Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 151 of 316
Found at i:47876417 original size:18 final size:18
Alignment explanation
Indices: 47876386--47876420 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47876376 GTGTGTTGAA
* *
47876386 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
47876404 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
47876421 ATTACTGATT
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:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:47883687 original size:47 final size:45
Alignment explanation
Indices: 47883575--47883697 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 45
47883565 AGGTTATTGT
47883575 GAGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTTTGGGACATGGCATCGG-C-CATTATGA
*
47883621 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTGA-GA
1 GAGCTAGTGTAAGA-CATGTTTGGGACATGGCATCGGCCATT-ATGA
*
47883666 CGAGTGCTAGTGTAAGACATGTTTGGCACATG
1 -GA--GCTAGTGTAAGACATGTTTGGGACATG
47883698 CATTTGCTAC
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
45 6 0.09
46 16 0.24
47 28 0.41
48 18 0.26
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTTTGGGACATGGCATCGGCCATTATGA
Found at i:47885148 original size:26 final size:26
Alignment explanation
Indices: 47885112--47885163 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
47885102 TGGGCAATGT
47885112 TTGTGTGCATAAGATCGAGTTAAGTA
1 TTGTGTGCATAAGATCGAGTTAAGTA
47885138 TTGTGTGCATAAGATCGAGTTAAGTA
1 TTGTGTGCATAAGATCGAGTTAAGTA
47885164 ATGCCTCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TTGTGTGCATAAGATCGAGTTAAGTA
Found at i:47885496 original size:32 final size:32
Alignment explanation
Indices: 47885450--47885527 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
47885440 TAACACAGAA
*
47885450 TAAGTATTTAAGCTTAGTAAGTTCATATAACT
1 TAAGAATTTAAGCTTAGTAAGTTCATATAACT
* *
47885482 TAAGCATTTAAGCTTAGTAAGTTCGTATAACT
1 TAAGAATTTAAGCTTAGTAAGTTCATATAACT
47885514 T-AGAATTTAA-CTTA
1 TAAGAATTTAAGCTTA
47885528 CCATTTACTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 4 0.09
31 8 0.19
32 31 0.72
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (32 bp):
TAAGAATTTAAGCTTAGTAAGTTCATATAACT
Found at i:47885942 original size:25 final size:25
Alignment explanation
Indices: 47885887--47885948 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
47885877 GTACATGTAT
*
47885887 GCTCATACGAGC-GATAAACGGTAA
1 GCTCATACGAGCTGATAAACGATAA
*
47885911 GCTCATACGAGCTGAGT-ATCGATAA
1 GCTCATACGAGCTGA-TAAACGATAA
*
47885936 GCTCATAAGAGCT
1 GCTCATACGAGCT
47885949 AAAATCGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.36
25 20 0.61
26 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGCTGATAAACGATAA
Found at i:47889246 original size:22 final size:23
Alignment explanation
Indices: 47889221--47889266 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
47889211 CAACCAAACC
47889221 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
47889243 AATTCATTCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
47889266 A
1 A
47889267 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:47889272 original size:23 final size:23
Alignment explanation
Indices: 47889228--47889272 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
47889218 ACCAATTCAA
*
47889228 CATATTTTCAAGATAAATTCATT
1 CATATTTTCAAGATAAAGTCATT
*
47889251 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
47889273 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATT
Found at i:47894080 original size:39 final size:38
Alignment explanation
Indices: 47894024--47894126 Score: 134
Period size: 39 Copynumber: 2.7 Consensus size: 38
47894014 CGAATATAAT
*
47894024 AATTATAATTACCATAATTATAATAATATTTGACCAAAA
1 AATTATAATTACAATAATTATAATAATATTTGACC-AAA
* * **
47894063 AATTTTAATTACAATAATTATAATAATATTTGATCGTA
1 AATTATAATTACAATAATTATAATAATATTTGACCAAA
* *
47894101 AATTATAATTATAATAACTATAATAA
1 AATTATAATTACAATAATTATAATAA
47894127 GGATTTCGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 24 0.43
39 32 0.57
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTTGACCAAA
Found at i:47895489 original size:14 final size:14
Alignment explanation
Indices: 47895470--47895496 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47895460 CCTTTTAACT
47895470 TAAGCATAACTTCC
1 TAAGCATAACTTCC
47895484 TAAGCATAACTTC
1 TAAGCATAACTTC
47895497 TTAGGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (14 bp):
TAAGCATAACTTCC
Found at i:47895676 original size:34 final size:35
Alignment explanation
Indices: 47895631--47895697 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
47895621 CCTTTATAAA
*
47895631 AAAAAAGATTCTTATTATATCACATGATAATACTT
1 AAAAAAGATTCTTATTATATCACACGATAATACTT
47895666 AAAAAA-ATTCTTATTATATCACACGATAATAC
1 AAAAAAGATTCTTATTATATCACACGATAATAC
47895698 CTACATCGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 25 0.81
35 6 0.19
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.34
Consensus pattern (35 bp):
AAAAAAGATTCTTATTATATCACACGATAATACTT
Found at i:47898583 original size:29 final size:29
Alignment explanation
Indices: 47898519--47898583 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
47898509 TAAATTACAT
47898519 TATTTATATTAATTATATTATAAAAATAA
1 TATTTATATTAATTATATTATAAAAATAA
* * **
47898548 AAATTATATTAATTATA-TATGTTAAATAA
1 TATTTATATTAATTATATTAT-AAAAATAA
47898577 TATTTAT
1 TATTTAT
47898584 GTATTTATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TATTTATATTAATTATATTATAAAAATAA
Found at i:47900853 original size:26 final size:26
Alignment explanation
Indices: 47900822--47900888 Score: 134
Period size: 26 Copynumber: 2.6 Consensus size: 26
47900812 TATTCTGACC
47900822 TACAGCTCGTGTGAGCAAGCCCATTT
1 TACAGCTCGTGTGAGCAAGCCCATTT
47900848 TACAGCTCGTGTGAGCAAGCCCATTT
1 TACAGCTCGTGTGAGCAAGCCCATTT
47900874 TACAGCTCGTGTGAG
1 TACAGCTCGTGTGAG
47900889 TATTGATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (26 bp):
TACAGCTCGTGTGAGCAAGCCCATTT
Found at i:47905415 original size:171 final size:169
Alignment explanation
Indices: 47905182--47905658 Score: 650
Period size: 171 Copynumber: 2.8 Consensus size: 169
47905172 TAATTTATTC
* *
47905182 TACAAAAGATGGAACTTGAACTTGGGACCCTTAACTAAATTTCATGCTTCCACATTTAATAACTA
1 TACAAGAGATGGAACTTGAACTT-GGACCC-CAACTAAATTTCATGCTTCCACA-TTAATAACTA
* *
47905247 ACCATTAGGCAAATTACTTATTTTTGATATATTTTTACATTTTTATTAAGCTAAATTTTGGGATG
63 ACCATTAGGCAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATG
* *
47905312 TTAAGCCTTGGATGGCAACATATTAAAAAAAAT-AAGGGAATTT
128 TTAAGCCTTAGATGGCAACATATT--AAAAAATCAAGAGAATTT
* * ** *
47905355 TGCAAGAGATGGAACTTAAACTTGGACCCCATTTAACTTTCATGCTTCCACCATTAATAACTAAC
1 TACAAGAGATGGAACTTGAACTTGGACCCCAACTAAATTTCATGCTTCCA-CATTAATAACTAAC
**
47905420 CATTAGAAAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTT
65 CATTAGGCAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTT
47905485 AAGCCTTAGATGGCAACATATTAAAAAATCAAGAGAATTT
130 AAGCCTTAGATGGCAACATATTAAAAAATCAAGAGAATTT
* * * * *
47905525 TACAAGAGATGAAACTTGAACTTGAGACCTTCAACTAAAGTTCATGTTTCCATCTTTAATAACTA
1 TACAAGAGATGGAACTTGAACTTG-GACC-CCAACTAAATTTCATGCTTCCA-CATTAATAACTA
* * * * * *
47905590 ATCATTAAGCCAATTCCTTATTTTTGATACATTCCTACATTTTTATTTAGCTAAATTTTGGGATG
63 ACCATTAGGCAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATG
47905655 TTAA
128 TTAA
47905659 AGCTATTTTT
Statistics
Matches: 268, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
169 7 0.03
170 30 0.11
171 115 0.43
172 96 0.36
173 20 0.07
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (169 bp):
TACAAGAGATGGAACTTGAACTTGGACCCCAACTAAATTTCATGCTTCCACATTAATAACTAACC
ATTAGGCAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTTA
AGCCTTAGATGGCAACATATTAAAAAATCAAGAGAATTT
Found at i:47908558 original size:48 final size:47
Alignment explanation
Indices: 47908500--47908594 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 47
47908490 ATTACATTTT
47908500 AAAATAAAATAATACAAATGTATTAAAATCATTAATTA-AAA-ATTTAA
1 AAAATAAAATAATACAAATGTATTAAAATC--TAATTACAAATATTTAA
* * *
47908547 AAAATTAAAATAATACAACTGTGTTAATATCTAATTACAAATATTTAA
1 AAAA-TAAAATAATACAAATGTATTAAAATCTAATTACAAATATTTAA
47908595 TGATTATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
46 6 0.14
47 7 0.17
48 29 0.69
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (47 bp):
AAAATAAAATAATACAAATGTATTAAAATCTAATTACAAATATTTAA
Found at i:47909577 original size:16 final size:17
Alignment explanation
Indices: 47909556--47909589 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47909546 AAATAACATT
*
47909556 TTAAAAA-TAAATTATA
1 TTAAAAATTAAAATATA
47909572 TTAAAAATTAAAATATA
1 TTAAAAATTAAAATATA
47909589 T
1 T
47909590 AAATTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATTAAAATATA
Found at i:47911506 original size:26 final size:26
Alignment explanation
Indices: 47911456--47911507 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
47911446 TAAATAATTA
**
47911456 TAATAAATTTAATTTTTTATATTATT
1 TAATAAATTTAATTTTAAATATTATT
47911482 TAATAAAATTTAATTTTAAAT-TTATT
1 TAAT-AAATTTAATTTTAAATATTATT
47911508 GTATTAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TAATAAATTTAATTTTAAATATTATT
Found at i:47912441 original size:21 final size:21
Alignment explanation
Indices: 47912415--47912459 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
47912405 CAACATCTGA
47912415 TCAAATTTTAAACTAAATTGG
1 TCAAATTTTAAACTAAATTGG
47912436 TCAAATTTTAAACTAAATTGG
1 TCAAATTTTAAACTAAATTGG
47912457 TCA
1 TCA
