Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3811333
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 18
Found at i:2773549 original size:15 final size:15
Alignment explanation
Indices: 2773520--2773558 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
2773510 CAATTTGATC
2773520 TTTATTTTTTAAATATT
1 TTTA-TTTTTAAATA-T
2773537 TTTATTTTT-AATAT
1 TTTATTTTTAAATAT
2773551 TTTATTTT
1 TTTATTTT
2773559 CAGTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 5 0.23
17 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTTAAATAT
Found at i:2774339 original size:2 final size:2
Alignment explanation
Indices: 2774332--2774374 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2774322 TTACTTCCTT
2774332 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2774374 T
1 T
2774375 TTAACATTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2774982 original size:7 final size:7
Alignment explanation
Indices: 2774970--2774994 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2774960 TTGAGAGATG
2774970 AATTTTA
1 AATTTTA
2774977 AATTTTA
1 AATTTTA
2774984 AATTTTA
1 AATTTTA
2774991 AATT
1 AATT
2774995 CAACAATACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:2781056 original size:23 final size:23
Alignment explanation
Indices: 2781030--2781078 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
2781020 ATAAAGAACC
2781030 AAAATAAACT-TAAATATACCATT
1 AAAATAAACTCTAAATAT-CCATT
*
2781053 AAAATAAAGTCTAAATATCCATT
1 AAAATAAACTCTAAATATCCATT
2781076 AAA
1 AAA
2781079 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAAACTCTAAATATCCATT
Found at i:2784228 original size:13 final size:13
Alignment explanation
Indices: 2784210--2784235 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2784200 AATTCCTTGT
2784210 TAAAGAATATACC
1 TAAAGAATATACC
2784223 TAAAGAATATACC
1 TAAAGAATATACC
2784236 GAAGAACAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
TAAAGAATATACC
Found at i:2784772 original size:2 final size:2
Alignment explanation
Indices: 2784765--2784797 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2784755 TAAAATTAAC
2784765 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2784798 GCATTTCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2800991 original size:20 final size:19
Alignment explanation
Indices: 2800952--2800991 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2800942 ATTATTAAAA
*
2800952 TTTAAATTTTATATATTAT
1 TTTAAATTTTATAAATTAT
2800971 TTTAAATTTTATAAAATTAT
1 TTTAAATTTTAT-AAATTAT
2800991 T
1 T
2800992 ATACTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAAATTTTATAAATTAT
Found at i:2802288 original size:19 final size:20
Alignment explanation
Indices: 2802252--2802298 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
2802242 TACTTTACCC
2802252 TTATTAAAAATATAAAAT-A
1 TTATTAAAAATATAAAATAA
2802271 TTATTAAAAAT-TATAAATAA
1 TTATTAAAAATATA-AAATAA
2802291 TT-TTAAAA
1 TTATTAAAA
2802299 GTGTATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.08
19 21 0.81
20 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTATTAAAAATATAAAATAA
Found at i:2803414 original size:168 final size:170
Alignment explanation
Indices: 2803136--2803476 Score: 659
Period size: 168 Copynumber: 2.0 Consensus size: 170
2803126 GTCCTGAGTG
2803136 CTAGAATTTCTTAAAAGCTCCTACTTTGTTTGGGTTTTTGAGCTTTTCTTACTTCATACTCAGCA
1 CTAGAATTTCTTAAAAGCTCCTACTTTGTTTGGGTTTTTGAGCTTTTCTTACTTCATACTCAGCA
2803201 TCTTTCTGTTTTTAGCTTGCTGAAGAGTTTACTTTTAGTAATGGGTTTTAAGATTCAACCGCTAG
66 TCTTTCTGTTTTTAGCTTGCTGAAGAGTTTACTTTTAGTAATGGGTTTTAAGATTCAACCGCTAG
2803266 TG-TCTGGGTTTCCACTGAAGCTTC-TGAAGGTAATTAAA
131 TGATCTGGGTTTCCACTGAAGCTTCTTGAAGGTAATTAAA
2803304 CTAGAATTTCTTAAAAGCTCCTACTTTGTTTGGGTTTTTGAGCTTTTCTTACTTCATACTCAGCA
1 CTAGAATTTCTTAAAAGCTCCTACTTTGTTTGGGTTTTTGAGCTTTTCTTACTTCATACTCAGCA
2803369 TCTTTCTGTTTTTAGCTTGCTGAAGAGTTTACTTTTAGTAATGGGTTTTAAGATTCAACCGCTAG
66 TCTTTCTGTTTTTAGCTTGCTGAAGAGTTTACTTTTAGTAATGGGTTTTAAGATTCAACCGCTAG
2803434 TGTATCTGGGTTTCCACTGAAGCTTCTTGAAGGTAATTAAA
131 TG-ATCTGGGTTTCCACTGAAGCTTCTTGAAGGTAATTAAA
2803475 CT
1 CT
2803477 CTATTCATTT
Statistics
Matches: 170, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
168 132 0.78
170 22 0.13
171 16 0.09
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.43
Consensus pattern (170 bp):
CTAGAATTTCTTAAAAGCTCCTACTTTGTTTGGGTTTTTGAGCTTTTCTTACTTCATACTCAGCA
TCTTTCTGTTTTTAGCTTGCTGAAGAGTTTACTTTTAGTAATGGGTTTTAAGATTCAACCGCTAG
TGATCTGGGTTTCCACTGAAGCTTCTTGAAGGTAATTAAA
Found at i:2807936 original size:12 final size:12
Alignment explanation
Indices: 2807919--2807944 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2807909 ATGAAAGAGC
2807919 GACGAGAAGTTT
1 GACGAGAAGTTT
2807931 GACGAGAAGTTT
1 GACGAGAAGTTT
2807943 GA
1 GA
2807945 ATACCCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.23
Consensus pattern (12 bp):
GACGAGAAGTTT
Found at i:2812069 original size:22 final size:20
Alignment explanation
Indices: 2812017--2812068 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
2812007 ATATCAAAAG
2812017 TAATAA-TAAAATAAAATAA
1 TAATAATTAAAATAAAATAA
2812036 TAATAATTAAAATTAAAAGTAA
1 TAATAATTAAAA-TAAAA-TAA
2812058 TAAT-ATTAAAA
1 TAATAATTAAAA
2812069 ACTAATGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.20
20 5 0.17
21 12 0.40
22 7 0.23
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
TAATAATTAAAATAAAATAA
Found at i:2813392 original size:3 final size:3
Alignment explanation
Indices: 2813384--2813445 Score: 63
Period size: 3 Copynumber: 19.7 Consensus size: 3
2813374 TGTAATATTT
* *
2813384 ATA ATA ATA ATA TATA TATA A-A TATAA ATA ATA ATA ATA ATA TTT ATA
1 ATA ATA ATA ATA -ATA -ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA
2813432 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
2813446 TTAAGTAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 1 0.02
3 40 0.78
4 9 0.18
5 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:2813396 original size:15 final size:15
Alignment explanation
Indices: 2813376--2813440 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
2813366 TTTGGGTTTG
2813376 TAATATTTATAATAA
1 TAATATTTATAATAA
2813391 TAATATATATATAA-ATA
1 TAATAT-T-TATAATA-A
*
2813408 TAA-A-TAATAATAA
1 TAATATTTATAATAA
2813421 TAATATTTATAATAA
1 TAATATTTATAATAA
2813436 TAATA
1 TAATA
2813441 ATAATTTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
13 8 0.19
14 3 0.07
15 19 0.45
16 3 0.07
17 9 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATATTTATAATAA
Found at i:2813402 original size:21 final size:20
Alignment explanation
Indices: 2813378--2813448 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 20
2813368 TGGGTTTGTA
2813378 ATATTTATAATAATAATATAT
1 ATATTTATAATAATAATA-AT
*
2813399 ATATAAATATAAATAATAATAAT
1 ATAT--TTAT-AATAATAATAAT
2813422 AATATTTATAATAATAATAAT
1 -ATATTTATAATAATAATAAT
2813443 A-ATTTA
1 ATATTTA
2813449 AGTAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 5 0.11
20 1 0.02
21 16 0.36
22 3 0.07
23 5 0.11
24 14 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATTTATAATAATAATAAT
Found at i:2813702 original size:76 final size:76
Alignment explanation
Indices: 2813603--2814365 Score: 1366
Period size: 76 Copynumber: 10.0 Consensus size: 76
2813593 GGTCTTATGA
* *
2813603 ATGACCCTGAGGGTTTGAAAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
2813668 AGGACTTACAG
66 AGGACTTACAG
* *
2813679 ATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
2813744 AGGACTTACAG
66 AGGACTTACAG
* *
2813755 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCATTGT
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
2813820 AGGACTTACAG
66 AGGACTTACAG
2813831 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
2813896 AGGACTTACAG
66 AGGACTTACAG
* * *
2813907 ATGACCTTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGA
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
*
2813972 AGGGCTTACAG
66 AGGACTTACAG
* *
2813983 ATGACCC-GAAGGTTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCCTG-AGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
*
2814047 AAGGACTTACAG
65 TAGGACTTACAG
* * *
2814059 ATGATCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
2814124 AGGACTTACAG
66 AGGACTTACAG
2814135 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
2814200 AGGACTTACAG
66 AGGACTTACAG
2814211 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
2814276 AGGACTTACAG
66 AGGACTTACAG
2814287 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
1 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
2814352 AGGACTTACAG
66 AGGACTTACAG
2814363 ATG
1 ATG
2814366 TGGGAAATAG
Statistics
Matches: 659, Mismatches: 26, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
75 1 0.00
76 658 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (76 bp):
ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
AGGACTTACAG
Found at i:2814640 original size:165 final size:165
