Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397264.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_130.0, 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: 8132550
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 35170 characters in sequence are not A, C, G, or T
File 6 of 14
Found at i:2503983 original size:30 final size:30
Alignment explanation
Indices: 2503947--2504031 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
2503937 CCGAGTCATT
* *
2503947 CTGCGTGCCACGCATCTGCGTGCCGCGTAC
1 CTGCGTGCCGCGCATCTGCATGCCGCGTAC
* * *
2503977 CTGCGTGACGCGTACCTGCATGCCGCGTAC
1 CTGCGTGCCGCGCATCTGCATGCCGCGTAC
* *
2504007 CTGCATGCCGCGCATTTGCATGCCG
1 CTGCGTGCCGCGCATCTGCATGCCG
2504032 TGCGGGTTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.12, C:0.38, G:0.29, T:0.21
Consensus pattern (30 bp):
CTGCGTGCCGCGCATCTGCATGCCGCGTAC
Found at i:2504026 original size:15 final size:15
Alignment explanation
Indices: 2503947--2504031 Score: 71
Period size: 15 Copynumber: 5.7 Consensus size: 15
2503937 CCGAGTCATT
* * *
2503947 CTGCGTGCCACGCAT
1 CTGCATGCCGCGCAC
* *
2503962 CTGCGTGCCGCGTAC
1 CTGCATGCCGCGCAC
* * *
2503977 CTGCGTGACGCGTAC
1 CTGCATGCCGCGCAC
*
2503992 CTGCATGCCGCGTAC
1 CTGCATGCCGCGCAC
*
2504007 CTGCATGCCGCGCAT
1 CTGCATGCCGCGCAC
*
2504022 TTGCATGCCG
1 CTGCATGCCG
2504032 TGCGGGTTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 61 1.00
ACGTcount: A:0.12, C:0.38, G:0.29, T:0.21
Consensus pattern (15 bp):
CTGCATGCCGCGCAC
Found at i:2504155 original size:51 final size:51
Alignment explanation
Indices: 2504088--2504192 Score: 147
Period size: 51 Copynumber: 2.1 Consensus size: 51
2504078 CTACCTGACT
* * * *
2504088 CTGTCGGGCTGTCTCGCCTAGGGGCCTATTCTGTGCGCTCCTGCTGGCACC
1 CTGTCGAGCTGGCTCGCCTAGGGGCCTATGCTGTGCGCCCCTGCTGGCACC
* * *
2504139 CTGTCGAGCTGGCTCGCCTAGGGGTCTGTGCTGTGCGCCCCTGTTGGCACC
1 CTGTCGAGCTGGCTCGCCTAGGGGCCTATGCTGTGCGCCCCTGCTGGCACC
2504190 CTG
1 CTG
2504193 CACTTGTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.06, C:0.34, G:0.33, T:0.27
Consensus pattern (51 bp):
CTGTCGAGCTGGCTCGCCTAGGGGCCTATGCTGTGCGCCCCTGCTGGCACC
Found at i:2513284 original size:19 final size:19
Alignment explanation
Indices: 2513237--2513284 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2513227 AAAATAAAAA
2513237 AAATATT-TAAAATTTTTT
1 AAATATTATAAAATTTTTT
2513255 AAATAATTTATAAAA-TTTTT
1 AAAT-A-TTATAAAATTTTTT
2513275 AAAGTATTAT
1 AAA-TATTAT
2513285 GCCTAATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 11 0.42
21 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AAATATTATAAAATTTTTT
Found at i:2516306 original size:5 final size:6
Alignment explanation
Indices: 2516290--2516316 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2516280 CTAGAACTTG
2516290 CTTTTT CTTTTT CTTTTT CTTTTT CTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTT
2516317 ATTAATGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:2516487 original size:13 final size:13
Alignment explanation
Indices: 2516458--2516506 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
2516448 AATATTTTTT
*
2516458 AATATAAAAATACA
1 AATATAAAAA-ATA
2516472 AATATAAAAAATA
1 AATATAAAAAATA
* *
2516485 AATTTATAAAATA
1 AATATAAAAAATA
2516498 AA-ATAAAAA
1 AATATAAAAA
2516507 TATTAAGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 5 0.17
13 15 0.50
14 10 0.33
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
AATATAAAAAATA
Found at i:2516939 original size:28 final size:26
Alignment explanation
Indices: 2516874--2516940 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
2516864 TATTATCACT
* * *
2516874 TGTTTCTTCACTTCACTTTCTATGTG
1 TGTTTCATCACATCACTTTCTATGTA
* *
2516900 TGTTTCACCACATCATTTTCTATGTTTA
1 TGTTTCATCACATCACTTTCTATG--TA
2516928 TGTTTCATCACAT
1 TGTTTCATCACAT
2516941 GGAGAAACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 20 0.61
28 13 0.39
ACGTcount: A:0.18, C:0.22, G:0.09, T:0.51
Consensus pattern (26 bp):
TGTTTCATCACATCACTTTCTATGTA
Found at i:2525432 original size:168 final size:168
Alignment explanation
Indices: 2525154--2525467 Score: 511
Period size: 168 Copynumber: 1.9 Consensus size: 168
2525144 TGTCAACCGC
* * *
2525154 TTGGTGTTGTATTTCACTTATCTATATTCTTTTCCTTGAAGAATTGGTATTAGGCATCTGCATTA
1 TTGGTGTTATATGTCACTTATCTATATTCTTTTCCTTGAAGAATTGGTATTAGCCATCTGCATTA
* * * * * *
2525219 CTCTTAACATTGGGAAGTTTTATAAAAGATTCTGTTTATGATATCAAGGATTCATATTAGTAGGA
66 CTCTTAACATCGGGAAGCTTTATAAAAGATACTATTTATGATATCAAGAATTCATATTAATAGGA
2525284 TGGAAGGATGTCATATTAATATGTTTTGTCGATGCAGT
131 TGGAAGGATGTCATATTAATATGTTTTGTCGATGCAGT
* **
2525322 TTGGTGTTATATGTCACTTATCTATATTCTTTTCCTTGAAGAATTTGTATTAGCCATCTGTGTTA
1 TTGGTGTTATATGTCACTTATCTATATTCTTTTCCTTGAAGAATTGGTATTAGCCATCTGCATTA
2525387 CTCTTAACATCGGGAAGCTTTATAAAAGATACTATTTATGATATCAAGAATTCATATTAATAGGA
66 CTCTTAACATCGGGAAGCTTTATAAAAGATACTATTTATGATATCAAGAATTCATATTAATAGGA
*
2525452 TGGAATGATGTCATAT
131 TGGAAGGATGTCATAT
2525468 GTGTTTTTGG
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
168 133 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (168 bp):
TTGGTGTTATATGTCACTTATCTATATTCTTTTCCTTGAAGAATTGGTATTAGCCATCTGCATTA
CTCTTAACATCGGGAAGCTTTATAAAAGATACTATTTATGATATCAAGAATTCATATTAATAGGA
TGGAAGGATGTCATATTAATATGTTTTGTCGATGCAGT
Found at i:2534362 original size:4 final size:4
Alignment explanation
Indices: 2534353--2534381 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
2534343 TGTGTATGAT
2534353 TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
2534382 ACAATATGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTC
Found at i:2553656 original size:2 final size:2
Alignment explanation
Indices: 2553649--2553674 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2553639 TTATACATTT
2553649 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
2553675 AAAACATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2553847 original size:29 final size:29
Alignment explanation
Indices: 2553810--2553885 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
2553800 ATTATGTTAA
2553810 AAAAAATATTGTTATTACTCGACATATTG
1 AAAAAATATTGTTATTACTCGACATATTG
* * * *
2553839 AAAAAATATTGTTATTACACGTCATGTTT
1 AAAAAATATTGTTATTACTCGACATATTG
*
2553868 AAAAAATTTTGTT-TTACT
1 AAAAAATATTGTTATTACT
2553886 TTAAAGTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (29 bp):
AAAAAATATTGTTATTACTCGACATATTG
Found at i:2553873 original size:30 final size:30
Alignment explanation
Indices: 2553794--2553873 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
2553784 CAAAAATATG
* * *
2553794 TTACACATTATGTTAAAAAAAATATTGTTA
1 TTACACGTCATGTTTAAAAAAATATTGTTA
* * * *
2553824 TTACTCGACAT-ATTGAAAAAATATTGTTA
1 TTACACGTCATGTTTAAAAAAATATTGTTA
2553853 TTACACGTCATGTTTAAAAAA
1 TTACACGTCATGTTTAAAAAA
2553874 TTTTGTTTTA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (30 bp):
TTACACGTCATGTTTAAAAAAATATTGTTA
Found at i:2554357 original size:23 final size:23
Alignment explanation
Indices: 2554327--2554376 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
2554317 TGAGAGAGAG
2554327 AAATCGAAAACACATATGGATAA
1 AAATCGAAAACACATATGGATAA
*
2554350 AAATCGAAAGCACATATGGATAA
1 AAATCGAAAACACATATGGATAA
2554373 AAAT
1 AAAT
2554377 TGTAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.56, C:0.12, G:0.14, T:0.18
Consensus pattern (23 bp):
AAATCGAAAACACATATGGATAA
Found at i:2561737 original size:2 final size:2
Alignment explanation
Indices: 2561730--2561754 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2561720 AGTTTTATTT
2561730 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2561755 CAATTTGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2576533 original size:15 final size:15
Alignment explanation
Indices: 2576513--2576545 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2576503 CTAACAAAAA
2576513 AAAAATAAAAATGAG
1 AAAAATAAAAATGAG
*
2576528 AAAAATACAAATGAG
1 AAAAATAAAAATGAG
2576543 AAA
1 AAA
2576546 CCCAATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAATGAG
Found at i:2577469 original size:59 final size:59
Alignment explanation
Indices: 2577371--2577491 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 59
2577361 AAACCCGAGA
* * * * *
2577371 TCAAGAATATCAAATAAAGAACTCTCTTTTATTGAAAGCAA-AACAAGATATCAAGCTTC
1 TCAAGAATATAAAACAAAGAACTCTCTTTCATTGAAAGCAACAA-AAGAGACCAAGCTTC
* *
2577430 TCAAGAATATAAAACAAAGAACTGTCTTTCATTGGAAGCAACAAAAGAGACCAAGCTTC
1 TCAAGAATATAAAACAAAGAACTCTCTTTCATTGAAAGCAACAAAAGAGACCAAGCTTC
2577489 TCA
1 TCA
2577492 CTTCGTCTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 52 0.96
