.90 0.08 0.03
Matches are distributed among these distances:
54 371 0.80
55 43 0.09
61 50 0.11
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGG
Found at i:21406 original size:223 final size:223
Alignment explanation
Indices: 21019--21550 Score: 803
Period size: 223 Copynumber: 2.4 Consensus size: 223
21009 TTTGCACATT
* * ***
21019 TAGTGCCAATACGGAAATTCATAAACTTATTATGAATTACGGGGGGTTGCACACATAGTGCCAAT
1 TAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTC-TTAGGTTGCACACATAGTGCCAAT
* *
21084 AC-AGAAAGTCATAAACTC-------ATTATGAATTTCTTAGGTTGCACACATAGTGCAAATACG
65 ACGA-AAATTCATAAACTCATTATGAATTATGAATTTCTTAGGTTGCACACATAGTACAAATACG
* *
21141 CAAATTCATAAACTCATTATGAATTTCTTAGGTTGTACACATAGTGCCAATACGGAAATTCAGAA
129 CAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAGAAATTCAGAA
21206 ACTCAATATGAATTTCTTAGGTAGCACAAA
194 ACTCAATATGAATTTCTTAGGTAGCACAAA
21236 TAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATA
1 TAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATA
* *
21301 CGAAAATTCATAAACTCATTATGAATTATGAATTTTTTAGGTTGCACACATAGTACCAATACAG-
66 CGAAAATTCATAAACTCATTATGAATTATGAATTTCTTAGGTTGCACACATAGTACAAATAC-GC
* *
21365 AAATTCATAAACTCATTATTAATTTCTTAGGTTGCACACATAGTGCCAATACAGAAATTCATAAA
130 AAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAGAAATTCAGAAA
* * *
21430 CTCATTATGAATTTCTTAGGTTGCACACA
195 CTCAATATGAATTTCTTAGGTAGCACAAA
* *
21459 TAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACATATAGTGCCAATA
1 TAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATA
*
21524 CGGAAATTCATAAACTCATTATGAATT
66 CGAAAATTCATAAACTCATTATGAATT
21551 TCTTAGGTTG
Statistics
Matches: 287, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
216 36 0.13
217 39 0.14
223 211 0.74
224 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (223 bp):
TAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATA
CGAAAATTCATAAACTCATTATGAATTATGAATTTCTTAGGTTGCACACATAGTACAAATACGCA
AATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACAGAAATTCAGAAAC
TCAATATGAATTTCTTAGGTAGCACAAA
Found at i:21479 original size:277 final size:277
Alignment explanation
Indices: 21063--21574 Score: 918
Period size: 277 Copynumber: 1.8 Consensus size: 277
21053 AATTACGGGG
*
21063 GGTTGCACACATAGTGCCAATACAGAAAGTCATAAACTCATTATGAATTTCTTAGGTTGCACACA
1 GGTTGCACACATAGTACCAATACAGAAAGTCATAAACTCATTATGAATTTCTTAGGTTGCACACA
*
21128 TAGTGCAAATACGCAAATTCATAAACTCATTATGAATTTCTTAGGTTGTACACATAGTGCCAATA
66 TAGTGCAAATACGCAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATA
*
21193 CGGAAATTCAGAAACTCAATATGAATTTCTTAGGTAGCACAAATAGTGCCAATACGGAAATTCAT
131 CGAAAATTCAGAAACTCAATATGAATTTCTTAGGTAGCACAAATAGTGCCAATACGGAAATTCAT
21258 AAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTAT
196 AAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTAT
21323 GAATTATGAATTTTTTA
261 GAATTATGAATTTTTTA
* *
21340 GGTTGCACACATAGTACCAATACAGAAATTCATAAACTCATTATTAATTTCTTAGGTTGCACACA
1 GGTTGCACACATAGTACCAATACAGAAAGTCATAAACTCATTATGAATTTCTTAGGTTGCACACA
*
21405 TAGTGCCAATACAG-AAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAAT
66 TAGTGCAAATAC-GCAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAAT
* * * *
21469 ACGAAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACATATAGTGCCAATACGGAAATTCA
130 ACGAAAATTCAGAAACTCAATATGAATTTCTTAGGTAGCACAAATAGTGCCAATACGGAAATTCA
21534 TAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCA
195 TAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCA
21575 TTCGGTAATC
Statistics
Matches: 224, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
277 223 1.00
278 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (277 bp):
GGTTGCACACATAGTACCAATACAGAAAGTCATAAACTCATTATGAATTTCTTAGGTTGCACACA
TAGTGCAAATACGCAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATA
CGAAAATTCAGAAACTCAATATGAATTTCTTAGGTAGCACAAATAGTGCCAATACGGAAATTCAT
AAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTAT
GAATTATGAATTTTTTA
Found at i:22055 original size:94 final size:95
Alignment explanation
Indices: 21920--22092 Score: 242
Period size: 94 Copynumber: 1.8 Consensus size: 95
21910 CATGGTATCG
* * * *
21920 ATACTTCTATATTGTGGTACCGATACTCCTTTTCAATATCGATACCATTTCTACATTCTGG-ATC
1 ATACTTCTATACTATGGTACCGATACTCCTTTACAATATCGATACCATTTCTACATTATGGAATC
**
21984 CTTGGTATCGATACCTTTCTCTTAGTACCA
66 AATGGTATCGATACCTTTCTCTTAGTACCA
* * *
22014 ATACTTCTATACTATGGTACTGATACT-CTATTACAGTATCGATACTATTTCTACATTATGGAAT
1 ATACTTCTATACTATGGTACCGATACTCCT-TTACAATATCGATACCATTTCTACATTATGGAAT
22078 CAATGGTATCGATAC
