Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 124 of 276
Found at i:39900152 original size:79 final size:81
Alignment explanation
Indices: 39900016--39900200 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
39900006 TTGAATGATG
*
39900016 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
39900080 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
39900095 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
39900157 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
39900175 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39900201 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:39900214 original size:40 final size:40
Alignment explanation
Indices: 39900017--39900200 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
39900007 TGAATGATGT
* * * *
39900017 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
39900057 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
39900097 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39900135 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39900176 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39900201 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:39900222 original size:79 final size:79
Alignment explanation
Indices: 39900069--39900233 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
39900059 GGACTAAGAT
* **
39900069 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
39900134 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
39900148 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
39900211 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
39900227 CCGAAGG
1 CCGAAGG
39900234 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:39913492 original size:39 final size:39
Alignment explanation
Indices: 39913446--39913570 Score: 151
Period size: 39 Copynumber: 3.2 Consensus size: 39
39913436 GTATTGCAAC
* *
39913446 ATATGCTTGAATGTTATATGATTAAATGAGTATTGTGAT
1 ATATGCTTGAATGTTATGTGATTATATGAGTATTGTGAT
* * * *
39913485 ATGTGCTTGAACGTTACGTAATTATATGAGTATTGTGAT
1 ATATGCTTGAATGTTATGTGATTATATGAGTATTGTGAT
* * * * *
39913524 ATATTCTTAAATGTTATGTGATTATATGTGTAATGTGGT
1 ATATGCTTGAATGTTATGTGATTATATGAGTATTGTGAT
39913563 ATATGCTT
1 ATATGCTT
39913571 AAAAGTGAAT
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.45
Consensus pattern (39 bp):
ATATGCTTGAATGTTATGTGATTATATGAGTATTGTGAT
Found at i:39915834 original size:17 final size:17
Alignment explanation
Indices: 39915814--39915872 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
39915804 CATTCAAATA
39915814 AATCCAAAATTAATAAT
1 AATCCAAAATTAATAAT
** *
39915831 AATCCATCATTAATATGAA
1 AATCCAAAATTAATA--AT
39915850 AATCCAAAATTAATAAT
1 AATCCAAAATTAATAAT
39915867 AATCCA
1 AATCCA
39915873 TCATTAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 20 0.59
19 14 0.41
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (17 bp):
AATCCAAAATTAATAAT
Found at i:39915855 original size:19 final size:19
Alignment explanation
Indices: 39915831--39915888 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
39915821 AATTAATAAT
39915831 AATCCATCATTAATATGAA
1 AATCCATCATTAATATGAA
** *
39915850 AATCCAAAATTAATA--AT
1 AATCCATCATTAATATGAA
39915867 AATCCATCATTAATATGAA
1 AATCCATCATTAATATGAA
39915886 AAT
1 AAT
39915889 TTAAGGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 14 0.45
19 17 0.55
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (19 bp):
AATCCATCATTAATATGAA
Found at i:39915859 original size:36 final size:36
Alignment explanation
Indices: 39915813--39915888 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
39915803 TCATTCAAAT
39915813 AAATCCAAAATTAATAATAATCCATCATTAATATGA
1 AAATCCAAAATTAATAATAATCCATCATTAATATGA
39915849 AAATCCAAAATTAATAATAATCCATCATTAATATGA
1 AAATCCAAAATTAATAATAATCCATCATTAATATGA
39915885 AAAT
1 AAAT
39915889 TTAAGGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (36 bp):
AAATCCAAAATTAATAATAATCCATCATTAATATGA
Found at i:39915878 original size:17 final size:17
Alignment explanation
Indices: 39915822--39915881 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
39915812 TAAATCCAAA
39915822 ATTAATAATAATCCATC
1 ATTAATAATAATCCATC
* **
39915839 ATTAATATGAAAATCCAAA
1 ATTAATA--ATAATCCATC
39915858 ATTAATAATAATCCATC
1 ATTAATAATAATCCATC
39915875 ATTAATA
1 ATTAATA
39915882 TGAAAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 21 0.60
19 14 0.40
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
ATTAATAATAATCCATC
Found at i:39921513 original size:27 final size:27
Alignment explanation
Indices: 39921456--39921517 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
39921446 ATAATATTTG
** *
39921456 TGTTTAATGTCCCGATGGACTACCCCC
1 TGTTTAACATCCCGATGGACTACCCCA
* * *
39921483 TGTTTAACATCCCGTTGGACTATCCTA
1 TGTTTAACATCCCGATGGACTACCCCA
39921510 TGTTTAAC
1 TGTTTAAC
39921518 GTCTTGCTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.35
Consensus pattern (27 bp):
TGTTTAACATCCCGATGGACTACCCCA
Found at i:39926350 original size:13 final size:13
Alignment explanation
Indices: 39926332--39926360 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39926322 ACCATTTAAG
39926332 GGCACACGCCCAA
1 GGCACACGCCCAA
39926345 GGCACACGCCCAA
1 GGCACACGCCCAA
39926358 GGC
1 GGC
39926361 CCGAGGCCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.45, G:0.28, T:0.00
Consensus pattern (13 bp):
GGCACACGCCCAA
Found at i:39928435 original size:27 final size:27
Alignment explanation
Indices: 39928395--39928448 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
39928385 TCATACAACC
* *
39928395 CATGTAATATTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
39928422 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
39928449 TCACATAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:39938263 original size:19 final size:18
Alignment explanation
Indices: 39938230--39938267 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
39938220 TAATATTAGT
*
39938230 TAAACATGTTTAATTAAA
1 TAAACATGATTAATTAAA
39938248 TAAACTATGATTAATTAAA
1 TAAAC-ATGATTAATTAAA
39938267 T
1 T
39938268 TTTTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
TAAACATGATTAATTAAA
Found at i:39940977 original size:24 final size:24
Alignment explanation
Indices: 39940945--39940992 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
39940935 TGCTTAAGGG
39940945 TTGGATTGTATAAGTTTCAAAAGT
1 TTGGATTGTATAAGTTTCAAAAGT
39940969 TTGGATTGTATAAGTTTCAAAAGT
1 TTGGATTGTATAAGTTTCAAAAGT
39940993 GATCATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (24 bp):
TTGGATTGTATAAGTTTCAAAAGT
Found at i:39948499 original size:6 final size:6
Alignment explanation
Indices: 39948488--39948516 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
39948478 TGTGTATGGT
39948488 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
39948517 TGCTTCTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:39953273 original size:2 final size:2
Alignment explanation
Indices: 39953266--39953292 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
39953256 ACCTAAAAAG
39953266 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
39953293 CTGCAGGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:39955642 original size:29 final size:29
Alignment explanation
Indices: 39955587--39955653 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
39955577 TTCAGAAAAT
* *
39955587 TTAAAAATTCTAATTAAGCCTTTAATTTG
1 TTAAAAATTCTAATTAAACCTTAAATTTG
* *
39955616 TTAAAAATTTTAATTAAAACC-TAAATTTT
1 TTAAAAATTCTAATT-AAACCTTAAATTTG
*
39955645 TTTAAAATT
1 TTAAAAATT
39955654 AATTTAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (29 bp):
TTAAAAATTCTAATTAAACCTTAAATTTG
Found at i:39960747 original size:26 final size:26
Alignment explanation
Indices: 39960718--39960831 Score: 156
Period size: 26 Copynumber: 4.2 Consensus size: 26
39960708 TGATACAAAT
* *
39960718 TGATAATGGGTTAGATAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
39960744 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
39960770 TGATAATGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATG-----G-GTTAGGTAAATGTTCCA
39960802 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
39960828 TGAT
1 TGAT
39960832 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
26 53 0.66
27 1 0.01
31 1 0.01
32 25 0.31
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:39960789 original size:58 final size:58
Alignment explanation
Indices: 39960718--39960831 Score: 201
Period size: 58 Copynumber: 2.0 Consensus size: 58
39960708 TGATACAAAT
* *
39960718 TGATAATGGGTTAGATAAATGTTCCGTGATAATGGGTTAGGTAAATGTTCCATGATAA
1 TGATAATGAGTTAGATAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCATGATAA
*
39960776 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCATGAT
1 TGATAATGAGTTAGATAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCATGAT
39960832 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (58 bp):
TGATAATGAGTTAGATAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCATGATAA
Found at i:39964058 original size:12 final size:12
Alignment explanation
Indices: 39964037--39964079 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
39964027 ACTCGGGGAA
39964037 GAGGCCGTGGTC
1 GAGGCCGTGGTC
*
39964049 GAGGCTGTGGTC
1 GAGGCCGTGGTC
39964061 GAGGCCGTGGTC
1 GAGGCCGTGGTC
39964073 GAGGCCG
1 GAGGCCG
39964080 AGGTAGTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.09, C:0.23, G:0.51, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:39968992 original size:26 final size:26
Alignment explanation
Indices: 39968963--39969044 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
39968953 TGATACAAAT
* *
