Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 47 of 135
Found at i:16951833 original size:37 final size:38
Alignment explanation
Indices: 16951772--16951848 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 38
16951762 TATAATTTAA
*
16951772 ATTTAAATTTAAATTTAAGATAAATTTAAATAA-TTAA
1 ATTTAAATTTAAATTAAAGATAAATTTAAATAATTTAA
**
16951809 ATTTAAATTTAAGA-TAAATTTAAATTTAAATAAATTTAA
1 ATTTAAATTTAA-ATTAAAGATAAATTTAAAT-AATTTAA
16951848 A
1 A
16951849 ATCAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 26 0.76
38 3 0.09
39 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (38 bp):
ATTTAAATTTAAATTAAAGATAAATTTAAATAATTTAA
Found at i:16951850 original size:11 final size:11
Alignment explanation
Indices: 16951769--16951859 Score: 58
Period size: 11 Copynumber: 7.9 Consensus size: 11
16951759 TTTTATAATT
*
16951769 TAAATTTAAATT
1 TAAATTTAAA-A
*
16951781 TAAATTTAAGA
1 TAAATTTAAAA
16951792 TAAATTTAAATAA
1 TAAATTT-AA-AA
*
16951805 TTAAATTTAAAT
1 -TAAATTTAAAA
* ** *
16951817 TTAAGATAAATT
1 TAAATTTAAA-A
16951829 TAAATTT-AAA
1 TAAATTTAAAA
16951839 TAAATTTAAAA
1 TAAATTTAAAA
*
16951850 TCAATTTAAA
1 TAAATTTAAA
16951860 CTCTAAATTA
Statistics
Matches: 62, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
10 7 0.11
11 28 0.45
12 17 0.27
13 3 0.05
14 7 0.11
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:16951859 original size:17 final size:16
Alignment explanation
Indices: 16951760--16951848 Score: 110
Period size: 17 Copynumber: 5.4 Consensus size: 16
16951750 TTAAATTTGT
16951760 TTTATAATTTAAATTTAAA
1 TTTA-AATTTAAA--TAAA
16951779 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
*
16951796 TTTAAA--TAATTAAA
1 TTTAAATTTAAATAAA
16951810 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
16951827 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
16951843 TTTAAA
1 TTTAAA
16951849 ATCAATTTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 14 0.22
17 25 0.39
18 7 0.11
19 5 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:16953766 original size:21 final size:20
Alignment explanation
Indices: 16953724--16953768 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
16953714 CTTGTCATAT
**
16953724 TAATTTTAATCTCACTGTTA
1 TAATTTTAATCTCACTACTA
*
16953744 TAATTTTCAATCTCGCTACTA
1 TAATTTT-AATCTCACTACTA
16953765 TAAT
1 TAAT
16953769 AATTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (20 bp):
TAATTTTAATCTCACTACTA
Found at i:16957853 original size:43 final size:43
Alignment explanation
Indices: 16957805--16957894 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
16957795 ATAATGTAAT
* *
16957805 ATTTTATTATTAAATTAA-ATAAAAATAGTGAAAAATTTATCTA
1 ATTTTATTATTAAA-TAATATAAAAATAGTGAAAAATATATCCA
*
16957848 ATTTTATTATTAAATAATATAAAAATAGTGAAAGATATATCCA
1 ATTTTATTATTAAATAATATAAAAATAGTGAAAAATATATCCA
16957891 ATTT
1 ATTT
16957895 ATAAATAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 3 0.07