65 CAATGGTATCGATAC
22093 ATTCCTCATA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
93 2 0.03
94 51 0.75
95 15 0.22
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (95 bp):
ATACTTCTATACTATGGTACCGATACTCCTTTACAATATCGATACCATTTCTACATTATGGAATC
AATGGTATCGATACCTTTCTCTTAGTACCA
Found at i:25032 original size:2 final size:2
Alignment explanation
Indices: 25025--25051 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25015 GACTTAGTAC
25025 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
25052 AGAGTGACAT
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:26024 original size:31 final size:29
Alignment explanation
Indices: 25989--26060 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
25979 TTTCAAATTT
*
25989 TACATGAACTTTGATATAATGTG-TATTATTA
1 TACATGAACTTTGAT-T-ATGTGCAATT-TTA
* *
26020 TACATGAATTTTGATTTTGTGCAATTTTA
1 TACATGAACTTTGATTATGTGCAATTTTA
26049 TACATGAACTTT
1 TACATGAACTTT
26061 CAATTTGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 18 0.50
30 4 0.11
31 14 0.39
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.47
Consensus pattern (29 bp):
TACATGAACTTTGATTATGTGCAATTTTA
Found at i:27711 original size:23 final size:22
Alignment explanation
Indices: 27685--27761 Score: 55
Period size: 25 Copynumber: 3.2 Consensus size: 22
27675 ATAAATGAGG
*
27685 AAAAAGGAAGAATAAAAAAATA
1 AAAAAAGAAGAATAAAAAAATA
* * *
27707 AAAAAATAAAGAAGTTAAAAACAGA
1 AAAAAA-GAAGAA--TAAAAAAATA
*
27732 AAATAAAGAAAAATAAAACACAATA
1 AAA-AAAGAAGAATAAAA-A-AATA
27757 AAAAA
1 AAAAA
27762 TGTAAAATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 5 0.12
23 10 0.24
24 3 0.07
25 20 0.49
26 3 0.07
ACGTcount: A:0.77, C:0.04, G:0.09, T:0.10
Consensus pattern (22 bp):
AAAAAAGAAGAATAAAAAAATA
Found at i:27875 original size:2 final size:2
Alignment explanation
Indices: 27870--27942 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
27860 AATAGAAATA
27870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27912 AT AT 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 AT AT A
27943 ATAGCATTCA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30690 original size:60 final size:61
Alignment explanation
Indices: 30564--30690 Score: 132
Period size: 60 Copynumber: 2.1 Consensus size: 61
30554 CGCCCTTTAG
* * * * * *
30564 GGTTTTTACCCTAAACATTTTTCTTTTTTTATTTTCTTTTTCAATTTAGGGTGACCTTTCC
1 GGTTTTCACCCTAAACATTTTTCTTTTTCTATTTTCTTCTTCAACTTAGGGTGACCTCTCA
* * * * *
30625 TGTTTTCACCCTAATCTTTTTTCTTTTTCT-TTTTCTTCTTCGACTT-GGGATGCCCTCTCA
1 GGTTTTCACCCTAAACATTTTTCTTTTTCTATTTTCTTCTTCAACTTAGGG-TGACCTCTCA
30685 GGTTTT
1 GGTTTT
30691 TATCCTAAGT
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
59 3 0.06
60 25 0.47
61 25 0.47
ACGTcount: A:0.13, C:0.21, G:0.11, T:0.55
Consensus pattern (61 bp):
GGTTTTCACCCTAAACATTTTTCTTTTTCTATTTTCTTCTTCAACTTAGGGTGACCTCTCA
Found at i:37577 original size:23 final size:23
Alignment explanation
Indices: 37523--37587 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
37513 AGCTCGTAAT
* *
37523 TTGCACCGAAGCGCCACAT-AGT
1 TTGCACCGAAGTGCCACATAAGG
* *
37545 TTACACCGAAGTTCCACATAAGG
1 TTGCACCGAAGTGCCACATAAGG
37568 TTGCACCGAAGTGCCACATA
1 TTGCACCGAAGTGCCACATA
37588 TTTTTCCTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACATAAGG
Found at i:38238 original size:55 final size:54
Alignment explanation
Indices: 38177--38322 Score: 177
Period size: 55 Copynumber: 2.7 Consensus size: 54
38167 CAAAATGGCA
* *
38177 AGGGTATCGATACACTCCTTAGTATACCGATACACAAAT-AACATTCGATCTTTTG
1 AGGGTATCGATACACTCCTCAGTGTACCGATACACAAATGAAC--TCGATCTTTTG
* * * * *
38232 ATGGTATCGATGCACTCCTCAATGTACCGATACATAAATGGAACTCGATGTTTTG
1 AGGGTATCGATACACTCCTCAGTGTACCGATACACAAAT-GAACTCGATCTTTTG
* *
38287 CGGGTATCGATACACTCCTCAGTGTACAGATACACA
1 AGGGTATCGATACACTCCTCAGTGTACCGATACACA
38323 CTCATATAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
55 73 0.96
57 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (54 bp):
AGGGTATCGATACACTCCTCAGTGTACCGATACACAAATGAACTCGATCTTTTG
Found at i:44936 original size:47 final size:47
Alignment explanation
Indices: 44882--44977 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
44872 AAAACTTAAC
44882 TTGAACCTAAACCTAAACTAAACTAAACAATTCAGTCGCATTTGCTT
1 TTGAACCTAAACCTAAACTAAACTAAACAATTCAGTCGCATTTGCTT
* * *
44929 TTGAACCTAAACCTAAACTGAACTAGACAATTCAGTTGCATTTGCTT
1 TTGAACCTAAACCTAAACTAAACTAAACAATTCAGTCGCATTTGCTT
44976 TT
1 TT
44978 TCACTCTCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (47 bp):
TTGAACCTAAACCTAAACTAAACTAAACAATTCAGTCGCATTTGCTT
