Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_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: 4658001
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 23
Found at i:4134317 original size:55 final size:51
Alignment explanation
Indices: 4133908--4134424 Score: 522
Period size: 51 Copynumber: 9.8 Consensus size: 51
4133898 AATTAGTTCA
* * *
4133908 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAGTTTG
* * * *
4133959 TTAAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAGTTTG
* *
4134010 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAGTTTG
* * *
4134061 TTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCG
1 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAGTTTG
* *
4134112 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTG
1 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAG-TTTG
* * *
4134164 TTGAAGATTGTTCGAGTTCTATACTCCCTGAACGG-ATAGGGAGC-GAACACGTTTG
1 TTGAAGA---TT-GAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACCA-GTTTG
* * * *
4134219 TTAAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACCTGTTTA
1 TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAGTTTG
* * * *
4134270 TTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA
1 TTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAG-TTTG
* * * *
4134326 TTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACA-TTT-
1 TTGAAGATTG----AGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC-CAGTTTG
*
4134380 TATGAAGATTGTTCGAGTCTTATACT-TCTTGAAGGAATAGGGAGC
1 T-TGAAGA---TT-GAGTCCTATACTCTC-TGAAGGAATAGGGAGC
4134425 AGGCTCGTCA
Statistics
Matches: 408, Mismatches: 33, Indels: 46
0.84 0.07 0.09
Matches are distributed among these distances:
50 1 0.00
51 228 0.56
52 16 0.04
53 2 0.00
54 5 0.01
55 83 0.20
56 67 0.16
57 3 0.01
58 2 0.00
59 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (51 bp):
TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACCAGTTTG
Found at i:4137173 original size:10 final size:10
Alignment explanation
Indices: 4137158--4137183 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4137148 TTATGGTTTA
4137158 GGAGGATCTT
1 GGAGGATCTT
4137168 GGAGGATCTT
1 GGAGGATCTT
4137178 GGAGGA
1 GGAGGA
4137184 GCTGAAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.46, T:0.23
Consensus pattern (10 bp):
GGAGGATCTT
Found at i:4137513 original size:20 final size:20
Alignment explanation
Indices: 4137488--4137578 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
4137478 TAAATTAAAT
*
4137488 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
4137508 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
4137528 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
4137540 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
4137560 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
4137579 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:4137565 original size:52 final size:52
Alignment explanation
Indices: 4137487--4137634 Score: 271
Period size: 53 Copynumber: 2.8 Consensus size: 52
4137477 CTAAATTAAA
*
4137487 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
4137539 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
4137592 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
4137635 TTGTTGTTAA
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.37
53 51 0.54
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:4137618 original size:20 final size:20
Alignment explanation
Indices: 4137593--4137632 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4137583 TCTATTAGTT
*
4137593 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
4137613 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
4137633 TTTTGTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:4142903 original size:26 final size:26
Alignment explanation
Indices: 4142873--4142924 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4142863 GATAAGAATA
4142873 ATGAAATGCTAAAATATAAGGTTAAG
1 ATGAAATGCTAAAATATAAGGTTAAG
4142899 ATGAAATGCTAAAATATAAGGTTAAG
1 ATGAAATGCTAAAATATAAGGTTAAG
4142925 GGATTAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.19, T:0.27
Consensus pattern (26 bp):
ATGAAATGCTAAAATATAAGGTTAAG
Found at i:4145487 original size:20 final size:19
Alignment explanation
Indices: 4145441--4145488 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
4145431 ATGACCAACA
* *
4145441 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCC
4145460 AAATCGCAACGCGATCTCC
1 AAATCGCAACGCGATCTCC
4145479 AATATCGCAA
1 AA-ATCGCAA
4145489 ATCAGTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCC
Found at i:4146447 original size:24 final size:24
Alignment explanation
Indices: 4146401--4146454 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4146391 GTATTCGAAA
*
4146401 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATAACCGGAC
* * *
4146425 TTTGTTCTTGGTCAATAATCGGAT
1 TTTGATCTTGGTCAATAACCGGAC
4146449 TTTGAT
1 TTTGAT
4146455 GATGTTTCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATAACCGGAC
Found at i:4148745 original size:18 final size:18
Alignment explanation
Indices: 4148713--4148747 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4148703 AGAAAAAGGC
*
4148713 AATCAAAATCGCAATCAA
1 AATCAAAATAGCAATCAA
*
4148731 AATCAAAATATCAATCA
1 AATCAAAATAGCAATCA
4148748 CAACCGGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATAGCAATCAA
Found at i:4149057 original size:140 final size:140
Alignment explanation
Indices: 4148805--4149087 Score: 521
Period size: 140 Copynumber: 2.0 Consensus size: 140
4148795 GCAAACGTTG
4148805 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
4148870 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCCCAACG
4148935 CGAATTTGAC
131 CGAATTTGAC
4148945 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* * *
4149010 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTCCACATTCATTTGACTATCCCAACG
66 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCCCAACG
*
4149075 TGAATTTGAC
131 CGAATTTGAC
4149085 TAT
1 TAT
4149088 CGCAACGCGA
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCCCAACG
CGAATTTGAC
Found at i:4149083 original size:20 final size:20
Alignment explanation
Indices: 4149058--4149243 Score: 206
Period size: 20 Copynumber: 9.7 Consensus size: 20
4149048 TTCCACATTC
* *
4149058 ATTTGACTATCCCAACGTGA
1 ATTTGACTATCGCAACGCGA
4149078 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
4149098 ATTTGACTATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
* *
4149118 ATTTGACTATCACAACTCGA
1 ATTTGACTATCGCAACGCGA
4149138 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
4149158 ATTTGATTATCACAACGGGA
1 ATTTGACTATCGCAACGCGA
*
4149178 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
4149198 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
4149212 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
4149232 A-TTGACTTTCGC
1 ATTTGACTATCGC
4149244 GTTGCGATTT
Statistics
Matches: 139, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
14 10 0.07
16 1 0.01
18 1 0.01
19 9 0.06
20 118 0.85
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:4149262 original size:20 final size:21
Alignment explanation
Indices: 4149233--4149290 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
4149223 GCAACGCGAA
4149233 TTGA-CTTTCGCGTTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
4149253 TTG-GCTTTCGCATTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
4149273 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
4149291 AAGTGTACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:4149406 original size:36 final size:36
Alignment explanation
Indices: 4149365--4149473 Score: 119
Period size: 36 Copynumber: 3.3 Consensus size: 36
4149355 TTACATTTCA
4149365 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
* * *
4149401 ATCAA-T---TAA--ACAAAT--CAACT-TTTACAA
1 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
*
4149428 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
4149464 ATCAATTAAA
1 ATCAATTAAA
4149474 CAAATCAGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
27 11 0.19
28 4 0.07
30 6 0.11
31 2 0.04
32 3 0.05
33 6 0.11
35 4 0.07
36 21 0.37
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.28
Consensus pattern (36 bp):
ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
Found at i:4149450 original size:63 final size:64
Alignment explanation
Indices: 4149342--4149502 Score: 254
Period size: 63 Copynumber: 2.5 Consensus size: 64
4149332 GATTGAAATC
*
4149342 AACAAATCAACTTTTACATTTCAATCAATTAAATAAGCACAAATAAGAATTATTTACACATCAAT
1 AACAAATCAACTTTTACA--T-AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAAT
4149407 TA
63 TA
4149409 AACAAATCAACTTTTACA-AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACATAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTA
*
4149472 AACAAATCAGACTTTTA-AGAATCAATTAAAC
1 AACAAATCA-ACTTTTACATAATCAATTAAAC
4149503 TATAAAAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
63 54 0.59
64 19 0.21
67 18 0.20
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.29
Consensus pattern (64 bp):
AACAAATCAACTTTTACATAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTA
Found at i:4150228 original size:42 final size:42
Alignment explanation
Indices: 4150169--4150290 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
4150159 ATGAATCGGG
* * *
4150169 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGATGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGAGGC
** * *
4150211 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACCTCTTGAACGATGACAGAGGC
* *
4150253 CTCTTGAACGATAGGAGAGG-CCTCTTGAACGATGACAG
1 CTCTTGAACGGTGGGAG-GGACCTCTTGAACGATGACAG
4150291 GTGAGTCGGG
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 60 0.92