39968963 TGATAATGGGTTAGGTAAATTTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
39968989 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
39969015 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
39969041 TGAT
1 TGAT
39969045 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:39973119 original size:29 final size:29
Alignment explanation
Indices: 39973086--39973142 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
39973076 TCAACATAAT
* *
39973086 TATTG-ATATAACATTATTTTATATTTATA
1 TATTGTATATAAAATTA-ATTATATTTATA
39973115 TATTGTATATAAAATTAATTATATTTAT
1 TATTGTATATAAAATTAATTATATTTAT
39973143 TCAATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (29 bp):
TATTGTATATAAAATTAATTATATTTATA
Found at i:39975778 original size:15 final size:15
Alignment explanation
Indices: 39975758--39975788 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39975748 TCAAATAAAC
39975758 TGTAAAATATGAAAT
1 TGTAAAATATGAAAT
39975773 TGTAAAATATGAAAT
1 TGTAAAATATGAAAT
39975788 T
1 T
39975789 TGGTCGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (15 bp):
TGTAAAATATGAAAT
Found at i:39978803 original size:16 final size:16
Alignment explanation
Indices: 39978782--39978814 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39978772 AGTAATGAAA
*
39978782 TTAGTTTTGATTAAAG
1 TTAGTTTTGACTAAAG
39978798 TTAGTTTTGACTAAAG
1 TTAGTTTTGACTAAAG
39978814 T
1 T
39978815 ATAACATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.48
Consensus pattern (16 bp):
TTAGTTTTGACTAAAG
Found at i:39979197 original size:40 final size:40
Alignment explanation
Indices: 39979077--39979198 Score: 169
Period size: 40 Copynumber: 3.1 Consensus size: 40
39979067 ACCCAAGTAT
39979077 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
39979116 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
39979156 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
39979196 CTT
1 CTT
39979199 TGGGACACAT
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
38 1 0.01
39 10 0.14
40 62 0.84
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:39979342 original size:40 final size:39
Alignment explanation
Indices: 39979275--39979359 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 39
39979265 ACCCAAGTAT
** *
39979275 CTTCGGGATTTAGCCGGATATAACAACTAGCATAAATGC
1 CTTCGGGACATAGCCGGATATAACAACTAGCACAAATGC
* *
39979314 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACATAG-CCGGATATAACAACTAGCACAAATGC
39979354 CTTCGG
1 CTTCGG
39979360 ATCTTAGTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 11 0.28
40 29 0.73
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (39 bp):
CTTCGGGACATAGCCGGATATAACAACTAGCACAAATGC
Found at i:39979346 original size:198 final size:198
Alignment explanation
Indices: 39979008--39979371 Score: 665
Period size: 198 Copynumber: 1.8 Consensus size: 198
39978998 CATACCTTAT
39979008 CATTTAGATTTTATGAGCGTATTAATTGAAATTATTACAGCAAGATTGCTCACTTCCAAACCCAA
1 CATTTAGATTTTATGAGCGTATTAATTGAAATTATTACAGCAAGATTGCTCACTTCCAAACCCAA
* * *
39979073 GTATCTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGCCCTCGGGTCTTAGCCCGGATAT
66 GTATCTTCGGGATTTAGCCGGATATAACAACTAGCACAAATGCCCTCGGGACATAGCCCGGATAT
*
39979138 AGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTTGGG
131 AGCAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTAGCATAAATGCCTTTGGG
39979203 ACA
196 ACA
39979206 CATTTAGATTTTATGAGCGTATTAATTGAAATTATTACAGCAAGATTGCTCACTTCCAAACCCAA
1 CATTTAGATTTTATGAGCGTATTAATTGAAATTATTACAGCAAGATTGCTCACTTCCAAACCCAA
* *
39979271 GTATCTTCGGGATTTAGCCGGATATAACAACTAGCATAAATGCCTTCGGGACATAGCCCGGATAT
66 GTATCTTCGGGATTTAGCCGGATATAACAACTAGCACAAATGCCCTCGGGACATAGCCCGGATAT
*
39979336 AGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
131 AGCAACTCGCACAAATGCCTTCGGATCTTAGCCCGG
39979372 TTATCATCCG
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
198 159 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (198 bp):
CATTTAGATTTTATGAGCGTATTAATTGAAATTATTACAGCAAGATTGCTCACTTCCAAACCCAA
GTATCTTCGGGATTTAGCCGGATATAACAACTAGCACAAATGCCCTCGGGACATAGCCCGGATAT
AGCAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTAGCATAAATGCCTTTGGG
ACA
Found at i:39982071 original size:42 final size:42
Alignment explanation
Indices: 39981975--39982114 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 42
39981965 ATATCCGGAT
*** * * *
39981975 ATGGTCTTACATGTAATCTCATATTGATGCCAATAGCCCA-AC
1 ATGGTCTTACACAAAATATCATACTGATGCC-ATATCCCAGAC
* * *
39982017 TATGGTCTTACACAAAATTTCGTA-TCGATGCCATGTCCCAGAC
1 -ATGGTCTTACACAAAATATCATACT-GATGCCATATCCCAGAC
** *
39982060 ATGGTCTTACACGTAATATCATACTGATGCCATATCCCAGAT
1 ATGGTCTTACACAAAATATCATACTGATGCCATATCCCAGAC
39982102 ATGGTCTTACACA
1 ATGGTCTTACACA
39982115 TATTCTCATC
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 53 0.66
43 27 0.34
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACACAAAATATCATACTGATGCCATATCCCAGAC
Found at i:39996326 original size:310 final size:308
Alignment explanation
Indices: 39995730--39996449 Score: 685
Period size: 310 Copynumber: 2.4 Consensus size: 308
39995720 TTTTATTTTG
* * * *
39995730 CACATTTTAATCTATT-TTTTTTATTTTAACACCATATATATTTTATGTGTTATTATTAATTAGT
1 CACAATTTAATCTATTATTTTTTATTTTAACAACATACATATTTCATGTGTTATTATTAATTAGT
* * * *
39995794 TTCAAACCATACATTTAATTATTTATTGTATGTTATTTTTAACCACAAATTTATATTCTAAATAC
66 TTCAAACAATACATTTAATTATTTATTGTATATTATTTTTAAACACAAATTTACATTCTAAATAC
* * * * * * * *
39995859 GTGGTTTTCATACGCGGATGCGTTTATAGAGTTTCTAGTATTAATAATATTGTTAATTGAATTGG
131 GTGGTTTTCACACACAGATACATTGATAGAATTTCTA-TATAAATAATATTGTTAATTGAATTGG
* * * * * * * * *
39995924 TGTAATAAATTAACTCGACACCAACTCATGGTTGATGACAACACCATAATCAATAAATGTATTCA
195 TGTAATAAATTAACTCAAAACAAACTAAAGATTGATGACAACACCATAATAAACAAATATATTCA
* * * *
39995989 TTTAATATTTTTAATTTGATATATTTATGTGCTTAAAATTCATTTTACT
260 TTTAATATTTTAAATCTAATATATTTATATGCTTAAAATTCATTTTACT
* * * *
39996038 CGCAATTTAATCTATTATTTTTTCATTTTAACAGCATACATATTTCACGTGCTATTATTAATTAG
1 CACAATTTAATCTATTATTTTTT-ATTTTAACAACATACATATTTCATGTGTTATTATTAATTAG
* * * * *
39996103 TTTCAAACTATA-AGTTTCATTATTTATTGTATTTTATTTTTAAACACATATTTGCATTCTAAAT
65 TTTCAAACAATACA-TTTAATTATTTATTGTATATTATTTTTAAACACAAATTTACATTCTAAAT
* * * *
39996167 ATGTGG-TTTC-CACACATATACAAAATTGATAGAAATTTCT-TATAAATAATGTTGTTGATTGA
129 ACGTGGTTTTCACACACAGATAC---ATTGATAG-AATTTCTATATAAATAATATTGTTAATTGA
* ** * *** * *
39996229 GTTGGTGTCGTAAATTAACTTAAAACAAACTAAAGATTGATGACAACATTGTGATAAACAATTAT
190 ATTGGTGTAATAAATTAACTCAAAACAAACTAAAGATTGATGACAACACCATAATAAACAAATAT
* * * ** * *
39996294 ATTTA-TTAGGTATTTTAAATCTAATGTATTTATATTTTTAAATTTCGTTTTACT
255 ATTCATTTA-ATATTTTAAATCTAATATATTTATATGCTTAAAATTCATTTTACT
* *
39996348 CACAATTT-A---A-TA--TTTTATTTTAATAACTTACATATTTCATGTGTTATTATTAATTA-T
1 CACAATTTAATCTATTATTTTTTATTTTAACAACATACATATTTCATGTGTTATTATTAATTAGT
* * * * *
39996405 TTCAACCAATATATTTTATTATTTATTATATATTATTTTTGAACA
66 TTCAAACAATACATTTAATTATTTATTGTATATTATTTTTAAACA
39996450 TATTTCTATA
Statistics
Matches: 336, Mismatches: 67, Indels: 25
0.79 0.16 0.06
Matches are distributed among these distances:
301 38 0.11
302 36 0.11
303 4 0.01
305 2 0.01
306 1 0.00
308 20 0.06
309 15 0.04
310 208 0.62
311 6 0.02
312 6 0.02
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (308 bp):
CACAATTTAATCTATTATTTTTTATTTTAACAACATACATATTTCATGTGTTATTATTAATTAGT
TTCAAACAATACATTTAATTATTTATTGTATATTATTTTTAAACACAAATTTACATTCTAAATAC
GTGGTTTTCACACACAGATACATTGATAGAATTTCTATATAAATAATATTGTTAATTGAATTGGT
GTAATAAATTAACTCAAAACAAACTAAAGATTGATGACAACACCATAATAAACAAATATATTCAT
TTAATATTTTAAATCTAATATATTTATATGCTTAAAATTCATTTTACT
Found at i:39997561 original size:21 final size:21
Alignment explanation
Indices: 39997535--39997578 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
39997525 TCTACAGTGA
39997535 CCACAATAGCATCCGTTATGT
1 CCACAATAGCATCCGTTATGT
39997556 CCACAATAGCATCCGTTATGT
1 CCACAATAGCATCCGTTATGT
39997577 CC
1 CC
39997579 GTAATCGCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (21 bp):
CCACAATAGCATCCGTTATGT
Found at i:39998888 original size:39 final size:39
Alignment explanation
Indices: 39998829--39998967 Score: 215
Period size: 39 Copynumber: 3.6 Consensus size: 39
39998819 ATCGTGATCT
** * *
39998829 GAAGCCCGAAATCTAGCTGAAGCATATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
39998868 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
39998907 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
39998946 GAATCCCGGAGGCTAACTGAAG
1 GAAGCCCGAAGGCTAACTGAAG
39998968 TTCATCAGAG
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:40008455 original size:43 final size:42
Alignment explanation
Indices: 40008308--40008456 Score: 124
Period size: 42 Copynumber: 3.5 Consensus size: 42
40008298 ATGTAATTCG
* * * * * *
40008308 TGTAAGACCACGTTTGGGACGTTGACATCGATTTTTGATTTACA
1 TGTAAGACCTCGTCTGGGACATTGGCATCGA-TATTGA-GTACA
* * *
40008352 TGTAAAACCAT-GTCTGGGACATTGGCATCG-TATATGAGTTCG
1 TGTAAGACC-TCGTCTGGGACATTGGCATCGATAT-TGAGTACA
* *
40008394 TGTAAGACCTTGTCTGGGACAATGGCATCGATAGTTGA-TCACA
1 TGTAAGACCTCGTCTGGGACATTGGCATCGATA-TTGAGT-ACA
40008437 TGTAAGACCTCGTCTGGGAC
1 TGTAAGACCTCGTCTGGGAC
40008457 GTAGGCATTG
Statistics
Matches: 85, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 31 0.36
43 28 0.33
44 25 0.29
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCTCGTCTGGGACATTGGCATCGATATTGAGTACA
Found at i:40008464 original size:43 final size:42
Alignment explanation
Indices: 40008308--40008464 Score: 106
Period size: 43 Copynumber: 3.7 Consensus size: 42
40008298 ATGTAATTCG
* * * * * *
40008308 TGTAAGACCACGTTTGGGACGTTGACATCGATTTTTGATTTACA
1 TGTAAGACCTCGTCTGGGACGTAGGCATCGA-TATTGA-GTACA
* * * * *
40008352 TGTAAAACCAT-GTCTGGGACATTGGCATCG-TATATGAGTTCG
1 TGTAAGACC-TCGTCTGGGACGTAGGCATCGATAT-TGAGTACA
