Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_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: 5677467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 24
Found at i:2208438 original size:20 final size:20
Alignment explanation
Indices: 2208367--2208439 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
2208357 TAGTTAGAGA
*
2208367 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
2208387 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
2208408 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
2208428 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2208440 AGTTGAAAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:2208454 original size:21 final size:21
Alignment explanation
Indices: 2208387--2208456 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
2208377 TTTTTCCATT
* *
2208387 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
2208408 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
2208428 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
2208449 TCGCGTTG
1 TCGCGTTG
2208457 TCCATTTCGC
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 15 0.39
21 23 0.61
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:2208589 original size:6 final size:6
Alignment explanation
Indices: 2208578--2208603 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2208568 AGACACGTAT
2208578 GACCAC GACCAC GACCAC GACCAC GA
1 GACCAC GACCAC GACCAC GACCAC GA
2208604 GACGAGACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.46, G:0.19, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:2209112 original size:6 final size:6
Alignment explanation
Indices: 2209101--2209152 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
2209091 TCTCGTCTCG
2209101 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
2209149 GGTC
1 GGTC
2209153 TTAGAGAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:2209240 original size:22 final size:22
Alignment explanation
Indices: 2209214--2209285 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
2209204 AATTTGGAAA
*
2209214 ATCGCAATGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
2209236 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
2209255 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
2209277 ATCGCAACG
1 ATCGCAACG
2209286 CGAAATGGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 13 0.34
20 2 0.05
21 2 0.05
22 21 0.55
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:2209249 original size:41 final size:40
Alignment explanation
Indices: 2209208--2209456 Score: 263
Period size: 41 Copynumber: 6.0 Consensus size: 40
2209198 ACAACGAATT
* *
2209208 TGGAAAATCGCAATGACAACTGTAGACTATCGCAA-CGAATT
1 TGGAAAATCGCAACG-CAACTGTAGACTATCGCAACCGAA-A
2209249 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CAACTGTAGACTATCGCAAC-CGAAA
* * *
2209291 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCAACTGT-AGACTATCGCAAC-CGAAA
*
2209332 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCAACTGTAGACTATCGCAAC-CGAAA
* * *
2209373 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCAACTGT-AGACTATCGCAAC-CGAAA
* * *
2209414 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCAACTGT-AGACTATCGCAAC-CGAAA
2209455 TG
1 TG
2209457 CAACGCGAAT
Statistics
Matches: 194, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
40 1 0.01
41 172 0.89
42 17 0.09
43 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.18
Consensus pattern (40 bp):
TGGAAAATCGCAACGCAACTGTAGACTATCGCAACCGAAA
Found at i:2209260 original size:19 final size:19
Alignment explanation
Indices: 2209199--2209264 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
2209189 TTAACTATCA
2209199 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * * **
2209218 CAATGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
2209240 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
2209259 CAACGA
1 CAACGA
2209265 CAACTGTAGA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 18 0.53
20 2 0.06
21 2 0.06
22 12 0.35
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:2209302 original size:20 final size:20
Alignment explanation
Indices: 2209277--2209431 Score: 150
Period size: 20 Copynumber: 7.6 Consensus size: 20
2209267 ACTGTAGACT
2209277 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
2209297 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
2209318 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
2209338 ATCGCAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATG--GAAA
2209359 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
2209379 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
2209400 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
2209420 ATCGCAACGCGA
1 ATCGCAACGCGA
2209432 TTTTCAACTA
Statistics
Matches: 104, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
19 3 0.03
20 55 0.53
21 43 0.41
22 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:2209323 original size:21 final size:21
Alignment explanation
Indices: 2209274--2209453 Score: 127
Period size: 20 Copynumber: 8.8 Consensus size: 21
2209264 ACAACTGTAG
* **
2209274 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTCA
* *
2209295 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
* **
2209315 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTCA
* * *
2209336 A-AATCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAATTTCA
* **
2209355 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAATTTCA
* *
2209377 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
* **
2209397 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTCA
* *
2209418 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTCA
2209438 ACTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
2209454 ATGCAACGCG
Statistics
Matches: 116, Mismatches: 37, Indels: 12
0.70 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 58 0.50
21 56 0.48
22 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAATTTCA
Found at i:2209410 original size:123 final size:124
Alignment explanation
Indices: 2209208--2209456 Score: 389
Period size: 123 Copynumber: 2.0 Consensus size: 124
2209198 ACAACGAATT
* *
2209208 TGGAAAATCGCAATGACAACTGTAGACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATATGGAAAATCGCAACGACAACTGTA
2209273 GACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
66 GACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
* * * *
2209332 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGATTT
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATATGGAAAATCGCAACGACAACTG
2209394 TCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
64 T-AGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
2209455 TG
1 TG
2209457 CAACGCGAAT
Statistics
Matches: 116, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
123 82 0.71
124 30 0.26
125 4 0.03
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.18
Consensus pattern (124 bp):
TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATATGGAAAATCGCAACGACAACTGTA
GACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
Found at i:2209473 original size:41 final size:41
Alignment explanation
Indices: 2209274--2209456 Score: 332
Period size: 41 Copynumber: 4.5 Consensus size: 41
2209264 ACAACTGTAG
2209274 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* *
2209315 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
2209355 GACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
2209397 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
2209438 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
2209457 CAACGCGAAT
Statistics
Matches: 136, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
40 1 0.01
41 134 0.99
42 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:2209473 original size:82 final size:82
Alignment explanation
Indices: 2209233--2209456 Score: 364
Period size: 82 Copynumber: 2.7 Consensus size: 82
2209223 ACAACTGTAG
* *
2209233 ACTATCGCAA--CGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAA
1 ACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAAATGGAA
2209296 AATCGCAACGCGATTTTCA
64 AATCGCAACGCGATTTTCA
2209315 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
2209380 TCGCAACGCGATTTTCA
66 TCGCAACGCGATTTTCA
* *
2209397 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATG
2209457 CAACGCGAAT
Statistics
Matches: 135, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
82 115 0.85
83 16 0.12
84 4 0.03
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (82 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
TCGCAACGCGATTTTCA
Found at i:2212566 original size:18 final size:18
Alignment explanation
Indices: 2212533--2212575 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
2212523 TTTTTATAAA
2212533 AAAAAAATCAGAAAAATT
1 AAAAAAATCAGAAAAATT
2212551 ACAAAAAATCAG-AAAATT
1 A-AAAAAATCAGAAAAATT
2212569 AAAAAAA
1 AAAAAAA
2212576 AGTAATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 10 0.42
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAAAAATCAGAAAAATT
Found at i:2212576 original size:18 final size:19
Alignment explanation
Indices: 2212532--2212576 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
2212522 TTTTTTATAA
2212532 AAAAAAAATCAGAAAAATT
1 AAAAAAAATCAGAAAAATT
*
2212551 ACAAAAAATCAG-AAAATT
1 AAAAAAAATCAGAAAAATT
2212569 AAAAAAAA
1 AAAAAAAA
2212577 GTAATATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAAAAAATCAGAAAAATT
Found at i:2212681 original size:82 final size:82
Alignment explanation
Indices: 2212572--2212740 Score: 286
Period size: 82 Copynumber: 2.1 Consensus size: 82
2212562 GAAAATTAAA
* *
2212572 AAAAAGTAATATGTTTATTTATTTAATTTCAATGTATTTTTATCTATCTTGTAATTTAATTTACT
1 AAAAAGTAATATGTTTATTTATCTAATTTCAATGTATTTTTATCTATCTTGTAATTTAATCTACT
*
2212637 TGAATTTTAAAAAAATAT
66 TGAA-TTTAAAAAAATAC
*
2212655 AAAAA-TAGTATGTTTATTTATCTAATTTCAATGTATTTTTATCTATCTTGTAATTTAATCTACT
1 AAAAAGTAATATGTTTATTTATCTAATTTCAATGTATTTTTATCTATCTTGTAATTTAATCTACT
2212719 TGAATTTAAAAAAATAC
66 TGAATTTAAAAAAATAC
2212736 AAAAA
1 AAAAA
2212741 AATAAAAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
81 17 0.21
82 60 0.73
83 5 0.06
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (82 bp):
AAAAAGTAATATGTTTATTTATCTAATTTCAATGTATTTTTATCTATCTTGTAATTTAATCTACT
TGAATTTAAAAAAATAC
Found at i:2212726 original size:15 final size:17
Alignment explanation
Indices: 2212695--2212727 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2212685 ATGTATTTTT