Alignment explanation
Indices: 2814368--2814691 Score: 526
Period size: 165 Copynumber: 2.0 Consensus size: 165
2814358 TACAGATGTG
* * *
2814368 GGAAATAGTTTACTAAGTAAGAAACTATGGAAATCGTTTTCTTACTATTCAACAATTTCATTTTC
1 GGAAATAGTTTACTAAGTAAAAAACTAAGGAAATCATTTTCTTACTATTCAACAATTTCATTTTC
**
2814433 AGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATT-TTTCAAAATAACATGTTGA
66 AGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTATTT-AAAATAACATGTTGA
*
2814497 TTGGGTAACATGCCCCAATCTTAAGATAATACTGTT
130 TTGGGTAACATGCCCCAATCTCAAGATAATACTGTT
*
2814533 GGAAATAGTTTACTAAGTAAAAAAACTAAGGAAATCATTTTCTTACTTTTCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGT-AAAAAACTAAGGAAATCATTTTCTTACTATTCAACAATTTCATTTT
*
2814598 -AGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTATTTGAAATAACATGTTGA
65 CAGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTATTTAAAATAACATGTTGA
* *
2814662 TTGGGTAATATGCCCTAATCTCAAGATAAT
130 TTGGGTAACATGCCCCAATCTCAAGATAAT
2814692 TTTCATTCTT
Statistics
Matches: 147, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
165 102 0.69
166 45 0.31
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (165 bp):
GGAAATAGTTTACTAAGTAAAAAACTAAGGAAATCATTTTCTTACTATTCAACAATTTCATTTTC
AGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTATTTAAAATAACATGTTGAT
TGGGTAACATGCCCCAATCTCAAGATAATACTGTT
Found at i:2815231 original size:22 final size:22
Alignment explanation
Indices: 2815200--2815260 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
2815190 AAATCCCATA
*
2815200 AATCTTTCATCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
*
2815222 AATCTATCATCTTTAAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
2815244 AATCTATCATCTTTGAA
1 AATCTATCATCTTTGAA
2815261 GAGTGTAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (22 bp):
AATCTATCATCTTTGAAAAGAG
Found at i:2815697 original size:54 final size:54
Alignment explanation
Indices: 2815610--2815771 Score: 252
Period size: 54 Copynumber: 3.0 Consensus size: 54
2815600 AGAATAGCAG
* *** **
2815610 GTTCATAAAATATTTGACAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAATATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
2815664 GTTCGTAAAATATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAATATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
* *
2815718 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTAAGAT
1 GTTCGTAAAATATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
2815772 TTCTTAATCA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (54 bp):
GTTCGTAAAATATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
Found at i:2822088 original size:21 final size:21
Alignment explanation
Indices: 2822049--2822088 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2822039 TGCAACATGA
*
2822049 AAAATGCAAAGATGCAAAATG
1 AAAATGCAAAGATGAAAAATG
* *
2822070 AAAATGCATATATGAAAAA
1 AAAATGCAAAGATGAAAAA
2822089 GGTGTTACTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.15, T:0.17
Consensus pattern (21 bp):
AAAATGCAAAGATGAAAAATG
Found at i:2822215 original size:43 final size:44
Alignment explanation
Indices: 2822153--2822235 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
2822143 CCGTGTATTA
* *
2822153 AACAAAACTTTTACATATAGGGGACAACTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATATAGGGAACAACTTTCACTCCTAACTTC
*
2822197 AACAAAAC-TTTACATATAGGGAATAACTTTCACTCCTAA
1 AACAAAACTTTTACATATAGGGAACAACTTTCACTCCTAA
2822236 TTTCTCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 28 0.78
44 8 0.22
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGAACAACTTTCACTCCTAACTTC
Found at i:2824528 original size:20 final size:20
Alignment explanation
Indices: 2824477--2824528 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
2824467 ATATAAAAAT
*
2824477 AATAAATAATAAAAAATTGA
1 AATAAATAATTAAAAATTGA
*
2824497 AAGAAAATAATTAAAAATT-A
1 AA-TAAATAATTAAAAATTGA
2824517 AATAAATGAATT
1 AATAAAT-AATT
2824529 TTTAATTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.15
20 9 0.33
21 14 0.52
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (20 bp):
AATAAATAATTAAAAATTGA
Found at i:2825478 original size:22 final size:20
Alignment explanation
Indices: 2825426--2825477 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
2825416 ATATCAAAAG
2825426 TAATAA-TAAAATAAAATAA
1 TAATAATTAAAATAAAATAA
2825445 TAATAATTAAAATTAAAAGTAA
1 TAATAATTAAAA-TAAAA-TAA
2825467 TAAT-ATTAAAA
1 TAATAATTAAAA
2825478 ACTAATGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.20
20 5 0.17
21 12 0.40
22 7 0.23
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
TAATAATTAAAATAAAATAA
Found at i:2826782 original size:3 final size:3
Alignment explanation
Indices: 2826774--2826835 Score: 63
Period size: 3 Copynumber: 19.7 Consensus size: 3
2826764 TGTAATATTT
* *
2826774 ATA ATA ATA ATA TATA TATA A-A TATAA ATA ATA ATA ATA ATA TTT ATA
1 ATA ATA ATA ATA -ATA -ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA
2826822 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
2826836 TTAAGTAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 1 0.02
3 40 0.78
4 9 0.18
5 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:2826786 original size:15 final size:15
Alignment explanation
Indices: 2826766--2826830 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
2826756 TTTGGGTTTG
2826766 TAATATTTATAATAA
1 TAATATTTATAATAA
2826781 TAATATATATATAA-ATA
1 TAATAT-T-TATAATA-A
*
2826798 TAA-A-TAATAATAA
1 TAATATTTATAATAA
2826811 TAATATTTATAATAA
1 TAATATTTATAATAA
2826826 TAATA
1 TAATA
2826831 ATAATTTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
13 8 0.19
14 3 0.07
15 19 0.45
16 3 0.07
17 9 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATATTTATAATAA
Found at i:2826792 original size:21 final size:20
Alignment explanation
Indices: 2826768--2826838 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 20
2826758 TGGGTTTGTA
2826768 ATATTTATAATAATAATATAT
1 ATATTTATAATAATAATA-AT
*
2826789 ATATAAATATAAATAATAATAAT
1 ATAT--TTAT-AATAATAATAAT
2826812 AATATTTATAATAATAATAAT
1 -ATATTTATAATAATAATAAT
2826833 A-ATTTA
1 ATATTTA
2826839 AGTAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 5 0.11
20 1 0.02
21 16 0.36
22 3 0.07
23 5 0.11
24 14 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATTTATAATAATAATAAT
Found at i:2827097 original size:82 final size:82
Alignment explanation
Indices: 2826960--2827115 Score: 294
Period size: 82 Copynumber: 1.9 Consensus size: 82
2826950 ACCTAGCACG
*
2826960 ATCCTTCTCATCCAAAACCTACATCCAATGAACTCTAATCAAATTTCATAATCTTTCTTAGTCTA
1 ATCCTTCTCATCCAAAACCTACATCCAATAAACTCTAATCAAATTTCATAATCTTTCTTAGTCTA
2827025 TTGACAATGCTAATACA
66 TTGACAATGCTAATACA
2827042 ATCCTTCTCATCCAAAACCTACATCCAATAAACTCTAATCAAATTTCATAATCTTTCTTAGTCTA
1 ATCCTTCTCATCCAAAACCTACATCCAATAAACTCTAATCAAATTTCATAATCTTTCTTAGTCTA
*
2827107 TTGTCAATG
66 TTGACAATG
2827116 TTATAATACA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (82 bp):
ATCCTTCTCATCCAAAACCTACATCCAATAAACTCTAATCAAATTTCATAATCTTTCTTAGTCTA
TTGACAATGCTAATACA
Found at i:2837653 original size:24 final size:24
Alignment explanation
Indices: 2837617--2837691 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
2837607 GGGACCTGCT
*
2837617 AAAGAAGAAAAGAAAGATGACAAA-
1 AAAGACGAAAAGAAAGATGA-AAAG
*
2837641 AAAGACGACAAGAAAGATGAAAAG
1 AAAGACGAAAAGAAAGATGAAAAG
* *
2837665 AAAAACGAAAAGAAGGATGAAAAG
1 AAAGACGAAAAGAAAGATGAAAAG
2837689 AAA
1 AAA
2837692 TGATCGTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.68, C:0.05, G:0.23, T:0.04
Consensus pattern (24 bp):
AAAGACGAAAAGAAAGATGAAAAG
Found at i:2837665 original size:12 final size:12
Alignment explanation
Indices: 2837617--2837691 Score: 80
Period size: 12 Copynumber: 6.2 Consensus size: 12
2837607 GGGACCTGCT
*
2837617 AAAGAAGAAAAG
1 AAAGATGAAAAG
2837629 AAAGATGACAAA-
1 AAAGATGA-AAAG
* *
2837641 AAAGACGACAAG
1 AAAGATGAAAAG
2837653 AAAGATGAAAAG
1 AAAGATGAAAAG
* *
2837665 AAAAACGAAAAG
1 AAAGATGAAAAG
*
2837677 AAGGATGAAAAG
1 AAAGATGAAAAG
2837689 AAA
1 AAA
2837692 TGATCGTTTG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
11 2 0.04
12 45 0.90
13 3 0.06
ACGTcount: A:0.68, C:0.05, G:0.23, T:0.04
Consensus pattern (12 bp):
AAAGATGAAAAG
Found at i:2863953 original size:58 final size:59
Alignment explanation
Indices: 2863885--2864055 Score: 179
Period size: 60 Copynumber: 2.9 Consensus size: 59
2863875 ACTATAATTA
*
2863885 TCATTTTAAATTAATCCTTAAAACTTTTGAATATTCTAATTT-ATCCCCAAATTATGA-C
1 TCATTCTAAATTAATCCTT-AAACTTTTGAATATTCTAATTTCATCCCCAAATTATGACC
* * * * * *
2863943 TCATTCTAAATTAGTACTTAAACTTTTGAACAATCTAATTTCATCCCTAAACTATGACCC
1 TCATTCTAAATTAATCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAATTATGA-CC
** * *
2864003 TC-TCTCTAAA-TAAGTCCCCAAACTTTTGAATATTCCAATTTCATCTCCAAATT
1 TCAT-TCTAAATTAA-TCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAATT
2864056 CATCCAAATA
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