Found at i:46077 original size:22 final size:22
Alignment explanation
Indices: 46045--46089 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
46035 ACATGGCTAC
46045 TACAACCGGGTTCGGGTCAGGT
1 TACAACCGGGTTCGGGTCAGGT
*
46067 TACAACTGGGTTCGGGTCAGGT
1 TACAACCGGGTTCGGGTCAGGT
46089 T
1 T
46090 GCGACCGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.20, G:0.36, T:0.27
Consensus pattern (22 bp):
TACAACCGGGTTCGGGTCAGGT
Found at i:46505 original size:53 final size:53
Alignment explanation
Indices: 46439--46644 Score: 304
Period size: 53 Copynumber: 3.9 Consensus size: 53
46429 TCTTCGACCA
* * *
46439 ACGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTTGAACAATCTTTTGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTATGCCT
** * * *
46492 ATAGGTTCCCTCCCTTTTGCTTCAGGGAGTAGAACTCGATCAATCTTATGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTATGCCT
* * *
46545 ACGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACGCGAATAATCTTATGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTATGCCT
*
46598 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACACGAACAATCTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
46645 CTGGTGTGAT
Statistics
Matches: 136, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 136 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (53 bp):
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTATGCCT
Found at i:47148 original size:22 final size:21
Alignment explanation
Indices: 47083--47190 Score: 64
Period size: 20 Copynumber: 5.1 Consensus size: 21
47073 TGGATGACCT
*
47083 GAAGGATTTATCATCTTGCTC
1 GAAGGATTTATCATCATGCTC
* * *
47104 G-AGAGATTCA-CA-AATGACCC
1 GAAG-GATTTATCATCATG-CTC
47124 GAAGGATTTAATCATCATGCTC
1 GAAGGATTT-ATCATCATGCTC
* * * *
47146 GAAAGAGTTA-C-TGATGGCCC
1 GAAGGATTTATCATCAT-GCTC
47166 GAAGGATTTCATCATCATGCTC
1 GAAGGATTT-ATCATCATGCTC
47188 GAA
1 GAA
47191 AGACTTACTG
Statistics
Matches: 62, Mismatches: 15, Indels: 19
0.65 0.16 0.20
Matches are distributed among these distances:
19 5 0.08
20 22 0.35
21 11 0.18
22 18 0.29
23 6 0.10
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (21 bp):
GAAGGATTTATCATCATGCTC
Found at i:47167 original size:42 final size:40
Alignment explanation
Indices: 47083--47204 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 40
47073 TGGATGACCT
* * ** *
47083 GAAGGATTTATCATCTTGCTCGAGAGATTCACAAATGACCC
1 GAAGGATTTATCATCATGCTCGAAAGATT-ACTGATGGCCC
47124 GAAGGATTTAATCATCATGCTCGAAAGAGTTACTGATGGCCC
1 GAAGGATTT-ATCATCATGCTCGAAAGA-TTACTGATGGCCC
47166 GAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
1 GAAGGATTT-ATCATCATGCTCGAAAGA-TTACTGATGG
47205 ATTTGCTTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
41 9 0.12
42 61 0.85
43 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (40 bp):
GAAGGATTTATCATCATGCTCGAAAGATTACTGATGGCCC
Found at i:47320 original size:42 final size:42
Alignment explanation
Indices: 47258--47462 Score: 162
Period size: 42 Copynumber: 4.7 Consensus size: 42
47248 ATAATTTAAC
* * *
47258 CATCATGCTTGAAAGACTTACTGATGGCCTGAAGGATTTCAT
1 CATCATGCTCGAAAGACTTACAGATGGCCCGAAGGATTTCAT
* * * *
47300 CATCGTGCTCGAAAGGCTTACAGATGGCACTTACCGATGGATTTGCTT
1 CATCATGCTCGAAAGACTTACAGATGG--C---CCGAAGGATTT-CAT
* * ** * * *
47348 CA-CTACT-CTTCAGAGAAGGCTTACAAATTACCCGAATGATTTAAC
1 CATC-A-TGC-TC-GA-AAGACTTACAGATGGCCCGAAGGATTTCAT
*
47393 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCAT
1 CATCATGCTCGAAAGACTTACAGATGGCCCGAAGGATTTCAT
47435 CATCATGCTCGAAAGACTTACAGATGGC
1 CATCATGCTCGAAAGACTTACAGATGGC
47463 ACTTACTGAT
Statistics
Matches: 125, Mismatches: 25, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
42 72 0.58
43 2 0.02
44 4 0.03
45 4 0.03
46 10 0.08
47 10 0.08
48 5 0.04
49 4 0.03
50 2 0.02
51 12 0.10
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGGCCCGAAGGATTTCAT
Found at i:47435 original size:135 final size:133
Alignment explanation
Indices: 47193--47547 Score: 497
Period size: 135 Copynumber: 2.7 Consensus size: 133
47183 TGCTCGAAAG
* * * * *
47193 ACTTACTGATGGATTTGCTTCATTGCTCTTTAGTGAAGGCATACAAATTACCCAAATAATTTAAC
1 ACTTACTGATGGATTTGCTTCACTACTCTTCAGAGAAGGCTTACAAATTACCC-AAT-ATTTAAC
* * * *
47258 CATCATGCTTGAAAGACTTACTGATGGCCTGAAGGATTTCATCATCGTGCTCGAAAGGCTTACAG
64 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACAG
47323 ATGGC
129 ATGGC
*
47328 ACTTACCGATGGATTTGCTTCACTACTCTTCAGAGAAGGCTTACAAATTACCCGAATGATTTAAC
1 ACTTACTGATGGATTTGCTTCACTACTCTTCAGAGAAGGCTTACAAATTACCC-AAT-ATTTAAC
47393 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACAG
64 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACAG
47458 ATGGC
129 ATGGC
** * *
47463 ACTTACTGATGGATTTGCTTCACTTTTCTTC-GATGAAGGCTTACAAATTTCCC-A-A---AATC
1 ACTTACTGATGGATTTGCTTCACTACTCTTCAGA-GAAGGCTTACAAATTACCCAATATTTAACC
47522 ATCATGCTCGAAAGACTTACTGATGG
65 ATCATGCTCGAAAGACTTACTGATGG
47548 ATTTGCTTCA
Statistics
Matches: 202, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
128 29 0.14
131 1 0.00
133 1 0.00
134 2 0.01
135 169 0.84
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (133 bp):
ACTTACTGATGGATTTGCTTCACTACTCTTCAGAGAAGGCTTACAAATTACCCAATATTTAACCA
TCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTACAGAT
GGC
Found at i:51367 original size:59 final size:59
Alignment explanation
Indices: 51262--51624 Score: 410
Period size: 59 Copynumber: 6.2 Consensus size: 59
51252 TAACACTATA
* * * * *
51262 TGTGCTAAAATAATAAGG-AATCATACTGAATATATGAAATTCCATATAGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATAGAGCACTAAG
* * *
51320 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGTACTAAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATAGAGCACTAAG
* * *
51379 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATAGAGCACTAAG
* * * * *
51438 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATA-
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATAGAGCACTA-AG
* * * * * * *
51497 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAATCACTAAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATAGAGCACTAAG
* * * * * *
51556 GGTGCTACAAGGATAAGGAAATCATACT-AATAGTATGGATTTTCATATAGGGCACTTCA-
1 TGTGCTAAAATGATAAGGAAATCATACTGAAT-GTATGGATTTCCATATAGAGCAC-TAAG
51615 TGTGCTAAAA
1 TGTGCTAAAA
51625 ATGGTAAATG
Statistics
Matches: 257, Mismatches: 43, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
58 20 0.08
59 234 0.91
60 3 0.01
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (59 bp):
TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATAGAGCACTAAG
Found at i:51441 original size:118 final size:117
Alignment explanation
Indices: 51255--51624 Score: 460
Period size: 118 Copynumber: 3.1 Consensus size: 117
51245 TACCAAATAA
* * * * *
51255 CACTATATGTGCTAAAATAATAAGGAATCATACTGAATATATGAAATTCCATATAGAGCACTGAG
1 CACTATATGTGCTAAAATGATAAGGAATCATACTGAGTGTATGGATTTCCATATAGAGCACTGAG
*
51320 TGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATAT-GGAG
66 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATAGG-G
* *
51372 TACTA-AGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTG
1 CACTATA-TGTGCTAAAATGATAAGG-AATCATACTGAGTGTATGGATTTCCATATAGAGCACTG
* * *
51436 AGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGG
64 AGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATAGGG
* * * * * * *
51490 CATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAATCACTAA
1 CACTATATGTGCTAAAATGATAA-GGAATCATACTGAGTGTATGGATTTCCATATAGAGCACTGA
* * * *
51555 GGGTGCTACAAGGATAAGGAAATCATACT-AATAGTATGGATTTTCATATAGGG
65 GTGTGCTAAAATGATAAGGAAATCATACTGAAT-GTATGGATTTCCATATAGGG
51608 CACT-TCATGTGCTAAAA
1 CACTAT-ATGTGCTAAAA
51625 ATGGTAAATG
Statistics
Matches: 218, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
116 1 0.00
117 25 0.11
118 187 0.86
119 5 0.02
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (117 bp):
CACTATATGTGCTAAAATGATAAGGAATCATACTGAGTGTATGGATTTCCATATAGAGCACTGAG
TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATAGGG
Found at i:51573 original size:177 final size:175
Alignment explanation
Indices: 51261--51691 Score: 473
Period size: 177 Copynumber: 2.4 Consensus size: 175
51251 ATAACACTAT
* * * * * *
51261 ATGTGCTAAAATAATAAGGAATCATACTGAATATATGAAATTCCATATAGAGCACTGA-GTGTGC
1 ATGTGCTAAAATGATAAGGAATCATACTGAATATATGGATTTCCA-ATAGGGCA-TTATATGTGC
* * ** * * *
51325 TAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGTACTAAGTGTGCTAAAAT
64 TAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAAATACTAAGGGTGCTAAAAG
* *
51390 GATAAGGAAATCATACTGAGT-GTATGGATTTCCATAT-GGAGCAC-TG
129 GATAAGGAAATCATACT-AATAGTATGGATTTCCATATAGG-GCACTTC
*
51436 AGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATATGTG
1 A-TGTGCTAAAATGATAAGG-AATCATACTGAATATATGGATTTCCA-ATAGGGCATTATATGTG
* *
51501 CTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGA-AAAATCACTAAGGGTGCTACA
63 CTAAAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAAAT-ACTAAGGGTGCTAAA
*
51565 AGGATAAGGAAATCATACTAATAGTATGGATTTTCATATAGGGCACTTC
127 AGGATAAGGAAATCATACTAATAGTATGGATTTCCATATAGGGCACTTC
* * *