43 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGAGGC
Found at i:4150235 original size:21 final size:21
Alignment explanation
Indices: 4150169--4150283 Score: 79
Period size: 21 Copynumber: 5.5 Consensus size: 21
4150159 ATGAATCGGG
* *
4150169 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* * ** **
4150190 CTCTTCAACGATGACAGATGC
1 CTCTTGAACGGTGGGAGGGGC
*
4150211 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
* **
4150232 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
* * *
4150253 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGGC
4150274 CTCTTGAACG
1 CTCTTGAACG
4150284 ATGACAGGTG
Statistics
Matches: 67, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
20 3 0.04
21 62 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:4150835 original size:20 final size:20
Alignment explanation
Indices: 4150810--4150855 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
4150800 ACTTAAAATT
4150810 GCAACGCGGAA-ATGACTATC
1 GCAACGC-GAATATGACTATC
*
4150830 GCAACGCGAATTTGACTATC
1 GCAACGCGAATATGACTATC
4150850 GCAACG
1 GCAACG
4150856 GGATAATCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (20 bp):
GCAACGCGAATATGACTATC
Found at i:4151782 original size:128 final size:128
Alignment explanation
Indices: 4151613--4151868 Score: 494
Period size: 128 Copynumber: 2.0 Consensus size: 128
4151603 CAAGGGGGAA
*
4151613 TCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCCAAATCATT
1 TCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCCAAACCATT
*
4151678 TAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
66 CAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
4151741 TCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCCAAACCATT
1 TCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCCAAACCATT
4151806 CAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
66 CAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
4151869 CTTTGAAATG
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 126 1.00
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (128 bp):
TCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCCAAACCATT
CAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
Found at i:4154287 original size:20 final size:20
Alignment explanation
Indices: 4154250--4154288 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4154240 AGATTGAGTG
* * *
4154250 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
4154270 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
4154289 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:4154516 original size:20 final size:22
Alignment explanation
Indices: 4154442--4154524 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 22
4154432 AGAACCCCAG
* **
4154442 GGGGGGTATCGATTCCC-CTGT
1 GGGGGGAATCGATTCCCTCAAT
*
4154463 GGGGGGAATCGGTTCCCCTTCAA-
1 GGGGGGAATCGATT-CCC-TCAAT
*
4154486 AGGGGGAATCGATTCCCTC-AT
1 GGGGGGAATCGATTCCCTCAAT
4154507 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGATTCCCTC
4154525 TGCACCAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
20 13 0.25
21 19 0.37
22 6 0.12
23 12 0.24
24 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (22 bp):
GGGGGGAATCGATTCCCTCAAT
Found at i:4160539 original size:129 final size:128
Alignment explanation
Indices: 4160283--4160539 Score: 471
Period size: 130 Copynumber: 2.0 Consensus size: 128
4160273 AAGGGGGGAA
* *
4160283 TCGGTACCCGCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTTGGAGCCAAACCATT
1 TCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCCAAACCATT
4160348 CAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
66 CAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
4160411 TCGGTACCCCCTTGGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCCAAACCA
1 TCGGTACCCCC-T-GGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCCAAACCA
4160476 TTCAGGGGGGAATCGGTACCCCCT-GGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
64 TTCAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
4160540 CTTTGAAATG
Statistics
Matches: 125, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
128 10 0.08
129 41 0.33
130 74 0.59
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (128 bp):
TCGGTACCCCCTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCCAAACCATT
CAGGGGGGAATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGG
Found at i:4160806 original size:33 final size:34
Alignment explanation
Indices: 4160764--4160842 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 34
4160754 GTTTTCAATA
** *
4160764 CATTGCGATTTTCACGTTGCGATTTTTA-TTTCG
1 CATTGCGATTTTCACGTTGCGATAGTCATTTTCG
* *
4160797 CATTGCGATTATCCCGTTGCGATAGTCATTTTCG
1 CATTGCGATTTTCACGTTGCGATAGTCATTTTCG
4160831 CATTGCGATTTT
1 CATTGCGATTTT
4160843 TAAGTTTCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 23 0.59
34 16 0.41
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.44
Consensus pattern (34 bp):
CATTGCGATTTTCACGTTGCGATAGTCATTTTCG
Found at i:4163276 original size:22 final size:22
Alignment explanation
Indices: 4163249--4163291 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4163239 GATGGAGATA
4163249 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
4163271 GACGGATTTCGCCGGAGATGG
1 GACGGATTTCGCCGGAGATGG
4163292 AGACAGATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.44, T:0.19
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:4163491 original size:20 final size:20
Alignment explanation
Indices: 4163466--4163535 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
4163456 ATTTTGTATT
*
4163466 ATCGCAATGCGATAGTCAGA
1 ATCGCATTGCGATAGTCAGA
4163486 ATCGCATTGCGATAGTCAGA
1 ATCGCATTGCGATAGTCAGA
4163506 ATCGCATTGCGATAGTCAGA
1 ATCGCATTGCGATAGTCAGA
*
4163526 ATCGCGTTGC
1 ATCGCATTGC
4163536 TATTTACATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGA
Found at i:4163627 original size:19 final size:19
Alignment explanation
Indices: 4163603--4163639 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4163593 TGTGATACTG
*
4163603 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
4163622 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
4163640 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:4169006 original size:2 final size:2
Alignment explanation
Indices: 4168999--4169040 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4168989 AAAAGAAATT
4168999 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4169041 CTAAACTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4176996 original size:36 final size:37
Alignment explanation
Indices: 4176926--4176996 Score: 117
Period size: 36 Copynumber: 1.9 Consensus size: 37
4176916 AAATTATAAT
* *
4176926 TTTTATTTTAAATTGATCCTTACATTTTAAAATATGA
1 TTTTATTTTAAATTAATCCTTAAATTTTAAAATATGA
4176963 TTTTATTTTAAATTAAT-CTTAAATTTTAAAATAT
1 TTTTATTTTAAATTAATCCTTAAATTTTAAAATAT
4176997 TTCATATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 16 0.50
37 16 0.50
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (37 bp):
TTTTATTTTAAATTAATCCTTAAATTTTAAAATATGA
Found at i:4177429 original size:16 final size:16
Alignment explanation
Indices: 4177408--4177440 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4177398 TAATAAATAA
4177408 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4177424 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4177440 A
1 A
4177441 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4177521 original size:10 final size:10
Alignment explanation
Indices: 4177506--4177580 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
4177496 CATTTAATAA
4177506 ATAAACGAAC
1 ATAAACGAAC
4177516 ATAAACGAAC
1 ATAAACGAAC
4177526 ----ACGAAC
1 ATAAACGAAC
4177532 ATAAACGAAC
1 ATAAACGAAC
** *
4177542 ACGAAC-ATAA
1 ATAAACGA-AC
4177552 ATGAACACGAAC
1 AT-AA-ACGAAC
4177564 ATAAACGAAC
1 ATAAACGAAC
4177574 ATAAACG
1 ATAAACG
4177581 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:4177531 original size:16 final size:16
Alignment explanation
Indices: 4177510--4177574 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
4177500 TAATAAATAA
4177510 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4177526 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
4177542 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
4177558 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4177574 A
1 A
4177575 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4178339 original size:14 final size:14
Alignment explanation
Indices: 4178322--4178377 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
4178312 AATGAACATA
*
4178322 AACGAACATAATCG
1 AACGAACATAACCG
4178336 AACGAACAT-A---
1 AACGAACATAACCG
*
4178346 AACGAACATAACCA
1 AACGAACATAACCG
4178360 AACGAACATAACCG
1 AACGAACATAACCG
4178374 AACG
1 AACG
4178378 TTCACGAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:4178342 original size:24 final size:24
Alignment explanation
Indices: 4178302--4178376 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
4178292 GATTGGGTTA
*
4178302 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
4178326 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
4178350 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
4178374 AAC
1 AAC
4178377 GTTCACGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:4178763 original size:33 final size:34
Alignment explanation
Indices: 4178700--4178783 Score: 152
Period size: 33 Copynumber: 2.5 Consensus size: 34
4178690 CCCTATTATA
4178700 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
4178734 TATATATATAATATTTTATA-TTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
*
4178767 TATATATAAAATATTTT
1 TATATATATAATATTTT
4178784 CGGGTTCGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 29 0.59
34 20 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:4178806 original size:20 final size:20