57 20 0.22
58 29 0.32
59 3 0.03
60 39 0.43
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (59 bp):
TCATTCTAAATTAATCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAATTATGACC
Found at i:2863982 original size:57 final size:59
Alignment explanation
Indices: 2863885--2864000 Score: 155
Period size: 58 Copynumber: 2.0 Consensus size: 59
2863875 ACTATAATTA
* * * * *
2863885 TCATTTTAAATTAATCCTTAAAACTTTTGAATATTCTAATTT-ATCCCCAAATTATGAC
1 TCATTCTAAATTAATACTTAAAACTTTTGAACAATCTAATTTCATCCCCAAACTATGAC
* *
2863943 TCATTCTAAATTAGTACTT-AAACTTTTGAACAATCTAATTTCATCCCTAAACTATGAC
1 TCATTCTAAATTAATACTTAAAACTTTTGAACAATCTAATTTCATCCCCAAACTATGAC
2864001 CCTCTCTCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 20 0.40
58 30 0.60
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (59 bp):
TCATTCTAAATTAATACTTAAAACTTTTGAACAATCTAATTTCATCCCCAAACTATGAC
Found at i:2864278 original size:58 final size:58
Alignment explanation
Indices: 2864174--2864327 Score: 157
Period size: 58 Copynumber: 2.6 Consensus size: 58
2864164 GTATATATGT
* * * * * *
2864174 ATAGTTTGTGATGAAATTGGAATGTTCAAAAAGTTTGGGGACTAATTTAGAATGA-AGATC
1 ATAGTTTG-GGTGAAATTGAAATGTT-TAAAAGTTTGAGGACTAATTTAAAATGATA-ATA
*
2864234 ATAGTTTGGGTGAAATTGAAATGTTTAAAAGTTTGAGGATTAATTTAAAATGATAATA
1 ATAGTTTGGGTGAAATTGAAATGTTTAAAAGTTTGAGGACTAATTTAAAATGATAATA
* * * *
2864292 ATAATTTAGGGATCAAATTAAAATATTTAAAAGTTT
1 ATAGTTT-GGG-TGAAATTGAAATGTTTAAAAGTTT
2864328 AGGGACCATT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
58 32 0.40
59 19 0.24
60 29 0.36
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (58 bp):
ATAGTTTGGGTGAAATTGAAATGTTTAAAAGTTTGAGGACTAATTTAAAATGATAATA
Found at i:2864331 original size:29 final size:29
Alignment explanation
Indices: 2864246--2864332 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 29
2864236 AGTTTGGGTG
* * *
2864246 AAATTGAAATGTTTAAAAGTTT-GAGGATT
1 AAATTAAAATATTTAAAAGTTTAG-GGATC
* *
2864275 AATTTAAAATGATAATAATAA-TTTAGGGATC
1 AAATTAAAAT-AT-TTAA-AAGTTTAGGGATC
2864306 AAATTAAAATATTTAAAAGTTTAGGGA
1 AAATTAAAATATTTAAAAGTTTAGGGA
2864333 CCATTTCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
28 2 0.04
29 19 0.41
30 3 0.07
31 19 0.41
32 3 0.07
ACGTcount: A:0.47, C:0.01, G:0.16, T:0.36
Consensus pattern (29 bp):
AAATTAAAATATTTAAAAGTTTAGGGATC
Found at i:2865602 original size:28 final size:27
Alignment explanation
Indices: 2865563--2865616 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
2865553 GAGACGTAAC
*
2865563 ATCATCAAAAATATTAAAATCTATCAA
1 ATCATCAAAAATATCAAAATCTATCAA
2865590 ATCAGTCAAAAATATCAAAATCTATCA
1 ATCA-TCAAAAATATCAAAATCTATCA
2865617 TGTTTCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.28
Consensus pattern (27 bp):
ATCATCAAAAATATCAAAATCTATCAA
Found at i:2866967 original size:54 final size:54
Alignment explanation
Indices: 2866898--2867003 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
2866888 CCTCAGAACC
*
2866898 CAAGGAGATGAAGCAGCCTGTTAAACAGGACATGGAGGATCATGCAGCTGCATT
1 CAAGGAGATGAAGCAGCCTGTTAAACAAGACATGGAGGATCATGCAGCTGCATT
*
2866952 CAAGGAGATGGAGCAGCCTGTTAAACAAGACATGGAGGATCATGCAGCTGCA
1 CAAGGAGATGAAGCAGCCTGTTAAACAAGACATGGAGGATCATGCAGCTGCA
2867004 CCATATAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.17
Consensus pattern (54 bp):
CAAGGAGATGAAGCAGCCTGTTAAACAAGACATGGAGGATCATGCAGCTGCATT
Found at i:2873565 original size:20 final size:20
Alignment explanation
Indices: 2873527--2873564 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2873517 ATATAATAAA
2873527 TAATATCATTATTATAAAAC
1 TAATATCATTATTATAAAAC
*
2873547 TAATAT-ATTATTTTAAAA
1 TAATATCATTATTATAAAA
2873565 ATATTAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATATCATTATTATAAAAC
Found at i:2873977 original size:23 final size:24
Alignment explanation
Indices: 2873950--2874009 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
2873940 ATTGTAATTT
*
2873950 ATATATTATTAAAAAT-ATTAATA
1 ATATATTATTAAAAATGAATAATA
*
2873973 ATATATT-TTAAATATGAATAATA
1 ATATATTATTAAAAATGAATAATA
2873996 ATAGT-TTATTAAAA
1 ATA-TATTATTAAAA
2874010 TAATACTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 7 0.23
23 18 0.58
24 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (24 bp):
ATATATTATTAAAAATGAATAATA
Found at i:2873979 original size:20 final size:20
Alignment explanation
Indices: 2873956--2873995 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2873946 ATTTATATAT
*
2873956 TATTAAAAATATTAATAATA
1 TATTAAAAATATGAATAATA
**
2873976 TATTTTAAATATGAATAATA
1 TATTAAAAATATGAATAATA
2873996 ATAGTTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TATTAAAAATATGAATAATA
Found at i:2877443 original size:23 final size:23
Alignment explanation
Indices: 2877398--2877443 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2877388 AAAATAAGAG
* *
2877398 AAATAATAAAATTATTTTTCAGA
1 AAATAATAAAATAATTTTACAGA
2877421 AAATAAT-AAATAATTTTAACAGA
1 AAATAATAAAATAATTTT-ACAGA
2877444 TTTATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
AAATAATAAAATAATTTTACAGA
Found at i:2879846 original size:15 final size:15
Alignment explanation
Indices: 2879826--2879863 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2879816 CATTATATAA
2879826 TTTTTTAATATTTAT
1 TTTTTTAATATTTAT
2879841 TTTTTTAATATTTAT
1 TTTTTTAATATTTAT
*
2879856 TCTTTTAA
1 TTTTTTAA
2879864 CCTTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTAATATTTAT
Found at i:2883405 original size:15 final size:15
Alignment explanation
Indices: 2883385--2883422 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2883375 TTTAAATAGC
*
2883385 CCACATCGTCTAATA
1 CCACATCGTCCAATA
2883400 CCACATCGTCCAATA
1 CCACATCGTCCAATA
*
2883415 CCGCATCG
1 CCACATCG
2883423 AGCAATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.29, C:0.39, G:0.11, T:0.21
Consensus pattern (15 bp):
CCACATCGTCCAATA
Found at i:2884310 original size:14 final size:15
Alignment explanation
Indices: 2884266--2884310 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 15
2884256 TTCTGGCACA
*
2884266 AAAACAAACGCCACT
1 AAAACAAACACCACT
2884281 --AA-AAACACCACT
1 AAAACAAACACCACT
2884293 AAAACAAACACC-CT
1 AAAACAAACACCACT
2884307 AAAA
1 AAAA
2884311 GTTTGCGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
12 9 0.35
13 2 0.08
14 8 0.31
15 7 0.27
ACGTcount: A:0.60, C:0.31, G:0.02, T:0.07
Consensus pattern (15 bp):
AAAACAAACACCACT
Found at i:2888081 original size:30 final size:30
Alignment explanation
Indices: 2888022--2888110 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
2888012 CCCGAAGGAC
* *
2888022 CTATCCAGAGGTCACACAG-ACCCCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGTAA
*
2888051 CTATCCAGAGGTCATAAAGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGTAA
* * * *
2888081 CTGTCCATAGGTCCCAAAGAACCTAGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGTAA
2888111 ACTGTCCATA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 17 0.33
30 34 0.67
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGTAA
Found at i:2888117 original size:31 final size:31
Alignment explanation
Indices: 2888066--2888151 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
2888056 CAGAGGTCAT
*
2888066 AAAGAACCTCGGT-AACTGTCCATAGGTCCC
1 AAAGAACCTAGGTAAACTGTCCATAGGTCCC
* *
2888096 AAAGAACCTAGGTAAACTGTCCATATGTTCC
1 AAAGAACCTAGGTAAACTGTCCATAGGTCCC
** * *
2888127 TTAGAACATAGGTATACTGTCCATA
1 AAAGAACCTAGGTAAACTGTCCATA
2888152 TGTCTCGAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 12 0.25
31 36 0.75
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (31 bp):
AAAGAACCTAGGTAAACTGTCCATAGGTCCC
Found at i:2888152 original size:31 final size:30
Alignment explanation
Indices: 2888066--2888172 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 30
2888056 CAGAGGTCAT
* * *
2888066 AAAGAACCTCGGTAACTGTCCATAGGTCCC
1 AAAGAACATAGGTAACTGTCCATATGTCCC
* *
2888096 AAAGAACCTAGGTAAACTGTCCATATGTTCC
1 AAAGAACATAGGT-AACTGTCCATATGTCCC
** *
2888127 TTAGAACATAGGTATACTGTCCATATGTCTCG
1 AAAGAACATAGGTA-ACTGTCCATATGTC-CC
*
2888159 AAA-TACATAGGTAA
1 AAAGAACATAGGTAA
2888173 AACCCTCGAC
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
30 14 0.22
31 47 0.75
32 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (30 bp):
AAAGAACATAGGTAACTGTCCATATGTCCC
Found at i:2888968 original size:62 final size:61
Alignment explanation
Indices: 2888818--2888968 Score: 146
Period size: 62 Copynumber: 2.4 Consensus size: 61
2888808 CTCTTTCATG
* * *
2888818 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTTTATTTAA
1 AAGG-ATGCATCGATG--CTACTTATGCATCGATGCATAAAAGGCATTCGATGTTTTTATTTAA
* * * *
2888882 AAGGA-GCATCGATGCATTAGTTATGCATCGATGCATCAAAGGCA-TCGATGTTCTTTCTTTTTA
1 AAGGATGCATCGATGC--TACTTATGCATCGATGCATAAAAGGCATTCGATGTT-TTT-ATTTAA
2888945 AAGGAATGCATCGATGC-ACTTATG
1 AAGG-ATGCATCGATGCTACTTATG
2888969 AATGTGCATC
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
60 1 0.01
61 8 0.11
62 40 0.55
63 9 0.12
64 5 0.07