51614 ATGTGCTAAAAATGGTAAATGG-ATCATACT-AATGGTATGGATTCTCGAATAGGGCATT-TCAT
1 ATGTGCT-AAAATGAT-AA-GGAATCATACTGAAT-ATATGGATT-TCCAATAGGGCATTAT-AT
51676 GTGCTAAAAATGGTAA
60 GTGCT-AAAATGGTAA
51692 ATGAATCGTA
Statistics
Matches: 218, Mismatches: 24, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
175 1 0.00
176 23 0.11
177 134 0.61
178 43 0.20
179 15 0.07
180 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (175 bp):
ATGTGCTAAAATGATAAGGAATCATACTGAATATATGGATTTCCAATAGGGCATTATATGTGCTA
AAATGGTAAGGAAATCATACTGAGTGTATGGATTTCCAGATAAAATACTAAGGGTGCTAAAAGGA
TAAGGAAATCATACTAATAGTATGGATTTCCATATAGGGCACTTC
Found at i:51652 original size:60 final size:60
Alignment explanation
Indices: 51575--51744 Score: 252
Period size: 60 Copynumber: 2.8 Consensus size: 60
51565 AGGATAAGGA
* *
51575 AATCATACTAATAGTATGGATTTTC-ATATAGGGCACTTCATGTGCTAAAAATGGTAAATG
1 AATCATACTAATGGTATGGATTCTCGA-ATAGGGCACTTCATGTGCTAAAAATGGTAAATG
* *
51635 GATCATACTAATGGTATGGATTCTCGAATAGGGCATTTCATGTGCTAAAAATGGTAAATG
1 AATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTAAATG
* * * *
51695 AATCGTATTAATGGTATGGAATCTCGAATAGGGCACTTCGTGTGCTAAAA
1 AATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAA
51745 TGAGAAGGAA
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
60 98 0.99
61 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (60 bp):
AATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTAAATG
Found at i:51947 original size:44 final size:44
Alignment explanation
Indices: 51897--52425 Score: 770
Period size: 44 Copynumber: 12.0 Consensus size: 44
51887 TTAGTGATTC
*
51897 AAATTATAGTAAGTATATTGGTAAAATAAGTTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
*
51941 AAATTATTGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
51985 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * *
52029 AAATAATGGTAAGTATATTGGTAAAATAAGATTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* *
52073 AAATTATAGAAAGTATATTGGTAAAATAAGCTTACAAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
*
52117 AAATTATAGTAAGTATATTCGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * *
52161 GAATAATTGTAAGTATATTGGTAAAATAAGCTTACGTGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * *
52205 AAATTATAGTAAGTATATTAGTGAAATAAGCTTACGAACTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * *
52249 GAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * * *
52293 GAATAATGGTAAGTATATTAGTAAAATAAGCTTACGATCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * *
52337 GAATAATACTAAGTATATTGGTAAAATAAGCTTACGAGCTTAGG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * *
52381 GATTTAATGGTAAGTATATTGGTAAATTAAGCTTACGAGCTTATG
1 AAATT-ATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
52426 GATTAAATGG
Statistics
Matches: 439, Mismatches: 45, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
44 404 0.92
45 35 0.08
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (44 bp):
AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
Found at i:57267 original size:59 final size:58
Alignment explanation
Indices: 57072--57421 Score: 246
Period size: 59 Copynumber: 5.9 Consensus size: 58
57062 TAACATGATT
* * * * * *
57072 TGAATGTATGAATTTCCATATAGAGCACTGAGTGTGCTAAAATGATAAGGAAATCATAC
1 TGAATGTATGGATTTCCAGATAGGGCA-TTAATGTGCTAAAATGGTAAGGAAATCATAC
* * * * * *
57131 TGAGTGTATGGATTTTCATG-T-GGAGCACTGAGTGTGCTAAAATGATAAGGAAATCATAT
1 TGAATGTATGGATTTCCA-GATAGG-GCA-TTAATGTGCTAAAATGGTAAGGAAATCATAC
* *
57190 TGAATATATGGATTTCCAGATAGGGCATTATATGTGCTAAAATGGTAAGGGAATCATAC
1 TGAATGTATGGATTTCCAGATAGGGCATTA-ATGTGCTAAAATGGTAAGGAAATCATAC
* * *** * * *
57249 TGAGTGTATGGATTTCCAGAAAAATCACTAAGGGTGCTACAA-GGATAAGGAAATCATAC
1 TGAATGTATGGATTTCCAGATAGGGCATTAA-TGTGCTAAAATGG-TAAGGAAATCATAC
* * * * *
57308 T-AATAGTATGAATTTTCATATAGGGCACTACATGTGCTAAAAATGGTAAAGG-GATCATAC
1 TGAAT-GTATGGATTTCCAGATAGGGCATTA-ATGTGCT-AAAATGGT-AAGGAAATCATAC
* *
57368 T-AATGGTATGGATTCTCGA-ATAGGGCACTTCATGTGCTAAAAATGGTAAAGGAA
1 TGAAT-GTATGGATT-TCCAGATAGGGCA-TTAATGTGCT-AAAATGGT-AAGGAA
57422 TTATATTAAT
Statistics
Matches: 234, Mismatches: 42, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
58 9 0.04
59 161 0.69
60 55 0.24
61 9 0.04
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (58 bp):
TGAATGTATGGATTTCCAGATAGGGCATTAATGTGCTAAAATGGTAAGGAAATCATAC
Found at i:57286 original size:118 final size:118
Alignment explanation
Indices: 57077--57381 Score: 332
Period size: 118 Copynumber: 2.6 Consensus size: 118
57067 TGATTTGAAT
* * * * *
57077 GTATGAATTTCCATATAGAGCACTGA-GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATG
1 GTATGAATTTCCAGATAGGGCACT-ACATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATG
* *** * * * *
57141 GATTTTCATGTGGAGCACTGAGTGTGCTAAAATGATAAGGAAATCATATTGAATA
65 GATTTCCATGAAAAGCACTAAGGGTGCTAAAAGGATAAGGAAATCATACT-AATA
* * *
57196 -TATGGATTTCCAGATAGGGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGG
1 GTATGAATTTCCAGATAGGGCACTACATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGG
* *
57260 ATTTCCA-GAAAAATCACTAAGGGTGCTACAAGGATAAGGAAATCATACTAATA
66 ATTTCCATG-AAAAGCACTAAGGGTGCTAAAAGGATAAGGAAATCATACTAATA
* * *
57313 GTATGAATTTTCATATAGGGCACTACATGTGCTAAAAATGGTAAAGGG-ATCATACT-AATGGTA
1 GTATGAATTTCCAGATAGGGCACTACATGTGCT-AAAATGGT-AAGGGAATCATACTGAGT-GTA
57376 TGGATT
63 TGGATT
57382 CTCGAATAGG
Statistics
Matches: 157, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
117 6 0.04
118 121 0.77
119 25 0.16
120 5 0.03
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (118 bp):
GTATGAATTTCCAGATAGGGCACTACATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGG
ATTTCCATGAAAAGCACTAAGGGTGCTAAAAGGATAAGGAAATCATACTAATA
Found at i:57377 original size:60 final size:60
Alignment explanation
Indices: 57295--57469 Score: 235
Period size: 60 Copynumber: 2.9 Consensus size: 60
57285 CTACAAGGAT
* * *
57295 AAGGAAATCATACTAATAGTATGAATTTTC-ATATAGGGCACTACATGTGCTAAAAATGGTA
1 AAGG-AATCATACTAATGGTATGAATTCTCGA-ATAGGGCACTTCATGTGCTAAAAATGGTA
* *
57356 AAGGGATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
1 AAGGAATCATACTAATGGTATGAATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
* * * * *
57416 AAGGAATTATATTAATGGTATGTACTCTCGAATAGGGCACTTCGTGTGCTAAAA
1 AAGGAATCATACTAATGGTATGAATTCTCGAATAGGGCACTTCATGTGCTAAAA
57470 TGAGAAGAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
60 97 0.95
61 5 0.05
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (60 bp):
AAGGAATCATACTAATGGTATGAATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
Found at i:59715 original size:18 final size:17
Alignment explanation
Indices: 59661--59709 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
59651 TTGGACCCTT
* *
59661 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
59679 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
59697 AGTGCATTCGATG
1 AGTGCA-TCGATG
59710 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:60282 original size:60 final size:60
Alignment explanation
Indices: 60200--60374 Score: 244
Period size: 60 Copynumber: 2.9 Consensus size: 60
60190 CTACAAGGAT
* * *
60200 AAGGAAATCATACTAATAGTATGAATTTTC-ATATAGGGCACTACATGTGCTAAAAATGGTA
1 AAGG-AATCATACTAATGGTATGAATTCTCGA-ATAGGGCACTTCATGTGCTAAAAATGGTA
* *
60261 AAGGGATCATACTAATGGTATGGATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
1 AAGGAATCATACTAATGGTATGAATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
* * * *
60321 AAGGAATTATATTAATGGTATGTATTCTCGAATAGGGCACTTCGTGTGCTAAAA
1 AAGGAATCATACTAATGGTATGAATTCTCGAATAGGGCACTTCATGTGCTAAAA
60375 TGAGAAGAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
60 98 0.95
61 5 0.05
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (60 bp):
AAGGAATCATACTAATGGTATGAATTCTCGAATAGGGCACTTCATGTGCTAAAAATGGTA
Found at i:60407 original size:60 final size:60
Alignment explanation
Indices: 60232--60420 Score: 199
Period size: 60 Copynumber: 3.2 Consensus size: 60
60222 GAATTTTCAT
* ** * * *
60232 ATAGGGCACTACATGTGCTAAAAATGGTAAAGGGATCATACTAATGGTATGGATTCTCGA
1 ATAGGGCACTTCATGTGCTAAAAATGGTAAAGAAATCATATTAATGATATGTATTCTCGA
* * *
60292 ATAGGGCACTTCATGTGCTAAAAATGGTAAAGGAATTATATTAATGGTATGTATTCTCGA
1 ATAGGGCACTTCATGTGCTAAAAATGGTAAAGAAATCATATTAATGATATGTATTCTCGA
* *
60352 ATAGGGCACTTCGTGTGCT-AAAAT-G-AGAAGAAAATCATATTAA-GTATATGATATTC-CAA
1 ATAGGGCACTTCATGTGCTAAAAATGGTA-AAG-AAATCATATTAATG-ATATG-TATTCTCGA
*
60411 ATAGAGCACT
1 ATAGGGCACT
60421 GAGAGTGCTA
Statistics
Matches: 114, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.26
60 78 0.68
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (60 bp):
ATAGGGCACTTCATGTGCTAAAAATGGTAAAGAAATCATATTAATGATATGTATTCTCGA
Found at i:60589 original size:44 final size:44
Alignment explanation
Indices: 60526--60865 Score: 443
Period size: 44 Copynumber: 8.0 Consensus size: 44
60516 TCAGTAATGC
*
60526 AAATTATAGTAAGTCTATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
*
60570 AAATTATAGTGAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
60614 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
60658 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
*