* *
40008394 TGTAAGACCTTGTCTGGGAC-AATGGCATCGATAGTTGA-TCACA
1 TGTAAGACCTCGTCTGGGACGTA-GGCATCGATA-TTGAGT-ACA
40008437 TGTAAGACCTCGTCTGGGACGTAGGCAT
1 TGTAAGACCTCGTCTGGGACGTAGGCAT
40008465 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
41 1 0.01
42 29 0.33
43 33 0.37
44 26 0.29
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCTCGTCTGGGACGTAGGCATCGATATTGAGTACA
Found at i:40019103 original size:43 final size:43
Alignment explanation
Indices: 40019048--40019177 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
40019038 ATATCGTACA
* ** *
40019048 ATGCCAACGTCCCAGACATGGTCTTATATGTAATCACATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAATCACATATCG
* * *
40019091 ATGCC-ACTGTCCCAGGCAGGGTCTTACACATAATCACTTATCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACATAATCACATATCG
* * *
40019134 ATGCCAACATCCCGGACATGGTCTTACACA-AGAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATA-ATCACATATCG
40019177 A
1 A
40019178 AAATCCTATG
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 3 0.04
43 66 0.93
44 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAATCACATATCG
Found at i:40022509 original size:42 final size:43
Alignment explanation
Indices: 40022408--40022552 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
40022398 AGCTTGTACA
* * *
40022408 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTAAA-CAAATATTG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGTAAATCAAATA-CG
*
40022451 ATGCC-ACTATCCCAGACAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAATCAAATACG
* *
40022493 ATGCCAACGTCCCAGACATGGTCTTACAGGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCA-AA-TACG
40022537 ATGCCAACGTCCCAGA
1 ATGCCAACGTCCCAGA
40022553 TGTAGTCTTA
Statistics
Matches: 88, Mismatches: 7, Indels: 13
0.81 0.06 0.12
Matches are distributed among these distances:
42 30 0.34
43 36 0.41
44 21 0.24
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCAAATACG
Found at i:40036860 original size:3 final size:3
Alignment explanation
Indices: 40036846--40037020 Score: 98
Period size: 3 Copynumber: 60.0 Consensus size: 3
40036836 AAATTGAATC
* * *
40036846 TAA TAC TAA TAA TAA -AA -AA TAA TAA TAA GAA TAA TAA -AA T-A CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * * **
40036890 TAA -AA TAA TAG TAA TCC TAA -AA AAA TAC TAA GAA TAC TAA TGT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
40036936 TAA TAA AAA GAA TAA TAA TAA TAA CAA TAA TAA TAGA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* *
40036981 GTAA -AA AAA T-A TAA TAA TAAA TGA TAA TAA TAAA TAA TAA
1 -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA
40037021 ATGAAAAAAA
Statistics
Matches: 129, Mismatches: 31, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
2 17 0.13
3 101 0.78
4 11 0.09
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:40036899 original size:13 final size:13
Alignment explanation
Indices: 40036852--40037020 Score: 92
Period size: 13 Copynumber: 13.5 Consensus size: 13
40036842 AATCTAATAC
*
40036852 TAATAATAAAAAA
1 TAATAATAATAAA
*
40036865 TAATAATAA-GAA
1 TAATAATAATAAA
40036877 TAATAA-AATACAA
1 TAATAATAATA-AA
40036890 TAA-AATAATAGTAA
1 TAATAATAATA--AA
**
40036904 TCCTAA-AA-AAA
1 TAATAATAATAAA
* *
40036915 TACTAAGAATACTAA
1 TAATAATAATA--AA
**
40036930 TGTTAATAATAAA
1 TAATAATAATAAA
*
40036943 -AAGAATAAT-AA
1 TAATAATAATAAA
*
40036954 TAATAACAAT-AA
1 TAATAATAATAAA
40036966 TAATAGATAATAAA
1 TAATA-ATAATAAA
*
40036980 -AGTAA-AA-AAA
1 TAATAATAATAAA
40036990 T-ATAATAATAAA
1 TAATAATAATAAA
*
40037002 TGATAATAATAAA
1 TAATAATAATAAA
40037015 TAATAA
1 TAATAA
40037021 ATGAAAAAAA
Statistics
Matches: 122, Mismatches: 18, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
10 6 0.05
11 15 0.12
12 37 0.30
13 45 0.37
14 7 0.06
15 12 0.10
ACGTcount: A:0.66, C:0.04, G:0.05, T:0.26
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:40037019 original size:42 final size:42
Alignment explanation
Indices: 40036939--40037031 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
40036929 ATGTTAATAA
*
40036939 TAAAAAGAATAATAATAATAACAATAATAATAGATAATAAAAG
1 TAAAAA-AATAATAATAATAACAATAATAATAAATAATAAAAG
*
40036982 TAAAAAAAT-ATAATAATAA-ATGATAATAATAAATAATAAATG
1 TAAAAAAATAATAATAATAACA--ATAATAATAAATAATAAAAG
*
40037024 AAAAAAAA
1 TAAAAAAA
40037032 GAGGCAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
40 1 0.02
41 10 0.22
42 28 0.62
43 6 0.13
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (42 bp):
TAAAAAAATAATAATAATAACAATAATAATAAATAATAAAAG
Found at i:40039033 original size:40 final size:40
Alignment explanation
Indices: 40038954--40039890 Score: 1754
Period size: 40 Copynumber: 23.4 Consensus size: 40
40038944 CGGATGATAA
* * *
40038954 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
40038994 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
40039034 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039074 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039114 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039154 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039194 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039234 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039274 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039314 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039354 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039394 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039434 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039474 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039514 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039554 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039594 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039634 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039674 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039714 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039754 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039794 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
40039834 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
40039874 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
40039891 ATACTTGGGT
Statistics
Matches: 880, Mismatches: 14, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
38 1 0.00
39 15 0.02
40 862 0.98
41 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:40046177 original size:42 final size:42
Alignment explanation
Indices: 40046118--40046203 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
40046108 AGACAACTCC
40046118 TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
1 TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
40046160 TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
1 TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
40046202 TT
1 TT
40046204 GGGCTTAGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (42 bp):
TTCTTATTCCTCAATGTAACTACCTTAATATGCTCTTTTGGA
Found at i:40047677 original size:23 final size:23
Alignment explanation
Indices: 40047631--40047677 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
40047621 AAAAGAAAAT
* * * *
40047631 ACAAAAATATAAAATTTAATTAA
1 ACAAAAAAATAAAAGTAAAATAA
40047654 ACAAAAAAATAAAAGTAAAATAA
1 ACAAAAAAATAAAAGTAAAATAA
40047677 A
1 A
40047678 AAATGGCTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (23 bp):
ACAAAAAAATAAAAGTAAAATAA
Found at i:40055213 original size:35 final size:35
Alignment explanation
Indices: 40055151--40055236 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
40055141 TTTTATTTGT
*
40055151 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
40055184 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
40055220 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
40055237 ATAAATCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:40055222 original size:25 final size:23
Alignment explanation
Indices: 40055178--40055238 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
40055168 TGATATTTAA
*
40055178 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
40055202 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
40055227 ATATTATTAAAT
1 ATATAATTAAAT
40055239 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:40056235 original size:13 final size:13
Alignment explanation
Indices: 40056217--40056243 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
40056207 GTATTTAGTA
40056217 AAATGATAAATTT
1 AAATGATAAATTT
40056230 AAATGATAAATTT
1 AAATGATAAATTT
40056243 A
1 A
40056244 TGATTGGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
AAATGATAAATTT
Found at i:40056352 original size:40 final size:40
Alignment explanation
Indices: 40056295--40056376 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
40056285 TGGAATGAAA
* * *
40056295 AATATTGTTTTGAGTACTGAATTGAATTGTGAAGTTACAG
1 AATATTGTTATGAGTACTGAATTGAAATGTGAAATTACAG
* * *
40056335 AATATTGTTATGTGTACTGCATTGAAATGTGAAATTATAG
1 AATATTGTTATGAGTACTGAATTGAAATGTGAAATTACAG
40056375 AA
1 AA
40056377 GTAATGAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (40 bp):
AATATTGTTATGAGTACTGAATTGAAATGTGAAATTACAG
Found at i:40056654 original size:45 final size:45
Alignment explanation
Indices: 40056580--40056673 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
40056570 GCCGACTACT
* * * *
40056580 GTTATTGTTACCGATTCGACATTTTGTGTGTCGAATACTGTTACC
1 GTTATTGTTACAGATTCAACACTTAGTGTGTCGAATACTGTTACC
* * * *
40056625 GTTATTGTTATAGATTCAACACTTAGTGTGTTGAATATTGTTACT
1 GTTATTGTTACAGATTCAACACTTAGTGTGTCGAATACTGTTACC
40056670 GTTA
1 GTTA
40056674 CTGCTACCGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (45 bp):
