Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 74 of 103
Found at i:27650965 original size:17 final size:17
Alignment explanation
Indices: 27650943--27650975 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27650933 ACAAAAATAA
27650943 ATATCATAAAAAGTCAG
1 ATATCATAAAAAGTCAG
*
27650960 ATATCATACAAAGTCA
1 ATATCATAAAAAGTCA
27650976 ATTTCATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (17 bp):
ATATCATAAAAAGTCAG
Found at i:27652353 original size:25 final size:26
Alignment explanation
Indices: 27652314--27652363 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
27652304 TTCTATCACT
27652314 AAATTAAAATGAATTTAAAATAAAAA
1 AAATTAAAATGAATTTAAAATAAAAA
*
27652340 AAATT-AAATTAATTTAAAATAAAA
1 AAATTAAAATGAATTTAAAATAAAA
27652364 GGTTTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (26 bp):
AAATTAAAATGAATTTAAAATAAAAA
Found at i:27654020 original size:13 final size:13
Alignment explanation
Indices: 27654002--27654026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27653992 GGAAAATGAG
27654002 ATTTTATAAAATA
1 ATTTTATAAAATA
27654015 ATTTTATAAAAT
1 ATTTTATAAAAT
27654027 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:27660305 original size:35 final size:35
Alignment explanation
Indices: 27660263--27660330 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
27660253 CCACGTGGCA
*
27660263 TGTTGATGTGTTATCTTGATGACGTCAATGTCATG
1 TGTTGATGTGTCATCTTGATGACGTCAATGTCATG
27660298 TGTTGATGTGTCATCTTGATGACGTCAATGTCA
1 TGTTGATGTGTCATCTTGATGACGTCAATGTCA
27660331 CATGGTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.41
Consensus pattern (35 bp):
TGTTGATGTGTCATCTTGATGACGTCAATGTCATG
Found at i:27660954 original size:19 final size:20
Alignment explanation
Indices: 27660920--27660960 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
27660910 TGTTGTTAGG
27660920 AATGATAACTTCAATTAAGAA
1 AATGATAAC-TCAATTAAGAA
27660941 AATGATAA-TCAATTAAGAA
1 AATGATAACTCAATTAAGAA
27660960 A
1 A
27660961 CAATGGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
21 8 0.40
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (20 bp):
AATGATAACTCAATTAAGAA
Found at i:27661411 original size:27 final size:28
Alignment explanation
Indices: 27661376--27661442 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
27661366 AATTAATATT
27661376 TTAATTATAAATC-ATTAATA-TTGTAAA
1 TTAA-TATAAATCTATTAATATTTGTAAA
27661403 TGTAATATAAA-CTATTAATATTTTGTAAA
1 T-TAATATAAATCTATTAATA-TTTGTAAA
*
27661432 TTAAAATAAAT
1 TTAATATAAAT
27661443 AATCATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 1 0.03
27 14 0.41
28 11 0.32
29 8 0.24
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (28 bp):
TTAATATAAATCTATTAATATTTGTAAA
Found at i:27673109 original size:23 final size:23
Alignment explanation
Indices: 27673083--27673132 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
27673073 TTGTATAATG
*
27673083 AGTTAGGATTCTTAAAATCTTGA
1 AGTTAGGATTCTTAAAATCTGGA
* *
27673106 AGTTAGGATTCTTCAAGTCTGGA
1 AGTTAGGATTCTTAAAATCTGGA
27673129 AGTT
1 AGTT
27673133 GATGTATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (23 bp):
AGTTAGGATTCTTAAAATCTGGA
Found at i:27675529 original size:93 final size:94
Alignment explanation
Indices: 27675378--27675548 Score: 231
Period size: 95 Copynumber: 1.8 Consensus size: 94
27675368 AAAACGTACA
* * * *
27675378 TGAAGTGGAGGATAGGGTTGAGAAAAAATTAATGCAGAATAATAATGATAAGGAGGGGG-TGGTG
1 TGAAGTGGAGGATAGGGTTGAGAAAAAATTAATGAAGAACAATAAAGATAAGGAGGGGGACGGTG
27675442 AAGCTGAATCCTAATGCAAAAAACGAATG
66 AAGCTGAATCCTAATGCAAAAAACGAATG
* *
27675471 TGAAGTGGGGGATTGGGTTGAGAAAAAAAATTAATGAAGAACAATAAAGATAA-G-GGGGGACGG
1 TGAAGTGGAGGATAGGGTTGAG--AAAAAATTAATGAAGAACAATAAAGATAAGGAGGGGGACGG
* *
27675534 TGAAGGTGTATCCTA
64 TGAAGCTGAATCCTA
27675549 CGGCAAAGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
93 25 0.37
94 16 0.24
95 26 0.39
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (94 bp):
TGAAGTGGAGGATAGGGTTGAGAAAAAATTAATGAAGAACAATAAAGATAAGGAGGGGGACGGTG
AAGCTGAATCCTAATGCAAAAAACGAATG
Found at i:27676893 original size:48 final size:48
Alignment explanation
Indices: 27676841--27677015 Score: 165
Period size: 48 Copynumber: 3.5 Consensus size: 48
27676831 ATTAAGTGCT
27676841 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTATATGAC
1 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTATATGAC
* * *** * *
27676889 TGAATATATGTTGAGCGTTGCGTGA-CAATTAATACGTGACTAAATATTACCTGAC
1 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATA-G-G-C--ATTA-TA--TGAC
* * **
27676944 TGAATATTTGTTGAGCATTGCCTGAGTTCTTTATAAGCATTACGTGAC
1 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTATATGAC
27676992 TGAATATTTGTT-AGCATTGCGTGA
1 TGAATATTTGTTGAGCATTGCGTGA
27677016 CAGGCGTTAC
Statistics
Matches: 99, Mismatches: 19, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
47 16 0.16
48 40 0.40
49 1 0.01
50 1 0.01
51 3 0.03
52 3 0.03
53 3 0.03
54 1 0.01
55 26 0.26
56 5 0.05
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (48 bp):
TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTATATGAC
Found at i:27677042 original size:15 final size:15
Alignment explanation
Indices: 27677022--27677053 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27677012 GTGACAGGCG
*
27677022 TTACGTGACTTAATA
1 TTACGTGACTGAATA
27677037 TTACGTGACTGAATA
1 TTACGTGACTGAATA
27677052 TT
1 TT
27677054 TATTAAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (15 bp):
TTACGTGACTGAATA
Found at i:27677086 original size:102 final size:103
Alignment explanation
Indices: 27676841--27677094 Score: 330
Period size: 102 Copynumber: 2.5 Consensus size: 103
27676831 ATTAAGTGCT
** *
27676841 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTATATGACTGAATATATGTTGAGCG
1 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTTGAGCA
**
27676906 TTGCGTGACAATTAATACGTGACTAAATATTACCTGAC
66 TTGCGTGACAAGCAATACGTGACTAAATATTACCTGAC
* * *
27676944 TGAATATTTGTTGAGCATTGCCTGAGTTCTTTATAAGCATTACGTGACTGAATATTTGTT-AGCA
1 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTTGAGCA
* ** * *
27677008 TTGCGTGACAGGCGTTACGTGACTTAATATTACGTGAC
66 TTGCGTGACAAGCAATACGTGACTAAATATTACCTGAC
* * ** * *
27677046 TGAATATTTATTAAGCATTGCGTGACCTATTTGTAGGCATTACGTGACT
1 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACT
27677095 TTATCTACCT
Statistics
Matches: 130, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
102 75 0.58
103 55 0.42
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (103 bp):
TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTTGAGCA
TTGCGTGACAAGCAATACGTGACTAAATATTACCTGAC
Found at i:27677660 original size:30 final size:30
Alignment explanation
Indices: 27677624--27677683 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
27677614 GGAAGTGCCT
27677624 TTGAGTGTGAGGGACCAGTTGCACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
27677654 TTGAGTGTGAGGGACCAGTTGCACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
27677684 CAGCAGGAGA
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:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (30 bp):
TTGAGTGTGAGGGACCAGTTGCACATATTC
Found at i:27678539 original size:111 final size:111
Alignment explanation
Indices: 27678322--27678755 Score: 516
Period size: 111 Copynumber: 3.8 Consensus size: 111
27678312 GGTGCGTGAC
* * * * *
27678322 TGACTTGTACAATTCATGTGTTACTTTA-AGGCTTTTGTTCAATAGTTTTTTAGGCAGTGCATGA
1 TGACTTGTGCAATTCATGTGTT-GTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGC-TTGCGTGA
*
27678386 CTGGTTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
64 CTGGTTTTTATATATTGCGTTACCTATTGTAGCGAGAGTGGTGGCGCG
*
27678434 TGACTTGTGCAATTCATGTGTTGTTCT-GAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTTAC
1 TGACTTGTGCAATTCATGTGTTGTT-TAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGAC
* *
27678498 TGGTTTTTATATATTGCGTTACCTATTGTAGCGTGAGTGGTGACGCG
65 TGGTTTTTATATATTGCGTTACCTATTGTAGCGAGAGTGGTGGCGCG
* * * *
27678545 TGACTTGTGCAATTCATGTGTTATTTAGAGGGTTTTGTTCAGT-GTTTTTTAGGGTTACGTGA-T
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* * * *
27678608 CGATTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCACG
66 -GGTTTTTATATATTGCGTTACC---T-AT-TGTA--GCGAGAGTGGTGGCGCG
* * *
27678662 TGACTTATGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTGCGTTTAC
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCG-TGAC
* * * *
27678727 TAGTTTTTATGTATTACGTGACCTATTGT
65 TGGTTTTTATATATTGCGTTACCTATTGT
27678756 TATATATTGC
Statistics
Matches: 276, Mismatches: 32, Indels: 26
0.83 0.10 0.08
Matches are distributed among these distances:
109 1 0.00
110 38 0.14
111 91 0.33
112 48 0.17
113 1 0.00
114 4 0.01
115 5 0.02
116 1 0.00
117 53 0.19
118 14 0.05
119 19 0.07
120 1 0.00
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.45
Consensus pattern (111 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
GGTTTTTATATATTGCGTTACCTATTGTAGCGAGAGTGGTGGCGCG
Found at i:27678689 original size:117 final size:119
Alignment explanation
Indices: 27678543--27678795 Score: 341
Period size: 119 Copynumber: 2.1 Consensus size: 119
27678533 AGTGGTGACG
* *
27678543 CGTGACTTGTGCAATTCATGTGTTATTTAGAGGGTTTTGTTCAGT-GTTTTTTAGGGTTACGTGA
1 CGTGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTACGT-A
* * * * * *
27678607 T-CGA-TTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCA
65 TACGAGTTTTTATATATTACGTGACCTATTGTTATATATTGCGAGAGCGGTGGCA
* * * *
27678660 CGTGACTTATGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTGCGTTT
1 CGTGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTACGTAT
* *
27678725 ACTAGTTTTTATGTATTACGTGACCTATTGTTATATATTGCGAGAGCGGTGGCA
66 ACGAGTTTTTATATATTACGTGACCTATTGTTATATATTGCGAGAGCGGTGGCA
*
27678779 CGTGAGTTGTGCAATTC
1 CGTGACTTGTGCAATTC
27678796 GCCTCTTGTT
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
117 43 0.37
118 17 0.15
119 57 0.49
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.44
Consensus pattern (119 bp):
CGTGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTACGTAT
ACGAGTTTTTATATATTACGTGACCTATTGTTATATATTGCGAGAGCGGTGGCA
Found at i:27678714 original size:228 final size:223
Alignment explanation
Indices: 27678322--27678755 Score: 592
Period size: 228 Copynumber: 1.9 Consensus size: 223
27678312 GGTGCGTGAC
*
27678322 TGACTTGTACAATTCATGTGTTACTTTAAGGCTTTTGTTCAATAGTTTTTTAGGCAGTGCATGAC
1 TGACTTGTACAATTCATGTGTTACTTTAAGGCTTTTGTTCAATAGTTTTTTAGG-AGTACATGAC
* * *
27678387 TGGTTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCGTGACTTGTGCAATTCATG
65 TGATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCACGTGACTTATGCAATTCATG
* * *
27678452 TGTTGTTCTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCG-TTACTGGTTTTTATATATTGCG
130 TGTTGTTCTGAGGCTTTTGTTCAGTAGTTTTTTAGGATTGCGTTTACTAGTTTTTATATATTACG
*
27678516 TTACCTATTGTAGCGTGAGTGGTGACGCG
195 TGACCTATTGTAGCGTGAGTGGTGACGCG
* * * *
27678545 TGACTTGTGCAATTCATGTGTTA-TTTAGAGGGTTTTGTTCAGT-GTTTTTTAGG-GTTACGTGA
1 TGACTTGTACAATTCATGTGTTACTTTA-AGGCTTTTGTTCAATAGTTTTTTAGGAG-TACATGA
*
27678607 -TCGATTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCACGTGACTTATG
64 CT-GATTTTTATATATTGCGTTACC---TG-T-TGTA--GCGAGAGTGGTGGCACGTGACTTATG
27678671 CAATTCATGTGTTGTT-TAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTGCGTTTACTAGTTTTT
121 CAATTCATGTGTTGTTCT-GAGGCTTTTGTTCAGTAGTTTTTTAGGATTGCGTTTACTAGTTTTT
*
27678735 ATGTATTACGTGACCTATTGT
185 ATATATTACGTGACCTATTGT
27678756 TATATATTGC
Statistics
Matches: 185, Mismatches: 14, Indels: 18
0.85 0.06 0.08
Matches are distributed among these distances:
220 2 0.01
221 26 0.14
222 14 0.08
223 35 0.19
224 2 0.01
225 1 0.01
226 4 0.02
227 1 0.01
228 71 0.38
229 29 0.16
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.45
Consensus pattern (223 bp):
TGACTTGTACAATTCATGTGTTACTTTAAGGCTTTTGTTCAATAGTTTTTTAGGAGTACATGACT
GATTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCACGTGACTTATGCAATTCATGT
GTTGTTCTGAGGCTTTTGTTCAGTAGTTTTTTAGGATTGCGTTTACTAGTTTTTATATATTACGT
GACCTATTGTAGCGTGAGTGGTGACGCG
Found at i:27678792 original size:119 final size:118
Alignment explanation
Indices: 27678543--27678827 Score: 340
Period size: 119 Copynumber: 2.4 Consensus size: 118
27678533 AGTGGTGACG
* * *
27678543 CGTGACTTGTGCAATTCATGTGTTATTTAGAGGGTTTTGTTCAGT-GTTTTTTAGGGTTACGTGA
1 CGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTACGTGA
* * * * * * *
27678607 TCGATTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCA
66 TAGATTTTTATATATTACGTGACCTATTGTTATATATTGCGAGAGCGGTGGCA
* * *
27678660 CGTGACTTATGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTGCGTTT
1 CGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTACG-TG
*
27678725 ACTAG-TTTTTATGTATTACGTGACCTATTGTTATATATTGCGAGAGCGGTGGCA
65 A-TAGATTTTTATATATTACGTGACCTATTGTTATATATTGCGAGAGCGGTGGCA
* *** * * * *
27678779 CGTGAGTTGTGCAATTCGCCTCTTGTTTAGGGGCGTTTGTTCACTAGTT
1 CGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTT
27678828 ATTAGGCATT
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
117 42 0.30
118 14 0.10
119 84 0.59
120 2 0.01
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.44
Consensus pattern (118 bp):
CGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGATTACGTGA
TAGATTTTTATATATTACGTGACCTATTGTTATATATTGCGAGAGCGGTGGCA
Found at i:27686890 original size:23 final size:24
Alignment explanation
Indices: 27686858--27686919 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
27686848 GTATCACATG
*
27686858 AATGAATACAAAA-AATAATATGTA
1 AATG-ATACAAAAGAATAATATGGA
27686882 AATGATACAACAAAGAATAATATGGA
1 AATGATAC-A-AAAGAATAATATGGA
*
27686908 GATGATACAAAA
1 AATGATACAAAA
27686920 TAATGTTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 8 0.24
25 4 0.12
26 17 0.52
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (24 bp):
AATGATACAAAAGAATAATATGGA
Found at i:27686901 original size:26 final size:26
Alignment explanation
Indices: 27686865--27686917 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
27686855 ATGAATGAAT
*
27686865 ACAAAAAATAATATGTAAATGATACA
1 ACAAAAAATAATATGGAAATGATACA
* *
27686891 ACAAAGAATAATATGGAGATGATACA
1 ACAAAAAATAATATGGAAATGATACA
27686917 A
1 A
27686918 AATAATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
ACAAAAAATAATATGGAAATGATACA
Found at i:27688564 original size:24 final size:24
Alignment explanation
Indices: 27688537--27688583 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
27688527 CATCGCCTGC
*
27688537 TAGATCTTCAACTGCATTGACTGT
1 TAGATCTCCAACTGCATTGACTGT
27688561 TAGATCTCCAACTGCATTGACTG
1 TAGATCTCCAACTGCATTGACTG
27688584 CATTTGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (24 bp):
TAGATCTCCAACTGCATTGACTGT
Found at i:27688740 original size:24 final size:24
Alignment explanation
Indices: 27688708--27688753 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
27688698 CTCAGCATGG
*
27688708 GGGGCAGCACCTGAAGTAGGAGGA
1 GGGGCAGCACCAGAAGTAGGAGGA
*
27688732 GGGGCAGCAGCAGAAGTAGGAG
1 GGGGCAGCACCAGAAGTAGGAG
27688754 AAAGAGTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.48, T:0.07
Consensus pattern (24 bp):
GGGGCAGCACCAGAAGTAGGAGGA
Found at i:27690628 original size:23 final size:23
Alignment explanation
Indices: 27690598--27690649 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
27690588 TAAACAATAT
27690598 TCACGCAATAACATAGAAATCAG
1 TCACGCAATAACATAGAAATCAG
* * **
27690621 TCACGCAATGACCTATCAATCAG
1 TCACGCAATAACATAGAAATCAG
27690644 TCACGC
1 TCACGC
27690650 TAAGTTAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.19
Consensus pattern (23 bp):
TCACGCAATAACATAGAAATCAG
Found at i:27692759 original size:17 final size:17
Alignment explanation
Indices: 27692739--27692771 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27692729 TTCTTGATAA
27692739 AATAA-AACTCCTTATTG
1 AATAATAACT-CTTATTG
27692756 AATAATAACTCTTATT
1 AATAATAACTCTTATT
27692772 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAATAACTCTTATTG
Found at i:27693014 original size:59 final size:57
Alignment explanation
Indices: 27692913--27693083 Score: 218
Period size: 59 Copynumber: 2.9 Consensus size: 57
27692903 TTAAGACAAC
* *
27692913 TCTTGTCTTTAATTAAGACAAAAATATTTTATCTTGTCTAAATTGAGACAAATATATTT
1 TCTTGTC-TAAATTAAGACAAAAATATTTT-TCTTGTCTAAATTAAGACAAATATATTT
* * * *
27692972 TCTTGTCTAGATTAAAACAAAAAATATTTTTCTTCTCTTAAATTAAGACAAACATATTT
1 TCTTGTCTAAATTAAGAC-AAAAATATTTTTCTTGTC-TAAATTAAGACAAATATATTT
* *
27693031 TCTTGTCTAAATTAAGACCAAACAT-GTTTTCTTGTCTAAATTAAGACAAATAT
1 TCTTGTCTAAATTAAGA-CAAAAATATTTTTCTTGTCTAAATTAAGACAAATAT
27693084 GTTAAAGCTG
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 16 0.16
58 23 0.24
59 57 0.59
60 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (57 bp):
TCTTGTCTAAATTAAGACAAAAATATTTTTCTTGTCTAAATTAAGACAAATATATTT
Found at i:27693052 original size:29 final size:28
Alignment explanation
Indices: 27692913--27693080 Score: 192
Period size: 29 Copynumber: 5.8 Consensus size: 28
27692903 TTAAGACAAC
*
27692913 TCTTGTCTTTAATTAAGACAAAAATATTTT
1 TCTTGTC-TAAATTAAGACAAAAATA-TTT
* *
27692943 ATCTTGTCTAAATTGAGACAAATATATTT
1 -TCTTGTCTAAATTAAGACAAAAATATTT
* *
27692972 TCTTGTCTAGATTAAAACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAAAATA-TTT
* *
27693002 TCTTCTCTTAAATTAAGACAAACATATTT
1 TCTTGTC-TAAATTAAGACAAAAATATTT
* *
27693031 TCTTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAAAATATTT
27693060 TCTTGTCTAAATTAAGACAAA
1 TCTTGTCTAAATTAAGACAAA
27693081 TATGTTAAAG
Statistics
Matches: 120, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
28 29 0.24
29 45 0.38
30 30 0.25
31 16 0.13
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAAAATATTT
Found at i:27701673 original size:251 final size:252
Alignment explanation
Indices: 27700588--27702390 Score: 1793
Period size: 252 Copynumber: 7.2 Consensus size: 252
27700578 TCGGAGATTG
** * * * * *
27700588 AATGAATAATAGGAAGGCTAAAAGTAATTATAGTGAAAATTAGTAATTGAAAAATCTTGACGTAA
1 AATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATCTTGATGTAA
* * * *
27700653 AGTAATAAGAATTAATGTAAAAATTTATAAAGGTGGAACAAGGATTGTCAAAATATTGACATAAA
66 AGTAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGGATTGTCAAAATATTGACGTAAA
* * *
27700718 TGTGTGAGATTTAACATAACAAGTCAATCAAGTC-AATAAACATAATTTTTG-GAGAAATTAAAC
131 TGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTAGAGA-AAATTAAAC
** * * *
27700781 ATTTAAATTTTTATTCTCGAGTTTAAAGTATGAAACAGTTTATACATTTTAATCTATA
195 ATTTAAATTTTTATTCTCGAGTTTAAAGTATTTAACAGTTTACAAATTTTAATATATA
* * ** ** * * * * *
27700839 AATGAATAATAGTAAGGATAGGAATAATTATAGCAAAAATTAGAAGTTGAAAGACCTTAATGAAA
1 AATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATCTTGATGTAA
* * * *
27700904 AATAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAATAAGTATTGTCAAAATATTGACATAAA
66 AGTAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGGATTGTCAAAATATTGACGTAAA
*
27700969 TGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTAGA-TAAATTAAAC
131 TGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAA-TTTTAGAGAAAATTAAAC
* * * *
27701033 ATTTAAATTTTTATTCTCGAGTTTAAAGTATTTTATATTTTACAAATTTTAATCTATA
195 ATTTAAATTTTTATTCTCGAGTTTAAAGTATTTAACAGTTTACAAATTTTAATATATA
* * * * * * * *
27701091 AATGAATAATAGTAAGGATAAAAATAATTATAATGAAAATTAATAGCTCAAAAATGTTGACGTAA
1 AATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATCTTGATGTAA
* * * * * **
27701156 AGTTGTAAGAATTAATGTAAAAAATTATAAAATGTAGAATAAGGATTGTCAAAATATTGATTTAA
66 AGTAGTAAGAATTAACGTAAAAAATTAT-AAAGGTGGAACAAGGATTGTCAAAATATTGACGTAA
* * * ** *
27701221 ATATGTGAGATTTAACGTAATAAGTCAATTATGAT-AAATAAATTTAATTTTTAG-GAAAATAAA
130 ATGTGTGAGATTTAACATAACAAGTCAATTATG-TCAAATAAACATAA-TTTTAGAGAAAATTAA
* * * * * * *
27701284 ATATTTAAATTTTTATTCTCTAATTTAAAGTATTTTACGGTTTACAAATTTCAATATATG
193 ACATTTAAATTTTTATTCTCGAGTTTAAAGTATTTAACAGTTTACAAATTTTAATATATA
* *
27701344 AATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTT-AAAAACCATTAATGTA
1 AATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATC-TTGATGTA
* * * * * *
27701408 AAGCAATAAGAATTAATGTAAAAAATTATAAAGGTGGTACAAGGCTTGTTAAAATATTGACGTAA
65 AAGTAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGGATTGTCAAAATATTGACGTAA
* * * * *
27701473 ATATGTGAGATTGAATATAATAAGTCATTTATGTCAAATAAACATAATTTTAGAGAAAATTAAAC
130 ATGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTAGAGAAAATTAAAC
* * ** *
27701538 ATTTAAA-TTTTATTTTCGAGTTTAAAGTATGTAACAACTTACAAATTTTAATCTATA
195 ATTTAAATTTTTATTCTCGAGTTTAAAGTATTTAACAGTTTACAAATTTTAATATATA
* * * * * * * *
27701595 AATAAATAACAGTAAAAATAAAAATAACTATAGTGAAAATTATTAGTTGAAAAATGTTGATATAA
1 AATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATCTTGATGTAA
* * * * * * * *
27701660 AGTAGTAAGAATTAACATAAAAAATTATAAAAGTTGAATAAGCAGTGTAAAAATTTTGACGTAAA
66 AGTAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGGATTGTCAAAATATTGACGTAAA
* * * * * *
27701725 TGTGTGAGATATAACATAACAAGTCAATTATGTCAAACAAACATAATTTTTGGGGAAATTAAAAA
131 TGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTAGAGAAAATTAAACA
* * * * * * * * * *
27701790 TTTAAACTTGTATTCTTGAGTTTAATGTATTTTACGGCTGA-ATAATTTTGATATATG
196 TTTAAATTTTTATTCTCGAGTTTAAAGTATTTAACAGTTTACA-AATTTTAATATATA