60 2 0.04
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.24
Consensus pattern (59 bp):
TCAAGAATATAAAACAAAGAACTCTCTTTCATTGAAAGCAACAAAAGAGACCAAGCTTC
Found at i:2579246 original size:36 final size:36
Alignment explanation
Indices: 2579197--2579267 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
2579187 ACACATTTAA
*
2579197 TTAATCATATTATTATGTTTAAATGTATAAACATGT
1 TTAATCATATTATTATGTTTAAACGTATAAACATGT
* * * *
2579233 TTAATCGTGTTATTGTGTTTAAACGTATATACATG
1 TTAATCATATTATTATGTTTAAACGTATAAACATG
2579268 ACACGTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (36 bp):
TTAATCATATTATTATGTTTAAACGTATAAACATGT
Found at i:2583217 original size:2 final size:2
Alignment explanation
Indices: 2583207--2583239 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2583197 CAAAAAATTA
2583207 GT GT G- GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
2583240 TGGAACGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:2593440 original size:112 final size:109
Alignment explanation
Indices: 2593245--2593468 Score: 297
Period size: 112 Copynumber: 2.0 Consensus size: 109
2593235 AAGAGTTATG
2593245 TCTCTGCACATATATTTTTATTCTTCTTAAGTCTTACTTGCTGAAACTTTCTTTTTTCTCAAGTC
1 TCTCTGCACATATATTTTTATTCTTCTTAAGTCTTACTTGCTGAAACTTTCTTTTTTCTCAAGTC
* * *
2593310 TCATGGAAGGTTGAGTCAAACCCACACGGTTTTATTTCCAAATGT
66 TCACGGAAGGTAGAGTCAAACCCACACGGTTTTA-TTCCAAATAT
* * * * *
2593355 TCTCTGCACTTATCTTTTTCTTCTTCTCT-AGTTGTTACTTTCTGAAACTTTCCTTTTTTCTCAA
1 TCTCTGCACATATATTTTTATTCTTCT-TAAG-TCTTACTTGCTGAAACTTT-CTTTTTTCTCAA
* ** *
2593419 TTCTCACGGAAGGTAGAGTCAAACTTACATGGTTTTATTCCAAATAT
63 GTCTCACGGAAGGTAGAGTCAAACCCACACGGTTTTATTCCAAATAT
2593466 TCT
1 TCT
2593469 TTGGACTTGA
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
110 26 0.26
111 30 0.30
112 43 0.43
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (109 bp):
TCTCTGCACATATATTTTTATTCTTCTTAAGTCTTACTTGCTGAAACTTTCTTTTTTCTCAAGTC
TCACGGAAGGTAGAGTCAAACCCACACGGTTTTATTCCAAATAT
Found at i:2607314 original size:1 final size:1
Alignment explanation
Indices: 2607308--2607347 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
2607298 CAAACTCCAA
2607308 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
2607348 TCCCTTAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2610868 original size:34 final size:33
Alignment explanation
Indices: 2610819--2610885 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
2610809 AGTAGAACAT
* *
2610819 ATATAAAATAACTTAATAATGAAGAATGCATCA
1 ATATAAAATAACTTAATAAGGAAAAATGCATCA
2610852 ATATAAAAGTAACTTAATAAGGAAAAATGCATCA
1 ATATAAAA-TAACTTAATAAGGAAAAATGCATCA
2610886 GCATTATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 8 0.26
34 23 0.74
ACGTcount: A:0.55, C:0.09, G:0.10, T:0.25
Consensus pattern (33 bp):
ATATAAAATAACTTAATAAGGAAAAATGCATCA
Found at i:2620774 original size:3 final size:3
Alignment explanation
Indices: 2620766--2620797 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2620756 TCTCAAAATA
2620766 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2620798 CATAGCCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2628841 original size:2 final size:2
Alignment explanation
Indices: 2628829--2628882 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
2628819 GCATATACAC
*
2628829 AT AT GT 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
2628871 AT AT AT AT AT AT
1 AT AT AT AT AT AT
2628883 CGATCTAGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2632644 original size:44 final size:44
Alignment explanation
Indices: 2632581--2632667 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
2632571 TCTGTAAGTC
* *
2632581 CATACTTACATATGAGTGTGTGTGTGTGAGACCACACTAAGAGA
1 CATACATACATATGAGTGTGTGTGTGAGAGACCACACTAAGAGA
* *
2632625 CATACATATATATGAGTGTGTGTGTGAGAGACCACATTAAGAG
1 CATACATACATATGAGTGTGTGTGTGAGAGACCACACTAAGAG
2632668 TGCTTATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (44 bp):
CATACATACATATGAGTGTGTGTGTGAGAGACCACACTAAGAGA
Found at i:2634343 original size:39 final size:39
Alignment explanation
Indices: 2634300--2634377 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
2634290 CTTGCTTCTT
* *
2634300 GGTTTTCTCAGC-AGACTCTGCCTCATCAGCAGGAACTAA
1 GGTTTTCTCA-CTAGACTCTGACTCATCAACAGGAACTAA
*
2634339 GGTTTTCTCACTATACTCTGACTCATCAACAGGAACTAA
1 GGTTTTCTCACTAGACTCTGACTCATCAACAGGAACTAA
2634378 CTGCAGGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (39 bp):
GGTTTTCTCACTAGACTCTGACTCATCAACAGGAACTAA
Found at i:2648096 original size:5 final size:6
Alignment explanation
Indices: 2648082--2648106 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2648072 AAGACAGATG
2648082 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
2648107 GGAACCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:2657408 original size:30 final size:28
Alignment explanation
Indices: 2657374--2657434 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 28
2657364 AATCATGAAT
*
2657374 AATTTATTTAATTTAAAATAAATATATAAA
1 AATTTATTTAAATTAAAATAAA-A-ATAAA
2657404 AATTTATTTAAATTAAAATAAAAATAAA
1 AATTTATTTAAATTAAAATAAAAATAAA
2657432 AAT
1 AAT
2657435 ATTTGATTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 8 0.27
29 1 0.03
30 21 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
AATTTATTTAAATTAAAATAAAAATAAA
Found at i:2657413 original size:25 final size:24
Alignment explanation
Indices: 2657379--2657427 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
2657369 TGAATAATTT
2657379 ATTTAATTTAAAATAAATATATAAAA
1 ATTTAATTTAAAATAAA-ATA-AAAA
*
2657405 ATTT-ATTTAAATTAAAATAAAAA
1 ATTTAATTTAAAATAAAATAAAAA
2657428 TAAAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.18
24 3 0.14
25 11 0.50
26 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTTAATTTAAAATAAAATAAAAA
Found at i:2658702 original size:28 final size:29
Alignment explanation
Indices: 2658660--2658731 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
2658650 AATAATTAAT
* *
2658660 TATAAAATTTATTTGA-CTCA-ATAAATA
1 TATAAAATTTATTTGATCTAAGATAAAAA
*
2658687 TATATAAATTTATTTGATTTAAGATAAAAA
1 TATA-AAATTTATTTGATCTAAGATAAAAA
2658717 TATAAAAATTTATTT
1 TAT-AAAATTTATTT
2658732 ACTTATATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 4 0.11
28 12 0.32
29 2 0.05
30 19 0.50
31 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (29 bp):
TATAAAATTTATTTGATCTAAGATAAAAA
Found at i:2669297 original size:2 final size:2
Alignment explanation
Indices: 2669290--2669319 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2669280 GAATTTAAGA
*
2669290 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2669320 GAAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2669585 original size:21 final size:21
Alignment explanation
Indices: 2669561--2669602 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2669551 ACTCTCCACG
* *
2669561 TCTCCTACGCTCTCTCCCAAC
1 TCTCCCACGCTCTATCCCAAC
2669582 TCTCCCACGCTCTATCCCAAC
1 TCTCCCACGCTCTATCCCAAC
2669603 CTCTTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.52, G:0.05, T:0.26
Consensus pattern (21 bp):
TCTCCCACGCTCTATCCCAAC
Found at i:2693157 original size:141 final size:140
Alignment explanation
Indices: 2692385--2693168 Score: 807
Period size: 141 Copynumber: 5.6 Consensus size: 140
2692375 TGTAAGCGGT
* * ** * * * * *
2692385 AGTGCCAATGGTGGGGTTAAGGGTAAAGGAGAACTTGGCGTTGTTGGTGGAGTTAATGAAGGAGT
1 AGTGTCAATGGTGGTGTTAAGGGTGGAGGAGAA-TTGGTGTTGCTGGTGGAGTCAATAAAGGAAT
* ** * * * * * **
2692450 CAAAGCTAATGATGGATTTGCCAAAGGTGGAGGAGTA---GGT-GG--TGGAGGTGGTGGAAAAG
65 TAGTGTTAATGGTGGATTTGCCAAAGGTGTAGGAATAGGTGGTGGGCTTGGGGGTGGTGGAGGAG
*
2692509 GCTTAGGAGGT
130 GCTTAGGAGGC
* * * * *
2692520 GGTGTCATTAGTGGTGTTAAGGGTGGAGGAGAATTCGGTGCTGTTGGTGGAGTCAATAAAGGAAT
1 AGTGTCAATGGTGGTGTTAAGGGTGGAGGAGAATT-GGTGTTGCTGGTGGAGTCAATAAAGGAAT
* * * *
2692585 TAGTGTTAATAGTGGATTTGCCAAAAGTGTAGGAATAGGTGGAGGGCTAGGGGGTGGTGGAGGAG
65 TAGTGTTAATGGTGGATTTGCCAAAGGTGTAGGAATAGGTGGTGGGCTTGGGGGTGGTGGAGGAG
* *
2692650 GCGTCGGAGGC
130 GCTTAGGAGGC
* * * * *
2692661 AGTGTTAGTGGTGGT-TCTAAGGGTGGAGAAGAAGTTGGTGTTGTTGGTGGGGTCAATAAAGGAA
1 AGTGTCAATGGTGGTGT-TAAGGGTGGAGGAGAA-TTGGTGTTGCTGGTGGAGTCAATAAAGGAA
* * * * * * * * *
2692725 TCAATGATAATGGTGGATTTGCCAAAGGCGTTGGAGTTGGTGGTGGGCTTGGGGTTCGTGGAGGA
64 TTAGTGTTAATGGTGGATTTGCCAAAGGTGTAGGAATAGGTGGTGGGCTTGGGGGTGGTGGAGGA
*
2692790 GGCTTAGGAGGT
129 GGCTTAGGAGGC
* * * * *
2692802 AATGTTAATGATGGTGTTAAGGGTGGAGGAAAAGTTGGTGTTGCCGGTGGAGTCAATAAAGGAAT
1 AGTGTCAATGGTGGTGTTAAGGGTGGAGGAGAA-TTGGTGTTGCTGGTGGAGTCAATAAAGGAAT