GTTATTGTTACAGATTCAACACTTAGTGTGTCGAATACTGTTACC
Found at i:40089336 original size:30 final size:29
Alignment explanation
Indices: 40089298--40089466 Score: 85
Period size: 29 Copynumber: 5.3 Consensus size: 29
40089288 GTTGACCTGA
*
40089298 ATGCATGTTTGACTGTTACTATTTACTGC
1 ATGCATGTTTGACTATTACTATTTACTGC
* *
40089327 ATGCTATG-TT-ATTATTATCTGATAAGGTTGACCTGA
1 ATGC-ATGTTTGACTATTA-CT-AT----TT-A-CTGC
40089363 ATGCATGTTTGACTATTACTATTTACTGC
1 ATGCATGTTTGACTATTACTATTTACTGC
* *
40089392 ATGCCATG-TT-ATTATTATCTGATAAGGTTGACTTGA
1 ATG-CATGTTTGACTATTA-CT-AT----TT-AC-TGC
*
40089428 ATGCATGTTTGACTGTTACTATTTACTGC
1 ATGCATGTTTGACTATTACTATTTACTGC
40089457 ATGCTATGTT
1 ATGC-ATGTT
40089467 ATTATTATTT
Statistics
Matches: 107, Mismatches: 10, Indels: 45
0.66 0.06 0.28
Matches are distributed among these distances:
28 11 0.10
29 24 0.22
30 19 0.18
31 4 0.04
34 4 0.04
35 14 0.13
36 20 0.19
37 11 0.10
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (29 bp):
ATGCATGTTTGACTATTACTATTTACTGC
Found at i:40089388 original size:65 final size:65
Alignment explanation
Indices: 40089284--40089479 Score: 356
Period size: 65 Copynumber: 3.0 Consensus size: 65
40089274 CCCCTAGGGT
40089284 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATGTTATTATTATCTGA
* *
40089349 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATGTTATTATTATCTGA
* *
40089414 TAAGGTTGACTTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATGTTATTATTATTTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATGTTATTATTATCTGA
40089479 T
1 T
40089480 GCGTGGGACT
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 125 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCTATGTTATTATTATCTGA
Found at i:40090887 original size:34 final size:35
Alignment explanation
Indices: 40090836--40090907 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
40090826 ATTCTGTAGT
*
40090836 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
40090870 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
40090905 TAG
1 TAG
40090908 CTAGGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:40091652 original size:42 final size:42
Alignment explanation
Indices: 40091593--40091675 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
40091583 TAAGGGGAGT
40091593 AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGGA
1 AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGGA
40091635 AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGG
1 AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGG
40091676 CCTTGAGTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (42 bp):
AGAGTTGTAATGCCCCAATTTTTGGGCTTGGAAGTATTGGGA
Found at i:40093139 original size:37 final size:37
Alignment explanation
Indices: 40093084--40093183 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
40093074 CGAATAGTCC
*
40093084 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
* *
40093121 CCACACGTAGTCAGCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
40093158 CCACACGTAGTCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
40093184 GGAATATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
Found at i:40093385 original size:48 final size:48
Alignment explanation
Indices: 40093327--40093710 Score: 700
Period size: 48 Copynumber: 8.0 Consensus size: 48
40093317 ATATACACAC
*
40093327 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40093375 ATCTCATACATATTTCACATTAGCCATT--GCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40093421 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40093469 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40093517 ATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
40093565 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40093613 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
40093661 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
40093709 AT
1 AT
40093711 ATTTATCTTT
Statistics
Matches: 325, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
46 45 0.14
48 280 0.86
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:40097821 original size:30 final size:30
Alignment explanation
Indices: 40097787--40097887 Score: 87
Period size: 30 Copynumber: 3.2 Consensus size: 30
40097777 GACTTGAATG
*
40097787 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
* * * * *
40097817 CATGTTATTATTATCTGACAAGGTTGACCTGAATG-
1 CATGTT-TGACTAT-T-ACTA--TTTA-CTGCATGC
40097852 CATGTTTGACTATTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
40097882 CATGTT
1 CATGTT
40097888 ATTAATATCT
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
29 6 0.11
30 15 0.28
31 4 0.08
32 4 0.08
33 4 0.08
34 5 0.09
35 9 0.17
36 6 0.11
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (30 bp):
CATGTTTGACTATTACTATTTACTGCATGC
Found at i:40097875 original size:65 final size:65
Alignment explanation
Indices: 40097771--40097899 Score: 231
Period size: 65 Copynumber: 2.0 Consensus size: 65
40097761 CCCTAAGGTT
* * *
40097771 AAGGTTGACTTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGAC
1 AAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTAATATCTGAC
40097836 AAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTAATATCTGA
1 AAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTAATATCTGA
40097900 TGCATGAGAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (65 bp):
AAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTAATATCTGAC
Found at i:40099296 original size:27 final size:27
Alignment explanation
Indices: 40099254--40099314 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
40099244 GGGCATAATT
40099254 GTCA-TTTACCCTACAGGGGCATTAC-
1 GTCATTTTACCCTACAGGGGCATTACA
40099279 GATCATTTTACCCTACAGGGGCATTACA
1 G-TCATTTTACCCTACAGGGGCATTACA
40099307 GTCATTTT
1 GTCATTTT
40099315 GCACTACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 28 0.85
28 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACA
Found at i:40099321 original size:27 final size:27
Alignment explanation
Indices: 40099258--40099322 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
40099248 ATAATTGTCA
*
40099258 TTTACCCTACAGGGGCATTACGATCAT
1 TTTACACTACAGGGGCATTACGATCAT
*
40099285 TTTACCCTACAGGGGCATTAC-AGTCAT
1 TTTACACTACAGGGGCATTACGA-TCAT
*
40099312 TTTGCACTACA
1 TTTACACTACA
40099323 AGGGTATTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (27 bp):
TTTACACTACAGGGGCATTACGATCAT
Found at i:40099354 original size:27 final size:27
Alignment explanation
Indices: 40099324--40099400 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
40099314 TGCACTACAA
*
40099324 GGGTATTTCGGTAATTTTACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCAG
** *
40099351 GGGTATTTTAGTAATTTTACAAATTAG
1 GGGTATTTCGGTAATTTTACAAATCAG
*
40099378 GGGTACTTCGGTAATTTTACAAA
1 GGGTATTTCGGTAATTTTACAAA
40099401 CTAGGGTCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCAG
Found at i:40104922 original size:20 final size:20
Alignment explanation
Indices: 40104879--40104923 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
40104869 TTGAATTGGA
* *
40104879 TGTTGTATTTGTATGGATTG
1 TGTTTTATTTGTATGGAATG
40104899 TGTTTTATTTGTATGTGAAT-
1 TGTTTTATTTGTATG-GAATG
40104919 TGTTT
1 TGTTT
40104924 GGATGTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (20 bp):
TGTTTTATTTGTATGGAATG
Found at i:40106383 original size:21 final size:22
Alignment explanation
Indices: 40106357--40106410 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
40106347 CGGTCTGCTG
**
40106357 CACGGGCGTGT-CCTAGGGTCA
1 CACGGGCGTGTCCCTAGGACCA
* *
40106378 CACGGGCATGTCCCTTGGACCA
1 CACGGGCGTGTCCCTAGGACCA
40106400 CACGGGCGTGT
1 CACGGGCGTGT
40106411 GAGCCCTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (22 bp):
CACGGGCGTGTCCCTAGGACCA
Found at i:40109503 original size:29 final size:29
Alignment explanation
Indices: 40109471--40109528 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
40109461 ATTCATATTC
40109471 TACCATCAAACATCAAAATACATGCATAT
1 TACCATCAAACATCAAAATACATGCATAT
40109500 TACCATCAAACATCAAAATACATGCATAT
1 TACCATCAAACATCAAAATACATGCATAT
40109529 CATTCATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.24
Consensus pattern (29 bp):
TACCATCAAACATCAAAATACATGCATAT
Found at i:40113233 original size:90 final size:90
Alignment explanation
Indices: 40113080--40113262 Score: 348
Period size: 90 Copynumber: 2.0 Consensus size: 90
40113070 TTCACCATTT
*
40113080 TCACATTTCAACTTTAGTGTTTTCTGTTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
1 TCACATTTCAACTCTAGTGTTTTCTGTTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
40113145 CATTCCCAAGATAACATCGAACTCA
66 CATTCCCAAGATAACATCGAACTCA
40113170 TCACATTTCAACTCTAGTGTTTTCTGTTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
1 TCACATTTCAACTCTAGTGTTTTCTGTTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
*
40113235 CATTCCCAAGATAACGTCGAACTCA
66 CATTCCCAAGATAACATCGAACTCA
40113260 TCA
1 TCA
40113263 AATGGTAACA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (90 bp):
TCACATTTCAACTCTAGTGTTTTCTGTTTACAATTTACCTTGGCATCATATAATGTCAACCAGTC
CATTCCCAAGATAACATCGAACTCA
Found at i:40125099 original size:20 final size:20
Alignment explanation
Indices: 40125074--40125113 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
40125064 TTGGATGTTG
40125074 TATTTGTATG-GAATGTGGTT
1 TATTTGTATGTGAAT-TGGTT
40125094 TATTTGTATGTGAATTGGTT
1 TATTTGTATGTGAATTGGTT
40125114 GGATGTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (20 bp):
TATTTGTATGTGAATTGGTT
Found at i:40126194 original size:7 final size:6
Alignment explanation
Indices: 40126180--40126216 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
40126170 GATGATGAAA
*