2212695 ATCTATCTTGTAATTTA
1 ATCTATCTTGTAATTTA
2212712 ATCTA-CTTG-AATTTA
1 ATCTATCTTGTAATTTA
2212727 A
1 A
2212728 AAAAATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (17 bp):
ATCTATCTTGTAATTTA
Found at i:2213126 original size:19 final size:20
Alignment explanation
Indices: 2213081--2213126 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2213071 AAACATATTA
2213081 ATTTTTTTGTAATTTTTCTG
1 ATTTTTTTGTAATTTTTCTG
* *
2213101 A-TATTTTGTAATTTTT-TT
1 ATTTTTTTGTAATTTTTCTG
2213119 ATTTTTTT
1 ATTTTTTT
2213127 AAATTCAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 2 0.09
19 19 0.86
20 1 0.05
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (20 bp):
ATTTTTTTGTAATTTTTCTG
Found at i:2213145 original size:15 final size:17
Alignment explanation
Indices: 2213125--2213157 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2213115 TTTTATTTTT
2213125 TTAAATT-CAAG-TAGA
1 TTAAATTACAAGATAGA
2213140 TTAAATTACAAGATAGA
1 TTAAATTACAAGATAGA
2213157 T
1 T
2213158 AAAAAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (17 bp):
TTAAATTACAAGATAGA
Found at i:2213180 original size:113 final size:113
Alignment explanation
Indices: 2213008--2213455 Score: 578
Period size: 113 Copynumber: 3.9 Consensus size: 113
2212998 TATTTATGAT
* * ** * *
2213008 TTTTTTTAAATTTAAATAAATTAAATTGTAAGAAAGATAAAAATATATTGAAATTAGATAAATAA
1 TTTTTTTAAATTCAAGTAAATTAAATTACAAGATAGATAAAAATACATTGAAATTAGATAAATAA
* * *
2213073 ACATATTAA-TTTTTTTGTAATTTTTCTGATATTTTGTAATTTTTTTA
66 ACATACTAATTTTTTTTGTAATTTTTCTGATTTTTTGTAATTTTTTGA
*
2213120 TTTTTTTAAATTCAAGTAGATTAAATTACAAGATAGATAAAAAATACATTGAAATTAGATAAATA
1 TTTTTTTAAATTCAAGTAAATTAAATTACAAGATAGAT-AAAAATACATTGAAATTAGATAAATA
2213185 AACATACT-ATTTTTTTTGTAATTTTTCTGATTTTTTGTAATTTTTCTGA
65 AACATACTAATTTTTTTTGTAATTTTTCTGATTTTTTGTAATTTTT-TGA
* * * *
2213234 TTTTTTTTAAAATTTAAGTAAATTAATTTACAAGATAGATAAAAATACATTGAAATTATATAAAC
1 -TTTTTTT-AAATTCAAGTAAATTAAATTACAAGATAGATAAAAATACATTGAAATTAGATAAAT
* * *
2213299 AAACATACTAATTATTGTTGTTGTAATTTTTATTTTATTTTTTGTAATTGTTCTGA
64 AAACATACTAATT-TT-TT-TTGTAA-TTTT-TCTGATTTTTTGTAATT-TTTTGA
* * * *
2213355 TTTTTTT-AATTCAAGTAGATTAAATTGCAAGATAGATACAAATACATTGAAATTAAATAAATAA
1 TTTTTTTAAATTCAAGTAAATTAAATTACAAGATAGATAAAAATACATTGAAATTAGATAAATAA
*
2213419 AAATACTAATTTTTTTTTGTAATTTTTCTGATTTTTT
66 ACATACTAA-TTTTTTTTGTAATTTTTCTGATTTTTT
2213456 TTTTTGTAAT
Statistics
Matches: 295, Mismatches: 28, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
112 33 0.11
113 66 0.22
114 11 0.04
115 43 0.15
116 37 0.13
117 4 0.01
118 62 0.21
119 8 0.03
120 11 0.04
121 18 0.06
122 2 0.01
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.48
Consensus pattern (113 bp):
TTTTTTTAAATTCAAGTAAATTAAATTACAAGATAGATAAAAATACATTGAAATTAGATAAATAA
ACATACTAATTTTTTTTGTAATTTTTCTGATTTTTTGTAATTTTTTGA
Found at i:2213220 original size:19 final size:19
Alignment explanation
Indices: 2213196--2213239 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
2213186 ACATACTATT
2213196 TTTTTTGTAATTTTTCTGA
1 TTTTTTGTAATTTTTCTGA
2213215 TTTTTTGTAATTTTTCTGA
1 TTTTTTGTAATTTTTCTGA
2213234 TTTTTT
1 TTTTTT
2213240 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.73
Consensus pattern (19 bp):
TTTTTTGTAATTTTTCTGA
Found at i:2213248 original size:21 final size:19
Alignment explanation
Indices: 2213195--2213243 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
2213185 AACATACTAT
2213195 TTTTTTTGTAATTTTTCTGA
1 TTTTTTT-TAATTTTTCTGA
*
2213215 TTTTTTGTAATTTTTCTGA
1 TTTTTTTTAATTTTTCTGA
2213234 TTTTTTTTAA
1 TTTTTTTTAA
2213244 AATTTAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.71
Consensus pattern (19 bp):
TTTTTTTTAATTTTTCTGA
Found at i:2213475 original size:22 final size:22
Alignment explanation
Indices: 2213428--2213476 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
2213418 AAAATACTAA
*
2213428 TTTTTTTTTGTAATTTTTCTGATT
1 TTTTTTTTTGTAATTTTAC--ATT
2213452 TTTTTTTTTGTAATTTATAC-TT
1 TTTTTTTTTGTAATTT-TACATT
2213474 TTT
1 TTT
2213477 ATCTTGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 16 0.70
25 2 0.09
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (22 bp):
TTTTTTTTTGTAATTTTACATT
Found at i:2217901 original size:19 final size:19
Alignment explanation
Indices: 2217877--2217952 Score: 73
Period size: 19 Copynumber: 4.0 Consensus size: 19
2217867 TATGCATTGG
2217877 GCTATGAATTTGAAAATAA
1 GCTATGAATTTGAAAATAA
* * *
2217896 GCTATGAATCTGACAGTAA
1 GCTATGAATTTGAAAATAA
* *
2217915 GCTATGAGTATGAAAATAA
1 GCTATGAATTTGAAAATAA
* *
2217934 GTTCTG-ATTTAGAAAATAA
1 GCTATGAATTT-GAAAATAA
2217953 ATTCTGAAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
18 2 0.04
19 43 0.96
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.30
Consensus pattern (19 bp):
GCTATGAATTTGAAAATAA
Found at i:2224844 original size:59 final size:59
Alignment explanation
Indices: 2224780--2224913 Score: 164
Period size: 59 Copynumber: 2.3 Consensus size: 59
2224770 AAGGTAACTT
* * *
2224780 ATTTAATATTTGAAATTTAAGATAATA-TTTAAGTTATACTGATTTAACTACAATCACTC
1 ATTTAAAATTTGAAATTTAAGATAATATTTTAA-TTATACTAATTCAACTACAATCACTC
* * * *
2224839 ATTTAACAA-ATGAATTTTAAGATAGTATTTTAATTATTCTAATTCAACTACAATCACTC
1 ATTTAA-AATTTGAAATTTAAGATAATATTTTAATTATACTAATTCAACTACAATCACTC
*
2224898 ATTTAAAATTTAAAAT
1 ATTTAAAATTTGAAAT
2224914 AATGCAATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
58 2 0.03
59 54 0.87
60 6 0.10
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (59 bp):
ATTTAAAATTTGAAATTTAAGATAATATTTTAATTATACTAATTCAACTACAATCACTC
Found at i:2226702 original size:25 final size:25
Alignment explanation
Indices: 2226668--2226722 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
2226658 TCAGCCCCTT
2226668 AAATGTGATTTATGTTATAATAGGA
1 AAATGTGATTTATGTTATAATAGGA
2226693 AAATGTGATTTATGTTATAATAGGA
1 AAATGTGATTTATGTTATAATAGGA
2226718 AAATG
1 AAATG
2226723 CAAGAGGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (25 bp):
AAATGTGATTTATGTTATAATAGGA
Found at i:2238875 original size:10 final size:10
Alignment explanation
Indices: 2238860--2238888 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2238850 CGTTACTAAT
2238860 TATATTATTA
1 TATATTATTA
2238870 TATATTATTA
1 TATATTATTA
2238880 TA-ATTATTA
1 TATATTATTA
2238889 CAAATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATATTATTA
Found at i:2253525 original size:13 final size:13
Alignment explanation
Indices: 2253507--2253533 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2253497 CGCTAAATTC
2253507 GCCTTTATCATGG
1 GCCTTTATCATGG
2253520 GCCTTTATCATGG
1 GCCTTTATCATGG
2253533 G
1 G
2253534 AAGACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (13 bp):
GCCTTTATCATGG
Found at i:2254951 original size:39 final size:37
Alignment explanation
Indices: 2254864--2254949 Score: 172
Period size: 37 Copynumber: 2.3 Consensus size: 37
2254854 CGGTGGAGGG
2254864 TTTTAGAGAGAGTTCAGAGAGAATTTCCATCTCTCTC
1 TTTTAGAGAGAGTTCAGAGAGAATTTCCATCTCTCTC
2254901 TTTTAGAGAGAGTTCAGAGAGAATTTCCATCTCTCTC
1 TTTTAGAGAGAGTTCAGAGAGAATTTCCATCTCTCTC
2254938 TTTTAGAGAGAG
1 TTTTAGAGAGAG
2254950 AGAGGAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (37 bp):
TTTTAGAGAGAGTTCAGAGAGAATTTCCATCTCTCTC
Found at i:2265179 original size:15 final size:15
Alignment explanation
Indices: 2265159--2265209 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
2265149 TGAGACATTA
2265159 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
2265174 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
* *
2265189 CTCGCCCCACATCCG
1 CCCGCCCCGCATCCG
2265204 CCCGCC
1 CCCGCC
2265210 TAGCTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.08, C:0.67, G:0.18, T:0.08
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:2277741 original size:22 final size:21
Alignment explanation
Indices: 2277715--2277762 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
2277705 CTAATATTTG
*
2277715 TTAGGCATACAAATCTGAAAAA
1 TTAGGCACACAAATCT-AAAAA
* *
2277737 TTAGGTACACAAATCTAAAAC
1 TTAGGCACACAAATCTAAAAA
2277758 TTAGG
1 TTAGG
2277763 TACATCTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (21 bp):
TTAGGCACACAAATCTAAAAA
Found at i:2277761 original size:21 final size:22
Alignment explanation
Indices: 2277723--2277766 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
2277713 TGTTAGGCAT
2277723 ACAAATCTGAAAAATTAGGTAC
1 ACAAATCTGAAAAATTAGGTAC
*
2277745 ACAAATCT-AAAACTTAGGTAC
1 ACAAATCTGAAAAATTAGGTAC
2277766 A
1 A
2277767 TCTGTGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.23
Consensus pattern (22 bp):
ACAAATCTGAAAAATTAGGTAC
Found at i:2287781 original size:37 final size:38
Alignment explanation
Indices: 2287700--2287794 Score: 174
Period size: 38 Copynumber: 2.5 Consensus size: 38
2287690 GTATTGTGAA
*
2287700 ATTTTGGCTTCAATCAATCAAAAGATTCTTAAGTATAT
1 ATTTTCGCTTCAATCAATCAAAAGATTCTTAAGTATAT
2287738 ATTTTCGCTTCAATCAATCAAAAGATTCTT-AGTATAT
1 ATTTTCGCTTCAATCAATCAAAAGATTCTTAAGTATAT
2287775 ATTTTCGCTTCAATCAATCA
1 ATTTTCGCTTCAATCAATCA
2287795 GAATATAAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
37 27 0.48
38 29 0.52
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (38 bp):
ATTTTCGCTTCAATCAATCAAAAGATTCTTAAGTATAT
Found at i:2295474 original size:6 final size:7
Alignment explanation
Indices: 2295439--2295473 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
2295429 CTGACACTCT
2295439 TTTTGTTA
1 TTTT-TTA
2295447 TTTTTTA
1 TTTTTTA
2295454 TTTTTTA
1 TTTTTTA
2295461 TTTTTTTA
1 -TTTTTTA
2295469 TTTTT
1 TTTTT
2295474 AAGCTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 15 0.58
8 11 0.42
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:2296756 original size:17 final size:18
Alignment explanation
Indices: 2296734--2296767 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2296724 TCAACTTGGA
*
2296734 CTGAAAA-ATAATTAAAC
1 CTGAAAAGAAAATTAAAC
2296751 CTGAAAAGAAAATTAAA
1 CTGAAAAGAAAATTAAA
2296768 TAATAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (18 bp):
CTGAAAAGAAAATTAAAC
Found at i:2296887 original size:19 final size:19
Alignment explanation
Indices: 2296865--2296907 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2296855 AAACAATTAC
2296865 ATATATGTTT-AAATATAGT
1 ATATAT-TTTAAAATATAGT
*
2296884 ATATATTTTAAAATATATT
1 ATATATTTTAAAATATAGT
2296903 ATATA
1 ATATA
2296908 ATACACCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
ATATATTTTAAAATATAGT
Found at i:2319889 original size:104 final size:103
Alignment explanation