* * **
27701847 AATGAATAATAATATAGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATGC-AGACATA
1 AATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAAT-CTTGATGTA
** * * ** * *
27701911 AAACAGTAAGAATTAACATAAAAAATTATAAATGTGGAACAAATATTGTTAAAATGTTGACGTAA
65 AAGTAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGGATTGTCAAAATATTGACGTAA
* * ** * * *
27701976 ATGTGTAAGATTTTATGTAAC-AGTCAATTAAGTCAAATAAATATAATTTTTGA-AAAATTAAAC
130 ATGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTAGAGAAAATTAAAC
* * *
27702039 ATTTAAATTTTTATTCTTGAGTTTAAAGTATTTAACGGTTTACAAATTTTAATATATG
195 ATTTAAATTTTTATTCTCGAGTTTAAAGTATTTAACAGTTTACAAATTTTAATATATA
* * * * * * *
27702097 AATAAATAATAATAAGGATAAAAATAATTATAGTGAAAATAAATAGTTAAAAAACCTTAATGTAA
1 AATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATCTTGATGTAA
* * * * * * **
27702162 AATTGTAAGAATTAACGTAAAAAATTATAACGATGGAACTAA-TAATGTCAAAATATTGATATAA
66 AGTAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAAC-AAGGATTGTCAAAATATTGACGTAA
* * * * * * *
27702226 ATGTGTGAGATTTAACGTAATAAGTCGATTAAGTCAAAATAAATAAAATTTTTTGTA-AAAATTA
130 ATGTGTGAGATTTAACATAACAAGTCAATTATGTC-AAATAAACATAA-TTTTAG-AGAAAATTA
* * ** * * * * * *
27702290 AA-ATTTTTAAAATTTTATTATTAAGCTAAAAGTATTTAGCGGTTTATAAATTTTAATTTATA
192 AACA--TTTAAATTTTTATTCTCGAGTTTAAAGTATTTAACAGTTTACAAATTTTAATATATA
* * *
27702352 AATAAATAA-AA-AAATGATAAAAATAATTGTAGTTAAAAT
1 AATGAATAATAATAAA-GATAAAAATAATTATAGTGAAAAT
27702391 CATTATTTAT
Statistics
Matches: 1296, Mismatches: 233, Indels: 43
0.82 0.15 0.03
Matches are distributed among these distances:
249 1 0.00
250 176 0.14
251 393 0.30
252 410 0.32
253 224 0.17
254 35 0.03
255 57 0.04
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (252 bp):
AATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATCTTGATGTAA
AGTAGTAAGAATTAACGTAAAAAATTATAAAGGTGGAACAAGGATTGTCAAAATATTGACGTAAA
TGTGTGAGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTAGAGAAAATTAAACA
TTTAAATTTTTATTCTCGAGTTTAAAGTATTTAACAGTTTACAAATTTTAATATATA
Found at i:27702374 original size:756 final size:752
Alignment explanation
Indices: 27700586--27702395 Score: 2109
Period size: 756 Copynumber: 2.4 Consensus size: 752
27700576 TGTCGGAGAT
** * * * * * *
27700586 TGAATGAATAATAGGAAGGCTAAAAGTAATTATAGTGAAAATTAGTAATTGAAAAATCTTGACGT
1 TGAATGAATAATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTT-AAAAACCTTAATGT
*
27700651 AAAGTAATAAGAATTAATGTAAAAATTTATAAAGGTGGAACAAGGATTGTCAAAATATTGACATA
65 AAAGTAATAAGAATTAATGTAAAAAATTATAAAGGTGGAACAAGGATTGTCAAAATATTGACATA
* * *
27700716 AATGTGTGAGATTTAACATAACAAGTCAATCAAGTC-AATAAACATAATTTTTGGAGAAATTAAA
130 AATGTGTGAGATTTAACATAATAAGTC-ATTAAGTCAAATAAACATAATTTTT-GAAAAATTAAA
* * * * *
27700780 CATTTAAATTTTTATTCTCGAGTTTAAAGTATGAAACAGTTTATACATTTTAATCTATAAATGAA
193 CATTTAAAATTTTATT-TTGAGTTTAAAGTATGTAACAGTTTATAAATTTTAATCTATAAATAAA
* * * ** * ** *
27700845 TAATAGTAAGGATAGGAATAATTATAGCAAAAATTAGAAGTTGAAAGACCTTAATGAAAAATAGT
257 TAACA-AAAAGATAAAAATAATTATAGTAAAAATTATTAGTTGAAAAACCTTAATGAAAAATAGT
* * * * *
27700910 AAGAATTAACGTAAAAAATTATAAAGGTGGAATAAGTATTGTCAAAATATTGACATAAATGTGTG
321 AAGAATTAACATAAAAAATTATAAAAGTGGAATAAGCAGTGTAAAAATATTGACATAAATGTGTG
* * * *
27700975 AGATTTAACATAACAAGTCAATTATGTCAAATAAACATAATTTTTAGATAAATTAAACATTTAAA
386 AGATATAACATAACAAGTCAATTATGTCAAACAAACATAATTTTTAGAGAAATTAAAAATTTAAA
* * * ** * * *
27701040 TTTTTATTCTCGAGTTTAAAGTATTTTATATTTTACAAATTTTAATCTATAAATGAATAATAGTA
451 CTTGTATTCTCGAGTTTAAAGTATTTTACAGCTGACAAATTTTAATATATAAATGAATAATAATA
** * ***
27701105 AGGATAAAAATAATTATAATGAAAATTAATAGCTCAAAAATGTTGACGTAAAGTTGTAAGAATTA
516 AGGATAAAAATAATTATAATGAAAATTAATAGCTCAAAAATGCAGACATAAAACAGTAAGAATTA
** * * ** *
27701170 ATGTAAAAAATTATAAAATGTAGAATAAGGATTGTCAAAATATTGATTTAAATATGTGAGATTTA
581 ACATAAAAAATTATAAAATGTAGAACAAAGATTGTCAAAATATTGACGTAAATATGTAAGATTTA
* * * *
27701235 ACGTAATAAGTCAATTATGATAAATAAATTTAATTTTTAGGAAAATAAAATATTTAAATTTTTAT
646 ACGTAATAAGTCAATTAAGATAAATAAATATAATTTTTAGAAAAATAAAACATTTAAATTTTTAT
*
27701300 TCTCTAATTTAAAGTATTTTACGGTTTACAAATTTCAATATA
711 TCTCTAATTTAAAGTATTTAACGGTTTACAAATTTCAATATA
*
27701342 TGAATGAATAATAATAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTAAAAACCATTAATGT
1 TGAATGAATAATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTAAAAACC-TTAATGT
* * * * *
27701407 AAAGCAATAAGAATTAATGTAAAAAATTATAAAGGTGGTACAAGGCTTGTTAAAATATTGACGTA
65 AAAGTAATAAGAATTAATGTAAAAAATTATAAAGGTGGAACAAGGATTGTCAAAATATTGACATA
* * * * *
27701472 AATATGTGAGATTGAATATAATAAGTCATTTATGTCAAATAAACATAATTTTAGAGAAAATTAAA
130 AATGTGTGAGATTTAACATAATAAGTCA-TTAAGTCAAATAAACATAATTTTTGA-AAAATTAAA
** *
27701537 CATTT-AAATTTTATTTTCGAGTTTAAAGTATGTAACAACTTACAAATTTTAATCTATAAATAAA
193 CATTTAAAATTTTATTTT-GAGTTTAAAGTATGTAACAGTTTATAAATTTTAATCTATAAATAAA
* * ** * *
27701601 TAACAGTAAAA-ATAAAAATAACTATAGTGAAAATTATTAGTTGAAAAATGTTGAT-ATAAAGTA
257 TAACA--AAAAGATAAAAATAATTATAGTAAAAATTATTAGTTGAAAAACCTTAATGA-AAAATA
* * *
27701664 GTAAGAATTAACATAAAAAATTATAAAAGTTGAATAAGCAGTGTAAAAATTTTGACGTAAATGTG
319 GTAAGAATTAACATAAAAAATTATAAAAGTGGAATAAGCAGTGTAAAAATATTGACATAAATGTG
* *
27701729 TGAGATATAACATAACAAGTCAATTATGTCAAACAAACATAATTTTTGGGGAAATTAAAAATTTA
384 TGAGATATAACATAACAAGTCAATTATGTCAAACAAACATAATTTTTAGAGAAATTAAAAATTTA
* * * * *
27701794 AACTTGTATTCTTGAGTTTAATGTATTTTACGGCTGA-ATAATTTTGATATATGAATGAATAATA
449 AACTTGTATTCTCGAGTTTAAAGTATTTTACAGCTGACA-AATTTTAATATATAAATGAATAATA
* * * *
27701858 ATATA-GATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATGCAGACATAAAACAGTAAGA
513 ATA-AGGATAAAAATAATTATAATGAAAATTAATAGCTCAAAAATGCAGACATAAAACAGTAAGA
* * * * *
27701922 ATTAACATAAAAAATTAT-AAATGTGGAACAAATATTGTTAAAATGTTGACGTAAATGTGTAAGA
577 ATTAACATAAAAAATTATAAAATGTAGAACAAAGATTGTCAAAATATTGACGTAAATATGTAAGA
* * * *
27701986 TTTTATGTAA-CAGTCAATTAAG-TCAAATAAATATAATTTTT-GAAAAATTAAACATTTAAATT
642 TTTAACGTAATAAGTCAATTAAGAT-AAATAAATATAATTTTTAGAAAAATAAAACATTTAAATT
* *
27702048 TTTATTCT-TGAGTTTAAAGTATTTAACGGTTTACAAATTTTAATATA
706 TTTATTCTCT-AATTTAAAGTATTTAACGGTTTACAAATTTCAATATA
* * *
27702095 TGAATAAATAATAATAAGGATAAAAATAATTATAGTGAAAATAAATAGTTAAAAAACCTTAATGT
1 TGAATGAATAATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTT-AAAAACCTTAATGT
* ** * * * * * *
27702160 AAAATTGTAAGAATTAACGTAAAAAATTATAACGATGGAACTAA-TAATGTCAAAATATTGATAT
65 AAAGTAATAAGAATTAATGTAAAAAATTATAAAGGTGGAAC-AAGGATTGTCAAAATATTGACAT
* * *
27702224 AAATGTGTGAGATTTAACGTAATAAGTCGATTAAGTCAAAATAAATAAAATTTTTTGTAAAAATT
129 AAATGTGTGAGATTTAACATAATAAGTC-ATTAAGTC-AAATAAACATAA-TTTTTG-AAAAATT
* * * * * * *
27702289 AAA-ATTTTTAAAATTTTATTATTAAGCTAAAAGTATTTAGCGGTTTATAAATTTTAATTTATAA
190 AAACA--TTTAAAATTTTATT-TTGAGTTTAAAGTATGTAACAGTTTATAAATTTTAATCTATAA
* * *
27702353 ATAAATAA-AAAAATGATAAAAATAATTGTAGTTAAAATCATTA
252 ATAAATAACAAAAA-GATAAAAATAATTATAGTAAAAATTATTA
27702396 TTTATTAAAC
Statistics
Matches: 884, Mismatches: 147, Indels: 46
0.82 0.14 0.04
Matches are distributed among these distances:
752 1 0.00
753 191 0.22
754 51 0.06
755 68 0.08
756 491 0.56
757 80 0.09
758 2 0.00
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (752 bp):
TGAATGAATAATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTAAAAACCTTAATGTA
AAGTAATAAGAATTAATGTAAAAAATTATAAAGGTGGAACAAGGATTGTCAAAATATTGACATAA
ATGTGTGAGATTTAACATAATAAGTCATTAAGTCAAATAAACATAATTTTTGAAAAATTAAACAT
TTAAAATTTTATTTTGAGTTTAAAGTATGTAACAGTTTATAAATTTTAATCTATAAATAAATAAC
AAAAAGATAAAAATAATTATAGTAAAAATTATTAGTTGAAAAACCTTAATGAAAAATAGTAAGAA
TTAACATAAAAAATTATAAAAGTGGAATAAGCAGTGTAAAAATATTGACATAAATGTGTGAGATA
TAACATAACAAGTCAATTATGTCAAACAAACATAATTTTTAGAGAAATTAAAAATTTAAACTTGT
ATTCTCGAGTTTAAAGTATTTTACAGCTGACAAATTTTAATATATAAATGAATAATAATAAGGAT
AAAAATAATTATAATGAAAATTAATAGCTCAAAAATGCAGACATAAAACAGTAAGAATTAACATA
AAAAATTATAAAATGTAGAACAAAGATTGTCAAAATATTGACGTAAATATGTAAGATTTAACGTA
ATAAGTCAATTAAGATAAATAAATATAATTTTTAGAAAAATAAAACATTTAAATTTTTATTCTCT
AATTTAAAGTATTTAACGGTTTACAAATTTCAATATA
Found at i:27702691 original size:258 final size:261
Alignment explanation
Indices: 27702205--27702706 Score: 651
Period size: 258 Copynumber: 1.9 Consensus size: 261
27702195 TGGAACTAAT
* * * * *
27702205 AATGTCAAAATATTGATATAAATGTGTGAGATTTAACGTAATAAGTCGATTAAGTCAAAATAAAT
1 AATGTCAAAATATTAATATAAATGTGTGAAATTTAACATAACAAGTCAATTAAGTCAAAATAAAT
* *
27702270 AAAATTTTTTGTAAAAATTAAAATTTTTAAAATTTTATTATTAAGCTAAAAGTATTTAGCGGTTT
66 AAAATTTTTAGTAAAAATTAAAA-TTTTAAAATTTTATTATCAAGCTAAAAGTATTTAGCGGTTT
* *
27702335 ATAAATTTTAATTTATAAATAAATAAAAAAATGATAAAAATAATTGTAGTTAAAATCATTATTTA
130 ATAAATTTTAATTTATAAATAAATAAAAAAA-GATAAAAATAATTGTAGTTAAAATAATTATTAA
*
27702400 TTAAACTAAATTTTTATTATAATATTTATTTAAAAATTTCTCAATGGTTAATAGTTTTTTTACTT
194 TTAAACTAAATTTTTATAATAATATTTATTTAAAAATTTCTCAATGGTTAATAGTTTTTTTACTT
27702465 GAG
259 GAG
* *
27702468 AATGTCAAAATATTAATATAAATGTGTGAAATTTAATATAACAAGTTAATTAAGGT-AAAATAAA
1 AATGTCAAAATATTAATATAAATGTGTGAAATTTAACATAACAAGTCAATTAA-GTCAAAATAAA
** * * * **
27702532 TTTAA-TTTTAGTGAAATTTAAACA-TTT-AAATTTTATTATCGAGCTAAAAGTATTTATTGGTT
65 TAAAATTTTTAGTAAAAATTAAA-ATTTTAAAATTTTATTATCAAGCTAAAAGTATTTAGCGGTT
* * * *
27702594 TATAAATTTTACTTT-TGAAATGAATAATAATAAA-A-ATAAAT-ATTGTTGTTAAAATAATTAT
129 TATAAATTTTAATTTAT-AAATAAATAA-AA-AAAGATAAAAATAATTGTAGTTAAAATAATTAT
* * *
27702655 TAATTAAACTAAATTTTTATAATAATATTTATTTAAATATTTTTTAATGGTT
191 TAATTAAACTAAATTTTTATAATAATATTTATTTAAAAATTTCTCAATGGTT
27702707 TACATTTTTT
Statistics
Matches: 208, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
258 65 0.31
259 6 0.03
260 55 0.26
261 5 0.02
262 17 0.08
263 58 0.28
264 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (261 bp):
AATGTCAAAATATTAATATAAATGTGTGAAATTTAACATAACAAGTCAATTAAGTCAAAATAAAT
AAAATTTTTAGTAAAAATTAAAATTTTAAAATTTTATTATCAAGCTAAAAGTATTTAGCGGTTTA
TAAATTTTAATTTATAAATAAATAAAAAAAGATAAAAATAATTGTAGTTAAAATAATTATTAATT
AAACTAAATTTTTATAATAATATTTATTTAAAAATTTCTCAATGGTTAATAGTTTTTTTACTTGA
G
Found at i:27714078 original size:4 final size:4
Alignment explanation
Indices: 27714032--27714109 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
27714022 CAGTATATAT
* * * *
27714032 ATAC ATAC A-AT ATAC ATAT ATAT ATAC --AC ACAC ATAC GTATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --ATAC ATAC
*
27714079 ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
27714110 TATATAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
2 2 0.03
3 2 0.03
4 54 0.87
6 4 0.06
ACGTcount: A:0.49, C:0.22, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:27715191 original size:2 final size:2
Alignment explanation