40126180 AAAAAG -AAAAG AGAAAG AAAAAG AAAAA- AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
40126217 GGCTCTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:40126198 original size:11 final size:10
Alignment explanation
Indices: 40126176--40126217 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
40126166 AAATGATGAT
40126176 GAAAAA-AAA
1 GAAAAAGAAA
40126185 GAAAAGAGAAA
1 GAAAA-AGAAA
40126196 GAAAAAGAAAA
1 GAAAAAG-AAA
*
40126207 AAAAAAGAAA
1 GAAAAAGAAA
40126217 G
1 G
40126218 GCTCTCATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 5 0.18
10 6 0.21
11 17 0.61
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:40126202 original size:17 final size:17
Alignment explanation
Indices: 40126176--40126216 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
40126166 AAATGATGAT
*
40126176 GAAA-AAAAAGAAAAGA
1 GAAAGAAAAAGAAAAAA
40126192 GAAAGAAAAAGAAAAAA
1 GAAAGAAAAAGAAAAAA
*
40126209 AAAAGAAA
1 GAAAGAAA
40126217 GGCTCTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAAGAAAAAA
Found at i:40127723 original size:154 final size:154
Alignment explanation
Indices: 40127443--40127747 Score: 497
Period size: 154 Copynumber: 2.0 Consensus size: 154
40127433 ATGATTTATT
*
40127443 GATATGTGCATGAATATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTA
1 GATATGTGCATGAATATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTA
*
40127508 GTTCCGGGCTAAGCCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
66 GTTCCGGGCTAAGCCCCGAAGGCATTGGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
* *
40127573 TGGTGCGAGTTA-CTATATCCGGGC
131 TCGAGCGAG-TAGCTATATCCGGGC
* *
40127597 GATATGTGCATGAATATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 GATATGTGCATGAATATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTA
* * *
40127662 -TATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA
66 GT-TCCGGGCTAAGCCCCGAAGGCATTGGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
40127726 TTCGAGCGAGTAGCTATATCCG
130 TTCGAGCGAGTAGCTATATCCG
40127748 ATTAAATCCC
Statistics
Matches: 140, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
153 3 0.02
154 137 0.98
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (154 bp):
GATATGTGCATGAATATTTGGATGATAACCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTA
GTTCCGGGCTAAGCCCCGAAGGCATTGGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
TCGAGCGAGTAGCTATATCCGGGC
Found at i:40127735 original size:40 final size:40
Alignment explanation
Indices: 40127471--40127747 Score: 297
Period size: 40 Copynumber: 7.1 Consensus size: 40
40127461 TGGATGATAA
* * *
40127471 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
40127511 CCGGGCTAAGCCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40127551 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
40127591 CCGGGCGATATGT---GCATGAATATT-TG-GA-TGA-TA-A-
1 CCGGGC--TAAGTCCCGAAGGCAT-TTGTGCGAGTTACTATAT
40127625 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40127665 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
40127705 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
40127745 CCG
1 CCG
40127748 ATTAAATCCC
Statistics
Matches: 201, Mismatches: 22, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
32 4 0.02
34 8 0.04
35 8 0.04
36 4 0.02
37 4 0.02
38 4 0.02
39 11 0.05
40 154 0.77
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40136962 original size:21 final size:22
Alignment explanation
Indices: 40136936--40136983 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
40136926 GGCCTGCAGG
*
40136936 ACGGGCGTGT-CCTAGGGCCAC
1 ACGGGCGTGTCCCTAGGACCAC
*
40136957 ACGGGCGTGTCCCTTGGACCAC
1 ACGGGCGTGTCCCTAGGACCAC
40136979 ACGGG
1 ACGGG
40136984 TGTATGAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.15, C:0.33, G:0.38, T:0.15
Consensus pattern (22 bp):
ACGGGCGTGTCCCTAGGACCAC
Found at i:40138182 original size:40 final size:40
Alignment explanation
Indices: 40138115--40138229 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 40
40138105 CGATTATGAT
* *
40138115 TGGCACTAAGTGTCCG-GTTTA-ATATAGCTTTGGCTACAAA
1 TGGCACTAAGTGTGCGAG-TTAGA-ATAGCTTCGGCTACAAA
40138155 TGGCACTAAGTGTGCGAGTTAGAATAGCTTCGGCTACAAA
1 TGGCACTAAGTGTGCGAGTTAGAATAGCTTCGGCTACAAA
* *
40138195 TGGCACTAAGTGTGCGAGTTGGAATAG-TTCAGCTA
1 TGGCACTAAGTGTGCGAGTTAGAATAGCTTCGGCTA
40138230 TGTAAGGCAC
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
39 7 0.10
40 60 0.87
41 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGAGTTAGAATAGCTTCGGCTACAAA
Found at i:40140394 original size:46 final size:45
Alignment explanation
Indices: 40140341--40140513 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
40140331 TTGGGCATCT
40140341 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
40140387 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
* * * * *
40140434 GAGCTTGTTGAGTTCAGTCCGAGTTCACTTATGGATGCAAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*
40140480 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40140514 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:40152412 original size:132 final size:130
Alignment explanation
Indices: 40151951--40152418 Score: 519
Period size: 131 Copynumber: 3.6 Consensus size: 130
40151941 CCTAGCACAG
* * * * * * *
40151951 TAGGGCACGATTCCTCGAATTTCTAAACATCGAGCATTGCCGT-ATTTT-TAGAATTTTTAAGAA
1 TAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTAA-AA
* * * * *
40152014 ACATGAGTGAAATTCTAAAGGGGATGTTCGATTATTTTGAACCAAC-AGGAAATCGCAACCCAAC
64 ACATGAATGAAATTCCAAA-GGGATATTCGATTATTTTGAACAAACGA-GAAATCGCAACCCAGC
40152078 ACGA
127 ACGA
* * * *
40152082 TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCCTTTTATAGAATCTTTAAAGA
1 TAGGGCACGATT-CCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTAAAAA
** * * * * * * *
40152147 CATGGGTGAAATTCCAAAGGAATATTTGATTGTTTTGAACGAACGGGCAATCGCAGCCCAGCACG
65 CATGAATGAAATTCCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACG
40152212 A
130 A
** *
40152213 TAGGGCACGATTCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAGTTTTTAGAAAA
1 TAGGGCACGATTCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTA-AAAA
* * *
40152278 CATGAATGAAATTCCAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACG
65 CATGAATGAAATTCCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACG
*
40152343 G
130 A
* ** *
40152344 TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGGATTTTTAGAAA
1 TAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTA-AAA
40152409 ACATGAATGA
64 ACATGAATGA
40152419 TTATAAAACT
Statistics
Matches: 285, Mismatches: 46, Indels: 11
0.83 0.13 0.03
Matches are distributed among these distances:
130 42 0.15
131 155 0.54
132 77 0.27
133 11 0.04
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (130 bp):
TAGGGCACGATTCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTAAAAAC
ATGAATGAAATTCCAAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGA
Found at i:40158466 original size:16 final size:16
Alignment explanation
Indices: 40158442--40158493 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
40158432 TGGTTCACTG
*
40158442 TAATGGAATAGGGCTA
1 TAATGGAATAGAGCTA
* *
40158458 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTA
*
40158474 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTA
40158490 TAAT
1 TAAT
40158494 AAGTAATTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:40158562 original size:44 final size:46
Alignment explanation
Indices: 40158475--40158568 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
40158465 ATAGAGCTGT
*
40158475 AATGGAATAGAGCTGTAATAAGTAATTCTACTATTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCTACTATTTGGTTGAATGG
** *
40158521 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCTACTATTTGGTTGAATGG
40158565 AATG
1 AATG
40158569 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCTACTATTTGGTTGAATGG
Found at i:40158651 original size:3 final size:3
Alignment explanation
Indices: 40158645--40158669 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
40158635 TAGGCAGATG
40158645 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
40158670 AATTTTAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:40158761 original size:58 final size:57
Alignment explanation
Indices: 40158669--40158804 Score: 184
Period size: 58 Copynumber: 2.4 Consensus size: 57
40158659 TATTATTATT
* *
40158669 AAATTTTAACA-AGACTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATC
1 AAATTTTAACATA-ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAATA
* * *
40158727 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAACATAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATA
*
40158784 AAATTCTTAATATAATTATTA
1 AAATT-TTAACATAATTATTA
40158805 CTATATGAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 23 0.33
58 45 0.65
59 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (57 bp):
AAATTTTAACATAATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATA
Found at i:40178490 original size:40 final size:40
Alignment explanation
Indices: 40178401--40178535 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
40178391 CGATATCTCA
* * **
40178401 CACACTAAGTGCCTTTTATAATTGAAGCT-TTCTCAACCTCG
1 CACACTAAGTGCCATATATAGCTGAAGCTATTCT-AA-CTCG
*
40178442 CACACTAAGTGCCATATATAGCTGAATCTATTCTAACTCG
1 CACACTAAGTGCCATATATAGCTGAAGCTATTCTAACTCG
** * *
40178482 CACACTAAGTGCTTTATATAGCTGAAGCTATCTCGAA-ACG
1 CACACTAAGTGCCATATATAGCTGAAGCTAT-TCTAACTCG
*
40178522 CACACTAAATGCCA
1 CACACTAAGTGCCA
40178536 AACATAGTCG
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
40 45 0.57
41 30 0.38
42 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCTGAAGCTATTCTAACTCG
Found at i:40184880 original size:37 final size:37