Indices: 2319688--2319894 Score: 351
Period size: 104 Copynumber: 2.0 Consensus size: 103
2319678 AAGAGTTTCA
*
2319688 ATTCGAAATAAATATAATCTTAACCTTATGAGATTTAATTTTTTTATAGGCGATATTTGAGTAGA
1 ATTCGAAATAAATATAATCTTAACCTTATGAAATTTAATTTTTTTATAGGCGATATTTGAGTAGA
* *
2319753 AAGGCCGTTTTGAGGTTTGTCGATTGGTGTTGGGGGAG
66 AAGGCCGTTTTGAGGTTTGTCGAGTGGCGTTGGGGGAG
* *
2319791 ATTCGAAATAAATATAATCTTAACCTTATGAAATTTAATTTTTTTTATAGGTGATGTTTGAGTAG
1 ATTCGAAATAAATATAATCTTAACCTTATGAAATTTAA-TTTTTTTATAGGCGATATTTGAGTAG
*
2319856 AAAGGCCGTTTTGAGGTTTGTTGAGTGGCGTTGGGGGAG
65 AAAGGCCGTTTTGAGGTTTGTCGAGTGGCGTTGGGGGAG
2319895 TTGCCACTAG
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
103 37 0.38
104 60 0.62
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (103 bp):
ATTCGAAATAAATATAATCTTAACCTTATGAAATTTAATTTTTTTATAGGCGATATTTGAGTAGA
AAGGCCGTTTTGAGGTTTGTCGAGTGGCGTTGGGGGAG
Found at i:2320868 original size:2 final size:2
Alignment explanation
Indices: 2320861--2320894 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2320851 AAATTATAAA
2320861 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
2320895 GACTACACGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2325661 original size:16 final size:16
Alignment explanation
Indices: 2325640--2325674 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2325630 ACCACTCATC
*
2325640 GCACCTGAAGACGTAG
1 GCACCTGAAGACATAG
*
2325656 GCACCTTAAGACATAG
1 GCACCTGAAGACATAG
2325672 GCA
1 GCA
2325675 TCTTGTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.26, G:0.26, T:0.14
Consensus pattern (16 bp):
GCACCTGAAGACATAG
Found at i:2337238 original size:15 final size:16
Alignment explanation
Indices: 2337210--2337239 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2337200 GAAAGAAAGT
2337210 TTTTTCCTTATTAGCC
1 TTTTTCCTTATTAGCC
2337226 TTTTTCCTT-TTAGC
1 TTTTTCCTTATTAGC
2337240 ACCTATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.10, C:0.23, G:0.07, T:0.60
Consensus pattern (16 bp):
TTTTTCCTTATTAGCC
Found at i:2341663 original size:29 final size:29
Alignment explanation
Indices: 2341611--2341668 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
2341601 AATTTTCAAT
2341611 TTTTTAAAAATCTTAATATAAACCTCTAAA
1 TTTTTAAAAATCTTAATATAAACC-CTAAA
*
2341641 TTTTTAAAAATTTTAAGT-T-AACCCTAAA
1 TTTTTAAAAATCTTAA-TATAAACCCTAAA
2341669 CACTACCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.19
29 4 0.15
30 16 0.62
31 1 0.04
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (29 bp):
TTTTTAAAAATCTTAATATAAACCCTAAA
Found at i:2356299 original size:31 final size:32
Alignment explanation
Indices: 2356258--2356319 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
2356248 ATCCATAGAT
* * *
2356258 ATTTATATAAGACGATTTCTATATGGGATGGG
1 ATTTATATAAGACGAGTCCTATATGGAATGGG
*
2356290 ATTTA-ATAAGAGGAGTCCTATATGGAATGG
1 ATTTATATAAGACGAGTCCTATATGGAATGG
2356320 AATAAATACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (32 bp):
ATTTATATAAGACGAGTCCTATATGGAATGGG
Found at i:2365851 original size:15 final size:16
Alignment explanation
Indices: 2365829--2365874 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
2365819 ATTTTATATT
2365829 TATTTTAAAAAAAATA
1 TATTTTAAAAAAAATA
* *
2365845 T-TTTTAAATAATAT-
1 TATTTTAAAAAAAATA
2365859 TATTTTAAAAAAAATA
1 TATTTTAAAAAAAATA
2365875 AAAACTTGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTTTAAAAAAAATA
Found at i:2372791 original size:87 final size:87
Alignment explanation
Indices: 2372645--2372894 Score: 428
Period size: 87 Copynumber: 2.9 Consensus size: 87
2372635 TATGTTATAT
* * *
2372645 TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAAAT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
2372710 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
2372732 TATTTAACGGGAAATATTATTAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGAT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
2372797 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
2372819 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
*
2372884 AACGCTTATAT
66 AGCGCTTATAT
2372895 TGACCTATTT
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 153 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (87 bp):
TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:2376621 original size:120 final size:120
Alignment explanation
Indices: 2376408--2376654 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
2376398 TTTTTCTTCT
*
2376408 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
*
2376473 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCCAGTACATTATA
*
2376528 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * * *
2376593 CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCCATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCCAGTACATTATA
2376648 ATTCTGG
1 ATTCTGG
2376655 GTTCCGATGT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCCAGTACATTATA
Found at i:2376790 original size:303 final size:303
Alignment explanation
Indices: 2376243--2376837 Score: 1100
Period size: 303 Copynumber: 2.0 Consensus size: 303
2376233 TTAAAATTAG
* *
2376243 CGACACAATATTAATAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
2376308 ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCAGTTATATTACAAAATTATCCATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
2376373 CACTTTTTGACAAGGTATCGACACATTTTTCTTCTATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
2376438 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
2376503 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
*
2376546 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
2376611 ATACCGGTTATATTACAAAATTATCCATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCAGTTATATTACAAAATTATCCATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
2376676 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* * *
2376741 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
*
2376806 TTACAAAATTATCTATTACATTATAATTCTGG
261 TTACAAAATTATCTAGTACATTATAATTCTGG
2376838 GTTCCGATGT
Statistics
Matches: 282, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
303 282 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (303 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCAGTTATATTACAAAATTATCCATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:2376836 original size:183 final size:183
Alignment explanation
Indices: 2376528--2377116 Score: 1029
Period size: 183 Copynumber: 3.2 Consensus size: 183
2376518 GTACATTATA
*
2376528 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
2376593 CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCCATTACATTATAATTCTGGGTT
66 CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
2376658 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
2376711 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
2376776 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
2376841 CCGATGTGCAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
* *
2376894 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTAGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
2376959 CATAAAATCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* * * *
2377024 CCAATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
2377078 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
2377117 GAAAACTTTG
Statistics
Matches: 389, Mismatches: 14, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
183 309 0.79
184 77 0.20
186 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:2379337 original size:179 final size:188
Alignment explanation
Indices: 2379055--2379552 Score: 568
Period size: 200 Copynumber: 2.6 Consensus size: 188
2379045 CATTAAACAT
* * * * *
2379055 TGTCGATACA-TATTATATACCAATTCTCCCATAAAACCGGTATACTTATACCGGTTAGATTGAA
1 TGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
* * *
2379119 AAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATTGACACTTTATGG-TTG-C
65 AAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTATGGATCGAC
* * *
2379182 ACCCT-GT-TTG-CC-ATT-CATTC-TGGACC-AAAAATATCGACACAAACTATAAAAG
130 ACCCTAGTGTTGCCCGATTCCATTCATGCACCAAAAAAAATCGACACAAACTACAAAAG
* *
2379234 TGTCGACACATTATTTAGACCTCTTCTCTTATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
1 TGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
* *
2379299 AATTACCTATTACATTATACTTATGGGTTTCAATGTTTATGGGATCGACACTTTTTATATATGGA
66 AATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACAC----T-T-TATGGA
** * * * *
2379364 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACC-AAAAATATCGACACAAACTA
125 TCGACACCCTAGTGTTG--CCC-GATT-CCATTCA---TGCACCAAAAAAAATCGACACAAACTA
2379428 CAAAAG
183 CAAAAG
* *
2379434 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAA
1 TGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
* *
2379499 AATTACCTATTACATTATACTTTTGGGTTTTGATGTTTATGAGATCGACACTTT
66 AATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTT
2379553 TTATATATGG
Statistics
Matches: 272, Mismatches: 25, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
179 100 0.37
180 4 0.01
183 1 0.00
184 1 0.00
185 5 0.02
186 2 0.01
187 4 0.01
188 1 0.00
189 3 0.01
192 2 0.01
194 3 0.01
195 1 0.00
196 6 0.02
200 139 0.51
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (188 bp):
TGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
AATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTATGGATCGACA
CCCTAGTGTTGCCCGATTCCATTCATGCACCAAAAAAAATCGACACAAACTACAAAAG
Found at i:2379509 original size:200 final size:200
Alignment explanation
Indices: 2379161--2379595 Score: 753
Period size: 200 Copynumber: 2.2 Consensus size: 200
2379151 GATGTTTATG
*
2379161 GGATTGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * * *
2379226 TATAAAAGTGTCGACACATTATTTAGACCTCTTCTCTTATAAAACCGGTATACTTGTACCGGTTA
66 TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
*
2379291 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCAATGTTTATGGGATCGACACTTTTTA
131 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCAATGTTTATGAGATCGACACTTTTTA
2379356 TATAT
196 TATAT
*
2379361 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2379426 TACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
66 TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
* **
2379491 GATTGAAAAATTACCTATTACATTATACTTTTGGGTTTTGATGTTTATGAGATCGACACTTTTTA
131 GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCAATGTTTATGAGATCGACACTTTTTA
2379556 TATAT
196 TATAT
* *
2379561 GGATCGACATTTTATGGTTGCACCATGTTTGCCAT