Alignment explanation
Indices: 4178776--4178813 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4178766 TTATATATAA
4178776 AATATTTTCGGGTTCGGGTAT
1 AATATTTTCGGG-TCGGGTAT
4178797 AATA-TTTCGGGTCGGGT
1 AATATTTTCGGGTCGGGT
4178814 TCGGGGACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.18, C:0.11, G:0.32, T:0.39
Consensus pattern (20 bp):
AATATTTTCGGGTCGGGTAT
Found at i:4179738 original size:2 final size:2
Alignment explanation
Indices: 4179731--4179765 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4179721 TACAATATTC
4179731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4179766 AAACAGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4183219 original size:13 final size:13
Alignment explanation
Indices: 4183201--4183250 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
4183191 CGATAAATCT
4183201 AAATACTTAATTG
1 AAATACTTAATTG
4183214 AAATACTTAATT-
1 AAATACTTAATTG
* *
4183226 AACTCAACATAATTG
1 AAAT--ACTTAATTG
4183241 AAATACTTAA
1 AAATACTTAA
4183251 ATACTTCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 17 0.57
14 7 0.23
15 3 0.10
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (13 bp):
AAATACTTAATTG
Found at i:4183332 original size:32 final size:33
Alignment explanation
Indices: 4183236--4183334 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
4183226 AACTCAACAT
* * *
4183236 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
*
4183269 AATTTAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
4183302 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
4183334 A
1 A
4183335 TTGAAACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 12 0.19
33 50 0.81
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:4183353 original size:21 final size:21
Alignment explanation
Indices: 4183329--4183368 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4183319 ACTTCAAGTT
4183329 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
4183350 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
4183369 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:4188202 original size:33 final size:33
Alignment explanation
Indices: 4188165--4188227 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
4188155 AAATCCACCA
* *
4188165 CCTCCACGACCACCACCTCTACCGCCACCTCTG
1 CCTCCACCACCACCACCTCTACCACCACCTCTG
* * *
4188198 CCTCCTCCACGACCACCTCTTCCACCACCT
1 CCTCCACCACCACCACCTCTACCACCACCT
4188228 TGTACCAGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.17, C:0.59, G:0.06, T:0.17
Consensus pattern (33 bp):
CCTCCACCACCACCACCTCTACCACCACCTCTG
Found at i:4191567 original size:2 final size:2
Alignment explanation
Indices: 4191556--4191607 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
4191546 AAATTTACTA
4191556 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4191597 AT AT AT AT AT A
1 AT AT AT AT AT A
4191608 ATTATTTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4191865 original size:2 final size:2
Alignment explanation
Indices: 4191858--4191901 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4191848 TTAGTATTAG
4191858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4191900 AT
1 AT
4191902 TAAATCTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4197615 original size:48 final size:50
Alignment explanation
Indices: 4197558--4197666 Score: 134
Period size: 48 Copynumber: 2.2 Consensus size: 50
4197548 GCGCTCTTTG
* ** * *
4197558 TCCGTGCTATATGCTGATTTGACGT-CACGTGAGGTATAGCGC-CCCCTTA
1 TCCGCGCTATATGCTGACATGACGTACACGTG-GGTATAACGCGCCCCTGA
*
4197607 -CCGCGCTATATGCTGACATGACTTACACGTGGGTATAACGCGCCCCTGA
1 TCCGCGCTATATGCTGACATGACGTACACGTGGGTATAACGCGCCCCTGA
4197656 TCCGCGCTATA
1 TCCGCGCTATA
4197667 CGTCACGTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 29 0.57
49 12 0.24
50 10 0.20
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TCCGCGCTATATGCTGACATGACGTACACGTGGGTATAACGCGCCCCTGA
Found at i:4198621 original size:35 final size:34
Alignment explanation
Indices: 4198536--4198622 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
4198526 AATATAATTT
*
4198536 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
4198570 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
4198608 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
4198623 ATTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:4198726 original size:16 final size:17
Alignment explanation
Indices: 4198707--4198739 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4198697 TTACAATTTA
*
4198707 ACAAA-ATAAAATAAAT
1 ACAAATATAAAAAAAAT
4198723 ACAAATATAAAAAAAAT
1 ACAAATATAAAAAAAAT
4198740 CTATCGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
ACAAATATAAAAAAAAT
Found at i:4199605 original size:22 final size:22
Alignment explanation
Indices: 4199573--4199624 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
4199563 GTCTTACCGT
4199573 GTCTATATGTGCTATGCAACGC
1 GTCTATATGTGCTATGCAACGC
* *
4199595 GTCTATCTGTGCTATGCAACTC
1 GTCTATATGTGCTATGCAACGC
*
4199617 GTCCATAT
1 GTCTATAT
4199625 TGCGAGGTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (22 bp):
GTCTATATGTGCTATGCAACGC
Found at i:4200986 original size:17 final size:18
Alignment explanation
Indices: 4200966--4201006 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4200956 AAATTATATT
4200966 AGTAAAAT-ATTAAATAA
1 AGTAAAATGATTAAATAA
*
4200983 AGTAAAATGCTTAAATAA
1 AGTAAAATGATTAAATAA
*
4201001 ATTAAA
1 AGTAAA
4201007 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AGTAAAATGATTAAATAA
Found at i:4201292 original size:51 final size:51
Alignment explanation
Indices: 4201161--4201303 Score: 139
Period size: 51 Copynumber: 2.8 Consensus size: 51
4201151 CCCCCTGTAC
* ** * * *
4201161 CGCGCTATACCCCACGTGTCAGATAAA-CATC-TATAGCGTGGATCAGGGGG
1 CGCGCTATA-CCCACGTGTAAGCCAAATCAGCATATAGTGCGGATCAGGGGG
* ** *
4201211 CGCGCTATACCCACGTGTAAGCTATGTCAGCGTATAGTGCGGATCAGGGGG
1 CGCGCTATACCCACGTGTAAGCCAAATCAGCATATAGTGCGGATCAGGGGG
**
4201262 CGCGCTATACCTCACGTG-GCGCCAAATCAGCATATAGTGCGG
1 CGCGCTATACC-CACGTGTAAGCCAAATCAGCATATAGTGCGG
4201304 GGTAAGGAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
49 13 0.17
50 12 0.16
51 46 0.60
52 6 0.08
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (51 bp):
CGCGCTATACCCACGTGTAAGCCAAATCAGCATATAGTGCGGATCAGGGGG
Found at i:4208925 original size:21 final size:20
Alignment explanation
Indices: 4208895--4208956 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
4208885 CAGAACCCTA
*
4208895 GGGGGTATCGATTCCCCTGT
1 GGGGGGATCGATTCCCCTGT
* **
4208915 GGGGGGAATCGGTT-CCCTCAA
1 GGGGGG-ATCGATTCCCCT-GT
4208936 GGGGGGATCGATTCCCTCTGT
1 GGGGGGATCGATTCCC-CTGT
4208957 ACCACAATGC
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
20 15 0.48
21 14 0.45
22 2 0.06
ACGTcount: A:0.13, C:0.24, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGGGGATCGATTCCCCTGT
Found at i:4208939 original size:20 final size:20
Alignment explanation
Indices: 4208916--4208953 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4208906 TTCCCCTGTG
*
4208916 GGGGGAATCGGTTCCCTCAA
1 GGGGGAATCGATTCCCTCAA
*
4208936 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
4208954 TGTACCACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAA
Found at i:4213626 original size:14 final size:15
Alignment explanation
Indices: 4213609--4213642 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4213599 CACAACCTTG
4213609 GATGAGT-GAGGTTT
1 GATGAGTAGAGGTTT
4213623 GATGAGTGAGAGGTTT
1 GATGAGT-AGAGGTTT
4213639 GATG
1 GATG
4213643 TATCCTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (15 bp):
GATGAGTAGAGGTTT
Found at i:4220358 original size:197 final size:199
Alignment explanation
Indices: 4220002--4220398 Score: 755
Period size: 197 Copynumber: 2.0 Consensus size: 199
4219992 ATGGATCGAG
4220002 TCAATAAGATACGAGTGATGATGCTACGGATTCTTACATCACTTGTGTTATCAAAGTGAATGAGC
1 TCAATAAGATACGAGTGATGATGCTACGGATTCTTACATCACTTGTGTTATCAAAGTGAATGAGC
4220067 ACAACGAAGCTAGTGAGTTACATCATGAACACGATTTGGTGGTATAAGACAAGCTCAAAGGTGAA
66 ACAACGAAGCTAGTGAGTTACATCATGAACACGATTTGGTGGTATAAGACAAGCTCAAAGGTGAA
4220132 AGTGACAGGTTGGGATAGATGTCTCTCAA-CTA-TTCATTATTGCTCCAAGTAGGATTGTAAATG
131 AGTGACAGGTTGGGATAGATGTCTCTCAACCTATTTCATTATTGCTCCAAGTAGGATTGTAAATG
4220195 AGAC
196 AGAC
4220199 TCAATGAAGATACGAGTGATG-TGCTACGGATTCTTACATCACTTGTGTTATCAAAGTGAATGAG
1 TCAAT-AAGATACGAGTGATGATGCTACGGATTCTTACATCACTTGTGTTATCAAAGTGAATGAG
4220263 CACAACGAAGCTAGTGAGTTACATCATGAACACGATTTGGTGGTATAAGACAAGCTCAAAGGTGA
65 CACAACGAAGCTAGTGAGTTACATCATGAACACGATTTGGTGGTATAAGACAAGCTCAAAGGTGA
4220328 AAGTGACAGGTTGGGATAGATGTCTCTCAACTCTATTTCATTATTGCTCCAAGTAGGATTGTAAA
130 AAGTGACAGGTTGGGATAGATGTCTCTCAAC-CTATTTCATTATTGCTCCAAGTAGGATTGTAAA
4220393 TGAGAC
194 TGAGAC
4220399 GAGATAGATC
Statistics
Matches: 196, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
197 143 0.73
198 15 0.08
199 3 0.02
200 35 0.18
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (199 bp):
TCAATAAGATACGAGTGATGATGCTACGGATTCTTACATCACTTGTGTTATCAAAGTGAATGAGC
ACAACGAAGCTAGTGAGTTACATCATGAACACGATTTGGTGGTATAAGACAAGCTCAAAGGTGAA
AGTGACAGGTTGGGATAGATGTCTCTCAACCTATTTCATTATTGCTCCAAGTAGGATTGTAAATG
AGAC
Found at i:4220540 original size:26 final size:26
Alignment explanation
Indices: 4220504--4220554 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
4220494 ACAAGCTGAA
4220504 ACGAGCTACTCGATATTCGACTCGAT
1 ACGAGCTACTCGATATTCGACTCGAT
4220530 ACGAGCTACTCGATATTCGACTCGA
1 ACGAGCTACTCGATATTCGACTCGA
4220555 AAAGCTCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (26 bp):
ACGAGCTACTCGATATTCGACTCGAT
Found at i:4227189 original size:105 final size:105
Alignment explanation
Indices: 4226999--4227189 Score: 226
Period size: 105 Copynumber: 1.8 Consensus size: 105
4226989 CATATAGGTA
* * * * * **