43 40 0.93
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (43 bp):
ATTTTATTATTAAATAATATAAAAATAGTGAAAAATATATCCA
Found at i:16958392 original size:89 final size:88
Alignment explanation
Indices: 16958221--16958392 Score: 227
Period size: 89 Copynumber: 1.9 Consensus size: 88
16958211 TAAAAAGCCT
* ** * * *
16958221 TCAAATTTTTTCAAAAAATAATTAAGTTCTTCCTTTTATTTTGCACTTAGTTGAATACTTGAACT
1 TCAAATTTTTTCAAAAAACAATTAAGCCCCTACTTTTATTTTGCACTTAATTGAATACTTGAACT
* *
16958286 TTCAATATGCATAAAAAATATCC
66 TTCAAAATACATAAAAAATATCC
* **
16958309 TCAAATTTTTTTTAAAAAACAATTAAGCCCCTACTTTTATTTTGCACTTAATTGGGTACTTGAAC
1 TCAAA-TTTTTTCAAAAAACAATTAAGCCCCTACTTTTATTTTGCACTTAATTGAATACTTGAAC
*
16958374 TTTCAAAATACATCAAAAA
65 TTTCAAAATACATAAAAAA
16958393 GACCCTTAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
88 5 0.07
89 66 0.93
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (88 bp):
TCAAATTTTTTCAAAAAACAATTAAGCCCCTACTTTTATTTTGCACTTAATTGAATACTTGAACT
TTCAAAATACATAAAAAATATCC
Found at i:16958415 original size:89 final size:91
Alignment explanation
Indices: 16958253--16958461 Score: 219
Period size: 89 Copynumber: 2.3 Consensus size: 91
16958243 TAAGTTCTTC
* ** * * * * * *
16958253 CTTTTATTTTGCACTTAGTTGAATACTTGAACTTTCAATATGCATAAAAAATATCCTCAAATTTT
1 CTTTTATTTTGCACTTAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAACTTA
****
16958318 TTTTAAAAAA-CAATTAAGCCCCT-A
66 AAAAAAAAAAGCAATTAAGCCCCTGA
* *
16958342 CTTTTATTTTGCACTTAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGACCCTTAAACTTA
1 CTTTTATTTTGCACTTAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAACTTA
*
16958407 AAAAAAAAAAGCAATTAAGCCCTTGA
66 AAAAAAAAAAGCAATTAAGCCCCTGA
* **
16958433 -TTAT-TTTTGCACTTAATAAGGTACTTGAA
1 CTTTTATTTTGCACTTAATTGGGTACTTGAA
16958462 TTGCCCCTAA
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
89 83 0.84
90 15 0.15
91 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (91 bp):
CTTTTATTTTGCACTTAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAACTTA
AAAAAAAAAAGCAATTAAGCCCCTGA
Found at i:16958610 original size:11 final size:11
Alignment explanation
Indices: 16958584--16958616 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
16958574 TTAAAATTTA
16958584 ATAATTTTTTT
1 ATAATTTTTTT
16958595 -T-ATTTTTTT
1 ATAATTTTTTT
16958604 ATAATTTTTTT
1 ATAATTTTTTT
16958615 AT
1 AT
16958617 CACATGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.40
10 2 0.10
11 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATAATTTTTTT
Found at i:16965172 original size:195 final size:195
Alignment explanation
Indices: 16964782--16965225 Score: 499
Period size: 195 Copynumber: 2.3 Consensus size: 195
16964772 AAACCGACGT
* * * *
16964782 GATGGCTAAGGTACCGCATATGTTGCGAGTCCTTGACAGCTCGTGTGAGCACCATCATGAGTCGA
1 GATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGACTCGA
* *