1 GGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
2379596 ATTGTAAATT
Statistics
Matches: 221, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
200 221 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (200 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
TACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
GATTGAAAAATTACCTATTACATTATACTTATGGGTTTCAATGTTTATGAGATCGACACTTTTTA
TATAT
Found at i:2379575 original size:19 final size:21
Alignment explanation
Indices: 2379536--2379575 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2379526 TTTTGATGTT
2379536 TATGAGATCGACACTTTTTATA
1 TATGAGATCGACAC-TTTTATA
2379558 TATG-GATCGACA-TTTTAT
1 TATGAGATCGACACTTTTAT
2379576 GGTTGCACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (21 bp):
TATGAGATCGACACTTTTATA
Found at i:2379840 original size:18 final size:18
Alignment explanation
Indices: 2379817--2379877 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
2379807 TCTCATTCAT
*
2379817 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
2379835 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
2379854 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
2379873 AATTA
1 AATTA
2379878 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:2379853 original size:19 final size:19
Alignment explanation
Indices: 2379829--2379877 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2379819 TTATATTCAC
2379829 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2379848 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2379867 ATACAAAATTA
1 ATACAAAATTA
2379878 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2381705 original size:33 final size:33
Alignment explanation
Indices: 2381668--2381733 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2381658 CATCTTAATA
2381668 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTTAACACCCCAACTTCTTTCACCACT
* *
2381701 TCACCCCTTAACACCTCTACTTCTTTCACCACT
1 TCACCCCTTAACACCCCAACTTCTTTCACCACT
2381734 CCATCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTTAACACCCCAACTTCTTTCACCACT
Found at i:2381794 original size:21 final size:21
Alignment explanation
Indices: 2381770--2381810 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
2381760 CTTACGTATC
2381770 TCAAGTTTCTCTTCGACTCTA
1 TCAAGTTTCTCTTCGACTCTA
2381791 TCAAGTTTCTCTTCGACTCT
1 TCAAGTTTCTCTTCGACTCT
2381811 TGATTGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.29, G:0.10, T:0.44
Consensus pattern (21 bp):
TCAAGTTTCTCTTCGACTCTA
Found at i:2384224 original size:160 final size:162
Alignment explanation
Indices: 2384053--2384389 Score: 489
Period size: 161 Copynumber: 2.1 Consensus size: 162
2384043 ATCATTTTGA
* * *
2384053 TACCGGTTTTATCATATTTTTACATGTTATATCGTTGTGGATCGATA-TTTTTTTTAAAGTATCG
1 TACCGGTTTTATCATATTTTTACATGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
* *
2384117 ACACATTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTATCGATCCTTATA-TAAAG
66 ACACATTATAGGAGCTAAAACTGCTTATCTTTTAAATTCACAAAGTATCGATCCTTATATTAAAG
* * *
2384181 TATCGACACTTTCAATATATCCGGTAACGTTT
131 TACCGACACTTTAAATATATCCGGTAACGCTT
* *
2384213 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCG
1 TACCGGTTTTATCATATTTTTACATGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
* ** * * *
2384278 ACACTTTATAGGATTTAAAACTGCTTATCTTTTAAATTCACGAAGTGTCGATCCTTGTATTAAAG
66 ACACATTATAGGAGCTAAAACTGCTTATCTTTTAAATTCACAAAGTATCGATCCTTATATTAAAG
* *
2384343 TACCGACACTTTAAATGTATCCGGTAGCGCTT
131 TACCGACACTTTAAATATATCCGGTAACGCTT
*
2384375 TATCGGTTTTATCAT
1 TACCGGTTTTATCAT
2384390 TTCAATACCG
Statistics
Matches: 156, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
160 44 0.28
161 66 0.42
162 46 0.29
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (162 bp):
TACCGGTTTTATCATATTTTTACATGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCG
ACACATTATAGGAGCTAAAACTGCTTATCTTTTAAATTCACAAAGTATCGATCCTTATATTAAAG
TACCGACACTTTAAATATATCCGGTAACGCTT
Found at i:2387409 original size:2 final size:2
Alignment explanation
Indices: 2387402--2387435 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2387392 TAATTTAATC
2387402 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
2387436 CAAGTAGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2388962 original size:36 final size:36
Alignment explanation
Indices: 2388891--2389080 Score: 267
Period size: 36 Copynumber: 5.3 Consensus size: 36
2388881 ATGAACACTC
* * * *
2388891 GAATCGAAAGTG-CGATACATCCTTCCGTTCAACTT
1 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
*
2388926 GAATCGGAAGTGCTGATGCTTCCTTCCGTTCGACTT
1 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
* *
2388962 GAATCGAAAGTGCCGATGCTTCCCTCCGTTCGACTT
1 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
* *
2388998 GAATCGGGAGTGCCGACGCTTTCC-TCCGTTCGACTT
1 GAATCGGAAGTGCCGATGC-TTCCTTCCGTTCGACTT
*
2389034 GAATCGGAAGTGTCGATGCTTCCTTCCGTTCGACTT
1 GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
2389070 GAATCGGAAGT
1 GAATCGGAAGT
2389081 TCGATGCATT
Statistics
Matches: 138, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
35 15 0.11
36 119 0.86
37 4 0.03
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.29
Consensus pattern (36 bp):
GAATCGGAAGTGCCGATGCTTCCTTCCGTTCGACTT
Found at i:2402859 original size:26 final size:26
Alignment explanation
Indices: 2402775--2402861 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 26
2402765 CATTCCTCCA
*
2402775 TTGATACTTTAGA-TTGTCGATCTTG
1 TTGATATTTTAGATTTGTCGATCTTG
*
2402800 TCGATATTTTAGATTTGTCGATCTTATTGCTG
1 TTGATATTTTAGATTTGTCGATC----T--TG
*
2402832 TTGATATTTTAGATTTTTCGATCTTG
1 TTGATATTTTAGATTTGTCGATCTTG
2402858 TTGA
1 TTGA
2402862 AGACGAAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
25 11 0.22
26 15 0.29
28 1 0.02
30 1 0.02
32 23 0.45
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (26 bp):
TTGATATTTTAGATTTGTCGATCTTG
Found at i:2405254 original size:39 final size:39
Alignment explanation
Indices: 2405194--2405271 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
2405184 GACGATAGTC
* *
2405194 AAATTACAATCGATTACAATTAGAGAATTAATAATAATT
1 AAATTACAATCAATTACAATTAGAGAACTAATAATAATT
* *
2405233 AAATTACAATCAATTATAATTAGAGAACTAATAGTAATT
1 AAATTACAATCAATTACAATTAGAGAACTAATAATAATT
2405272 GCTTATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (39 bp):
AAATTACAATCAATTACAATTAGAGAACTAATAATAATT
Found at i:2412307 original size:2 final size:2
Alignment explanation
Indices: 2412300--2412333 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2412290 TTTTATAAAT
2412300 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
2412334 ATAAAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2412906 original size:29 final size:30
Alignment explanation
Indices: 2412848--2412920 Score: 130
Period size: 29 Copynumber: 2.5 Consensus size: 30
2412838 CTGCATGGAT
2412848 TGCATGGCGACCTACCTAGGTCGCTGGGCG
1 TGCATGGCGACCTACCTAGGTCGCTGGGCG
*
2412878 TGCATGGCGACCTA-GTAGGTCGCTGGGCG
1 TGCATGGCGACCTACCTAGGTCGCTGGGCG
2412907 TGCATGGCGACCTA
1 TGCATGGCGACCTA
2412921 TATGGGGACT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 28 0.67
30 14 0.33
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.21
Consensus pattern (30 bp):
TGCATGGCGACCTACCTAGGTCGCTGGGCG
Found at i:2415468 original size:17 final size:20
Alignment explanation
Indices: 2415429--2415468 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2415419 TTTTTGCAAT
*
2415429 ACAAAATAAATATTAATTCA
1 ACAAAATAAATATAAATTCA
2415449 ACAAAAT-AAT-TAAATT-A
1 ACAAAATAAATATAAATTCA
2415466 ACA
1 ACA
2415469 TATAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 3 0.16
20 7 0.37
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
ACAAAATAAATATAAATTCA
Found at i:2418460 original size:26 final size:26
Alignment explanation
Indices: 2418376--2418462 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 26
2418366 CATTCCTCCA
*
2418376 TTGATACTTTAGA-TTGTCGATCTTG
1 TTGATATTTTAGATTTGTCGATCTTG
*
2418401 TCGATATTTTAGATTTGTCGATCTTATTGCTG
1 TTGATATTTTAGATTTGTCGATC----T--TG
*
2418433 TTGATATTTTAGATTTTTCGATCTTG
1 TTGATATTTTAGATTTGTCGATCTTG
2418459 TTGA
1 TTGA
2418463 AGACGAAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
25 11 0.22
26 15 0.29
28 1 0.02
30 1 0.02
32 23 0.45
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (26 bp):
TTGATATTTTAGATTTGTCGATCTTG
Found at i:2420861 original size:39 final size:39
Alignment explanation
Indices: 2420801--2420878 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
2420791 GACGATAGTC
* *
2420801 AAATTACAATCGATTACAATTAGAGAATTAATAATAATT
1 AAATTACAATCAATTACAATTAGAGAACTAATAATAATT
* * *
2420840 AAATTACAATTAATTATAATTAGAGAACTAATAGTAATT
1 AAATTACAATCAATTACAATTAGAGAACTAATAATAATT
2420879 GCTTATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (39 bp):
AAATTACAATCAATTACAATTAGAGAACTAATAATAATT
Found at i:2427497 original size:24 final size:23
Alignment explanation
Indices: 2427477--2427523 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2427467 TAATAAAATT
2427477 AAAGAAGTGACATCATTTAAAAA
1 AAAGAAGTGACATCATTTAAAAA
* * *
2427500 AAATAATTGACATCTTTTAAAAA
1 AAAGAAGTGACATCATTTAAAAA
2427523 A
1 A
2427524 TTGATCCCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.28
Consensus pattern (23 bp):
AAAGAAGTGACATCATTTAAAAA
Found at i:2428061 original size:29 final size:30
Alignment explanation
Indices: 2428003--2428075 Score: 130
Period size: 29 Copynumber: 2.5 Consensus size: 30
2427993 CTGCATGGAT
2428003 TGCATGGCGACCTACCTAGGTCGCTGGGCG
1 TGCATGGCGACCTACCTAGGTCGCTGGGCG
*
2428033 TGCATGGCGACCTA-GTAGGTCGCTGGGCG
1 TGCATGGCGACCTACCTAGGTCGCTGGGCG
2428062 TGCATGGCGACCTA
1 TGCATGGCGACCTA
2428076 TATGGGGACT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 28 0.67
30 14 0.33
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.21
Consensus pattern (30 bp):
TGCATGGCGACCTACCTAGGTCGCTGGGCG
Found at i:2435818 original size:17 final size:20
Alignment explanation
Indices: 2435779--2435818 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2435769 TTTTTGCAAT
*
2435779 ACAAAATAAATATTAATTCA
1 ACAAAATAAATATAAATTCA
2435799 ACAAAAT-AAT-TAAATT-A
1 ACAAAATAAATATAAATTCA
2435816 ACA
1 ACA
2435819 TATAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 3 0.16
20 7 0.37
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
ACAAAATAAATATAAATTCA
Found at i:2437929 original size:22 final size:22
Alignment explanation
Indices: 2437915--2437960 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