47912460 TTATGCACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (21 bp):
TCAAATTTTAAACTAAATTGG
Found at i:47916933 original size:3 final size:3
Alignment explanation
Indices: 47916927--47916952 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47916917 TTTTTTTCTT
47916927 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
47916953 TACTAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47917345 original size:7 final size:7
Alignment explanation
Indices: 47917335--47917461 Score: 51
Period size: 7 Copynumber: 17.6 Consensus size: 7
47917325 GGGTTTTATA
47917335 ATTTAGG
1 ATTTAGG
47917342 ATTTAGG
1 ATTTAGG
*
47917349 GTTTAAGG
1 ATTT-AGG
*
47917357 -TTTAAG
1 ATTTAGG
47917363 ATTTAGAG
1 ATTTAG-G
* *
47917371 CTTTATG
1 ATTTAGG
*
47917378 ATTTATG
1 ATTTAGG
* *
47917385 ATTTTGT
1 ATTTAGG
47917392 ATTTAAGGG
1 ATTT-A-GG
* *
47917401 CTTAAGG
1 ATTTAGG
*
47917408 GTTTAGTG
1 ATTTAG-G
*
47917416 ATTCAGG
1 ATTTAGG
47917423 -TTTAGG
1 ATTTAGG
* *
47917429 GTTTAAG
1 ATTTAGG
47917436 ATTTAGAG
1 ATTTAG-G
*
47917444 TTTTAGG
1 ATTTAGG
*
47917451 ATTTAAG
1 ATTTAGG
47917458 ATTT
1 ATTT
47917462 TATATTTAAG
Statistics
Matches: 88, Mismatches: 24, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
6 7 0.08
7 58 0.66
8 20 0.23
9 3 0.03
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (7 bp):
ATTTAGG
Found at i:47917429 original size:102 final size:102
Alignment explanation
Indices: 47917262--47917457 Score: 256
Period size: 102 Copynumber: 1.9 Consensus size: 102
47917252 ATTTTTACGG
* * * *
47917262 TTTAGAGTTTTAGGATTTAGGATTTTTTATTTAAGGGTTTAAGGGTTTAGTGCCTATAGTTTAGG
1 TTTAGAGCTTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAGGGTTTAGTGCATATAGTTTAGG
*
47917327 GTTTTATA-ATTTAG-GATTTAGGGTTTAAGGTTTAAGA
66 G-TTTA-AGATTTAGAGATTTAGGATTTAAGGTTTAAGA
* *
47917364 TTTAGAGCTTTATGATTTATGATTTTGTATTTAAGGGCTTAAGGGTTTAGTG-AT-TCAGGTTTA
1 TTTAGAGCTTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAGGGTTTAGTGCATAT-A-GTTTA
*
47917427 GGGTTTAAGATTTAGAGTTTTAGGATTTAAG
64 GGGTTTAAGATTTAGAGATTTAGGATTTAAG
47917458 ATTTTATATT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
100 2 0.02
101 12 0.15
102 68 0.83
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.46
Consensus pattern (102 bp):
TTTAGAGCTTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAGGGTTTAGTGCATATAGTTTAGG
GTTTAAGATTTAGAGATTTAGGATTTAAGGTTTAAGA
Found at i:47917439 original size:51 final size:50
Alignment explanation
Indices: 47917270--47917439 Score: 134
Period size: 51 Copynumber: 3.3 Consensus size: 50
47917260 GGTTTAGAGT
* * *
47917270 TTTAGGATTTAGGATTTTTTATTTAAGGGTTTAAGGGTTTAGTGCCTATA-G
1 TTTAGGATTTAAGATTTTGTATTTAAGGGTTTAAGGGTTTAGTG-AT-TAGG
* * * *
47917321 TTTAGGGTTTTATA-ATTTAGGATTT-AGGGTTTAA-GGTTTA-AGATTTAGAG
1 TTTA-GGATTTA-AGATTTTGTATTTAAGGGTTTAAGGGTTTAGTGA-TTAG-G
* * *
47917371 CTTTATGATTTATGATTTTGTATTTAAGGGCTTAAGGGTTTAGTGATTCAGG
1 -TTTAGGATTTAAGATTTTGTATTTAAGGGTTTAAGGGTTTAGTGATT-AGG
*
47917423 TTTAGGGTTTAAGATTT
1 TTTAGGATTTAAGATTT
47917440 AGAGTTTTAG
Statistics
Matches: 91, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 21 0.23
51 39 0.43
52 23 0.25
53 4 0.04
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (50 bp):
TTTAGGATTTAAGATTTTGTATTTAAGGGTTTAAGGGTTTAGTGATTAGG
Found at i:47917476 original size:51 final size:51
Alignment explanation
Indices: 47917421--47917533 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 51
47917411 TAGTGATTCA
* *
47917421 GGTTTAGGGTTTA-AGATTT-AGAGTTTTAGGATTTAAGATTTTATATTTAAG
1 GGTTTAGGGATTAGAG-TTTAAGAGTTTAAGG-TTTAAGATTTTATATTTAAG
* * * *
47917472 GGTTTAGTGATTCGAGTTTAAGGGTTTAAGGTTTAAGATTTTGTATTTAAG
1 GGTTTAGGGATTAGAGTTTAAGAGTTTAAGGTTTAAGATTTTATATTTAAG
47917523 GGTTTAAGGGA
1 GGTTT-AGGGA
47917534 GTGTTTATGG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
51 37 0.71
52 15 0.29
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.44
Consensus pattern (51 bp):
GGTTTAGGGATTAGAGTTTAAGAGTTTAAGGTTTAAGATTTTATATTTAAG
Found at i:47917477 original size:22 final size:22
Alignment explanation
Indices: 47917402--47917506 Score: 83
Period size: 22 Copynumber: 4.8 Consensus size: 22
47917392 ATTTAAGGGC
* *
47917402 TTAAGGGTTTAGTGATTCAG-GT
1 TTAAGGGTTTA-AGATTTAGAGT
47917424 TT-AGGGTTTAAGATTTAGAGT
1 TTAAGGGTTTAAGATTTAGAGT
* * *
47917445 TTTAGGATTTAAGATTTTATA-T
1 TTAAGGGTTTAAGA-TTTAGAGT
* *
47917467 TTAAGGGTTTAGTGA-TTCGAGT
1 TTAAGGGTTTA-AGATTTAGAGT
*
47917489 TTAAGGGTTTAAGGTTTA
1 TTAAGGGTTTAAGATTTA
47917507 AGATTTTGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
20 6 0.09
21 16 0.25
22 36 0.55
23 7 0.11
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.45
Consensus pattern (22 bp):
TTAAGGGTTTAAGATTTAGAGT
Found at i:47917498 original size:73 final size:74
Alignment explanation
Indices: 47917337--47917512 Score: 214
Period size: 73 Copynumber: 2.4 Consensus size: 74
47917327 GTTTTATAAT
* * * *
47917337 TTAG-GATTTAGGGTTTAAGGTTTAAGATTTAGAGCTTTATGATTTATGATTTTGTATTTAAGGG
1 TTAGAGATTAAGGGTTTAAGGTTTAAGATTTAGAGCTTTAGGATTTAAGATTTTATATTTAAGGG
*
47917401 CTTAAGGGT
66 CTTAAGGGA
* * * *
47917410 TTAGTGATTCA-GGTTTAGGGTTTAAGATTTAGAGTTTTAGGATTTAAGATTTTATATTTAAGGG
1 TTAGAGATTAAGGGTTTAAGGTTTAAGATTTAGAGCTTTAGGATTTAAGATTTTATATTTAAGGG
* *
47917474 -TTTAGTGA
66 CTTAAGGGA
* *
47917482 TTCGAGTTTAAGGGTTTAAGGTTTAAGATTT
1 TTAGAGATTAAGGGTTTAAGGTTTAAGATTT
47917513 TGTATTTAAG
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
72 12 0.14
73 70 0.80
74 5 0.06
ACGTcount: A:0.27, C:0.02, G:0.26, T:0.45
Consensus pattern (74 bp):
TTAGAGATTAAGGGTTTAAGGTTTAAGATTTAGAGCTTTAGGATTTAAGATTTTATATTTAAGGG
CTTAAGGGA
Found at i:47917941 original size:40 final size:40
Alignment explanation
Indices: 47917850--47918023 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
47917840 AATGTTTTTT
* *
47917850 GCGGCATTTTTCAGAAAGCGCCGCTAATGCTCAAATCTATA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTC-AATCTATA
* **
47917891 GCGGCGTTTTTTAAAAAGCGCTACTAATGCTCAATCTATA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAATCTATA
** *
47917931 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCGGTCTTTA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAATCTATA
** * * *
47917971 GCTACGTTTTTTAAAAAGCGCCTCTAATGCTCGATCTATA
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAATCTATA
*
47918011 GCGACATTTTTTA
1 GCGGCATTTTTTA
47918024 TCCAAATGCC
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 87 0.76
41 27 0.24
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (40 bp):
GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAATCTATA
Found at i:47918011 original size:80 final size:81
Alignment explanation
Indices: 47917850--47918023 Score: 244
Period size: 80 Copynumber: 2.2 Consensus size: 81
47917840 AATGTTTTTT
* * *
47917850 GCGGCATTTTTCAGAAAGCGCCGCTAATGCTCAAATCTATAGCGGCGTTTTTTAAAAAGCGCTAC
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAAATCTATAGCGACGTTTTTTAAAAAGCGCTAC
47917915 TAATGCTCAATCTATA
66 TAATGCTCAATCTATA
** * *
47917931 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTC-GGTCTTTAGCTACGTTTTTTAAAAAGCGCCT-
1 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAAATCTATAGCGACGTTTTTTAAAAAGCG-CTA
*
47917994 CTAATGCTCGATCTATA
65 CTAATGCTCAATCTATA
*
47918011 GCGACATTTTTTA
1 GCGGCATTTTTTA
47918024 TCCAAATGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
80 51 0.61
81 32 0.39
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (81 bp):
GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAAATCTATAGCGACGTTTTTTAAAAAGCGCTAC
TAATGCTCAATCTATA
Found at i:47929411 original size:26 final size:26
Alignment explanation
Indices: 47929379--47929462 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
47929369 AGTTCTAGTA
47929379 ATGGTTATTTGGTGTTTGAGAAGTTG
1 ATGGTTATTTGGTGTTTGAGAAGTTG
*
47929405 ATGGTTAGGTTTGGTAGTTCT----AG-TA
1 ATGGTTA--TTTGGT-GTT-TGAGAAGTTG
*
47929430 ATGGTTATTTGGTGCTTGAGAAGTTG
1 ATGGTTATTTGGTGTTTGAGAAGTTG
47929456 ATGGTTA
1 ATGGTTA
47929463 AAATGTCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 18
0.69 0.04 0.27
Matches are distributed among these distances:
21 1 0.02
22 2 0.04
23 6 0.13
25 10 0.22
26 17 0.37
28 6 0.13
29 3 0.07
30 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.44
Consensus pattern (26 bp):
ATGGTTATTTGGTGTTTGAGAAGTTG
Found at i:47929423 original size:51 final size:51
Alignment explanation
Indices: 47929363--47929462 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
47929353 CTTGAATAGA
*
47929363 TTTGGTAGTTCTAGTAATGGTTATTTGGTGTTTGAGAAGTTGATGGTTAGG
1 TTTGGTAGTTCTAGTAATGGTTATTTGGTGCTTGAGAAGTTGATGGTTAGG
47929414 TTTGGTAGTTCTAGTAATGGTTATTTGGTGCTTGAGAAGTTGATGGTTA
1 TTTGGTAGTTCTAGTAATGGTTATTTGGTGCTTGAGAAGTTGATGGTTA
47929463 AAATGTCATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.45
Consensus pattern (51 bp):
TTTGGTAGTTCTAGTAATGGTTATTTGGTGCTTGAGAAGTTGATGGTTAGG
Found at i:47939409 original size:46 final size:47
Alignment explanation
Indices: 47939356--47939482 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 47
47939346 TGATATGTGT
*
47939356 GCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATT-ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGACGAGA
* *
47939402 GCTAGTGTAAGACATGTCTGGGATATGCATC-G--ACATTGAGACGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT--GACGAGA
*
47939448 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
47939483 TCGAGATATT
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
43 5 0.07
45 1 0.01
46 63 0.90