4226999 ACAACATTAGGTTCAATGCCTTGTTTTCTCATTGTGTCAACGATATCTTCAGCTTTGGAAACCAT
1 ACAACATTAGGCTCAATGCCTTGCTTCCTCATTGTGTCAACCATATCATCAGCTTCAGAAACCAT
* *
4227064 TCCCTCCTTGCAATAGGTATCAACCAATACACTATACGTG
66 ACCCTCCTTGCAATACGTATCAACCAATACACTATACGTG
*
4227104 ACAACATTAGGCTCAATTCCTTGCTTCCTCATTGTG-CGAACCATATCAAT-AGCTTCAGAAATC
1 ACAACATTAGGCTCAATGCCTTGCTTCCTCATTGTGTC-AACCATATC-ATCAGCTTCAGAAA-C
* *
4227167 C-TACCGTCCTTGCACTACGTATC
63 CATACCCTCCTTGCAATACGTATC
4227190 GATCAATGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
104 1 0.01
105 67 0.94
106 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (105 bp):
ACAACATTAGGCTCAATGCCTTGCTTCCTCATTGTGTCAACCATATCATCAGCTTCAGAAACCAT
ACCCTCCTTGCAATACGTATCAACCAATACACTATACGTG
Found at i:4229479 original size:20 final size:20
Alignment explanation
Indices: 4229450--4229489 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4229440 TAATCCTATT
4229450 CACTGATAATCTTACATTCC
1 CACTGATAATCTTACATTCC
* *
4229470 CACTGGTAATCTTCCATTCC
1 CACTGATAATCTTACATTCC
4229490 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.07, T:0.35
Consensus pattern (20 bp):
CACTGATAATCTTACATTCC
Found at i:4230497 original size:14 final size:14
Alignment explanation
Indices: 4230478--4230504 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4230468 ATTTGAATAT
4230478 TTTTTGATTAATTA
1 TTTTTGATTAATTA
4230492 TTTTTGATTAATT
1 TTTTTGATTAATT
4230505 GTTTAAACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTTGATTAATTA
Found at i:4235737 original size:31 final size:31
Alignment explanation
Indices: 4235701--4235763 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
4235691 CCCAAGAGTT
4235701 TGAGAGTTCCTAATGAGAAAGACATATTGAA
1 TGAGAGTTCCTAATGAGAAAGACATATTGAA
* *
4235732 TGAGAGTTCCTAGTGAGAAGGACATATTGAA
1 TGAGAGTTCCTAATGAGAAAGACATATTGAA
4235763 T
1 T
4235764 TCACTGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (31 bp):
TGAGAGTTCCTAATGAGAAAGACATATTGAA
Found at i:4242651 original size:78 final size:78
Alignment explanation
Indices: 4242518--4242668 Score: 194
Period size: 78 Copynumber: 1.9 Consensus size: 78
4242508 AAGATAATGG
** * *
4242518 TATATAAAATGAGTTTTGAGATGATACAACGAATATCATCTACAGCTGTTACCAAGGGAATTAAT
1 TATATAAAATGACCTTTGAGATGATACAACGAATATCATCCACAGCTGTTACCAAGGCAATTAAT
*
4242583 GGTAGAGTCATTT
66 AGTAGAGTCATTT
* * * * * * *
4242596 TATATTAAATGACCTTTGAGATGATACAATGGATCTCATCCATAGTTGTTGCCAAGGCAATTAAT
1 TATATAAAATGACCTTTGAGATGATACAACGAATATCATCCACAGCTGTTACCAAGGCAATTAAT
4242661 AGTAGAGT
66 AGTAGAGT
4242669 TAGCGGCACA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (78 bp):
TATATAAAATGACCTTTGAGATGATACAACGAATATCATCCACAGCTGTTACCAAGGCAATTAAT
AGTAGAGTCATTT
Found at i:4243247 original size:16 final size:16
Alignment explanation
Indices: 4243226--4243259 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4243216 TTACTATTCA
*
4243226 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
4243242 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
4243258 CG
1 CG
4243260 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:4251072 original size:17 final size:18
Alignment explanation
Indices: 4251050--4251089 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
4251040 TGACCGGTCT
4251050 GACCCGAACCGTTGA-CC
1 GACCCGAACCGTTGACCC
*
4251067 GACCCGACCCGTTGACCC
1 GACCCGAACCGTTGACCC
4251085 GACCC
1 GACCC
4251090 AGTGACATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.20, C:0.47, G:0.23, T:0.10
Consensus pattern (18 bp):
GACCCGAACCGTTGACCC
Found at i:4251144 original size:29 final size:28
Alignment explanation
Indices: 4251091--4251257 Score: 167
Period size: 29 Copynumber: 5.9 Consensus size: 28
4251081 ACCCGACCCA
* *
4251091 GTGACATTATGGGAATTTTTGTGAAAAAG
1 GTGACATTCTGGGAATATTT-TGAAAAAG
* *
4251120 GTGATATTCTGGGGAATATTTTGAAAAAT
1 GTGACATTCT-GGGAATATTTTGAAAAAG
4251149 GTGACATTCTGGGAAATATTTTGAAAAAG
1 GTGACATTCTGGG-AATATTTTGAAAAAG
* * * *
4251178 TTGACATTATGGGAATTATTTTGAACAAT
1 GTGACATTCTGGGAA-TATTTTGAAAAAG
* *
4251207 GTGACATGCTGGGAAT-TATTTAAAAAAG
1 GTGACATTCTGGGAATAT-TTTGAAAAAG
* *
4251235 GTGATATTTTGGGAAT-TTTTGAA
1 GTGACATTCTGGGAATATTTTGAA
4251258 TATGGACTAT
Statistics
Matches: 114, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
27 6 0.05
28 27 0.24
29 72 0.63
30 9 0.08
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (28 bp):
GTGACATTCTGGGAATATTTTGAAAAAG
Found at i:4251198 original size:58 final size:58
Alignment explanation
Indices: 4251091--4251251 Score: 193
Period size: 58 Copynumber: 2.8 Consensus size: 58
4251081 ACCCGACCCA
* * *
4251091 GTGACATTATGGG-AATTTTTGTGAAAAAGGTGATATTCTGGGGAA-TATTTTGAAAAAT
1 GTGACATTCTGGGAAATATTT-TGAAAAAGGTGATATTAT-GGGAATTATTTTGAAAAAT
* * *
4251149 GTGACATTCTGGGAAATATTTTGAAAAAGTTGACATTATGGGAATTATTTTGAACAAT
1 GTGACATTCTGGGAAATATTTTGAAAAAGGTGATATTATGGGAATTATTTTGAAAAAT
* * * *
4251207 GTGACATGCTGGGAATTA-TTTAAAAAAGGTGATATTTTGGGAATT
1 GTGACATTCTGGGAAATATTTTGAAAAAGGTGATATTATGGGAATT
4251252 TTTGAATATG
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
57 28 0.31
58 55 0.62
59 6 0.07
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (58 bp):
GTGACATTCTGGGAAATATTTTGAAAAAGGTGATATTATGGGAATTATTTTGAAAAAT
Found at i:4258198 original size:63 final size:63
Alignment explanation
Indices: 4258151--4258283 Score: 194
Period size: 63 Copynumber: 2.1 Consensus size: 63
4258141 CCTCACCAGT
* *
4258151 ACCCTCATCAAGACCAGCAGCAACTACATTTTCAGCAACCCTCTCAGCAGCAAAATCAATAAC
1 ACCCTCATCAAGACCAGCAACAACTACATTTTCAGCAACCCTCTCAGCAGCAAAATCAACAAC
** * * * *
4258214 ACCCTCATCAAGACCATTAACAACTATATTTTCAGTAACCCTCTCAGCAGTACAATCAACAAC
1 ACCCTCATCAAGACCAGCAACAACTACATTTTCAGCAACCCTCTCAGCAGCAAAATCAACAAC
4258277 ACCCTCA
1 ACCCTCA
4258284 GTAGCATAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.38, C:0.35, G:0.08, T:0.20
Consensus pattern (63 bp):
ACCCTCATCAAGACCAGCAACAACTACATTTTCAGCAACCCTCTCAGCAGCAAAATCAACAAC
Found at i:4258217 original size:75 final size:76
Alignment explanation
Indices: 4258077--4258220 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 76
4258067 ATCTCCAATA
* * * * *
4258077 TCATCAAGACCAGTAGCATCAACTACATTTTCAGCAACCCTCTCAGCATCACAATCAGCAGCACC
1 TCATCAAGACCA--AGCAGCAACTACATTTTCAGCAACCCTCTCAGCAGCAAAATCAACAACACC
4258142 CTCACCAGTACCC
64 CTCACCAGTACCC
*
4258155 TCATCAAGACC-AGCAGCAACTACATTTTCAGCAACCCTCTCAGCAGCAAAATCAATAACACCCT
1 TCATCAAGACCAAGCAGCAACTACATTTTCAGCAACCCTCTCAGCAGCAAAATCAACAACACCCT
4258219 CA
66 CA
4258221 TCAAGACCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 49 0.82
78 11 0.18
ACGTcount: A:0.35, C:0.37, G:0.10, T:0.19
Consensus pattern (76 bp):
TCATCAAGACCAAGCAGCAACTACATTTTCAGCAACCCTCTCAGCAGCAAAATCAACAACACCCT
CACCAGTACCC
Found at i:4260405 original size:45 final size:46
Alignment explanation
Indices: 4260309--4260417 Score: 159
Period size: 45 Copynumber: 2.4 Consensus size: 46
4260299 ATGCACATAC
* * *
4260309 CATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCTGGCTTTTATGAAAACATCGAATGCACTT
*
4260355 TATGCATCGATGCACTCTGGCTTGTT-TG-AAACATCGAATGCACTT
1 CATGCATCGATGCACTCTGGCTT-TTATGAAAACATCGAATGCACTT
4260400 CATGCATCGATGCACTCT
1 CATGCATCGATGCACTCT
4260418 TAATGCACCG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
45 33 0.58
46 22 0.39
47 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (46 bp):
CATGCATCGATGCACTCTGGCTTTTATGAAAACATCGAATGCACTT
Found at i:4260660 original size:17 final size:17
Alignment explanation
Indices: 4260638--4260676 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
4260628 GATCAACAAT
4260638 AAGAAACAACAATCAAC
1 AAGAAACAACAATCAAC
*
4260655 AAGAAACAATAATCAAC
1 AAGAAACAACAATCAAC
4260672 AAGAA
1 AAGAA
4260677 TCAAGAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.67, C:0.18, G:0.08, T:0.08
Consensus pattern (17 bp):
AAGAAACAACAATCAAC
Found at i:4262590 original size:24 final size:24
Alignment explanation
Indices: 4262558--4262616 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
4262548 TTAAAGCTTC
4262558 TTTTGATAAAGTTGGATCAAAACA
1 TTTTGATAAAGTTGGATCAAAACA
*
4262582 TTTTGATAAAGTTGGATCAAAACG
1 TTTTGATAAAGTTGGATCAAAACA
*
4262606 TTTTGAAAAAG
1 TTTTGATAAAG
4262617 GAGAAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (24 bp):
TTTTGATAAAGTTGGATCAAAACA
Found at i:4263563 original size:26 final size:25
Alignment explanation
Indices: 4263534--4263585 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
4263524 TATGCATTGT
4263534 CTTGTTAGATGACTGTTCTAGATATA
1 CTTGTT-GATGACTGTTCTAGATATA
4263560 C---TTGATGACTGTTCTAGATATA
1 CTTGTTGATGACTGTTCTAGATATA
4263582 CTTG
1 CTTG
4263586 GGTTCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
22 20 0.87
23 2 0.09
26 1 0.04
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (25 bp):
CTTGTTGATGACTGTTCTAGATATA
Found at i:4263569 original size:22 final size:22
Alignment explanation
Indices: 4263541--4263585 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4263531 TGTCTTGTTA
4263541 GATGACTGTTCTAGATATACTT
1 GATGACTGTTCTAGATATACTT
4263563 GATGACTGTTCTAGATATACTT
1 GATGACTGTTCTAGATATACTT
4263585 G
1 G
4263586 GGTTCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (22 bp):
GATGACTGTTCTAGATATACTT
Found at i:4266304 original size:23 final size:23
Alignment explanation
Indices: 4266233--4266314 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
4266223 ACACTTAACA
4266233 GTGCATCGATGCA-TCCCTTTGAAT
1 GTGCATCGATGCACT-CC-TTGAAT
* * *
4266257 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACTCCTTGAAT
*
4266278 GTGCACCGATGCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
4266301 GTGCATCGATGCAC
1 GTGCATCGATGCAC
4266315 ACTGCCATGC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
21 13 0.28
22 3 0.06
23 21 0.45
24 10 0.21
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACTCCTTGAAT
Found at i:4267019 original size:27 final size:30