Indices: 27715186--27715214 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27715176 AGATATAGAT
27715186 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
27715215 TACATACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:27722601 original size:3 final size:3
Alignment explanation
Indices: 27722593--27722629 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
27722583 GAGACCAAGA
*
27722593 ATG ATG ATG ATG ATG ATG ATG ATG ATG CTG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
27722630 GGAAAGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:27735155 original size:19 final size:19
Alignment explanation
Indices: 27735131--27735167 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27735121 CTTCTAAACT
*
27735131 TCAAATCGTACTCCAATAC
1 TCAAATCATACTCCAATAC
27735150 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
27735168 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.03, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:27743098 original size:15 final size:17
Alignment explanation
Indices: 27743060--27743099 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
27743050 GTTATTTTTA
*
27743060 TTTATTTTTATAATTAG
1 TTTATTTTTATAATGAG
27743077 TTTATTTTTA-AATGAG
1 TTTATTTTTATAATGAG
27743093 -TTATTTT
1 TTTATTTT
27743100 AATTTTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 5 0.23
17 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (17 bp):
TTTATTTTTATAATGAG
Found at i:27744453 original size:21 final size:21
Alignment explanation
Indices: 27744426--27744475 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
27744416 AACTTTTAAA
27744426 CAAGTAAATGAATCAAACAATT
1 CAAGTAAATGAATC-AACAATT
*
27744448 -AAGTAAATTAATCAACAATT
1 CAAGTAAATGAATCAACAATT
27744468 CAAGTAAA
1 CAAGTAAA
27744476 AAAGCATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (21 bp):
CAAGTAAATGAATCAACAATT
Found at i:27770729 original size:53 final size:55
Alignment explanation
Indices: 27770622--27770731 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 55
27770612 ATTTCCAACG
*
27770622 AAAATTTCATGAGAAATTTTTCAACGGAATTTCGTGGGAAATGCTTTGCTAATGA
1 AAAATTTCATGAGAAATTTTTCAACGGAATTTCGTGGGAAATGCTTTGCCAATGA
* *
27770677 AAAATTTCATTGA-AAA-TTTTCAA-GGAATTTTGTTGGAAATGCTTCT-CCAATGA
1 AAAATTTCA-TGAGAAATTTTTCAACGGAATTTCGTGGGAAATGCTT-TGCCAATGA
27770730 AA
1 AA
27770732 CATTGTGTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
53 27 0.54
54 8 0.16
55 12 0.24
56 3 0.06
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.35
Consensus pattern (55 bp):
AAAATTTCATGAGAAATTTTTCAACGGAATTTCGTGGGAAATGCTTTGCCAATGA
Found at i:27770747 original size:53 final size:54
Alignment explanation
Indices: 27770622--27770748 Score: 136
Period size: 53 Copynumber: 2.4 Consensus size: 54
27770612 ATTTCCAACG
*
27770622 AAAATTTCA-TGAGAAATTTTTCAACGGAATTTCGTGGGAAATGCTTTGCTAATGA
1 AAAATTTCATTG-GAAA-TTTTCAACGGAATTTCGTGGGAAATGCTTTGCCAATGA
* * *
27770677 AAAATTTCATTGAAAATTTTCAA-GGAATTTTGTTGGAAATGCTTCT-CCAATGA
1 AAAATTTCATTGGAAATTTTCAACGGAATTTCGTGGGAAATGCTT-TGCCAATGA
* *
27770730 AACATTGT-GTTGGAAATTT
1 AAAATT-TCATTGGAAATTT
27770749 CCCACAGAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
53 39 0.63
54 9 0.15
55 12 0.19
56 2 0.03
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (54 bp):
AAAATTTCATTGGAAATTTTCAACGGAATTTCGTGGGAAATGCTTTGCCAATGA
Found at i:27777271 original size:2 final size:2
Alignment explanation
Indices: 27777264--27777313 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
27777254 NNNNNNNNNN
27777264 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
27777306 AT AC AT AT
1 AT AT AT AT
27777314 TTGCGTGTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27782286 original size:19 final size:19
Alignment explanation
Indices: 27782262--27782303 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
27782252 AATAAATATT
27782262 TTAATATAA-ATTATAAAAA
1 TTAATATAATATT-TAAAAA
27782281 TTAATATAATATTTAAAAA
1 TTAATATAATATTTAAAAA
27782300 TTAA
1 TTAA
27782304 ATTACAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAATATAATATTTAAAAA
Found at i:27782446 original size:22 final size:23
Alignment explanation
Indices: 27782421--27782482 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 23
27782411 AAAATAATCA
27782421 TATTAATATTTTAAT-TATAAAC
1 TATTAATATTTTAATATATAAAC
*
27782443 TATTAATATTTTAATGAAATATAAAT
1 TATTAATATTTTAAT---ATATAAAC
27782469 TATTAATATTTTAA
1 TATTAATATTTTAA
27782483 AAATAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
22 15 0.43
26 20 0.57
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTAATATTTTAATATATAAAC
Found at i:27782466 original size:87 final size:90
Alignment explanation
Indices: 27782375--27782575 Score: 227
Period size: 92 Copynumber: 2.2 Consensus size: 90
27782365 AATTTTTAAT
27782375 TATAAATTTTTAATATTTT-AAAATAAAGAATAAAA-T-A-AAATAATCATA-TTAATATTTT-A
1 TATAAATTTTTAATATTTTAAAAAT-AA-AATAAAAGTAACAAATAATCATATTTAA-ATTTTAA
* *
27782434 ATTATAAACTATTAATATTTTAATGA-AA
63 ATAATAAACTAATAATATTTTAAT-ATAA
*
27782462 TATAAATTATTAATATTTTAAAAATAAAATAAAAGTAAACTAAATAATCATATTTAAATTTTAAA
1 TATAAATTTTTAATATTTTAAAAATAAAATAAAAGT-AAC-AAATAATCATATTTAAATTTTAAA
** *
27782527 TAATAATTTAATAATATTTTAATATAT
64 TAATAAACTAATAATATTTTAATATAA
* *
27782554 TATAAAATTTAAATATTTTAAA
1 TATAAATTTTTAATATTTTAAA
27782576 TTCAAATTCA
Statistics
Matches: 96, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
86 7 0.07
87 21 0.22
88 5 0.05
89 1 0.01
91 17 0.18
92 45 0.47
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (90 bp):
TATAAATTTTTAATATTTTAAAAATAAAATAAAAGTAACAAATAATCATATTTAAATTTTAAATA
ATAAACTAATAATATTTTAATATAA
Found at i:27782489 original size:22 final size:22
Alignment explanation
Indices: 27782411--27782489 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
27782401 AGAATAAAAT
*
27782411 AAAATAATCATATTAATATTTTA
1 AAAATAAAC-TATTAATATTTTA
**
27782434 ATTATAAACTATTAATATTTTAA
1 AAAATAAACTATTAATATTTT-A
*
27782457 TGAAATATAAATTATTAATATTTTA
1 --AAA-ATAAACTATTAATATTTTA
27782482 AAAATAAA
1 AAAATAAA
27782490 ATAAAAGTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
22 17 0.37
23 10 0.22
25 2 0.04
26 17 0.37
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (22 bp):
AAAATAAACTATTAATATTTTA
Found at i:27787740 original size:21 final size:21
Alignment explanation
Indices: 27787716--27787757 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27787706 GGATTTCATG
27787716 TATCAATACTTGCTCATCAAA
1 TATCAATACTTGCTCATCAAA
* * *
27787737 TATCAGTACTTGTTCTTCAAA
1 TATCAATACTTGCTCATCAAA
27787758 AAATTTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.38
Consensus pattern (21 bp):
TATCAATACTTGCTCATCAAA
Found at i:27806866 original size:35 final size:34
Alignment explanation
Indices: 27806787--27806875 Score: 85
Period size: 35 Copynumber: 2.6 Consensus size: 34
27806777 GTTTTACTAT
*
27806787 TATTTTCATTTTATTT-T-ATTATTTTTTTATCA
1 TATTTACATTTTATTTCTAATTATTTTTTTATCA
* *
27806819 TATTTTCTATTTTATTTCTAATTATTATTTTT-TCG
1 TATTTAC-ATTTTATTTCTAATTATT-TTTTTATCA
*
27806854 TACTTTACATTTTTTATTCTAA
1 TA-TTTACATTTTAT-TTCTAA
27806876 GTTACTCTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
32 7 0.15
33 9 0.19
34 1 0.02
35 16 0.33
36 15 0.31
ACGTcount: A:0.22, C:0.09, G:0.01, T:0.67
Consensus pattern (34 bp):
TATTTACATTTTATTTCTAATTATTTTTTTATCA
Found at i:27806980 original size:17 final size:20
Alignment explanation
Indices: 27806946--27806993 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
27806936 GTGAACAAAA
*
27806946 ATTTTATTATACTATTTTTT
1 ATTTTATTATACTATTTTAT
27806966 ATTTTA-TATA-T-TTTTAT
1 ATTTTATTATACTATTTTAT
27806983 ATTTTAATTAT
1 ATTTT-ATTAT
27806994 TATTATATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.40
18 2 0.08
19 7 0.28
20 6 0.24
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTATTATACTATTTTAT
Found at i:27806994 original size:17 final size:17
Alignment explanation
Indices: 27806952--27807001 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
27806942 AAAAATTTTA
27806952 TTATACTATTTTT-TATT
1 TTATA-TATTTTTATATT
27806969 TTATATATTTTTATATT
1 TTATATATTTTTATATT
*
27806986 TTA-ATTATTATTATAT
1 TTATA-TATTTTTATAT
27807002 GTTTTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATATATTTTTATATT
Found at i:27809111 original size:77 final size:76
Alignment explanation
Indices: 27809000--27809525 Score: 641
Period size: 77 Copynumber: 6.9 Consensus size: 76
27808990 TTAAATGAGG
* * * **
27809000 CTCCTCAAAGTTGAGGTAACGTAACTTAAAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTT
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTT
27809065 TTAAAAATGAA
66 TTAAAAATGAA
* * * ** **
27809076 CTCCTCAAAGTTAAGGCAACGAGACTTTTTAAAAATGAACTCCTCAAAATTGAGGCAATAAAACT
1 CTCCTCAAAGCTGAGGCAACGAAAC-TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC-
27809141 TTTTAAAAAATGAA
64 TTTT-AAAAATGAA
* * *
27809155 CTCCTCAAAGCTGAGACAACGAAACTTTTAAAAAATGAACTCCTCAAAGCTGAGGCAATGTAACT
1 CTCCTCAAAGCTGAGGCAACGAAACTTTT-AAAAATGAACTCCTCAAAGCTGAGGCAACGAAACT
**
27809220 TAAAAAAATGAA
65 TTTAAAAATGAA
* * * *
27809232 CTCCTCACAGCTGAGGCAACGAAACTTTTAAAAATAAAACTCCCCAAAGCTGAGACAACGAAACT
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAAT-GAACTCCTCAAAGCTGAGGCAACGAAAC-
*
27809297 TCTTTAAACA--AA
64 T-TTTAAAAATGAA
* * **
27809309 CTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAGATGAGATAACGAAACTT
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTT
27809374 TT-AAAATGAA
66 TTAAAAATGAA
*
27809384 CTCCTCAAAGCTGAGGCAACGAAACTTTT-AAAATGAACTCCTCAAAGCTAAGGCAACGAAACTT
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTT
27809448 TTAAAAATGAA
66 TTAAAAATGAA
* ** * *
27809459 CTCCTCAAAACTGAGG-ACACGAAACTTTT-TTAATGAACTCCTCAAAACTGAGGTAACGAAACC
1 CTCCTCAAAGCTGAGGCA-ACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAA-C
27809522 TTTT
64 TTTT
27809526 TTCTTTTGTG
Statistics
Matches: 390, Mismatches: 48, Indels: 24
0.84 0.10 0.05
Matches are distributed among these distances:
73 3 0.01
74 37 0.09
75 92 0.24
76 56 0.14
77 126 0.32
78 11 0.03
79 65 0.17
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.23
Consensus pattern (76 bp):
CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTT
TTAAAAATGAA
Found at i:27809389 original size:37 final size:38
Alignment explanation
Indices: 27809000--27809525 Score: 641
Period size: 38 Copynumber: 13.8 Consensus size: 38
27808990 TTAAATGAGG
* * * **
27809000 CTCCTCAAAGTTGAGGTAACGTAACTTAAAAAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAA
27809038 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAA
* * *
27809076 CTCCTCAAAGTTAAGGCAACGAGACTTTTTAAAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAAC-TTTTAAAAATGAA
** **
27809115 CTCCTCAAAATTGAGGCAATAAAACTTTTTAAAAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAAC-TTTT-AAAAATGAA
*
27809155 CTCCTCAAAGCTGAGACAACGAAACTTTTAAAAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAACTTTT-AAAAATGAA
* * **
27809194 CTCCTCAAAGCTGAGGCAATGTAACTTAAAAAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAA
* *
27809232 CTCCTCACAGCTGAGGCAACGAAACTTTTAAAAATAAAA
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAAT-GAA
* * *
27809271 CTCCCCAAAGCTGAGACAACGAAACTTCTTTAAACA--AA
1 CTCCTCAAAGCTGAGGCAACGAAAC-T-TTTAAAAATGAA
*
27809309 CTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAA
* **
27809347 CTCCTCAAAGATGAGATAACGAAACTTTT-AAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAA
27809384 CTCCTCAAAGCTGAGGCAACGAAACTTTT-AAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAA
*
27809421 CTCCTCAAAGCTAAGGCAACGAAACTTTTAAAAATGAA
1 CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAA
* **
27809459 CTCCTCAAAACTGAGG-ACACGAAACTTTT-TTAATGAA
1 CTCCTCAAAGCTGAGGCA-ACGAAACTTTTAAAAATGAA
* *
27809496 CTCCTCAAAACTGAGGTAACGAAACCTTTT
1 CTCCTCAAAGCTGAGGCAACGAAA-CTTTT
27809526 TTCTTTTGTG
Statistics
Matches: 428, Mismatches: 49, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
36 7 0.02
37 100 0.23
38 184 0.43
39 100 0.23
40 30 0.07
41 7 0.02
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.23
Consensus pattern (38 bp):
CTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAA
Found at i:27816884 original size:14 final size:14
Alignment explanation
Indices: 27816865--27816896 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
27816855 GAAGCAATGT
27816865 ATCAAGAGCTTGTC
1 ATCAAGAGCTTGTC
27816879 ATCAAGAGCTTGTC
1 ATCAAGAGCTTGTC
27816893 ATCA
1 ATCA
27816897 TGGGCATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (14 bp):
ATCAAGAGCTTGTC
Found at i:27821342 original size:11 final size:11
Alignment explanation
Indices: 27821328--27821399 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 11
27821318 CTATTTTTTG
27821328 TTTTATTATTA
1 TTTTATTATTA
27821339 TTTTTATT-TTA
1 -TTTTATTATTA
27821350 TTTTATTATT-
1 TTTTATTATTA
27821360 TTTTAATCATATT-
1 TTTT-AT--TATTA
*
27821373 TTCTATT-TTA
1 TTTTATTATTA
27821383 TTTCTAATTATTA
1 TTT-T-ATTATTA
27821396 TTTT
1 TTTT
27821400 TTCGTCCTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
9 2 0.04
10 14 0.28
11 8 0.16
12 13 0.26
13 13 0.26
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:27821353 original size:22 final size:21
Alignment explanation
Indices: 27821323--27821363 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
27821313 ATTGTCTATT
*
27821323 TTTTGTTTTATTATTATTTTTA
1 TTTTATTTTATTATT-TTTTTA
27821345 TTTTATTTTATTATTTTTT
1 TTTTATTTTATTATTTTTT
27821364 AATCATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTATTTTATTATTTTTTTA
Found at i:27821400 original size:19 final size:20
Alignment explanation
Indices: 27821331--27821400 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
27821321 TTTTTTGTTT
27821331 TATTATTATTTTTATTT-TA
1 TATTATTATTTTTATTTCTA
* *
27821350 TTTTATTATTTTT-TAATC-A
1 TATTATTATTTTTAT-TTCTA
*
27821369 TATT-TTCTATTTTATTTCTA
1 TATTATTAT-TTTTATTTCTA
27821389 -ATTATTATTTTT
1 TATTATTATTTTT
27821401 TCGTCCTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 4 0.10
19 30 0.77
20 5 0.13
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
TATTATTATTTTTATTTCTA
Found at i:27821526 original size:15 final size:14
Alignment explanation
Indices: 27821497--27821570 Score: 66
Period size: 13 Copynumber: 5.3 Consensus size: 14
27821487 TGAACAAAAA
27821497 TTTTATTAT-TATT
1 TTTTATTATATATT
27821510 TTTTATTATACTATT
1 TTTTATTATA-TATT
27821525 TTTTATTTTATATATT
1 TTTTA--TTATATATT
*
27821541 TTTATATT-T-TAAT
1 TTT-TATTATATATT
*
27821554 TATTATTATAT-TT
1 TTTTATTATATATT
27821567 TTTT
1 TTTT
27821571 GTAAGCAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
12 4 0.08
13 19 0.38
14 2 0.04
15 11 0.22
16 7 0.14
17 7 0.14
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTATATATT
Found at i:27821535 original size:17 final size:16
Alignment explanation
Indices: 27821496--27821551 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
27821486 GTGAACAAAA
27821496 ATTTTAT-TATTATTTT
1 ATTTTATATATT-TTTT
27821512 -TTATTATACTATTTTTT
1 ATT-TTATA-TATTTTTT
27821529 ATTTTATATATTTTTAT
1 ATTTTATATATTTTT-T
27821546 ATTTTA
1 ATTTTA
27821552 ATTATTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.06
16 11 0.31
17 16 0.46
18 6 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTATATATTTTTT
Found at i:27821548 original size:8 final size:8
Alignment explanation
Indices: 27821521--27821568 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
27821511 TTTATTATAC
27821521 TATTTTT-
1 TATTTTTA
27821528 TATTTTATA
1 TATTTT-TA
27821537 TATTTTTA
1 TATTTTTA
*
27821545 TATTTTAA
1 TATTTTTA
*
27821553 TTATTATTA
1 -TATTTTTA
27821562 TATTTTT
1 TATTTTT
27821569 TTGTAAGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
7 6 0.18
8 16 0.47
9 12 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TATTTTTA
Found at i:27821557 original size:17 final size:15
Alignment explanation
Indices: 27821502--27821567 Score: 69
Period size: 17 Copynumber: 4.1 Consensus size: 15
27821492 AAAAATTTTA
27821502 TTATTATTTTTTATT
1 TTATTATTTTTTATT
* *
27821517 ATACTATTTTTTATT
1 TTATTATTTTTTATT
27821532 TTATATATTTTTATATT
1 TTAT-TATTTTT-TATT
*
27821549 TTAATTATTATTATATT
1 TT-ATTATT-TTTTATT
27821566 TT
1 TT
27821568 TTTGTAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
15 15 0.36
16 7 0.17
17 16 0.38
18 4 0.10
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTATTTTTTATT
Found at i:27821880 original size:14 final size:13
Alignment explanation
Indices: 27821826--27821889 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
27821816 ATATATTTGA
*
27821826 ATTATCTTTATTT
1 ATTATTTTTATTT
* *
27821839 ATTACTTTTATCCT
1 ATTATTTTTAT-TT
*
27821853 -TT-TTTTTATCT
1 ATTATTTTTATTT
27821864 ATTATTATTTATTT
1 ATTATT-TTTATTT
27821878 ATTATTTTTATT
1 ATTATTTTTATT
27821890 GAATAACTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
11 2 0.05
12 8 0.19
13 19 0.45
14 13 0.31
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTATTTTTATTT
Found at i:27828238 original size:62 final size:62
Alignment explanation
Indices: 27828162--27828285 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
27828152 AAATCAGTTG
27828162 TGCCATTCCTCCTTTTATGATGAACCAAGTGTACGTTTGAGTATGAACTTCTCAAGTAATCC
1 TGCCATTCCTCCTTTTATGATGAACCAAGTGTACGTTTGAGTATGAACTTCTCAAGTAATCC
*
27828224 TGCCATTCCTCCTTTTATGATGAACCCAGTGTACGTTTGAGTATGAACTTCTCAAGTAATCC
1 TGCCATTCCTCCTTTTATGATGAACCAAGTGTACGTTTGAGTATGAACTTCTCAAGTAATCC
27828286 GGCAAAGCAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (62 bp):
TGCCATTCCTCCTTTTATGATGAACCAAGTGTACGTTTGAGTATGAACTTCTCAAGTAATCC
Found at i:27836649 original size:21 final size:21
Alignment explanation
Indices: 27836623--27836662 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
27836613 GATTGATTTC
27836623 GCTTGACTTTGAATGATGGTT
1 GCTTGACTTTGAATGATGGTT
27836644 GCTTGACTTTGAATGATGG
1 GCTTGACTTTGAATGATGG
27836663 CATCATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (21 bp):
GCTTGACTTTGAATGATGGTT
Found at i:27838920 original size:22 final size:22
Alignment explanation
Indices: 27838877--27838920 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27838867 AACTCTTGCT
**
27838877 TAATTGATGTTTAATTGCTGCC
1 TAATTGATGTTTAAAAGCTGCC
27838899 TAATTGATGCTTTAAAAG-TGCC
1 TAATTGATG-TTTAAAAGCTGCC
27838921 ATTCAAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (22 bp):
TAATTGATGTTTAAAAGCTGCC
Found at i:27841130 original size:30 final size:30
Alignment explanation
Indices: 27841094--27841155 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
27841084 CATTAGTTAC
* *
27841094 AAAGACTTGTTTGACTCAAAATAAAAGTAT
1 AAAGACTTATTTGACTCAAAATAAAAATAT
**
27841124 AAAGACTTATTTGGGTCAAAATAAAAATAT
1 AAAGACTTATTTGACTCAAAATAAAAATAT
27841154 AA
1 AA
27841156 TGGCTTGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (30 bp):
AAAGACTTATTTGACTCAAAATAAAAATAT
Found at i:27842016 original size:18 final size:20
Alignment explanation
Indices: 27841981--27842017 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
27841971 ATCTTTGTAG
*
27841981 ATATAGTCACTACTATTTTT
1 ATATAGTCACTACAATTTTT
27842001 ATATA-TCAC-ACAATTTT
1 ATATAGTCACTACAATTTT
27842018 ATTAGACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 4 0.25
20 5 0.31
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (20 bp):
ATATAGTCACTACAATTTTT
Found at i:27846348 original size:4 final size:4
Alignment explanation
Indices: 27846341--27846367 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
27846331 TATATATATT
27846341 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
27846368 ATGTACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:27865192 original size:13 final size:13
Alignment explanation
Indices: 27865174--27865198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27865164 TTCCAGAAAA
27865174 TTTATAAAATCAT
1 TTTATAAAATCAT
27865187 TTTATAAAATCA
1 TTTATAAAATCA
27865199 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:27868254 original size:23 final size:23
Alignment explanation
Indices: 27868223--27868274 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
27868213 CATTGTTATG
27868223 AAAGTATAATTT-AAAAGAACAAAT
1 AAAG-ATAATTTGAAAA-AACAAAT
*
27868247 AAAGATAATTTGAAAAAACAATT
1 AAAGATAATTTGAAAAAACAAAT
27868270 AAAGA
1 AAAGA
27868275 AAAGAAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (23 bp):
AAAGATAATTTGAAAAAACAAAT
Found at i:27874929 original size:19 final size:19
Alignment explanation
Indices: 27874905--27874941 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
27874895 CTTCTAAACT
27874905 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
27874924 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
27874942 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:27880287 original size:23 final size:23
Alignment explanation
Indices: 27880257--27880303 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
27880247 TTATGAAAAT
27880257 ATAACTTAAAAGAACAAATAAAG
1 ATAACTTAAAAGAACAAATAAAG
*
27880280 ATAACTTAAAAGAACAATTAAAG
1 ATAACTTAAAAGAACAAATAAAG
27880303 A
1 A
27880304 GAAGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.19