47 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGACGAGA
Found at i:47944011 original size:10 final size:10
Alignment explanation
Indices: 47943982--47944075 Score: 56
Period size: 10 Copynumber: 9.7 Consensus size: 10
47943972 TATTTAAGCC
47943982 TAAAAA-TTA
1 TAAAAATTTA
47943991 TTAAAATATTTA
1 -TAAAA-ATTTA
47944003 TAAAAATTTA
1 TAAAAATTTA
* *
47944013 -GAAAA-TCA
1 TAAAAATTTA
**
47944021 TAAAAAACTA
1 TAAAAATTTA
*
47944031 T-ATAATTTA
1 TAAAAATTTA
*
47944040 TTAAAATATTA
1 TAAAAAT-TTA
47944051 T-AAAATTTA
1 TAAAAATTTA
*
47944060 -GAAAATTTA
1 TAAAAATTTA
47944069 TAAAAAT
1 TAAAAAT
47944076 ATTGAAAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
8 2 0.03
9 25 0.38
10 26 0.39
11 10 0.15
12 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:47944064 original size:19 final size:20
Alignment explanation
Indices: 47944042--47944120 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 20
47944032 ATAATTTATT
47944042 AAAATATTAT-AAAATTTAG
1 AAAATATTATAAAAATTTAG
47944061 AAAAT-TTATAAAAATATT-G
1 AAAATATTATAAAAAT-TTAG
* * *
47944080 AAAA-ACTATAAAAA-TGAT
1 AAAATATTATAAAAATTTAG
*
47944098 TAAATATTATAAAAATTTAG
1 AAAATATTATAAAAATTTAG
47944118 AAA
1 AAA
47944121 TTATAGAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
17 1 0.02
18 7 0.15
19 32 0.70
20 6 0.13
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATATTATAAAAATTTAG
Found at i:47944066 original size:9 final size:9
Alignment explanation
Indices: 47943998--47944073 Score: 55
Period size: 9 Copynumber: 8.1 Consensus size: 9
47943988 TTATTAAAAT
47943998 ATTTATAAAA
1 ATTTAT-AAA
*
47944008 ATTTAGAAA
1 ATTTATAAA
*
47944017 A-TCATAAAA
1 ATTTAT-AAA
** *
47944026 AACTATATA
1 ATTTATAAA
47944035 ATTTATTAAA
1 ATTTA-TAAA
47944045 ATATTATAAA
1 AT-TTATAAA
*
47944055 ATTTAGAAA
1 ATTTATAAA
47944064 ATTTATAAA
1 ATTTATAAA
47944073 A
1 A
47944074 ATATTGAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
8 2 0.04
9 28 0.55
10 18 0.35
11 3 0.06
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (9 bp):
ATTTATAAA
Found at i:47944067 original size:29 final size:29
Alignment explanation
Indices: 47944037--47944166 Score: 94
Period size: 29 Copynumber: 4.6 Consensus size: 29
47944027 ACTATATAAT
47944037 TTATTAAAATATTATAAAA-TTTAGAAAA
1 TTATTAAAATATTATAAAACTTTAGAAAA
* *
47944065 TTTATAAAAATATTGA-AAAACTATA-AAAA
1 -TTATTAAAATATT-ATAAAACTTTAGAAAA
* *
47944094 TGATT-AAATATTATAAAAATTTAG-AAA
1 TTATTAAAATATTATAAAACTTTAGAAAA
* * *
47944121 TTATAGAAAAGTATT-TAAAATTTTAAAAAA
1 TTAT-TAAAA-TATTATAAAACTTTAGAAAA
*
47944151 GTTATTGAAA-ATTATA
1 -TTATTAAAATATTATA
47944167 TGAAATTATT
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
26 1 0.01
27 20 0.25
28 6 0.08
29 34 0.43
30 14 0.18
31 4 0.05
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (29 bp):
TTATTAAAATATTATAAAACTTTAGAAAA
Found at i:47944075 original size:57 final size:56
Alignment explanation
Indices: 47943982--47944120 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 56
47943972 TATTTAAGCC
* * * * * *
47943982 TAAAAATTATTAAAATATTTATAAAAATTTAGAAAATCA-TAAAAAACTATATAATTTAT
1 TAAATATTA-TAAAA-ATTTA-GAAAATTTAAAAAAT-ATTAAAAAACTATAAAAATGAT
*
47944041 TAAAATATTAT-AAAATTTAGAAAATTTATAAAAATATTGAAAAACTATAAAAATGAT
1 T-AAATATTATAAAAATTTAGAAAATTTA-AAAAATATTAAAAAACTATAAAAATGAT
47944098 TAAATATTATAAAAATTTAGAAA
1 TAAATATTATAAAAATTTAGAAA
47944121 TTATAGAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
56 18 0.26
57 39 0.57
58 3 0.04
59 2 0.03
60 7 0.10
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (56 bp):
TAAATATTATAAAAATTTAGAAAATTTAAAAAATATTAAAAAACTATAAAAATGAT
Found at i:47944150 original size:20 final size:21
Alignment explanation
Indices: 47944112--47944166 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
47944102 TATTATAAAA
*
47944112 ATTTAGAAATTATAGAAAAG-T
1 ATTTA-AAATTATAAAAAAGTT
*
47944133 ATTTAAAATTTTAAAAAAGTT
1 ATTTAAAATTATAAAAAAGTT
*
47944154 ATTGAAAATTATA
1 ATTTAAAATTATA
47944167 TGAAATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (21 bp):
ATTTAAAATTATAAAAAAGTT
Found at i:47945680 original size:22 final size:23
Alignment explanation
Indices: 47945649--47945691 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
47945639 GTAGATTTGT
47945649 TATTCTATTTTAATTATTTTAGC
1 TATTCTATTTTAATTATTTTAGC
*
47945672 TATT-TATTTTAATTGTTTTA
1 TATTCTATTTTAATTATTTTA
47945692 TTTGGCTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (23 bp):
TATTCTATTTTAATTATTTTAGC
Found at i:47947567 original size:93 final size:93
Alignment explanation
Indices: 47947452--47947623 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
47947442 CGCCCATAAG
* *
47947452 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47947517 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
47947545 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
47947610 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
47947624 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:47947620 original size:46 final size:46
Alignment explanation
Indices: 47947445--47947620 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
47947435 TGTAACCCGC
* * *
47947445 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47947491 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
47947537 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47947584 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47947621 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47947639 original size:46 final size:46
Alignment explanation
Indices: 47947453--47947639 Score: 138
Period size: 46 Copynumber: 4.0 Consensus size: 46
47947443 GCCCATAAGC
** * *
47947453 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
*
47947499 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * * *
47947546 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
47947592 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
47947638 GA
1 GA
47947640 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 62 0.55
47 30 0.27
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:47950066 original size:15 final size:15
Alignment explanation
Indices: 47950009--47950088 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
47949999 CAAAGATAAC
*
47950009 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
47950023 AATAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
47950038 GAGAAACCCGGAATA
1 AAGAAATCCAGAATA
47950053 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
47950068 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47950083 AAGAAA
1 AAGAAA
47950089 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 8 0.16
15 42 0.82
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47950097 original size:15 final size:15
Alignment explanation
Indices: 47950020--47950097 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
47950010 AGAAAACCGA
*
47950020 ATAAATAAATCCAAG
1 ATAAAGAAATCCAAG
* **
47950035 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
47950049 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
47950064 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47950080 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47950095 ATA
1 ATA
47950098 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 43 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47953083 original size:46 final size:46
Alignment explanation
Indices: 47953016--47953193 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
47953006 TGTAACCCGC
* *
47953016 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
47953062 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * **
47953108 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
47953155 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
47953194 CTCAACCATC
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
46 73 0.68
47 35 0.32
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:47953138 original size:93 final size:93
Alignment explanation
Indices: 47953023--47953194 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
47953013 CGCCCATAAG
***
47953023 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47953088 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
47953116 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
47953181 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
47953195 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:47955147 original size:33 final size:33
Alignment explanation
Indices: 47955083--47955147 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
47955073 GATACATTTG
* * ***
47955083 AGGCCAATTTGACTAAGTGTCAAATGGAACTAT
1 AGGCCAATTCGACTAAGTGCCAAACAAAACTAT
*
47955116 AGGCCAATTCGACTAAGTGCCGAACAAAACTA
1 AGGCCAATTCGACTAAGTGCCAAACAAAACTA
47955148 CAAGAGAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (33 bp):
AGGCCAATTCGACTAAGTGCCAAACAAAACTAT
Found at i:47957690 original size:18 final size:18
Alignment explanation
Indices: 47957669--47957746 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
47957659 TACGGGTCCT
* *
47957669 CCTGCAAGTACAGATGCA
1 CCTGCAACTACAGATCCA
*
47957687 CCTGCAACTACGGATCCA
1 CCTGCAACTACAGATCCA
* * * *
47957705 CCTACAACAACTGATCCG
1 CCTGCAACTACAGATCCA
* * *
47957723 CCTACAAGTACAGAGCCA
1 CCTGCAACTACAGATCCA
47957741 CCTGCA
1 CCTGCA
47957747 GGTGATGTAG
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.32, C:0.36, G:0.17, T:0.15
Consensus pattern (18 bp):
CCTGCAACTACAGATCCA
Found at i:47959605 original size:81 final size:80
