Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 37 of 290
Found at i:12576590 original size:43 final size:43
Alignment explanation
Indices: 12576440--12576618 Score: 150
Period size: 43 Copynumber: 4.2 Consensus size: 43
12576430 ACATTAGGTT
* * *
12576440 ATTGATATATGATTACATGCAAGACCATGTCTGGAACATTGGC
1 ATTGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
* * * *
12576483 ATTG-TATTGAGATTTCGTGTAAGACCATGTCTCGGACATTGGC
1 ATTGATA-TGTGATTACATGTAAGACCATGTCTGGGACATTGGC
* * * * * * *
12576526 ATCGTTAAT-CGATTTCGTGTAAGACCCTGTCTGGGACAGTGGC
1 ATTGAT-ATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
* * * *
12576569 ATTGATATGTGATAACATGTAAGACCATATTTGGGATA-TGGC
1 ATTGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
12576611 ATTG-TATG
1 ATTGATATG
12576619 AGCTTATGTG
Statistics
Matches: 110, Mismatches: 22, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
41 4 0.04
42 12 0.11
43 91 0.83
44 2 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
ATTGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
Found at i:12579706 original size:22 final size:21
Alignment explanation
Indices: 12579676--12579718 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
12579666 TACTATTATA
*
12579676 ATTTATTGTTTAGATTTTAGG
1 ATTTATTGTTTAGAATTTAGG
12579697 ATTTCATTGTTTAGAATTTAGG
1 ATTT-ATTGTTTAGAATTTAGG
12579719 GCATAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (21 bp):
ATTTATTGTTTAGAATTTAGG
Found at i:12581644 original size:48 final size:48
Alignment explanation
Indices: 12581573--12581665 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
12581563 TAGAAATAAT
*
12581573 GTGAAGTTTACGTTACATAGAAGAGCAAGAGGAAGATACTTCAACAAG
1 GTGAAGCTTACGTTACATAGAAGAGCAAGAGGAAGATACTTCAACAAG
12581621 GTGAAGCTTACGTTACATAGAAGAGCAAGAGGAAGATACTTCAAC
1 GTGAAGCTTACGTTACATAGAAGAGCAAGAGGAAGATACTTCAAC
12581666 CACCACCGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (48 bp):
GTGAAGCTTACGTTACATAGAAGAGCAAGAGGAAGATACTTCAACAAG
Found at i:12584498 original size:55 final size:55
Alignment explanation
Indices: 12584409--12584525 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
12584399 CGGCCATGTG
* * *
12584409 TTAGAACCATGGGCGAACCTGCCAAAACAACACGGGCGTGCGACATGCCCGTGTC
1 TTAGAACCATGGGCGAACCTGACAAAACAACACGGACATGCGACATGCCCGTGTC
** * * * * *
12584464 TTAGAACCATGGTTGAACCTGAGAAAATATCACGGACATTCGCCATGCCCGTGTC
1 TTAGAACCATGGGCGAACCTGACAAAACAACACGGACATGCGACATGCCCGTGTC
12584519 -TAGAACC
1 TTAGAACC
12584526 CGTGGTCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
54 7 0.13
55 45 0.87
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (55 bp):
TTAGAACCATGGGCGAACCTGACAAAACAACACGGACATGCGACATGCCCGTGTC
Found at i:12598626 original size:55 final size:53
Alignment explanation
Indices: 12598520--12598771 Score: 248
Period size: 55 Copynumber: 4.8 Consensus size: 53
12598510 AGGGTTTAAT
* *
12598520 GATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTT-TCTAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTCTC-AAGGCAAG
* * * *
12598575 GATTCCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTACAAGGCAAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CT-CAAGGC-AAG
* * *
12598631 G-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCAT-AAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC-TCAAGGCAAG
* * *
12598683 GATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-TCAA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTCAAGGCAAG
* * * *
12598732 GATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
12598772 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 22, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
49 39 0.23
51 1 0.01
52 5 0.03
53 42 0.25
54 8 0.05
55 69 0.41
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTCAAGGCAAG
Found at i:12598723 original size:108 final size:110
Alignment explanation
Indices: 12598524--12598724 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
12598514 TTTAATGATA
*
12598524 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATTCCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
12598589 CCATGTCAAGACATGGCATTGATAAGTTACTACAAGGCAAATGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTACAAGGCAAATGTC
* *
12598634 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
12598696 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
12598725 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTACAAGGCAAATGTC
Found at i:12598984 original size:16 final size:16
Alignment explanation
Indices: 12598963--12598993 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12598953 ATAAATTTGA
12598963 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
12598979 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
12598994 AGTGAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:12605930 original size:19 final size:19
Alignment explanation
Indices: 12605901--12605966 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 19
12605891 AACAACCTTC
12605901 AAAAGTTTAAAATAATTTTT
1 AAAA-TTTAAAATAATTTTT
*
12605921 AAAATTTAAAAT-ATTTATA
1 AAAATTTAAAATAATTT-TT
12605940 AAAATTTCAAAATTTATATTTTT
1 AAAATTT-AAAA--TA-ATTTTT
12605963 AAAA
1 AAAA
12605967 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 4 0.11
19 16 0.42
20 8 0.21
22 1 0.03
23 5 0.13
24 4 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAATTTAAAATAATTTTT
Found at i:12611060 original size:26 final size:26
Alignment explanation
Indices: 12611031--12611088 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
12611021 TTGCAATAGC
* *
12611031 TGATTTGACCAAATGATTTTATTAAT
1 TGATTTAACCAAATAATTTTATTAAT
*
12611057 TGATTTAACCAACTAATTTTATTAAT
1 TGATTTAACCAAATAATTTTATTAAT
12611083 T-ATTTA
1 TGATTTA
12611089 TTTAAAGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (26 bp):
TGATTTAACCAAATAATTTTATTAAT
Found at i:12612114 original size:18 final size:18
Alignment explanation
Indices: 12612080--12612126 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
12612070 ATTTTTAAGA
*
12612080 ATTAAAAATCATTAAAATT
1 ATTAAAAAT-ATGAAAATT
12612099 ATTAAAAATATGAAAATT
1 ATTAAAAATATGAAAATT
*
12612117 A-AAAAAATAT
1 ATTAAAAATAT
12612127 TCTTTAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 8 0.31
18 9 0.35
19 9 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATTAAAAATATGAAAATT
Found at i:12612916 original size:13 final size:13
Alignment explanation
Indices: 12612874--12612923 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
12612864 TAGTTTTCTT
12612874 CTCTTCTTCTTTG
1 CTCTTCTTCTTTG
* *
12612887 CTATCCTTCTTT-
1 CTCTTCTTCTTTG
*
12612899 TTCTTCTTCTTTG
1 CTCTTCTTCTTTG
*
12612912 CTCTTTTTCTTT
1 CTCTTCTTCTTT
12612924 TCTTTTTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.02, C:0.28, G:0.04, T:0.66
Consensus pattern (13 bp):
CTCTTCTTCTTTG
Found at i:12612921 original size:25 final size:25
Alignment explanation
Indices: 12612867--12612924 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
12612857 TTTTCTTTAG
*
12612867 TTTTC-TTCTCTTCTTCTTTGCTAT
1 TTTTCTTTTTCTTCTTCTTTGCTAT
** *
12612891 CCTTCTTTTTCTTCTTCTTTGCTCT
1 TTTTCTTTTTCTTCTTCTTTGCTAT
12612916 TTTTCTTTT
1 TTTTCTTTT
12612925 CTTTTTATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.02, C:0.26, G:0.03, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTTCTTCTTCTTTGCTAT
Found at i:12628325 original size:17 final size:18
Alignment explanation
Indices: 12628295--12628329 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12628285 GTTACCCTTC
12628295 TTTTTCTTCATTATTTTT
1 TTTTTCTTCATTATTTTT
*
12628313 TTTTTCTT-TTTATTTTT
1 TTTTTCTTCATTATTTTT
12628330 ACTGATCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTCATTATTTTT
Found at i:12631587 original size:5 final size:5
Alignment explanation
Indices: 12631569--12631599 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
12631559 TTTCTTTTAT
12631569 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
12631600 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:12644959 original size:15 final size:15
Alignment explanation
Indices: 12644939--12644972 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
12644929 TTTATGGGAA
*
12644939 CATCTTATGCTAGAT
1 CATCTTATGCCAGAT
12644954 CATCTTATGCCAGAT
1 CATCTTATGCCAGAT
12644969 CATC
1 CATC
12644973 ACTTCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (15 bp):
CATCTTATGCCAGAT
Found at i:12645267 original size:17 final size:17
Alignment explanation
Indices: 12645242--12645281 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12645232 TGGGGAAAAG
*
12645242 AAAATAAATGTAATGGA
1 AAAAAAAATGTAATGGA
* *
12645259 AAAAAAAATTTACTGGA
1 AAAAAAAATGTAATGGA
12645276 AAAAAA
1 AAAAAA
12645282 TATGGAACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.20
Consensus pattern (17 bp):
AAAAAAAATGTAATGGA
Found at i:12645436 original size:10 final size:10
Alignment explanation
Indices: 12645409--12645447 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
12645399 TAAAACTCTA
12645409 AAAGATAAAT
1 AAAGATAAAT
12645419 ACAA-ATAAAT
1 A-AAGATAAAT
*
12645429 AAAGATAATT
1 AAAGATAAAT
12645439 AAAGATAAA
1 AAAGATAAA
12645448 AGCTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:12646096 original size:3 final size:3
Alignment explanation
Indices: 12646090--12646131 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
12646080 ATTATTATTA
12646090 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
12646132 CTGCTTAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:12649440 original size:42 final size:42
Alignment explanation
Indices: 12649367--12649446 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
12649357 CACAAGCCCG
* * *
12649367 TGTGCTAGGCCGTGTCCTTCACACGGCTGAGATACACACCCA
1 TGTGCTAGGCCGTGTCCTTCAAACAGCTGAGAAACACACCCA
*
12649409 TGTGCTAGGCCGTGTCCTTCAAACAGTTGAGAAACACA
1 TGTGCTAGGCCGTGTCCTTCAAACAGCTGAGAAACACA
12649447 GTCATATCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (42 bp):
TGTGCTAGGCCGTGTCCTTCAAACAGCTGAGAAACACACCCA
Found at i:12650463 original size:92 final size:94
Alignment explanation
Indices: 12650348--12650518 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 94
12650338 TATCTGTGCC
* *
12650348 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCGTAGCCGATGCATGTCCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATAAT-GTAGCCGATGCATGTCCCAAAC
12650410 ATGTCTTACACTAGCACTCGTCTCAATGCT
65 ATGTCTTACACTAGCACTCGTCTCAATGCT