16964847 GAAATGAGAAAAGAATCCAAGAATGAATTACAGGCCCTACGATGATTGAGATTTATGCATAAGTG
66 GAAATGAGAAAAGAATCCAAGAATGAATTACAGGCCCTACGATGACTGAGATCTATGCATAAGTG
* * * * *
16964912 TATATTCTCAACAGCTCGTGTGAGCAGCATCATTAGGGAAGAGTTATATGCACAGATATCGTATC
131 TATACTCTCAACAGCTCGTGTGAGCAGCATCATTAGGGAACAGTTATATACACAGACACCGTATC
* * *
16964977 GATGGCTGAGGTACCGCATATGTTGCAAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCGG
1 GATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGACTCGA
* * * * * * * * * *
16965042 GAAA-GATATATGGATCCTA-AAT-AGATTATAGGCCCTACGATGGCTGGGA-CTATGCTTTA-T
66 GAAATGAGAAAAGAATCCAAGAATGA-ATTACAGGCCCTACGATGACTGAGATCTATGCATAAGT
** * *
16965102 -TCATACTCTTGACAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTTATAGTACAGACAGGCAC
130 GT-ATACTCTCAACAGCTCGTGTGAGCAGCATCATTAGGGAACAG-TTATA-TAC--ACAGACAC
16965166 CGTATC
190 CGTATC
* *
16965172 GATGGCTG-GG-ATCCGCATACGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCAT
1 GATGGCTGAGGTA-CCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCAT
16965226 TTAGTACTGG
Statistics
Matches: 211, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
190 1 0.00
191 38 0.18
192 13 0.06
193 27 0.13
194 51 0.24
195 81 0.38
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (195 bp):
GATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGACTCGA
GAAATGAGAAAAGAATCCAAGAATGAATTACAGGCCCTACGATGACTGAGATCTATGCATAAGTG
TATACTCTCAACAGCTCGTGTGAGCAGCATCATTAGGGAACAGTTATATACACAGACACCGTATC
Found at i:16971592 original size:49 final size:49
Alignment explanation
Indices: 16971538--16971639 Score: 195
Period size: 49 Copynumber: 2.1 Consensus size: 49
16971528 ATAATCTAAG
16971538 TAAATAATAATTTAATAAAAAAATACAACTTCAATTATAAGTACGAGTA
1 TAAATAATAATTTAATAAAAAAATACAACTTCAATTATAAGTACGAGTA
*
16971587 TAAATAATAATTTAATAAAAAAATACAACTTCAATTATAAGTAGGAGTA
1 TAAATAATAATTTAATAAAAAAATACAACTTCAATTATAAGTACGAGTA
16971636 TAAA
1 TAAA
16971640 GGTTGACAGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (49 bp):
TAAATAATAATTTAATAAAAAAATACAACTTCAATTATAAGTACGAGTA
Found at i:16980046 original size:17 final size:17
Alignment explanation
Indices: 16980024--16980133 Score: 103
Period size: 17 Copynumber: 6.3 Consensus size: 17
16980014 ACCAAACCAT
*
16980024 TTTAAATTTATTTTAAA
1 TTTAAAATTATTTTAAA
* *
16980041 TTTAAAATTAATTTAAG
1 TTTAAAATTATTTTAAA
* *
16980058 TTTAAATTTTTTTTAAAAA
1 TTTAAAATTATTTT--AAA
* *
16980077 TTTAAAATTAATTTAAG
1 TTTAAAATTATTTTAAA
* *
16980094 TTTAAATTTTTTTTAAAA
1 TTTAAAATTATTTT-AAA
*
16980112 TTTAAAATTATTATAAA
1 TTTAAAATTATTTTAAA
16980129 TTTAA
1 TTTAA
16980134 TTAAAAGTCC
Statistics
Matches: 72, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
17 46 0.64
18 13 0.18
19 13 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAAATTATTTTAAA
Found at i:16980112 original size:35 final size:35
Alignment explanation
Indices: 16980024--16980121 Score: 171