65 10 0.14
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (61 bp):
AAGGATGCATCGATGCTACTTATGCATCGATGCATAAAAGGCATTCGATGTTTTTATTTAA
Found at i:2892231 original size:31 final size:31
Alignment explanation
Indices: 2892193--2892287 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
2892183 GAACCTCGGC
* *
2892193 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
2892224 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
2892255 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
2892286 AA
1 AA
2892288 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 49 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:2892450 original size:17 final size:19
Alignment explanation
Indices: 2892418--2892453 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
2892408 CATATATCTC
2892418 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
2892437 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
2892454 CATGTAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:2892885 original size:60 final size:63
Alignment explanation
Indices: 2892803--2892918 Score: 159
Period size: 60 Copynumber: 1.9 Consensus size: 63
2892793 GCACTACTTG
* *
2892803 TGCATCGGTGCATAAAATGCATTCGATGTT-TTAT-TTAAAAGG-A-GCATCGATGCTTAGCTA
1 TGCATCGATGCATAAAAGGCATTCGATGTTCTT-TCTTAAAAGGAATGCATCGATGCTTAGCTA
* *
2892863 TGCATCGATGCATCAAAGGCATTCGATGTTCTTTCTTTAAAGGAATGCATCGATGC
1 TGCATCGATGCATAAAAGGCATTCGATGTTCTTTCTTAAAAGGAATGCATCGATGC
2892919 ACTATGAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
60 28 0.58
61 9 0.19
62 1 0.02
63 10 0.21
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (63 bp):
TGCATCGATGCATAAAAGGCATTCGATGTTCTTTCTTAAAAGGAATGCATCGATGCTTAGCTA
Found at i:2892924 original size:60 final size:58
Alignment explanation
Indices: 2892778--2892924 Score: 145
Period size: 60 Copynumber: 2.4 Consensus size: 58
2892768 TCTTTCAATG
* *
2892778 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTTATTTAA
1 AAGG-ATGCATCGATGCACTA----TGCATCGATGCATAAAAGGCATTCGATGTTTTATTTAA
* *
2892841 AAGGA-GCATCGATGCTTAGCTATGCATCGATGCATCAAAGGCATTCGATGTTCTT-TCTTTA
1 AAGGATGCATCGATGC--A-CTATGCATCGATGCATAAAAGGCATTCGATGTT-TTAT-TTAA
2892902 AAGGAATGCATCGATGCACTATG
1 AAGG-ATGCATCGATGCACTATG
2892925 AATGTGCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
60 33 0.45
61 20 0.27
62 2 0.03
63 15 0.21
64 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (58 bp):
AAGGATGCATCGATGCACTATGCATCGATGCATAAAAGGCATTCGATGTTTTATTTAA
Found at i:2894677 original size:30 final size:30
Alignment explanation
Indices: 2894641--2894773 Score: 221
Period size: 30 Copynumber: 4.4 Consensus size: 30
2894631 TTCGAAGGAC
2894641 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2894671 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2894701 CTATCCAGAGGTCATAAAGATCCTCCGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
2894731 CTATCCAGAGGTCATAAATATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
2894761 CTGTCCATAGGTC
1 CTATCCAGAGGTC
2894774 CCGAAGAACC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 97 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2894847 original size:31 final size:30
Alignment explanation
Indices: 2894756--2894851 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
2894746 AAATATCCTT
* * *
2894756 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
2894786 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
2894817 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
2894848 GGTA
1 GGTA
2894852 GTTCTTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:2896019 original size:64 final size:63
Alignment explanation
Indices: 2895930--2896051 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 63
2895920 CGATGCCCCG
* * *
2895930 TGCATCGATGCACAAATCACCTTCGATGTTTTCATTTTAAGGGGATGCATCGATGCACTCCTTA
1 TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGG-TGCATCGATGCACTCCTTA
* ** *
2895994 TGCATCGATGCACCAATTGCATTCGATGTTTCCATTTTAATAGGTGCATCGATGCACT
1 TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGGTGCATCGATGCACT
2896052 TCCTGTGTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 14 0.27
64 37 0.73
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (63 bp):
TGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAGGTGCATCGATGCACTCCTTA
Found at i:2901351 original size:41 final size:41
Alignment explanation
Indices: 2901275--2901352 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
2901265 CTAATGTACG
* * * *
2901275 CGTTTATTGCGGCATTTGTTATATAAATGCTACTATTTACT
1 CGTTTATTGCGGCATGTGTTATAAAAACGCCACTATTTACT
*
2901316 CGTTTATTGTGGCATGTG-TATGAAAAACGCCACTATT
1 CGTTTATTGCGGCATGTGTTAT-AAAAACGCCACTATT
2901353 GTACAAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.10
41 28 0.90
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (41 bp):
CGTTTATTGCGGCATGTGTTATAAAAACGCCACTATTTACT
Found at i:2901568 original size:82 final size:83
Alignment explanation
Indices: 2901421--2901584 Score: 206
Period size: 82 Copynumber: 2.0 Consensus size: 83
2901411 TACACAAATG
* ** *
2901421 CCACTATATATCGGGCTATCGTGGTGTTTTTTTACATAAAAGCCACTAAAGTACTCCTTTTTAGC
1 CCACTATATATCGGGCTATCGCGGTCATTTTTTACATAAAAGCCACTAAAGTACTCCTTTGTAGC
2901486 GGCATTTTCACAAAAACA
66 GGCATTTTCACAAAAACA
* * * *
2901504 CCACTATATATCTGGCTATCGCGG-CATTTTTTACTTAAACGCCACTAAAGTACGT-GTTTGTAG
1 CCACTATATATCGGGCTATCGCGGTCATTTTTTACATAAAAGCCACTAAAGTAC-TCCTTTGTAG
** *
2901567 CGGTGTTTTCTCAAAAAC
65 CGGCATTTTCACAAAAAC
2901585 GTCAATATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
82 46 0.67
83 23 0.33
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (83 bp):
CCACTATATATCGGGCTATCGCGGTCATTTTTTACATAAAAGCCACTAAAGTACTCCTTTGTAGC
GGCATTTTCACAAAAACA
Found at i:2901606 original size:82 final size:82
Alignment explanation
Indices: 2901448--2901606 Score: 187
Period size: 82 Copynumber: 1.9 Consensus size: 82
2901438 ATCGTGGTGT
* *
2901448 TTTTTTACATAAAAGCCACTAAAGTACTCCTTTTTAGCGGCATTTTCACAAAAACACCACTATAT
1 TTTTTTACATAAAAGCCACTAAAGTACTCCTTTGTAGCGGCATTTTCACAAAAACACCAATATAT
*
2901513 ATCTGGCTATCGCGGCA
66 ATCTGGATATCGCGGCA
* * * ** * **
2901530 TTTTTTACTTAAACGCCACTAAAGTACGT-GTTTGTAGCGGTGTTTTCTCAAAAACGTCAATATA
1 TTTTTTACATAAAAGCCACTAAAGTAC-TCCTTTGTAGCGGCATTTTCACAAAAACACCAATATA
2901594 TAT-TAGGATATCG
65 TATCT-GGATATCG
2901607 TGGCGTTTGT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
81 1 0.02
82 62 0.97
83 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (82 bp):
TTTTTTACATAAAAGCCACTAAAGTACTCCTTTGTAGCGGCATTTTCACAAAAACACCAATATAT
ATCTGGATATCGCGGCA
Found at i:2902843 original size:37 final size:37
Alignment explanation
Indices: 2902801--2902899 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
2902791 TCAAATAGCC
*
2902801 CACGTCTAATACCACATCGAGCAAATGCGAATAGGCT
1 CACGTCTAATACTACATCGAGCAAATGCGAATAGGCT
2902838 CACGTCTAATACTACATCGAGCAAATGCGAATAGGCT
1 CACGTCTAATACTACATCGAGCAAATGCGAATAGGCT
* *
2902875 CACGTATAATACTACATCGAACAAA
1 CACGTCTAATACTACATCGAGCAAA
2902900 CGCATTTGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.20
Consensus pattern (37 bp):
CACGTCTAATACTACATCGAGCAAATGCGAATAGGCT
Found at i:2903389 original size:15 final size:15
Alignment explanation
Indices: 2903354--2903392 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
2903344 TTCGGAATTA
2903354 AATTTTTTGAGTTCC
1 AATTTTTTGAGTTCC
2903369 AGATTTTTGTGAGTT-C
1 A-ATTTTT-TGAGTTCC
2903385 AATTTTTT
1 AATTTTTT
2903393 TTTGGCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 7 0.32
16 8 0.36
17 6 0.27
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (15 bp):
AATTTTTTGAGTTCC
Found at i:2903833 original size:31 final size:31
Alignment explanation
Indices: 2903798--2903864 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
2903788 ATTTTTTTAC
2903798 TAGTTTATTTTTCTTCTCAGTCTGTTGTTTT
1 TAGTTTATTTTTCTTCTCAGTCTGTTGTTTT
2903829 TAGTTTATTTTTCTTCTCAGTCTGTTGTTTT
1 TAGTTTATTTTTCTTCTCAGTCTGTTGTTTT
2903860 TAGTT
1 TAGTT
2903865 CTTTTTAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.10, C:0.12, G:0.13, T:0.64
Consensus pattern (31 bp):
TAGTTTATTTTTCTTCTCAGTCTGTTGTTTT
Found at i:2913032 original size:17 final size:19
Alignment explanation
Indices: 2913003--2913039 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
2912993 CCCATTTCTT
2913003 AATATTAAAAAATAA-ATA
1 AATATTAAAAAATAAGATA
2913021 AATATT-AAAAATAAGATA
1 AATATTAAAAAATAAGATA
2913039 A
1 A
2913040 TTTTTCCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (19 bp):
AATATTAAAAAATAAGATA
Found at i:2913191 original size:27 final size:27
Alignment explanation
Indices: 2913165--2913214 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
2913155 CTTTCTTAAT
2913165 ATTTA-AAAATAAAT-AAATAATATTA
1 ATTTATAAAATAAATCAAATAATATTA
*
2913190 ATTTATAAAATAAATCGAATAATAT
1 ATTTATAAAATAAATCAAATAATAT
2913215 ATATTGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 9 0.41
27 8 0.36