Alignment explanation
Indices: 4266989--4267067 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
4266979 CTTAACCATG
*
4266989 TCAAATC-TT-AAA-CGCCCTAGGACTTCA
1 TCAAATCGTTCAAACCGACCTAGGACTTCA
*
4267016 TCAAGTCGTTCAAACCGACCTAGGACTTCA
1 TCAAATCGTTCAAACCGACCTAGGACTTCA
*
4267046 TCAAGTCGTTCAAACCGACCTA
1 TCAAATCGTTCAAACCGACCTA
4267068 CTAATCCTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 6 0.13
28 2 0.04
29 3 0.06
30 36 0.77
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (30 bp):
TCAAATCGTTCAAACCGACCTAGGACTTCA
Found at i:4267038 original size:30 final size:30
Alignment explanation
Indices: 4267004--4267067 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
4266994 TCTTAAACGC
4267004 CCTAGGACTTCATCAAGTCGTTCAAACCGA
1 CCTAGGACTTCATCAAGTCGTTCAAACCGA
4267034 CCTAGGACTTCATCAAGTCGTTCAAACCGA
1 CCTAGGACTTCATCAAGTCGTTCAAACCGA
4267064 CCTA
1 CCTA
4267068 CTAATCCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (30 bp):
CCTAGGACTTCATCAAGTCGTTCAAACCGA
Found at i:4267949 original size:21 final size:21
Alignment explanation
Indices: 4267907--4267950 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4267897 ACTTAGGGAA
*
4267907 CTAGTTCTTCACGGGCTGCTC
1 CTAGTTCTTCACGGGCTCCTC
* *
4267928 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGGGCTCCTC
4267949 CT
1 CT
4267951 CCGGCACCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.36, G:0.18, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGGGCTCCTC
Found at i:4271867 original size:3 final size:3
Alignment explanation
Indices: 4271859--4271915 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
4271849 TTATCCATTT
* * *
4271859 TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4271907 TTA TTA TTA
1 TTA TTA TTA
4271916 AATATATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4278441 original size:83 final size:83
Alignment explanation
Indices: 4278302--4278467 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
4278292 TTTGTCCATA
4278302 CATTGAAAGCTCCTTATTTAAATCATCTAATGGGGAATGCAACCAGAAATTTTGCAGATTTGGTC
1 CATTGAAAGCTCCTTATTTAAATCATCTAATGGGGAATGCAACCAGAAATTTTGCAGATTTGGTC
4278367 ATTTCTGGAGAACTCATT
66 ATTTCTGGAGAACTCATT
4278385 CATTGAAAGCTCCTTATTTAAATCATCTAATGGGGAATGCAACCAGAAATTTTGCAGATTTGGTC
1 CATTGAAAGCTCCTTATTTAAATCATCTAATGGGGAATGCAACCAGAAATTTTGCAGATTTGGTC
4278450 ATTTCTGGAGAACTCATT
66 ATTTCTGGAGAACTCATT
4278468 GAAAATGTCT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (83 bp):
CATTGAAAGCTCCTTATTTAAATCATCTAATGGGGAATGCAACCAGAAATTTTGCAGATTTGGTC
ATTTCTGGAGAACTCATT
Found at i:4278665 original size:108 final size:102
Alignment explanation
Indices: 4278478--4278687 Score: 366
Period size: 108 Copynumber: 2.0 Consensus size: 102
4278468 GAAAATGTCT
4278478 TGAAAGTGGAAATTGAATCAATGAAGGGTCTAGTTCCAAAATCCTATGTACGAAAAAAAGAATGA
1 TGAAAGTGGAAATTGAATCAATGAAGGGTCTAGTTCCAAAATCCTATGTACGAAAAAAAGAATGA
4278543 ATCAACAATGCAAACTCTTACAACAAGGATTCATCGA
66 ATCAACAATGCAAACTCTTACAACAAGGATTCATCGA
4278580 TGAAAGTGGCAAAATTGAATCAAATGAAGGGTCTAGTTCCAAAAGTCCTATGTACCGAAAAAAGA
1 TGAAAGTGG--AAATTGAATC-AATGAAGGGTCTAGTTCCAAAA-TCCTATGTA-CGAAAAAA-A
4278645 GAATGAATCAACAATGCAAACTCTTACAACAAGGATTCATCGA
60 GAATGAATCAACAATGCAAACTCTTACAACAAGGATTCATCGA
4278688 AAGTGTTACA
Statistics
Matches: 102, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
102 9 0.09
104 10 0.10
105 22 0.22
106 9 0.09
107 8 0.08
108 44 0.43
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (102 bp):
TGAAAGTGGAAATTGAATCAATGAAGGGTCTAGTTCCAAAATCCTATGTACGAAAAAAAGAATGA
ATCAACAATGCAAACTCTTACAACAAGGATTCATCGA
Found at i:4284610 original size:1 final size:1
Alignment explanation
Indices: 4284604--4284689 Score: 64
Period size: 1 Copynumber: 86.0 Consensus size: 1
4284594 AGAAAAGAAC
* ** * * * * * * *
4284604 AAAAAAAGAAAAAAAAAGGAAAAAAAAAAGAAAAGAAAAGAGAAAGAAAGAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
4284669 AAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAA
4284690 GGTGTCAAGA
Statistics
Matches: 63, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:4284617 original size:10 final size:10
Alignment explanation
Indices: 4284596--4284689 Score: 102
Period size: 10 Copynumber: 9.2 Consensus size: 10
4284586 GCTTGAAGAG
4284596 AAAAGAACAAA
1 AAAAGAA-AAA
4284607 AAAAGAAAAA
1 AAAAGAAAAA
4284617 AAAAGGAAAAAA
1 AAAA-G-AAAAA
*
4284629 AAAAGAAAAG
1 AAAAGAAAAA
*
4284639 AAAAGAGAAA
1 AAAAGAAAAA
*
4284649 GAAAGAAAAA
1 AAAAGAAAAA
4284659 AAAA-AGAAAA
1 AAAAGA-AAAA
*
4284669 AAAA-AAGAA
1 AAAAGAAAAA
4284678 AAAAGAAAAA
1 AAAAGAAAAA
4284688 AA
1 AA
4284690 GGTGTCAAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
9 8 0.11
10 45 0.63
11 9 0.13
12 9 0.13
ACGTcount: A:0.85, C:0.01, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:4284649 original size:6 final size:5
Alignment explanation
Indices: 4284594--4284686 Score: 68
Period size: 5 Copynumber: 18.2 Consensus size: 5
4284584 ATGCTTGAAG
* * *
4284594 AGAAA AGAACA AAAAA AGAAA AAAAA AGGAAAA AAAAA AGAAA AGAAA
1 AGAAA AGAA-A AGAAA AGAAA AGAAA A-G-AAA AGAAA AGAAA AGAAA
*
4284642 AGAGAA AG-AA AGAAAA AAAAA AGAAA A-AAA A-AAGA A-AAA AGAAA
1 AGA-AA AGAAA AG-AAA AGAAA AGAAA AGAAA AGAA-A AGAAA AGAAA
4284686 A
1 A
4284687 AAAGGTGTCA
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
4 12 0.17
5 45 0.62
6 11 0.15
7 4 0.06
ACGTcount: A:0.84, C:0.01, G:0.15, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:4284655 original size:42 final size:43
Alignment explanation
Indices: 4284594--4284679 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
4284584 ATGCTTGAAG
*
4284594 AGAAAAGAACAAAAAAAGAAAAAAAAAGGAAAAAAAAAAGAAA
1 AGAAAAGAACAAAAAAAGAAAAAAAAAAGAAAAAAAAAAGAAA
* *
4284637 AGAAAAG-AGAAAGAAAGAAAAAAAAAAGAAAAAAAAAAGAAA
1 AGAAAAGAACAAAAAAAGAAAAAAAAAAGAAAAAAAAAAGAAA
4284679 A
1 A
4284680 AAGAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 33 0.82
43 7 0.17
ACGTcount: A:0.84, C:0.01, G:0.15, T:0.00
Consensus pattern (43 bp):
AGAAAAGAACAAAAAAAGAAAAAAAAAAGAAAAAAAAAAGAAA
Found at i:4285846 original size:94 final size:94
Alignment explanation
Indices: 4285684--4286069 Score: 586
Period size: 94 Copynumber: 4.1 Consensus size: 94
4285674 AACAAGTGCC
*
4285684 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGGTATGAACCCCG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCG
4285749 AAAAACCAATCATTGAATTTGAAAGATGA
66 AAAAACCAATCATTGAATTTGAAAGATGA
*
4285778 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCG
4285843 AAAAACCAATCATTGAATTTGAAAGATGA
66 AAAAACCAATCATTGAATTTGAAAGATGA
* *
4285872 ATGTGCTCATAACATCTTCTGGAAGTGTTCTTTTGAGTTATCTGATCTGGTTTGATATGAACCCC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTC-TTTGAGTTATCTGATCTGGTTTGGTATGAACCCC
*
4285937 G-AAAACCAATCATTGGATTTG-AA-AT-A
65 GAAAAACCAATCATTGAATTTGAAAGATGA
* * * *
4285963 AAGAGACTCAATAGCATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGAA-AC
1 ATGTG-CTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCC
* * *
4286027 C-ACAGAACCAATCATTGGATTTGAAAGATAA
64 CGA-AAAACCAATCATTGAATTTGAAAGATGA
4286058 ATGTGCTCATAG
1 ATGTGCTCATAG
4286070 TACAAATAAA
Statistics
Matches: 269, Mismatches: 15, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
91 6 0.02
92 53 0.20
93 28 0.10
94 145 0.54
95 37 0.14
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (94 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCG
AAAAACCAATCATTGAATTTGAAAGATGA
Found at i:4287081 original size:113 final size:112
Alignment explanation
Indices: 4286878--4287552 Score: 797
Period size: 113 Copynumber: 6.0 Consensus size: 112
4286868 GCAAAGATTC
* * *
4286878 AAATTCATCATTTGATGGATCAGCTTTGCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCA-TTGATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
* * *
4286943 AAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTT
65 AAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* *
4286991 GAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATTCATCATT-GATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
* * *
4287056 AAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTTCAACTTTTTGCTT
65 AAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* *
4287104 GAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATTCATCATT-GATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
* * *
4287169 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 AAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * * * * * *
4287217 AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTG
1 AAATTCATCA-TTGATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAA--C-TCATCTG
* *
4287282 AAGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
62 AAGAAGGAAGAA-AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * * *
4287333 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATAAAAAGAACTCATCTGAAG
1 AAATTCATCA-TTGATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
* * * *
4287398 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTC
65 AAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* ** * * * *
4287446 AAATCCATCACTTGATGGATCAGTTTTTTCCAG--AGAAGTTCATAATGAGAAGAATTCATCT--
1 AAATTCATCA-TTGATGGATCAG-CATTACCAGTTCG-AGTTCATAATAAGAAGAACTCATCTGA
* * * *
4287507 -GAA-GAAGAAAAAGTTCACAAAGAGAAGAGCTTATTCAACCTTTTGC
63 AGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
4287553 ATAATTCTAT
Statistics
Matches: 501, Mismatches: 52, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
109 36 0.07
110 3 0.01
112 5 0.01
113 348 0.69
114 11 0.02
115 1 0.00
116 95 0.19
117 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (112 bp):
AAATTCATCATTGATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGA
AGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
Found at i:4287367 original size:229 final size:225
Alignment explanation