Alignment explanation
Indices: 47959500--47959724 Score: 193
Period size: 81 Copynumber: 2.8 Consensus size: 80
47959490 GAAACCGAAA
* * * * * *
47959500 ATTCCGAAGCAAAGCCGCCGTCACAAGAGTCCCCACCTTTAAAGAAAGAGAGTGAAGAAGCTTCC
1 ATTCTGAAGCAAACCCACCATCACAAGAGT-CCCACCATCAAAGAAAGAGAGTGAAGAAGCTTCC
* *
47959565 AAAAATGAAGTCGAAG
65 AAAAATGAAATCAAAG
* * * * * * *
47959581 -TTCCTGAAGCCAACCCAGCTTCACAAGAAGTTCCACCATCGAAGAAAGATAGTGAAGAAGCTTG
1 ATT-CTGAAGCAAACCCACCATCACAAG-AGTCCCACCATCAAAGAAAGAGAGTGAAGAAGCTTC
*
47959645 CAAAACTGAAATCAAAG
64 CAAAAATGAAATCAAAG
* *** * *
47959662 ATTCTGAAGCAAAGCCACCATCACAAGAAGTTGAACCAGT-AAAGAAAGATAGTGAACAAGCTT
1 ATTCTGAAGCAAACCCACCATCACAAG-AGTCCCACCA-TCAAAGAAAGAGAGTGAAGAAGCTT
47959725 TGAAAACTGT
Statistics
Matches: 117, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
80 2 0.02
81 109 0.93
82 6 0.05
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.16
Consensus pattern (80 bp):
ATTCTGAAGCAAACCCACCATCACAAGAGTCCCACCATCAAAGAAAGAGAGTGAAGAAGCTTCCA
AAAATGAAATCAAAG
Found at i:47959731 original size:81 final size:80
Alignment explanation
Indices: 47959539--47959733 Score: 214
Period size: 81 Copynumber: 2.4 Consensus size: 80
47959529 TCCCCACCTT
* ** * * * * * *
47959539 TAAAGAAAGAGAGTGAAGAAGCTTCCAAAAATGAAGTCGAAGTTCCTGAAGCCAACCCAGCTTCA
1 TAAAGAAAGATAGTGAAGAAGCTTTGAAAACTGAAATCAAAGTTCCTGAAGCAAACCCACCATCA
*
47959604 CAAGAAGTTCCACCA
66 CAAGAAGTTCAACCA
* *
47959619 TCGAAGAAAGATAGTGAAGAAGC-TTGCAAAACTGAAATCAAAGATT-CTGAAGCAAAGCCACCA
1 T-AAAGAAAGATAGTGAAGAAGCTTTG-AAAACTGAAATCAAAG-TTCCTGAAGCAAACCCACCA
*
47959682 TCACAAGAAGTTGAACCA
63 TCACAAGAAGTTCAACCA
*
47959700 GTAAAGAAAGATAGTGAACAAGCTTTGAAAACTG
1 -TAAAGAAAGATAGTGAAGAAGCTTTGAAAACTG
47959734 TTGTCAAGGA
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
80 2 0.02
81 87 0.92
82 6 0.06
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (80 bp):
TAAAGAAAGATAGTGAAGAAGCTTTGAAAACTGAAATCAAAGTTCCTGAAGCAAACCCACCATCA
CAAGAAGTTCAACCA
Found at i:47960428 original size:35 final size:35
Alignment explanation
Indices: 47960387--47960457 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
47960377 GTAAAGAACC
47960387 ATTCAATAAATCATATAAAATCAAACCATTATAGA
1 ATTCAATAAATCATATAAAATCAAACCATTATAGA
47960422 ATTCAATAAATCATATAAAATCAAACCATTATAGA
1 ATTCAATAAATCATATAAAATCAAACCATTATAGA
47960457 A
1 A
47960458 AAAATGCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (35 bp):
ATTCAATAAATCATATAAAATCAAACCATTATAGA
Found at i:47960459 original size:18 final size:18
Alignment explanation
Indices: 47960403--47960459 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
47960393 TAAATCATAT
47960403 AAAATCAAACCATTATAG
1 AAAATCAAACCATTATAG
* * * *
47960421 -AATTCAATA-AATCATAT
1 AAAATCAA-ACCATTATAG
47960438 AAAATCAAACCATTATAG
1 AAAATCAAACCATTATAG
47960456 AAAA
1 AAAA
47960460 AATGCCATAG
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.58, C:0.14, G:0.04, T:0.25
Consensus pattern (18 bp):
AAAATCAAACCATTATAG
Found at i:47968566 original size:29 final size:29
Alignment explanation
Indices: 47968533--47968606 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
47968523 GTTGTGAGAT
* *
47968533 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
47968562 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
47968591 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47968607 CTGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:47970482 original size:40 final size:40
Alignment explanation
Indices: 47970412--47970629 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
47970402 AAACCAAGTA
* * *
47970412 CCTTCGGGATTTAG-TCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
47970451 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47970491 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47970531 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47970571 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47970611 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47970630 TTATCATCCG
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.09
40 152 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47977665 original size:14 final size:14
Alignment explanation
Indices: 47977648--47977677 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47977638 TTAAACCTGG
47977648 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
47977662 ACCAATCCAATTCA
1 ACCAATCCAAATCA
47977676 AC
1 AC
47977678 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:47979704 original size:49 final size:50
Alignment explanation
Indices: 47979624--47979856 Score: 247
Period size: 49 Copynumber: 4.7 Consensus size: 50
47979614 ATCTATTGTG
*
47979624 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
* * * * *
47979674 -GGTCGCATGTGTAGTACTAACTGCAGGCTACTATGCGTACTCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-TT
* * ** * * **
47979724 CGATCATGTGTGTAATACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GGATAATT
* * ** *
47979774 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACAACAAGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
*
47979824 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
47979857 TGCGTACTAG
Statistics
Matches: 148, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 71 0.48
50 43 0.29
51 34 0.23
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
Found at i:47979833 original size:101 final size:98
Alignment explanation
Indices: 47979631--47979866 Score: 255
Period size: 101 Copynumber: 2.4 Consensus size: 98
47979621 GTGAGGTCAC
* *
47979631 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACTAACT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAACT
* ***
47979696 GCAGGCTACTATGCGTACTCGATAACTTCGATCA
66 GCAGGCTACAACAAGTACTCGATAACTTCGA-CA
* ** *
47979730 TGTGTGTAATACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACGTGTGTAGTACTA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAATT-GGTCACATGTGTAGTACTA
* *
47979794 AGTGCAGGCTACAACAAGTAC-CGGATAATTGGTCG-CA
63 ACTGCAGGCTACAACAAGTACTC-GATAACT--TCGACA
* *
47979831 -TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAG
47979867 GTAGCCTTGT
Statistics
Matches: 115, Mismatches: 15, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
99 32 0.28
100 39 0.34
101 41 0.36
103 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAACT
GCAGGCTACAACAAGTACTCGATAACTTCGACA
Found at i:47993695 original size:30 final size:30
Alignment explanation
Indices: 47993659--47993718 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
47993649 TTTAAGAGTA
47993659 GATCATCCATAATTAAGTGGGGTTGCATGC
1 GATCATCCATAATTAAGTGGGGTTGCATGC
47993689 GATCATCCATAATTAAGTGGGGTTGCATGC
1 GATCATCCATAATTAAGTGGGGTTGCATGC
47993719 AATCTTAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (30 bp):
GATCATCCATAATTAAGTGGGGTTGCATGC
Found at i:48001607 original size:33 final size:33
Alignment explanation
Indices: 48001564--48001627 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
48001554 CCCTGTTTAA
**
48001564 GAGTAGATCATCCATAATTAAGTAGAGTTGCGT
1 GAGTAGATCATCCATAATTAAACAGAGTTGCGT
*
48001597 GAGTATATCATCCATAATTAAACAGAGTTGC
1 GAGTAGATCATCCATAATTAAACAGAGTTGC
48001628 ATACAATCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (33 bp):
GAGTAGATCATCCATAATTAAACAGAGTTGCGT
Found at i:48001821 original size:27 final size:27
Alignment explanation
Indices: 48001783--48001837 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
48001773 CTCGAAAGTG
48001783 ATAGTAACATAAATCAGGGATTTCTAC
1 ATAGTAACATAAATCAGGGATTTCTAC
*
48001810 ATAGTAACATAAATTAGGGATTTCTAC
1 ATAGTAACATAAATCAGGGATTTCTAC
48001837 A
1 A
48001838 GATTAAGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (27 bp):
ATAGTAACATAAATCAGGGATTTCTAC
Found at i:48003283 original size:33 final size:33
Alignment explanation
Indices: 48003220--48003283 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
48003210 CCCTTTTTAA
** *
48003220 GAGTAGATCATCCATAATTAAGTAGTGTTGCGT
1 GAGTAGATCATCCATAATTAAACAGAGTTGCGT
*
48003253 GAGTATATCATCCATAATTAAACAGAGTTGC
1 GAGTAGATCATCCATAATTAAACAGAGTTGC
48003284 ATGCAATCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (33 bp):
GAGTAGATCATCCATAATTAAACAGAGTTGCGT
Found at i:48003477 original size:27 final size:27
Alignment explanation
Indices: 48003439--48003492 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
48003429 CTCGAAAGAG
48003439 ATAGTAACATAAATCAGGGATTTCTAC
1 ATAGTAACATAAATCAGGGATTTCTAC
*
48003466 ATAGTAACATAAATTAGGGATTTCTAC
1 ATAGTAACATAAATCAGGGATTTCTAC
48003493 GGATTAAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (27 bp):
ATAGTAACATAAATCAGGGATTTCTAC
Found at i:48018574 original size:483 final size:485
Alignment explanation
Indices: 48017653--48018622 Score: 1504
Period size: 483 Copynumber: 2.0 Consensus size: 485
48017643 CCATGTGGAC
*
48017653 TCTAATACGCTATTTTCCAAGCCCTTAGTCACCCTTTTCTACTACTTGTGCTTAGTGGTTACCAA
1 TCTAATACGCTATTTTCCAAGCCCTTAGTCACCCCTTTCTACTACTTGTGCTTAGTGGTTACCAA
* * *
48017718 ATTCAAAGTAAAACACAATAATACACTTGTAAATAATCTTGATTAAACTAGATGTATGGAAACCT
66 ATTCAAAGTAAAACACAATAATACACTTGTAAATAATCTTAATGAAACTAGATGCATGGAAACCT
*
48017783 CATATCATTGGTTTCATACATGATAGGTTATTTCCCACTTAGTGTTTATGGGTTCCCATGTCACT
131 CATATCATTGGTTTCATACATAATAGGTTATTTCCCACTTAGTGTTTATGGGTTCCCATGTCACT
48017848 TTAATTCATCCGAAATTGGCTCGTTCATGTGACTCATTGCCAATTGGTAACGACCAATCACTTGT
196 TTAATTCATCCGAAATTGGCTCGTTCATGTGACTCATTGCCAATTGGTAACGACCAATCACTTGT
* *
48017913 AAATAAAACCATACATAAATTCCTAGGTCATAGCCTACTTCAATTAAGCCAATTTTCGTAGCCAT