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
ATTTATAAAATAAATCAAATAATATTA
Found at i:2913247 original size:11 final size:11
Alignment explanation
Indices: 2913231--2913255 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2913221 ATATTACTAA
2913231 AATAAAATAAT
1 AATAAAATAAT
2913242 AATAAAATAAT
1 AATAAAATAAT
2913253 AAT
1 AAT
2913256 TTAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:2914774 original size:39 final size:39
Alignment explanation
Indices: 2914698--2915224 Score: 736
Period size: 39 Copynumber: 13.6 Consensus size: 39
2914688 AGGTTGAATA
* *
2914698 AGTTCTTCAGACTATGAA---CTTCTTCCTCTTTAGATG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
2914734 AGTTTTTCAGATTATGAACTCCTTCTTCCTCTTCATATG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
2914773 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * * *
2914812 ATTTCTTCAGACTATGAACTCTTTATTCCTTTTTAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
2914851 AGTTCTTCAGATTATGAGCTCATTCTTCCTCTTCAGATG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
*
2914890 AGTTCTTCAGACTATGAACTCCTTCTTTCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* *
2914929 AGTTCTTCAGACTATGAACTCATTCTTTCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
2914968 AGTTCTTTAGATTATGAACTCCTTCTTCCTCTACATACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* *
2915007 AGTTCTTCAGATTATGAACTCATTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* *
2915046 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCATATG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * * *
2915085 AGTTCTTCAGATTATGAACTCATTCTTCATATTCAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
2915124 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
* * *
2915163 AGTTCTTCAGACTATGAACTCCTTCTTCCTTTTCATATG
1 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
2915202 AGTTCTTCAGACTATGAACTCCT
1 AGTTCTTCAGACTATGAACTCCT
2915225 ACTGGAAATG
Statistics
Matches: 434, Mismatches: 54, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
36 16 0.04
39 418 0.96
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.40
Consensus pattern (39 bp):
AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACG
Found at i:2915112 original size:20 final size:20
Alignment explanation
Indices: 2915087--2915151 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
2915077 TTCATATGAG
2915087 TTCTTCAGATTATGAACTCA
1 TTCTTCAGATTATGAACTCA
* *
2915107 TTCTTCATATTCA-G-AC-GA
1 TTCTTCAGATT-ATGAACTCA
* *
2915125 GTTCTTCAGACTATGAACTCC
1 -TTCTTCAGATTATGAACTCA
2915146 TTCTTC
1 TTCTTC
2915152 CTCTTCAGAC
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.35
20 19 0.56
21 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.40
Consensus pattern (20 bp):
TTCTTCAGATTATGAACTCA
Found at i:2915190 original size:20 final size:20
Alignment explanation
Indices: 2915126--2915190 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
2915116 TTCAGACGAG
2915126 TTCTTCAGACTATGAACTCC
1 TTCTTCAGACTATGAACTCC
** * ***
2915146 TTCTTC-CTCT-TCAGACGAG
1 TTCTTCAGACTATGA-ACTCC
2915165 TTCTTCAGACTATGAACTCC
1 TTCTTCAGACTATGAACTCC
2915185 TTCTTC
1 TTCTTC
2915191 CTTTTCATAT
Statistics
Matches: 30, Mismatches: 12, Indels: 6
0.62 0.25 0.12
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 16 0.53
21 2 0.07
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.38
Consensus pattern (20 bp):
TTCTTCAGACTATGAACTCC
Found at i:2915580 original size:7 final size:7
Alignment explanation
Indices: 2915568--2915596 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
2915558 ATCTGGAAAC
2915568 TCTTTCT
1 TCTTTCT
2915575 TCTTTCT
1 TCTTTCT
2915582 TCTTTCT
1 TCTTTCT
2915589 TC-TTCT
1 TCTTTCT
2915595 TC
1 TC
2915597 ATCTCCTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (7 bp):
TCTTTCT
Found at i:2916147 original size:22 final size:22
Alignment explanation
Indices: 2916061--2916141 Score: 110
Period size: 22 Copynumber: 3.7 Consensus size: 22
2916051 TTTCTGGGCT
2916061 AGGGGAATCGATACCCATTC-A
1 AGGGGAATCGATACCCATTCAA
* * *
2916082 ATGGGAATCGGTACCCATTGAA
1 AGGGGAATCGATACCCATTCAA
* *
2916104 GGGGGAATCGGTACCCATTCAA
1 AGGGGAATCGATACCCATTCAA
2916126 AGGGGAATCGATACCC
1 AGGGGAATCGATACCC
2916142 TCTCAACCGA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 17 0.33
22 34 0.67
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (22 bp):
AGGGGAATCGATACCCATTCAA
Found at i:2917531 original size:99 final size:99
Alignment explanation
Indices: 2917360--2917549 Score: 353
Period size: 99 Copynumber: 1.9 Consensus size: 99
2917350 TCAAGAGATA
*
2917360 TAAGCTAAGGGATATCTGTGAATTACATGAAAATGTGCTATGTGTAAGTGAATTACGTGATTATA
1 TAAGCTAAGGGATATCTGTGAATTACATGAAAATGTGCTATGTGTAAGTGAATTACATGATTATA
2917425 TGAATATGAAATCATATGAGAATTGACATGTGAT
66 TGAATATGAAATCATATGAGAATTGACATGTGAT
* *
2917459 TAAGCTAAGGGATATCTGTGAATTACATGAAAATGTGCTATGTGTAAGTGAATTATATGATTTTA
1 TAAGCTAAGGGATATCTGTGAATTACATGAAAATGTGCTATGTGTAAGTGAATTACATGATTATA
2917524 TGAATATGAAATCATATGAGAATTGA
66 TGAATATGAAATCATATGAGAATTGA
2917550 TATGAACTAC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (99 bp):
TAAGCTAAGGGATATCTGTGAATTACATGAAAATGTGCTATGTGTAAGTGAATTACATGATTATA
TGAATATGAAATCATATGAGAATTGACATGTGAT
Found at i:2917899 original size:104 final size:104
Alignment explanation
Indices: 2917714--2917928 Score: 236
Period size: 104 Copynumber: 2.1 Consensus size: 104
2917704 GGGTCTACAC
* * *
2917714 GGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGAGACACGTATTTGGT
1 GGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATAAGGTCCTTTGAGACACGTACTTGAT
* * *
2917779 CCTTAGCATATCTATAT-GATCTTAAGTAATTTTCTACGT
66 CATTAGCATATCTATATGGATCTTAAGGAA-TTTATACGT
* * * * * * * *
2917818 GGTCCTTCGGGACGTATATGTATTCTTTGGAGCATGTATAAGGTCTTTTGAGACACTTACTTGAT
1 GGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATAAGGTCCTTTGAGACACGTACTTGAT
* * * *
2917883 CATT-GATATATGTATATGGTTCTTAAGGAATTTATATGT
66 CATTAG-CATATCTATATGGATCTTAAGGAATTTATACGT
2917922 GGTCCTT
1 GGTCCTT
2917929 ATGGACAATC
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
103 1 0.01
104 80 0.88
105 10 0.11
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (104 bp):
GGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATAAGGTCCTTTGAGACACGTACTTGAT
CATTAGCATATCTATATGGATCTTAAGGAATTTATACGT
Found at i:2921549 original size:22 final size:21
Alignment explanation
Indices: 2921484--2921559 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
2921474 TGGGCTAGGA
* *
2921484 GAATCGGTACCCATTTAATGG
1 GAATCGGTACCCATTCAAGGG
*
2921505 GAATCAGTACCCATTCAAGGG
1 GAATCGGTACCCATTCAAGGG
2921526 GAATCGGTACCCATTCAAAGGG
1 GAATCGGTACCCATTC-AAGGG
*
2921548 GAATCGATACCC
1 GAATCGGTACCC
2921560 CCTCAACCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 33 0.67
22 16 0.33
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (21 bp):
GAATCGGTACCCATTCAAGGG
Found at i:2921565 original size:22 final size:22
Alignment explanation
Indices: 2921503--2921565 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
2921493 CCCATTTAAT
*
2921503 GGGAATC-AGTACCCATTC-AAG
1 GGGAATCGA-TACCCACTCAAAG
* *
2921524 GGGAATCGGTACCCATTCAAAG
1 GGGAATCGATACCCACTCAAAG
*
2921546 GGGAATCGATACCCCCTCAA
1 GGGAATCGATACCCACTCAA
2921566 CCGAACAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 16 0.44
22 20 0.56
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.17
Consensus pattern (22 bp):
GGGAATCGATACCCACTCAAAG
Found at i:2922907 original size:106 final size:106
Alignment explanation
Indices: 2922780--2922993 Score: 374
Period size: 106 Copynumber: 2.0 Consensus size: 106
2922770 TCAAGAGATA
2922780 TAAGCTAAAGGATATCTGTGAATTACATGAAAATGTGATATATGTAAGGGAATTACGTGATTATA
1 TAAGCTAAAGGATATCTGTGAATTACATGAAAATGTGATATATGTAAGGGAATTACGTGATTATA
2922845 TGAATATGAAATCATATGAGAATTGACATGAACTACGTGAT
66 TGAATATGAAATCATATGAGAATTGACATGAACTACGTGAT
* * * *
2922886 TAAGCTAAGGGATATCTGTGAATTACATGAAAATGTGCTATGTGTAAGTGAATTACGTGATTATA
1 TAAGCTAAAGGATATCTGTGAATTACATGAAAATGTGATATATGTAAGGGAATTACGTGATTATA
**
2922951 TGAATATGAAATCATATGAGAATTGATTTGAACTACGTGAT
66 TGAATATGAAATCATATGAGAATTGACATGAACTACGTGAT
2922992 TA
1 TA
2922994 CATGTATGTG
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (106 bp):
TAAGCTAAAGGATATCTGTGAATTACATGAAAATGTGATATATGTAAGGGAATTACGTGATTATA
TGAATATGAAATCATATGAGAATTGACATGAACTACGTGAT
Found at i:2923418 original size:23 final size:24
Alignment explanation
Indices: 2923372--2923418 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2923362 CAATCTTATA
*
2923372 TGGCACTACAGTGCAAATTCTACG
1 TGGCACTACAGTGCAAATTATACG
*
2923396 TGGCACTTCAGTGC-AATTATACG
1 TGGCACTACAGTGCAAATTATACG
2923419 AGATGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
TGGCACTACAGTGCAAATTATACG
Found at i:2923780 original size:21 final size:23
Alignment explanation
Indices: 2923734--2923780 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
2923724 AATCATAGGA
2923734 GAAT-AAATATAAGTAATATGAT