** * * * * *
12650440 GATGCCATGTCCCAAACATGGTCTTATGCTAGCTCTCATAATGTGGCCGATGCATGTTCCAGACA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATAATGTAGCCGATGCATGTCCCAAACA
12650505 TGTCTTACACTAGC
66 TGTCTTACACTAGC
12650519 TCACACAAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 27 0.40
93 1 0.01
94 38 0.57
95 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATAATGTAGCCGATGCATGTCCCAAACA
TGTCTTACACTAGCACTCGTCTCAATGCT
Found at i:12650496 original size:47 final size:44
Alignment explanation
Indices: 12650344--12650520 Score: 137
Period size: 46 Copynumber: 3.8 Consensus size: 44
12650334 ATCATATCTG
* * * *
12650344 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACATCTC-G
1 TGCCGATG-CATGTCCCAAACAT-GTCTTACACTAG-CTCGTCTCAA
12650389 TAGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAA
1 T-GCCGATGCATGTCCCAAACATGTCTTACACTAG--CTCGTCTCAA
* **
12650436 TGCTGATGCCATGTCCCAAACATGGTCTTATGCTAGCTC-TCAT-AA
1 TGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCGTC-TCAA
* *
12650481 TGTGGCCGATGCATGTTCCAGACATGTCTTACACTAGCTC
1 --T-GCCGATGCATGTCCCAAACATGTCTTACACTAGCTC
12650521 ACACAAGTGA
Statistics
Matches: 110, Mismatches: 12, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
44 10 0.09
45 19 0.17
46 37 0.34
47 28 0.25
48 16 0.15
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (44 bp):
TGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCGTCTCAA
Found at i:12650893 original size:30 final size:30
Alignment explanation
Indices: 12650857--12650914 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
12650847 AAATTCATAT
*
12650857 CTTTGATAAAATAACCATTTTGCCCCTAAA
1 CTTTGATAAAATAACCATTTTACCCCTAAA
12650887 CTTTGATAAAATAACCATTTTACCCCTA
1 CTTTGATAAAATAACCATTTTACCCCTA
12650915 GGCTCGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (30 bp):
CTTTGATAAAATAACCATTTTACCCCTAAA
Found at i:12651888 original size:5 final size:5
Alignment explanation
Indices: 12651878--12651939 Score: 70
Period size: 5 Copynumber: 11.4 Consensus size: 5
12651868 GTAATAAAGT
*
12651878 AATAA AATAA AATAATA AATACT AATAA AATAA AATAA AATAA AATAAA
1 AATAA AATAA AAT-A-A AATA-A AATAA AATAA AATAA AATAA AAT-AA
12651927 TAATAA AATAA AA
1 -AATAA AATAA AA
12651940 ATTCATAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
5 33 0.66
6 10 0.20
7 7 0.14
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:12651911 original size:15 final size:14
Alignment explanation
Indices: 12651860--12651938 Score: 62
Period size: 12 Copynumber: 5.9 Consensus size: 14
12651850 TCAATATCCA
*
12651860 AAAATAAAGT-AAT
1 AAAATAAAATAAAT
* *
12651873 AAAGTAATA-AAAT
1 AAAATAAAATAAAT
12651886 AAAAT--AATAAAT
1 AAAATAAAATAAAT
*
12651898 ACTAATAAAATAAAAT
1 A-AAATAAAAT-AAAT
12651914 AAAATAAAATAAAT
1 AAAATAAAATAAAT
12651928 --AATAAAATAAA
1 AAAATAAAATAAA
12651939 AATTCATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
11 1 0.02
12 16 0.30
13 16 0.30
14 4 0.08
15 11 0.21
16 5 0.09
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:12651941 original size:33 final size:33
Alignment explanation
Indices: 12651878--12651939 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
12651868 GTAATAAAGT
*
12651878 AATAAAATAAAATAATAAATACTAATAAAATAA
1 AATAAAATAAAATAATAAATACAAATAAAATAA
12651911 AATAAAATAAAATAA-ATAATA-AAATAAAA
1 AATAAAATAAAATAATA-AATACAAATAAAA
12651940 ATTCATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.23
Consensus pattern (33 bp):
AATAAAATAAAATAATAAATACAAATAAAATAA
Found at i:12658379 original size:10 final size:10
Alignment explanation
Indices: 12658352--12658389 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
12658342 TTAAATTCTA
*
12658352 AAAGATAAAT
1 AAAGATAATT
12658362 ACAA-ATAATT
1 A-AAGATAATT
12658372 AAAGATAATT
1 AAAGATAATT
12658382 AAAGATAA
1 AAAGATAA
12658390 AAGCTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAATT
Found at i:12660829 original size:163 final size:163
Alignment explanation
Indices: 12660559--12660889 Score: 653
Period size: 163 Copynumber: 2.0 Consensus size: 163
12660549 TATCGGAACA
12660559 AATTAGATTTGTCGAGAAGTAAAAATTCATATGAGTACAATTTTCATTGTGCAACTTAGTCAAAT
1 AATTAGATTTGTCGAGAAGTAAAAATTCATATGAGTACAATTTTCATTGTGCAACTTAGTCAAAT
12660624 CATTTTGTTGTAGATTCTTATATGAAAATTTGTAGATGTAATAATACTTATAAATTTTTTAACTT
66 CATTTTGTTGTAGATTCTTATATGAAAATTTGTAGATGTAATAATACTTATAAATTTTTTAACTT
12660689 CACTTATAAAATTAAACTATTTCTTTATCGAAT
131 CACTTATAAAATTAAACTATTTCTTTATCGAAT
*
12660722 AATTAGATTTGTCGAGAAGTAAAAATTCATATGAGTACAATTTTCATTGTGCAACTTAGTTAAAT
1 AATTAGATTTGTCGAGAAGTAAAAATTCATATGAGTACAATTTTCATTGTGCAACTTAGTCAAAT
12660787 CATTTTGTTGTAGATTCTTATATGAAAATTTGTAGATGTAATAATACTTATAAATTTTTTAACTT
66 CATTTTGTTGTAGATTCTTATATGAAAATTTGTAGATGTAATAATACTTATAAATTTTTTAACTT
12660852 CACTTATAAAATTAAACTATTTCTTTATCGAAT
131 CACTTATAAAATTAAACTATTTCTTTATCGAAT
12660885 AATTA
1 AATTA
12660890 TCTTCTCCGA
Statistics
Matches: 167, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 167 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (163 bp):
AATTAGATTTGTCGAGAAGTAAAAATTCATATGAGTACAATTTTCATTGTGCAACTTAGTCAAAT
CATTTTGTTGTAGATTCTTATATGAAAATTTGTAGATGTAATAATACTTATAAATTTTTTAACTT
CACTTATAAAATTAAACTATTTCTTTATCGAAT
Found at i:12661023 original size:5 final size:5
Alignment explanation
Indices: 12661013--12661040 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
12661003 AGAGAGTAAT
12661013 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
12661041 CAAAGAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:12671834 original size:75 final size:75
Alignment explanation
Indices: 12671751--12671901 Score: 205
Period size: 75 Copynumber: 2.0 Consensus size: 75
12671741 ATTTTAACTC
* * * * * *
12671751 AATTAATTTTTGTGTTTTGGGCTTT-GTCTTGTCCAAATATCTCCAAAACAGATATCACAATGCT
1 AATTAATTTTTATGTTTTAGGCTTTAAT-TTGTCCAAATATCTCAAAAACAGATAGCACAATACT
12671815 TATATTTTAAA
65 TATATTTTAAA
* *
12671826 AATTAATTTTTATGTTTTAGGTTTTAATTTGTCCAAATATCTCAAAAACAGATAGCCCAATACTT
1 AATTAATTTTTATGTTTTAGGCTTTAATTTGTCCAAATATCTCAAAAACAGATAGCACAATACTT
*
12671891 TTATTTTAAA
66 ATATTTTAAA
12671901 A
1 A
12671902 TTTGTCAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 65 0.98
76 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (75 bp):
AATTAATTTTTATGTTTTAGGCTTTAATTTGTCCAAATATCTCAAAAACAGATAGCACAATACTT
ATATTTTAAA
Found at i:12674265 original size:185 final size:186
Alignment explanation
Indices: 12673850--12674266 Score: 527
Period size: 188 Copynumber: 2.2 Consensus size: 186
12673840 AAAGTGCATG
* * * * * * * * * * *
12673850 GCAGATTTGGATTTTTCCAAAGTTATGGTCTGCCATGTGAATATATATAACCTTAGGGTTTAGTG
1 GCAGGTTTGGATTTTTGCAAACTTATAGCCTACCATTTGCATACAGATAGCCTTAGGGTTTAGTG
* *
12673915 ACAAATCATTTTTTATTGAATTATTTGAAAGTGTGTATGTCATTAAATTATTAAAATATGATTCA
66 ACAAATAATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTAAATTATTAAAATATGATT-A
* * *
12673980 AATATATATTTTAAATGTTGATTGAAATATGATTTTATTGTTTGTATCAAACTGAATA
130 AATATATATCTTAAATCTTAATTGAAATATGA-TTTATTGTTTGTATCAAACTGAATA
*
12674038 GTAGGTTTGGATTTTTGCAAACTTATAGCCTACCATTTGCATACAGATAGCCTTAGGGTTTAGTG
1 GCAGGTTTGGATTTTTGCAAACTTATAGCCTACCATTTGCATACAGATAGCCTTAGGGTTTAGTG
* * *
12674103 CCAAATAATTTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAATTATTCAAATATGATT-
66 ACAAATAA-TTTTTTATTGAATTATTTGAAACTGTGTATGTCATTAAATTATTAAAATATGATTA
* * *
12674167 TATGAT-TATCTTAAATCTTAATTGAAATATGA-TTATTGTTTGTATCAAATTGAATT
130 AAT-ATATATCTTAAATCTTAATTGAAATATGATTTATTGTTTGTATCAAACTGAATA
* * *
12674223 GCAGGTTTGGATTTTTGTAAACTTATTG-TTCACCATTTGCATAC
1 GCAGGTTTGGATTTTTGCAAACTTATAGCCT-ACCATTTGCATAC
12674267 TAATTACCTT
Statistics
Matches: 199, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
184 1 0.01
185 60 0.30
187 25 0.13
188 61 0.31
189 52 0.26
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (186 bp):
GCAGGTTTGGATTTTTGCAAACTTATAGCCTACCATTTGCATACAGATAGCCTTAGGGTTTAGTG
ACAAATAATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTAAATTATTAAAATATGATTAA
ATATATATCTTAAATCTTAATTGAAATATGATTTATTGTTTGTATCAAACTGAATA
Found at i:12674279 original size:185 final size:185
Alignment explanation
Indices: 12673899--12674279 Score: 520
Period size: 185 Copynumber: 2.0 Consensus size: 185
12673889 AATATATATA
* *
12673899 ACCTTAGGGTTTAGTGACAAATCATTTTTTATTGAATTATTTGAAAGTGTGTATGTCATTAAATT
1 ACCTTAGGGTTTAGTGACAAATAATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTAAATT
* * *
12673964 ATTAAAATATGATTCAAATATATATTTTAAATGTTGATTGAAATATGATTTTATTGTTTGTATCA
66 ATTAAAATATGATT-AAATATATATCTTAAATCTTAATTGAAATATGA-TTTATTGTTTGTATCA
*
12674029 AACTGAATAGTAGGTTTGGATTTTTGCAAACTTATAGCCTACCATTTGCATACAGAT
129 AACTGAATAGCAGGTTTGGATTTTTGCAAACTTATAGCCTACCATTTGCATACAGAT
* *
12674086 AGCCTTAGGGTTTAGTGCCAAATAATTTTTTTATTGAATTATTTGAAACTGTGTATGTCATTGAA
1 A-CCTTAGGGTTTAGTGACAAATAA-TTTTTTATTGAATTATTTGAAACTGTGTATGTCATTAAA
* *
12674151 TTATTCAAATATGATT-TATGAT-TATCTTAAATCTTAATTGAAATATGA-TTATTGTTTGTATC
64 TTATTAAAATATGATTAAAT-ATATATCTTAAATCTTAATTGAAATATGATTTATTGTTTGTATC
* * * * *
12674213 AAATTGAATTGCAGGTTTGGATTTTTGTAAACTTATTG-TTCACCATTTGCATACTA-ATT
128 AAACTGAATAGCAGGTTTGGATTTTTGCAAACTTATAGCCT-ACCATTTGCATAC-AGA-T
12674272 ACCTTAGG
1 ACCTTAGG
12674280 AAAGAGACAA
Statistics
Matches: 173, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
184 1 0.01
185 68 0.39
186 3 0.02
187 26 0.15
188 23 0.13
189 52 0.30
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (185 bp):
ACCTTAGGGTTTAGTGACAAATAATTTTTTATTGAATTATTTGAAACTGTGTATGTCATTAAATT
ATTAAAATATGATTAAATATATATCTTAAATCTTAATTGAAATATGATTTATTGTTTGTATCAAA
CTGAATAGCAGGTTTGGATTTTTGCAAACTTATAGCCTACCATTTGCATACAGAT
Found at i:12674562 original size:184 final size:183
Alignment explanation
Indices: 12674245--12674801 Score: 825
Period size: 184 Copynumber: 3.0 Consensus size: 183
12674235 TTTTGTAAAC
** * * * *
12674245 TTATTGTTCACCATTTGCATACTAATTACCTTAGGAAAGAGACAAATTAGTTCCTATTTTGGATT
1 TTATTGTTTGCCATTT-CATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATT
* *
12674310 ATTGTTTGGTTATTGTCTGCCATATGCATGATACTATTTTGGATTAAAGTGCATGATTATTATTT
65 ATTGTTTGGTTATTGTCTGCCATGTGCATGATACTATTTTGGATTAAAGTGCATGATTATTGTTT
* * * *
12674375 GGTTATTATACATGACAGAAATGGATTTTTTGTGTTAAATTGTTTTTGTATTGG
130 GGTTATTGTACATGACAAAAATGAATTTTTTGTGTTAAATTATTTTTGTATTGG
12674429 TTATTGTTTGCCATTTTCATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATT
1 TTATTGTTTGCCA-TTTCATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATT
* * * *
12674494 ATTGTTTGGCTATTGTATGTCATGTGCATGATACTATTTTGGATTAAAGTGCATCATTATTGTTT
65 ATTGTTTGGTTATTGTCTGCCATGTGCATGATACTATTTTGGATTAAAGTGCATGATTATTGTTT