2437905 TAAGTTTTAC
2437915 TTTTT-AATTATATAATTTGAA
1 TTTTTAAATTATATAATTTGAA
*
2437936 TTTTTAAATTTTATAA-TTGAA
1 TTTTTAAATTATATAATTTGAA
2437957 TTTT
1 TTTT
2437961 GTATTATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTTTAAATTATATAATTTGAA
Found at i:2438229 original size:2 final size:2
Alignment explanation
Indices: 2438222--2438272 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2438212 AGTTTTAAGG
2438222 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
2438264 AT AT AT AT A
1 AT AT AT AT A
2438273 AGCTATTTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2439076 original size:16 final size:16
Alignment explanation
Indices: 2439055--2439085 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2439045 AAAGATCACT
2439055 AACAAATCACAAATTG
1 AACAAATCACAAATTG
2439071 AACAAATCACAAATT
1 AACAAATCACAAATT
2439086 AGAGTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.03, T:0.19
Consensus pattern (16 bp):
AACAAATCACAAATTG
Found at i:2447105 original size:15 final size:14
Alignment explanation
Indices: 2447081--2447122 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
2447071 TGACAGTAAG
*
2447081 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
2447096 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
2447110 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
2447123 GTATCTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:2447113 original size:20 final size:20
Alignment explanation
Indices: 2447081--2447122 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2447071 TGACAGTAAG
*
2447081 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
2447101 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
2447121 TT
1 TT
2447123 GTATCTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:2447591 original size:3 final size:3
Alignment explanation
Indices: 2447575--2447650 Score: 109
Period size: 3 Copynumber: 25.7 Consensus size: 3
2447565 TGTAATTTTA
* * *
2447575 AAT AAT -AT ATT AAT AAT AAT AAT AAT TAT AAT TAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2447622 AAT AAT AAT AAT AAT TAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2447651 CATAAAAATG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:2448095 original size:112 final size:114
Alignment explanation
Indices: 2447942--2448432 Score: 513
Period size: 116 Copynumber: 4.3 Consensus size: 114
2447932 ATAGAACTAT
* * * * *
2447942 GCAAAAAGTTGAACAAGTTCTTCTTATTATAAACTTATTCTTCCTTCTTCA-A-ATGAGTTCTTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAGACGAGTTCTTC
2448005 TCATTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGA
66 TCATTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGA
* * *
2448054 GCAAAAGGTTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA-GACGAGTTCTT
* * * ** * * * * * * * **
2448119 CTCATTATAAACTCTCCCTGGCAATGTTGATCCATCAAATGATGAATTCAA
65 CTCATTATGAA-TTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGA
* * * *
2448170 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCA-A-ATGAGTTCTTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAGACGAGTTCTTC
2448233 TCATTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGA
66 TCATTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGA
* * *
2448282 GCAAAAGGTTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA-GACGAGTTCTT
* * * ** * * * * * * * **
2448347 CTCATTATAAACTCTCCCTGGCAATGTTGATCCATCAAATGATGAATTCAA
65 CTCATTATGAA-TTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGA
* *
2448398 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACT
2448433 CGAACTGGAA
Statistics
Matches: 302, Mismatches: 69, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
112 115 0.38
113 21 0.07
115 39 0.13
116 127 0.42
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (114 bp):
GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAGACGAGTTCTTC
TCATTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGA
Found at i:2448340 original size:228 final size:228
Alignment explanation
Indices: 2447943--2448432 Score: 944
Period size: 228 Copynumber: 2.1 Consensus size: 228
2447933 TAGAACTATG
* *
2447943 CAAAAAGTTGAACAAGTTCTTCTTATTATAAACTTATTCTTCCTTCTTCAAATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAAATGAGTTCTTCTCA
2448008 TTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 TTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
2448073 CTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATAAACTCTCCCT
131 CTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATAAACTCTCCCT
2448138 GGCAATGTTGATCCATCAAATGATGAATTCAAA
196 GGCAATGTTGATCCATCAAATGATGAATTCAAA
* *
2448171 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAAATGAGTTCTTCTCA
2448236 TTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 TTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
2448301 CTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATAAACTCTCCCT
131 CTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATAAACTCTCCCT
2448366 GGCAATGTTGATCCATCAAATGATGAATTCAAA
196 GGCAATGTTGATCCATCAAATGATGAATTCAAA
2448399 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
2448433 CGAACTGGAA
Statistics
Matches: 258, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 258 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (228 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAAATGAGTTCTTCTCA
TTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
CTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATAAACTCTCCCT
GGCAATGTTGATCCATCAAATGATGAATTCAAA
Found at i:2448463 original size:73 final size:73
Alignment explanation
Indices: 2448340--2448503 Score: 184
Period size: 73 Copynumber: 2.2 Consensus size: 73
2448330 TCAGATGACG
* *** * * *
2448340 AGTTCTTCTCATTATAAACTCTCCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAA
1 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAA
2448405 GTTGAACA
66 GTTGAACA
* ** ** * *
2448413 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAA
2448478 GTTGAACA
66 GTTGAACA
* *
2448486 AATTCTTCTCATTGTGAA
1 AGTTCTTCTCATTATGAA
2448504 TTTCTTCTTC
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAA
GTTGAACA
Found at i:2448472 original size:189 final size:187
Alignment explanation
Indices: 2448225--2448621 Score: 677
Period size: 189 Copynumber: 2.1 Consensus size: 187
2448215 TCTTCAAATG
* * * * *
2448225 AGTTCTTCTCATTATGAATTTCTCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGAGCAAAAGG
1 AGTTCTTCTCATTATGAA-CTCACTGAAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGG
2448290 TTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
65 TTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
*
2448355 AAACTCTCCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
130 AAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
* *
2448413 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTC--ACTGAAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAG
*
2448478 GTTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGATTTCTTCTCATTA
64 GTTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
*
2448543 TGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
129 TAAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
2448602 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
2448622 TCTTCTTCTT
Statistics
Matches: 197, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
187 2 0.01
188 18 0.09
189 177 0.90
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (187 bp):
AGTTCTTCTCATTATGAACTCACTGAAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
TGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATA
AACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
Found at i:2448705 original size:113 final size:113
Alignment explanation
Indices: 2448413--2448712 Score: 429
Period size: 116 Copynumber: 2.6 Consensus size: 113
2448403 AAGTTGAACA
2448413 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAG
* *
2448478 GTTGAACAAATTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * * * * * ** ** *
2448526 ACGATTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAA
1 A-G--TTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAA
* * *
2448591 AAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATG
63 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
2448642 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAG
2448707 GTTGAA
66 GTTGAA
2448713 ATTCCTGTTA
Statistics
Matches: 156, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
113 58 0.37
114 1 0.01
115 1 0.01
116 96 0.62
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGGTTTGAGCAAAAG
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:2449550 original size:83 final size:83
Alignment explanation
Indices: 2449411--2450294 Score: 1191
Period size: 83 Copynumber: 10.7 Consensus size: 83
2449401 GTATTTCCTA
* *
2449411 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
2449476 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* **
2449494 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
2449559 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
2449577 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTTATCTTCTA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCTA
* * *
2449641 AACTCAATGCTTGATTCTG
65 AATTCAATGATTGGTTCTG
* *
2449660 TCC-AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTTATCTTCT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCT
* * *
2449723 AAACTCAATGCTTGATTCTG
64 AAATTCAATGATTGGTTCTG
* *
2449743 TCC-AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATATTCT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCT
*
2449806 AACTTCAATGATT-GTTCTG
64 AAATTCAATGATTGGTTCTG
** * * * * **
2449825 TTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
2449890 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * *
2449908 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
2449973 ATTCAATGATT-GTTCTG
66 ATTCAATGATTGGTTCTG
2449990 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCT
* *
2450053 AACTTCAATGATT-GTTTTG
64 AAATTCAATGATTGGTTCTG
** * * * * * **
2450072 TTAAACCAGGTCAGATAACTCAAAGAACACTTCCATAAGATGCTATTAACACATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
2450137 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * *
2450155 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
2450220 ATTCAATGATT-GTTCTG
66 ATTCAATGATTGGTTCTG