261 AAATAAAACCATACATAAAATCCTAGGTCA-AGCCTACTTCAATTAAGCCAATTTTCATAGCCAT
* * * *
48017978 ATACAAAGAGACAAACATATTCTTACATGCCTTCATTTGGCAAATCAAATAAGACATTTAACAAA
325 ATACAAAGAGACAAACATATTCTTACATGCCTTCACTTCGCAAATCAAATAACACATATAACAAA
48018043 ATACTCAAAAATACTATACATGCCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTTGTCT
390 ATACTCAAAAATACTATACATGCCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTTGTCT
*
48018108 AGTTGATAGTGTGTTGACTCTCCAATCGTCT
455 AGTTGATAGTGTGTTGACTCTCCAATCATCT
* *
48018139 TCTAATAGGCTATTTTCCAAGCCTTTAGTCACCCCTTTCTACTACTTGTGCTTAGTGGTTACCAA
1 TCTAATACGCTATTTTCCAAGCCCTTAGTCACCCCTTTCTACTACTTGTGCTTAGTGGTTACCAA
* * * * ** * * *
48018204 GTTTGAGAG-AAAACATAATTTTACACTTGTAAATAATCTTAATGAAATTAGTTGCATGGAAATC
66 -ATTCAAAGTAAAACACAATAATACACTTGTAAATAATCTTAATGAAACTAGATGCATGGAAACC
*
48018268 TCATATCATTGGTTTCATACATAA-ATGGTTATTTCCC-CTTTAGTG-TTATGGGTTCCCATGTT
130 TCATATCATTGGTTTCATACATAATA-GGTTATTTCCCAC-TTAGTGTTTATGGGTTCCCATGTC
* *
48018330 ACTTTAATTCGTCCGAAATTGGCTCGTTCATGT-AGCTCATTGCCAATTGGTAACGACCCATCAC
193 ACTTTAATTCATCCGAAATTGGCTCGTTCATGTGA-CTCATTGCCAATTGGTAACGACCAATCAC
* * * * *
48018394 TTGTAATTAAAACCATGCATAAAATCGTAGGTC-AGCCTACTT-ATATTGAGCCAATTTTCATGG
257 TTGTAAATAAAACCATACATAAAATCCTAGGTCAAGCCTACTTCA-ATTAAGCCAATTTTCATAG
* * * *
48018457 CCATATACAAAGAGATAAACATATTTTTACATGCCTTTACTTCGCAAATCAAATGACACATATAA
321 CCATATACAAAGAGACAAACATATTCTTACATGCCTTCACTTCGCAAATCAAATAACACATATAA
48018522 CAAAATACTCAAAAATACTATACATGCCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTT
386 CAAAATACTCAAAAATACTATACATGCCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTT
* *
48018587 GTCTAGTTGATAGTGTGTTGATTTTCCAATCATCT
451 GTCTAGTTGATAGTGTGTTGACTCTCCAATCATCT
48018622 T
1 T
48018623 TCAATCCTTT
Statistics
Matches: 442, Mismatches: 37, Indels: 13
0.90 0.08 0.03
Matches are distributed among these distances:
482 1 0.00
483 180 0.41
484 1 0.00
485 107 0.24
486 148 0.33
487 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (485 bp):
TCTAATACGCTATTTTCCAAGCCCTTAGTCACCCCTTTCTACTACTTGTGCTTAGTGGTTACCAA
ATTCAAAGTAAAACACAATAATACACTTGTAAATAATCTTAATGAAACTAGATGCATGGAAACCT
CATATCATTGGTTTCATACATAATAGGTTATTTCCCACTTAGTGTTTATGGGTTCCCATGTCACT
TTAATTCATCCGAAATTGGCTCGTTCATGTGACTCATTGCCAATTGGTAACGACCAATCACTTGT
AAATAAAACCATACATAAAATCCTAGGTCAAGCCTACTTCAATTAAGCCAATTTTCATAGCCATA
TACAAAGAGACAAACATATTCTTACATGCCTTCACTTCGCAAATCAAATAACACATATAACAAAA
TACTCAAAAATACTATACATGCCATTGAACAAAACAAACAAAGTCTTTATACCAAAGCTTGTCTA
GTTGATAGTGTGTTGACTCTCCAATCATCT
Found at i:48019166 original size:26 final size:26
Alignment explanation
Indices: 48019130--48019181 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
48019120 GCTAAATTCA
48019130 GACCCTAATCGGATTACCCGTCTGGG
1 GACCCTAATCGGATTACCCGTCTGGG
48019156 GACCCTAATCGGATTACCCGTCTGGG
1 GACCCTAATCGGATTACCCGTCTGGG
48019182 CTAAATCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (26 bp):
GACCCTAATCGGATTACCCGTCTGGG
Found at i:48020358 original size:9 final size:9
Alignment explanation
Indices: 48020344--48020368 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48020334 TCAAGTTTTG
48020344 CAATTTATT
1 CAATTTATT
48020353 CAATTTATT
1 CAATTTATT
48020362 CAATTTA
1 CAATTTA
48020369 GTCCCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (9 bp):
CAATTTATT
Found at i:48023226 original size:48 final size:48
Alignment explanation
Indices: 48023153--48023419 Score: 174
Period size: 48 Copynumber: 5.6 Consensus size: 48
48023143 CAAGGTAGGG
* * * * *
48023153 TGCCAATTCCATATCCCAAATATGGTCTTACATAGGACCATATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
* * * *
48023201 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA-CA-TA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
* * * * * * *
48023247 TG-GAA-GCCGATAG-CCCAG-CTATGGTCTTACACGATG-TCTCATTATGA
1 TGCCAATGCC-AT-GTCCCAGAC-ATGGTCTTACA-TAGGACCACATAACGA
* * *
48023294 TGCCAATGCCATGTCCCGGACATGGTCTTACATGGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
* * * * **
48023342 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATCACATGTC-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
* *
48023389 CTGCCGAA-GCCATATCCCAGATATGGTCTTA
1 -TGCC-AATGCCATGTCCCAGACATGGTCTTA
48023420 TACGGGAGCT
Statistics
Matches: 174, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
44 4 0.02
45 24 0.14
46 6 0.03
47 7 0.04
48 127 0.73
49 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCACATAACGA
Found at i:48030895 original size:24 final size:24
Alignment explanation
Indices: 48030868--48030914 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
48030858 TTTTTTAAAT
*
48030868 TTGAATTATATAA-TATTAGTATAG
1 TTGAATTATA-AATTAATAGTATAG
*
48030892 TTGACTTATAAATTAATAGTATA
1 TTGAATTATAAATTAATAGTATA
48030915 TGTATAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (24 bp):
TTGAATTATAAATTAATAGTATAG
Found at i:48032534 original size:21 final size:22
Alignment explanation
Indices: 48032501--48032561 Score: 83
Period size: 20 Copynumber: 2.9 Consensus size: 22
48032491 TTCACATCTC
48032501 AAAAAATTATAAAAAAAAC-T-
1 AAAAAATTATAAAAAAAACTTA
*
48032521 AAAGAA-TATATAAAAAAACTTA
1 AAAAAATTATA-AAAAAAACTTA
48032543 AAAAAATTATAAAAAAAAC
1 AAAAAATTATAAAAAAAAC
48032562 ACCTTAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.11
20 13 0.37
21 1 0.03
22 13 0.37
23 4 0.11
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.20
Consensus pattern (22 bp):
AAAAAATTATAAAAAAAACTTA
Found at i:48033998 original size:3 final size:3
Alignment explanation
Indices: 48033990--48034025 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
48033980 ATATAACAAG
48033990 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48034026 CCCTTAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:48038725 original size:21 final size:23
Alignment explanation
Indices: 48038684--48038726 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
48038674 ATTCTATGGA
48038684 AAAATGTGATGAGATAAGTTATT
1 AAAATGTGATGAGATAAGTTATT
*
48038707 AAAATGTGGT-AGA-AAGTTAT
1 AAAATGTGATGAGATAAGTTAT
48038727 CTGTGGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (23 bp):
AAAATGTGATGAGATAAGTTATT
Found at i:48039433 original size:23 final size:23
Alignment explanation
Indices: 48039384--48039433 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
48039374 TTTGATTTGT
* *
48039384 ACTTCGGTACTTTTGTTACTTAC
1 ACTTCAGTACTTTTGTTACTTAA
*
48039407 ACTTCAGTGCTTTTGTT-CTTGAA
1 ACTTCAGTACTTTTGTTACTT-AA
48039430 ACTT
1 ACTT
48039434 TATTATGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (23 bp):
ACTTCAGTACTTTTGTTACTTAA
Found at i:48040159 original size:20 final size:20
Alignment explanation
Indices: 48040134--48040171 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48040124 TTGTAATTAA
48040134 ATATTATT-TAATTATAATGT
1 ATATTATTAT-ATTATAATGT
48040154 ATATTATTATATTATAAT
1 ATATTATTATATTATAAT
48040172 ATTGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATTATTATATTATAATGT
Found at i:48040218 original size:20 final size:18
Alignment explanation
Indices: 48040182--48040218 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
48040172 ATTGTAATTT
48040182 ATATTAATTATAAATAAG
1 ATATTAATTATAAATAAG
48040200 ATATTATATTATGAAATAA
1 ATATTA-ATTAT-AAATAA
48040219 ATCAAATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
ATATTAATTATAAATAAG
Found at i:48040511 original size:18 final size:18
Alignment explanation
Indices: 48040476--48040528 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
48040466 TAAAAGATAT
*
48040476 TTATTAATTAAATAATTA
1 TTATAAATTAAATAATTA
* *
48040494 TTATAAATTATATTATTA
1 TTATAAATTAAATAATTA
*
48040512 TAATATAAAGTAAATAA
1 T--TATAAATTAAATAA
48040529 ATAAAAACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 16 0.59
20 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TTATAAATTAAATAATTA
Found at i:48041004 original size:13 final size:14
Alignment explanation
Indices: 48040983--48041022 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
48040973 ATTTGATTGG
48040983 AAAATGAATTAAA-
1 AAAATGAATTAAAC
*
48040996 AATATGAATTAAAC
1 AAAATGAATTAAAC
48041010 AAAAGTGAATTAA
1 AAAA-TGAATTAA
48041023 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (14 bp):
AAAATGAATTAAAC
Found at i:48051544 original size:30 final size:30
Alignment explanation
Indices: 48051510--48051570 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
48051500 TTGAAAGACT
48051510 AATGTTGTAAGGTTTTAGATATGGAATAGA
1 AATGTTGTAAGGTTTTAGATATGGAATAGA
48051540 AATGTTGTAAGGTTTTAGATATGGAATAGA
1 AATGTTGTAAGGTTTTAGATATGGAATAGA
48051570 A
1 A
48051571 TAAGTTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (30 bp):
AATGTTGTAAGGTTTTAGATATGGAATAGA
Found at i:48054273 original size:5 final size:5
Alignment explanation
Indices: 48054263--48054296 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
48054253 TTATTTATAT
48054263 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAA
48054297 TAAATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TTAAA
Found at i:48054834 original size:23 final size:26
Alignment explanation
Indices: 48054785--48054841 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 26
48054775 AAATATTAAA
*
48054785 TATTTTAATTATTTATAATTTAAATT
1 TATTTTAATTAATTATAATTTAAATT
48054811 TATTTTAA-TAATTA-AA-TTAAATT
1 TATTTTAATTAATTATAATTTAAATT
48054834 TATTTTAA
1 TATTTTAA
48054842 ACTATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 15 0.50
24 2 0.07
25 5 0.17