Consensus pattern (23 bp):
ATAACTTAAAAGAACAAATAAAG
Found at i:27880313 original size:23 final size:23
Alignment explanation
Indices: 27880264--27880313 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
27880254 AATATAACTT
* **
27880264 AAAAGAACAAATAAAGATAACTT
1 AAAAGAACAAATAAAGAGAACAA
* *
27880287 AAAAGAACAATTAAAGAGAAGAA
1 AAAAGAACAAATAAAGAGAACAA
27880310 AAAA
1 AAAA
27880314 AGTATTTAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.70, C:0.06, G:0.12, T:0.12
Consensus pattern (23 bp):
AAAAGAACAAATAAAGAGAACAA
Found at i:27888927 original size:13 final size:13
Alignment explanation
Indices: 27888887--27888938 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 13
27888877 ACATTATAAA
*
27888887 AAATTAATATTTT
1 AAATTAAAATTTT
*
27888900 AAAATTAAAA-ATT
1 -AAATTAAAATTTT
27888913 AAATTAAAATTTT
1 AAATTAAAATTTT
27888926 -AATTATAAATTTT
1 AAATTA-AAATTTT
27888939 TTATATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 14 0.42
13 11 0.33
14 8 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTAAAATTTT
Found at i:27889543 original size:101 final size:101
Alignment explanation
Indices: 27889356--27889545 Score: 317
Period size: 101 Copynumber: 1.9 Consensus size: 101
27889346 TTTACTTTAG
* * *
27889356 ACATTTATACGGGTTAATATGTCAAACTTTGAAACATAGGATGTTAATGAAGTGGAATTCTTTGC
1 ACATGTATACGGGTTAATATGTCAAACTTTGAAACATAGAATGTCAATGAAGTGGAATTCTTTGC
* *
27889421 ACAACCCTCTCAAGTCTTTGATTTGAACGTAACCAA
66 ACAACCCTCTCAACTCCTTGATTTGAACGTAACCAA
* *
27889457 ACATGTATACGGGTTAATATGTCAAACTTTTAAACATAGAATGTCAATGAGGTGGAATTCTTTGC
1 ACATGTATACGGGTTAATATGTCAAACTTTGAAACATAGAATGTCAATGAAGTGGAATTCTTTGC
27889522 ACAACCCTCTCAACTCCTTGATTT
66 ACAACCCTCTCAACTCCTTGATTT
27889546 CAACATAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 82 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (101 bp):
ACATGTATACGGGTTAATATGTCAAACTTTGAAACATAGAATGTCAATGAAGTGGAATTCTTTGC
ACAACCCTCTCAACTCCTTGATTTGAACGTAACCAA
Found at i:27894360 original size:90 final size:90
Alignment explanation
Indices: 27894194--27894372 Score: 218
Period size: 90 Copynumber: 2.0 Consensus size: 90
27894184 CTCTCAACTT
* * *
27894194 TTGGTATTATTTTGTTTTCATAATCTTCAAGCTTCAAAATGATTTCAATGATTGGGTTTTGATTT
1 TTGGTATTATTTTGTGTTCATAATCTCCAAGCTTCAAAATGATTTCAATGATTGGGTTTTAATTT
* *
27894259 CTAGTTTTAGCAAATCGGGTAAGTA
66 CTAGTTGTAGCAAATCAGGTAAGTA
* * * * *
27894284 TTGGTATTATTTTGTGTTCATCATCTCCAAGTTTTAAAATGATTTTAATGGTT-GGTCTTTAAAT
1 TTGGTATTATTTTGTGTTCATAATCTCCAAGCTTCAAAATGATTTCAATGATTGGGT-TTT-AAT
* *
27894348 TT-TGGTTGTAGCAAATTAGGTAAGT
64 TTCTAGTTGTAGCAAATCAGGTAAGT
27894373 GACTTGATAT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
89 3 0.04
90 68 0.91
91 4 0.05
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.46
Consensus pattern (90 bp):
TTGGTATTATTTTGTGTTCATAATCTCCAAGCTTCAAAATGATTTCAATGATTGGGTTTTAATTT
CTAGTTGTAGCAAATCAGGTAAGTA
Found at i:27894650 original size:28 final size:28
Alignment explanation
Indices: 27894619--27894690 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
27894609 AACTCTAAGA
**
27894619 ATAACTTTACTTACTAAAAGGTGGATGG
1 ATAACTTTACCCACTAAAAGGTGGATGG
* * *
27894647 ATAAGTTTGCCCACTAAAAGGTGGATGT
1 ATAACTTTACCCACTAAAAGGTGGATGG
27894675 ATAACTTTACCCACTA
1 ATAACTTTACCCACTA
27894691 GAAAATGGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (28 bp):
ATAACTTTACCCACTAAAAGGTGGATGG
Found at i:27894699 original size:28 final size:28
Alignment explanation
Indices: 27894619--27894704 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 28
27894609 AACTCTAAGA
** * *
27894619 ATAACTTTACTTACTAAAAGGTGGATGG
1 ATAACTTTACCCACTAAAAGATGGATGT
* * *
27894647 ATAAGTTTGCCCACTAAAAGGTGGATGT
1 ATAACTTTACCCACTAAAAGATGGATGT
27894675 ATAACTTTACCCACTAGAAA-ATGGATGT
1 ATAACTTTACCCACTA-AAAGATGGATGT
27894703 AT
1 AT
27894705 GCTTTTAACC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 46 0.94
29 3 0.06
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (28 bp):
ATAACTTTACCCACTAAAAGATGGATGT
Found at i:27899387 original size:28 final size:29
Alignment explanation
Indices: 27899329--27899392 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
27899319 GTAAATTTTT
* *
27899329 AAAAATTACACTTTTACCCTCATAAAGTG
1 AAAAATTACACTTTTACCCTCAAAAACTG
*
27899358 AAAAATTACATTTTTACCC-CAAAAACTG
1 AAAAATTACACTTTTACCCTCAAAAACTG
27899386 AAAAATT
1 AAAAATT
27899393 GCCCATAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCTCAAAAACTG
Found at i:27907813 original size:27 final size:27
Alignment explanation
Indices: 27907762--27907813 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
27907752 ATTTCCTGAT
*
27907762 GGTGGAAAATTACAATTTTGCCCCTGG
1 GGTGGAAAATTACAATTTTGACCCTGG
*
27907789 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
27907814 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTGG
Found at i:27907884 original size:20 final size:20
Alignment explanation
Indices: 27907867--27907904 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27907857 CCTCAAATCT
27907867 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
27907887 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
27907905 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:27915254 original size:14 final size:15
Alignment explanation
Indices: 27915227--27915255 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27915217 ACTTAAACTT
27915227 TCAATCTCTTTTCTC
1 TCAATCTCTTTTCTC
27915242 TCAATCT-TTTTCTC
1 TCAATCTCTTTTCTC
27915256 AAGCAACGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.55
Consensus pattern (15 bp):
TCAATCTCTTTTCTC
Found at i:27915395 original size:86 final size:86
Alignment explanation
Indices: 27915250--27915420 Score: 324
Period size: 86 Copynumber: 2.0 Consensus size: 86
27915240 TCTCAATCTT
27915250 TTTCTCAAGCAACGATCGGAAGGCATAAACAAACCCACAGAATCCAAACCCTAAATAAAAATCGT
1 TTTCTCAAGCAACGATCGGAAGGCATAAACAAACCCACAGAATCCAAACCCTAAATAAAAATCGT
27915315 TCACCCTAATACCGACCCCTC
66 TCACCCTAATACCGACCCCTC
* *
27915336 TTTCTCAAGCAACGATCGGAAGGCATAAACAAACCCACCGAATCCAAACCCTAAATAAAAATTGT
1 TTTCTCAAGCAACGATCGGAAGGCATAAACAAACCCACAGAATCCAAACCCTAAATAAAAATCGT
27915401 TCACCCTAATACCGACCCCT
66 TCACCCTAATACCGACCCCT
27915421 TTGTCTCCCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.39, C:0.32, G:0.11, T:0.18
Consensus pattern (86 bp):
TTTCTCAAGCAACGATCGGAAGGCATAAACAAACCCACAGAATCCAAACCCTAAATAAAAATCGT
TCACCCTAATACCGACCCCTC
Found at i:27932490 original size:19 final size:19
Alignment explanation
Indices: 27932462--27932499 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
27932452 CCATTTAACT
*
27932462 TATTGCAGTATGATTTGAG
1 TATTGCAGTATAATTTGAG
*
27932481 TATTGGAGTATAATTTGAG
1 TATTGCAGTATAATTTGAG
27932500 GGTTTGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTGCAGTATAATTTGAG
Found at i:27932733 original size:28 final size:28
Alignment explanation
Indices: 27932679--27932732 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
27932669 TTCAGTTTTT
*
27932679 GGGGCAAAAATATAATTTTGCCACCCCG
1 GGGGCAAAAAGATAATTTTGCCACCCCG
*
27932707 GGGGCAAAACGATAATTTTG-CACCCC
1 GGGGCAAAAAGATAATTTTGCCACCCC
27932733 CAGAGCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (28 bp):
GGGGCAAAAAGATAATTTTGCCACCCCG
Found at i:27933892 original size:13 final size:13
Alignment explanation
Indices: 27933874--27933898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27933864 AGAGAAATTG
27933874 TGATTTTATAAAA
1 TGATTTTATAAAA
27933887 TGATTTTATAAA
1 TGATTTTATAAA
27933899 TTTTCTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:27935425 original size:119 final size:119
Alignment explanation
Indices: 27935198--27935433 Score: 400
Period size: 119 Copynumber: 2.0 Consensus size: 119
27935188 TTTTTAGGTA
* * *
27935198 GTTTACAATAGAATGATAAACTTTTTAAAAGTAAGATTATTCTTTTCTTATAGTTTTAATTAAAA
1 GTTTACAATAGAATGACAAACTTTTTAAAACTAAGATTATTCATTTCTTATAGTTTTAATTAAAA
* *
27935263 ACAAAAATGATGATTTGACAAGGTGTTGGACTTGTTGGTTTTTTATTTAACTCT
66 ACAAAAATGAAGATTTGACAAGGTGTTGGACGTGTTGGTTTTTTATTTAACTCT
*
27935317 GTTTACAATAGAATGACAAACTTTTTAAAACTAAGATTATTCATTTCTTATAGTTTTAATTAAAC
1 GTTTACAATAGAATGACAAACTTTTTAAAACTAAGATTATTCATTTCTTATAGTTTTAATTAAAA
*
27935382 ACAAAAAATGAAGATTTGACAAGGTGTTGGAGGTGTTGGTTTTTTATTTAAC
66 AC-AAAAATGAAGATTTGACAAGGTGTTGGACGTGTTGGTTTTTTATTTAAC
27935434 ACTTATTTTA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 63 0.58
120 46 0.42
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.42
Consensus pattern (119 bp):
GTTTACAATAGAATGACAAACTTTTTAAAACTAAGATTATTCATTTCTTATAGTTTTAATTAAAA
ACAAAAATGAAGATTTGACAAGGTGTTGGACGTGTTGGTTTTTTATTTAACTCT
Found at i:27943796 original size:4 final size:4
Alignment explanation
Indices: 27943776--27943832 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
27943766 TCCTTGTCTT
* * * * *
27943776 TTTC -TTC TTTC -TCC TTTC TTTT TTTC TTCC TTTC TTCC TTTC TTCC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
27943822 TTTC TTTC TTT
1 TTTC TTTC TTT
27943833 GCTTCCAAGC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
3 5 0.12
4 36 0.88
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:27943809 original size:8 final size:8
Alignment explanation
Indices: 27943776--27943838 Score: 76
Period size: 8 Copynumber: 8.0 Consensus size: 8
27943766 TCCTTGTCTT
27943776 TTTCTT-C
1 TTTCTTCC
27943783 TTTC-TCC
1 TTTCTTCC
**
27943790 TTTCTTTT
1 TTTCTTCC
27943798 TTTCTTCC
1 TTTCTTCC
27943806 TTTCTTCC
1 TTTCTTCC
27943814 TTTCTTCC
1 TTTCTTCC
*
27943822 TTTCTTTC
1 TTTCTTCC
27943830 TTTGCTTCC
1 TTT-CTTCC
27943839 AAGCTGATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
6 1 0.02
7 9 0.19
8 33 0.70
9 4 0.09
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.67
Consensus pattern (8 bp):
TTTCTTCC
Found at i:27952109 original size:22 final size:22
Alignment explanation
Indices: 27952084--27952129 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
27952074 TTTTATGCAT
27952084 TACTA-CAAGAATTAAGCTAAAA
1 TACTATCAA-AATTAAGCTAAAA
*
27952106 TACTATCAAAATTAAGCTCAAA
1 TACTATCAAAATTAAGCTAAAA
27952128 TA
1 TA
27952130 ACTTTATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (22 bp):
TACTATCAAAATTAAGCTAAAA
Found at i:27957763 original size:2 final size:2
Alignment explanation
Indices: 27957756--27957818 Score: 58
Period size: 2 Copynumber: 31.5 Consensus size: 2
27957746 TATTTTACCC
* * **
27957756 TA TA TA TA TA TA TA TA TA TA TA TA TG TA CA NT- TA CC T- TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
27957798 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