2450237 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCAT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCAT
2450295 TTGTTCTATT
Statistics
Matches: 731, Mismatches: 58, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
81 2 0.00
82 264 0.36
83 462 0.63
84 3 0.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
ATTCAATGATTGGTTCTG
Found at i:2449929 original size:165 final size:164
Alignment explanation
Indices: 2449413--2450294 Score: 1241
Period size: 165 Copynumber: 5.3 Consensus size: 164
2449403 ATTTCCTACC
* *
2449413 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCCAAA
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAA
* *
2449477 TTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
65 TTCAATGATT-GTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
* *
2449542 GCACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
129 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTG-T
* *
2449579 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAAC
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
* * * *
2449644 TCAATGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGG
66 TCAATGATTG-TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAG
* * * * *
2449709 CAAATTTATCTTCTAAACTCAATGCTTGATTCTGT
130 CAAATTCATCTTCCAAATTCAATGATTGGTTCTGT
* * * *
2449744 CCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAC
1 -AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
* * *
2449809 TTCAATGATTGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAA
65 TTCAATGATTGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAG
* *
2449874 CACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
130 CAAATTCATCTTCCAAATTCAATGATTGGTTCTG-T
* **
2449910 AAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
* *
2449975 TCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC
66 TCAATGATTGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGC
* * *
2450040 AAATTCATCTTCTAACTTCAATGATT-GTTTTGTT
131 AAATTCATCTTCCAAATTCAATGATTGGTTCTG-T
* * ** * **
2450074 AAACCAGGTCAGATAACTCAAAGAACACTTCCATAAGATGCTATTAACACATTCATCTTCCCAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
*
2450139 TCAATGATTGGTTCTG-CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
66 TCAATGATT-GTTCTGTC-AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
* *
2450203 ACAAATTCATCTTCTAAATTCAATGATT-GTTCTGT
129 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGT
*
2450238 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
1 -AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
2450295 TTGTTCTATT
Statistics
Matches: 638, Mismatches: 71, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
164 78 0.12
165 347 0.54
166 211 0.33
167 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (164 bp):
AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAAT
TCAATGATTGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGC
AAATTCATCTTCCAAATTCAATGATTGGTTCTGT
Found at i:2450079 original size:247 final size:247
Alignment explanation
Indices: 2449413--2450294 Score: 1403
Period size: 247 Copynumber: 3.6 Consensus size: 247
2449403 ATTTCCTACC
* * * *
2449413 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
2449478 TCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TG
66 TCAATGATT-GTTCTGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
* * * *
2449541 AGCACATTCATCTTCCCAA-TTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAAC
129 -GCAAATTCATCTT-CTAACTTCAATGATT-GTTCTGTTAAACCAGGTCAGATAACTCAAAGAAC
** * * ** * * *
2449605 ACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTTGATTCTG-T
191 ACTTCCAGAAGATGCTATTAACACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
* * ** *
2449661 CCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAA
1 -AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAA
* * *
2449726 CTCAATGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
65 TTCAATGATTG-TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
*
2449791 GCAAATTCATATTCTAACTTCAATGATTGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACT
129 GCAAATTCATCTTCTAACTTCAATGATTGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACT
2449856 TCCAGAAGATGCTATTAACACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
194 TCCAGAAGATGCTATTAACACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
*
2449910 AAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
2449975 TCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC
66 TCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC
*
2450040 AAATTCATCTTCTAACTTCAATGATTGTTTTGTTAAACCAGGTCAGATAACTCAAAGAACACTTC
131 AAATTCATCTTCTAACTTCAATGATTGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTC
*
2450105 CATAAGATGCTATTAACACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
196 CAGAAGATGCTATTAACACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
*
2450157 AAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
2450222 TCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC
66 TCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC
2450287 AAATTCAT
131 AAATTCAT
2450295 TTGTTCTATT
Statistics
Matches: 592, Mismatches: 36, Indels: 12
0.93 0.06 0.02
Matches are distributed among these distances:
247 306 0.52
248 149 0.25
249 133 0.22
250 4 0.01
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (247 bp):
AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
TCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC
AAATTCATCTTCTAACTTCAATGATTGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTC
CAGAAGATGCTATTAACACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
Found at i:2463687 original size:15 final size:14
Alignment explanation
Indices: 2463663--2463704 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
2463653 TGACAGTAAG
*
2463663 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
2463678 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
2463692 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
2463705 GTATCTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:2463695 original size:20 final size:20
Alignment explanation
Indices: 2463663--2463704 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2463653 TGACAGTAAG
*
2463663 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
2463683 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
2463703 TT
1 TT
2463705 GTATCTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:2464175 original size:3 final size:3
Alignment explanation
Indices: 2464159--2464213 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
2464149 TGTAATTTTA
* * * * *
2464159 AAT AAT -AT ATT AAT AAT AAT TAT AAT TAT AAT TAT AAT AAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2464206 AAT AAT AA
1 AAT AAT AA
2464214 CATAAAAATG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:2464189 original size:15 final size:15
Alignment explanation
Indices: 2464159--2464213 Score: 74
Period size: 15 Copynumber: 3.5 Consensus size: 15
2464149 TGTAATTTTA
2464159 AATAATATATTAATAAT
1 AATAATA-ATT-ATAAT
*
2464176 AATTATAATTATAAT
1 AATAATAATTATAAT
*
2464191 TATAATAATTATAAT
1 AATAATAATTATAAT
2464206 AATAATAA
1 AATAATAA
2464214 CATAAAAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 25 0.74
16 3 0.09
17 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATAATTATAAT
Found at i:2465496 original size:523 final size:528
Alignment explanation
Indices: 2464445--2465515 Score: 1765
Period size: 523 Copynumber: 2.0 Consensus size: 528
2464435 AAGATGTTCC
2464445 CAGGGTGCCATTGCAATCTTCATGGCTATTATTCATATATAGACTATAGTATAACGTTCAAACAT
1 CAGGGTGCCATTGCAATCTTCATGGCTATTATTCATATATAG---ATAG-ATAACGTTCAAACAT
*
2464510 CATTTACAAAAGCTGATGATATGACGCATTAATGGGGTACATGAACAACCAAAAACGTAATATAG
62 CATTTACAAAAGCTAATGATATGACGCATTAATGGGGTACATGAACAACCAAAAACGTAATATAG
*
2464575 CAATGACTTTCAAAATCATGTTCCAAATTGCTAAAATACTCCAGGAGGCATCTCTTCGAAGACAT
127 CAATGACTTTCAAAATCATGTTCCAAATTGCTAAAACACTCCAGGAGGCATCTCTTCGAAGACAT
* *
2464640 TAGCATGCATCATTTGCATTGAAGGAAAAAGAAGTCAATCAGATGGTGGCAATTTATAAATGAAG
192 TAACATGCATCATTTGCATTAAAGGAAAAAGAAGTCAATCAGATGGTGGC--------AAT----
*
2464705 CACATACAAAGGCTATGGGATAGTTAACAATGGTCAATTGTGTTCGCTGTATGGATCAGAAATTG
245 -A-ATACAAAGGCTATGGGATAGTTAACAATGGTCAATTGTGTTCGCTGTATGGATCAGAAACTG
* *
2464770 ATTAAACAACTCGACTCTCAATAAGCAAAAGGTGAGTGGTTTCCCAAACAACAAGGTCCTACTAA
308 ATTAAACAACTCGACTCCCAATAAGCAAAAGGTGAGTGGTTTCCCAAACAACAAGATCCTACTAA
* * *
2464835 GTACAGAACTGTACTAGTAAACACACGGAATTAATATTATAATTCCAAGTCTCCTCTATATAAGC
373 GTACAGAACTGGAATAGTAAACACACGGAACTAATATTATAATTCCAAGTCTCCTCTATATAAGC
2464900 TCAAACTTTTTCGTTTGCAATAACTAAAGAAAGAGACGACAAACGAAAATAAAGAACAATTGTTT
438 TCAAACTTTTTCGTTTGCAATAACTAAAGAAAGAGACGACAAACGAAAATAAAGAACAATTGTTT
*
2464965 AATAACACAAAAAATGAACAACTTAA
503 AATAACACAAAAAATAAACAACTTAA
*
2464991 CAGGGTGCCATTGCAATCTTCATGGCTATTATTCATATATAG-T-G-TAACGTTCGAACATCATT
1 CAGGGTGCCATTGCAATCTTCATGGCTATTATTCATATATAGATAGATAACGTTCAAACATCATT
*
2465053 TACAAAAGCTAATGATATGATGCATTAATGGGGTACATGAACAACCAAAAACGTAATATAGCAAT
66 TACAAAAGCTAATGATATGACGCATTAATGGGGTACATGAACAACCAAAAACGTAATATAGCAAT
*
2465118 GACTTTCAAAATCATGTTCCAAATTGCTAAAACACTCTAGGAGGCATCTCTTCGAAGACATTAAC
131 GACTTTCAAAATCATGTTCCAAATTGCTAAAACACTCCAGGAGGCATCTCTTCGAAGACATTAAC
2465183 ATGCATCATTTGCATTAAAGGAAAAAGAAGTCAATCAGATGGTGGC-AT-ATACAAAGGCTATGG
196 ATGCATCATTTGCATTAAAGGAAAAAGAAGTCAATCAGATGGTGGCAATAATACAAAGGCTATGG
* * * *
2465246 GATAGTTAACAATGGTCAGTTGTGTTTGCTGTATGGATCAGAAGCTGATTAAACAACTCGAGTCC
261 GATAGTTAACAATGGTCAATTGTGTTCGCTGTATGGATCAGAAACTGATTAAACAACTCGACTCC
2465311 CAATAAGCAAAAGGTGAGTGGTTTCCCAAACAACAAGATCCTACTAAGTACAGAACTGGAATAGT
326 CAATAAGCAAAAGGTGAGTGGTTTCCCAAACAACAAGATCCTACTAAGTACAGAACTGGAATAGT
* *
2465376 AAACACATGGAACTAATATTATAATTCCAAGTCTCCTCTATATAAGGTCAAACTTTTTCGTTTGC
391 AAACACACGGAACTAATATTATAATTCCAAGTCTCCTCTATATAAGCTCAAACTTTTTCGTTTGC
2465441 AATAACTAAAGAAAGAGACGACAAACGAAAATAAAGAACAATTGTTTAATAACACAAAAAATAAA
456 AATAACTAAAGAAAGAGACGACAAACGAAAATAAAGAACAATTGTTTAATAACACAAAAAATAAA
2465506 CAACTTAA
521 CAACTTAA
2465514 CA
1 CA
2465516 AGGGCTGTGA
Statistics
Matches: 505, Mismatches: 20, Indels: 23
0.92 0.04 0.04
Matches are distributed among these distances:
523 272 0.54
530 2 0.00
539 187 0.37
541 1 0.00
542 1 0.00
546 42 0.08
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (528 bp):
CAGGGTGCCATTGCAATCTTCATGGCTATTATTCATATATAGATAGATAACGTTCAAACATCATT
TACAAAAGCTAATGATATGACGCATTAATGGGGTACATGAACAACCAAAAACGTAATATAGCAAT