2692867 TAGTGTTAATGGTGGATTTGCCAAAGGTGTAGGAATAGGTGGTGGGCTTGGGGGTGGTGGAGGTA
65 TAGTGTTAATGGTGGATTTGCCAAAGGTGTAGGAATAGGTGGTGGGCTTGGGGGTGGTGGAGG-A
* *
2692932 GTC-AAGGAGGC
129 GGCTTAGGAGGC
*
2692943 AGTGTCAATGGTGGTGTTAAGGGTGGAGGAGAATTTGGTGTTGCTAGTGGAGTCAATAAAGGAAT
1 AGTGTCAATGGTGGTGTTAAGGGTGGAGGAGAA-TTGGTGTTGCTGGTGGAGTCAATAAAGGAAT
** * *
2693008 TAGTGTTAATAATGGATTT-CCTGAAA-GTGTAGGAGTAGGTGGTGGGTTTGGGGGTGGTGGAGG
65 TAGTGTTAATGGTGGATTTGCC--AAAGGTGTAGGAATAGGTGGTGGGCTTGGGGGTGGTGGAGG
2693071 AGGCTTAGGAGGC
128 AGGCTTAGGAGGC
* * * *
2693084 AGTGTCAATGGTGGTGCTT-AGGGTGGAGGAGAATTAGGTGCTGCTGGTGGAGTTAATAAAAGAG
1 AGTGTCAATGGTGGTG-TTAAGGGTGGAGGAGAATT-GGTGTTGCTGGTGGAGTCAATAAAGGAA
** *
2693148 TCGGAGTTAATGGTGGATTTG
64 TTAGTGTTAATGGTGGATTTG
2693169 TTGCTGCTGC
Statistics
Matches: 537, Mismatches: 95, Indels: 27
0.81 0.14 0.04
Matches are distributed among these distances:
134 2 0.00
135 78 0.15
138 2 0.00
139 2 0.00
140 8 0.01
141 434 0.81
142 11 0.02
ACGTcount: A:0.24, C:0.06, G:0.42, T:0.27
Consensus pattern (140 bp):
AGTGTCAATGGTGGTGTTAAGGGTGGAGGAGAATTGGTGTTGCTGGTGGAGTCAATAAAGGAATT
AGTGTTAATGGTGGATTTGCCAAAGGTGTAGGAATAGGTGGTGGGCTTGGGGGTGGTGGAGGAGG
CTTAGGAGGC
Found at i:2693916 original size:16 final size:18
Alignment explanation
Indices: 2693887--2693958 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 18
2693877 CTATGTTTGG
2693887 TAGG-GAGG-AAGGAAAA
1 TAGGAGAGGAAAGGAAAA
2693903 T-GGAGA-GAAAGG-AAA
1 TAGGAGAGGAAAGGAAAA
*
2693918 TAGGTGAGGAAAGGAAAAA
1 TAGGAGAGGAAAGG-AAAA
*
2693937 GAGGAAGGAGAGAAAGGAAAA
1 TAGG-A-GAG-GAAAGGAAAA
2693958 T
1 T
2693959 CATTTTTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
15 7 0.16
16 11 0.26
17 6 0.14
19 6 0.14
21 7 0.16
22 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.40, T:0.07
Consensus pattern (18 bp):
TAGGAGAGGAAAGGAAAA
Found at i:2695817 original size:3 final size:3
Alignment explanation
Indices: 2695809--2695854 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
2695799 AAGATGTATA
* *
2695809 AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2695855 GAAGATCTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:2698321 original size:86 final size:86
Alignment explanation
Indices: 2698176--2698341 Score: 314
Period size: 86 Copynumber: 1.9 Consensus size: 86
2698166 CACCTATAAA
2698176 ATTTTGTTTGACTTTCAAACAAAATATGACAACTGTTATATAGTACATAACTTGTTCACCCAAAT
1 ATTTTGTTTGACTTTCAAACAAAATATGACAACTGTTATATAGTACATAACTTGTTCACCCAAAT
*
2698241 AAATTAATTTCTTCCTTGTAG
66 AAATTAATATCTTCCTTGTAG
*
2698262 ATTTTGTTTTACTTTCAAACAAAATATGACAACTGTTATATAGTACATAACTTGTTCACCCAAAT
1 ATTTTGTTTGACTTTCAAACAAAATATGACAACTGTTATATAGTACATAACTTGTTCACCCAAAT
2698327 AAATTAATATCTTCC
66 AAATTAATATCTTCC
2698342 CTGTTTTTAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (86 bp):
ATTTTGTTTGACTTTCAAACAAAATATGACAACTGTTATATAGTACATAACTTGTTCACCCAAAT
AAATTAATATCTTCCTTGTAG
Found at i:2705893 original size:34 final size:34
Alignment explanation
Indices: 2705850--2705939 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
2705840 TTTAACAGAC
* *
2705850 AATGTTACATG-CTAAGGTTAAAATTTCAATACCA
1 AATGTTACATGTC-AAAGTTAAAATTTCAACACCA
**
2705884 AATGTTACATGTCAAAGTTAAGGTTTCAACACCA
1 AATGTTACATGTCAAAGTTAAAATTTCAACACCA
*
2705918 GATGTTACATGTCAAAGCTTAA
1 AATGTTACATGTCAAAG-TTAA
2705940 TATTACATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 44 0.90
35 5 0.10
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (34 bp):
AATGTTACATGTCAAAGTTAAAATTTCAACACCA
Found at i:2712100 original size:37 final size:37
Alignment explanation
Indices: 2712050--2712128 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
2712040 GGACACTAAG
2712050 GAAAATTATTCTGCATATAGAGCCTTAAAATCCAGTT
1 GAAAATTATTCTGCATATAGAGCCTTAAAATCCAGTT
* * *
2712087 GAAAATTATTCTGCCTATAGAGTCTTAGAATCCAGTT
1 GAAAATTATTCTGCATATAGAGCCTTAAAATCCAGTT
*
2712124 TAAAA
1 GAAAA
2712129 AATGGCAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (37 bp):
GAAAATTATTCTGCATATAGAGCCTTAAAATCCAGTT
Found at i:2714362 original size:17 final size:17
Alignment explanation
Indices: 2714330--2714380 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
2714320 TATAGAGTTC
2714330 TTTTCTTTTCTG-TTTTG
1 TTTTCTTTT-TGTTTTTG
*
2714347 TTTTCTTTTTGTTTTTC
1 TTTTCTTTTTGTTTTTG
2714364 TATTTCTTTTT-TTTTTG
1 T-TTTCTTTTTGTTTTTG
2714381 AAAGGCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 19 0.63
18 9 0.30
ACGTcount: A:0.02, C:0.10, G:0.08, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTTGTTTTTG
Found at i:2724004 original size:50 final size:50
Alignment explanation
Indices: 2723939--2724040 Score: 136
Period size: 50 Copynumber: 2.0 Consensus size: 50
2723929 TATAGGGAAA
* *
2723939 AAAACAAAAACAATTCCAAACTTTGGGA-AA-AAAGAAGGAAGGAAAAAATG
1 AAAACAAAAACAATTCCAAAATTT-GGACAATAAAGAAGGAA-AAAAAAATG
* *
2723989 AAAAGAAAAATAATTCCAAAATTTGGACAATAAAGAAGGAAAAAAAAATG
1 AAAACAAAAACAATTCCAAAATTTGGACAATAAAGAAGGAAAAAAAAATG
2724039 AA
1 AA
2724041 GGGAATTAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
49 3 0.07
50 33 0.72
51 10 0.22
ACGTcount: A:0.63, C:0.08, G:0.16, T:0.14
Consensus pattern (50 bp):
AAAACAAAAACAATTCCAAAATTTGGACAATAAAGAAGGAAAAAAAAATG
Found at i:2756737 original size:2 final size:2
Alignment explanation
Indices: 2756730--2756754 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2756720 TTCTTTTATT
2756730 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2756755 GTTGTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2757157 original size:17 final size:17
Alignment explanation
Indices: 2757135--2757169 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2757125 AACATTTTAA
2757135 TACTCTGGTTGGAGTTC
1 TACTCTGGTTGGAGTTC
2757152 TACTCTGGTTGGAGTTC
1 TACTCTGGTTGGAGTTC
2757169 T
1 T
2757170 GATTGTCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.29, T:0.43
Consensus pattern (17 bp):
TACTCTGGTTGGAGTTC
Found at i:2775890 original size:17 final size:18
Alignment explanation
Indices: 2775868--2775906 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2775858 GGAACTTCAT
2775868 TTTAGTGTTT-TGATTTA
1 TTTAGTGTTTATGATTTA
* *
2775885 TTTAGTTTTTATGATTTT
1 TTTAGTGTTTATGATTTA
2775903 TTTA
1 TTTA
2775907 TTAGTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (18 bp):
TTTAGTGTTTATGATTTA
Found at i:2777080 original size:10 final size:10
Alignment explanation
Indices: 2777058--2777087 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
2777048 TCCCTTTGTC
2777058 AAATAACAAAA
1 AAATAA-AAAA
2777069 AAATAAAAAA
1 AAATAAAAAA
2777079 AAATAAAAA
1 AAATAAAAA
2777088 TTATCTTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:2781090 original size:1 final size:1
Alignment explanation
Indices: 2781084--2781109 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
2781074 TTAATTCATT
2781084 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
2781110 TTCCAGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:2785177 original size:25 final size:24
Alignment explanation
Indices: 2785130--2785177 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
2785120 TTATAATTAA
*
2785130 ATAATATTTATCTAATCACAATAC
1 ATAATATTTATCTAAACACAATAC
2785154 ATAATATATGTAT-TAAACACAATA
1 ATAATAT-T-TATCTAAACACAATA
2785178 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 11 0.52
26 3 0.14
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (24 bp):
ATAATATTTATCTAAACACAATAC
Found at i:2785500 original size:58 final size:59
Alignment explanation
Indices: 2785430--2785546 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 59
2785420 ATGTCTTAAA
*
2785430 CATATCAATATAATTAATATACGAAACACAATAAATTTAAATTTAAACATATTTAAATT
1 CATATCAATATAATTAATATACGAAACACAATAAATTTAAACTTAAACATATTTAAATT
** *
2785489 CATAT-AATATAATTAATATACGAAACATGATTAATTTAAACTTAAACATATTTAAATT
1 CATATCAATATAATTAATATACGAAACACAATAAATTTAAACTTAAACATATTTAAATT
2785547 AATTAGTGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
58 49 0.91
59 5 0.09
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (59 bp):
CATATCAATATAATTAATATACGAAACACAATAAATTTAAACTTAAACATATTTAAATT
Found at i:2788636 original size:16 final size:17
Alignment explanation
Indices: 2788611--2788649 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
2788601 ATATCTTTGA
*
2788611 AAATATTAAA-ATATTT
1 AAATAATAAATATATTT
*
2788627 TAATAATAAATATATTT
1 AAATAATAAATATATTT
2788644 AAATAA
1 AAATAA
2788650 CCGAGTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAATAAATATATTT
Found at i:2795285 original size:23 final size:23
Alignment explanation