27957819 GTACATAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
1 2 0.04
2 46 0.92
3 2 0.04
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:27958077 original size:23 final size:23
Alignment explanation
Indices: 27958055--27958100 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27958045 TAGACAAAAA
* *
27958055 TAAAATAAATTCAAGTGAAAAAAG
1 TAAAATAAAAT-AAGTAAAAAAAG
27958079 TAAAATAAAATAAGTAAAAAAA
1 TAAAATAAAATAAGTAAAAAAA
27958101 AAGGGAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (23 bp):
TAAAATAAAATAAGTAAAAAAAG
Found at i:27958101 original size:24 final size:23
Alignment explanation
Indices: 27958050--27958100 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
27958040 GGGGATAGAC
*
27958050 AAAAATAAAATAAATTCAAGTGAA
1 AAAAATAAAATAAAATCAAGT-AA
*
27958074 AAAAGTAAAATAAAAT-AAGTAA
1 AAAAATAAAATAAAATCAAGTAA
27958096 AAAAA
1 AAAAA
27958101 AAGGGAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 4 0.17
24 14 0.58
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (23 bp):
AAAAATAAAATAAAATCAAGTAA
Found at i:27962889 original size:34 final size:33
Alignment explanation
Indices: 27962836--27962968 Score: 131
Period size: 34 Copynumber: 3.9 Consensus size: 33
27962826 GAAGGAAGTT
* * * *
27962836 TTGGCGTGTAATATTTGGTGCTAAAGCTTTAGAC
1 TTGGCATGTAACATCTGGTGCTGAAGCTTT-GAC
* * * *
27962870 TTAGCATGTAACGTCTGGTGTTGAAGCTTTTGTC
1 TTGGCATGTAACATCTGGTGCTGAAGC-TTTGAC
*
27962904 TTGGCATGTAACATTTGGTGCTGAAGCTTTGACC
1 TTGGCATGTAACATCTGGTGCTGAAGCTTTGA-C
* * *
27962938 TTGGCATGTAACATTTGTTGCTGAAGTTTTG
1 TTGGCATGTAACATCTGGTGCTGAAGCTTTG
27962969 GTGTGTAACA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
33 4 0.05
34 75 0.91
35 3 0.04
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (33 bp):
TTGGCATGTAACATCTGGTGCTGAAGCTTTGAC
Found at i:27962963 original size:68 final size:67
Alignment explanation
Indices: 27962836--27962968 Score: 169
Period size: 68 Copynumber: 2.0 Consensus size: 67
27962826 GAAGGAAGTT
* * * *
27962836 TTGGCGTGTAATATTTGGTGCTAAAGCTTTAGACTTAGCATGTAACGTCTGGTGTTGAAGCTTTT
1 TTGGCATGTAACATTTGGTGCTAAAGCTTTAGACTTAGCATGTAACATCTGGTGCTGAAG-TTTT
27962901 GTC
65 GTC
* * * *
27962904 TTGGCATGTAACATTTGGTGCTGAAGCTTT-GACCTTGGCATGTAACATTTGTTGCTGAAGTTTT
1 TTGGCATGTAACATTTGGTGCTAAAGCTTTAGA-CTTAGCATGTAACATCTGGTGCTGAAGTTTT
27962968 G
65 G
27962969 GTGTGTAACA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
67 7 0.12
68 49 0.88
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (67 bp):
TTGGCATGTAACATTTGGTGCTAAAGCTTTAGACTTAGCATGTAACATCTGGTGCTGAAGTTTTG
TC
Found at i:27963182 original size:29 final size:30
Alignment explanation
Indices: 27963130--27963189 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
27963120 TTTTTCAACT
*
27963130 ATAACAATATTTTTTTGAACATAGCATGTA
1 ATAACAATATTTTTTTAAACATAGCATGTA
* * *
27963160 ATAACGATA-TTTTTTAAATATAGCGTGTA
1 ATAACAATATTTTTTTAAACATAGCATGTA
27963189 A
1 A
27963190 CTTATTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (30 bp):
ATAACAATATTTTTTTAAACATAGCATGTA
Found at i:27964870 original size:14 final size:15
Alignment explanation
Indices: 27964810--27964872 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 15
27964800 CTTAAACTCN
27964810 TTTATTTATTT-TAT
1 TTTATTTATTTATAT
*
27964824 TTTATTTATTTATCT
1 TTTATTTATTTATAT
27964839 TTTA-TTA-TTATTAT
1 TTTATTTATTTA-TAT
*
27964853 TATTATATTTTTTATAT
1 T-TTAT-TTATTTATAT
27964870 TTT
1 TTT
27964873 TTTCTTATCC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.08
14 17 0.43
15 9 0.22
16 2 0.05
17 6 0.15
18 3 0.08
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTATTTATTTATAT
Found at i:27964870 original size:20 final size:22
Alignment explanation
Indices: 27964810--27964870 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
27964800 CTTAAACTCN
*
27964810 TTTAT-TTATTTTATTTTATTTA
1 TTTATATT-TTTTATATTATTTA
*
27964832 TTTATCTTTTATTATTATTA-TTA
1 TTTATATTTT-TTA-TATTATTTA
27964855 -TTATATTTTTTATATT
1 TTTATATTTTTTATATT
27964871 TTTTTCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 15 0.44
23 8 0.24
24 4 0.12
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTATATTTTTTATATTATTTA
Found at i:27965040 original size:10 final size:9
Alignment explanation
Indices: 27965014--27965068 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
27965004 TCTCATCATT
*
27965014 TTTTTACTA
1 TTTTTATTA
27965023 TTTTTATTA
1 TTTTTATTA
27965032 -TTTTA-TA
1 TTTTTATTA
27965039 TTTTATATT-
1 TTTT-TATTA
*
27965048 TCTTTATTAA
1 TTTTTATT-A
27965058 TTTTTATTA
1 TTTTTATTA
27965067 TT
1 TT
27965069 ATATCCTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
7 2 0.05
8 12 0.32
9 16 0.42
10 8 0.21
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTATTA
Found at i:27965047 original size:17 final size:17
Alignment explanation
Indices: 27965015--27965068 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
27965005 CTCATCATTT
27965015 TTTTACTATTTTTATTA
1 TTTTACTATTTTTATTA
27965032 TTTTA-TATTTTATATT-
1 TTTTACTATTTT-TATTA
*
27965048 TCTTTATTAATTTTTATTA
1 T-TTTACT-ATTTTTATTA
27965067 TT
1 TT
27965069 ATATCCTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.22
17 13 0.41
18 6 0.19
19 6 0.19
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTACTATTTTTATTA
Found at i:27965053 original size:25 final size:25
Alignment explanation
Indices: 27965025--27965080 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
27965015 TTTTACTATT
*
27965025 TTTATT-ATTTTATATT-TTATATTTC
1 TTTATTAATTTT-TATTATTATA-TCC
27965050 TTTATTAATTTTTATTATTATATCC
1 TTTATTAATTTTTATTATTATATCC
27965075 TTTATT
1 TTTATT
27965081 TTATTTCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTATTAATTTTTATTATTATATCC
Found at i:27965079 original size:35 final size:33
Alignment explanation
Indices: 27965011--27965125 Score: 94
Period size: 35 Copynumber: 3.5 Consensus size: 33
27965001 AAATCTCATC
* * *
27965011 ATTTT-TTTACTATTTTTATTATTTTATATTTT
1 ATTTTATTTATTATTTTTATTATTATATACTTT
* *
27965043 ATATTTCTTTATTAATTTTTATTATTATATCCTTT
1 AT-TTTATTTATT-ATTTTTATTATTATATACTTT
* *
27965078 ATTTTATTTCTTATTTTT-TT-TTATATTCTTCT
1 ATTTTATTTATTATTTTTATTATTATATACTT-T
*
27965110 -TTTTCATCTATTATTT
1 ATTTT-ATTTATTATTT
27965126 ATTTATTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
31 13 0.19
32 14 0.20
33 9 0.13
34 13 0.19
35 20 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (33 bp):
ATTTTATTTATTATTTTTATTATTATATACTTT
Found at i:27965099 original size:17 final size:18
Alignment explanation
Indices: 27965079--27965113 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27965069 ATATCCTTTA
27965079 TTTTAT-TTCTTATTTTT
1 TTTTATATTCTTATTTTT
*
27965096 TTTTATATTCTTCTTTTT
1 TTTTATATTCTTATTTTT
27965114 CATCTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATATTCTTATTTTT
Found at i:27966310 original size:212 final size:212
Alignment explanation
Indices: 27965933--27966334 Score: 617
Period size: 212 Copynumber: 1.9 Consensus size: 212
27965923 CTTTCACCGA
* * *
27965933 ATCTGGTGGCACGATGGTCGACAGCACCAACAACCGGCGGCTACTCGGGCTTCCTCCCTTCGCCG
1 ATCTGGTGGCACGATGGTCGACAGCACCAACAACCGACGGCTACTCGAGCTTCCTCCCTTCACCG
* * * *
27965998 GCATTCTCTCTACTTCCTTGTTGTAGGCTGCCTTTTGTCGGATCTGGTGGCGCAATGGTCTGCAG
66 ACATTCTCTCTACTTCCTTGCTGTAGGCTGCCTTTCGTCGGATCTGGTGGCGCAATGGTCGGCAG
*
27966063 CACCAACAACCGGCGGTCACTCGATCTACCTCCCTTCGTCGGTGTTCTCTCTCCTTCCTTGCTGT
131 CACCAACAACCGACGGTCACTCGATCTACCTCCCTTCGTCGGTGTTCTCTCTCCTTCCTTGCTGT
27966128 GAGCTGCCTTTCGCCAG
196 GAGCTGCCTTTCGCCAG
** * *
27966145 ATCTGGTGGTGCGATGGTCGACAGCACCAACAATCGACGG-TCACTCGATCTTCCTCCCTTCACC
1 ATCTGGTGGCACGATGGTCGACAGCACCAACAACCGACGGCT-ACTCGAGCTTCCTCCCTTCACC
* * * *
27966209 GACGTTCTCTCTCCTTCCTTGCTGTGGGCTGCCTTTCGTCGGATCTGGTGGCGCGATGGTCGGCA
65 GACATTCTCTCTACTTCCTTGCTGTAGGCTGCCTTTCGTCGGATCTGGTGGCGCAATGGTCGGCA
* **
27966274 GCACCAACAACCGACGGTCACTCGGTCTTTCTCCCTTCGTCGGTGTTCTCTCTCCTTCCTT
130 GCACCAACAACCGACGGTCACTCGATCTACCTCCCTTCGTCGGTGTTCTCTCTCCTTCCTT
27966335 CTCTACCGCT
Statistics
Matches: 170, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
211 1 0.01
212 169 0.99
ACGTcount: A:0.13, C:0.34, G:0.24, T:0.29
Consensus pattern (212 bp):
ATCTGGTGGCACGATGGTCGACAGCACCAACAACCGACGGCTACTCGAGCTTCCTCCCTTCACCG
ACATTCTCTCTACTTCCTTGCTGTAGGCTGCCTTTCGTCGGATCTGGTGGCGCAATGGTCGGCAG
CACCAACAACCGACGGTCACTCGATCTACCTCCCTTCGTCGGTGTTCTCTCTCCTTCCTTGCTGT
GAGCTGCCTTTCGCCAG
Found at i:27966346 original size:106 final size:106
Alignment explanation
Indices: 27965933--27966334 Score: 531
Period size: 106 Copynumber: 3.8 Consensus size: 106
27965923 CTTTCACCGA
* * **
27965933 ATCTGGTGGCACGATGGTCGACAGCACCAACAACCGGCGG-CTACTCGGGCTTCCTCCCTTCGCC
1 ATCTGGTGGCGCGATGGTCGACAGCACCAACAACCGACGGTC-ACTCGATCTTCCTCCCTTCGCC
* * * *
27965997 GGCATTCTCTCTACTTCCTTGTTGTAGGCTGCCTTTTGTCGG
65 GGCGTTCTCTCTCCTTCCTTGCTGTAGGCTGCCTTTCGTCGG
* * * *
27966039 ATCTGGTGGCGCAATGGTCTG-CAGCACCAACAACCGGCGGTCACTCGATCTACCTCCCTTCGTC
1 ATCTGGTGGCGCGATGGTC-GACAGCACCAACAACCGACGGTCACTCGATCTTCCTCCCTTCGCC
* * *
27966103 GGTGTTCTCTCTCCTTCCTTGCTGT-GAGCTGCCTTTCGCCAG
65 GGCGTTCTCTCTCCTTCCTTGCTGTAG-GCTGCCTTTCGTCGG
* * *
27966145 ATCTGGTGGTGCGATGGTCGACAGCACCAACAATCGACGGTCACTCGATCTTCCTCCCTTCACCG
1 ATCTGGTGGCGCGATGGTCGACAGCACCAACAACCGACGGTCACTCGATCTTCCTCCCTTCGCCG
* *
27966210 ACGTTCTCTCTCCTTCCTTGCTGTGGGCTGCCTTTCGTCGG
66 GCGTTCTCTCTCCTTCCTTGCTGTAGGCTGCCTTTCGTCGG
* * * *
27966251 ATCTGGTGGCGCGATGGTCGGCAGCACCAACAACCGACGGTCACTCGGTCTTTCTCCCTTCGTCG
1 ATCTGGTGGCGCGATGGTCGACAGCACCAACAACCGACGGTCACTCGATCTTCCTCCCTTCGCCG
*
27966316 GTGTTCTCTCTCCTTCCTT
66 GCGTTCTCTCTCCTTCCTT
27966335 CTCTACCGCT
Statistics
Matches: 258, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
105 2 0.01
106 253 0.98
107 3 0.01
ACGTcount: A:0.13, C:0.34, G:0.24, T:0.29
Consensus pattern (106 bp):
ATCTGGTGGCGCGATGGTCGACAGCACCAACAACCGACGGTCACTCGATCTTCCTCCCTTCGCCG
GCGTTCTCTCTCCTTCCTTGCTGTAGGCTGCCTTTCGTCGG
Found at i:27966929 original size:14 final size:16
Alignment explanation
Indices: 27966912--27966948 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
27966902 TATTGCTAGT
27966912 TTTTTTGC-T-AGGGA
1 TTTTTTGCGTGAGGGA
27966926 TTTTTTGCTGTGAGGGA
1 TTTTTTGC-GTGAGGGA
27966943 TTTTTT
1 TTTTTT
27966949 TGAATTGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.11, C:0.05, G:0.27, T:0.57
Consensus pattern (16 bp):
TTTTTTGCGTGAGGGA
Found at i:27967622 original size:158 final size:158
Alignment explanation
Indices: 27967343--27967646 Score: 448
Period size: 158 Copynumber: 1.9 Consensus size: 158