*
12674559 GGTTATTGTACATGACAAAAATGAATTTTTTTTTGTGTTAAATTATTTTTGTATTGA
130 GGTTATTGTACATGACAAAAATGAA---TTTTTTGTGTTAAATTATTTTTGTATTGG
*
12674616 TTATTGTCTGCC----CATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATTA
1 TTATTGTTTGCCATTTCATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATTA
* * * *
12674677 TTGTTTGGTTATTGTCTGCCATGTGCATGATACTGTTTCGAATTAAAGTGCATGACTATTGTTTG
66 TTGTTTGGTTATTGTCTGCCATGTGCATGATACTATTTTGGATTAAAGTGCATGATTATTGTTTG
* *
12674742 GTTATTGTACACGACAAAAATGAATTTTTTGTGTTAAATTATTTTTGTATGGG
131 GTTATTGTACATGACAAAAATGAATTTTTTGTGTTAAATTATTTTTGTATTGG
12674795 TTATTGT
1 TTATTGT
12674802 CTACCATTGC
Statistics
Matches: 340, Mismatches: 29, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
179 34 0.10
182 129 0.38
184 136 0.40
185 3 0.01
187 38 0.11
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (183 bp):
TTATTGTTTGCCATTTCATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATTA
TTGTTTGGTTATTGTCTGCCATGTGCATGATACTATTTTGGATTAAAGTGCATGATTATTGTTTG
GTTATTGTACATGACAAAAATGAATTTTTTGTGTTAAATTATTTTTGTATTGG
Found at i:12674702 original size:182 final size:180
Alignment explanation
Indices: 12674262--12674803 Score: 816
Period size: 182 Copynumber: 3.0 Consensus size: 180
12674252 TCACCATTTG
* * * *
12674262 CATACTAATTACCTTAGGAAAGAGACAAATTAGTTCCTATTTTGGATTATTGTTTGGTTATTGTC
1 CATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATTATTGTTTGGTTATTGTC
* * *
12674327 TGCCATATGCATGATACTATTTTGGATTAAAGTGCATGATTATTATTTGGTTATTATACATGACA
66 TGCCATGTGCATGATACTATTTTGGATTAAAGTGCATGATTATTGTTTGGTTATTGTACATGACA
* * * *
12674392 GAAATGGATTTTTTGTGTTAAATTGTTTTTGTATTGGTTATTGTTTGCCATTTT
131 AAAATGAATTTTTTGTGTTAAATTATTTTTGTATTGGTTATTGTCTGCC----T
* *
12674446 CATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATTATTGTTTGGCTATTGTA
1 CATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATTATTGTTTGGTTATTGTC
* *
12674511 TGTCATGTGCATGATACTATTTTGGATTAAAGTGCATCATTATTGTTTGGTTATTGTACATGACA
66 TGCCATGTGCATGATACTATTTTGGATTAAAGTGCATGATTATTGTTTGGTTATTGTACATGACA
*
12674576 AAAATGAATTTTTTTTTGTGTTAAATTATTTTTGTATTGATTATTGTCTGCC-
131 AAAATGAA---TTTTTTGTGTTAAATTATTTTTGTATTGGTTATTGTCTGCCT
12674628 CATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATTATTGTTTGGTTATTGTC
1 CATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATTATTGTTTGGTTATTGTC
* * * * *
12674693 TGCCATGTGCATGATACTGTTTCGAATTAAAGTGCATGACTATTGTTTGGTTATTGTACACGACA
66 TGCCATGTGCATGATACTATTTTGGATTAAAGTGCATGATTATTGTTTGGTTATTGTACATGACA
*
12674758 AAAATGAATTTTTTGTGTTAAATTATTTTTGTATGGGTTATTGTCT
131 AAAATGAATTTTTTGTGTTAAATTATTTTTGTATTGGTTATTGTCT
12674804 ACCATTGCCT
Statistics
Matches: 328, Mismatches: 27, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
179 36 0.11
182 129 0.39
184 125 0.38
187 38 0.12
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (180 bp):
CATATTAATTGCCTTAGGAAAGAGACAAATCAATTCCTATTTTGGATTATTGTTTGGTTATTGTC
TGCCATGTGCATGATACTATTTTGGATTAAAGTGCATGATTATTGTTTGGTTATTGTACATGACA
AAAATGAATTTTTTGTGTTAAATTATTTTTGTATTGGTTATTGTCTGCCT
Found at i:12676955 original size:8 final size:8
Alignment explanation
Indices: 12676938--12676970 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
12676928 TACAAAATAC
12676938 CGGT-TTT
1 CGGTATTT
12676945 CGGTATTT
1 CGGTATTT
12676953 CGGTATTT
1 CGGTATTT
*
12676961 CGGCATTT
1 CGGTATTT
12676969 CG
1 CG
12676971 ACTTTTGCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (8 bp):
CGGTATTT
Found at i:12680373 original size:26 final size:26
Alignment explanation
Indices: 12680344--12680501 Score: 298
Period size: 26 Copynumber: 6.1 Consensus size: 26
12680334 TTAAATGCCC
**
12680344 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAACCCATT
12680370 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12680396 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12680422 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12680448 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12680474 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12680500 AT
1 AT
12680502 TAGTTTGTAT
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12682182 original size:48 final size:48
Alignment explanation
Indices: 12682120--12682248 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
12682110 AACATACTAT
* *
12682120 TTGTGGACAAGCCACCACATAATTACCGATAAACA-ATCAAATAACACA
1 TTGTGGACAAGCCACCACATAATTGCCGATAAACAGCT-AAATAACACA
* * * *
12682168 TTGTGGACAAGCCACTACATAATTGTCGATAAACGGCTAGATAACACA
1 TTGTGGACAAGCCACCACATAATTGCCGATAAACAGCTAAATAACACA
* *
12682216 TTGTGGACAAACCACCACATAATTGCCAATAAA
1 TTGTGGACAAGCCACCACATAATTGCCGATAAA
12682249 GGCCACATAA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 69 0.99
49 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (48 bp):
TTGTGGACAAGCCACCACATAATTGCCGATAAACAGCTAAATAACACA
Found at i:12682255 original size:21 final size:22
Alignment explanation
Indices: 12682230--12682280 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
12682220 GGACAAACCA
12682230 CCACATAATTGCCA-ATAAA-GG
1 CCACATAATTG-CAGATAAACGG
*
12682251 CCACATAATTGCAGATAAACTG
1 CCACATAATTGCAGATAAACGG
12682273 CCACATAA
1 CCACATAA
12682281 CTTCTACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.07
21 16 0.59
22 9 0.33
ACGTcount: A:0.43, C:0.25, G:0.12, T:0.20
Consensus pattern (22 bp):
CCACATAATTGCAGATAAACGG
Found at i:12682565 original size:6 final size:6
Alignment explanation
Indices: 12682551--12682595 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
12682541 GAGATCTACA
* * *
12682551 CATACAT CATAAT CATAAC CATAAT CAGAAT CACAAT CATAAT CA
1 CATA-AT CATAAT CATAAT CATAAT CATAAT CATAAT CATAAT CA
12682596 CATCAATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (6 bp):
CATAAT
Found at i:12686007 original size:21 final size:21
Alignment explanation
Indices: 12685951--12686008 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
12685941 CAAGTGATTT
12685951 CCCTAACTCAGCAAGAGACTA
1 CCCTAACTCAGCAAGAGACTA
* * *
12685972 CCCCAGCTCAACAAGAGACTA
1 CCCTAACTCAGCAAGAGACTA
* *
12685993 TCCTAATTCAGCAAGA
1 CCCTAACTCAGCAAGA
12686009 AGTTGCCCCA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.33, G:0.14, T:0.16
Consensus pattern (21 bp):
CCCTAACTCAGCAAGAGACTA
Found at i:12689300 original size:17 final size:18
Alignment explanation
Indices: 12689278--12689328 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
12689268 AATCTAAAGA
* *
12689278 ATATATATTTTGAAT-AT
1 ATATATATATAGAATAAT
12689295 ATATATATATAGAATCAAT
1 ATATATATATAGAAT-AAT
12689314 ATATATATATAGAAT
1 ATATATATATAGAAT
12689329 CTTACTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 13 0.43
19 17 0.57
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (18 bp):
ATATATATATAGAATAAT
Found at i:12689339 original size:19 final size:19
Alignment explanation
Indices: 12689293--12689329 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
12689283 TATTTTGAAT
12689293 ATATATATATATAGAATCA
1 ATATATATATATAGAATCA
12689312 ATATATATATATAGAATC
1 ATATATATATATAGAATC
12689330 TTACTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATATATATATAGAATCA
Found at i:12693506 original size:50 final size:48
Alignment explanation
Indices: 12693437--12693531 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
12693427 TGGCTTCGAG
* *
12693437 CCATGATATTGGCACTTCAG-GTGTGAATGATACCTTGATTTGGCTACAGA
1 CCATGATATAGGCACTTCAGAGAG-G-A-GATACCTTGATTTGGCTACAGA
* * *
12693487 CCATGGTATAGGCATTTCAGAGAGGAGTTACCTTGATTTGGCTAC
1 CCATGATATAGGCACTTCAGAGAGGAGATACCTTGATTTGGCTAC
12693532 GGGCTATAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
48 18 0.46
49 1 0.03
50 18 0.46
51 2 0.05
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (48 bp):
CCATGATATAGGCACTTCAGAGAGGAGATACCTTGATTTGGCTACAGA
Found at i:12697684 original size:28 final size:29
Alignment explanation
Indices: 12697563--12697787 Score: 197
Period size: 29 Copynumber: 7.8 Consensus size: 29
12697553 GTGTGCTAAA
* * *
12697563 TGATGGTCGTAACCATCCATTTTCATAAT
1 TGATGGTCGTCACCATCCCTTTTCATAGT
* * *
12697592 CGATGGTCGTCACAATCCTTTTTCATAAG-
1 TGATGGTCGTCACCATCCCTTTTCAT-AGT
* * ** * *
12697621 CGATGGTTGAAACTATCCCTTTTCATATT
1 TGATGGTCGTCACCATCCCTTTTCATAGT
* *
12697650 TGATGGTGGTCACCATCTC-TTTCATAGT
1 TGATGGTCGTCACCATCCCTTTTCATAGT
*
12697678 TGGTGGTCGTCACCATCCCTTTTCATA-T
1 TGATGGTCGTCACCATCCCTTTTCATAGT
** ** * *
12697706 TCGATATTC-AAACTATCCCTTTTCATATT
1 T-GATGGTCGTCACCATCCCTTTTCATAGT
**
12697735 TGATGGTCACCACCATCCCTTTTCATAGT
1 TGATGGTCGTCACCATCCCTTTTCATAGT
12697764 TGATGGTCGTCACCATCCCTTTTC
1 TGATGGTCGTCACCATCCCTTTTC
12697788 TTTAATCGAT
Statistics
Matches: 155, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
28 47 0.30
29 107 0.69
30 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (29 bp):
TGATGGTCGTCACCATCCCTTTTCATAGT
Found at i:12697687 original size:86 final size:86
Alignment explanation
Indices: 12697574--12697787 Score: 286
Period size: 86 Copynumber: 2.5 Consensus size: 86
12697564 GATGGTCGTA
* * * * * * *
12697574 ACCATCCATTTTCATAATCGATGGTCGTCACAATCCTTTTTCATAAGCGATGGTTGAAACTATCC
1 ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAAGCGAT-ATTCAAACTATCC
***
12697639 CTTTTCATATTTGATGGTGGTC
65 CTTTTCATATTTGATGGTCACC
* * **
12697661 ACCATCTC-TTTCATAGTTGGTGGTCGTCACCATCCCTTTTCATATTCGATATTCAAACTATCCC
1 ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAAGCGATATTCAAACTATCCC
12697725 TTTTCATATTTGATGGTCACC
66 TTTTCATATTTGATGGTCACC
12697746 ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTC
1 ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTC
12697788 TTTAATCGAT
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
85 37 0.34
86 67 0.61
87 6 0.05
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (86 bp):
ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAAGCGATATTCAAACTATCCC
TTTTCATATTTGATGGTCACC
Found at i:12697702 original size:57 final size:56
Alignment explanation
Indices: 12697635--12697785 Score: 162
Period size: 57 Copynumber: 2.6 Consensus size: 56
12697625 GGTTGAAACT
* * **
12697635 ATCCCTTTTCATATTTGATGGTGGTCACCATCTCTTTCATAGTTGGTGGTCGTCACC
1 ATCCCTTTTCATATTTGATGGT-GTCACCATCCCTTTCATAGTTGATGGTCACCACC
* * * *
12697692 ATCCCTTTTCATATTCGAT-AT-TCAAACTATCCCTTTTCATATTTGATGGTCACCACC
1 ATCCCTTTTCATATTTGATGGTGTC--ACCATCCC-TTTCATAGTTGATGGTCACCACC
*
12697749 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTT
1 ATCCCTTTTCATATTTGATGGT-GTCACCATCCCTTT
12697786 TCTTTAATCG
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