Indices: 2795224--2795285 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
2795214 ATTTGACTGA
* * * *
2795224 ATTTAAAATTTATTTATTTATTT
1 ATTTTAAATCTATTTACTTATAT
* *
2795247 ATTTTTACTCTATTTACTTATAT
1 ATTTTAAATCTATTTACTTATAT
*
2795270 ATTTTAAATCTCTTTA
1 ATTTTAAATCTATTTA
2795286 GATTTTTTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTAAATCTATTTACTTATAT
Found at i:2812663 original size:28 final size:28
Alignment explanation
Indices: 2812624--2812681 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
2812614 TTTCATTAAT
2812624 TTTTTATTTTAAATTA-AATAAATTATTA
1 TTTTTATTTTAAATTATAATAAATT-TTA
*
2812652 TTTTTATTTTAAATTATAATTAATTTTA
1 TTTTTATTTTAAATTATAATAAATTTTA
2812680 TT
1 TT
2812682 AAAATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTTATTTTAAATTATAATAAATTTTA
Found at i:2825226 original size:29 final size:29
Alignment explanation
Indices: 2825169--2825242 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
2825159 AGTGTTACAA
2825169 AAAATTATATTTCTCTAAATTTTTAAAAAAGT
1 AAAATT-TATTT-T-TAAATTTTTAAAAAAGT
* * **
2825201 AATATTTATTTTTAAATTTTTTAAAATTT
1 AAAATTTATTTTTAAATTTTTAAAAAAGT
2825230 AAAATTTATTTTT
1 AAAATTTATTTTT
2825243 TATGAGACGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 26 0.70
30 1 0.03
31 5 0.14
32 5 0.14
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (29 bp):
AAAATTTATTTTTAAATTTTTAAAAAAGT
Found at i:2864288 original size:28 final size:28
Alignment explanation
Indices: 2864229--2864385 Score: 122
Period size: 28 Copynumber: 5.5 Consensus size: 28
2864219 TTAATACATT
* * *
2864229 ATATGTGTATATTCT-GAAGCTAAAATA
1 ATATGTGTATATTTTGGAAACTAATATA
* *
2864256 ATATGTGAATATTTTGGAAACTAATATG
1 ATATGTGTATATTTTGGAAACTAATATA
* *
2864284 ATATGTGTGTATATTTGAAAACTAATATA
1 ATATGTGTATAT-TTTGGAAACTAATATA
* *
2864313 TTATATGTGTATGTTCT-GAAACTAATATA
1 --ATATGTGTATATTTTGGAAACTAATATA
* * *
2864342 TACAGGTGTAT-TTTTGGAAACTAATGTCA
1 -ATATGTGTATATTTTGGAAACTAATAT-A
*
2864371 TACATGTGTATATTT
1 -ATATGTGTATATTT
2864386 GAAATTGATA
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
27 16 0.15
28 38 0.36
29 36 0.34
30 5 0.05
31 10 0.10
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.41
Consensus pattern (28 bp):
ATATGTGTATATTTTGGAAACTAATATA
Found at i:2864290 original size:86 final size:86
Alignment explanation
Indices: 2864187--2864366 Score: 236
Period size: 86 Copynumber: 2.1 Consensus size: 86
2864177 GTGTATGTGA
* * *
2864187 AAACTAATATGAAATGTGTGTATATGGGGAAATTAATACATTATATGTGTATATTCTGAAGCTAA
1 AAACTAATATGAAATGTGTGTATATGGGAAAACTAATACATTATATGTGTATATTCTGAAACTAA
* *
2864252 AATA-ATATGTGAATATTTTGG
66 AATATACAGGTGAAT-TTTTGG
* ** * *
2864273 AAACTAATATGATATGTGTGTATATTTGAAAACTAATATATTATATGTGTATGTTCTGAAACTAA
1 AAACTAATATGAAATGTGTGTATATGGGAAAACTAATACATTATATGTGTATATTCTGAAACTAA
* *
2864338 TATATACAGGTGTATTTTTGG
66 AATATACAGGTGAATTTTTGG
2864359 AAACTAAT
1 AAACTAAT
2864367 GTCATACATG
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 74 0.91
87 7 0.09
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (86 bp):
AAACTAATATGAAATGTGTGTATATGGGAAAACTAATACATTATATGTGTATATTCTGAAACTAA
AATATACAGGTGAATTTTTGG
Found at i:2864308 original size:29 final size:29
Alignment explanation
Indices: 2864161--2864512 Score: 166
Period size: 29 Copynumber: 12.2 Consensus size: 29
2864151 AACTAATAGT
* * * * *
2864161 CTAATACCATATTTGTGTGTATGTGAAAA
1 CTAATATCATATGTGTGTATATTTGGAAA
* * **
2864190 CTAATATGAAATGTGTGTATATGGGGAAA
1 CTAATATCATATGTGTGTATATTTGGAAA
* * *
2864219 TTAATA-CATTATATGTGTATATTCT-GAAG
1 CTAATATCA-TATGTGTGTATATT-TGGAAA
* * **
2864248 CTAAAATAATATGTGAATAT-TTTGGAAA
1 CTAATATCATATGTGTGTATATTTGGAAA
* *
2864276 CTAATATGATATGTGTGTATATTTGAAAA
1 CTAATATCATATGTGTGTATATTTGGAAA
* *
2864305 CTAATAT-ATTATATGTGTATGTTCT-GAAA
1 CTAATATCA-TATGTGTGTATATT-TGGAAA
* *
2864334 CTAATAT-ATACAG-GTGTATTTTTGGAAA
1 CTAATATCATA-TGTGTGTATATTTGGAAA
* **
2864362 CTAATGTCATACATGTGTATATTT-GAAA
1 CTAATATCATATGTGTGTATATTTGGAAA
* * * * *
2864390 TTGATATCAAACGTGTGTATATTCGGAAA
1 CTAATATCATATGTGTGTATATTTGGAAA
* *** * * *
2864419 CTAATATCTTACCAGTGAATGTTTGTAAA
1 CTAATATCATATGTGTGTATATTTGGAAA
* * ***
2864448 CTAATGTAATACT-TGTGTATATTCAAAAA
1 CTAATATCATA-TGTGTGTATATTTGGAAA
* * *
2864477 GTAATATTATACT-TGTGTATATGTGGAAA
1 CTAATATCATA-TGTGTGTATATTTGGAAA
2864506 CTAATAT
1 CTAATAT
2864513 TATACTTATG
Statistics
Matches: 240, Mismatches: 70, Indels: 26
0.71 0.21 0.08
Matches are distributed among these distances:
27 2 0.01
28 65 0.27
29 171 0.71
30 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (29 bp):
CTAATATCATATGTGTGTATATTTGGAAA
Found at i:2864378 original size:57 final size:57
Alignment explanation
Indices: 2864258--2864512 Score: 162
Period size: 57 Copynumber: 4.4 Consensus size: 57
2864248 CTAAAATAAT
* * *
2864258 ATGTGAATATTTTGGAAACTAATATGATATGTGTGTATATTTGAAAACTAATATATTAT
1 ATGTGTATA-TTT-GAAACTAATATGATAAGTGTGTATATTTGAAAACTAATATATTAC
* * * *
2864317 ATGTGTATGTTCTGAAACTAATAT-ATACAG-GTGTATTTTTGGAAACTAATGTCA-TAC
1 ATGTGTATATT-TGAAACTAATATGATA-AGTGTGTATATTTGAAAACTAATAT-ATTAC
* * * * * *
2864374 ATGTGTATATTTGAAATTGATATCA-AACGTGTGTATATTCGGAAACTAATATCTTACC
1 ATGTGTATATTTGAAACTAATATGATAA-GTGTGTATATTTGAAAACTAATATATTA-C
* * * * ** ** *
2864432 A-GTGAATGTTTGTAAACTAATGTAATACTTGTGTATATTCAAAAAGTAATAT-TATAC
1 ATGTGTATATTTG-AAACTAATATGATAAGTGTGTATATTTGAAAACTAATATAT-TAC
* *
2864489 TTGTGTATATGTGGAAACTAATAT
1 ATGTGTATAT-TTGAAACTAATAT
2864513 TATACTTATG
Statistics
Matches: 153, Mismatches: 30, Indels: 27
0.73 0.14 0.13
Matches are distributed among these distances:
55 1 0.01
56 12 0.08
57 67 0.44
58 62 0.41
59 11 0.07
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (57 bp):
ATGTGTATATTTGAAACTAATATGATAAGTGTGTATATTTGAAAACTAATATATTAC
Found at i:2864379 original size:86 final size:86
Alignment explanation
Indices: 2864220--2864389 Score: 225
Period size: 86 Copynumber: 2.0 Consensus size: 86
2864210 ATGGGGAAAT
* * * *
2864220 TAATACATTATATGTGTATATTCTGAAGCTAAAATAATATGTGAATATTTTGGAAACTAATATGA
1 TAATACATTATATGTGTATATTCTGAAACTAAAATAACAGGTGAATATTTTGGAAACTAATATCA
**
2864285 TATGTGTGTATATTTGAAAAC
66 TACATGTGTATATTTGAAAAC
* * * * *
2864306 TAATATATTATATGTGTATGTTCTGAAACTAATATATACAGGTGTAT-TTTTGGAAACTAATGTC
1 TAATACATTATATGTGTATATTCTGAAACTAAAATA-ACAGGTGAATATTTTGGAAACTAATATC
2864370 ATACATGTGTATATTTGAAA
65 ATACATGTGTATATTTGAAA
2864390 TTGATATCAA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 65 0.90
87 7 0.10
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (86 bp):
TAATACATTATATGTGTATATTCTGAAACTAAAATAACAGGTGAATATTTTGGAAACTAATATCA
TACATGTGTATATTTGAAAAC
Found at i:2864511 original size:87 final size:86
Alignment explanation
Indices: 2864318--2864512 Score: 207
Period size: 86 Copynumber: 2.3 Consensus size: 86
2864308 ATATATTATA
* * * * * *
2864318 TGTGTATGTTCTGAAACTAATAT-ATA-CAGGTGTATTTTTGGAAACTAATGTCATACATGTGTA
1 TGTGTATATTCGGAAACTAATATCTTACCA-GTGAATGTTTGGAAACTAATGTAATACATGTGTA
** * *
2864381 TATTTGAAATTGATATCAAACG
65 TATTAAAAAGTAATATCAAACG
* *
2864403 TGTGTATATTCGGAAACTAATATCTTACCAGTGAATGTTTGTAAACTAATGTAATACTTGTGTAT
1 TGTGTATATTCGGAAACTAATATCTTACCAGTGAATGTTTGGAAACTAATGTAATACATGTGTAT
* * *
2864468 ATTCAAAAAGTAATATTATACT
66 ATT-AAAAAGTAATATCAAACG
2864490 TGTGTATATGT-GGAAACTAATAT
1 TGTGTATAT-TCGGAAACTAATAT
2864513 TATACTTATG
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
85 21 0.23
86 35 0.38
87 34 0.37
88 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.39
Consensus pattern (86 bp):
TGTGTATATTCGGAAACTAATATCTTACCAGTGAATGTTTGGAAACTAATGTAATACATGTGTAT
ATTAAAAAGTAATATCAAACG
Found at i:2870833 original size:2 final size:2
Alignment explanation
Indices: 2870826--2870851 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2870816 GTTATTCTTG
2870826 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
2870852 GTTTGACCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2885176 original size:10 final size:10
Alignment explanation
Indices: 2885161--2885185 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2885151 AACTCTAGTT
2885161 GGGTTGGTAA
1 GGGTTGGTAA
2885171 GGGTTGGTAA
1 GGGTTGGTAA
2885181 GGGTT
1 GGGTT
2885186 TGCTTGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (10 bp):
GGGTTGGTAA
Found at i:2898951 original size:43 final size:43
Alignment explanation
Indices: 2898890--2898974 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
2898880 CAGAGAGAAA
2898890 GCTTGATATACCTATGTGCCCTAATATATTATTGCAACACTAT
1 GCTTGATATACCTATGTGCCCTAATATATTATTGCAACACTAT
2898933 GCTTGATATACCTATGTGCCCTAATATATTATTGCAACACTA