Indices: 4286876--4287552 Score: 864
Period size: 229 Copynumber: 3.0 Consensus size: 225
4286866 TAGCAAAGAT
* *
4286876 TCAAATTCATCATTTGATGGATCAGCTTTGCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATTCATCA-TTGATGGATCAGCTTTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGA
* * * **
4286941 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAA
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTTGA
* * * *
4287006 TGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTT
130 TGGATCAACATTACCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTT
*
4287071 CATAAGGAGAAGAACTTGTTCAACTTTTTGC
195 CATAAGGAGAAGAACTTGTTCAACCTTTTGC
** * *
4287102 TTGAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATTCATCATT-GATGGATCAGCTTTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGA
* * *
4287167 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTATTTGA
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTTGA
* * *
4287232 TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGGAAGAAGAA
130 TGGATCAACATTACCAGGTAGAGTTCATAATAAGAAGAA--C-TCATCTGAAGAAGGAAGAA-AA
* *
4287297 A-TTCATAATGAGAAGAATTTGTTCAACCTTTTGC
191 AGTTCATAAGGAGAAGAACTTGTTCAACCTTTTGC
* * *
4287331 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATAAAAAGAACTCATCTGA
1 TCAAATTCATCA-TTGATGGATCAGCTTTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGA
* * *
4287396 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGA
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTTGA
*** * * *
4287461 TGGATCAGTTTTTTCCA-G-AGAAGTTCATAATGAGAAGAATTCATCT---GAA-GAAGAAAAAG
130 TGGATCA-ACATTACCAGGTAG-AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAAAAG
* * * *
4287520 TTCACAAAGAGAAGAGCTTATTCAACCTTTTGC
193 TTCATAAGGAGAAGAACTTGTTCAACCTTTTGC
4287553 ATAATTCTAT
Statistics
Matches: 394, Mismatches: 48, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
221 3 0.01
222 34 0.09
223 3 0.01
225 2 0.01
226 152 0.39
228 3 0.01
229 187 0.47
230 10 0.03
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (225 bp):
TCAAATTCATCATTGATGGATCAGCTTTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTAAATTCATCATTTGAT
GGATCAACATTACCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTC
ATAAGGAGAAGAACTTGTTCAACCTTTTGC
Found at i:4287507 original size:342 final size:334
Alignment explanation
Indices: 4286878--4287551 Score: 895
Period size: 342 Copynumber: 2.0 Consensus size: 334
4286868 GCAAAGATTC
* * * *
4286878 AAATTCATCATTTGATGGATCAGCTTTGCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * ** *
4286943 AAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATG
66 AAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTCAATG
* *
4287008 GATCAGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCA
131 GATCAGCATTACCAGTTCGAGTTCATAATAAAAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCA
** *
4287073 TAAGGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCAGCATTACCAGTT
196 TAAGGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACCAG-T
* * * * *
4287138 CGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
260 AGAGTTCATAATAAGAAGAACTCATCTGAAGAA-G-A-AA-AAGTTCACAAAGAGAAGAACTTAT
4287203 TCAACCTTTTGTTT
321 TCAACCTTTTGTTT
* *
4287217 AAATTCATTATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTG
1 AAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTG
* *
4287282 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTT-
63 AAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCA-TTC
* * * *
4287346 GATGGATCAGCTTTTCCAGTTCGAGTTCATAATAAAAAGAACTCATCTGAAGAAGGAAGAAGAAG
127 AATGGATCAGCATTACCAGTTCGAGTTCATAATAAAAAGAACTCATCTGAAGAAGGAAGAAAAAG
* * * ** *
4287411 TTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTT-GATGGATCAGTTTTTT
192 TTCATAAGGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCA-TTCAATGGATCAG-CATTA
* * *
4287475 CCAG-AGAAGTTCATAATGAGAAGAATTCATCTGAAGAAGAAAAAGTTCACAAAGAGAAGAGCTT
255 CCAGTAG-AGTTCATAATAAGAAGAACTCATCTGAAGAAGAAAAAGTTCACAAAGAGAAGAACTT
4287539 ATTCAACCTTTTG
319 ATTCAACCTTTTG
4287552 CATAATTCTA
Statistics
Matches: 292, Mismatches: 36, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
338 30 0.10
339 50 0.17
340 1 0.00
341 3 0.01
342 198 0.68
343 10 0.03
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (334 bp):
AAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
AAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTCAATG
GATCAGCATTACCAGTTCGAGTTCATAATAAAAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCA
TAAGGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACCAGTA
GAGTTCATAATAAGAAGAACTCATCTGAAGAAGAAAAAGTTCACAAAGAGAAGAACTTATTCAAC
CTTTTGTTT
Found at i:4287700 original size:124 final size:119
Alignment explanation
Indices: 4287472--4287757 Score: 330
Period size: 124 Copynumber: 2.4 Consensus size: 119
4287462 GGATCAGTTT
*
4287472 TTTCCAGAG-AAGTTCATAATGAGAAGAATTCATCTG-A-AGAAGAAAAAGTTCACAAAGAGAAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAAAGAGAAG
* * * * *
4287534 AGCTTATTCAACCTTTTGCATAATTCTATCACATAAGCAAATA-GATTAGCATCAAA
66 AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATATG-TCAACATC--A
* * *
4287590 CTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAGAAGAAGTTCATAATGAG
1 -TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA-GAG-AAGAAAAAGTTCACAAAGAG
* * *
4287655 AAGAGCTTATTCAATCTTTTGAATGACTCTATCACAGAAGGAAATATGTCAACATCA
63 AAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATATGTCAACATCA
** * *
4287712 TCCCCAGTGGAAAGTTCATAATGAGAAGAACTCGTCTGAAGA-AAGA
1 TTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGA
4287758 GAAGGATTTA
Statistics
Matches: 144, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
119 13 0.09
120 26 0.18
121 8 0.06
122 31 0.22
123 2 0.01
124 63 0.44
125 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (119 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAAAAGTTCACAAAGAGAAG
AGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATATGTCAACATCA
Found at i:4287911 original size:3 final size:3
Alignment explanation
Indices: 4287903--4287947 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
4287893 TTATCCATTT
4287903 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4287948 AATATATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4293945 original size:5 final size:5
Alignment explanation
Indices: 4293932--4294036 Score: 201
Period size: 5 Copynumber: 21.0 Consensus size: 5
4293922 TGATATAATC
*
4293932 TAGAA TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT
1 TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT
4293982 TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT
1 TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT
4294032 TAGAT
1 TAGAT
4294037 AAATTCTAGT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 99 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (5 bp):
TAGAT
Found at i:4295469 original size:2 final size:2
Alignment explanation
Indices: 4295462--4295494 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4295452 TTATAAAATA
4295462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4295495 ATTTTTCATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4296085 original size:37 final size:37
Alignment explanation
Indices: 4296014--4296085 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
4296004 TTAGTTTTGA
** * *
4296014 TTTAGACATTTATTTTTATAATTCGATTCAATTTTAG
1 TTTAGACATTTAACTTTATAATTAGATACAATTTTAG
* *
4296051 TTTAGACATTTAACTTTATAGTTAGATACGATTTT
1 TTTAGACATTTAACTTTATAATTAGATACAATTTT
4296086 GATTTTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (37 bp):
TTTAGACATTTAACTTTATAATTAGATACAATTTTAG
Found at i:4297401 original size:8 final size:7
Alignment explanation
Indices: 4297374--4297399 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4297364 AATTCAAAGT
4297374 AAAAATA
1 AAAAATA
4297381 AAAAATA
1 AAAAATA
4297388 AAAAATA
1 AAAAATA
4297395 AAAAA
1 AAAAA
4297400 ATCTGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:4303000 original size:18 final size:18
Alignment explanation
Indices: 4302979--4303028 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
4302969 TGTGAGTAGG
*
4302979 CTTGGTGATTTGAGTAAT
1 CTTGGAGATTTGAGTAAT
*
4302997 CTTGGAGATATGAGTAAT
1 CTTGGAGATTTGAGTAAT
* *
4303015 GTTGGGGATTTGAG
1 CTTGGAGATTTGAG
4303029 CAAGTTTAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.04, G:0.34, T:0.38
Consensus pattern (18 bp):
CTTGGAGATTTGAGTAAT
Found at i:4314631 original size:2 final size:2
Alignment explanation
Indices: 4314624--4314672 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4314614 TTACATGTAG
4314624 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
4314666 TA TA TA T
1 TA TA TA T
4314673 TTGAAATATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4314949 original size:19 final size:19
Alignment explanation
Indices: 4314922--4314958 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4314912 ATAACCAACA
* *
4314922 AAATTGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
4314941 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
4314959 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:4315092 original size:41 final size:41
Alignment explanation
Indices: 4315045--4315155 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
4315035 ATTTTAGATA
4315045 ATCGCAATGCGAATATGTA-AATCGCAACGCGATAACACGTG
1 ATCGCAATGCGAATATG-ACAATCGCAACGCGATAACACGTG
* * * *
4315086 ATCGCAATGCGATTCTGACTATCGCAACGCGATAATACGTG
1 ATCGCAATGCGAATATGACAATCGCAACGCGATAACACGTG
* * * *
4315127 ATCGCAACGCGATTTTGACTATCGCAACG
1 ATCGCAATGCGAATATGACAATCGCAACG
4315156 AGATTCTAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.02
41 62 0.98
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
ATCGCAATGCGAATATGACAATCGCAACGCGATAACACGTG