1 GAATGAAATATAAGTAATATGAT
*
2923756 -AATGAAATATAAG-ACTATG-T
1 GAATGAAATATAAGTAATATGAT
2923776 GAATG
1 GAATG
2923781 CATGGTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 1 0.05
21 12 0.55
22 9 0.41
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.30
Consensus pattern (23 bp):
GAATGAAATATAAGTAATATGAT
Found at i:2924575 original size:106 final size:106
Alignment explanation
Indices: 2924389--2924602 Score: 356
Period size: 106 Copynumber: 2.0 Consensus size: 106
2924379 TCAAGAGATA
*
2924389 TAAGCTAAGGGATATATGTGAATTACATGAAAATGTGATATGTGTAAGTGAATTACGTGATTATA
1 TAAGCTAAGGGATATATGTGAATTACATGAAAATGTGATATGTATAAGTGAATTACGTGATTATA
2924454 TGAATATGAAATCATATGAGAATTGACATGAACTACGTGAT
66 TGAATATGAAATCATATGAGAATTGACATGAACTACGTGAT
* * * *
2924495 TAAGCTAAGGGATATCTGTGAATTATATGAAAGTGTGCTATGTATAAGTGAATTACGTGATTATA
1 TAAGCTAAGGGATATATGTGAATTACATGAAAATGTGATATGTATAAGTGAATTACGTGATTATA
* * *
2924560 TGAATATGAATTCATATGTGAATTGATATGAACTACGTGAT
66 TGAATATGAAATCATATGAGAATTGACATGAACTACGTGAT
2924601 TA
1 TA
2924603 CATGTATGCG
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 100 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (106 bp):
TAAGCTAAGGGATATATGTGAATTACATGAAAATGTGATATGTATAAGTGAATTACGTGATTATA
TGAATATGAAATCATATGAGAATTGACATGAACTACGTGAT
Found at i:2924603 original size:53 final size:52
Alignment explanation
Indices: 2924440--2924603 Score: 129
Period size: 53 Copynumber: 3.1 Consensus size: 52
2924430 GTGTAAGTGA
* *
2924440 ATTACGTGATTATATGAATATGAAATCATATGAGAATTGACATGAACTACGTG
1 ATTACGTGATTATATGAATATGAATTCATATG-GAATTGATATGAACTACGTG
* * ** * * * * * *
2924493 ATTAAGCTAAGGGATAT--CTGTGAATT-ATATGAAAGTGTGCTATGTA-TAAGTG
1 ATTACG-TGA-TTATATGAATATGAATTCATATGGAA-T-TGATATGAACTACGTG
2924545 AATTACGTGATTATATGAATATGAATTCATATGTGAATTGATATGAACTACGTG
1 -ATTACGTGATTATATGAATATGAATTCATATG-GAATTGATATGAACTACGTG
2924599 ATTAC
1 ATTAC
2924604 ATGTATGCGT
Statistics
Matches: 79, Mismatches: 22, Indels: 20
0.65 0.18 0.17
Matches are distributed among these distances:
51 6 0.08
52 13 0.16
53 41 0.52
54 13 0.16
55 6 0.08
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (52 bp):
ATTACGTGATTATATGAATATGAATTCATATGGAATTGATATGAACTACGTG
Found at i:2924931 original size:105 final size:105
Alignment explanation
Indices: 2924743--2924952 Score: 258
Period size: 105 Copynumber: 2.0 Consensus size: 105
2924733 GAGTCGAGGG
* *
2924743 TCTACGCGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGAGACACGT
1 TCTACGCGGTCATTCGGGACATATAGGTATCCTATGGAACATCTATAAGGTCCTTTGAGACACGT
* * * *
2924808 ATTTGGTCCTTAGCATATGTATATTATTCTTAATGAATTT
66 ACTTGATCCTTAGCATATGTATATGATTCTTAAGGAATTT
* * * * * * * * *
2924848 TCTACGTGGTCATTCGGGACGTATATGTATTCTTTGGAGCATGTATAAGGTCTTTTGAGACACTT
1 TCTACGCGGTCATTCGGGACATATAGGTATCCTATGGAACATCTATAAGGTCCTTTGAGACACGT
* * *
2924913 ACTTGATCCTTGGTATATGTATATGGTTCTTAAGGAATTT
66 ACTTGATCCTTAGCATATGTATATGATTCTTAAGGAATTT
2924953 ATATGTGGTC
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
105 87 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (105 bp):
TCTACGCGGTCATTCGGGACATATAGGTATCCTATGGAACATCTATAAGGTCCTTTGAGACACGT
ACTTGATCCTTAGCATATGTATATGATTCTTAAGGAATTT
Found at i:2925147 original size:18 final size:18
Alignment explanation
Indices: 2925120--2925160 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2925110 AAATATATTT
2925120 TTGTGAAATGATA-AATG
1 TTGTGAAATGATATAATG
2925137 TTGTAGAAATGATATAATG
1 TTGT-GAAATGATATAATG
2925156 TTGTG
1 TTGTG
2925161 TGTGTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.18
18 10 0.45
19 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (18 bp):
TTGTGAAATGATATAATG
Found at i:2926985 original size:54 final size:54
Alignment explanation
Indices: 2926891--2927052 Score: 236
Period size: 54 Copynumber: 3.0 Consensus size: 54
2926881 ATAATCACTG
* * *
2926891 GTTCATAAAAAATTTGCCAACACATTCATTC-TTTCCTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCA-TCATTTCCTGTGGCTTCTGCCCAGAT
* *
2926945 GTTCGTAAAGCATTTGACAACACATTCATCATTTCTTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCCCAGAT
* * *
2926999 GTTCGTAAAATATTTGACAACATATTCATCATTTCCTGTGGCTTCTGCCTAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCCCAGAT
2927053 TTCTCAATCA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 2 0.02
54 95 0.98
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTCTGCCCAGAT
Found at i:2936614 original size:21 final size:21
Alignment explanation
Indices: 2936588--2936629 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2936578 CCGTGAACAG
*
2936588 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCACCGATGCAT
2936609 TGCTACAGTGCACCGATGCAT
1 TGCTACAGTGCACCGATGCAT
2936630 AAAAATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (21 bp):
TGCTACAGTGCACCGATGCAT
Found at i:2937360 original size:31 final size:31
Alignment explanation
Indices: 2937322--2937446 Score: 162
Period size: 31 Copynumber: 4.0 Consensus size: 31
2937312 CCCGAAGAAC
* * * *
2937322 CAGTCCATA-GATTCCAAAGAACCTAAGTAAT
1 CAGTCCATATG-TCCCAAAGAACATAGGTAAA
*
2937353 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCAAAGAACATAGGTAAA
* *
2937384 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCAAAGAACATAGGTAAA
*
2937415 CAGTCCATATATCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCAAAGAACATAGGTAAA
2937446 C
1 C
2937447 CGTCGACCCT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
31 83 0.99
32 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCAAAGAACATAGGTAAA
Found at i:2940105 original size:13 final size:14
Alignment explanation
Indices: 2940065--2940110 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
2940055 AAAATTGTGC
*
2940065 AATGCAAAAGCAAA
1 AATGCAAAAGTAAA
*
2940079 CAT--AAAAGTAAA
1 AATGCAAAAGTAAA
2940091 AATGCAAAA-TAAA
1 AATGCAAAAGTAAA
2940104 AATGCAA
1 AATGCAA
2940111 CGAATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
12 10 0.37
13 11 0.41
14 6 0.22
ACGTcount: A:0.65, C:0.11, G:0.11, T:0.13
Consensus pattern (14 bp):
AATGCAAAAGTAAA
Found at i:2941779 original size:28 final size:28
Alignment explanation
Indices: 2941743--2941796 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
2941733 AAGAAATCAA
* *
2941743 TATAAACAAATTAGAGCAAAATAAAATG
1 TATAAACAAAATAGAGAAAAATAAAATG
* *
2941771 TATATACAAAATAGATAAAAATAAAA
1 TATAAACAAAATAGAGAAAAATAAAA
2941797 GGAAAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.65, C:0.06, G:0.07, T:0.22
Consensus pattern (28 bp):
TATAAACAAAATAGAGAAAAATAAAATG
Found at i:2946954 original size:28 final size:28
Alignment explanation
Indices: 2946903--2946959 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2946893 GATCGAATTT
* * *
2946903 ACATTATGTCGTTGAGCTATTGCTTGAA
1 ACATTATGTCGTCGAGCCAATGCTTGAA
*
2946931 ACATTATGTCGTCGATCCAATGCTTGAA
1 ACATTATGTCGTCGAGCCAATGCTTGAA
2946959 A
1 A
2946960 GTAACGACGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (28 bp):
ACATTATGTCGTCGAGCCAATGCTTGAA
Found at i:2951830 original size:15 final size:14
Alignment explanation
Indices: 2951794--2951832 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2951784 TCAGCTTTGT
2951794 TATATTA-TAAAAA
1 TATATTATTAAAAA
*
2951807 TTTATTATTAAAAA
1 TATATTATTAAAAA
2951821 TATATATATTAA
1 TATAT-TATTAA
2951833 GTGACATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATATTATTAAAAA
Found at i:2957375 original size:21 final size:23
Alignment explanation
Indices: 2957350--2957422 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2957340 ATACTTTACA
*
2957350 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
2957373 ATATAAACGCTGCCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2957396 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2957419 ATAT
1 ATAT
2957423 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2975237 original size:23 final size:23
Alignment explanation
Indices: 2975203--2975263 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
2975193 CACCACAGCT
* *
2975203 CGTATAAA-TACATCGAAGTGCCA
1 CGTA-AAATTACACCGAAGTACCA
*
2975226 CGTAAAATTACACCGAAGTACCG
1 CGTAAAATTACACCGAAGTACCA
2975249 CGTAAAATTACACCG
1 CGTAAAATTACACCG
2975264 TAATTCCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 3 0.09
23 31 0.91
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (23 bp):
CGTAAAATTACACCGAAGTACCA
Found at i:2976549 original size:12 final size:11
Alignment explanation
Indices: 2976516--2976542 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2976506 AATCAACCTT
2976516 AAATTCATCAA
1 AAATTCATCAA
2976527 AAATTCATCAA
1 AAATTCATCAA
2976538 AAATT
1 AAATT
2976543 TGATCAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATTCATCAA
Found at i:2982144 original size:23 final size:23
Alignment explanation
Indices: 2982118--2982186 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
2982108 CACCACAGCT
*
2982118 CGTATAAATGCACCGAAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
* * *