27967333 CTGTATATAA
* * *
27967343 AGTTATGGTCAAAATACCGAAATATATGCAATAGAAACTTGCAACTCAAAATTGCTTTCCTTCTT
1 AGTTATGGTCAAAATACCGAAACATATACAATAGAAACTTACAACTCAAAATTGCTTTCCTTCTT
27967408 CCATTAAAATTCTTCCTTCATTAAACACCTACAAAAGCACAAATAAATCAACAACAATC-TATAT
66 CCATTAAAATTCTTCCTTCATTAAACACCTACAAAAGCACAAATAAATCAACAACAA-CATATAT
27967472 TAATCACATTAACACCATTCTGTAGAGAG
130 TAATCACATTAACACCATTCTGTAGAGAG
* * * * *
27967501 AGTTATGGTCGAAATACCGAAACATATACAATGGAAATTTACACCTCAAAATTTCTTTCCTTCTT
1 AGTTATGGTCAAAATACCGAAACATATACAATAGAAACTTACAACTCAAAATTGCTTTCCTTCTT
* * * * * * *
27967566 CCATTATAATTCTTCCTTCGTTAAATACCTATAAAATCACAAATAAATCAATAACAACATATCTT
66 CCATTAAAATTCTTCCTTCATTAAACACCTACAAAAGCACAAATAAATCAACAACAACATATATT
*
27967631 AATCATATTAACACCA
131 AATCACATTAACACCA
27967647 AATTAAGCAT
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
157 1 0.01
158 128 0.99
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (158 bp):
AGTTATGGTCAAAATACCGAAACATATACAATAGAAACTTACAACTCAAAATTGCTTTCCTTCTT
CCATTAAAATTCTTCCTTCATTAAACACCTACAAAAGCACAAATAAATCAACAACAACATATATT
AATCACATTAACACCATTCTGTAGAGAG
Found at i:27968993 original size:13 final size:13
Alignment explanation
Indices: 27968975--27968999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27968965 TTCCAGAAAA
27968975 TTTATAAAATCAT
1 TTTATAAAATCAT
27968988 TTTATAAAATCA
1 TTTATAAAATCA
27969000 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:27981660 original size:14 final size:13
Alignment explanation
Indices: 27981635--27981659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27981625 TTGAATGCTT
27981635 CTTCTATTTTTTG
1 CTTCTATTTTTTG
27981648 CTTCTATTTTTT
1 CTTCTATTTTTT
27981660 TAGATAAAAC
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:0.08, C:0.16, G:0.04, T:0.72
Consensus pattern (13 bp):
CTTCTATTTTTTG
Found at i:27982699 original size:11 final size:12
Alignment explanation
Indices: 27982675--27982717 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
27982665 TCAAAATCCT
27982675 AAAAAAATA-AA
1 AAAAAAATAGAA
27982686 AAATAAAAT-GAA
1 AAA-AAAATAGAA
27982698 AAAAAAATAGAA
1 AAAAAAATAGAA
27982710 AGAAAAAA
1 A-AAAAAA
27982718 AATAATATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 8 0.29
12 14 0.50
13 6 0.21
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (12 bp):
AAAAAAATAGAA
Found at i:27982699 original size:18 final size:17
Alignment explanation
Indices: 27982678--27982724 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
27982668 AAATCCTAAA
27982678 AAAATAAAAAATA-AAATG
1 AAAA-AAAAAATAGAAA-G
27982696 -AAAAAAAAATAGAAAG
1 AAAAAAAAAATAGAAAG
27982712 AAAAAAAATAATA
1 AAAAAAAA-AATA
27982725 TCTGAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 9 0.35
17 13 0.50
18 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (17 bp):
AAAAAAAAAATAGAAAG
Found at i:27982702 original size:16 final size:16
Alignment explanation
Indices: 27982683--27982719 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
27982673 CTAAAAAAAT
27982683 AAAAAATA-AAATGAAA
1 AAAAAATAGAAA-GAAA
27982699 AAAAAATAGAAAGAAA
1 AAAAAATAGAAAGAAA
27982715 AAAAA
1 AAAAA
27982720 TAATATCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAAAATAGAAAGAAA
Found at i:27982814 original size:2 final size:2
Alignment explanation
Indices: 27982807--27982857 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
27982797 TGTAAAAGGG
27982807 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27982849 GA GA GA GA G
1 GA GA GA GA G
27982858 NNNNNNNNNN
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27982928 original size:2 final size:2
Alignment explanation
Indices: 27982921--27982962 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
27982911 NNNNNNNNNN
*
27982921 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27982963 TCGATAGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27986403 original size:17 final size:17
Alignment explanation
Indices: 27986383--27986415 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27986373 TATAAAATTA
*
27986383 TGAGATTTAGTTAGTTG
1 TGAGATTTAATTAGTTG
27986400 TGAGATTTAATTAGTT
1 TGAGATTTAATTAGTT
27986416 TTAGAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (17 bp):
TGAGATTTAATTAGTTG
Found at i:27987281 original size:25 final size:25
Alignment explanation
Indices: 27987252--27987313 Score: 63
Period size: 29 Copynumber: 2.3 Consensus size: 25
27987242 GTAACTAAAG
27987252 ACAATTTTAAAACTAATTAAATCTTTC
1 ACAATTTTAAAACTAATTAAATC--TC
*
27987279 AATCGAA-TTTATAACTAATTAAATCTC
1 -A-C-AATTTTAAAACTAATTAAATCTC
27987306 ACAATTTT
1 ACAATTTT
27987314 GCATCTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
24 2 0.07
25 4 0.13
26 1 0.03
27 2 0.07
28 1 0.03
29 18 0.60
30 2 0.07
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.40
Consensus pattern (25 bp):
ACAATTTTAAAACTAATTAAATCTC
Found at i:27987948 original size:19 final size:18
Alignment explanation
Indices: 27987916--27987983 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
27987906 TTGATAAACC
27987916 TTTT-AAATCAAATTTGAA
1 TTTTAAAATC-AATTTGAA
27987934 TTGTTAAAATCAATTTGAA
1 TT-TTAAAATCAATTTGAA
*
27987953 CTTT--AAT-AA-TTGAAA
1 TTTTAAAATCAATTTG-AA
27987968 TTTTAAAATCAATTTG
1 TTTTAAAATCAATTTG
27987984 GATGAGTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
14 3 0.07
15 7 0.17
16 3 0.07
17 3 0.07
18 6 0.15
19 14 0.34
20 5 0.12
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (18 bp):
TTTTAAAATCAATTTGAA
Found at i:27988448 original size:21 final size:20
Alignment explanation
Indices: 27988405--27988448 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
27988395 GAGATCTATT
*
27988405 AGAAATTTAGAAGAAGAGGA
1 AGAAATTTAGAAGAAGAGAA
27988425 AGAATATTTAG-AGAAGAAGAA
1 AGAA-ATTTAGAAGAAG-AGAA
27988446 AGA
1 AGA
27988449 GTATGACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.16
Consensus pattern (20 bp):
AGAAATTTAGAAGAAGAGAA
Found at i:27988665 original size:44 final size:44
Alignment explanation
Indices: 27988599--27988706 Score: 171
Period size: 44 Copynumber: 2.5 Consensus size: 44
27988589 ACATCTTTCA
* * * *
27988599 ATGAAAAGACTTGTATCCTTTCATAATATGACTCTTCGAATATG
1 ATGAAAAGACTTGTTTCTTTTCATAATATGACTCTTCAAATAGG
27988643 ATGAAAAGACTTGTTTCTTTTCATAATATGACTCTTCAAATAGG
1 ATGAAAAGACTTGTTTCTTTTCATAATATGACTCTTCAAATAGG
*
27988687 ATGAAAGGACTTGTTTCTTT
1 ATGAAAAGACTTGTTTCTTT
27988707 CGTAATACAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (44 bp):
ATGAAAAGACTTGTTTCTTTTCATAATATGACTCTTCAAATAGG
Found at i:27989631 original size:17 final size:18
Alignment explanation
Indices: 27989609--27989650 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
27989599 TATGACAAAG
27989609 AAATTTGCTAC-CAT-ACA
1 AAATTTG-TACACATGACA
*
27989626 AAATTTGTTCACATGACA
1 AAATTTGTACACATGACA
27989644 AAATTTG
1 AAATTTG
27989651 ACCATGTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 10 0.45
18 10 0.45
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (18 bp):
AAATTTGTACACATGACA
Found at i:27992601 original size:18 final size:19
Alignment explanation
Indices: 27992561--27992603 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
27992551 TTCTTTCTAT
* *
27992561 TTTTACTTGCTTTATTATT
1 TTTTACTTGCTTTATCATA
*
27992580 TTTTATTTG-TTTATCATA
1 TTTTACTTGCTTTATCATA
27992598 TTTTAC
1 TTTTAC
27992604 AACAATCTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTACTTGCTTTATCATA
Found at i:27996475 original size:13 final size:14
Alignment explanation
Indices: 27996449--27996477 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27996439 AGCAAAAAGG
27996449 TAAATAGTAAAAAA
1 TAAATAGTAAAAAA
27996463 TAAATAG-AAAAAA
1 TAAATAGTAAAAAA
27996476 TA
1 TA
27996478 TAGACCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
TAAATAGTAAAAAA
Found at i:28000724 original size:37 final size:37
Alignment explanation
Indices: 28000677--28000748 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
28000667 ATCTCTAAAA
* *
28000677 TTTTTTAAAATAATTATCTAATTTTTTCTTCAATATT
1 TTTTTTAAAATAAATATCTAATTTTTTCCTCAATATT
28000714 TTTTTTAAAATAAATATCTAATTTTTTCCTCAATA
1 TTTTTTAAAATAAATATCTAATTTTTTCCTCAATA
28000749 AAAATCAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.56
Consensus pattern (37 bp):
TTTTTTAAAATAAATATCTAATTTTTTCCTCAATATT
Found at i:28001316 original size:111 final size:109
Alignment explanation
Indices: 28001122--28001320 Score: 238
Period size: 111 Copynumber: 1.8 Consensus size: 109
28001112 AAACTATAAG
* * * * ***
28001122 CTTTTGAATTTTGATTGGTTAAATTCGTGTTTTATGTTTAAATTATCTTAATTTATTTAGTGATA
1 CTTTTGAATTTTAATTGGTTAAATTCGTGTTTTATCTATAAATTATCTTAATTTATGTACAAATA
* * *
28001187 AATTGGATGACTCATAGGTGAATTTTAATAGGTCTAAATATGAT
66 AACTAGATAACTCATAGGTGAATTTTAATAGGTCTAAATATGAT
*
28001231 CTTTTGAGA-TTTAATTGGTTAAATTTGGGTGTTTTATCTATAAATTATCTTAATTTATGTACAA
1 CTTTTGA-ATTTTAATTGGTTAAA-TT-CGTGTTTTATCTATAAATTATCTTAATTTATGTACAA
* **
28001295 ATAAACTATATAACTTGTAGGTGAAT
63 ATAAACTAGATAACTCATAGGTGAAT
28001321 ATAATTCAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
109 20 0.27
110 3 0.04
111 50 0.68
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.47
Consensus pattern (109 bp):
CTTTTGAATTTTAATTGGTTAAATTCGTGTTTTATCTATAAATTATCTTAATTTATGTACAAATA
AACTAGATAACTCATAGGTGAATTTTAATAGGTCTAAATATGAT
Found at i:28002629 original size:31 final size:31
Alignment explanation
Indices: 28002594--28002654 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
28002584 CAGGGGTCAC
* *
28002594 TGGTGGTTGGGAATTAG-TGGTTTTTGGTCTT
1 TGGTGGTTGGCAATT-GCTAGTTTTTGGTCTT
28002625 TGGTGGTTGGCAATTGCTAGTTTTTGGTCT
1 TGGTGGTTGGCAATTGCTAGTTTTTGGTCT
28002655 CTGCATAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.10, C:0.07, G:0.36, T:0.48
Consensus pattern (31 bp):
TGGTGGTTGGCAATTGCTAGTTTTTGGTCTT
Found at i:28003906 original size:19 final size:20
Alignment explanation
Indices: 28003882--28003921 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
28003872 CCATTTGACT
28003882 TATTGGAGTATGATTT-AAG
1 TATTGGAGTATGATTTGAAG
*
28003901 TATTGGCGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
28003921 T
1 T
28003922 TTAGAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:28006273 original size:20 final size:20
Alignment explanation
Indices: 28006248--28006285 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
28006238 TTCCATCAAC
28006248 TCTTTGAAACTATGATTTAT
1 TCTTTGAAACTATGATTTAT
*
28006268 TCTTTGAAAGTATGATTT
1 TCTTTGAAACTATGATTT
28006286 TGCATAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TCTTTGAAACTATGATTTAT
Done.