Period size: 36 Copynumber: 2.8 Consensus size: 35
16980014 ACCAAACCAT
*
16980024 TTTAAATTTATTTT-AAATTTAAAATTAATTTAAG
1 TTTAAATTTTTTTTAAAATTTAAAATTAATTTAAG
16980058 TTTAAATTTTTTTTAAAAATTTAAAATTAATTTAAG
1 TTTAAATTTTTTTT-AAAATTTAAAATTAATTTAAG
16980094 TTTAAATTTTTTTTAAAATTTAAAATTA
1 TTTAAATTTTTTTTAAAATTTAAAATTA
16980122 TTATAAATTT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
34 13 0.21
35 14 0.23
36 34 0.56
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (35 bp):
TTTAAATTTTTTTTAAAATTTAAAATTAATTTAAG
Found at i:16980171 original size:15 final size:15
Alignment explanation
Indices: 16980136--16980179 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
16980126 AAATTTAATT
*
16980136 AAAAGTCCAA--ATA
1 AAAAGTCCAATTACA
*
16980149 AAATGTCCAATTACA
1 AAAAGTCCAATTACA
16980164 AAAAGTCCAATTACA
1 AAAAGTCCAATTACA
16980179 A
1 A
16980180 TTTTTAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 9 0.35
15 17 0.65
ACGTcount: A:0.55, C:0.18, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAAGTCCAATTACA
Found at i:16980300 original size:20 final size:20
Alignment explanation
Indices: 16980275--16980313 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
16980265 CACTCAAAAT
16980275 AGCCCATAACCCTTAACCAA
1 AGCCCATAACCCTTAACCAA
16980295 AGCCCATAACCCTTAACCA
1 AGCCCATAACCCTTAACCA
16980314 CCCCTAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.41, G:0.05, T:0.15
Consensus pattern (20 bp):
AGCCCATAACCCTTAACCAA
Found at i:16980816 original size:2 final size:2
Alignment explanation
Indices: 16980809--16980850 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
16980799 AAATAAATAA
16980809 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
16980851 TAATAGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16981864 original size:30 final size:29
Alignment explanation
Indices: 16981804--16982087 Score: 188
Period size: 30 Copynumber: 9.6 Consensus size: 29
16981794 CTCTAAATTA
*
16981804 TCCAAAAA-TT-ATGTTTTTACCCTCAAACT
1 TCCAAAAATTTCAT-TTTTAACCC-CAAACT
16981833 TCCAAAAATTTCATTTTTAACCCCAAAACT
1 TCCAAAAATTTCATTTTTAACCCC-AAACT
** *
16981863 TCCAAAAATAACATTTTTACCCCCCAAACTT
1 TCCAAAAATTTCATTTTTA-ACCCCAAAC-T
* * **
16981894 TTC-AAAATTCCATTTTTAACCTCGTAACT
1 TCCAAAAATTTCATTTTTAACC-CCAAACT
* *
16981923 TCCCAAAATTACATTTTT-ACCCTCAAACT
1 TCCAAAAATTTCATTTTTAACCC-CAAACT
* * * *
16981952 TTCAAAAATTCCATTTTTGACCCCGAAGCT
1 TCCAAAAATTTCATTTTTAACCCC-AAACT
* * *
16981982 CCCAAAAATTACATTTTT-ACCCCTAAATT
1 TCCAAAAATTTCATTTTTAACCCC-AAACT
* **
16982011 TCAAAAAATCCCATTTTTAACCCCAAAACT
1 TCCAAAAATTTCATTTTTAACCCC-AAACT
* **
16982041 T-CTAAAATTTACCA-TTTT-ACCCCCGACT
1 TCCAAAAATTT--CATTTTTAACCCCAAACT
16982069 ATCCAAAAATTTCATTTTT
1 -TCCAAAAATTTCATTTTT
16982088 GATCCCAATT
Statistics
Matches: 202, Mismatches: 37, Indels: 32
0.75 0.14 0.12
Matches are distributed among these distances:
28 6 0.03
29 74 0.37
30 111 0.55
31 11 0.05
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTTCATTTTTAACCCCAAACT
Found at i:16982077 original size:59 final size:60
Alignment explanation
Indices: 16981804--16982175 Score: 273
Period size: 59 Copynumber: 6.3 Consensus size: 60
16981794 CTCTAAATTA
** * *
16981804 TCCAAAAATTA-TGTTTTTACCCTCAAAC-TTCCAAAAATTTCATTTTTAACCCCAAAACT
1 TCCAAAAATTACCATTTTTACCC-CCAACTTTCCAAAAATTCCATTTTTAACCCCAAAACT
* * * **
16981863 TCCAAAAA-TAACATTTTTACCCCCCAAACTTTTC-AAAATTCCATTTTTAACCTCGTAACT
1 TCCAAAAATTACCATTTTTA-CCCCC-AACTTTCCAAAAATTCCATTTTTAACCCCAAAACT
* * * * *
16981923 TCCCAAAATTA-CATTTTTACCCTCAAACTTT-CAAAAATTCCATTTTTGACCCCGAAGCT
1 TCCAAAAATTACCATTTTTACCC-CCAACTTTCCAAAAATTCCATTTTTAACCCCAAAACT
* * * * *
16981982 CCCAAAAATTA-CATTTTTACCCCTAAATTTCAAAAAATCCCATTTTTAACCCCAAAACT
1 TCCAAAAATTACCATTTTTACCCCCAACTTTCCAAAAATTCCATTTTTAACCCCAAAACT
* * * * * * * ***
16982041 TCTAAAATTTACCA-TTTTACCCCCGACTATCCAAAAATTTCATTTTTGATCCCAATTTT
1 TCCAAAAATTACCATTTTTACCCCCAACTTTCCAAAAATTCCATTTTTAACCCCAAAACT
* * * * * * **
16982100 TCTAAAAATTACC-GTTTTACCCCTGAA-TGTCC-AAAATTTCA-TTTTAACCCTAAATTT
1 TCCAAAAATTACCATTTTTACCCC-CAACTTTCCAAAAATTCCATTTTTAACCCCAAAACT
16982157 TCTCAAAAATTACCATTTT
1 TC-CAAAAATTACCATTTT
16982176 ATCTCCGAGA
Statistics
Matches: 252, Mismatches: 48, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
57 14 0.06
58 28 0.11
59 158 0.63
60 47 0.19
61 5 0.02
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (60 bp):
TCCAAAAATTACCATTTTTACCCCCAACTTTCCAAAAATTCCATTTTTAACCCCAAAACT
Found at i:16982107 original size:118 final size:114
Alignment explanation
Indices: 16981818--16982176 Score: 328
Period size: 118 Copynumber: 3.0 Consensus size: 114
16981808 AAAATTATGT
* *
16981818 TTTTACCCTCAAACTTCCAAAAATTTCATTTTTAACCCCAAAACTTCCAAAAATAACATTTTTAC
1 TTTTACCCTCAAACTTCCAAAAATTTCATTTTTGACCCC-AAACTTCCAAAAATTACATTTTTA-
* * ** *
16981883 CCCCCAAACTTTTCAAAATTCCATTTTTAACCTCGTAACTTCCCAAAATTA-CA
64 CCCCTAAA--TTTCAAAATTCCATTTTTAACCCCAAAACTT-CTAAAATTACCA
* * * *
16981936 TTTTTACCCTCAAACTTTCAAAAATTCCATTTTTGACCCCGAAGCTCCCAAAAATTACATTTTTA
1 -TTTTACCCTCAAACTTCCAAAAATTTCATTTTTGACCCC-AAACTTCCAAAAATTACATTTTTA
*
16982001 CCCCTAAATTTCAAAAAATCCCATTTTTAACCCCAAAACTTCTAAAATTTACCA
64 CCCCTAAATTTC--AAAATTCCATTTTTAACCCCAAAACTTCTAAAA-TTACCA
** * ** * **
16982055 TTTTACCC-CCGACTATCCAAAAATTTCATTTTTGATCCCAATTTTTCTAAAAATTACCGTTTTA
1 TTTTACCCTCAAACT-TCCAAAAATTTCATTTTTGACCCCAA-ACTTCCAAAAATTACATTTTTA
* * * * **
16982119 CCCCTGAATGTCCAAAATTTCA-TTTTAACCCTAAATTTTCTCAAAAATTACCA
64 CCCCTAAAT-TTCAAAATTCCATTTTTAACCCCAAAACTTCT--AAAATTACCA
16982172 TTTTA
1 TTTTA
16982177 TCTCCGAGAG
Statistics
Matches: 200, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
116 20 0.10
117 29 0.14
118 90 0.45
119 61 0.31
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.36
Consensus pattern (114 bp):