26 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTTAATTAATTATAATTTAAATT
Found at i:48054835 original size:18 final size:19
Alignment explanation
Indices: 48054795--48054835 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
48054785 TATTTTAATT
*
48054795 ATTT-ATAATTTAAATTTA
1 ATTTAATAATTTAAATTAA
*
48054813 TTTTAATAA-TTAAATTAA
1 ATTTAATAATTTAAATTAA
48054831 ATTTA
1 ATTTA
48054836 TTTTAAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAATAATTTAAATTAA
Found at i:48057995 original size:14 final size:14
Alignment explanation
Indices: 48057976--48058003 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48057966 ATCTAATACT
48057976 AATAGAATAGAAAA
1 AATAGAATAGAAAA
48057990 AATAGAATAGAAAA
1 AATAGAATAGAAAA
48058004 TACTAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:48064183 original size:25 final size:25
Alignment explanation
Indices: 48064135--48064183 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48064125 TCAATTTATT
* *
48064135 TCATAAACAATAAATATCCCTTAAC
1 TCATAAACAATAAATAGCCATTAAC
* *
48064160 TCATAATCACTAAATAGCCATTAA
1 TCATAAACAATAAATAGCCATTAA
48064184 TATGACTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (25 bp):
TCATAAACAATAAATAGCCATTAAC
Found at i:48065470 original size:16 final size:17
Alignment explanation
Indices: 48065449--48065483 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48065439 TTTCATCCTT
*
48065449 TTATTTTTATC-TTTTC
1 TTATTTTAATCATTTTC
48065465 TTATTTTAATCATTTTC
1 TTATTTTAATCATTTTC
48065482 TT
1 TT
48065484 TTCCATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTAATCATTTTC
Found at i:48066870 original size:8 final size:8
Alignment explanation
Indices: 48066857--48066890 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
48066847 AATTTAGTTT
48066857 TTTTTAAA
1 TTTTTAAA
48066865 TTTTTAAA
1 TTTTTAAA
*
48066873 ATTTTAAA
1 TTTTTAAA
48066881 -TTTTAAA
1 TTTTTAAA
48066888 TTT
1 TTT
48066891 GATATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:48066881 original size:7 final size:7
Alignment explanation
Indices: 48066858--48066900 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
48066848 ATTTAGTTTT
48066858 TTTTAAA
1 TTTTAAA
48066865 TTTTTAAAA
1 -TTTT-AAA
48066874 TTTTAAA
1 TTTTAAA
48066881 TTTTAAA
1 TTTTAAA
* *
48066888 TTTGATA
1 TTTTAAA
48066895 TTTTAA
1 TTTTAA
48066901 GAAGTAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 19 0.63
8 8 0.27
9 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (7 bp):
TTTTAAA
Found at i:48071113 original size:19 final size:19
Alignment explanation
Indices: 48071089--48071138 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
48071079 GGACACAGGG
48071089 ACACGCCCGTGTGTCTTCA
1 ACACGCCCGTGTGTCTTCA
*
48071108 ACACGCCCGCGTGTCTTCA
1 ACACGCCCGTGTGTCTTCA
48071127 ACACGCCCGTGT
1 ACACGCCCGTGT
48071139 CCTCAGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.16, C:0.40, G:0.22, T:0.22
Consensus pattern (19 bp):
ACACGCCCGTGTGTCTTCA
Found at i:48073028 original size:48 final size:48
Alignment explanation
Indices: 48072957--48073280 Score: 400
Period size: 48 Copynumber: 6.8 Consensus size: 48
48072947 TAAAGTACCA
** * *
48072957 ATGCCATGTCCCCTACATGGTCTTACA-T-GAATCCATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCCG
* * *
48073005 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * * * *
48073053 ATGCCATGTTCGAGACATGATCTTACACAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * *
48073101 ATGCCATGTCCCAAACATGGTTTTACACTGGCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* * * * *
48073149 ATGCCGTGTCCCAAACATGGTCTTACATTGGCACACATATCATTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* *
48073197 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
* *
48073245 ATGCCATGTCCCATACATGGTCTTACATTGGCACAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
48073281 GTTAACATGG
Statistics
Matches: 237, Mismatches: 37, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
48 234 0.99
49 1 0.00
50 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCG
Found at i:48073272 original size:96 final size:96
Alignment explanation
Indices: 48072957--48073280 Score: 445
Period size: 96 Copynumber: 3.4 Consensus size: 96
48072947 TAAAGTACCA
* * *
48072957 ATGCCATGTCCCCTACATGGTCTTACA-T-GAATCCATATATCATCGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCATACATGGTCTTACATTGGCA--CACATATCATCGCCGATGCCATGTCCCAGA
* *
48073020 CATGGTCTTACACTAGCACACATATCATTGCTG
64 CATGGTCTTACACTGGCACACATATCATCGCTG
* * * * ** * *
48073053 ATGCCATGTTCGAGACATGATCTTACACAGGCACATATATCATCGCCGATGCCATGTCCCAAACA
1 ATGCCATGTCCCATACATGGTCTTACATTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
*
48073118 TGGTTTTACACTGGCACACATATCATCGCTG
66 TGGTCTTACACTGGCACACATATCATCGCTG
* * * *
48073149 ATGCCGTGTCCCAAACATGGTCTTACATTGGCACACATATCATTGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCATACATGGTCTTACATTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
*
48073214 TGGTCTTACACTGGCACACATATCATCACTG
66 TGGTCTTACACTGGCACACATATCATCGCTG
48073245 ATGCCATGTCCCATACATGGTCTTACATTGGCACAC
1 ATGCCATGTCCCATACATGGTCTTACATTGGCACAC
48073281 GTTAACATGG
Statistics
Matches: 200, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
96 198 0.99
98 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCATACATGGTCTTACATTGGCACACATATCATCGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCACACATATCATCGCTG
Found at i:48074599 original size:46 final size:46
Alignment explanation
Indices: 48074511--48074682 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
48074501 TTGTGAGAGC
* * *
48074511 TAGTGTAAGACCATGTCCGGGACATGGCATCGGCATTGAGACGAAGG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGAA-G
48074558 ATAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACG-AAG
* * *
48074604 CCAGTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTACGAGATGATAG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGACGA-AG
*
48074650 TCAGAGTAAGACCATGTCTGGGACATGGCATCG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCG
48074683 ACACCTTACC
Statistics
Matches: 108, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
45 3 0.03
46 61 0.56
47 28 0.26
48 16 0.15
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGAAG
Found at i:48078326 original size:23 final size:24
Alignment explanation
Indices: 48078288--48078332 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
48078278 TTTGCTCTTC
*
48078288 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
*
48078312 TAGCAT-AACTCGTCTTGCCTT
1 TAGCATGAACTCGTCTTACCTT
48078333 ACCTTACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:48078590 original size:55 final size:54
Alignment explanation
Indices: 48078458--48078655 Score: 210
Period size: 55 Copynumber: 3.7 Consensus size: 54
48078448 AACTTACTAT
48078458 TGCCATGTCTTGACATGGTCTTACATG-GTATCCTTGCCTTATGAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATGAACTCACCAA
* * * *
48078511 TGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGAGTATCC-TTGCCTTAT-G-AACTCACCAA
* * *
48078566 TGCCAAGTCTTGACATGGTCTTACATGA-TTTCCTTGCCTTA-GAAACCTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATG-AA-CTCACCAA
* **
48078620 TTGCCATGCCTTGGTATGGTCTTACATG-GTATCCTT
1 -TGCCATGTCTTGACATGGTCTTACATGAGTATCCTT
48078656 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
52 2 0.02
53 38 0.31
54 9 0.07
55 70 0.58
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGTCTTGACATGGTCTTACATGAGTATCCTTGCCTTATGAACTCACCAA
Found at i:48081587 original size:21 final size:21
Alignment explanation
Indices: 48081563--48081615 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
48081553 GCATGTCTAA
* *
48081563 TGGCCATACGGATGTGTCCCT
1 TGGCCACACGGATATGTCCCT
*
48081584 TGGCCACACGGGTATGTCCCT
1 TGGCCACACGGATATGTCCCT
*
48081605 TGACCACACGG
1 TGGCCACACGG
48081616 GCATGTGACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (21 bp):
TGGCCACACGGATATGTCCCT
Found at i:48081616 original size:21 final size:21
Alignment explanation
Indices: 48081577--48081621 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
48081567 CATACGGATG
* *
48081577 TGTCCCTTGGCCACACGGGTA
1 TGTCCCTTGACCACACGGGCA
48081598 TGTCCCTTGACCACACGGGCA
1 TGTCCCTTGACCACACGGGCA
48081619 TGT
1 TGT
48081622 GACCCCAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.33, G:0.27, T:0.24
Consensus pattern (21 bp):
TGTCCCTTGACCACACGGGCA
Found at i:48111897 original size:27 final size:26
Alignment explanation
Indices: 48111844--48111902 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
48111834 CAGAAATAGT
*
48111844 ATCAGGTGGCCTTAGCCCATTAACAGA
1 ATCAGGTGGCCTAAGCCCATT-ACAGA
48111871 ATCAGGTGGGCCTAAGCCCAATT-CAGA
1 ATCAGGT-GGCCTAAGCCC-ATTACAGA
48111898 ATCAG
1 ATCAG
48111903 TGTTAGATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 16 0.55
28 10 0.34
29 3 0.10
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (26 bp):
ATCAGGTGGCCTAAGCCCATTACAGA
Found at i:48115408 original size:30 final size:30
Alignment explanation
Indices: 48115374--48115435 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
48115364 TTCCCGAGCC
48115374 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * * *
48115404 TAGGGGGAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
48115434 TA
1 TA
48115436 AGTTAAGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:48116251 original size:64 final size:63
Alignment explanation
Indices: 48116164--48116335 Score: 175
Period size: 67 Copynumber: 2.7 Consensus size: 63
48116154 AGACATTATG