Found at i:4315152 original size:61 final size:61
Alignment explanation
Indices: 4315086--4315281 Score: 236
Period size: 61 Copynumber: 3.2 Consensus size: 61
4315076 ATAACACGTG
* * *
4315086 ATCGCAATGCGATTCTGACTATCGCAACGCGATAATACGTGATCGCAACGCGATTTTGACT
1 ATCGCAACGCGATTCTAACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
* *
4315147 ATCGCAACGAGATTCTAACTATCGCAACGCGGTAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTAACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
** ** ** *
4315208 ATCGCAACGCGATAAT-ACGTGATCATAACGCGATTCTGAC-T-ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTAAC-T-ATCGCAACGCGATAAT-ACGTGATCGCAACGCGATTCTGACT
4315269 ATCGCAACGCGAT
1 ATCGCAACGCGAT
4315282 AATACGTGAT
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
60 2 0.02
61 102 0.86
62 12 0.10
63 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (61 bp):
ATCGCAACGCGATTCTAACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
Found at i:4315187 original size:102 final size:102
Alignment explanation
Indices: 4315065--4315312 Score: 424
Period size: 102 Copynumber: 2.4 Consensus size: 102
4315055 GAATATGTAA
* *
4315065 ATCGCAACGCGATAACACGTGATCGCAATGCGATTCTGACTATCGCAACGCGATAATACGTGATC
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATC
* *
4315130 GCAACGCGATTTTGACTATCGCAACGAGATTCTAACT
66 ACAACGCGATTCTGACTATCGCAACGAGATTCTAACT
*
4315167 ATCGCAACGCGGTAATACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATC
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATC
* *
4315232 ATAACGCGATTCTGACTATCGCAACGAGATTCTGACT
66 ACAACGCGATTCTGACTATCGCAACGAGATTCTAACT
*
4315269 ATCGCAACGCGATAATACGTGATTGCAACGCGATTCTGACTATC
1 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATC
4315313 TCATCACTGA
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 137 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (102 bp):
ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATC
ACAACGCGATTCTGACTATCGCAACGAGATTCTAACT
Found at i:4315192 original size:41 final size:41
Alignment explanation
Indices: 4315147--4315257 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
4315137 GATTTTGACT
* * *
4315147 ATCGCAACGAGATTCTAACTATCGCAACGCGGTAATACGTG
1 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTG
4315188 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTG
1 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTG
**
4315229 ATCATAACGCGATTCTGACTATCGCAACG
1 ATCGCAACGCGATTCTGACTATCGCAACG
4315258 AGATTCTGAC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (41 bp):
ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTG
Found at i:4315283 original size:61 final size:61
Alignment explanation
Indices: 4315188--4315312 Score: 214
Period size: 61 Copynumber: 2.0 Consensus size: 61
4315178 GTAATACGTG
* *
4315188 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATCATAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACTATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACT
**
4315249 ATCGCAACGAGATTCTGACTATCGCAACGCGATAATACGTGATTGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACTATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACT
4315310 ATC
1 ATC
4315313 TCATCACTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (61 bp):
ATCGCAACGAGATTCTGACTATCGCAACGCGATAATACGTGATCACAACGCGATTCTGACT
Found at i:4318420 original size:18 final size:18
Alignment explanation
Indices: 4318397--4318431 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4318387 AGCAAAAGGC
*
4318397 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
4318415 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
4318432 CAACCGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:4318637 original size:20 final size:20
Alignment explanation
Indices: 4318612--4318940 Score: 266
Period size: 20 Copynumber: 17.4 Consensus size: 20
4318602 CACATTCATT
*
4318612 TGACTATCGCAACGCAAATA
1 TGACTATCGCAACGCGAATA
*
4318632 TGACTATCGCAACGCGACTA
1 TGACTATCGCAACGCGAATA
*
4318652 TGACTATCGCAACGCGACTA
1 TGACTATCGCAACGCGAATA
* *
4318672 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
*
4318692 TGAATATCGCAACAG-G---A
1 TGACTATCGCAAC-GCGAATA
* * *
4318709 T-A--ATCGCAATGCAAATT
1 TGACTATCGCAACGCGAATA
*
4318726 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
4318746 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
4318763 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
4318780 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAATA
4318800 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
*
4318820 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
4318840 TAACTACCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
4318860 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
*
4318877 T-A--ATCGCAACACGAA-A
1 TGACTATCGCAACGCGAATA
* *
4318893 AGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * * *
4318913 TGATTATCGTAACGGGAATT
1 TGACTATCGCAACGCGAATA
4318933 TGACTATC
1 TGACTATC
4318941 ACAATGAGAA
Statistics
Matches: 254, Mismatches: 34, Indels: 42
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.00
14 22 0.09
15 1 0.00
16 6 0.02
17 9 0.04
18 4 0.02
19 13 0.05
20 197 0.78
21 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:4318715 original size:54 final size:54
Alignment explanation
Indices: 4318612--4318926 Score: 283
Period size: 54 Copynumber: 5.6 Consensus size: 54
4318602 CACATTCATT
* * * * *
4318612 TGACTATCGCAACGCAAATATGACTATCGCAACGCGACTATGACTATCGCAACGCGACTA
1 TGACTATCGCAACGCGAATTTGAATATCGCAA--CGA-GAT-A--ATCGCAACGCGAATA
* * * *
4318672 TGACTATCGCAACGTGAATTTGAATATCGCAAC-AGGATAATCGCAATGCAAATT
1 TGACTATCGCAACGCGAATTTGAATATCGCAACGA-GATAATCGCAACGCGAATA
* * *
4318726 TGACTATCGCAACGCGAATTTGAATATCGCAACGGGATAATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATTTGAATATCGCAACGAGATAATCGCAACGCGAATA
** * * *
4318780 TGACTATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATTTGAATATCGCAA--CG-AGAT-A--ATCGCAACGCGAATA
* * * *
4318840 TAACTACCGCAACGCGAATTTGACTATCGCAACGAGATAATCGCAACACGAA-A
1 TGACTATCGCAACGCGAATTTGAATATCGCAACGAGATAATCGCAACGCGAATA
* * *
4318893 AGACTATCGCAACGCGAATTTGATTATCGTAACG
1 TGACTATCGCAACGCGAATTTGAATATCGCAACG
4318927 GGAATTTGAC
Statistics
Matches: 213, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
53 29 0.14
54 100 0.47
56 4 0.02
57 8 0.04
58 4 0.02
60 68 0.32
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (54 bp):
TGACTATCGCAACGCGAATTTGAATATCGCAACGAGATAATCGCAACGCGAATA
Found at i:4318739 original size:74 final size:73
Alignment explanation
Indices: 4318633--4318840 Score: 224
Period size: 74 Copynumber: 2.8 Consensus size: 73
4318623 ACGCAAATAT
** * *
4318633 GACTATCGCAACGCGACTATGACTATCGCAACGCGACTATGACTATCGCAACGTGAATTTGAATA
1 GACTATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGAA-A
*
4318698 T-CGCAACAG
65 TGCG-AAAAG
* * * * * * * *
4318707 GA-TAATCGCAATGC-AAATTTGACTATCGCAACGCGAATTTGAATATCGCAACGGGATAATCGC
1 GACT-ATCGCAACGCGAAA-ATGACTATCGCAACGCGAATATGACTATCGCAACGCGA-ATTTGA
*
4318770 AATGCGAAAAT
63 AATGCGAAAAG
4318781 GACTATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTT
1 GACTATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTT
4318841 AACTACCGCA
Statistics
Matches: 108, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
73 4 0.04
74 94 0.87
75 10 0.09
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (73 bp):
GACTATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATTTGAAAT
GCGAAAAG
Found at i:4318932 original size:73 final size:73
Alignment explanation
Indices: 4318805--4318990 Score: 212
Period size: 73 Copynumber: 2.5 Consensus size: 73
4318795 GAAAATGACT
* * * * *
4318805 ATCGCAACGCGAATATGACTATCGCAACGCGAATTTAACTACCGCAACGCGAATTTGACTATCGC
1 ATCGCAACACGAA-AAGACTATCGCAACGCGAATTTGATTACCGCAACGCGAATTTGACTATCAC
*
4318870 AACGAGATA
65 AACGAGAAA
* * *
4318879 ATCGCAACACGAAAAGACTATCGCAACGCGAATTTGATTATCGTAACGGGAATTTGACTATCACA
1 ATCGCAACACGAAAAGACTATCGCAACGCGAATTTGATTACCGCAACGCGAATTTGACTATCACA
*
4318944 ATGAGAAA
66 ACGAGAAA
* ** *
4318952 ATCGCAA-AGTGTATTAGACTATCGCAACGCGAATATGAT
1 ATCGCAACA-CG-AAAAGACTATCGCAACGCGAATTTGAT
4318991 GCAGATTGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
72 1 0.01
73 59 0.61
74 36 0.38
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (73 bp):
ATCGCAACACGAAAAGACTATCGCAACGCGAATTTGATTACCGCAACGCGAATTTGACTATCACA
ACGAGAAA
Found at i:4319121 original size:36 final size:34
Alignment explanation
Indices: 4319081--4319160 Score: 114
Period size: 30 Copynumber: 2.4 Consensus size: 34
4319071 TCAACTTTTA
4319081 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
4319117 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
4319147 ATCAATTAAACAAA
1 ATCAATTAAACAAA
4319161 TCAACTCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
30 28 0.70
32 2 0.05
34 3 0.08
36 7 0.17
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:4319130 original size:30 final size:30
Alignment explanation
Indices: 4319096--4319161 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
4319086 TTAAACAAGC
4319096 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
4319126 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
4319156 ACAAAT
1 ACAAAT
4319162 CAACTCTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.29
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:4320654 original size:42 final size:43
Alignment explanation
Indices: 4320556--4320658 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 43
4320546 TTGGGAGGGA
* * * * *
4320556 CCTCTTCAACGATG-TCATGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGATCAGGGGCCTCTTGAACGATAGGAGAGG
* ** *
4320598 ACTCTTGAGGGATGAT-AGGGGCCTTTTGAACGATAGGAGAGG
1 CCTCTTGAACGATGATCAGGGGCCTCTTGAACGATAGGAGAGG
4320640 CCTCTTGAACGATGA-CAGG
1 CCTCTTGAACGATGATCAGG
4320659 TGAGTCGAGC