TTTTACCCTCAAACTTCCAAAAATTTCATTTTTGACCCCAAACTTCCAAAAATTACATTTTTACC
CCTAAATTTCAAAATTCCATTTTTAACCCCAAAACTTCTAAAATTACCA
Found at i:16982190 original size:58 final size:55
Alignment explanation
Indices: 16982022--16982195 Score: 163
Period size: 58 Copynumber: 3.0 Consensus size: 55
16982012 CAAAAAATCC
** *
16982022 CATTTTTAACCCCAAAACTTCTAAAATTTACCATTTTACCCCCGACTA-TCCAAAAATTT
1 CATTTTTAA-CCCAAATTTTCTAAAAATTACCATTTTA-CCCCGA--AGTCC-AAAATTT
* * *
16982081 CATTTTTGATCCCAATTTTTCTAAAAATTACCGTTTTACCCCTGAATGTCCAAAATTT
1 CATTTTT-AACCCAAATTTTCTAAAAATTACCATTTTACCCC-GAA-GTCCAAAATTT
*
16982139 CA-TTTTAACCCTAAATTTTCTCAAAAATTACCATTTTATCTCCGAGAGTCCAAAATT
1 CATTTTTAACCC-AAATTTTCT-AAAAATTACCATTTTA-CCCCGA-AGTCCAAAATT
16982196 ACCATTTAAC
Statistics
Matches: 97, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
56 4 0.04
57 13 0.13
58 40 0.41
59 39 0.40
60 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (55 bp):
CATTTTTAACCCAAATTTTCTAAAAATTACCATTTTACCCCGAAGTCCAAAATTT
Found at i:16982205 original size:58 final size:57
Alignment explanation
Indices: 16981985--16982202 Score: 165
Period size: 59 Copynumber: 3.7 Consensus size: 57
16981975 CGAAGCTCCC
* * * * * **
16981985 AAAAATTA-CATTTTTACCCCTAAATTTCAAAAAATCCCATTTTTAACCCCAAAACTTCT
1 AAAAATTACCA-TTTTACCCCTGAATGTC-CAAAATTCCA-TTTTAACCCTAAATTTTCT
* * * * * * *
16982044 AAAATTTACCATTTTACCCCCGACTATCCAAAAATTTCATTTTTGATCCC-AATTTTTCT
1 AAAAATTACCATTTTACCCCTGAATGTCC-AAAATTCCA-TTTT-AACCCTAAATTTTCT
* *
16982103 AAAAATTACCGTTTTACCCCTGAATGTCCAAAATTTCATTTTAACCCTAAATTTTCT
1 AAAAATTACCATTTTACCCCTGAATGTCCAAAATTCCATTTTAACCCTAAATTTTCT
*
16982160 CAAAAATTACCATTTTATCTCC-GAGA-GTCCAAAATTACCATTT
1 -AAAAATTACCATTTTA-CCCCTGA-ATGTCCAAAATT-CCATTT
16982203 AACTCCGATT
Statistics
Matches: 129, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
56 4 0.03
57 12 0.09
58 36 0.28
59 71 0.55
60 6 0.05
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (57 bp):
AAAAATTACCATTTTACCCCTGAATGTCCAAAATTCCATTTTAACCCTAAATTTTCT
Found at i:16988343 original size:65 final size:65
Alignment explanation
Indices: 16988239--16988366 Score: 220
Period size: 65 Copynumber: 2.0 Consensus size: 65
16988229 TTACTTGGTG
*
16988239 CAGGAATTTGGCTCTTGATAACTAAAATTTAGATTGCAGGTTGAAGGGTGGATTAAAGGCTGAAA
1 CAGGAATTTAGCTCTTGATAACTAAAATTTAGATTGCAGGTTGAAGGGTGGATTAAAGGCTGAAA
* * *
16988304 CAGGAATTTAGCTCTTGATAACTGAACTTTAGATTGCAGGTTGAAGGGTGGATTCAAGGCTGA
1 CAGGAATTTAGCTCTTGATAACTAAAATTTAGATTGCAGGTTGAAGGGTGGATTAAAGGCTGA
16988367 GAAGTTTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (65 bp):
CAGGAATTTAGCTCTTGATAACTAAAATTTAGATTGCAGGTTGAAGGGTGGATTAAAGGCTGAAA
Found at i:17000327 original size:16 final size:16
Alignment explanation
Indices: 17000306--17000360 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
17000296 GTTTGGTTGG
*
17000306 CTGTAATGGAATAGAA
1 CTGTAATGAAATAGAA
*
17000322 CTGTAATGAAATAGAG