54 2 0.03
56 7 0.09
57 57 0.75
58 8 0.11
60 2 0.03
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.40
Consensus pattern (56 bp):
ATCCCTTTTCATATTTGATGGTGTCACCATCCCTTTCATAGTTGATGGTCACCACC
Found at i:12699755 original size:26 final size:25
Alignment explanation
Indices: 12699726--12699783 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
12699716 TAGCCGCCAG
12699726 GGCTTTCTAGAAAAACTAGCCACTAA
1 GGCTTTCTAG-AAAACTAGCCACTAA
* *
12699752 GGCTTTTCTAGATATCTAGCCACTAA
1 GGC-TTTCTAGAAAACTAGCCACTAA
12699778 GGCTTT
1 GGCTTT
12699784 TCAGGAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 3 0.10
26 19 0.66
27 7 0.24
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (25 bp):
GGCTTTCTAGAAAACTAGCCACTAA
Found at i:12700274 original size:13 final size:13
Alignment explanation
Indices: 12700256--12700280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12700246 TGAAAACTAA
12700256 AAATTAACTAAGT
1 AAATTAACTAAGT
12700269 AAATTAACTAAG
1 AAATTAACTAAG
12700281 GAAAATAAAA
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:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AAATTAACTAAGT
Found at i:12704405 original size:27 final size:26
Alignment explanation
Indices: 12704375--12704426 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12704365 TGGATATGAA
*
12704375 GGGAGCTATAAGAAACTCAAACAATGT
1 GGGAGCTATAAAAAACTCAAA-AATGT
* *
12704402 GGGAGCTTTAAAAAATTCAAAAATG
1 GGGAGCTATAAAAAACTCAAAAATG
12704427 AATGAAGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (26 bp):
GGGAGCTATAAAAAACTCAAAAATGT
Found at i:12709651 original size:18 final size:18
Alignment explanation
Indices: 12709615--12709656 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
12709605 AGCCAAAAAA
12709615 TTCAA-CCAAAAGTGCTT
1 TTCAAGCCAAAAGTGCTT
* *
12709632 TTCAAGCCAAATGTGTTT
1 TTCAAGCCAAAAGTGCTT
*
12709650 TTTAAGC
1 TTCAAGC
12709657 ACTACTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (18 bp):
TTCAAGCCAAAAGTGCTT
Found at i:12712047 original size:14 final size:15
Alignment explanation
Indices: 12712014--12712052 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
12712004 AATAGTTCAT
12712014 ATGATCAATTATAAGC
1 ATGATCAATTAT-AGC
*
12712030 ATGATCAATTGT-GC
1 ATGATCAATTATAGC
12712044 ATGATCAAT
1 ATGATCAAT
12712053 ATCCATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
16 11 0.50
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (15 bp):
ATGATCAATTATAGC
Found at i:12725028 original size:48 final size:48
Alignment explanation
Indices: 12724957--12725103 Score: 168
Period size: 48 Copynumber: 3.1 Consensus size: 48
12724947 ATATTGGTGT
* * * *
12724957 CGATGCCATGTTCCAAACATGGTCATACACTGGCTCGCATGTCGAGGC
1 CGATGACATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGC
* * * * ** *
12725005 CGATGACATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGC
1 CGATGACATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGC
* * *
12725053 CGATGTCATGTTCCAAACATGGTCTTACACTAGTTCATATGTCGAGGC
1 CGATGACATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGC
12725101 CGA
1 CGA
12725104 GGCCGATGCC
Statistics
Matches: 79, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (48 bp):
CGATGACATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGC
Found at i:12725150 original size:102 final size:102
Alignment explanation
Indices: 12724999--12725194 Score: 311
Period size: 102 Copynumber: 1.9 Consensus size: 102
12724989 GCTCGCATGT
* * *
12724999 CGAGGCCGATGACATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGTCATGT
1 CGAGGCCGATGACATGTCCCAGACATGGCCTTAAACTAGCTCTCATATAAATGCCGATGCCATGT
* * *
12725064 TCCAAACATGGTCTTACACTAGTTCATATGTCGAGGC
66 TACAAACACGGTCTTACACTAGCTCATATGTCGAGGC
* *
12725101 CGAGGCCGATGCCATGTCCCAGACATGGCCTTAAACTAGCTCTTATATAAATGCCGATGCCATGT
1 CGAGGCCGATGACATGTCCCAGACATGGCCTTAAACTAGCTCTCATATAAATGCCGATGCCATGT
*
12725166 TACAAACACGGTCTTACACTGGCTCATAT
66 TACAAACACGGTCTTACACTAGCTCATAT
12725195 AACCCTAGTA
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (102 bp):
CGAGGCCGATGACATGTCCCAGACATGGCCTTAAACTAGCTCTCATATAAATGCCGATGCCATGT
TACAAACACGGTCTTACACTAGCTCATATGTCGAGGC
Found at i:12725157 original size:54 final size:54
Alignment explanation
Indices: 12724999--12725157 Score: 159
Period size: 54 Copynumber: 3.1 Consensus size: 54
12724989 GCTCGCATGT
*
12724999 CGAGGCCGATGACATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAAT--
1 CGAGGCCGATGACATGTCCCAGACATGGTCTTACACTAGCTCTTATATAAATGC
* * * * * * ** *
12725051 ----GCCGATGTCATGTTCCAAACATGGTCTTACACTAGTTCATATGTCGAGGC
1 CGAGGCCGATGACATGTCCCAGACATGGTCTTACACTAGCTCTTATATAAATGC
* * *
12725101 CGAGGCCGATGCCATGTCCCAGACATGGCCTTAAACTAGCTCTTATATAAATGC
1 CGAGGCCGATGACATGTCCCAGACATGGTCTTACACTAGCTCTTATATAAATGC
12725155 CGA
1 CGA
12725158 TGCCATGTTA
Statistics
Matches: 80, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
48 38 0.47
54 42 0.52
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (54 bp):
CGAGGCCGATGACATGTCCCAGACATGGTCTTACACTAGCTCTTATATAAATGC
Found at i:12727780 original size:21 final size:21
Alignment explanation
Indices: 12727754--12727797 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
12727744 CCATAATATG
*
12727754 ATTTTTGGACTGAATTGGACA
1 ATTTTTGGACTGAATTGAACA
12727775 ATTTTTGGACTGAATTGAACA
1 ATTTTTGGACTGAATTGAACA
12727796 AT
1 AT
12727798 GTGAGTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (21 bp):
ATTTTTGGACTGAATTGAACA
Found at i:12740392 original size:26 final size:26
Alignment explanation
Indices: 12740356--12740439 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
12740346 CATGAAATTC
12740356 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12740382 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
12740408 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
12740434 TTATCA
1 TTATCA
12740440 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:12741256 original size:30 final size:29
Alignment explanation
Indices: 12741222--12741326 Score: 81
Period size: 30 Copynumber: 3.5 Consensus size: 29
12741212 TTAAATTTCG
12741222 ATTTAGTCC-TTATTTATTTATTGTATTACA
1 ATTTAGTCCTTTA-TTATTTATT-TATTACA
* * *
12741252 ATTTAGCCCCTTTATTATTTATTTATTTCG
1 ATTTAG-TCCTTTATTATTTATTTATTACA
* **
12741282 ATTTA-TCCTTT-TAATTTCATTTAAGTTATG
1 ATTTAGTCCTTTATTATTT-ATTT-A-TTACA
12741312 ATTTAGTCCTTTATT
1 ATTTAGTCCTTTATT
12741327 TTTCACCCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
27 5 0.08
28 9 0.15
29 1 0.02
30 24 0.40
31 17 0.28
32 4 0.07
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.57
Consensus pattern (29 bp):
ATTTAGTCCTTTATTATTTATTTATTACA
Found at i:12741385 original size:4 final size:4
Alignment explanation
Indices: 12741353--12741459 Score: 60
Period size: 4 Copynumber: 26.8 Consensus size: 4
12741343 ATTTCTTCCT
* **
12741353 TTTA TTTT TTTA TTT- TTTA TTTA CATA TTTA TTTA -TTA TTCCT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA
* * * * * * *
12741400 TGTTA TTCA TTTA CTTG CTTA TTTA TTTA CTTA TTTA TATA -TTA TTCA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
12741448 TTTA TTTTA TTT
1 TTTA -TTTA TTT
12741460 TAATTCGTTT
Statistics
Matches: 77, Mismatches: 18, Indels: 16
0.69 0.16 0.14
Matches are distributed among these distances:
3 9 0.12
4 57 0.74
5 10 0.13
6 1 0.01
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:12741452 original size:19 final size:19
Alignment explanation
Indices: 12741430--12741472 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12741420 ATTTATTTAC
12741430 TTATTTATATATT-ATTCAT
1 TTATTT-TATATTAATTCAT
* *
12741449 TTATTTTATTTTAATTCGT
1 TTATTTTATATTAATTCAT
12741468 TTATT
1 TTATT
12741473 CCTTTATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTTTATATTAATTCAT
Found at i:12741501 original size:23 final size:22
Alignment explanation
Indices: 12741444--12741501 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
12741434 TTATATATTA
*
12741444 TTCATTTATTTTATTTTAATTCG
1 TTCATTT-TTTTATTTTAATTCC
* ** *
12741467 TTTATTCCTTTATTTGTTATTCC
1 TTCATTTTTTTATTT-TAATTCC
12741490 TTCATTTTTTTA
1 TTCATTTTTTTA
12741502 ATATTTAAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.17, C:0.12, G:0.03, T:0.67
Consensus pattern (22 bp):
TTCATTTTTTTATTTTAATTCC
Found at i:12741603 original size:12 final size:11
Alignment explanation
Indices: 12741569--12741623 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
12741559 GCCTGTATTA
12741569 TTATTA-TTAT
1 TTATTATTTAT
*
12741579 TTCATTATCTAT
1 TT-ATTATTTAT
12741591 TTATCTATTTAT
1 TTAT-TATTTAT
* *
12741603 TTATTACTTCT
1 TTATTATTTAT
12741614 TTATT-TTTAT
1 TTATTATTTAT
12741624 ACATATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.14
11 16 0.44
12 15 0.42
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:12741691 original size:3 final size:3
Alignment explanation
Indices: 12741683--12741708 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12741673 GTTATTCTCG
12741683 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
12741709 TACCTTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12761932 original size:51 final size:50
Alignment explanation
Indices: 12761872--12762290 Score: 216
Period size: 51 Copynumber: 8.7 Consensus size: 50
12761862 CATCGTGGCG
** *
12761872 AATCTTATCTCCCTAAAGTTGCAACGGAACAGATTAAAGCTACAAGTTAGA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTA-AAGTTACA
** * * ** * *
12761923 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTGAAG--ATAG--A-A
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAGTTACA
* *
12761968 AATCTTATTTCCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTA-AAGTTACA
* ** * *
12762019 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG--ATAG---C-
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAGTTACA
* * * * * * *
12762063 GATACTTATTTCCCTGAAGTTGCAATAGAACAAATTAAAACTATAAGTTACA
1 AAT-CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTA-AAGTTACA
* * * *
12762115 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG--ATAG---CG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAGTTACA
* * * * * * * * *
12762160 AATCTTATTTCCTTAAAGTTACAGTGG---AG--GAAA-TTGAAGATGCG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAGTTACA
* * * * *
12762204 AATCTTATTTCCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACGAGTTGCA
1 AATCTTATCT-CCCTAAAGTTGCAGTGGAACAGATTAAAGCTA-AAGTTACA
* * *
12762256 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATT
12762291 GAAGTAACAA
Statistics