2982141 CGTAGAATTACACCGAAGTGCCG
1 CGTATAATTGCACCGAAGTGCCA
* *
2982164 CGTATAATTGCACTGTAGTGCCA
1 CGTATAATTGCACCGAAGTGCCA
2982187 TATAAGATTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
CGTATAATTGCACCGAAGTGCCA
Found at i:2982944 original size:63 final size:65
Alignment explanation
Indices: 2982830--2982991 Score: 172
Period size: 63 Copynumber: 2.5 Consensus size: 65
2982820 ATCCCTTGAC
* * * **
2982830 GGGTGCATTGATGCACTATCTATCCATCGATACA-TAAATCCTATTCGATGTTTGTA-TTTAAGG
1 GGGTGCATCGATGCACTATCTATGCATCGATACACTAAATCCTATTCAATGTTTGTATTTTAAAA
* * *
2982893 GGGTGCATCGATGCACTATCTATGCATCGATACACT-GATGGC-ATTCAATGTTTTTATTTTAAA
1 GGGTGCATCGATGCACTATCTATGCATCGATACACTAAAT-CCTATTCAATGTTTGTATTTTAAA
2982956 A
65 A
** *
2982957 TAGTGCATCGATGCACT-TCATGTGCATCGATACAC
1 GGGTGCATCGATGCACTATC-TATGCATCGATACAC
2982992 CTTGAACAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 48 0.57
64 36 0.43
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (65 bp):
GGGTGCATCGATGCACTATCTATGCATCGATACACTAAATCCTATTCAATGTTTGTATTTTAAAA
Found at i:2992356 original size:23 final size:21
Alignment explanation
Indices: 2992311--2992356 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
2992301 GGTATTAACC
2992311 AATAATAATTCTATAAAATTA
1 AATAATAATTCTATAAAATTA
2992332 AATAATCAATT-TATATCAAATTA
1 AATAAT-AATTCTATA--AAATTA
2992355 AA
1 AA
2992357 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.45
22 4 0.18
23 8 0.36
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAATAATTCTATAAAATTA
Found at i:2995025 original size:22 final size:22
Alignment explanation
Indices: 2994997--2995075 Score: 149
Period size: 22 Copynumber: 3.6 Consensus size: 22
2994987 TGGTCAAGTA
2994997 GTATCGATACTCTATTCATAAG
1 GTATCGATACTCTATTCATAAG
2995019 GTATCGATACTCTATTCATAAG
1 GTATCGATACTCTATTCATAAG
2995041 GTATCGATACTCTATTCATAAG
1 GTATCGATACTCTATTCATAAG
*
2995063 GTATCAATACTCT
1 GTATCGATACTCT
2995076 TTTTGGGTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (22 bp):
GTATCGATACTCTATTCATAAG
Found at i:2996815 original size:21 final size:21
Alignment explanation
Indices: 2996791--2996841 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2996781 GCGATATTCT
*
2996791 AATTTTGCAACGCGAAAGTCA
1 AATTTCGCAACGCGAAAGTCA
*
2996812 AA-TTCGCAACGCGGAAGTCA
1 AATTTCGCAACGCGAAAGTCA
2996832 AA-TTCGCAAC
1 AATTTCGCAAC
2996842 ATGAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (21 bp):
AATTTCGCAACGCGAAAGTCA
Found at i:2996822 original size:20 final size:20
Alignment explanation
Indices: 2996797--2996841 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2996787 TTCTAATTTT
2996797 GCAACGCGAAAGTCAAATTC
1 GCAACGCGAAAGTCAAATTC
*
2996817 GCAACGCGGAAGTCAAATTC
1 GCAACGCGAAAGTCAAATTC
2996837 GCAAC
1 GCAAC
2996842 ATGAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.13
Consensus pattern (20 bp):
GCAACGCGAAAGTCAAATTC
Found at i:2996868 original size:18 final size:19
Alignment explanation
Indices: 2996834--2996880 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
2996824 GGAAGTCAAA
2996834 TTCGCAACATGAATTTAAT
1 TTCGCAACATGAATTTAAT
* *
2996853 TTCGCAACATG-TTTTAGT
1 TTCGCAACATGAATTTAAT
2996871 TTCGCAACAT
1 TTCGCAACAT
2996881 AAATGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (19 bp):
TTCGCAACATGAATTTAAT
Found at i:2996999 original size:22 final size:22
Alignment explanation
Indices: 2996974--2997024 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2996964 CCATCTATCA
*
2996974 CTATCTCCGACGACATCCGTTC
1 CTATCTCCAACGACATCCGTTC
* * *
2996996 CTATATCCAATGACATCCTTTC
1 CTATCTCCAACGACATCCGTTC
*
2997018 CCATCTC
1 CTATCTC
2997025 TATTTTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.39, G:0.08, T:0.31
Consensus pattern (22 bp):
CTATCTCCAACGACATCCGTTC
Found at i:3002136 original size:21 final size:21
Alignment explanation
Indices: 3002065--3002160 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 21
3002055 GGCGTGACCA
* * *
3002065 CTTGAACGATGACAGTGGCCT
1 CTTGAATGATGAGAGGGGCCT
* * * *
3002086 CTTGAACGGTGGGAGGGGCTT
1 CTTGAATGATGAGAGGGGCCT
*
3002107 CTTCG-ATGATGATAGGGGCCT
1 CTT-GAATGATGAGAGGGGCCT
*
3002128 CTTGAATGAT-AGGAGGCGCCT
1 CTTGAATGATGA-GAGGGGCCT
*
3002149 CTTGAATAATGA
1 CTTGAATGATGA
3002161 TAGGTGCATC
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.03
21 54 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (21 bp):
CTTGAATGATGAGAGGGGCCT
Found at i:3004660 original size:22 final size:22
Alignment explanation
Indices: 3004632--3004682 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
3004622 GATAGACGGT
*
3004632 TTTCGTCAGAAATGGGGACAGA
1 TTTCGTCAGAAATAGGGACAGA
**
3004654 TTTCGTCAGAAATAGGGATGGA
1 TTTCGTCAGAAATAGGGACAGA
3004676 TTTCGTC
1 TTTCGTC
3004683 GGAGATAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.29
Consensus pattern (22 bp):
TTTCGTCAGAAATAGGGACAGA
Found at i:3004698 original size:22 final size:22
Alignment explanation
Indices: 3004626--3004698 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
3004616 GATGGAGATA
* **
3004626 GACGGTTTTCGTCAGAAATGGG
1 GACGGATTTCGTCAGAAATAAG
* *
3004648 GACAGATTTCGTCAGAAATAGG
1 GACGGATTTCGTCAGAAATAAG
* * *
3004670 GATGGATTTCGTCGGAGATAAG
1 GACGGATTTCGTCAGAAATAAG
3004692 GACGGAT
1 GACGGAT
3004699 GTCGCCGTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.29, C:0.12, G:0.34, T:0.25
Consensus pattern (22 bp):
GACGGATTTCGTCAGAAATAAG
Found at i:3004854 original size:20 final size:20
Alignment explanation
Indices: 3004826--3004869 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3004816 GCATAAAAAC
* *
3004826 ATTTGACTTTCGCGTTGCGA
1 ATTTAACTTTCGCGTTGAGA
3004846 ATTTAACTTTCGCGTTGAGA
1 ATTTAACTTTCGCGTTGAGA
3004866 ATTT
1 ATTT
3004870 GGAATATCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (20 bp):
ATTTAACTTTCGCGTTGAGA
Found at i:3007235 original size:2 final size:2
Alignment explanation
Indices: 3007230--3007290 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
3007220 TAAGTGTGTT
3007230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3007272 TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA
3007291 AAATTTACTA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3009495 original size:47 final size:47
Alignment explanation
Indices: 3009426--3009519 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
3009416 AATTTATCCT
3009426 TTATTTTGTTTGTCTTGTTCTGCATGTTTGTTGTATCACATCTTAAA
1 TTATTTTGTTTGTCTTGTTCTGCATGTTTGTTGTATCACATCTTAAA
*
3009473 TTATTTTGTTTGTCTTGTTCTGCGTGTTTGTTGTATCACATCTTAAA
1 TTATTTTGTTTGTCTTGTTCTGCATGTTTGTTGTATCACATCTTAAA
3009520 GCCTCTTTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (47 bp):
TTATTTTGTTTGTCTTGTTCTGCATGTTTGTTGTATCACATCTTAAA
Found at i:3009754 original size:16 final size:16
Alignment explanation
Indices: 3009733--3009775 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
3009723 TCATGCTTAT
3009733 TGTGTAGAAAACAAAC
1 TGTGTAGAAAACAAAC
*
3009749 TGTGTAGAAAACAGAC
1 TGTGTAGAAAACAAAC
3009765 --TGTAGAAAACA
1 TGTGTAGAAAACA
3009776 GACAAGTCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 11 0.42
16 15 0.58
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.19
Consensus pattern (16 bp):
TGTGTAGAAAACAAAC
Found at i:3009770 original size:14 final size:15
Alignment explanation
Indices: 3009734--3009778 Score: 65
Period size: 14 Copynumber: 3.0 Consensus size: 15
3009724 CATGCTTATT
*
3009734 GTGTAGAAAACAAAC
1 GTGTAGAAAACAGAC
3009749 TGTGTAGAAAACAGAC
1 -GTGTAGAAAACAGAC
3009765 -TGTAGAAAACAGAC
1 GTGTAGAAAACAGAC
3009779 AAGTCTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 14 0.50
16 14 0.50
ACGTcount: A:0.49, C:0.13, G:0.22, T:0.16
Consensus pattern (15 bp):
GTGTAGAAAACAGAC
Found at i:3012079 original size:51 final size:51
Alignment explanation
Indices: 3012003--3012103 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
3011993 TAAGGAAAGG
* *
3012003 ATAGGCTGTAAAGAAATATCGGTTTGAATAGGTTGAAATTCCTTGTAACTA
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
3012054 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACT
3012104 CCCCCCCTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
Found at i:3018248 original size:60 final size:60
Alignment explanation
Indices: 3018120--3018260 Score: 158
Period size: 60 Copynumber: 2.4 Consensus size: 60
3018110 AATATTATTG
* * * * * * **
3018120 GAATGTTGAAAAGTTTGGGGATTAATTTAGAAGGCTGGTCCTAGTTTGGGGATGAATTTG
1 GAATGTTCAAAAGTTTGGGGATTAATTTAGAAAGATGGTCATAGTTTGAGGATGAAATCA
* * *
3018180 GAACGTTCAGAAGTTTGGGGATTAATTTA-AAATATGAGTCATAGTTTGAGGATGAAATCA
1 GAATGTTCAAAAGTTTGGGGATTAATTTAGAAAGATG-GTCATAGTTTGAGGATGAAATCA
*
3018240 GAATGTTCAAAAGTTTAGGGA
1 GAATGTTCAAAAGTTTGGGGA
3018261 CCGATTTAGG
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
59 4 0.06
60 62 0.94
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (60 bp):
GAATGTTCAAAAGTTTGGGGATTAATTTAGAAAGATGGTCATAGTTTGAGGATGAAATCA
Found at i:3032698 original size:20 final size:20