1 GCTTGATATACCTATGTGCCCTAATATATTATTGCAACACTA
2898975 AGCAAATATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (43 bp):
GCTTGATATACCTATGTGCCCTAATATATTATTGCAACACTAT
Found at i:2899380 original size:18 final size:19
Alignment explanation
Indices: 2899357--2899399 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
2899347 ATCAGAATAA
2899357 AAGAATGTGCTA-ATA-AAT
1 AAGAAT-TGCTACATACAAT
2899375 AAGAATTGCTACATACCAAT
1 AAGAATTGCTACATA-CAAT
2899395 AAGAA
1 AAGAA
2899400 GTCAACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.23
18 9 0.41
20 8 0.36
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (19 bp):
AAGAATTGCTACATACAAT
Found at i:2900498 original size:17 final size:18
Alignment explanation
Indices: 2900464--2900501 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2900454 TTCTGTTTTC
*
2900464 TGTTTCCTGCTTGAAACA
1 TGTTTCCTGCATGAAACA
*
2900482 TGTTT-CTGCATGCAACA
1 TGTTTCCTGCATGAAACA
2900499 TGT
1 TGT
2900502 AAGTAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (18 bp):
TGTTTCCTGCATGAAACA
Found at i:2907626 original size:6 final size:6
Alignment explanation
Indices: 2907615--2907650 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
2907605 AGGGAAAAGA
* *
2907615 GAGAAG GAGAAG GAGAAG GAAAAG GAAAAG GAGAAG
1 GAGAAG GAGAAG GAGAAG GAGAAG GAGAAG GAGAAG
2907651 ACAACAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (6 bp):
GAGAAG
Found at i:2923597 original size:10 final size:10
Alignment explanation
Indices: 2923582--2923611 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
2923572 CAGATTTCAT
2923582 AAAATTAAAA
1 AAAATTAAAA
2923592 AAAATTAAAA
1 AAAATTAAAA
2923602 AAAATTAAAA
1 AAAATTAAAA
2923612 TGGGACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:2926554 original size:2 final size:2
Alignment explanation
Indices: 2926547--2926585 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2926537 ATAACGTACA
2926547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2926586 AACAAATAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2926792 original size:15 final size:15
Alignment explanation
Indices: 2926772--2926828 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
2926762 ATTACAATAC
*
2926772 AATGTGATTACAGGT
1 AATGTGATTACAAGT
*
2926787 AATGTGACTACAAGT
1 AATGTGATTACAAGT
** *
2926802 AATGTGATTGTAAGC
1 AATGTGATTACAAGT
2926817 AATGTGATTACA
1 AATGTGATTACA
2926829 GGGAAAATGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (15 bp):
AATGTGATTACAAGT
Found at i:2927047 original size:32 final size:32
Alignment explanation
Indices: 2927007--2927071 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
2926997 TTATTAATTT
2927007 TATATAATATCAT-TTCTTAAATATATTTTTAA
1 TATATAATATCATATT-TTAAATATATTTTTAA
2927039 TATATAATATCATATTTTAAATATATTTTTAA
1 TATATAATATCATATTTTAAATATATTTTTAA
2927071 T
1 T
2927072 GTCATATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.54
Consensus pattern (32 bp):
TATATAATATCATATTTTAAATATATTTTTAA
Found at i:2927087 original size:32 final size:31
Alignment explanation
Indices: 2927023--2927121 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 31
2927013 ATATCATTTC
**
2927023 TTAAATATATTTTTAATATATAATATCATATT
1 TTAAATATATTTTTAATATAT-ATATTTTATT
*
2927055 TTAAATATATTTTTAATGTCATATATTTTATT
1 TTAAATATATTTTTAATAT-ATATATTTTATT
* * *
2927087 TT-TATTTATTATTATAATTTTATATATTTTATT
1 TTAAATATATT-TT-TAA-TATATATATTTTATT
2927120 TT
1 TT
2927122 CATTTCTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
31 6 0.11
32 30 0.53
33 19 0.33
34 2 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (31 bp):
TTAAATATATTTTTAATATATATATTTTATT
Found at i:2927112 original size:33 final size:33
Alignment explanation
Indices: 2927075--2927160 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 33
2927065 TTTTAATGTC
*
2927075 ATATATTTTATTTTTATTTA-TTATTATAATTTT
1 ATATATTTTATTTTTATTTATTTAATAT-ATTTT
* *
2927108 ATATATTTTATTTTCATTTCTTTAATATATTTT
1 ATATATTTTATTTTTATTTATTTAATATATTTT
* *
2927141 TTATATTATATATTTTATTT
1 ATATATTTTAT-TTTTATTT
2927161 TAATTTGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 32 0.71
34 13 0.29
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTATTTAATATATTTT
Found at i:2927184 original size:31 final size:30
Alignment explanation
Indices: 2927137--2927251 Score: 95
Period size: 31 Copynumber: 4.0 Consensus size: 30
2927127 CTTTAATATA
*
2927137 TTTTTTATAT-TA-TATATTTTATTTTAAT
1 TTTTTTATCTATATTATATTTTATTTTAAT
** *
2927165 TTGTTTTATCTATATTATA-TAAATATTAA-
1 TT-TTTTATCTATATTATATTTTATTTTAAT
2927194 TTTTTTA--TAT-TT-TATTTTATTTTAAT
1 TTTTTTATCTATATTATATTTTATTTTAAT
*
2927220 TTTTAT-TCTTATATTATATATTTATTTTAAT
1 TTTTTTATC-TATATTATAT-TTTATTTTAAT
2927251 T
1 T
2927252 ATAATATTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
24 2 0.03
25 9 0.13
26 8 0.12
28 10 0.15
29 11 0.16
30 12 0.18
31 16 0.24
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.68
Consensus pattern (30 bp):
TTTTTTATCTATATTATATTTTATTTTAAT
Found at i:2927247 original size:50 final size:55
Alignment explanation
Indices: 2927130--2927247 Score: 151
Period size: 55 Copynumber: 2.2 Consensus size: 55
2927120 TTCATTTCTT
2927130 TAATA-TATTTTTTATATTATATATTTTATTTTAATTTGTTTTATCTATATTATA
1 TAATATTATTTTTTATATTATATATTTTATTTTAATTTGTTTTATCTATATTATA
*
2927184 TAAATATTAATTTTTTATATT-T-TATTTTATTTTAATTT-TTAT-TCTTATATTATA
1 T-AATATT-ATTTTTTATATTATATATTTTATTTTAATTTGTTTTATC-TATATTATA
2927238 T-AT-TTATTTT
1 TAATATTATTTT
2927248 AATTATAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
50 5 0.08
51 2 0.03
52 2 0.03
53 2 0.03
54 14 0.24
55 20 0.34
56 2 0.03
57 12 0.20
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.67
Consensus pattern (55 bp):
TAATATTATTTTTTATATTATATATTTTATTTTAATTTGTTTTATCTATATTATA
Found at i:2929385 original size:6 final size:6
Alignment explanation
Indices: 2929374--2929483 Score: 67
Period size: 6 Copynumber: 16.7 Consensus size: 6
2929364 ATATAATATA
* * *
2929374 AAAAAT AAAAAT AAAATAT AAAAATTT AAAATTT ATATAAT ATAAAT AAAAAAT
1 AAAAAT AAAAAT AAAA-AT AAAAA--T AAAA-AT A-AAAAT AAAAAT -AAAAAT
* * * *
2929428 AAAAAT AAAATAT ATAATAT ATAATAT AAAAAAT TATAAT AAAAAT AAAAAT
1 AAAAAT AAAA-AT A-AAAAT A-AAAAT -AAAAAT AAAAAT AAAAAT AAAAAT
2929480 AAAA
1 AAAA
2929484 TATATGACAT
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
6 42 0.51
7 31 0.37
8 10 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
AAAAAT
Found at i:2929430 original size:35 final size:32
Alignment explanation
Indices: 2929376--2929485 Score: 107
Period size: 33 Copynumber: 3.3 Consensus size: 32
2929366 ATAATATAAA
* * *
2929376 AAATAAAAATAAAATATAAAAATTTAAAATTTAT
1 AAATATAAATAAAAAATAAAAA--TAAAATATAT
2929410 ATAATATAAATAAAAAATAAAAATAAAATATAT
1 A-AATATAAATAAAAAATAAAAATAAAATATAT
* * *
2929443 AATATATAATATAAAAAATTATAATAAAA-ATAA
1 AA-ATATAA-ATAAAAAATAAAAATAAAATATAT
2929476 AAATA-AAATA
1 AAATATAAATA
2929486 TATGACATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
30 3 0.04
31 2 0.03
32 4 0.06
33 21 0.31
34 18 0.27
35 19 0.28
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (32 bp):
AAATATAAATAAAAAATAAAAATAAAATATAT
Found at i:2929499 original size:39 final size:40
Alignment explanation
Indices: 2929350--2929500 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
2929340 CGTGTTTTCT
* * * *
2929350 ATAAAATA-AAATTTATATAATATAAAAAATAAAAATAAAA
1 ATAAAATATAAA-ATATATAACATAAAAAATTATAATAAAA
* *
2929390 TATAAAAATTTAAAATTTATATAATATAAATAAA--A-AATAAAA
1 -AT-AAAATATAAAA--TATATAACATAAA-AAATTATAATAAAA
* *
2929432 ATAAAATATATAATATATAATATAAAAAATTATAATAAAA
1 ATAAAATATAAAATATATAACATAAAAAATTATAATAAAA
* *
2929472 ATAAAA-ATAAAATATATGACATTAAAAAT
1 ATAAAATATAAAATATATAACATAAAAAAT
2929501 ATATCTAAGA
Statistics
Matches: 94, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
37 3 0.03
38 13 0.14
39 20 0.21
40 22 0.23
41 4 0.04
42 12 0.13
43 4 0.04
44 13 0.14
45 3 0.03
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (40 bp):
ATAAAATATAAAATATATAACATAAAAAATTATAATAAAA
Found at i:2933141 original size:25 final size:26
Alignment explanation
Indices: 2933091--2933150 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
2933081 AGTTGATTTA
*
2933091 ATTTTATA-TTAATTTATTAATCAAT
1 ATTTTATATTTAATTTATAAATCAAT
*
2933116 ATTTTATATTTAATTTA-AAATTAAT
1 ATTTTATATTTAATTTATAAATCAAT
2933141 A--TTATATTTA
1 ATTTTATATTTA
2933151 TTGAGAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 9 0.28
25 15 0.47
26 8 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTATATTTAATTTATAAATCAAT
Found at i:2933145 original size:23 final size:24
Alignment explanation
Indices: 2933088--2933150 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
2933078 GCTAGTTGAT
* *
2933088 TTAATTTTATA-TTAATTTATTAA
1 TTAATATTATATTTAATTTATAAA
*
2933111 TCAATATTTTATATTTAATTTA-AAA
1 TTAATA--TTATATTTAATTTATAAA
2933136 TTAATATTATATTTA
1 TTAATATTATATTTA
2933151 TTGAGAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 13 0.39
25 12 0.36
26 8 0.24
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAATATTATATTTAATTTATAAA
Found at i:2935348 original size:2 final size:2
Alignment explanation
Indices: 2935341--2935375 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2935331 AGATGAAAAC
2935341 TA 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 TA T
2935376 CTTGCGACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2936991 original size:20 final size:22
Alignment explanation
Indices: 2936966--2937005 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2936956 TGATCCAAGC
2936966 GAAGGA-G-GAATTAAAGTGGG
1 GAAGGATGAGAATTAAAGTGGG
*
2936986 GAAGGATGATAATTAAAGTG
1 GAAGGATGAGAATTAAAGTG
2937006 TTTTGAGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (22 bp):
GAAGGATGAGAATTAAAGTGGG
Found at i:2938928 original size:27 final size:27
Alignment explanation
Indices: 2938898--2938950 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
2938888 ATGATTTTTA
* **
2938898 ATTTGAAATATTAATTTTTTATAATTT
1 ATTTAAAATATTAATCATTTATAATTT
*
2938925 ATTTAAAATATTGATCATTTATAATT
1 ATTTAAAATATTAATCATTTATAATT
2938951 AAAACTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
ATTTAAAATATTAATCATTTATAATTT
Found at i:2940233 original size:16 final size:17
Alignment explanation
Indices: 2940200--2940233 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2940190 ACAAATGGTC
*
2940200 ATGAATAGCAAGAATAA
1 ATGAATAGCAAAAATAA
2940217 ATGAATAG-AAAAATAA
1 ATGAATAGCAAAAATAA
2940233 A
1 A
2940234 AAATTAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.65, C:0.03, G:0.15, T:0.18
Consensus pattern (17 bp):
ATGAATAGCAAAAATAA
Found at i:2942070 original size:22 final size:22
Alignment explanation
Indices: 2942031--2942072 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2942021 TTTTTTGCAG
* *
2942031 AAAAAAAGAAAGACAAAAAGGA
1 AAAAAAAAAAAAACAAAAAGGA
*
2942053 AAAAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAAACAAAAAG
2942073 CATCGACCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAAACAAAAAGGA
Found at i:2950374 original size:2 final size:2
Alignment explanation
Indices: 2950367--2950394 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2950357 CTTGATGAGG
2950367 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
2950395 TTGATGACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2951972 original size:2 final size:2
Alignment explanation
Indices: 2951960--2951991 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2951950 TCACTCAGCT
2951960 TA TA T- 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
2951992 TTACATGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2963017 original size:2 final size:2
Alignment explanation
Indices: 2963010--2963059 Score: 59
Period size: 2 Copynumber: 25.0 Consensus size: 2
2963000 ACGTGACGTT
*
2963010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA CGA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA TA
2963053 T- TA TA TA
1 TA TA TA TA
2963060 AAATTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
1 2 0.05
2 37 0.88
3 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2964687 original size:2 final size:2
Alignment explanation
Indices: 2964680--2964716 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2964670 TAAAAATGAC
2964680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2964717 CACATACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2977136 original size:42 final size:42
Alignment explanation
Indices: 2977085--2977205 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 42
2977075 TTCTCCGTCT
2977085 ATAACTGATTGGTGATCTTGACTTGGACCTTGACCTTCGCCG
1 ATAACTGATTGGTGATCTTGACTTGGACCTTGACCTTCGCCG
* * * * *
2977127 ATAATTGATTGGTGATCTAGACTTTGATCTTGACCTTCTCCG
1 ATAACTGATTGGTGATCTTGACTTGGACCTTGACCTTCGCCG
* ** * *
2977169 ATAACTAAGGGGCGATTTTGACTTGGACCTTGACCTT
1 ATAACTGATTGGTGATCTTGACTTGGACCTTGACCTT
2977206 GCATGAGAAG
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (42 bp):
ATAACTGATTGGTGATCTTGACTTGGACCTTGACCTTCGCCG
Found at i:2980419 original size:16 final size:16
Alignment explanation
Indices: 2980363--2980419 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
2980353 GATAATTTTA
*
2980363 TTTTACATTAAATAAAT
1 TTTTA-ATTAAATATAT
* *
2980380 TTTTTATTTAAT-T-T
1 TTTTAATTAAATATAT
2980394 TTTTAA-TAAATATAT
1 TTTTAATTAAATATAT
2980409 TTTTAATTAAA
1 TTTTAATTAAA
2980420 AAATTAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.12
14 7 0.22
15 7 0.22
16 10 0.31
17 4 0.12
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAATTAAATATAT
Found at i:3004387 original size:3 final size:3
Alignment explanation
Indices: 3004379--3004411 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3004369 TGTGAAAGGA
3004379 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
3004412 ACTTGGAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
TGC
Found at i:3006201 original size:3 final size:3
Alignment explanation
Indices: 3006186--3006219 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
3006176 GCAGTTTCAT
* *
3006186 ATA ATA GTA ATA ATA ATA ATA ATA ATA GTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3006220 CAGTAGTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3026842 original size:21 final size:20
Alignment explanation
Indices: 3026818--3026861 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
3026808 TTTTACCTTG
*
3026818 TTCAGACTGCTGAGGTTCTGT
1 TTCAGACTGCCGAGGTTCT-T
* *
3026839 TTCAGATTGCCGTGGTTCTT
1 TTCAGACTGCCGAGGTTCTT
3026859 TTC
1 TTC
3026862 CTGGATACTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (20 bp):
TTCAGACTGCCGAGGTTCTT
Found at i:3028262 original size:2 final size:2
Alignment explanation
Indices: 3028257--3028282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3028247 CATGTGTGTG
3028257 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
3028283 CTTGCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3035100 original size:21 final size:21
Alignment explanation
Indices: 3035074--3035114 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3035064 ATTTATTATT
*
3035074 GCACATAGGTCCAGATATCTG
1 GCACATAGGTACAGATATCTG
* *
3035095 GCACATTGGTACATATATCT
1 GCACATAGGTACAGATATCT
3035115 CCATGGTATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (21 bp):
GCACATAGGTACAGATATCTG
Found at i:3044386 original size:23 final size:21
Alignment explanation
Indices: 3044345--3044386 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
3044335 CTCTCTTTAT
*
3044345 AAAATAAGAAAAGCAAACCTG
1 AAAATAAGAAAAACAAACCTG
3044366 AAAATGAAGAAAAACATAACC
1 AAAAT-AAGAAAAACA-AACC
3044387 AAAACAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 9 0.50
23 4 0.22
ACGTcount: A:0.64, C:0.14, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAATAAGAAAAACAAACCTG
Found at i:3050997 original size:2 final size:2
Alignment explanation
Indices: 3050990--3051015 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3050980 TCTTTTTCTC
3050990 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
3051016 TCCTTTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3052108 original size:40 final size:39
Alignment explanation
Indices: 3052026--3052108 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
3052016 TAATCTTTTA
* **
3052026 TTTATAATTTAATCATTAATATTATAAAATACTAATTTT
1 TTTATAATTTAATCATTAATATGATAAAATACTAATACT
* *
3052065 TTTATAATTTAAAT-ATTATTATGATTAAAATATTAATACT
1 TTTATAATTT-AATCATTAATATGA-TAAAATACTAATACT
3052105 TTTA
1 TTTA
3052109 ATTAATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 18 0.49
40 19 0.51
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (39 bp):
TTTATAATTTAATCATTAATATGATAAAATACTAATACT
Found at i:3054158 original size:22 final size:22
Alignment explanation
Indices: 3054133--3054174 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3054123 TTAAATCTAG
*
3054133 AAAAATGTTATAAAAAATATAA
1 AAAAATATTATAAAAAATATAA
*
3054155 AAAAATATTATTAAAAATAT
1 AAAAATATTATAAAAAATAT
3054175 TTTCAGTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAATATTATAAAAAATATAA
Found at i:3054173 original size:12 final size:12