Alignment explanation
Indices: 40184830--40184908 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
40184820 TTATTACGAA
* *
40184830 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
40184867 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
40184904 GTCTT
1 GTCTT
40184909 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:40185105 original size:47 final size:47
Alignment explanation
Indices: 40185029--40185213 Score: 138
Period size: 47 Copynumber: 3.7 Consensus size: 47
40185019 CTTCGGGACT
* * * *
40185029 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
40185076 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * * * *
40185123 TATCACATATACATCGGCCATT-AGGCCTTATCACATATACATCGGCCATTAGGCCT
1 TATCACATATATA-C--ACTTTCA---C--ATC-CAT-CACATCGGCCACTAGGCCC
*
40185179 TATCACATATATACACTTTCACATTCATCACATCG
1 TATCACATATATACACTTTCACATCCATCACATCG
40185214 AATCCTAAAT
Statistics
Matches: 108, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
47 56 0.52
48 4 0.04
49 3 0.03
50 3 0.03
51 1 0.01
52 1 0.01
53 3 0.03
54 3 0.03
55 4 0.04
56 30 0.28
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:40185138 original size:28 final size:28
Alignment explanation
Indices: 40185105--40185189 Score: 170
Period size: 28 Copynumber: 3.0 Consensus size: 28
40185095 CACATTCATC
40185105 ACATCGGCCATTAGGCCTTATCACATAT
1 ACATCGGCCATTAGGCCTTATCACATAT
40185133 ACATCGGCCATTAGGCCTTATCACATAT
1 ACATCGGCCATTAGGCCTTATCACATAT
40185161 ACATCGGCCATTAGGCCTTATCACATAT
1 ACATCGGCCATTAGGCCTTATCACATAT
40185189 A
1 A
40185190 TACACTTTCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
ACATCGGCCATTAGGCCTTATCACATAT
Found at i:40188827 original size:48 final size:48
Alignment explanation
Indices: 40188756--40188997 Score: 385
Period size: 48 Copynumber: 5.0 Consensus size: 48
40188746 CAAGATAAAT
* * *
40188756 ATATATATGTGTGGTAAAGCCGAATGGCTAGTATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
40188804 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
40188852 ATATGTATATATGGTAAAGCCGAATGGCTAGTATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
40188900 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
40188948 ATATGTATATTTAGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
40188996 AT
1 AT
40188998 GTGTGTATAT
Statistics
Matches: 179, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 179 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:40189188 original size:37 final size:37
Alignment explanation
Indices: 40189138--40189240 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
40189128 GGAAATATAT
40189138 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
40189175 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
40189212 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
40189241 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:40194761 original size:138 final size:138
Alignment explanation
Indices: 40194513--40194792 Score: 470
Period size: 138 Copynumber: 2.0 Consensus size: 138
40194503 AAGAAAAAAG
40194513 AATTATATTATTTCCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * *
40194578 TATAATTGTTTATATTAATAAATTCGGTGAAATATATACAATTAATATTTTGTATGAATCAAATC
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATAAATCAAATC
40194643 CATATATT
131 CATATATT
* * ***
40194651 AATTATATTATTTCCAAAATAATATTAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATTAA
* *
40194716 TATAATTGTTTATATTAATAAATTCTGTAAAATATATACAATTAATATTTTATATAAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATAAATCAAATC
40194781 CATATATT
131 CATATATT
40194789 AATT
1 AATT
40194793 TTATCTATAT
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 132 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (138 bp):
AATTATATTATTTCCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATAAATCAAATC
CATATATT
Found at i:40207959 original size:30 final size:30
Alignment explanation
Indices: 40207915--40208003 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
40207905 CAAAGATAAC
40207915 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
40207944 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
40207974 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
40208004 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:40207963 original size:15 final size:15
Alignment explanation
Indices: 40207915--40207994 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
40207905 CAAAGATAAC
*
40207915 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
40207929 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
40207944 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
40207959 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
40207974 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
40207989 AAGAAA
1 AAGAAA
40207995 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:40208003 original size:15 final size:15
Alignment explanation
Indices: 40207926--40208003 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
40207916 AGAAAACCGA
40207926 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
40207941 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
40207955 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
40207970 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
40207986 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
40208001 ATA
1 ATA
40208004 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:40210983 original size:46 final size:46
Alignment explanation
Indices: 40210916--40211090 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
40210906 TGTAACCCGC
*
40210916 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGTATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTATTTGCAT
* * *
40210962 CCATAAGTGAACTCGGACTCAACTCATCGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G--TATTTGCAT
* * * ** *
40211012 CTC-T---CGAACTCGGACTAAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTATTTGCAT
* *
40211055 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
40211091 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
46 60 0.58
47 25 0.24
48 1 0.01
50 9 0.09
51 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTATTTGCAT
Found at i:40211091 original size:93 final size:93
Alignment explanation
Indices: 40210924--40211095 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
40210914 GCCCATAAGT
* ** *
40210924 GAACTCAGACTCAACTCAACGAGCTCGGGTATTTGCATCCATAAGTGAACTCGGACTCAACTCAT
1 GAACTCAGACTAAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAT
40210989 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
40211017 GAACTCGGACTAAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTAAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC-A
*
40211082 T-GAGTTCGGATGCC
65 TCGAGCTCGGATGCC
40211096 CAAATATTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTAAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAT
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:40221670 original size:35 final size:35
Alignment explanation
Indices: 40221630--40221782 Score: 162
Period size: 35 Copynumber: 4.4 Consensus size: 35
40221620 GTATGTACAT
40221630 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
40221665 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
40221700 ATGTGATGTTTTATTGAGCTTGTATATTCGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
40221735 ATATCATGACATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
40221770 ATGTGATGATATA
1 ATGTGATGATATA
40221783 ACGAACCTTG
Statistics
Matches: 92, Mismatches: 26, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 92 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:40221749 original size:70 final size:70
Alignment explanation
Indices: 40221630--40221804 Score: 163
Period size: 70 Copynumber: 2.5 Consensus size: 70
40221620 GTATGTACAT
* * * **
40221630 ATGTGATGATATATTGAACTTGTATATTTGGCCACATGTGATGTTATATTAAACTTGAATATTTG
1 ATGTGATGATATATTGAACTTGTATATTCGGCCACATATCATGACATATTAAACTTGAATATTTG
40221695 ACTAC
66 ACTAC
* * * * * ** *
40221700 ATGTGATGTTTTATTGAGCTTGTATATTCGGTCATATATCATGACATATTGTACTTGTATATTTG
1 ATGTGATGATATATTGAACTTGTATATTCGGCCACATATCATGACATATTAAACTTGAATATTTG
* * *
40221765 GCCAT
66 ACTAC
**
40221770 ATGTGATGATATAACGAACCTTG-AGTATTCGGCCA
1 ATGTGATGATATATTGAA-CTTGTA-TATTCGGCCA
40221805 TACAAGTAAG
Statistics
Matches: 81, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
70 68 0.84
71 13 0.16
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (70 bp):
ATGTGATGATATATTGAACTTGTATATTCGGCCACATATCATGACATATTAAACTTGAATATTTG
ACTAC
Found at i:40225036 original size:10 final size:10
Alignment explanation
Indices: 40225021--40225059 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
40225011 TGCTTTTGTA
40225021 CATGATATGC
1 CATGATATGC
40225031 CATGATATGC
1 CATGATATGC
40225041 ACATGATATGC
1 -CATGATATGC
40225052 CATGATAT
1 CATGATAT
40225060 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:40225044 original size:21 final size:21
Alignment explanation
Indices: 40225020--40225059 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
40225010 CTGCTTTTGT
40225020 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
40225041 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
40225060 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:40225140 original size:25 final size:25
Alignment explanation
Indices: 40225106--40225176 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
40225096 ATGAAGTGCT
*
40225106 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
40225131 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
40225156 AAAAGGGCTTTGCCCCAGTTT