GACTTTCAAAATCATGTTCCAAATTGCTAAAACACTCCAGGAGGCATCTCTTCGAAGACATTAAC
ATGCATCATTTGCATTAAAGGAAAAAGAAGTCAATCAGATGGTGGCAATAATACAAAGGCTATGG
GATAGTTAACAATGGTCAATTGTGTTCGCTGTATGGATCAGAAACTGATTAAACAACTCGACTCC
CAATAAGCAAAAGGTGAGTGGTTTCCCAAACAACAAGATCCTACTAAGTACAGAACTGGAATAGT
AAACACACGGAACTAATATTATAATTCCAAGTCTCCTCTATATAAGCTCAAACTTTTTCGTTTGC
AATAACTAAAGAAAGAGACGACAAACGAAAATAAAGAACAATTGTTTAATAACACAAAAAATAAA
CAACTTAA
Found at i:2468301 original size:24 final size:26
Alignment explanation
Indices: 2468274--2468325 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
2468264 TCTTGCTGGC
2468274 AGTGC-TC-CTCCCCTTTCACCAAGA
1 AGTGCATCGCTCCCCTTTCACCAAGA
*
2468298 AGTGCATCTGGTTCCCCTTTCACCAAGA
1 AGTGCATC--GCTCCCCTTTCACCAAGA
2468326 TGTACGGAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 2 0.09
28 16 0.70
ACGTcount: A:0.21, C:0.37, G:0.15, T:0.27
Consensus pattern (26 bp):
AGTGCATCGCTCCCCTTTCACCAAGA
Found at i:2470223 original size:93 final size:93
Alignment explanation
Indices: 2470115--2470341 Score: 393
Period size: 93 Copynumber: 2.4 Consensus size: 93
2470105 AGTTAAGAAA
*
2470115 TATACTTATCAAATAATTATAAGTTGAATATAAACAATATATATTTTTGGGTGGGTCGAATATAT
1 TATACTTATAAAATAATTATAAGTTGAATATAAACAATATATATTTTTGGGTGGGTCGAATAT-T
*
2470180 TTTT-TAAATATAAGTCAAATATTAATTT
65 TTTTAAAAATATAAGTCAAATATTAATTT
2470208 TATACTTATAAAATAATTATAAGTTGAATATAAACAATATATATTTTTGGGTGGGTCGAATATTT
1 TATACTTATAAAATAATTATAAGTTGAATATAAACAATATATATTTTTGGGTGGGTCGAATATTT
2470273 TTTAAAAATATAAGTCAAATATTAATTT
66 TTTAAAAATATAAGTCAAATATTAATTT
* * *
2470301 TATACTTATAACATAATTATAAGTTGAATACAAAAAATATA
1 TATACTTATAAAATAATTATAAGTTGAATATAAACAATATA
2470342 CTTAAAAATT
Statistics
Matches: 128, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 5 0.04
93 123 0.96
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (93 bp):
TATACTTATAAAATAATTATAAGTTGAATATAAACAATATATATTTTTGGGTGGGTCGAATATTT
TTTAAAAATATAAGTCAAATATTAATTT
Found at i:2470505 original size:115 final size:116
Alignment explanation
Indices: 2470356--2470572 Score: 348
Period size: 115 Copynumber: 1.9 Consensus size: 116
2470346 AAAATTATTA
* * * * * *
2470356 TAAGTCGATTATAAGTATGCTTTTTAACTATTTTAAAATATTATTTTATTCGAATCAATTCGGGA
1 TAAGTCGAATAAAAGTATGATTTTTAACTATTTTAAAATATTAATTTATTCGAATCAAGTAGGGA
*
2470421 CTATTCGAATATAAACAATATATTTTCT-AGGTGGGTCGATTTTTTTAACTG
66 CGATTCGAATATAAACAATATATTTTCTGA-GTGGGTCGATTTTTTTAACTG
2470472 TAAGTCGAATAAAAGTAT-ATTTTTAACTATTTTAAAATATTAATTTATTCGAATCAAGTAGGGA
1 TAAGTCGAATAAAAGTATGATTTTTAACTATTTTAAAATATTAATTTATTCGAATCAAGTAGGGA
2470536 CGATTCGAATATAAACAATATATTTTCTGAGTGGGTC
66 CGATTCGAATATAAACAATATATTTTCTGAGTGGGTC
2470573 AGGTTGAATA
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
115 76 0.82
116 17 0.18
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (116 bp):
TAAGTCGAATAAAAGTATGATTTTTAACTATTTTAAAATATTAATTTATTCGAATCAAGTAGGGA
CGATTCGAATATAAACAATATATTTTCTGAGTGGGTCGATTTTTTTAACTG
Found at i:2472688 original size:21 final size:21
Alignment explanation
Indices: 2472649--2472691 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2472639 TAATATATAG
2472649 TATAATATTTTATAGATAAAA
1 TATAATATTTTATAGATAAAA
*
2472670 TATAACTATTTT-TATATAAAA
1 TATAA-TATTTTATAGATAAAA
2472691 T
1 T
2472692 TCTTTAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TATAATATTTTATAGATAAAA
Found at i:2480561 original size:18 final size:18
Alignment explanation
Indices: 2480525--2480561 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2480515 TTCGTATTGG
**
2480525 ACTTGATTCGATTTTAAA
1 ACTTGATTCGATTAAAAA
2480543 ACTTGATTCGATTAAAAA
1 ACTTGATTCGATTAAAAA
2480561 A
1 A
2480562 AATTCAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
ACTTGATTCGATTAAAAA
Found at i:2482663 original size:18 final size:19
Alignment explanation
Indices: 2482625--2482663 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2482615 AATTTGGTAC
*
2482625 TTAATTTTTTATGGTTCAA
1 TTAATTTTTTATGATTCAA
*
2482644 TTAATTTTTTA-GATTTAA
1 TTAATTTTTTATGATTCAA
2482662 TT
1 TT
2482664 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (19 bp):
TTAATTTTTTATGATTCAA
Found at i:2482825 original size:18 final size:19
Alignment explanation
Indices: 2482791--2482832 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
2482781 GTATGGATAA
*
2482791 AAAATTTAGATACTAAATT
1 AAAATTTAGAAACTAAATT
2482810 AAAATTTA-AAACTAAATT
1 AAAATTTAGAAACTAAATT
2482828 AAAAT
1 AAAAT
2482833 ATCTAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTTAGAAACTAAATT
Found at i:2483312 original size:17 final size:17
Alignment explanation
Indices: 2483282--2483316 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2483272 CTAAAATTAT
*
2483282 ATTAATATTCTAAAAAA
1 ATTAAAATTCTAAAAAA
*
2483299 ATTAAAATTTTAAAAAA
1 ATTAAAATTCTAAAAAA
2483316 A
1 A
2483317 ATTGATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTAAAATTCTAAAAAA
Found at i:2484026 original size:14 final size:15
Alignment explanation
Indices: 2484003--2484032 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2483993 AGTTAAAAAA
2484003 TTAAACATAAAATAT
1 TTAAACATAAAATAT
2484018 TTAAA-ATAAAATAT
1 TTAAACATAAAATAT
2484032 T
1 T
2484033 AATTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAAACATAAAATAT
Found at i:2485532 original size:21 final size:21
Alignment explanation
Indices: 2485508--2485574 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
2485498 GAAGGGAACA
2485508 ATCCTTTCTTTCGAGGGATCG
1 ATCCTTTCTTTCGAGGGATCG
**
2485529 ATCCTTT-TCCCCGAGGGATCG
1 ATCCTTTCT-TTCGAGGGATCG
2485550 ATCCTTTC-TTCTGAGGGATCG
1 ATCCTTTCTTTC-GAGGGATCG
2485571 ATCC
1 ATCC
2485575 ATTTGAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.15, C:0.28, G:0.22, T:0.34
Consensus pattern (21 bp):
ATCCTTTCTTTCGAGGGATCG
Found at i:2486608 original size:8 final size:8
Alignment explanation
Indices: 2486595--2486626 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
2486585 GAGCTTGGAA
2486595 GGAAGAAG
1 GGAAGAAG
2486603 GGAAGAAG
1 GGAAGAAG
2486611 GGAAGAAG
1 GGAAGAAG
2486619 GGAAGAAG
1 GGAAGAAG
2486627 ACAAGGTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (8 bp):
GGAAGAAG
Found at i:2521808 original size:32 final size:32
Alignment explanation
Indices: 2521767--2521830 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
2521757 ATGATATAAG
*
2521767 TTAAAGATTAGATAATTAGAGGTGTTTGTGGC
1 TTAAAGATTAGATAATTAGAGGCGTTTGTGGC
2521799 TTAAAGATTAGATAATTAGAGGCGTTTGTGGC
1 TTAAAGATTAGATAATTAGAGGCGTTTGTGGC
2521831 AAAAAAATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (32 bp):
TTAAAGATTAGATAATTAGAGGCGTTTGTGGC
Found at i:2523623 original size:2 final size:2
Alignment explanation
Indices: 2523616--2523648 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2523606 TTTATTTCAT
2523616 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
2523649 TAATGCTATT
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:2526177 original size:32 final size:31
Alignment explanation
Indices: 2526114--2526216 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 31
2526104 TAATCAATTA
* *
2526114 TATTATAATAATATA-AGATATTA--TATTTT
1 TATTTTAATAATATATA-ATATTATTTATATT
*
2526143 TATTTTAATAATATATAATAATTTTTTATATT
1 TATTTTAATAATATATAAT-ATTATTTATATT
2526175 TA-TTTAATAATGA-ATAATATTATTTATA--
1 TATTTTAATAAT-ATATAATATTATTTATATT
*
2526203 TATTTAAATAATAT
1 TATTTTAATAATAT
2526217 TTTAGTAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
28 3 0.05
29 24 0.39
30 13 0.21
31 14 0.23
32 8 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (31 bp):
TATTTTAATAATATATAATATTATTTATATT
Found at i:2526183 original size:28 final size:28
Alignment explanation
Indices: 2526111--2526203 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 28
2526101 AAATAATCAA
* *
2526111 TTATATTATAATAATATAAGATATTATATTT
1 TTATATT-TAATAATA-ATGA-ATAATATTT
2526142 TTAT-TTTAATAATATAT-AATAAT-TTT
1 TTATATTTAATAATA-ATGAATAATATTT
*
2526168 TTATATTTATTTAATAATGAATAATATTAT
1 TTATATTTA-ATAATAATGAATAATATT-T
2526198 TTATAT
1 TTATAT
2526204 ATTTAAATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
26 7 0.13
27 10 0.19
28 12 0.22
29 12 0.22
30 9 0.17
31 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
TTATATTTAATAATAATGAATAATATTT
Found at i:2526206 original size:28 final size:29
Alignment explanation
Indices: 2526146--2526216 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
2526136 ATATTTTTAT
*
2526146 TTTAATAATATATAATAATTTTTTATATTTA
1 TTTAATAATATATAATAATTATTTATA--TA
2526177 TTTAATAATGA-ATAAT-ATTATTTATATA
1 TTTAATAAT-ATATAATAATTATTTATATA
2526205 TTTAAATAATAT
1 TTT-AATAATAT
2526217 TTTAGTAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
28 6 0.17
29 6 0.17
30 9 0.25
31 14 0.39
32 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
TTTAATAATATATAATAATTATTTATATA
Found at i:2526610 original size:20 final size:20
Alignment explanation
Indices: 2526532--2526602 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
2526522 TCATAAAATG
* *
2526532 TTTTCCAGAAATATAATTCA
1 TTTTTCAGAAATGTAATTCA
2526552 TTTTTCAGAAATGTAATTCA
1 TTTTTCAGAAATGTAATTCA
2526572 TTTTTCAGAAATGTAATTCA
1 TTTTTCAGAAATGTAATTCA
2526592 TTTTTCA-AAAT
1 TTTTTCAGAAAT
2526603 TCAAATTCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 4 0.08
20 45 0.92
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (20 bp):
TTTTTCAGAAATGTAATTCA
Found at i:2527000 original size:28 final size:25
Alignment explanation
Indices: 2526952--2527016 Score: 60
Period size: 28 Copynumber: 2.4 Consensus size: 25
2526942 TAAATTCAAT
2526952 AAATTATATTAAAATTAAAAT-TAAAA
1 AAATTA-A-TAAAATTAAAATATAAAA
2526978 TCAAATTAATAAAATATACAAATAATAAAA
1 --AAATTAATAAAAT-TA-AAAT-ATAAAA
2527008 AAATTAATA
1 AAATTAATA
2527017 TATAATTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
26 6 0.18
27 3 0.09
28 19 0.58
30 5 0.15
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATTAATAAAATTAAAATATAAAA
Found at i:2527805 original size:28 final size:28
Alignment explanation
Indices: 2527739--2527798 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
2527729 GATAATCACC
* *
2527739 CATCGAACGATGAGAGGGAGAATGATGT
1 CATCGATCGATGAGAGGGAGAATGACGT
2527767 CATCGATCGATGAGAGGGAGAATGACGT
1 CATCGATCGATGAGAGGGAGAATGACGT
2527795 CATC
1 CATC
2527799 AGTCGATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.18
Consensus pattern (28 bp):
CATCGATCGATGAGAGGGAGAATGACGT
Found at i:2527805 original size:32 final size:30
Alignment explanation
Indices: 2527739--2527829 Score: 96
Period size: 32 Copynumber: 3.0 Consensus size: 30