Matches: 272, Mismatches: 69, Indels: 54
0.69 0.17 0.14
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 2 0.01
44 14 0.05
45 98 0.36
46 1 0.00
47 2 0.01
48 12 0.04
49 3 0.01
50 4 0.01
51 116 0.43
52 16 0.06
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (50 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAGTTACA
Found at i:12761987 original size:45 final size:45
Alignment explanation
Indices: 12761938--12762294 Score: 205
Period size: 45 Copynumber: 7.5 Consensus size: 45
12761928 TATCTCTTTG
* *
12761938 AAGTTGCAGTAGAGTAGATTGAAGATAGAAAATCTTATTTCCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTA
* * * * * *
12761983 AAGTTACAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAG--A-TAG--A-AAATCTTATTTCCCTA
* ** *
12762034 AAGTTGCAGTGGAGTAGATTGAAGATAG-CGATACTTATTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGAAAAT-CTTATTTCCCTA
* * * * * * *
12762079 AAGTTGCAATAGAACAAATTAAAACTATAAGTTACAAATCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATT-GAA-GAT-AG--A-AAATCTTATTTCCCTA
** *
12762130 AAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCTTA
1 AAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTA
* * * ** *
12762175 AAGTTACAGTGGAGGAAATTGAAGAT-GCGAATCTTATTTCCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTT-CCCTA
* * * * * *
12762220 AAGTTGTAGTGGAACAGATTAAAGCTACGAGTTGCAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATA-GA-----AAATCTTATTTCCCTA
*
12762271 AAGTTGCAATGGAGCAGATTGAAG
1 AAGTTGCAGTGGAGCAGATTGAAG
12762295 TAACAAATTC
Statistics
Matches: 234, Mismatches: 56, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
44 15 0.06
45 103 0.44
46 2 0.01
47 4 0.02
48 8 0.03
49 3 0.01
50 3 0.01
51 85 0.36
52 11 0.05
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTA
Found at i:12762194 original size:96 final size:96
Alignment explanation
Indices: 12761869--12762187 Score: 433
Period size: 96 Copynumber: 3.3 Consensus size: 96
12761859 AGCCATCGTG
* * ** * *
12761869 GCGAATCTTATCTCCCTAAAGTTGCAACGGAACAGATTAAAGCTACAAGTTAGAAATCTTATCTC
1 GCGAATCTTATTTCCCTAAAGTTACAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTC
** *
12761934 TTTGAAGTTGCAGTAGAGTAGATTGAAGATA
66 CCTGAAGTTGCAGTGGAGTAGATTGAAGATA
** *
12761965 GAAAATCTTATTTCCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
1 GCGAATCTTATTTCCCTAAAGTTACAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTC
12762030 CCTGAAGTTGCAGTGGAGTAGATTGAAGATA
66 CCTGAAGTTGCAGTGGAGTAGATTGAAGATA
* * * * * *
12762061 GCG-ATACTTATTTCCCTGAAGTTGCAATAGAACAAATTAAAACTATAAGTTACAAATCTTATCT
1 GCGAAT-CTTATTTCCCTAAAGTTACAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCT
* *
12762125 CCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
65 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATA
*
12762157 GCGAATCTTATTTCCTTAAAGTTACAGTGGA
1 GCGAATCTTATTTCCCTAAAGTTACAGTGGA
12762188 GGAAATTGAA
Statistics
Matches: 195, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
95 2 0.01
96 191 0.98
97 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (96 bp):
GCGAATCTTATTTCCCTAAAGTTACAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTC
CCTGAAGTTGCAGTGGAGTAGATTGAAGATA
Found at i:12762196 original size:141 final size:141
Alignment explanation
Indices: 12762019--12762294 Score: 376
Period size: 141 Copynumber: 2.0 Consensus size: 141
12762009 ACAAGTTACA
* * * *
12762019 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCG-ATACTTATTT-CCCTGAAG
1 AATCTTATCTCCCTAAAGTTACAGTGGAGGAAATTGAAGAT-GCGAAT-CTTATTTCCCCTGAAG
* *
12762082 TTGCAATAGAACAAATTAAAACTATAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAG
64 TTGCAATAGAACAAATTAAAACTACAAGTTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAG
12762147 ATTGAAGATAGCG
129 ATTGAAGATAGCG
* *
12762160 AATCTTATTTCCTTAAAGTTACAGTGGAGGAAATTGAAGATGCGAATCTTATTTCCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTACAGTGGAGGAAATTGAAGATGCGAATCTTATTTCCCCTGAAGTT
* * * * * * * *
12762225 GTAGTGGAACAGATTAAAGCTACGAGTTGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGAT
66 GCAATAGAACAAATTAAAACTACAAGTTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGAT
12762290 TGAAG
131 TGAAG
12762295 TAACAAATTC
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
140 10 0.09
141 107 0.91
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (141 bp):
AATCTTATCTCCCTAAAGTTACAGTGGAGGAAATTGAAGATGCGAATCTTATTTCCCCTGAAGTT
GCAATAGAACAAATTAAAACTACAAGTTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGAT
TGAAGATAGCG
Found at i:12762271 original size:192 final size:190
Alignment explanation
Indices: 12761872--12762280 Score: 434
Period size: 192 Copynumber: 2.1 Consensus size: 190
12761862 CATCGTGGCG
* ** * * * **
12761872 AATCTTATCTCCCTAAAGTTGCAACGGAACAGATTAAAGCTACAAGTTAGAAATCTTATCTCTTT
1 AATCTTATCTCCCTGAAGTTGCAATAGAACAAATTAAAACTACAAGTTACAAATCTTATCTCCCT
* *
12761937 GAAGTTGCAGTAGAGTAGATTGAAGATAGAAAATCTTATTTCCCTAAAGTTACAGTGGAACAGAT
66 AAAGTTGCAGTAGAGCAGATTGAAGATAGAAAATCTTATTTCCCTAAAGTTACAGTGG-A-AGA-
* * ** *
12762002 TAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCGAT
128 GAAA-CTACAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGATAGCGAT
* *
12762066 -A-CTTATTTCCCTGAAGTTGCAATAGAACAAATTAAAACTATAAGTTACAAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAATAGAACAAATTAAAACTACAAGTTACAAATCTTATCTCCCT
* ** *
12762129 AAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCTTAAAGTTACAGTGG-AG-GAA
66 AAAGTTGCAGTAGAGCAGATTGAAGATAGAAAATCTTATTTCCCTAAAGTTACAGTGGAAGAGAA
** * * * * *
12762192 A-TTGAAGATGCGAATCTTATTTCCCCTGAAGTTGTAGTGGAACAGATTAAAGCTA-CGAGTT
131 ACTACAAGATACAAATCTTATCT-CCCTGAAGTTGCAGTGGAACAGATTAAAGATAGCGA--T
12762253 GCAAATCTTATCTCCCTGAAGTTGCAAT
1 ---AATCTTATCTCCCTGAAGTTGCAAT
12762281 GGAGCAGATT
Statistics
Matches: 178, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
185 18 0.10
186 27 0.15
187 4 0.02
189 2 0.01
191 1 0.01
192 125 0.70
193 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (190 bp):
AATCTTATCTCCCTGAAGTTGCAATAGAACAAATTAAAACTACAAGTTACAAATCTTATCTCCCT
AAAGTTGCAGTAGAGCAGATTGAAGATAGAAAATCTTATTTCCCTAAAGTTACAGTGGAAGAGAA
ACTACAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGATAGCGAT
Found at i:12762518 original size:14 final size:14
Alignment explanation
Indices: 12762495--12762528 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
12762485 TGAACAAAAA
12762495 ATAACAAAATAAAT
1 ATAACAAAATAAAT
*
12762509 ATAACCAAATAAAT
1 ATAACAAAATAAAT
12762523 A-AACAA
1 ATAACAA
12762529 TCCAAAGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (14 bp):
ATAACAAAATAAAT
Found at i:12763218 original size:4 final size:4
Alignment explanation
Indices: 12763193--12763292 Score: 53
Period size: 4 Copynumber: 24.8 Consensus size: 4
12763183 ACTGTTTGCT
* ** *
12763193 TTTA TTTT TTTA TTTA CATA TTTA TTTA TTT- TTCCT- TTTA TTTTA TTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA -TTTA TTTA
* * * * * *
12763242 TTTA CTTG CTTA TTTA TTTA CTTA TTTA TATA -TTA TTCA TTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
12763290 TTT
1 TTT
12763293 TAATTCCTTT
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
3 5 0.07
4 56 0.78
5 11 0.15
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:12763255 original size:37 final size:36
Alignment explanation
Indices: 12763191--12763260 Score: 95
Period size: 37 Copynumber: 1.9 Consensus size: 36
12763181 AAACTGTTTG
* *
12763191 CTTTTATTTTTTTATTTACATATTTATTTATTTTTC
1 CTTTTATTTTTTCATTTACATACTTATTTATTTTTC
* *
12763227 CTTTTATTTTATTCATTTACTTGCTTATTTATTT
1 CTTTTATTTT-TTCATTTACATACTTATTTATTT
12763261 ACTTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 10 0.34
37 19 0.66
ACGTcount: A:0.19, C:0.10, G:0.01, T:0.70
Consensus pattern (36 bp):
CTTTTATTTTTTCATTTACATACTTATTTATTTTTC
Found at i:12763285 original size:19 final size:19
Alignment explanation
Indices: 12763263--12763305 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12763253 ATTTATTTAC
12763263 TTATTTATATATT-ATTCAT
1 TTATTT-TATATTAATTCAT
* *
12763282 TTATTTTATTTTAATTCCT
1 TTATTTTATATTAATTCAT
12763301 TTATT
1 TTATT
12763306 CATTTATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTTATATTAATTCAT
Found at i:12763321 original size:23 final size:22
Alignment explanation
Indices: 12763234--12763328 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 22
12763224 TTCCTTTTAT
* *
12763234 TTTATTCATTTACTTGCTTATTTA
1 TTTATT-ATTTATTTG-TTATTCA
* *
12763258 TTTACTTATTTATATATTATTCA
1 TTTA-TTATTTATTTGTTATTCA
* *
12763281 TTTA-T-TTTATTT-TAATTCC
1 TTTATTATTTATTTGTTATTCA
*
12763300 TTTATTCATTTATTTGTTATTCC
1 TTTATT-ATTTATTTGTTATTCA
12763323 TTTATT
1 TTTATT
12763329 TTTCTAATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
19 9 0.16
20 7 0.12
21 1 0.02
22 7 0.12
23 22 0.38
24 10 0.17
25 2 0.03
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATTATTTATTTGTTATTCA
Found at i:12763492 original size:3 final size:3
Alignment explanation
Indices: 12763486--12763521 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
12763476 AATTGCTTAC
12763486 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12763522 TACCTTTCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12766297 original size:46 final size:46
Alignment explanation
Indices: 12766245--12766466 Score: 236
Period size: 46 Copynumber: 4.8 Consensus size: 46
12766235 TATTTGAGTA
*
12766245 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
12766291 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
12766338 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
12766384 CCCGAACTCGTTGAGTTGAATCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
12766430 TCC-AAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12766467 GCGGGTTACA
Statistics
Matches: 145, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
43 6 0.04
45 5 0.03
46 98 0.68
47 28 0.19
48 3 0.02
50 5 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:12766411 original size:93 final size:93
Alignment explanation
Indices: 12766244--12766412 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 93
12766234 ATATTTGAGT
* *
12766244 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
*
12766309 AGTCCGAGTTCGTGAGATGTAACTAGGC
66 AATCCGAGTTCGTGAGATGTAACTAGGC
* * * *
12766337 ATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
*
12766402 AATCTGAGTTC
66 AATCCGAGTTC
12766413 ACTTATGGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
AATCCGAGTTCGTGAGATGTAACTAGGC