1 AAAAGGGCTTTGCCCCAGTTT
40225177 TTAAAAGAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:40227486 original size:22 final size:22
Alignment explanation
Indices: 40227447--40227489 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
40227437 ATCACTCTTC
* *
40227447 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
40227469 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
40227490 CTTCTTCTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:40228741 original size:27 final size:27
Alignment explanation
Indices: 40228700--40228809 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
40228690 GAAGCATCCG
*
40228700 GGTGGCTATGCCACAATTATCTGATCT
1 GGTGGCTCTGCCACAATTATCTGATCT
* *
40228727 GGTGGCTCTGGCACATATT-TCTGTTCT
1 GGTGGCTCTGCCACA-ATTATCTGATCT
*
40228754 GGTGGCTCTGCCACGATTATCTGTATCT
1 GGTGGCTCTGCCACAATTATCTG-ATCT
* * * *
40228782 GGTGACTCTGTCAC-ATTATTTGTTCT
1 GGTGGCTCTGCCACAATTATCTGATCT
40228808 GG
1 GG
40228810 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
26 8 0.11
27 44 0.63
28 18 0.26
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATTATCTGATCT
Found at i:40228806 original size:54 final size:54
Alignment explanation
Indices: 40228700--40228809 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 54
40228690 GAAGCATCCG
*
40228700 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGGCACATATTTCTGTTCT
1 GGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGGCACATATTTCTGTTCT
* * *
40228754 GGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATT-TGTTCT
1 GGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGGCACATAT-TTCTGTTCT
40228808 GG
1 GG
40228810 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 30 0.60
55 20 0.40
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (54 bp):
GGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGGCACATATTTCTGTTCT
Found at i:40231933 original size:301 final size:301
Alignment explanation
Indices: 40231391--40231992 Score: 1105
Period size: 301 Copynumber: 2.0 Consensus size: 301
40231381 GTTGCATGTG
* * * * ** **
40231391 CCATATCTAGGTCGTTGGGTGTGCACTCTGAGAAGATTGTGAGTGGGGTATCTGTGTTAAGTCTT
1 CCATATCTAGGTCATTGGGTGTGCACCCTGAGAAGATAGTGAGTAGGGTATCTGTACTAAGTCCC
40231456 TTGGGTCACTCGATTAAGGTAGACAAACTGTATAGGAATGTACCCTTAGAAACTCAAGGCAAGGT
66 TTGGGTCACTCGATTAAGGTAGACAAACTGTATAGGAATGTACCCTTAGAAACTCAAGGCAAGGT
40231521 TTTTCCTGGAGATCTGATGGAGTTATCGTTCGGAGAGTTTGACCTCATTTTGGGAATGGATTGGC
131 TTTTCCTGGAGATCTGATGGAGTTATCGTTCGGAGAGTTTGACCTCATTTTGGGAATGGATTGGC
40231586 TTATTAAGCATAGGGCGACTTTGGATTGTGCTGCAAAATGAATGGTGTTAAGGACCACGGAGGGT
196 TTATTAAGCATAGGGCGACTTTGGATTGTGCTGCAAAATGAATGGTGTTAAGGACCACGGAGGGT
40231651 GAGGAGGTTATGATGATAGGCGAGCGAAGGGATTATTTGTC
261 GAGGAGGTTATGATGATAGGCGAGCGAAGGGATTATTTGTC
* **
40231692 CCATATCTGGGTCATTGGGTGTGCACCCTGAGGGGATAGTGAGTAGGGTATCTGTACTAAGTCCC
1 CCATATCTAGGTCATTGGGTGTGCACCCTGAGAAGATAGTGAGTAGGGTATCTGTACTAAGTCCC
40231757 TTGGGTCACTCGATTAAGGTAGACAAACTGTATAGGAATGTACCCTTAGAAACTCAAGGCAAGGT
66 TTGGGTCACTCGATTAAGGTAGACAAACTGTATAGGAATGTACCCTTAGAAACTCAAGGCAAGGT
40231822 TTTTCCTGGAGATCTGATGGAGTTATCGTTCGGAGAGTTTGACCTCATTTTGGGAATGGATTGGC
131 TTTTCCTGGAGATCTGATGGAGTTATCGTTCGGAGAGTTTGACCTCATTTTGGGAATGGATTGGC
40231887 TTATTAAGCATAGGGCGACTTTGGATTGTGCTGCAAAATGAATGGTGTTAAGGACCACGGAGGGT
196 TTATTAAGCATAGGGCGACTTTGGATTGTGCTGCAAAATGAATGGTGTTAAGGACCACGGAGGGT
40231952 GAGGAGGTTATGATGATAGGCGAGCGAAGGGATTATTTGTC
261 GAGGAGGTTATGATGATAGGCGAGCGAAGGGATTATTTGTC
40231993 TAATGTGATG
Statistics
Matches: 290, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
301 290 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (301 bp):
CCATATCTAGGTCATTGGGTGTGCACCCTGAGAAGATAGTGAGTAGGGTATCTGTACTAAGTCCC
TTGGGTCACTCGATTAAGGTAGACAAACTGTATAGGAATGTACCCTTAGAAACTCAAGGCAAGGT
TTTTCCTGGAGATCTGATGGAGTTATCGTTCGGAGAGTTTGACCTCATTTTGGGAATGGATTGGC
TTATTAAGCATAGGGCGACTTTGGATTGTGCTGCAAAATGAATGGTGTTAAGGACCACGGAGGGT
GAGGAGGTTATGATGATAGGCGAGCGAAGGGATTATTTGTC
Found at i:40235317 original size:22 final size:22
Alignment explanation
Indices: 40235278--40235319 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
40235268 ATCACTCTTC
* *
40235278 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
40235300 CTCTCCATTTGTTATTCTTT
1 CTCTCCATTTATTATTCTTT
40235320 CTTTTTCTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:40236581 original size:27 final size:27
Alignment explanation
Indices: 40236542--40236652 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
40236532 GGAAGCGTCA
* *
40236542 TGGTGGCTATGCCACAATTATTTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
*
40236569 TGGTGGCTCTGCCACATATT-TCTGTTC
1 TGGTGGCTCTGCCACA-ATTATCTGATC
*
40236596 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
* * *
40236624 TGGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGATC
40236650 TGG
1 TGG
40236653 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:40236647 original size:54 final size:54
Alignment explanation
Indices: 40236542--40236652 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
40236532 GGAAGCGTCA
* * *
40236542 TGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATTTCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
* * *
40236596 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTC
40236650 TGG
1 TGG
40236653 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
Found at i:40239751 original size:46 final size:46
Alignment explanation
Indices: 40239684--40239771 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
40239674 GAGTGAGCAC
* * * *
40239684 CATTGAGATAGATTTGGCTATGTATTGGCACTTCGTGTGTGAAATT
1 CATTGAGATAGATTCGACTATGTATTGGCACTTAGGGTGTGAAATT
*
40239730 CATTGAGATAGCTTCGACTATGTATTGGCACTTAGGGTGTGA
1 CATTGAGATAGATTCGACTATGTATTGGCACTTAGGGTGTGA
40239772 GTTTTCGAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (46 bp):
CATTGAGATAGATTCGACTATGTATTGGCACTTAGGGTGTGAAATT
Found at i:40243286 original size:26 final size:26
Alignment explanation
Indices: 40243248--40243303 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
40243238 TTGCTTCTAT
* *
40243248 GGTTAGATGTTTGATTAGGTGTAAGA
1 GGTTAAATATTTGATTAGGTGTAAGA
*
40243274 GGTTAAATATTTGTTTAGGTGTAAGA
1 GGTTAAATATTTGATTAGGTGTAAGA
40243300 GGTT
1 GGTT
40243304 TCGAGATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (26 bp):
GGTTAAATATTTGATTAGGTGTAAGA
Found at i:40245814 original size:27 final size:27
Alignment explanation
Indices: 40245784--40245836 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
40245774 GACCCCCGAC
*
40245784 TTGTAAAATTACTAAAATACCCCTATT
1 TTGTAAAATTACCAAAATACCCCTATT
*
40245811 TTGTAAAATTACCGAAATACCCCTAT
1 TTGTAAAATTACCAAAATACCCCTAT
40245837 AAGGTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTATT
Found at i:40245843 original size:27 final size:27
Alignment explanation
Indices: 40245786--40245846 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
40245776 CCCCCGACTT
* ***
40245786 GTAAAATTACTAAAATACCCCTATTTT
1 GTAAAATTACCAAAATACCCCTATAAG
*
40245813 GTAAAATTACCGAAATACCCCTATAAG
1 GTAAAATTACCAAAATACCCCTATAAG
40245840 GTAAAAT
1 GTAAAAT
40245847 GACTGTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTATAAG
Found at i:40246725 original size:27 final size:27
Alignment explanation
Indices: 40246666--40246725 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
40246656 GTTTGGGCTA
* * *
40246666 GGCCCAATTGATTCTGTTATGGGCTGT
1 GGCCCAAATGATACTGTAATGGGCTGT
* *
40246693 GACCCAAATGATACTGTAATGGGCTTT
1 GGCCCAAATGATACTGTAATGGGCTGT
40246720 GGCCCA
1 GGCCCA
40246726 GTATGCTCTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (27 bp):
GGCCCAAATGATACTGTAATGGGCTGT
Found at i:40252629 original size:27 final size:27
Alignment explanation
Indices: 40252599--40252711 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
40252589 TATAGGGTAG
*
40252599 AATTACCAAAATACCCCTAGTTTATAA
1 AATTACCAAAATACCCCTAATTTATAA
* * * *
40252626 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTATAA
* *
40252653 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTATAA
*
40252680 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTATAA
40252707 AATTA
1 AATTA
40252712 TAGAAATACC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.04
27 67 0.91
28 4 0.05
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTATAA
Found at i:40252638 original size:54 final size:54
Alignment explanation
Indices: 40252571--40252698 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
40252561 CTCGATTGTG
* *
40252571 AAATTACTAAAATACCCCTA-TAGGGT-AGAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACCAAAATACCCCTAGT-GGGTGA-AATTACCAAAATACCCTC-AATTTATA
* ** * *
40252625 AAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAATACCCTCAATTTATA
40252679 AAATTACCAAAATACCCCTA
1 AAATTACCAAAATACCCCTA
40252699 ATTTACAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
54 60 0.95
55 3 0.05
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAATACCCTCAATTTATA
Found at i:40252710 original size:54 final size:55
Alignment explanation
Indices: 40252599--40252779 Score: 154
Period size: 54 Copynumber: 3.3 Consensus size: 55
40252589 TATAGGGTAG
* * * ***
40252599 AATTACCAAAATACCC-CTAGTTTATAAAATTACCAAAATACCACTAGTTTGTGA
1 AATTACCGAAATACCCTCTAATTTATAAAATTACCAAAATACCACTAATTTACAA
* *
40252653 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTCTAATTTATAAAATTACCAAAATACCACTAATTTACAA
** * * * * **
40252707 AATTATAGAAATACCCT-TGACTTTCTAAAATTTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTCT-AATTTATAAAA-TTACCA-AAATACCACTAATTTACAA
*
40252763 AATTACTGAAATACCCT
1 AATTACCGAAATACCCT
40252780 TGGTTGGTAG
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