2527729 GATAATCACC
* *
2527739 CATCGAACGATGAGAGGGAGAATGA-T-GT
1 CATCGATCGATGAGAGGGAGAATGAGTCAT
2527767 CATCGATCGATGAGAGGGAGAATGACGTCAT
1 CATCGATCGATGAGAGGGAGAATGA-GTCAT
* * *
2527798 CAGTCGATCAATGTGAGGGATAATGAGGTCAT
1 CA-TCGATCGATGAGAGGGAGAATGA-GTCAT
2527830 TAATATTGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 24 0.45
30 1 0.02
31 3 0.06
32 25 0.47
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (30 bp):
CATCGATCGATGAGAGGGAGAATGAGTCAT
Found at i:2545691 original size:28 final size:29
Alignment explanation
Indices: 2545637--2545692 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
2545627 CATATTAATT
2545637 TAGAATTTTATCATTTTATGAGTAAAATCA
1 TAGAATTTTAT-ATTTTATGAGTAAAATCA
*
2545667 TAGAATTATTAT-TTTTGTGAG-AAAAT
1 TAGAATT-TTATATTTTATGAGTAAAAT
2545693 TTAGAAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.21
29 8 0.33
30 7 0.29
31 4 0.17
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (29 bp):
TAGAATTTTATATTTTATGAGTAAAATCA
Found at i:2546836 original size:36 final size:36
Alignment explanation
Indices: 2546794--2546869 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
2546784 TAAAATTAAA
2546794 ATATTTCTCATAATTATAAGATAAATGTAATGTAGT
1 ATATTTCTCATAATTATAAGATAAATGTAATGTAGT
2546830 ATATTTCTCATAATTATAAGATAAATGTAATGTAGT
1 ATATTTCTCATAATTATAAGATAAATGTAATGTAGT
2546866 ATAT
1 ATAT
2546870 ATTTAGAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (36 bp):
ATATTTCTCATAATTATAAGATAAATGTAATGTAGT
Found at i:2547280 original size:14 final size:14
Alignment explanation
Indices: 2547261--2547289 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2547251 GTTAAAATCA
2547261 TTAATAAAATATTT
1 TTAATAAAATATTT
2547275 TTAATAAAATATTT
1 TTAATAAAATATTT
2547289 T
1 T
2547290 CATATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAATAAAATATTT
Found at i:2557160 original size:8 final size:8
Alignment explanation
Indices: 2557147--2557188 Score: 75
Period size: 8 Copynumber: 5.2 Consensus size: 8
2557137 AAATTTCAAA
2557147 GTATGCAT
1 GTATGCAT
2557155 GTATGCAT
1 GTATGCAT
2557163 GTATGCAT
1 GTATGCAT
2557171 GTATGCAT
1 GTATGCAT
*
2557179 GTATGTAT
1 GTATGCAT
2557187 GT
1 GT
2557189 GTGTCACCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (8 bp):
GTATGCAT
Found at i:2559596 original size:22 final size:19
Alignment explanation
Indices: 2559552--2559596 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
2559542 TATTTTAGAT
*
2559552 TTTTCACTATCGTAACACT
1 TTTTCACTATCGTAACACG
2559571 TTTTCACTATCGCAATAACACG
1 TTTTCACTATCG---TAACACG
2559593 TTTT
1 TTTT
2559597 TCAAACTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.55
22 10 0.45
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (19 bp):
TTTTCACTATCGTAACACG
Found at i:2559612 original size:22 final size:21
Alignment explanation
Indices: 2559557--2559642 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 21
2559547 TAGATTTTTC
*
2559557 ACTATCGTAACACTTTTTC--
1 ACTATCGCAACACTTTTTCAA
2559576 ACTATCGCAATAACACGTTTTTCAA
1 ACTATCGC---AACAC-TTTTTCAA
* *
2559601 ACTCTCGCAACACATTTT--A
1 ACTATCGCAACACTTTTTCAA
*
2559620 ACTATCGCAATACATTTTTCAA
1 ACTATCGCAACAC-TTTTTCAA
2559642 A
1 A
2559643 ATCGCGTTGC
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
19 19 0.37
20 4 0.08
21 4 0.08
22 12 0.23
23 6 0.12
25 7 0.13
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.35
Consensus pattern (21 bp):
ACTATCGCAACACTTTTTCAA
Found at i:2562743 original size:29 final size:29
Alignment explanation
Indices: 2562700--2562787 Score: 140
Period size: 29 Copynumber: 3.0 Consensus size: 29
2562690 AGCCAACCCA
* *
2562700 TAGGTCGCCAGGCACTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGAGCGACCTTG
2562729 TAGGTCGCCATGCACTCCGAGCGACCTTG
1 TAGGTCGCCATGCACTCCGAGCGACCTTG
* *
2562758 TAGGTCGTCATGCACTCCCAGCGACCTTG
1 TAGGTCGCCATGCACTCCGAGCGACCTTG
2562787 T
1 T
2562788 CTTTGACACG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.16, C:0.34, G:0.28, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGAGCGACCTTG
Found at i:2562912 original size:24 final size:24
Alignment explanation
Indices: 2562880--2562926 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2562870 CAATTGTAGT
*
2562880 GTGAAATCAGCTACTTCATGCAGC
1 GTGAAATCAACTACTTCATGCAGC
*
2562904 GTGAAATCAACTGCTTCATGCAG
1 GTGAAATCAACTACTTCATGCAG
2562927 TAATTATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
GTGAAATCAACTACTTCATGCAGC
Found at i:2563073 original size:26 final size:26
Alignment explanation
Indices: 2563044--2563101 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
2563034 ACATAAAAGA
* * *
2563044 AAGAAAGGGATAAGAGATTGTAGCCG
1 AAGAAAGGGAGAAGAGAGTGCAGCCG
*
2563070 AAGAAAGGGAGAAGATAGTGCAGCCG
1 AAGAAAGGGAGAAGAGAGTGCAGCCG
2563096 -AGAAAG
1 AAGAAAG
2563102 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.45, C:0.09, G:0.36, T:0.10
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAGAGTGCAGCCG
Found at i:2563410 original size:45 final size:47
Alignment explanation
Indices: 2563348--2563437 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 47
2563338 TTATATAGTT
* *
2563348 AAAAATAATTAATTAGTTTGT-TTTGTT-ATTCGTT-AGTTATATAA
1 AAAAATAATTAATTAGTTTGTGTTAGTTAATTAGTTAAGTTATATAA
*
2563392 AAAAATTATTTAATTAGTTTGTGTTAGTTAATTAGTTAAGTTATAT
1 AAAAA-TAATTAATTAGTTTGTGTTAGTTAATTAGTTAAGTTATAT
2563438 TAGTTTGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 5 0.13
45 15 0.38
46 5 0.13
47 6 0.15
48 8 0.21
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.50
Consensus pattern (47 bp):
AAAAATAATTAATTAGTTTGTGTTAGTTAATTAGTTAAGTTATATAA
Found at i:2563626 original size:15 final size:16
Alignment explanation
Indices: 2563598--2563631 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
2563588 AAAGTTTACT
2563598 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
2563614 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
2563629 TTA
1 TTA
2563632 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:2566005 original size:59 final size:58
Alignment explanation
Indices: 2565872--2565988 Score: 166
Period size: 59 Copynumber: 2.0 Consensus size: 58
2565862 TCATTACTAG
* * * *
2565872 TAATCATTAGTAAATCATTAGTATCAAATAATTAAATATTAATAATAAATTATTATTAA
1 TAATAATTAGTAAATTATTAGTATCAAATAATTAAATATT-ATAATAAATCATTATAAA
2565931 TAATAATTAGTAAATTATTAGTATCAAATAATTAAATATT-TAA-AAATCATTAATAAA
1 TAATAATTAGTAAATTATTAGTATCAAATAATTAAATATTATAATAAATCATT-ATAAA
2565988 T
1 T
2565989 TCGACTATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
56 7 0.13
57 8 0.15
59 38 0.72
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.40
Consensus pattern (58 bp):
TAATAATTAGTAAATTATTAGTATCAAATAATTAAATATTATAATAAATCATTATAAA
Found at i:2566088 original size:14 final size:14
Alignment explanation
Indices: 2566067--2566438 Score: 223
Period size: 14 Copynumber: 28.1 Consensus size: 14
2566057 ATTAGTAATA
2566067 ATTATTAAATCATT
1 ATTATTAAATCATT
*
2566081 AGTATTAAATCATT
1 ATTATTAAATCATT
*
2566095 ATTA-TAAA--ATA
1 ATTATTAAATCATT
*
2566106 ATTACTAAATC---
1 ATTATTAAATCATT
2566117 ATTATTAAATCATT
1 ATTATTAAATCATT
* *
2566131 ACTATTTAATCATT
1 ATTATTAAATCATT
2566145 ATTATAATGATTAATCATT
1 ATTAT--T-A--AATCATT
*
2566164 ATTA-T-AATGATT
1 ATTATTAAATCATT
2566176 ATTATTAAATCATT
1 ATTATTAAATCATT
2566190 ATTA-T---T-ATT
1 ATTATTAAATCATT
2566199 ATTATTAAATCATT
1 ATTATTAAATCATT
*
2566213 ATTA-T-AATTATT
1 ATTATTAAATCATT
*
2566225 ATTATCAAATC---
1 ATTATTAAATCATT
2566236 ATTATT--ATCATT
1 ATTATTAAATCATT
* *
2566248 AATATTAAACCATT
1 ATTATTAAATCATT
*
2566262 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
2566274 ATTACTAAATCATT
1 ATTATTAAATCATT
*
2566288 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
2566300 ATTATCAAATCATT
1 ATTATTAAATCATT
2566314 ATTAAATCATCAAATCATT
1 ATT--AT--T-AAATCATT
* *
2566333 AAATATTAAA--ATC
1 -ATTATTAAATCATT
2566346 ATTATTAAATCATT
1 ATTATTAAATCATT
2566360 ATTA-TAAAT-ATT
1 ATTATTAAATCATT
*
2566372 ATTACTAAATCATT
1 ATTATTAAATCATT
*
2566386 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
2566398 ATTATAAAATCATT
1 ATTATTAAATCATT
* *
2566412 ACTA-T-AATGATT
1 ATTATTAAATCATT
*
2566424 ATTATCAAATCATT
1 ATTATTAAATCATT
2566438 A
1 A
2566439 CTAAATTATC
Statistics
Matches: 278, Mismatches: 37, Indels: 86
0.69 0.09 0.21
Matches are distributed among these distances:
9 10 0.04
10 2 0.01
11 21 0.08
12 82 0.29
13 24 0.09
14 108 0.39
15 3 0.01
16 5 0.02
18 2 0.01
19 19 0.07
20 2 0.01
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:2566160 original size:19 final size:19
Alignment explanation
Indices: 2566136--2566176 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2566126 TCATTACTAT
2566136 TTAATCATTATTATAATGA
1 TTAATCATTATTATAATGA
2566155 TTAATCATTATTATAATGA
1 TTAATCATTATTATAATGA
2566174 TTA
1 TTA
2566177 TTATTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAATCATTATTATAATGA
Found at i:2566187 original size:26 final size:26
Alignment explanation
Indices: 2566067--2566438 Score: 298
Period size: 26 Copynumber: 14.6 Consensus size: 26
2566057 ATTAGTAATA
* *
2566067 ATTATTAAATCATTAGTATTAAATCATT
1 ATTATTAAATCATTATTA-T-AATGATT
* *
2566095 ATTA-TAAA--ATAATTACTAA--ATC
1 ATTATTAAATCATTATTA-TAATGATT
* *
2566117 ATTATTAAATCATTACTATTTAATCATT
1 ATTATTAAATCATTA-T-TATAATGATT
2566145 ATTATAATGATTAATCATTATTATAATGATT
1 ATTAT--T-A--AATCATTATTATAATGATT
2566176 ATTATTAAATCATTATTAT--T-ATT
1 ATTATTAAATCATTATTATAATGATT
*
2566199 ATTATTAAATCATTATTATAATTATT
1 ATTATTAAATCATTATTATAATGATT
* *
2566225 ATTATCAAATCATTA-T-T-ATCATT
1 ATTATTAAATCATTATTATAATGATT
* *
2566248 AATATTAAACCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
*
2566274 ATTACTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
* * *
2566300 ATTATCAAATCATTATTA-AATCATCAA
1 ATTATTAAATCATTATTATAATGAT--T
* *
2566327 ATCATT-AA--A-TATTA-AA--ATC
1 ATTATTAAATCATTATTATAATGATT
2566346 ATTATTAAATCATTATTATAAAT-ATT
1 ATTATTAAATCATTATTAT-AATGATT
*
2566372 ATTACTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
* *
2566398 ATTATAAAATCATTACTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
*
2566424 ATTATCAAATCATTA
1 ATTATTAAATCATTA
2566439 CTAAATTATC
Statistics
Matches: 284, Mismatches: 32, Indels: 58
0.76 0.09 0.16
Matches are distributed among these distances:
19 5 0.02
20 2 0.01
21 2 0.01
22 7 0.02
23 55 0.19
24 6 0.02
25 22 0.08
26 139 0.49
27 9 0.03
28 12 0.04
29 1 0.00
30 1 0.00
31 14 0.05
32 1 0.00
33 8 0.03
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTATTAAATCATTATTATAATGATT
Done.