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (43 bp):
CCTCTTGAACGATGATCAGGGGCCTCTTGAACGATAGGAGAGG
Found at i:4321091 original size:20 final size:20
Alignment explanation
Indices: 4321066--4321109 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
4321056 AATAGTTTCT
4321066 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
4321086 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
4321106 GAAA
1 GAAA
4321110 ATGATTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:4321138 original size:20 final size:20
Alignment explanation
Indices: 4321115--4321187 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
4321105 CGAAAATGAT
*
4321115 TATCGCAATGAGAATTTGAC
1 TATCGCAACGAGAATTTGAC
*
4321135 TATCGCAACGCGAATTTGAC
1 TATCGCAACGAGAATTTGAC
* *
4321155 TATCGCAATGCGAATTTGAC
1 TATCGCAACGAGAATTTGAC
4321175 TATCGCAACGAGA
1 TATCGCAACGAGA
4321188 TAATCGCAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
TATCGCAACGAGAATTTGAC
Found at i:4321184 original size:40 final size:40
Alignment explanation
Indices: 4321096--4321184 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
4321086 GAAACTTAAA
* *
4321096 ATCGCAACACGAAAATGATTATCGCAATGAGAATTTGACT
1 ATCGCAACGCGAAAATGACTATCGCAATGAGAATTTGACT
** *
4321136 ATCGCAACGCGAATTTGACTATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACTATCGCAATGAGAATTTGACT
4321176 ATCGCAACG
1 ATCGCAACG
4321185 AGATAATCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (40 bp):
ATCGCAACGCGAAAATGACTATCGCAATGAGAATTTGACT
Found at i:4321329 original size:54 final size:54
Alignment explanation
Indices: 4321244--4321440 Score: 297
Period size: 54 Copynumber: 3.6 Consensus size: 54
4321234 ACGCGAAACT
* *
4321244 AAATTCGCGTTGCGATAGTCATTTTCGTATTGTGATTATCCCGTTACGATAGTC
1 AAATTCGCGTTGCGATAGTCATTTTCGTATTGCGATTATCCCGTTGCGATAGTC
* * *
4321298 AAATTTGCGTTGCGATAGTCATTTTCATATTGCGATTATCCCGTTGTGATAGTC
1 AAATTCGCGTTGCGATAGTCATTTTCGTATTGCGATTATCCCGTTGCGATAGTC
* *
4321352 -ATTTCCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTC
1 AAATT-CGCGTTGCGATAGTCATTTTCGTATTGCGATTATCCCGTTGCGATAGTC
* *
4321406 AAATTCGCGTTGCGATAATCATTTTCGTGTTGCGA
1 AAATTCGCGTTGCGATAGTCATTTTCGTATTGCGA
4321441 CTATTCTTCT
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
53 3 0.02
54 121 0.95
55 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (54 bp):
AAATTCGCGTTGCGATAGTCATTTTCGTATTGCGATTATCCCGTTGCGATAGTC
Found at i:4321368 original size:20 final size:20
Alignment explanation
Indices: 4321339--4321440 Score: 83
Period size: 20 Copynumber: 5.4 Consensus size: 20
4321329 GCGATTATCC
*
4321339 CGTTGTGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
4321359 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
4321379 CATTGCGAT--T-A--TCC-
1 CGTTGCGATAGTCATTTCCG
*
4321393 CGTTGCGATAGTCAAATT-CG
1 CGTTGCGATAGTC-ATTTCCG
* *
4321413 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
4321433 TGTTGCGA
1 CGTTGCGA
4321441 CTATTCTTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
14 8 0.12
15 2 0.03
16 1 0.02
17 1 0.02
18 2 0.03
19 4 0.06
20 48 0.73
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:4321618 original size:32 final size:31
Alignment explanation
Indices: 4321559--4321620 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
4321549 CTACTACCGA
4321559 ATGAATTTACTAAGCAATCCAAAAGACAAAT
1 ATGAATTTACTAAGCAATCCAAAAGACAAAT
*
4321590 ATGAATTTACTAACTTCAA-CCAAAAGACAAA
1 ATGAATTTACTAA--GCAATCCAAAAGACAAA
4321621 ACAAAGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.46
32 12 0.43
33 3 0.11
ACGTcount: A:0.52, C:0.18, G:0.08, T:0.23
Consensus pattern (31 bp):
ATGAATTTACTAAGCAATCCAAAAGACAAAT
Found at i:4323468 original size:21 final size:21
Alignment explanation
Indices: 4323428--4323484 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
4323418 TCTGAAACTT
4323428 AAAATCGCAACACG-AAAATG
1 AAAATCGCAACACGAAAAATG
4323448 AAAATCGCAACACGAAAAATG
1 AAAATCGCAACACGAAAAATG
** *
4323469 ATTATCGCAACGCGAA
1 AAAATCGCAACACGAA
4323485 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.51, C:0.21, G:0.16, T:0.12
Consensus pattern (21 bp):
AAAATCGCAACACGAAAAATG
Found at i:4323948 original size:22 final size:22
Alignment explanation
Indices: 4323911--4323968 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
4323901 TATGAGAGAT
4323911 GGAGATA--GACGGATTTCGTC
1 GGAGATAGGGACGGATTTCGTC
* *
4323931 GGAGATGGGGATGGATTTCGTC
1 GGAGATAGGGACGGATTTCGTC
4323953 GGAGATAGGGACGGAT
1 GGAGATAGGGACGGAT
4323969 GTCGCCGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.19
22 26 0.81
ACGTcount: A:0.24, C:0.10, G:0.43, T:0.22
Consensus pattern (22 bp):
GGAGATAGGGACGGATTTCGTC
Found at i:4324263 original size:19 final size:19
Alignment explanation
Indices: 4324224--4324275 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
4324214 TTTTGAAATC
* *
4324224 CGCATTGCGATAATGGAGAT
1 CGCATTGCGAT-TTAGAGAT
*
4324244 CGCGTTGCGATTTAGAGAT
1 CGCATTGCGATTTAGAGAT
4324263 CGCATTGCGATTT
1 CGCATTGCGATTT
4324276 TATTGGTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (19 bp):
CGCATTGCGATTTAGAGAT
Found at i:4324757 original size:78 final size:77
Alignment explanation
Indices: 4324624--4324843 Score: 280
Period size: 78 Copynumber: 2.8 Consensus size: 77
4324614 GCTCGCAGTG
** *
4324624 GAGTTCTTAATACCGCCAAGAGTTAAG-TTATGTCCCTCACCAGTGCTCGGCTTATGTCCCGCAC
1 GAGTTCTTAATACCGCCAAGAGTCGAGCTT-TGTCCCTCACCAGGGCTCGGCTTATGTCCCGCAC
4324688 TAGGGCTTGGACCA
65 -AGGGCTTGGACCA
* * *
4324702 GAGTTCTTAATACCGCTAAGAGTCGAGCTTTGTCCCTCACCAGGGCTCGGTTTATGTCCCTCAGC
1 GAGTTCTTAATACCGCCAAGAGTCGAGCTTTGTCCCTCACCAGGGCTCGGCTTATGTCCCGCA-C
*
4324767 AGGGCTTGGACCG
65 AGGGCTTGGACCA
* * * * * * *
4324780 GAGTTCTTAATTCCACCAAGGGTCGAGCTATCTCCCTCTCCAGGGCTTGGCTTATGTCCCGCAC
1 GAGTTCTTAATACCGCCAAGAGTCGAGCTTTGTCCCTCACCAGGGCTCGGCTTATGTCCCGCAC
4324844 CGGAGTTCTT
Statistics
Matches: 123, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.01
78 119 0.97
79 3 0.02
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.27
Consensus pattern (77 bp):
GAGTTCTTAATACCGCCAAGAGTCGAGCTTTGTCCCTCACCAGGGCTCGGCTTATGTCCCGCACA
GGGCTTGGACCA
Found at i:4331308 original size:18 final size:18
Alignment explanation
Indices: 4331287--4331323 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4331277 TTTGTGTAGG
4331287 TTCAATGCATTATAAACC
1 TTCAATGCATTATAAACC
4331305 TTCAATGCATTATAAACC
1 TTCAATGCATTATAAACC
4331323 T
1 T
4331324 GCAAACACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (18 bp):
TTCAATGCATTATAAACC
Found at i:4336751 original size:55 final size:55
Alignment explanation
Indices: 4336685--4336813 Score: 188
Period size: 55 Copynumber: 2.3 Consensus size: 55
4336675 ATTTTAAGAT
* * * *
4336685 GATTCATGAAGAAGGACGTCCGATGAATGAAGAAATTTGAACCTGATTGAAGAAC
1 GATTCATGAAGAAAGACATACGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
4336740 GATTCATGAAGAAAGACATACGATGAATGAAGAAATTTGAAACTGATTGAAG-AC
1 GATTCATGAAGAAAGACATACGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
* *
4336794 TGATCCATAAAGAAAGACAT
1 -GATTCATGAAGAAAGACAT
4336814 CCTGAAGATG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 2 0.03
55 65 0.97
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (55 bp):
GATTCATGAAGAAAGACATACGATGAATGAAGAAATTTGAAACTGATTGAAGAAC
Found at i:4337593 original size:72 final size:72
Alignment explanation
Indices: 4337476--4337626 Score: 257
Period size: 72 Copynumber: 2.1 Consensus size: 72
4337466 CCCTATTACA
* * *
4337476 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAATGGTGCAACCAATGTGATGATAGC
4337541 AAATGAT
66 AAATGAT
*
4337548 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAATGGTGCAGCCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAATGGTGCAACCAATGTGATGATAGC
*
4337613 AACTGAT
66 AAATGAT
4337620 CAAGAAC
1 CAAGAAC
4337627 CTGTTATGGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.23
Consensus pattern (72 bp):
CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAATGGTGCAACCAATGTGATGATAGC
AAATGAT
Found at i:4341206 original size:125 final size:125
Alignment explanation
Indices: 4340953--4341180 Score: 287
Period size: 125 Copynumber: 1.8 Consensus size: 125
4340943 GAATACCCAC
* ** * * * * *
4340953 ATTGGGGCATGACTGAACCCCCATCATTTTGAGATGACATGATTCGGACGAAGAATGCATTGAGA
1 ATTGGGGCATGACTGAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGAGA
* ** *
4341018 ATAAGCCTTACAATTTGAGGTTTTGGGGCATTTTGAAGACCCGTACCAGTAAAAGATAAT
66 ATAAGCCTTACAACTTGAAATGTTGGGGCATTTTGAAGACCCGTACCAGTAAAAGATAAT
* *
4341078 ATTGGGGCATGACTGAACTCACATCATGATGAAATGACAAGATTCAGACCAAG-AGGACGTTGAG
1 ATTGGGGCATGACTGAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGG-CATTGAG
* * *
4341142 AGTGAGTCTTACAACTTGAAATGTTGGGGCATTTTGAAG
65 AATAAGCCTTACAACTTGAAATGTTGGGGCATTTTGAAG
4341181 GCTTGTTCCA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
124 2 0.02
125 83 0.98
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (125 bp):
ATTGGGGCATGACTGAACCCACATCATGATGAAATGACAAGATTCAGACCAAGAAGGCATTGAGA
ATAAGCCTTACAACTTGAAATGTTGGGGCATTTTGAAGACCCGTACCAGTAAAAGATAAT
Found at i:4342423 original size:37 final size:37
Alignment explanation
Indices: 4342372--4342485 Score: 133
Period size: 37 Copynumber: 3.1 Consensus size: 37
4342362 AAAGCCAAGT
* *
4342372 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGC
1 CTTCACTAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* *
4342409 TTTCACTAAAGAGTAGTGAAGCAAA-CCATCTTAAGC
1 CTTCACTAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* * * *
4342445 CTTCA-TCGAAGAGTAGTGAAGCATATCCTTTTTAAAC
1 CTTCACT-AAAGAGTAGTGAAGCAAATCCATTTTAAGC
4342482 CTTC
1 CTTC
4342486 TCGGAAGAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
35 1 0.02
36 29 0.45
37 35 0.54
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (37 bp):
CTTCACTAAAGAGTAGTGAAGCAAATCCATTTTAAGC
Done.