Alignment explanation
Indices: 3054133--3054175 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
3054123 TTAAATCTAG
*
3054133 AAAAATGTTATA
1 AAAAATATTATA
3054145 AAAAATA-TA-A
1 AAAAATATTATA
*
3054155 AAAAATATTATT
1 AAAAATATTATA
3054167 AAAAATATT
1 AAAAATATT
3054176 TTCAGTAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 8 0.30
11 4 0.15
12 15 0.56
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (12 bp):
AAAAATATTATA
Found at i:3055549 original size:16 final size:14
Alignment explanation
Indices: 3055518--3055547 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3055508 AATAATAAAA
3055518 AATTTTAAAATAAT
1 AATTTTAAAATAAT
3055532 AATTTTAAAAT-AT
1 AATTTTAAAATAAT
3055545 AAT
1 AAT
3055548 AAACCAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTTTAAAATAAT
Found at i:3062533 original size:22 final size:22
Alignment explanation
Indices: 3062502--3062554 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
3062492 CACTTTTACC
*
3062502 GCAGCCAAAATGGAAATTCGCT
1 GCAGCGAAAATGGAAATTCGCT
*
3062524 GCAGCGAAAATGGAAATTCGTT
1 GCAGCGAAAATGGAAATTCGCT
3062546 GCAGCGAAA
1 GCAGCGAAA
3062555 TCTCTTTGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (22 bp):
GCAGCGAAAATGGAAATTCGCT
Found at i:3066135 original size:18 final size:18
Alignment explanation
Indices: 3066101--3066135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3066091 CAAAAAAAGT
* *
3066101 AAAATGATTTGATATTTG
1 AAAATGATGTGAGATTTG
3066119 AAAATGATGTGAGATTT
1 AAAATGATGTGAGATTT
3066136 TTACTAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
AAAATGATGTGAGATTTG
Found at i:3066887 original size:34 final size:33
Alignment explanation
Indices: 3066845--3066909 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
3066835 AGAATTCAAA
3066845 TTTAAAATA-AAAATTAAAATTGTTATTCATTGT
1 TTTAAAATATAAAATTAAAATTGTTA-TCATTGT
* * *
3066878 TTTAGAAATATGAAATTTAATTTGTTATCATT
1 TTTA-AAATATAAAATTAAAATTGTTATCATT
3066910 TGAAGACAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.15
34 10 0.37
35 13 0.48
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.48
Consensus pattern (33 bp):
TTTAAAATATAAAATTAAAATTGTTATCATTGT
Found at i:3070847 original size:15 final size:15
Alignment explanation
Indices: 3070827--3070860 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
3070817 ATTGTTGGGT
3070827 ATATGATTACTGAAA
1 ATATGATTACTGAAA
3070842 ATATGATTACTGAAA
1 ATATGATTACTGAAA
3070857 ATAT
1 ATAT
3070861 AATTTTGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (15 bp):
ATATGATTACTGAAA
Found at i:3074371 original size:17 final size:18
Alignment explanation
Indices: 3074322--3074364 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
3074312 AAATATTTAC
*
3074322 TTTTCACTAAAATT-AAA
1 TTTTTACTAAAATTAAAA
3074339 TTTTTACTAAAATTAAAA
1 TTTTTACTAAAATTAAAA
3074357 TTTTTACT
1 TTTTTACT
3074365 TAATTAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTTACTAAAATTAAAA
Found at i:3074595 original size:20 final size:18
Alignment explanation
Indices: 3074561--3074602 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
3074551 AGTCAAGAAT
*
3074561 TTAAATTTATATTTTTTC
1 TTAAAATTATATTTTTTC
3074579 ATTAAAATTATATTTTTTTC
1 -TTAAAATTATA-TTTTTTC
3074599 TTAA
1 TTAA
3074603 TTAACTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAAAATTATATTTTTTC
Found at i:3074734 original size:22 final size:24
Alignment explanation
Indices: 3074700--3074747 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
3074690 TTGCTTTACA
*
3074700 TTAAAAATTTTTA-ATCATAA-TTT
1 TTAAAAATCTTTACATC-TAAGTTT
3074723 TTAAAAA-CTTTACATCTAAGTTT
1 TTAAAAATCTTTACATCTAAGTTT
3074746 TT
1 TT
3074748 TAATGGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (24 bp):
TTAAAAATCTTTACATCTAAGTTT
Found at i:3094840 original size:16 final size:19
Alignment explanation
Indices: 3094819--3094856 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
3094809 TTCTCAATGG
3094819 CTTTGCTT-T-TTTGCA-T
1 CTTTGCTTCTATTTGCACT
3094835 CTTTGCTTCTATTTGCACT
1 CTTTGCTTCTATTTGCACT
3094854 CTT
1 CTT
3094857 GATTATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 6 0.32
19 4 0.21
ACGTcount: A:0.08, C:0.24, G:0.11, T:0.58
Consensus pattern (19 bp):
CTTTGCTTCTATTTGCACT
Found at i:3105419 original size:27 final size:27
Alignment explanation
Indices: 3105387--3105440 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3105377 GGCCAAATGA
3105387 ATAGTGAATTAGCAGAGGATCAATGGT
1 ATAGTGAATTAGCAGAGGATCAATGGT
3105414 ATAGTGAATTAGCAGAGGATCAATGGT
1 ATAGTGAATTAGCAGAGGATCAATGGT
3105441 TTTGTCTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.30, T:0.26
Consensus pattern (27 bp):
ATAGTGAATTAGCAGAGGATCAATGGT
Found at i:3108300 original size:1 final size:1
Alignment explanation
Indices: 3108294--3108331 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
3108284 CTATATTGCT
3108294 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
3108332 TCCTTCCCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:3109916 original size:3 final size:3
Alignment explanation
Indices: 3109908--3109935 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3109898 TTATATTACA
3109908 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3109936 CTAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3111555 original size:3 final size:3
Alignment explanation
Indices: 3111547--3111571 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3111537 AGTATTTGCA
3111547 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
3111572 GGGTGAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3112511 original size:16 final size:16
Alignment explanation
Indices: 3112492--3112525 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3112482 TATTAAAAAG
*
3112492 AATTAATAGTAAACTT
1 AATTAATAATAAACTT
*
3112508 AATTAATAATATACTT
1 AATTAATAATAAACTT
3112524 AA
1 AA
3112526 AATATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
AATTAATAATAAACTT
Found at i:3112774 original size:16 final size:16
Alignment explanation
Indices: 3112724--3112774 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
3112714 TTATAATTTA
*
3112724 ATATAATTTTAT-AAT
1 ATATAATTATATAAAT
*
3112739 ATA-AAATATTATAAAT
1 ATATAATTA-TATAAAT
3112755 ATATAATTATATAAAT
1 ATATAATTATATAAAT
3112771 ATAT
1 ATAT
3112775 TATATATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 3 0.10
15 6 0.20
16 17 0.57
17 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATAATTATATAAAT
Found at i:3112780 original size:39 final size:42
Alignment explanation
Indices: 3112702--3112780 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 42
3112692 ACATATTAAT
* * *
3112702 ATATTATAATTATTATAATTTAATATAATTTTATAATATAAA
1 ATATTATAAATATTATAATTTAATATAAATATATAATATAAA
*
3112744 ATATTATAAATA-TATAA-TT-ATATAAATATATTATATA
1 ATATTATAAATATTATAATTTAATATAAATATATAATATA
3112781 TATTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 15 0.45
40 2 0.06
41 5 0.15
42 11 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (42 bp):
ATATTATAAATATTATAATTTAATATAAATATATAATATAAA
Found at i:3112783 original size:27 final size:26
Alignment explanation
Indices: 3112737--3112818 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 26
3112727 TAATTTTATA
3112737 ATATAAA-ATATTATAAATATATAATT
1 ATATAAATATATTAT-AATATATAATT
*
3112763 ATATAAATATATTATATATATTTAATTT
1 ATATAAATATATTATA-ATATATAA-TT
*
3112791 ATACATAAATATTATTATAATTTATAAT
1 AT--ATAAATA-TATTATAATATATAAT
3112819 AAACTTGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
26 8 0.17
27 14 0.30
28 4 0.09
29 1 0.02
30 13 0.28
31 7 0.15
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATAAATATATTATAATATATAATT
Found at i:3112802 original size:23 final size:22
Alignment explanation
Indices: 3112776--3112821 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
3112766 TAAATATATT
3112776 ATATATATT-TAATTTATACATAA
1 ATAT-TATTATAATTTATA-ATAA
3112799 ATATTATTATAATTTATAATAA
1 ATATTATTATAATTTATAATAA
3112821 A
1 A
3112822 CTTGATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTATTATAATTTATAATAA
Found at i:3112968 original size:14 final size:14
Alignment explanation
Indices: 3112870--3112968 Score: 50
Period size: 14 Copynumber: 7.1 Consensus size: 14
3112860 ATCATATTAG
3112870 ATTTTATA-ATATA
1 ATTTTATATATATA
*
3112883 TTATTTATA-AT-TA
1 AT-TTTATATATATA
*
3112896 ATTATTATTTATATAA
1 ATT-TTATATATAT-A
3112912 ATTTTGATATA-A-A
1 ATTTT-ATATATATA
* *
3112925 ATATTATAACATATA
1 ATTTTAT-ATATATA
*
3112940 A-GTTATATCAT-TA
1 ATTTTATAT-ATATA