60702 AAATTATAGTAAGTATATTGGTAAAATAAGCTTATGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * *
60746 --------G-AA-TA-A-TAGTAAAATAAGCTTATGAACTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * * *
60778 GAATAATGGTAAGTATATTGGTAAAATAAGCTTACGACCTTAGG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * * *
60822 GATTTAATGGTAAGTATATTGGTAAATTAAGCTTTCGAGCTTAT
1 AAATT-ATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
60866 AGATTAAATG
Statistics
Matches: 267, Mismatches: 16, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
32 24 0.09
33 1 0.00
34 2 0.01
35 2 0.01
36 1 0.00
40 1 0.00
41 2 0.01
42 2 0.01
43 1 0.00
44 197 0.74
45 34 0.13
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.34
Consensus pattern (44 bp):
AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
Found at i:60762 original size:32 final size:32
Alignment explanation
Indices: 60722--60789 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
60712 AAGTATATTG
*
60722 GTAAAATAAGCTTATGAGCTTATGGAATAATA
1 GTAAAATAAGCTTATGAACTTATGGAATAATA
*
60754 GTAAAATAAGCTTATGAACTTATGGAATAATG
1 GTAAAATAAGCTTATGAACTTATGGAATAATA
60786 GTAA
1 GTAA
60790 GTATATTGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (32 bp):
GTAAAATAAGCTTATGAACTTATGGAATAATA
Found at i:60839 original size:45 final size:45
Alignment explanation
Indices: 60754--60887 Score: 171
Period size: 45 Copynumber: 3.0 Consensus size: 45
60744 TGGAATAATA
* *
60754 GTAAAATAAGCTTATGAACTTATGGA-ATAATGGTAAGTATATTG
1 GTAAAATAAGCTTACGAACTTATGGATTTAATGGTAAGTATATTG
* *
60798 GTAAAATAAGCTTACGACCTTAGGGATTTAATGGTAAGTATATTG
1 GTAAAATAAGCTTACGAACTTATGGATTTAATGGTAAGTATATTG
* * * * * *
60843 GTAAATTAAGCTTTCGAGCTTATAGATTAAATGGTATGTATATTG
1 GTAAAATAAGCTTACGAACTTATGGATTTAATGGTAAGTATATTG
60888 ATAAGAAACT
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 23 0.29
45 55 0.71
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.36
Consensus pattern (45 bp):
GTAAAATAAGCTTACGAACTTATGGATTTAATGGTAAGTATATTG
Found at i:63570 original size:6 final size:6
Alignment explanation
Indices: 63555--63597 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
63545 AAACAAATAC
* *
63555 ATGC-A ATGCAA ATGCAA ATGCAA ATGCTAA ATTCAA ATACAA A
1 ATGCAA ATGCAA ATGCAA ATGCAA ATGC-AA ATGCAA ATGCAA A
63598 AGGTGTCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 4 0.12
6 25 0.74
7 5 0.15
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (6 bp):
ATGCAA
Found at i:63591 original size:19 final size:18
Alignment explanation
Indices: 63555--63597 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
63545 AAACAAATAC
63555 ATGC-AATGCAAATGCAA
1 ATGCAAATGCAAATGCAA
*
63572 ATGCAAATGCTAAATTCAA
1 ATGCAAATGC-AAATGCAA
*
63591 ATACAAA
1 ATGCAAA
63598 AGGTGTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 13 0.59
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (18 bp):
ATGCAAATGCAAATGCAA
Found at i:68104 original size:47 final size:47
Alignment explanation
Indices: 68047--68142 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
68037 AAAACTTAAC
*
68047 TTGAAACTAAACCTAAACTAAACTAAACAATTCAGCCAGATTTGCTT
1 TTGAAACTAAACCTAAACTAAACTAAACAATTCAGCCACATTTGCTT
* *
68094 TTGAACCTAAACCTAAACTAAACTAAACAATTCAGCCACATTTTCTT
1 TTGAAACTAAACCTAAACTAAACTAAACAATTCAGCCACATTTGCTT
68141 TT
1 TT
68143 TCACTCTCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (47 bp):
TTGAAACTAAACCTAAACTAAACTAAACAATTCAGCCACATTTGCTT
Found at i:69239 original size:22 final size:22
Alignment explanation
Indices: 69209--69287 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
69199 AGACTTGGCT
*
69209 GTTGCAACCGGGTTCGGGTTAG
1 GTTGCAACCGGGTTCGGGTCAG
* *
69231 GTTGTAACCAGGTTCGGGTCAG
1 GTTGCAACCGGGTTCGGGTCAG
* *
69253 GTTACAACCGGG-TCTGGGTCGG
1 GTTGCAACCGGGTTC-GGGTCAG
* *
69275 GTCGTAACCGGGT
1 GTTGCAACCGGGT
69288 CTCACTTGGG
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 2 0.04
22 43 0.96
ACGTcount: A:0.15, C:0.20, G:0.39, T:0.25
Consensus pattern (22 bp):
GTTGCAACCGGGTTCGGGTCAG
Found at i:70902 original size:54 final size:55
Alignment explanation
Indices: 70826--70951 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 55
70816 TACCTTCACA
* *
70826 TGTACCAACAC-CTAAATTACATTCAAAATGGCAAGGGTATC-ATACACTCCTCAG
1 TGTACCAATACAC-AAATAACATTCAAAATGGCAAGGGTATCAATACACTCCTCAG
** * ** ****
70880 TGTACTGATACACAAATAACATTCGATGTTTTGAGGGTATCAATACACTCCTCAG
1 TGTACCAATACACAAATAACATTCAAAATGGCAAGGGTATCAATACACTCCTCAG
70935 TGTACCAATACACAAAT
1 TGTACCAATACACAAAT
70952 GGCATTCGAT