Found at i:12769356 original size:29 final size:28
Alignment explanation
Indices: 12769323--12769379 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
12769313 AAAAGTTCAA
*
12769323 AAAAATTATAATAAAATATTTTTAAAATT
1 AAAAATCATAA-AAAATATTTTTAAAATT
12769352 AAAAATCATAAAAAATATTTTTAAAATT
1 AAAAATCATAAAAAATATTTTTAAAATT
12769380 TTTAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAAATCATAAAAAATATTTTTAAAATT
Found at i:12773218 original size:3 final size:3
Alignment explanation
Indices: 12773210--12773237 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12773200 ATTCTATTAA
12773210 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12773238 TTTTAGTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12775656 original size:177 final size:177
Alignment explanation
Indices: 12775355--12775697 Score: 668
Period size: 177 Copynumber: 1.9 Consensus size: 177
12775345 TAAAATAATA
*
12775355 AAAAGTCTTTAAAAATGATTTTAAAAATATAAAAATTTTCAAAATATATCTAAACTGGACCGGAC
1 AAAACTCTTTAAAAATGATTTTAAAAATATAAAAATTTTCAAAATATATCTAAACTGGACCGGAC
12775420 TAGGATATCAGTCTAGTGAGAGGTAAAAAACTCATTGACCTACAAATTAATATGATTTGGTTGAA
66 TAGGATATCAGTCTAGTGAGAGGTAAAAAACTCATTGACCTACAAATTAATATGATTTGGTTGAA
12775485 TCGGGCTAAAAAATCAATTGAACTATCAGTTGAACTGGTTTTGAACT
131 TCGGGCTAAAAAATCAATTGAACTATCAGTTGAACTGGTTTTGAACT
12775532 AAAACTCTTTAAAAATGATTTTAAAAATATAAAAATTTTCAAAATATATCTAAACTGGACCGGAC
1 AAAACTCTTTAAAAATGATTTTAAAAATATAAAAATTTTCAAAATATATCTAAACTGGACCGGAC
*
12775597 TAGGATATCGGTCTAGTGAGAGGTAAAAAACTCATTGACCTACAAATTAATATGATTTGGTTGAA
66 TAGGATATCAGTCTAGTGAGAGGTAAAAAACTCATTGACCTACAAATTAATATGATTTGGTTGAA
12775662 TCGGGCTAAAAAATCAATTGAACTATCAGTTGAACT
131 TCGGGCTAAAAAATCAATTGAACTATCAGTTGAACT
12775698 AACAGTTGAA
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 164 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (177 bp):
AAAACTCTTTAAAAATGATTTTAAAAATATAAAAATTTTCAAAATATATCTAAACTGGACCGGAC
TAGGATATCAGTCTAGTGAGAGGTAAAAAACTCATTGACCTACAAATTAATATGATTTGGTTGAA
TCGGGCTAAAAAATCAATTGAACTATCAGTTGAACTGGTTTTGAACT
Found at i:12775694 original size:12 final size:12
Alignment explanation
Indices: 12775674--12775709 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
12775664 GGGCTAAAAA
*
12775674 ATCAATTGAACT
1 ATCAGTTGAACT
12775686 ATCAGTTGAACT
1 ATCAGTTGAACT
*
12775698 AACAGTTGAACT
1 ATCAGTTGAACT
12775710 GGTTTTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (12 bp):
ATCAGTTGAACT
Found at i:12782716 original size:19 final size:18
Alignment explanation
Indices: 12782692--12782732 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
12782682 ATTATTTGAA
12782692 TATTGTATAACTTTTGAT-T
1 TATTGT-TAA-TTTTGATAT
12782711 TATTGTTAATTTTGATAT
1 TATTGTTAATTTTGATAT
12782729 TATT
1 TATT
12782733 TTAGAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (18 bp):
TATTGTTAATTTTGATAT
Found at i:12788466 original size:19 final size:19
Alignment explanation
Indices: 12788442--12788481 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12788432 TGTGTCATCA
12788442 TAAATTCATAGGCATAACT
1 TAAATTCATAGGCATAACT
*
12788461 TAAATTTATAGGCATAACT
1 TAAATTCATAGGCATAACT
12788480 TA
1 TA
12788482 CACATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGGCATAACT
Found at i:12795782 original size:40 final size:40
Alignment explanation
Indices: 12795709--12795892 Score: 237
Period size: 40 Copynumber: 4.5 Consensus size: 40
12795699 ACCCAAGTAT
* *
12795709 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
12795748 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
* *
12795788 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCAAAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* * * *
12795831 CTTCGGGACTTAACCTGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
*
12795871 CTTCGGGACATAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
12795893 CATCTGAATA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 13 0.10
40 78 0.62
41 1 0.01
43 34 0.27
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:12795851 original size:83 final size:80
Alignment explanation
Indices: 12795709--12795892 Score: 262
Period size: 83 Copynumber: 2.3 Consensus size: 80
12795699 ACCCAAGTAT
* * *
12795709 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAACCCGGATATAGT
*
12795773 CACTAGCACAAATGC
66 AACTAGCACAAATGC
* *
12795788 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCAAAAATGCCTTCGGGACTTAACCTGGATAT
1 CTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCAAAAATGCCTTCGGGACTTAACCCGGATAT
*
12795853 AGTAACTTGCACAAATGC
63 AGTAACTAGCACAAATGC
*
12795871 CTTCGGGACATAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
12795893 CATCTGAATA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
79 12 0.13
80 10 0.11
81 1 0.01
83 69 0.75
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCAAAAATGCCTTCGGGACTTAACCCGGATATAGT
AACTAGCACAAATGC
Found at i:12807668 original size:40 final size:40
Alignment explanation
Indices: 12807595--12807778 Score: 264
Period size: 40 Copynumber: 4.5 Consensus size: 40
12807585 ACCCAAGTAT
* *
12807595 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
*
12807634 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
12807674 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* *
12807717 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
12807757 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
12807779 CATCCGAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
39 12 0.09
40 81 0.62
41 1 0.01
43 37 0.28
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:12807730 original size:83 final size:80
Alignment explanation
Indices: 12807595--12807778 Score: 289
Period size: 83 Copynumber: 2.3 Consensus size: 80
12807585 ACCCAAGTAT
* *
12807595 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
12807659 CACTAGCACAAATGC
66 AACTAGCACAAATGC
*
12807674 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
*
12807739 AGTAACTTGCACAAATGC
63 AGTAACTAGCACAAATGC
12807757 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
12807779 CATCCGAATA
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
79 12 0.13
80 10 0.11
81 1 0.01
83 72 0.76
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGC
Found at i:12817005 original size:35 final size:35
Alignment explanation
Indices: 12816966--12817079 Score: 158
Period size: 35 Copynumber: 3.3 Consensus size: 35
12816956 CAAGATAACT
*
12816966 TCACATATAACCAAATATACAAGTTCAATATAAGC
1 TCACATGTAACCAAATATACAAGTTCAATATAAGC
* *
12817001 TCACATGTAAACAAATACT-CAAGTTCAATATAACC
1 TCACATGTAACCAAATA-TACAAGTTCAATATAAGC
* **
12817036 TCACATGCAACTGAATATACAAGTTCAATATAAGC
1 TCACATGTAACCAAATATACAAGTTCAATATAAGC
12817071 TCACATGTA
1 TCACATGTA
12817080 CTTACCTATG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
34 1 0.01
35 66 0.97
36 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (35 bp):
TCACATGTAACCAAATATACAAGTTCAATATAAGC
Found at i:12824236 original size:35 final size:35
Alignment explanation
Indices: 12824197--12824308 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 35
12824187 CAAGATAACT
* *
12824197 TCACATACAACCGACTATACAAGTTCAATATAAGC
1 TCACATGCAACCGAATATACAAGTTCAATATAAGC
* * * *
12824232 TCACATGTAATCAAATACT-CAAGTTCAATATAACC
1 TCACATGCAACCGAATA-TACAAGTTCAATATAAGC
*
12824267 TCACATGCAGCCGAATATACAAGTTCAATATAAGC
1 TCACATGCAACCGAATATACAAGTTCAATATAAGC
12824302 TCACATG
1 TCACATG
12824309 TACTTACGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
34 1 0.02
35 62 0.97
36 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (35 bp):
TCACATGCAACCGAATATACAAGTTCAATATAAGC
Found at i:12829535 original size:21 final size:21
Alignment explanation
Indices: 12829509--12829549 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12829499 TAATGAAATC
*
12829509 CATTTTCTTCATTTTTCTCAT
1 CATTTTCTTCAGTTTTCTCAT
*
12829530 CATTTTCTTTAGTTTTCTCA
1 CATTTTCTTCAGTTTTCTCA
12829550 CCAACCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.22, G:0.02, T:0.61
Consensus pattern (21 bp):
CATTTTCTTCAGTTTTCTCAT
Found at i:12836696 original size:49 final size:49
Alignment explanation
Indices: 12836643--12836773 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 49
12836633 AGCTATCTTT
* * * *
12836643 TACACATAGTGGCCTGCACT-GTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTAGTACCACACATGCGACCGAA-CCATCGGG
* * * * *
12836692 TACACTTAATAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGG
1 TACACATAGTAGCCTGCAC-TAGTACCACACATGCGACCGAACCATCGGG
* *
12836742 TACACGTAGTAGCCTGCACTTAGTACTACACA
1 TACACATAGTAGCCTGCAC-TAGTACCACACA
12836774 CGTGACCTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 16 0.23
50 37 0.54
51 16 0.23
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TACACATAGTAGCCTGCACTAGTACCACACATGCGACCGAACCATCGGG
Found at i:12836755 original size:50 final size:51
Alignment explanation
Indices: 12836690--12836827 Score: 170
Period size: 50 Copynumber: 2.7 Consensus size: 51
12836680 GAAGCTATCG
* * *
12836690 GGTACACTTAATAGCCTGCACTTAGTACTACACATGCGACCT-AACCATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAACCATCT
* * *
12836740 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT-AAACCATCT
*** *
12836792 TAAACACATAGTAGCCTGCACATAGTACTACACACG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACG
12836828 TGTTCTCACA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
50 38 0.50
52 38 0.50
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (51 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAACCATCT
Found at i:12836810 original size:52 final size:50
Alignment explanation
Indices: 12836701--12836829 Score: 168
Period size: 52 Copynumber: 2.5 Consensus size: 50
12836691 GTACACTTAA
* * ** *
12836701 TAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAAACACATAG
* *
12836751 TAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGAAACACATAG
*
12836803 TAGCCTGCACATAGTACTACACACGTG
1 TAGCCTGCACTTAGTACTACACACGTG
12836830 TTCTCACAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 29 0.42
52 40 0.58
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAAACACATAG
Found at i:12841540 original size:49 final size:49
Alignment explanation
Indices: 12841487--12841617 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 49
12841477 AGCTATCTTT
* * * *
12841487 TACACATAGTGGCCTGCACT-GTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTAGTACCACACATGCGACCGAA-CCATCGGG
* * * * *
12841536 TACACTTAATAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGG
1 TACACATAGTAGCCTGCAC-TAGTACCACACATGCGACCGAACCATCGGG
* *
12841586 TACACGTAGTAGCCTGCACTTAGTACTACACA
1 TACACATAGTAGCCTGCAC-TAGTACCACACA
12841618 CGTGACCTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 16 0.23
50 37 0.54
51 16 0.23
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TACACATAGTAGCCTGCACTAGTACCACACATGCGACCGAACCATCGGG
Found at i:12841599 original size:50 final size:51
Alignment explanation
Indices: 12841534--12841671 Score: 170
Period size: 50 Copynumber: 2.7 Consensus size: 51
12841524 GAAGCTATCG
* * *
12841534 GGTACACTTAATAGCCTGCACTTAGTACTACACATGCGACCT-AACCATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAACCATCT
* * *
12841584 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT-AAACCATCT
*** *
12841636 TAAACACATAGTAGCCTGCACATAGTACTACACACG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACG
12841672 TGTTCTCACA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
50 38 0.50
52 38 0.50
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (51 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAACCATCT
Found at i:12841654 original size:52 final size:50
Alignment explanation
Indices: 12841545--12841673 Score: 168
Period size: 52 Copynumber: 2.5 Consensus size: 50
12841535 GTACACTTAA
* * ** *
12841545 TAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAAACACATAG
* *
12841595 TAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGAAACACATAG
*
12841647 TAGCCTGCACATAGTACTACACACGTG
1 TAGCCTGCACTTAGTACTACACACGTG
12841674 TTCTCACAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 29 0.42
52 40 0.58
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAAACACATAG
Found at i:12844742 original size:40 final size:40
Alignment explanation
Indices: 12844539--12844728 Score: 265
Period size: 40 Copynumber: 4.8 Consensus size: 40
12844529 GAGAATTGAG
*
12844539 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
12844579 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
12844619 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
12844659 AGTAACATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
12844699 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
12844729 TAATCATGCT
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:12848240 original size:47 final size:47
Alignment explanation
Indices: 12848112--12848326 Score: 324
Period size: 47 Copynumber: 4.6 Consensus size: 47
12848102 ATGAGTATTC
*
12848112 GAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
12848159 GAATGTG-AAGTGTATATATATGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
12848205 GAATGTGAAAGTTTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * *
12848252 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
12848299 GGATGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
12848327 TCCCGAAGGG
Statistics
Matches: 152, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 45 0.30
47 107 0.70
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:12848501 original size:37 final size:37
Alignment explanation
Indices: 12848445--12848520 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
12848435 CCGAGCTCTA
* * *
12848445 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
12848482 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
12848519 AA
1 AA
12848521 TACTTCGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:12853102 original size:29 final size:27
Alignment explanation
Indices: 12853084--12853153 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
12853074 ATATTAAGTC
12853084 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
12853111 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
12853139 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
12853154 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:12853147 original size:28 final size:28
Alignment explanation
Indices: 12853084--12853181 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
12853074 ATATTAAGTC
*
12853084 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
12853111 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
12853139 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
12853168 CGCACACTTAGTGC
1 CGCACACTTAGTGC
12853182 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:12855506 original size:21 final size:21
Alignment explanation
Indices: 12855458--12855497 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12855448 GATTATTTTG
*
12855458 ATGTTTGATGATGGATTATAA
1 ATGTTTGATGATAGATTATAA
12855479 ATGTTTGATGATAG-TTATA
1 ATGTTTGATGATAGATTATA
12855498 CAAGTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATAA
Found at i:12867692 original size:38 final size:40
Alignment explanation
Indices: 12867618--12867710 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 40
12867608 CTCAACTAGA
*
12867618 CTAGATCTTGTTATATTATCCTGAGAATCTACAAC-AAGG
1 CTAGATCTCGTTATATTATCCTGAGAATCTACAACAAAGG
** *
12867657 CTAGATCTCGTTATATTA-CAC-GAGAATCTGTAACAAATG
1 CTAGATCTCGTTATATTATC-CTGAGAATCTACAACAAAGG
* *
12867696 TTAGATCTCATTATA
1 CTAGATCTCGTTATA
12867711 ATCTATAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 12 0.26
39 34 0.74
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (40 bp):
CTAGATCTCGTTATATTATCCTGAGAATCTACAACAAAGG
Found at i:12874203 original size:42 final size:43
Alignment explanation
Indices: 12874107--12874266 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
12874097 AGCTCGTACA
* * * * *
12874107 ATGCCAATGTCCCAAACATGGTCGTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
* *
12874150 ATGCCATTGTCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
** *
12874192 ATGCCAATGTCCCAGACATAGTCTTACTCGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCA-AATATCG
* *
12874236 ATGCCAACGTCCCAGA-TGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGA
12874267 TAGCACATAT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 28 0.29
43 41 0.43
44 27 0.28
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:12874251 original size:86 final size:85
Alignment explanation
Indices: 12874107--12874266 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 85
12874097 AGCTCGTACA
* **
12874107 ATGCCAATGTCCCAAACATGGTCGTACATGTAATCAAATATCGATGCCATTGTCCCAGACAG-GG
1 ATGCCAATGTCCCAAACATAGTCGTACATGTAATCAAATATCGATGCCAACGTCCCAGA-AGTGG
12874171 TCTTACACGAAATCATATACG
65 TCTTACACGAAATCATATACG
* * *
12874192 ATGCCAATGTCCCAGACATAGTCTTAC-TCGTAAATCACAA-ATCGATGCCAACGTCCCAGATGT
1 ATGCCAATGTCCCAAACATAGTCGTACAT-GT-AATCA-AATATCGATGCCAACGTCCCAGAAGT
12874255 GGTCTTACACGA
63 GGTCTTACACGA
12874267 TAGCACATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
84 1 0.02
85 27 0.42
86 35 0.54
87 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (85 bp):
ATGCCAATGTCCCAAACATAGTCGTACATGTAATCAAATATCGATGCCAACGTCCCAGAAGTGGT
CTTACACGAAATCATATACG
Found at i:12877224 original size:48 final size:47
Alignment explanation
Indices: 12877169--12877544 Score: 321
Period size: 48 Copynumber: 7.9 Consensus size: 47
12877159 GTGAATTGCT
* *
12877169 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATT-AGGTC
** * * * *
12877217 GATGCCATGTCCCAAACATGGTCTTACACAAGCTCTCGTCTTA-ATAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTAGGT-C
* * *
12877264 TGATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCATAATATGGTC
1 -GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTA-GGTC
* * *
12877313 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-ATATCGCT-
1 GATGCCATGTCCCAAACATGGTCTTACACTGG--CTCACATAT-TAGGTC
* * * * *
12877361 GATGTCATGTTCCAAACATGGTCTTACATTGGCTCTCATATTGTGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATT-AGGTC
* * * *
12877409 GATGCCATTTCCCAAACATGGTCTTACATTGGCACACATATCATGG-C
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTA-GGTC
* * * * *
12877456 GATGCCATGTCTCGAACATGGTCTTGCACTGGCACACATATCGT-GGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT--TAGGTC
* * * * *
12877504 GATTCCATGTCCCAGACATGGTCTTTCATTGGCACACATAT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT
12877545 CACCCAAATG
Statistics
Matches: 268, Mismatches: 46, Indels: 28
0.78 0.13 0.08
Matches are distributed among these distances:
46 7 0.03
47 45 0.17
48 205 0.76
49 4 0.01
50 7 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTAGGTC
Found at i:12877517 original size:95 final size:95
Alignment explanation
Indices: 12877166--12877546 Score: 369
Period size: 96 Copynumber: 4.0 Consensus size: 95
12877156 AGGGTGAATT
* * *
12877166 GCTGATGCCATGT-TCCAAACATGGTCTTACACTGGCTCACATGTTGAGGTCGATGCCATGTCCC
1 GCTGATGCCATGTCT-CAAACATGGTCTTACACTGGCTCTCAT-ATGTGGTCGATGCCATGTCCC
* *** * * * * *
12877230 AAACATGGTCTTACACAAGCTCTCGTCTTAAT-
64 AGACATGGTCTTACATTGGCACACAT-ATCATC
* * * *
12877262 ACTGATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCATAATATGGTCGATGCCATGTCCCA
1 GCTGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCAT-ATGTGGTCGATGCCATGTCCCA
* *
12877327 GACATGGTCTTACACTGGCTCTCACA-AT-ATC
65 GACATGGTCTTACATTGG--CACACATATCATC
* * *
12877358 GCTGATGTCATGT-TCCAAACATGGTCTTACATTGGCTCTCATATTGTGGTCGATGCCATTTCCC
1 GCTGATGCCATGTCT-CAAACATGGTCTTACACTGGCTCTCATA-TGTGGTCGATGCCATGTCCC
* *
12877422 AAACATGGTCTTACATTGGCACACATATCATG
64 AGACATGGTCTTACATTGGCACACATATCATC
* * * * * *
12877454 GC-GATGCCATGTCTCGAACATGGTCTTGCACTGGCACACATATCGTGGCCGATTCCATGTCCCA
1 GCTGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATAT-GTGGTCGATGCCATGTCCCA
*
12877518 GACATGGTCTTTCATTGGCACACATATCA
65 GACATGGTCTTACATTGGCACACATATCA
12877547 CCCAAATGTC
Statistics
Matches: 239, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
94 6 0.03
95 81 0.34
96 148 0.62
98 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (95 bp):
GCTGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATATGTGGTCGATGCCATGTCCCAG
ACATGGTCTTACATTGGCACACATATCATC
Found at i:12881401 original size:45 final size:44
Alignment explanation
Indices: 12881352--12881611 Score: 315
Period size: 45 Copynumber: 5.8 Consensus size: 44
12881342 GTCTGATTCA
* * *
12881352 TGATGCCATAGCGTCCTTCAACTATGGTCTTGCTCGTTAGAATCT
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTA-AATCT
* * *
12881397 TGATGCCATAATGTCTTTTAGCTATGGTCTTACTCGTTAAAAT-T
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTT-AAATCT
* * *
12881441 GTGATGTCATAATGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
1 -TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTT-AAATCT
* * *
12881487 TGATGCCATAATGTCTTTCAACTATGGTCTTACTTGTTAAAACT