3112953 ATTTTATATATATA
1 ATTTTATATATATA
3112967 AT
1 AT
3112969 AAAATTATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 23
0.67 0.09 0.24
Matches are distributed among these distances:
12 3 0.05
13 21 0.32
14 27 0.42
15 6 0.09
16 8 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
ATTTTATATATATA
Found at i:3113001 original size:212 final size:209
Alignment explanation
Indices: 3112759--3113390 Score: 817
Period size: 212 Copynumber: 3.0 Consensus size: 209
3112749 ATAAATATAT
* * * *
3112759 AATTATATA-AATATATTATATATATTTAATTTATACATAAATATTATTATAATTTATAATAAAC
1 AATTATATATTATATA-TACATATATTTAATTTATATATAAATATTACTATAATTTATAATAAAC
* * *
3112823 TTGATTTAAATGATTACATTTGATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATT
65 TTGATTTATATGATTACACTTAATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATT
3112888 TATAATTAATTATTATTTATATAAATTTTGATATAAAATATTATAACATATAAGTTATATCATTA
130 TATAATTAATTATTATTTATATAAATTTTGATATAAAATATTATAA-ATATAA-TTATATCATT-
3112953 ATTTTATATATATAATAA
192 ATTTTATATATATAATAA
* * * *
3112971 AATTATATATTATATATACATATATTTAATTTATATATAAGTATTACTATAACTTATAATAGATT
1 AATTATATATTATATATACATATATTTAATTTATATATAAATATTACTATAATTTATAATAAACT
* * *
3113036 TTATTTATATGATTACACTTAATAAATTTATTAGTTATCATATTAAATTTTATAACATATTATTT
66 TGATTTATATGATTACACTTAATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATTT
* * * *
3113101 ATAATTAGTTATTATTTATATAAATTTTAATATAAAATATT-TTAATATAATT-TAT-ATTATTA
131 ATAATTAATTATTATTTATATAAATTTTGATATAAAATATTATAAATATAATTATATCATTATTT
*
3113163 AATATATATAATAA
196 TATATATATAATAA
* *** * *
3113177 AATAATATATTAT-TATACATATATTTAATTTATATACCTACATCACTATAATTTATAATAAACT
1 AATTATATATTATATATACATATATTTAATTTATATATAAATATTACTATAATTTATAATAAAC-
* ** * *
3113241 TTG-TTTATATGATTAGACTTAATAAATTTATTAACTATTATCTTAGATTTTATAATATATTATT
65 TTGATTTATATGATTACACTTAATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATT
*
3113305 TATAATTACTTATTATTTATATAAATTTTGATATAAAATATTATATTATATTATATAAATTATAT
130 TATAATTAATTATTATTTATATAAATTTTGATATAAAATA-T-TA-TA-A--ATAT-AATTATAT
*
3113370 CATTGATTTTTTATATATAAT
188 CATT-ATTTTATATATATAAT
3113391 TATAGATAAA
Statistics
Matches: 364, Mismatches: 43, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
205 133 0.37
206 31 0.09
207 4 0.01
208 3 0.01
209 3 0.01
210 7 0.02
211 2 0.01
212 153 0.42
213 9 0.02
214 3 0.01
215 3 0.01
216 13 0.04
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (209 bp):
AATTATATATTATATATACATATATTTAATTTATATATAAATATTACTATAATTTATAATAAACT
TGATTTATATGATTACACTTAATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATTT
ATAATTAATTATTATTTATATAAATTTTGATATAAAATATTATAAATATAATTATATCATTATTT
TATATATATAATAA
Found at i:3113293 original size:205 final size:212
Alignment explanation
Indices: 3112769--3113349 Score: 795
Period size: 205 Copynumber: 2.8 Consensus size: 212
3112759 AATTATATAA
* * ** * * *
3112769 ATATATTATATATATTTAATTTATACATAAATATTATTATAATTTATAATAAAC-TTGATTTAAA
1 ATATA-TACATATATTTAATTTATATATAAGCATCACTATAATTTATAATAAACTTTG-TTTATA
* *
3112833 TGATTACATTTGATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATTTATAATTAAT
64 TGATTACACTTAATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATTTATAATTAAT
**
3112898 TATTATTTATATAAATTTTGATATAAAATATTATAACATATAAGTTATATCATTAATTTTATATA
129 TATTATTTATATAAATTTTGATATAAAATATTATAACATATAAGTTATATCATTAATTAAATATA
*
3112963 TATAATAAAATTATATATT
194 TATAATAAAATAATATATT
* * * * * *
3112982 ATATATACATATATTTAATTTATATATAAGTATTACTATAACTTATAATAGATTTTATTTATATG
1 ATATATACATATATTTAATTTATATATAAGCATCACTATAATTTATAATAAACTTTGTTTATATG
* * *
3113047 ATTACACTTAATAAATTTATTAGTTATCATATTAAATTTTATAACATATTATTTATAATTAGTTA
66 ATTACACTTAATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATTTATAATTAATTA
* *
3113112 TTATTTATATAAATTTTAATATAAAATATT-TTA-ATATAA-TT-TAT-ATT-ATTAAATATATA
131 TTATTTATATAAATTTTGATATAAAATATTATAACATATAAGTTATATCATTAATTAAATATATA
3113171 TAATAAAATAATATATT
196 TAATAAAATAATATATT
3113188 AT-TATACATATATTTAATTTATATACCT-A-CATCACTATAATTTATAATAAACTTTGTTTATA
1 ATATATACATATATTTAATTTATATA--TAAGCATCACTATAATTTATAATAAACTTTGTTTATA
* ** * * *
3113250 TGATTAGACTTAATAAATTTATTAACTATTATCTTAGATTTTATAATATATTATTTATAATTACT
64 TGATTACACTTAATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATTTATAATTAAT
3113315 TATTATTTATATAAATTTTGATATAAAATATTATA
129 TATTATTTATATAAATTTTGATATAAAATATTATA
3113350 TTATATTATA
Statistics
Matches: 329, Mismatches: 35, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
205 138 0.42
206 30 0.09
207 4 0.01
208 3 0.01
209 2 0.01
210 6 0.02
211 2 0.01
212 137 0.42
213 7 0.02
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (212 bp):
ATATATACATATATTTAATTTATATATAAGCATCACTATAATTTATAATAAACTTTGTTTATATG
ATTACACTTAATAAATTTATTAGTTATCATATTAGATTTTATAATATATTATTTATAATTAATTA
TTATTTATATAAATTTTGATATAAAATATTATAACATATAAGTTATATCATTAATTAAATATATA
TAATAAAATAATATATT
Found at i:3115315 original size:210 final size:207
Alignment explanation
Indices: 3114955--3115365 Score: 527
Period size: 210 Copynumber: 2.0 Consensus size: 207
3114945 ATGAAGTAAG
* * * * * * *
3114955 TGCAAACAAAAGAGAGTGAAAGAAGCATGTAGAATGTTAAAGCTAATGAGTGAGAGTGGTCTAAA
1 TGCAAACAAAAGAGAATGAAAGAAACACGTAGAATGTTAAAGCCAATGAGTGAAAGAGATCTAAA
* * *
3115020 ACCTGTTATTTCATACAGCGCTTTAATACATGGATTTTGCCTTTCAAGCCAATGGAAAGAAGCAA
66 ACCTGTTATTACATACAGCGCTTTAATACATGAATTTTGCCTTTCAAGACAATGGAAAGAAGCAA
* * * * *
3115085 CAAGTTTGTTCCACAGAATGATGGATGAAGGAATTTATCTCAATATGGTAACTTTCAACTCTTTA
131 CAAGCTTGTTCCACAGAATGATGGATGAAGGAATTCATCCCAATATAGTAACTCTCAACTCTTTA
3115150 ATTGATGCTTTC
196 ATTGATGCTTTC
* * ** *
3115162 TGCAAACAATAGAGAATGAAAGAAACCCGTAGAATGTTGGAGCCAATGAGTGAAAGAGATGTAAA
1 TGCAAACAAAAGAGAATGAAAGAAACACGTAGAATGTTAAAGCCAATGAGTGAAAGAGATCTAAA
* * * *
3115227 ACCTAATGTTATTACTTATAGCTCTTTAATACATGAATTTTGCCTTTCAGGACAATGGAAAGAA-
66 ACC---TGTTATTACATACAGCGCTTTAATACATGAATTTTGCCTTTCAAGACAATGGAAAGAAG
* * * *
3115291 CAAACAAGCTTGTTCCATAGAATGATGGATGAAGGACTTCATCCCAATGTAGTAACTCTCAGCTC
128 C-AACAAGCTTGTTCCACAGAATGATGGATGAAGGAATTCATCCCAATATAGTAACTCTCAACTC
3115356 TTTAATTGAT
192 TTTAATTGAT
3115366 CAGCTTTGTA
Statistics
Matches: 172, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
207 56 0.33
209 1 0.01
210 115 0.67
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (207 bp):
TGCAAACAAAAGAGAATGAAAGAAACACGTAGAATGTTAAAGCCAATGAGTGAAAGAGATCTAAA
ACCTGTTATTACATACAGCGCTTTAATACATGAATTTTGCCTTTCAAGACAATGGAAAGAAGCAA
CAAGCTTGTTCCACAGAATGATGGATGAAGGAATTCATCCCAATATAGTAACTCTCAACTCTTTA
ATTGATGCTTTC
Found at i:3115428 original size:210 final size:210
Alignment explanation
Indices: 3115040--3115445 Score: 498
Period size: 210 Copynumber: 1.9 Consensus size: 210
3115030 TCATACAGCG
* * *
3115040 CTTTAATACATGGATTTTGCCTTTCAAGCCAATGGAAAGAAGCAACAAGTTTGTTCCACAGAATG
1 CTTTAATACATGAATTTTGCCTTTCAAGACAATGGAAAGAAGCAACAAGCTTGTTCCACAGAATG
* * * *
3115105 ATGGATGAAGGAATTTATCTCAATATGGTAACTTTCAACTCTTTAATTGATGCTTTCTGCAAACA
66 ATGGATGAAGGAATTCATCCCAATATAGTAACTCTCAACTCTTTAATTGATGCTTTCTGCAAACA
* * * ** *
3115170 ATAGAGAATGAAAGAAACCCGTAGAATGTTGGAGCCAATGAGTGAAAGAGATGTAAAACCTAATG
131 ATAGAGAATGAAAGAAACCAGTAAAATATTCAAGCCAATGAATGAAAGAGATGTAAAACCTAATG
3115235 TTATTACTTATAGCT
196 TTATTACTTATAGCT
* *
3115250 CTTTAATACATGAATTTTGCCTTTCAGGACAATGGAAAGAA-CAAACAAGCTTGTTCCATAGAAT
1 CTTTAATACATGAATTTTGCCTTTCAAGACAATGGAAAGAAGC-AACAAGCTTGTTCCACAGAAT
* * * *
3115314 GATGGATGAAGGACTTCATCCCAATGTAGTAACTCTCAGCTCTTTAATTGATCAGC-TT-TGTAA
65 GATGGATGAAGGAATTCATCCCAATATAGTAACTCTCAACTCTTTAATTGAT--GCTTTCTGCAA
* * ** * * *
3115377 AGAA-AGGAGAGTTG-AAGAGGCCATTAAAATATTCAAGCTAATGAATGAAAGAGATGTAAACCC
128 ACAATA-GAGA-ATGAAAGAAACCAGTAAAATATTCAAGCCAATGAATGAAAGAGATGTAAAACC
3115440 TAATGT
191 TAATGT
3115446 CATCACTTGC
Statistics
Matches: 165, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
209 2 0.01
210 157 0.95
211 4 0.02
212 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (210 bp):
CTTTAATACATGAATTTTGCCTTTCAAGACAATGGAAAGAAGCAACAAGCTTGTTCCACAGAATG
ATGGATGAAGGAATTCATCCCAATATAGTAACTCTCAACTCTTTAATTGATGCTTTCTGCAAACA
ATAGAGAATGAAAGAAACCAGTAAAATATTCAAGCCAATGAATGAAAGAGATGTAAAACCTAATG
TTATTACTTATAGCT
Found at i:3117550 original size:12 final size:13
Alignment explanation
Indices: 3117522--3117554 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
3117512 TATAGCTAAT
3117522 TTTATTTTATCTTA
1 TTTA-TTTATCTTA
3117536 TTTATTTAT-TTA
1 TTTATTTATCTTA
3117548 TTTATTT
1 TTTATTT
3117555 TTGGACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 5 0.26
14 4 0.21
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATCTTA
Done.