Alignment explanation
Indices: 3032670--3032720 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3032660 TGATTTTTTT
* *
3032670 ACTCTATTCGATTTGAAAAA
1 ACTCGATTCGATTCGAAAAA
*
3032690 ACTCGATTCGATTCGGAAAA
1 ACTCGATTCGATTCGAAAAA
*
3032710 ACTCGACTCGA
1 ACTCGATTCGA
3032721 ATTAACTTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (20 bp):
ACTCGATTCGATTCGAAAAA
Found at i:3034337 original size:2 final size:2
Alignment explanation
Indices: 3034330--3034354 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3034320 GCTCCACCCC
3034330 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3034355 TCTTGCCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3035625 original size:2 final size:2
Alignment explanation
Indices: 3035614--3035643 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3035604 ATCATTAAAT
3035614 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3035644 GAAATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3038666 original size:24 final size:24
Alignment explanation
Indices: 3038636--3038685 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3038626 CATAAAGTCC
3038636 AACTATTATATAACCACATAAAGG
1 AACTATTATATAACCACATAAAGG
3038660 AACTATTATATAACCACATAAAGG
1 AACTATTATATAACCACATAAAGG
3038684 AA
1 AA
3038686 AATAACATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (24 bp):
AACTATTATATAACCACATAAAGG
Found at i:3040629 original size:182 final size:180
Alignment explanation
Indices: 3040271--3040870 Score: 729
Period size: 182 Copynumber: 3.3 Consensus size: 180
3040261 GATACAAATG
* * * * * * ** *
3040271 AAAATGTATCGTTCCATAGCAATATAACATGTAAAAATATGATAAAATCAGTTTC-ATTATGATA
1 AAAATGTATCGATCTATAACAATATAACATGT-AAAATATGACAAAACCGGTCACGA-AATGATA
** * * *
3040335 AAACCGGTAAACCGCTACTGGATATATCGAAAGTATCGATTAGATTTAA-ATAAGTATCGACACT
64 AAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGA-TAG--TTAATATAAGTATCGACACT
* * *
3040399 TTTTAGAATTTAAAAGAAAAGAAGTAATAACGCCTATAAAGTGTCGATACTTTATA
126 TTTT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATA
* * *
3040455 AAAACGTATCGATCTATAAAAATATAACATGTATAAGTATGACAAAACCGGTCACGAAATGATAA
1 AAAATGTATCGATCTATAACAATATAACATGTA-AAATATGACAAAACCGGTCACGAAATGATAA
* *
3040520 AACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACGTTAATATAAGTATCGATACTTTT
65 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATA-GTTAATATAAGTATCGACACTTTT
3040585 TGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATA
129 TGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATA
* * ** * *
3040637 CAAATGTATCGATCTATAGCAATATAACATGTAAGAATATGACAAAACAAGTCTCGAAATAATAA
1 AAAATGTATCGATCTATAACAATATAACATGTAA-AATATGACAAAACCGGTCACGAAATGATAA
* *
3040702 AACCGGTAAAAAGCTACCAGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACAC-TTT
65 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGAT-AGTTAATATAAGTATCGACACTTTT
* * * *
3040766 CGTAATTTAAAAAAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATG
129 TG-AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATA
* * * *
3040819 AAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAATCGGT
1 AAAATGTATCGATCTATAACAATATAACATGT-AAAATATGACAAAACCGGT
3040871 AAAGCGCTAC
Statistics
Matches: 362, Mismatches: 46, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
181 5 0.01
182 249 0.69
183 24 0.07
184 83 0.23
185 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (180 bp):
AAAATGTATCGATCTATAACAATATAACATGTAAAATATGACAAAACCGGTCACGAAATGATAAA
ACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAGTTAATATAAGTATCGACACTTTTTG
AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATA
Found at i:3041252 original size:23 final size:23
Alignment explanation
Indices: 3041202--3041246 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
3041192 TGCCTATTTT
*
3041202 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
3041225 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
3041247 TGTTATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:3045705 original size:13 final size:14
Alignment explanation
Indices: 3045681--3045710 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
3045671 TTTAGTAATT
3045681 TTAAGATTTTGAAA
1 TTAAGATTTTGAAA
3045695 TTAAG-TTTTGAAA
1 TTAAGATTTTGAAA
3045708 TTA
1 TTA
3045711 CTCCCCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TTAAGATTTTGAAA
Found at i:3048046 original size:20 final size:21
Alignment explanation
Indices: 3047992--3048054 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
3047982 GATTCCCCTG
3047992 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
3048016 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
3048036 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
3048055 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:3049150 original size:181 final size:181
Alignment explanation
Indices: 3048846--3049211 Score: 696
Period size: 181 Copynumber: 2.0 Consensus size: 181
3048836 AAGGTATCTA
3048846 AAGATTCTCTTAACAGATAGTAAATGTGATTCCTTAGGACATGATTGAAATCTAGCACATAAGCA
1 AAGATTCTCTTAACAGATAGTAAATGTGATTCCTTAGGACATGATTGAAATCTAGCACATAAGCA
* *
3048911 AACACTAAACATAATGTCCGGTCTACTTGCAGTTAGATAAATCAAAGAGCCAATCATTGACCTAT
66 AACACTAAACATAATATCCGGTCTACTTGCAGTTAGATAAAGCAAAGAGCCAATCATTGACCTAT
3048976 ATAATTTAACATCTACACATTTACCTCCTTCATCTAAGTCAAACTTTGTTG
131 ATAATTTAACATCTACACATTTACCTCCTTCATCTAAGTCAAACTTTGTTG
*
3049027 AAGATTCTCTTAACAGCTAGTAAATGTGATTCCTTAGGACATGATTGAAATCTAGCACATAAGCA
1 AAGATTCTCTTAACAGATAGTAAATGTGATTCCTTAGGACATGATTGAAATCTAGCACATAAGCA
3049092 AACACTAAACATAATATCCGGTCTACTTGCAGTTAGATAAAGCAAAGAGCCAATCATTGACCTAT
66 AACACTAAACATAATATCCGGTCTACTTGCAGTTAGATAAAGCAAAGAGCCAATCATTGACCTAT
*
3049157 ATAATTTAACATCTACACATTTACCTCCTTCATCTAAGTCAAGCTTTGTTG
131 ATAATTTAACATCTACACATTTACCTCCTTCATCTAAGTCAAACTTTGTTG
3049208 AAGA
1 AAGA
3049212 GCTCATTGGA
Statistics
Matches: 181, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
181 181 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (181 bp):
AAGATTCTCTTAACAGATAGTAAATGTGATTCCTTAGGACATGATTGAAATCTAGCACATAAGCA
AACACTAAACATAATATCCGGTCTACTTGCAGTTAGATAAAGCAAAGAGCCAATCATTGACCTAT
ATAATTTAACATCTACACATTTACCTCCTTCATCTAAGTCAAACTTTGTTG
Found at i:3053629 original size:19 final size:20
Alignment explanation
Indices: 3053587--3053635 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
3053577 CGTTATACAA
*
3053587 GGGGGAATCGGTACACCCTG
1 GGGGGAATCGATACACCCTG
*
3053607 GGGGGAATCGATACCCCCTG
1 GGGGGAATCGATACACCCTG
3053627 GGGGGAATC
1 GGGGGAATC
3053636 AGTTCCCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.41, T:0.14
Consensus pattern (20 bp):
GGGGGAATCGATACACCCTG
Found at i:3055246 original size:27 final size:27
Alignment explanation
Indices: 3055208--3055268 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
3055198 GAGAGCTACA
3055208 GCCAAGTCAGCTACGTCGGGGAAAAAG
1 GCCAAGTCAGCTACGTCGGGGAAAAAG
*
3055235 GCCAAGTCAGCTACGTCGGGGGAAAAG
1 GCCAAGTCAGCTACGTCGGGGAAAAAG
3055262 GCCAAGT
1 GCCAAGT
3055269 TAGCGTTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.23, G:0.34, T:0.11
Consensus pattern (27 bp):
GCCAAGTCAGCTACGTCGGGGAAAAAG
Found at i:3062257 original size:21 final size:22
Alignment explanation
Indices: 3062233--3062286 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
3062223 AAAATGTATT
*
3062233 ATTATTTTATAA-AATATAATG
1 ATTATTTAATAATAATATAATG
*
3062254 ATTATTTAATAATAATTTAAT-
1 ATTATTTAATAATAATATAATG
3062275 A-TATTTAATAAT
1 ATTATTTAATAAT
3062287 TACTGAGTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 11 0.37
21 12 0.40
22 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTATTTAATAATAATATAATG
Found at i:3064216 original size:15 final size:16
Alignment explanation
Indices: 3064183--3064216 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3064173 ATATTGAAAC
*
3064183 TTAAACTAAAAAAGGT
1 TTAAACTAAAAAAGAT
3064199 TTAAACTAAAAAA-AT
1 TTAAACTAAAAAAGAT
3064214 TTA
1 TTA
3064217 GAAGCTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
TTAAACTAAAAAAGAT
Found at i:3073473 original size:21 final size:22
Alignment explanation
Indices: 3073431--3073482 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
3073421 TGCAATGCGA
*
3073431 TTCTAACTATCGCATTGCGATT
1 TTCTAAATATCGCATTGCGATT
* *
3073453 TTCTAAAT-TCGCGTTGTGATT
1 TTCTAAATATCGCATTGCGATT
3073474 TTCCTAAAT
1 TT-CTAAAT
3073483 CGCAATGCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.44
Consensus pattern (22 bp):
TTCTAAATATCGCATTGCGATT
Found at i:3073485 original size:21 final size:20
Alignment explanation
Indices: 3073439--3073492 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
3073429 GATTCTAACT
3073439 ATCGCATTGCGATTTTCTAA
1 ATCGCATTGCGATTTTCTAA
* *
3073459 ATTCGCGTTGTGATTTTCCTAA
1 A-TCGCATTGCGATTTT-CTAA
*
3073481 ATCGCAATGCGA
1 ATCGCATTGCGA
3073493 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.78
22 5 0.19
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
ATCGCATTGCGATTTTCTAA
Done.