54 59 0.57
55 11 0.11
56 33 0.32
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.31
Consensus pattern (55 bp):
AATTACCGAAATACCCTCTAATTTATAAAATTACCAAAATACCACTAATTTACAA
Found at i:40252718 original size:27 final size:27
Alignment explanation
Indices: 40252660--40252780 Score: 95
Period size: 27 Copynumber: 4.4 Consensus size: 27
40252650 TGAAATTACC
* ** *
40252660 GAAATACCCTCAATTTGTAAAATTACCA
1 GAAATACCCTTAATTTACAAAATTA-TA
*
40252688 -AAATACCCCTAATTTACAAAATTATA
1 GAAATACCCTTAATTTACAAAATTATA
*
40252714 GAAATACCCTTGACTTT-CTAAAATTTATA
1 GAAATACCCTT-AATTTAC-AAAA-TTATA
* **
40252743 GAAATACCATTGGTTTACAAAATTACT-
1 GAAATACCCTTAATTTACAAAATTA-TA
40252770 GAAATACCCTT
1 GAAATACCCTT
40252781 GGTTGGTAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.01
27 43 0.57
28 16 0.21
29 16 0.21
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (27 bp):
GAAATACCCTTAATTTACAAAATTATA
Found at i:40252782 original size:27 final size:27
Alignment explanation
Indices: 40252700--40252784 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
40252690 ATACCCCTAA
*
40252700 TTTACAAAATTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCCTTG-G
*
40252728 TTT-CTAAAATTTATAGAAATACCATTGG
1 TTTAC-AAAA-TTATAGAAATACCCTTGG
40252756 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCCTTGG
40252783 TT
1 TT
40252785 GGTAGATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
27 18 0.36
28 15 0.30
29 17 0.34
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:40252903 original size:27 final size:27
Alignment explanation
Indices: 40252839--40252903 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
40252829 ACCCCTAATA
*
40252839 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * * *
40252866 GGCAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
40252893 GGTAAAATGAC
1 GGTAAAATGAC
40252904 GAATATGCCC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:40253734 original size:25 final size:25
Alignment explanation
Indices: 40253696--40253765 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
40253686 AGGAAGTGCT
* *
40253696 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
40253721 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
40253746 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
40253766 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:40253778 original size:24 final size:24
Alignment explanation
Indices: 40253695--40253790 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
40253685 GAGGAAGTGC
*
40253695 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
40253720 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
40253744 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
40253768 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
40253791 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:40253789 original size:50 final size:50
Alignment explanation
Indices: 40253696--40253790 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
40253686 AGGAAGTGCT
**
40253696 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
40253746 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
40253791 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:40260686 original size:37 final size:37
Alignment explanation
Indices: 40260628--40260735 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
40260618 TAGCTCGAAT
* *
40260628 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
40260665 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
40260702 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
40260736 ATATATTTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:40260928 original size:48 final size:48
Alignment explanation
Indices: 40260868--40261182 Score: 513
Period size: 48 Copynumber: 6.6 Consensus size: 48
40260858 CGGCCACAAT
*
40260868 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
40260916 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
40260964 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * ** *
40261012 ATATATATACCTCATACATATTTCATGTTAGCCATCCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
40261060 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * * * *
40261108 ACATATATATATCATACATATTTCACACTAGCCATTCGACTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
40261156 ATATACATATCTCATACATATTTCACA
1 ATATACATATCTCATACATATTTCACA
40261183 GTACATCAAT
Statistics
Matches: 248, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 248 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:40263721 original size:19 final size:19
Alignment explanation
Indices: 40263697--40263735 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
40263687 TATTGCAATT
* *
40263697 TAATTTTTTATTTCTTTTC
1 TAATTTTTCATTTATTTTC
40263716 TAATTTTTCATTTATTTTC
1 TAATTTTTCATTTATTTTC
40263735 T
1 T
40263736 TCTAACAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (19 bp):
TAATTTTTCATTTATTTTC
Found at i:40272593 original size:47 final size:47
Alignment explanation
Indices: 40272534--40272690 Score: 135
Period size: 47 Copynumber: 3.4 Consensus size: 47
40272524 TGAACCCGTG
40272534 CTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGA
1 CTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGA
* * ** * * * *
40272581 CTTAACTCAACGAGCTCAGG-TG--T-GCGA-ACCCTTAAGTGAACTCAGA
1 CTCAACTCAACGAGTTC-GGATGCCTAGTTACA-TC-TCA-CGAACTCGGA
* * *
40272627 CTCAAATCAATGAGTTTGGATGCCTAGTTACATCTCACGAACTCGGA
1 CTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGA
*
40272674 CTCAATTCAACGAGTTC
1 CTCAACTCAACGAGTTC
40272691 AGAACTTAAA
Statistics
Matches: 79, Mismatches: 22, Indels: 18
0.66 0.18 0.15
Matches are distributed among these distances:
43 1 0.01
44 3 0.04
45 5 0.06
46 22 0.28
47 39 0.49
48 5 0.06
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (47 bp):
CTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGA
Found at i:40272648 original size:93 final size:93
Alignment explanation
Indices: 40272480--40272692 Score: 275
Period size: 93 Copynumber: 2.3 Consensus size: 93
40272470 CCTATAAGCA
* * * * * * * *
40272480 AACTGGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGTGCTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGGCGTGCGAACCCATAAGTGAACCAGTACTCAAATCAAC
40272545 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* * *
40272573 AACTCGGACTTAACTCAACGAGCTCAGGTGTGCGAACCCTTAAGTGAACTCAG-ACTCAAATCAA
1 AACTCGGACTCAACTCAACGAGCTCAGGCGTGCGAACCCATAAGTGAAC-CAGTACTCAAATCAA
* *
40272637 TGAGTTTGGATGCCTAGTTACATCTCACG
65 CGAGTTCGGATGCCTAGTTACATCTCACG
* *
40272666 AACTCGGACTCAATTCAACGAGTTCAG
1 AACTCGGACTCAACTCAACGAGCTCAG
40272693 AACTTAAATA
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 101 0.98
94 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGGCGTGCGAACCCATAAGTGAACCAGTACTCAAATCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:40279066 original size:47 final size:47
Alignment explanation
Indices: 40278997--40279233 Score: 279
Period size: 47 Copynumber: 5.1 Consensus size: 47
40278987 CCGCCCATAA
40278997 GGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTC
1 GGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTC
40279044 GGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTC
1 GGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTC
* * * *
40279091 GGATGCCTAGTTACATCTCACGAAATCGGACTCAACTCAACGAGCTC
1 GGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTC
* ** *
40279138 AGATG--T-G-CGCATC-CATAAGTGAACTC-AGACTCAACTCAATGAGTTC
1 GGATGCCTAGTTACATCTC--AA--GAACTCGA-ACTCAACTCAACGAGTTC
* * * *
40279184 GGATGCCTAGTTACATCTCACGAACTCGGACTCAACTGAACGAGTAC
1 GGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTC
40279231 GGA
1 GGA
40279234 ACTTAAATAT
Statistics
Matches: 159, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 2 0.01
45 1 0.01
46 25 0.16
47 118 0.74
48 1 0.01
49 2 0.01
50 4 0.03
51 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (47 bp):
GGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTC
Found at i:40279195 original size:93 final size:93
Alignment explanation
Indices: 40278997--40279227 Score: 292
Period size: 93 Copynumber: 2.5 Consensus size: 93
40278987 CCGCCCATAA
* * * * *
40278997 GGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACATCT
1 GGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGCTCAGATG-CTAGTCACATCT
40279062 CAAGAACTCGAACTCAACTCAACGAGTTC
65 CAAGAACTCGAACTCAACTCAACGAGTTC
* *
40279091 GGATGCCTAGTTACATCTCACGAAATCGGACTCAACTCAACGAGCTCAGATG-T-G-CGCATC-C
1 GGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGCTCAGATGCTAGTCACATCTC
*
40279152 ATAAGTGAACTC-AGACTCAACTCAATGAGTTC
66 --AA--GAACTCGA-ACTCAACTCAACGAGTTC
*
40279184 GGATGCCTAGTTACATCTCACGAACTCGGACTCAACTGAACGAG
1 GGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAG
40279228 TACGGAACTT
Statistics
Matches: 122, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
89 1 0.01
90 4 0.03
91 3 0.02
92 2 0.02
93 65 0.53
94 47 0.39
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
GGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGCTCAGATGCTAGTCACATCTC
AAGAACTCGAACTCAACTCAACGAGTTC
Found at i:40287093 original size:25 final size:24
Alignment explanation
Indices: 40287053--40287108 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
40287043 CTAGTTTCTC
40287053 TTAATTTTTAATTTTATTCAATTA
1 TTAATTTTTAATTTTATTCAATTA
*
40287077 GTTAATTTTTCAA-TTTATTGAATTA
1 -TTAATTTTT-AATTTTATTCAATTA
40287102 TTAATTT
1 TTAATTT
40287109 CAATAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.24
25 20 0.69
26 2 0.07
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (24 bp):
TTAATTTTTAATTTTATTCAATTA
Done.