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAATCT
* * * *
12881531 GTGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTAAAGTCG
1 -TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAA-TCT
12881577 TGATGCCATAACGTCTTTCAACTATGGTCTTACTC
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTC
12881612 CCTATGGCCT
Statistics
Matches: 187, Mismatches: 23, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
44 5 0.03
45 180 0.96
46 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (44 bp):
TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAATCT
Found at i:12881478 original size:90 final size:89
Alignment explanation
Indices: 12881352--12881611 Score: 358
Period size: 90 Copynumber: 2.9 Consensus size: 89
12881342 GTCTGATTCA
* * * * * *
12881352 TGATGCCATAGCGTCCTTCAACTATGGTCTTGCTCGTTAGAATCTTGATGCCATAATGTCTTTTA
1 TGATGCCATAACATCTTTCAACTATGGTCTTACTCGTTA-AATCGTGATGCCATAATGTCTTTCA
* *
12881417 GCTATGGTCTTACTCGTTAAAATTG
65 ACTATGGTCTTACTCGTTAAAACTG
* **
12881442 TGATGTCATAATGTCTTTCAACTATGGTCTTACTCGTTAAAATCGTGATGCCATAATGTCTTTCA
1 TGATGCCATAACATCTTTCAACTATGGTCTTACTCGTT-AAATCGTGATGCCATAATGTCTTTCA
*
12881507 ACTATGGTCTTACTTGTTAAAACTG
65 ACTATGGTCTTACTCGTTAAAACTG
* * *
12881532 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTAAAGTCGTGATGCCATAACGTCTTTCA
1 TGATGCCATAACATCTTTCAACTATGGTCTTACTCGTTAAA-TCGTGATGCCATAATGTCTTTCA
12881597 ACTATGGTCTTACTC
65 ACTATGGTCTTACTC
12881612 CCTATGGCCT
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
89 3 0.02
90 147 0.97
91 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (89 bp):
TGATGCCATAACATCTTTCAACTATGGTCTTACTCGTTAAATCGTGATGCCATAATGTCTTTCAA
CTATGGTCTTACTCGTTAAAACTG
Found at i:12881555 original size:135 final size:135
Alignment explanation
Indices: 12881308--12881611 Score: 380
Period size: 135 Copynumber: 2.3 Consensus size: 135
12881298 ATGGTTAAAG
* * * * * *
12881308 GATGTCATAGTGTCTTTCAA-TCATGATCTTATTCGTCTGATTCATGATGCCATAGCGTCCTTCA
1 GATGTCATAATGTCTTTCAACT-ATGGTCTTACTCGTCTAAATCATGATGCCATAACGTCCTTCA
* * ** *
12881372 ACTATGGTCTTGCTCGTTAGAATCTTGATGCCATAATGTCTTTTAGCTATGGTCTTACTCGTTAA
65 ACTATGGTCTTACTCGTTAGAAACTTGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTAA
*
12881437 AATTGT
130 AATCGT
* * *
12881443 GATGTCATAATGTCTTTCAACTATGGTCTTACTCGT-TAAAATCGTGATGCCATAATGTCTTTCA
1 GATGTCATAATGTCTTTCAACTATGGTCTTACTCGTCT-AAATCATGATGCCATAACGTCCTTCA
* *
12881507 ACTATGGTCTTACTTGTTA-AAACTGTGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTA
65 ACTATGGTCTTACTCGTTAGAAACT-TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTA
*
12881571 AAGTCGT
129 AAATCGT
* *
12881578 GATGCCATAACGTCTTTCAACTATGGTCTTACTC
1 GATGTCATAATGTCTTTCAACTATGGTCTTACTC
12881612 CCTATGGCCT
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
134 5 0.03
135 140 0.96
136 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (135 bp):
GATGTCATAATGTCTTTCAACTATGGTCTTACTCGTCTAAATCATGATGCCATAACGTCCTTCAA
CTATGGTCTTACTCGTTAGAAACTTGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTAAA
ATCGT
Found at i:12881646 original size:104 final size:105
Alignment explanation
Indices: 12881508--12881707 Score: 303
Period size: 104 Copynumber: 1.9 Consensus size: 105
12881498 TGTCTTTCAA
* * * *
12881508 CTATGGTCTTACTTGTTAAAACTGTGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTAAA
1 CTATGGCCTTACTCGTTAAAACTGTGATGCCATAACATCTTTCAGCTATAGTCTTACTCATTAAA
* *
12881573 GTCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCC
66 ATCGTGATGCCATAACATCTTTCAACTATGGTCTTACTCC
* *
12881613 CTATGGCCTTACTCGTTAAAAC-GTGATGTCATAACATCTTTTAGCTATAGTCTTACTCATTAAA
1 CTATGGCCTTACTCGTTAAAACTGTGATGCCATAACATCTTTCAGCTATAGTCTTACTCATTAAA
* *
12881677 ATCGTGATGCCATAACATTTTTCAGCTATGG
66 ATCGTGATGCCATAACATCTTTCAACTATGG
12881708 ATGGTCTTAC
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
104 65 0.76
105 20 0.24
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (105 bp):
CTATGGCCTTACTCGTTAAAACTGTGATGCCATAACATCTTTCAGCTATAGTCTTACTCATTAAA
ATCGTGATGCCATAACATCTTTCAACTATGGTCTTACTCC
Found at i:12881653 original size:59 final size:60
Alignment explanation
Indices: 12881553--12881670 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 60
12881543 CATCTTTCAG
* * * * *
12881553 CTATGGTCTTACTCTTTAAAGTCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCC
1 CTATGGCCTTACTCGTTAAAGACGTGATGCCATAACATCTTTCAACTATAGTCTTACTCC
* * *
12881613 CTATGGCCTTACTCGTTAAA-ACGTGATGTCATAACATCTTTTAGCTATAGTCTTACTC
1 CTATGGCCTTACTCGTTAAAGACGTGATGCCATAACATCTTTCAACTATAGTCTTACTC
12881671 ATTAAAATCG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
59 32 0.64
60 18 0.36
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (60 bp):
CTATGGCCTTACTCGTTAAAGACGTGATGCCATAACATCTTTCAACTATAGTCTTACTCC
Found at i:12881670 original size:44 final size:45
Alignment explanation
Indices: 12881620--12881705 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
12881610 TCCCTATGGC
* *
12881620 CTTACTCGTTAAAA-CGTGATGTCATAACATCTTTT-AGCTATAGT
1 CTTACTCATTAAAATCGTGATGCCATAACAT-TTTTCAGCTATAGT
12881664 CTTACTCATTAAAATCGTGATGCCATAACATTTTTCAGCTAT
1 CTTACTCATTAAAATCGTGATGCCATAACATTTTTCAGCTAT
12881706 GGATGGTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 17 0.45
45 21 0.55
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (45 bp):
CTTACTCATTAAAATCGTGATGCCATAACATTTTTCAGCTATAGT
Found at i:12897328 original size:9 final size:9
Alignment explanation
Indices: 12897314--12897379 Score: 60
Period size: 9 Copynumber: 7.3 Consensus size: 9
12897304 ATATCAATAT
12897314 TGATGATAG
1 TGATGATAG
*
12897323 TGATGATAT
1 TGATGATAG
*
12897332 TGATGCTAG
1 TGATGATAG
* *
12897341 TGACGATAT
1 TGATGATAG
*
12897350 TGATGCTAG
1 TGATGATAG
* * *
12897359 TGACGCTAT
1 TGATGATAG
12897368 TGATGATAG
1 TGATGATAG
12897377 TGA
1 TGA
12897380 CGCTATTGAT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.35
Consensus pattern (9 bp):
TGATGATAG
Found at i:12897331 original size:18 final size:18
Alignment explanation
Indices: 12897310--12897389 Score: 115
Period size: 18 Copynumber: 4.4 Consensus size: 18
12897300 GATGATATCA
*
12897310 ATATTGATGATAGTGATG
1 ATATTGATGATAGTGACG
*
12897328 ATATTGATGCTAGTGACG
1 ATATTGATGATAGTGACG
*
12897346 ATATTGATGCTAGTGACG
1 ATATTGATGATAGTGACG
*
12897364 CTATTGATGATAGTGACG
1 ATATTGATGATAGTGACG
*
12897382 CTATTGAT
1 ATATTGAT
12897390 CGTGACCTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.36
Consensus pattern (18 bp):
ATATTGATGATAGTGACG
Found at i:12902478 original size:42 final size:43
Alignment explanation
Indices: 12902365--12902478 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
12902355 GGAATTAAGA
* * * *
12902365 AATCCGAGCTCGTTGAGCGGTCTGAGTTTGTGATATATGTGAG
1 AATCCGAGCTTGTTGAGTGGTCTGAGTTCGTGATATATGAGAG
* **
12902408 AATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATGAG-G
1 AATCCGAGCTTGTTGAGTGGTCTGAGTTCGTGATATATGAGAG
* *
12902450 CATCCGAGCTTATTGAGTGGTCTGAGTTC
1 AATCCGAGCTTGTTGAGTGGTCTGAGTTC
12902479 ATTATGGATA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (43 bp):
AATCCGAGCTTGTTGAGTGGTCTGAGTTCGTGATATATGAGAG
Found at i:12902510 original size:43 final size:43
Alignment explanation
Indices: 12902462--12902566 Score: 142
Period size: 43 Copynumber: 2.4 Consensus size: 43
12902452 TCCGAGCTTA
* *
12902462 TTGAGTGGTCTGAGTTCATTATGGATACGAGCATCCTAA-TTCG
1 TTGAGTGGTCTGAGTTCATTATGGATACAAGCATCC-AAGCTCG
*
12902505 TTGAGTGGT-TCGAGTTCATTATGGATGCAAGCATCCAAGCTCG
1 TTGAGTGGTCT-GAGTTCATTATGGATACAAGCATCCAAGCTCG
*
12902548 TTGAGTGGTCCGAGTTCAT
1 TTGAGTGGTCTGAGTTCAT
12902567 AATGAATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 52 0.95
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
TTGAGTGGTCTGAGTTCATTATGGATACAAGCATCCAAGCTCG
Found at i:12902613 original size:51 final size:51
Alignment explanation
Indices: 12902536--12902635 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
12902526 TGGATGCAAG
*
12902536 CATCCAAGCTCGTTGAGTGGTCCGAGTTCATAATGAATGTGATACATGTAA
1 CATCCAAGCTCGTTGAGAGGTCCGAGTTCATAATGAATGTGATACATGTAA
* * * * * *
12902587 CATCCGAGCTGGTTGAGAGGTTCGAGTTCATTATGGATGTGTTACATGT
1 CATCCAAGCTCGTTGAGAGGTCCGAGTTCATAATGAATGTGATACATGT
12902636 TATAAGGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
CATCCAAGCTCGTTGAGAGGTCCGAGTTCATAATGAATGTGATACATGTAA
Found at i:12906331 original size:29 final size:29
Alignment explanation
Indices: 12906275--12906331 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
12906265 GTATCGTATA
* *
12906275 TTGGATTTCTTCATCTTGGTTTTTTTGTC
1 TTGGATTTCTTCATCTTGGTATTCTTGTC
* *
12906304 TTGGATTTCTTTATTTTGGTATTCTTGT
1 TTGGATTTCTTCATCTTGGTATTCTTGT
12906332 TATCTTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.09, C:0.11, G:0.18, T:0.63
Consensus pattern (29 bp):
TTGGATTTCTTCATCTTGGTATTCTTGTC
Found at i:12915597 original size:18 final size:18
Alignment explanation
Indices: 12915562--12915599 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
12915552 TTGCTGTGTT
*
12915562 AGTCGAAAGAGCTTGCAA
1 AGTCGAAAGAACTTGCAA
12915580 AGTCGAAA-AACTTGGCAA
1 AGTCGAAAGAACTT-GCAA
12915598 AG
1 AG
12915600 AAAAGAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (18 bp):
AGTCGAAAGAACTTGCAA
Found at i:12918494 original size:41 final size:41
Alignment explanation
Indices: 12918449--12918530 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
12918439 AAAGAAAGAT
*
12918449 GTTGTTTGGGTTGTCGTTGATCGACTGACGAAATCTGCACA
1 GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCACA
12918490 GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCACA
1 GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCACA
12918531 CTTCATTCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (41 bp):
GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCACA
Found at i:12921096 original size:14 final size:13
Alignment explanation
Indices: 12921076--12921107 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
12921066 AATATTTAAC
12921076 TTGTTCTTAATTA
1 TTGTTCTTAATTA
12921089 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
12921103 TTGTT
1 TTGTT
12921108 TTGATATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:12929966 original size:14 final size:14
Alignment explanation
Indices: 12929947--12929973 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12929937 ATATTTAACT
12929947 TGTTCTTAATTATG
1 TGTTCTTAATTATG
12929961 TGTTCTTAATTAT
1 TGTTCTTAATTAT
12929974 TATTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Done.