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
54 28 0.49
55 29 0.51
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (55 bp):
TGTACCAATACACAAATAACATTCAAAATGGCAAGGGTATCAATACACTCCTCAG
Found at i:70938 original size:55 final size:53
Alignment explanation
Indices: 70859--71003 Score: 200
Period size: 55 Copynumber: 2.7 Consensus size: 53
70849 CAAAATGGCA
*
70859 AGGGTATCATACACTCCTCAGTGTACTGATACACAAATAACATTCGATGTTTT
1 AGGGTATCATACACTCCTCAGTGTACCGATACACAAATAACATTCGATGTTTT
* **
70912 GAGGGTATCAATACACTCCTCAGTGTACCAATACACAAATGGCATTCGATGTTTT
1 -AGGGTATC-ATACACTCCTCAGTGTACCGATACACAAATAACATTCGATGTTTT
* *
70967 ACGGGTATCGATACACTCTTTAGTGTACCGATACACA
1 A-GGGTATC-ATACACTCCTCAGTGTACCGATACACA
71004 CCCATACAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
54 9 0.11
55 72 0.89
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (53 bp):
AGGGTATCATACACTCCTCAGTGTACCGATACACAAATAACATTCGATGTTTT
Found at i:75829 original size:25 final size:25
Alignment explanation
Indices: 75775--75829 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
75765 AACAAATGGG
**
75775 CTGATCGGATACCTTGATTTCTTGG
1 CTGATCGGATACCTTGATTTCTTAC
*
75800 ATGATCGGATACCTTGATTTCTTAC
1 CTGATCGGATACCTTGATTTCTTAC
75825 CTGAT
1 CTGAT
75830 TTTTATCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (25 bp):
CTGATCGGATACCTTGATTTCTTAC
Found at i:77617 original size:27 final size:27
Alignment explanation
Indices: 77586--77653 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
77576 TCTATTTACA
77586 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
77613 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
77640 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
77654 ATTCCTACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 9 0.22
27 32 0.78
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:85202 original size:19 final size:19
Alignment explanation
Indices: 85178--85216 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
85168 CGCTTAGACT
*
85178 GAACCGCCTGGACCGGACC
1 GAACCGCCTGGACCGAACC
85197 GAACCGCCTGGACCGAACC
1 GAACCGCCTGGACCGAACC
85216 G
1 G
85217 TTGACCGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.41, G:0.31, T:0.05
Consensus pattern (19 bp):
GAACCGCCTGGACCGAACC
Found at i:86551 original size:18 final size:18
Alignment explanation
Indices: 86525--86559 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86515 TCGAAAGAAC
*
86525 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
86543 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
86560 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:90319 original size:22 final size:22
Alignment explanation
Indices: 90291--90340 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
90281 GAGCCGATCG
*
90291 AGCCGACCGAGCTGATCGACCA
1 AGCCGACCGAGCTGACCGACCA
*
90313 AGCCGACCGAGCTGACCGACCG
1 AGCCGACCGAGCTGACCGACCA
90335 AGCCGA
1 AGCCGA
90341 TCGAACCGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.26, C:0.38, G:0.30, T:0.06
Consensus pattern (22 bp):
AGCCGACCGAGCTGACCGACCA
Found at i:91719 original size:18 final size:18
Alignment explanation
Indices: 91693--91727 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91683 TCGAAAGGAA
*
91693 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
91711 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
91728 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:94283 original size:70 final size:71
Alignment explanation
Indices: 94168--94327 Score: 243
Period size: 70 Copynumber: 2.2 Consensus size: 71
94158 TTATGAAATA
94168 ATATATATAT-TATATCACAGCTAAATACAGAAAGTAAAGGCATTGTAACACTAGTTAGGAACTT
1 ATATATATATATATAT-ACAGCTAAATACAGAAAGTAAAGGCATTGTAACACTAGTTAGGAACTT
94232 CATAGTT
65 CATAGTT
* * *
94239 GTATATATATATATAT-CAGCTAAATACAGAAAGTAAAGGCATTGTAATATTAGTTAGGAACTTC
1 ATATATATATATATATACAGCTAAATACAGAAAGTAAAGGCATTGTAACACTAGTTAGGAACTTC
94303 ATAGTT
66 ATAGTT
*
94309 ATTTTATATATATTATATA
1 A-TATATATATA-TATATA
94328 TATATATATA
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
70 52 0.65
71 18 0.22
72 10 0.12
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (71 bp):
ATATATATATATATATACAGCTAAATACAGAAAGTAAAGGCATTGTAACACTAGTTAGGAACTTC
ATAGTT
Found at i:94320 original size:2 final size:2
Alignment explanation
Indices: 94313--94362 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
94303 ATAGTTATTT
94313 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94354 TA TA TA TA T
1 TA TA TA TA T
94363 GCATTAGTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.