* * *
48116164 ATGTAGCTAGGTCGTATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCAT-GGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
48116228 ATGTAGCTAGGTCGCATGCGTGATTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATG-GTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
48116293 AA
62 AA
* * * * *
48116295 AT-TGGCTAGGTCACATAGGTGGTACTAAGTGTTCACCATGT
1 ATGTAGCTAGGTCGCAT-GGTGATACTATGTGTACACCATGT
48116336 GTACAACAGA
Statistics
Matches: 87, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
63 10 0.11
64 24 0.28
66 20 0.23
67 33 0.38
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48117608 original size:31 final size:31
Alignment explanation
Indices: 48117570--48117632 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
48117560 TTTTAAATAT
48117570 GAATGCTTGATGATTAAGCTGAAGATATTTG
1 GAATGCTTGATGATTAAGCTGAAGATATTTG
48117601 GAATGCTTGATGATTAAGCTGAAGATATTTG
1 GAATGCTTGATGATTAAGCTGAAGATATTTG
48117632 G
1 G
48117633 TAAGATGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (31 bp):
GAATGCTTGATGATTAAGCTGAAGATATTTG
Found at i:48118648 original size:31 final size:31
Alignment explanation
Indices: 48118610--48118669 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
48118600 TTCACACTTC
*
48118610 ATATTTCATAACACTGGGCCGAAGCCTTTTT
1 ATATTTCATAACACTAGGCCGAAGCCTTTTT
**
48118641 ATATTTCATATTACTAGGCCGAAGCCTTT
1 ATATTTCATAACACTAGGCCGAAGCCTTT
48118670 ACTTAAACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTAGGCCGAAGCCTTTTT
Found at i:48118968 original size:25 final size:24
Alignment explanation
Indices: 48118862--48119007 Score: 188
Period size: 25 Copynumber: 6.0 Consensus size: 24
48118852 GCTTTATCAT
* *
48118862 ATAACTGGAGGCCT-AGCCTCTTTTG
1 ATAACTGG-GGCATAAGCC-CTTTTA
48118887 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
48118910 ATAACTGGGGTATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
48118934 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
* *
48118959 ATAATTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
48118984 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
48119008 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
23 16 0.15
24 40 0.36
25 54 0.49
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:48119081 original size:20 final size:20
Alignment explanation
Indices: 48119056--48119102 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
48119046 TTACGAATAC
48119056 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
48119076 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48119096 ACCATGT
1 ATCATGT
48119103 TTACTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48130308 original size:30 final size:30
Alignment explanation
Indices: 48130274--48130334 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
48130264 TTCCTGAGCC
48130274 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
48130304 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
48130334 T
1 T
48130335 GAGTTAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:48131149 original size:64 final size:64
Alignment explanation
Indices: 48131069--48131240 Score: 193
Period size: 67 Copynumber: 2.7 Consensus size: 64
48131059 AGACATTATG
* *
48131069 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
48131133 ATGTAACTAGGTCGCATGCGTGATTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
48131198 AA
63 AA
* * * * *
48131200 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
48131241 GTACAACAGA
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
63 9 0.10
64 25 0.29
66 20 0.23
67 32 0.37
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48133678 original size:46 final size:44
Alignment explanation
Indices: 48133592--48133714 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 44
48133582 GCATATCTGT
*
48133592 GCCGATGCCATGTCCTAGGCATAGTCTTACACTGACACATCTCGTA-
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGACACATCTCG-AG
*
48133638 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTGAC--ACATCTCGAG
48133684 GCCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCTAGACATGTCTTACACT
48133715 AGCACTCGTC
Statistics
Matches: 72, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
44 12 0.17
45 14 0.19
46 46 0.64
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGACACATCTCGAG
Found at i:48133737 original size:46 final size:46
Alignment explanation
Indices: 48133592--48133811 Score: 166
Period size: 46 Copynumber: 4.7 Consensus size: 46
48133582 GCATATCTGT
* * *
48133592 GCCGATGCCATGTCCTAGGCATAGTCTTACACT-GAC-ACATCTCGTA-
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCCTACATCTC-AAG
* * *
48133638 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCCTACATCTCAAG
* *
48133684 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGC-CTACATCTCAAG
* * * **
48133730 GCTGATGCCATGTTCC-AGACATGGTTTTACACTAGCTCT-CATAAT-GTG
1 GCCGATG-CATG-TCCTAGACAT-GTCTTACACTAGC-CTACAT-CTCAAG
* * *
48133778 GCCGATGCATGTCCCAAACACGTCTTACACTAGC
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGC
48133812 TCACACAAGT
Statistics
Matches: 144, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 74 0.51
47 19 0.13
48 25 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCCTACATCTCAAG
Found at i:48133760 original size:94 final size:92
Alignment explanation
Indices: 48133592--48133816 Score: 219
Period size: 94 Copynumber: 2.4 Consensus size: 92
48133582 GCATATCTGT
* *
48133592 GCCGATGCCATGTCCTAGGCATAGTCTTACACT-G-ACACATCTCGTAGCCGATGCATGTCCTAG
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCTAG
* *
48133655 ACATGTCTTACACTGGCT-TACAT-CTCGAG
64 ACATGTCTTACACTAGCTCT-CATAAT-GAG
* * *
48133684 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCA-ATGCTGATGCCATGTTCC-A
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACACATCTCATA-GCCGATG-CATG-TCCTA
* *
48133747 GACATGGTTTTACACTAGCTCTCATAATGTG
63 GACAT-GTCTTACACTAGCTCTCATAATGAG
* * * *
48133778 GCCGATGCATGTCCCAAACACGTCTTACACTAGCTCACA
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACACA
48133817 CAAGTGACCC
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
90 10 0.09
91 15 0.14
92 20 0.18
93 10 0.09
94 53 0.48
95 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCTAGAC
ATGTCTTACACTAGCTCTCATAATGAG
Found at i:48135716 original size:55 final size:52
Alignment explanation
Indices: 48135608--48135854 Score: 229
Period size: 55 Copynumber: 4.7 Consensus size: 52
48135598 ATTAGGGTTT
* * **
48135608 AAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATG-GCATT-GTAA-G-TTCATAAGGC
* *
48135663 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTG-TAAGTT-C-ATAAGGC
* * * *
48135718 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATT-GTAAGTTCATAAGGC
48135771 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGTAAGTTCAT-AAGGC
* * *
48135820 AAGGATACCACGTAAGACCATGACAAGTCATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
48135855 ATGGAAAGGT
Statistics
Matches: 164, Mismatches: 19, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
48 1 0.01
49 31 0.19
51 1 0.01
52 8 0.05
53 42 0.26
54 10 0.06
55 66 0.40
56 5 0.03
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGTAAGTTCATAAGGC
Found at i:48135814 original size:108 final size:110
Alignment explanation
Indices: 48135615--48135815 Score: 311
Period size: 108 Copynumber: 1.8 Consensus size: 110
48135605 TTTAAGGATA
*
48135615 CCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
48135680 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
** * *
48135725 CCATGTAAGACCATGCCAAGGCATG-GCATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
48135787 ACCATGTCAAGACATGGCAATTG-TAAGTT
65 ACCATGTCAAGACATGGC-ATTGATAAGTT
48135816 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 3 0.04
108 45 0.54
109 11 0.13
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
Found at i:48143242 original size:53 final size:53
Alignment explanation
Indices: 48143059--48143266 Score: 215
Period size: 55 Copynumber: 3.8 Consensus size: 53
48143049 ATTAGGGTTT
* *
48143059 AAGGATACCATGTAAGATCATGCCAATG-CATGGCATTTGGTAAGGTTTC-TAAGGT
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCA-TTGGTAA-G-TTCATAAGGC
* * * * * *
48143114 AAGGAAATCGTGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
48143169 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
48143222 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
48143267 TCAAAAGGAT
Statistics
Matches: 125, Mismatches: 22, Indels: 14
0.78 0.14 0.09
Matches are distributed among these distances:
52 6 0.05
53 43 0.34
54 8 0.06
55 64 0.51
56 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:48143265 original size:108 final size:110
Alignment explanation
Indices: 48143066--48143266 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
48143056 TTTAAGGATA
* * * * *
48143066 CCATGTAAGATCATGCCAATGCATGGCATTTGGTAAGGTTTCTAAGGTAAGGAAATCGTGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
48143131 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGACAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGACAAAGGTC
* *
48143176 CCATGTAAGACCATGCCAAGGCATGGCA-TTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
48143238 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
48143267 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 6 0.07
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCATTTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGACAAAGGTC
Found at i:48148952 original size:41 final size:41
Alignment explanation
Indices: 48148856--48148953 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
48148846 ACACGGCCAG
* **
48148856 ACACACGGGCGTGTGACTGGACCGTGTGAGACACACGGCTA
1 ACACACGGGCGTGTGACTGGACCGAGTGAGACACACAACTA
* * *
48148897 ATAGACGGGTGTGTGACTGGACCGAGTGAGACACACAACTA
1 ACACACGGGCGTGTGACTGGACCGAGTGAGACACACAACTA
*
48148938 ACACACGAGCGTGTGA
1 ACACACGGGCGTGTGA
48148954 TTTGGTCGGT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.33, T:0.15
Consensus pattern (41 bp):
ACACACGGGCGTGTGACTGGACCGAGTGAGACACACAACTA
Found at i:48153497 original size:80 final size:79
Alignment explanation
Indices: 48153392--48153556 Score: 197
Period size: 80 Copynumber: 2.1 Consensus size: 79
48153382 AGCTCCTCCA
* * * *
48153392 TGAGCTAAGGATAAGCTGTGTATCAACATAGCTCCTCCGTGAGCTTATGGACAAGTTGTGTATCA
1 TGAGCTAAGGATAAGCTGTGTATCAACAAAGCTCCTACATGAGC-TAAGGACAAGTTGTGTATCA
*
48153457 ACGAAGATCC-CCTG
65 ACGAAGATCCTCATG
* * * **
48153471 TGAGCTCATGGATAAGCTGTGTATCAATAAAGCTCCTATATGAGCTAAGGGTAAGTTGTGTATCA
1 TGAGCT-AAGGATAAGCTGTGTATCAACAAAGCTCCTACATGAGCTAAGGACAAGTTGTGTATCA
* *
48153536 GCGAAGCTCCTCATG
65 ACGAAGATCCTCATG
48153551 TGAGCT
1 TGAGCT
48153557 TAAGTGATTA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 31 0.43
80 41 0.57
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (79 bp):
TGAGCTAAGGATAAGCTGTGTATCAACAAAGCTCCTACATGAGCTAAGGACAAGTTGTGTATCAA
CGAAGATCCTCATG
Found at i:48153555 original size:40 final size:40
Alignment explanation
Indices: 48153365--48153556 Score: 162
Period size: 40 Copynumber: 4.8 Consensus size: 40
48153355 ACGGTTTTAC
*
48153365 AAGTTGTGTA-CTAGCAAAGCTCCTCCA--TGAGCTAAGGAT
1 AAGTTGTGTATC-AACAAAGCTCCT-CATGTGAGCTAAGGAT
* * * * *
48153404 AAGCTGTGTATCAACATAGCTCCTC-CGTGAGCTTATGGAC
1 AAGTTGTGTATCAACAAAGCTCCTCATGTGAGC-TAAGGAT
* * * *
48153444 AAGTTGTGTATCAACGAAGATCC-CCTGTGAGCTCATGGAT
1 AAGTTGTGTATCAACAAAGCTCCTCATGTGAGCT-AAGGAT
* * * *
48153484 AAGCTGTGTATCAATAAAGCTCCT-ATATGAGCTAAGGGT
1 AAGTTGTGTATCAACAAAGCTCCTCATGTGAGCTAAGGAT
* *
48153523 AAGTTGTGTATCAGCGAAGCTCCTCATGTGAGCT
1 AAGTTGTGTATCAACAAAGCTCCTCATGTGAGCT
48153557 TAAGTGATTA
Statistics
Matches: 121, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 50 0.41
40 70 0.58
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (40 bp):
AAGTTGTGTATCAACAAAGCTCCTCATGTGAGCTAAGGAT
Found at i:48154741 original size:13 final size:13
Alignment explanation
Indices: 48154714--48154747 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
48154704 AGATAACTTT
* *
48154714 AAAAAATAACTTG
1 AAAACATAACATG
48154727 AAAACATAACATG
1 AAAACATAACATG
48154740 AAAACATA
1 AAAACATA
48154748 GTTTATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAACATAACATG
Found at i:48157268 original size:42 final size:43
Alignment explanation
Indices: 48157214--48157317 Score: 140
Period size: 42 Copynumber: 2.4 Consensus size: 43
48157204 ATCGATTTGA
48157214 GATTTACATGTAAGACCATGTCTGGGACATCA-GCATCG-TATTT
1 GATTT-CATGTAAGACCATGTCTGGGACA-CAGGCATCGATATTT
* *
48157257 GATTTCATGTAAGACCCTGTCTGGGACAGAGGCATCGATATTT
1 GATTTCATGTAAGACCATGTCTGGGACACAGGCATCGATATTT
* *
48157300 GATTACAAGTAAGACCAT
1 GATTTCATGTAAGACCAT
48157318 ATCTTGAACG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.02
42 28 0.52
43 25 0.46
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
GATTTCATGTAAGACCATGTCTGGGACACAGGCATCGATATTT
Found at i:48157334 original size:43 final size:43
Alignment explanation
Indices: 48157182--48157334 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 43
48157172 ATTTTGTGTC
* * *
48157182 AGACCATATCTAGGACGTTGGAATCGAT-TTGAGATTTACATGTA
1 AGACCATATCTGGGACGTTGGCATCGATATT-TGA-TTACATGTA
* * ** *
48157226 AGACCATGTCTGGGACATCAGCATCG-TATTTGATTTCATGTA
1 AGACCATATCTGGGACGTTGGCATCGATATTTGATTACATGTA
* * * *
48157268 AGACCCTGTCTGGGACAG-AGGCATCGATATTTGATTACAAGTA
1 AGACCATATCTGGGAC-GTTGGCATCGATATTTGATTACATGTA
* *
48157311 AGACCATATCTTGAACGTTGGCAT
1 AGACCATATCTGGGACGTTGGCAT
48157335 TGTACGAGCT
Statistics
Matches: 86, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 30 0.35
43 34 0.40
44 22 0.26
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
AGACCATATCTGGGACGTTGGCATCGATATTTGATTACATGTA
Found at i:48157688 original size:13 final size:13
Alignment explanation
Indices: 48157670--48157695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48157660 AAGTAATCGT
48157670 ACACGGGCGTGTC
1 ACACGGGCGTGTC
48157683 ACACGGGCGTGTC
1 ACACGGGCGTGTC
48157696 CCTGCAGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:48162778 original size:46 final size:46
Alignment explanation
Indices: 48162728--48162899 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
48162718 TGGTTGAGCA
* *
48162728 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTAAACG
*
48162774 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTG-GATGTAA--A--CG
* * *
48162821 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTAAACG
* *
48162867 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
48162900 AGGGGCGGGG
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
45 1 0.01
46 59 0.55
47 28 0.26
48 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTAAACG
Found at i:48162884 original size:93 final size:93
Alignment explanation
Indices: 48162725--48162895 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
48162715 GGATGGTTGA
* * *
48162725 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
48162790 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
48162818 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
48162883 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48162896 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48163161 original size:19 final size:20
Alignment explanation
Indices: 48163124--48163161 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48163114 ATAAGGTGGT
48163124 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
48163144 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
48163162 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:48169192 original size:13 final size:13
Alignment explanation
Indices: 48169174--48169198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48169164 TAATGGTATA
48169174 TTGAATCCATGAC
1 TTGAATCCATGAC
48169187 TTGAATCCATGA
1 TTGAATCCATGA
48169199 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:48169777 original size:27 final size:26
Alignment explanation
Indices: 48169746--48169923 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
48169736 TAAATTGTAC
48169746 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
48169773 TGCACTAAGTGTGCGAATTGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
48169799 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
48169827 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* * *
48169855 AGCACTAAGTGTGCGATTTAATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
48169882 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
48169909 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48169924 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.79
28 26 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:48169862 original size:82 final size:81
Alignment explanation
Indices: 48169747--48169902 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
48169737 AAATTGTACA
* *
48169747 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAATTGAA-TATG-ATGCACTAAGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCG-ATTGAATTACGTA-GCACTAAGT
48169810 GTGCGAATTGACCATGCG
64 GTGCGAATTGACCATGCG
* *
48169828 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTAATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGATTGAATTACGTAGCACTAAGTG
*
48169893 TGCGAGTTGA
65 TGCGAATTGA
48169903 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 20 0.30
82 46 0.69
83 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGATTGAATTACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48169914 original size:82 final size:81
Alignment explanation
Indices: 48169743--48169923 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
48169733 GATTAAATTG
* *
48169743 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAATTGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAATTGAATACGATGCACTAA
48169808 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
48169824 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTTAATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAATTGAA-TACGAT-GCAC
* **
48169887 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
48169906 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48169924 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 23 0.27
82 61 0.73
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAATTGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48169934 original size:27 final size:27
Alignment explanation
Indices: 48169828--48169934 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
48169818 TGACCATGCG
* * * *
48169828 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
* *
48169856 GCACTAAGTGTGCGA-TTTAAT-TACGTA
1 GCACTAAGTGTGCGAGCTCAATATA--TA
* * *
48169883 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
48169910 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
48169935 CATTCGTGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
25 1 0.02
26 4 0.06
27 39 0.60
28 19 0.29
29 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Done.