1 CTGTAATGAAATAGAA
* *
17000338 CTGTAATAAAATAGGA
1 CTGTAATGAAATAGAA
17000354 CTGTAAT
1 CTGTAAT
17000361 CAATAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (16 bp):
CTGTAATGAAATAGAA
Found at i:17000549 original size:11 final size:11
Alignment explanation
Indices: 17000535--17000576 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
17000525 ATTATTAAAT
17000535 ATAATTTAATA
1 ATAATTTAATA
*
17000546 ATAA-ATAATAA
1 ATAATTTAAT-A
*
17000557 ATAATTTAATT
1 ATAATTTAATA
17000568 ATAATTTAA
1 ATAATTTAA
17000577 CATAATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 4 0.15
11 18 0.69
12 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAATTTAATA
Found at i:17010782 original size:2 final size:2
Alignment explanation
Indices: 17010775--17010821 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
17010765 ATTCGATTGG
17010775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17010817 TA TA T
1 TA TA T
17010822 TCATTCCGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17013565 original size:29 final size:30
Alignment explanation
Indices: 17013522--17013586 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
17013512 TAAAAGTTGG
17013522 TAAAAACAATAAATTTAGGCCCTTAAAAAC
1 TAAAAACAATAAATTTAGGCCCTTAAAAAC
* *
17013552 TAAAAACAA-AAATTTGGGCCCTTAAAAAT
1 TAAAAACAATAAATTTAGGCCCTTAAAAAC
17013581 TAAAAA
1 TAAAAA
17013587 ATAAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 24 0.73
30 9 0.27
ACGTcount: A:0.55, C:0.14, G:0.08, T:0.23
Consensus pattern (30 bp):
TAAAAACAATAAATTTAGGCCCTTAAAAAC
Found at i:17014345 original size:20 final size:21
Alignment explanation
Indices: 17014322--17014370 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
17014312 TTTAAATTAT
17014322 TATAATAAAT-TTAAAAAATA
1 TATAATAAATATTAAAAAATA
**
17014342 TATAA-ATTTATTAAAAAATA
1 TATAATAAATATTAAAAAATA
*
17014362 TAAAATAAA
1 TATAATAAA
17014371 ATAAAATAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.09
20 19 0.86
21 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TATAATAAATATTAAAAAATA
Found at i:17014357 original size:18 final size:17
Alignment explanation
Indices: 17014326--17014383 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
17014316 AATTATTATA
*
17014326 ATAAATTTAAAAAATAT
1 ATAAATTTAAAAAAAAT
*
17014343 ATAAATTTATTAAAAAAT
1 ATAAATTTA-AAAAAAAT
*
17014361 ATAAA-ATAAAATAAAAT
1 ATAAATTTAAAA-AAAAT
17014378 AATAAA
1 -ATAAA
17014384 AATATAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 2 0.06
17 16 0.47
18 16 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATTTAAAAAAAAT
Found at i:17014360 original size:29 final size:29
Alignment explanation
Indices: 17014306--17014366 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
17014296 ACTTAAGCTT
* *
17014306 AAAAATTTTAAATTATTATAATAAATTTA
1 AAAAATTATAAATTATTATAATAAATATA
17014335 AAAAATATATAAATTTATTA-AA-AAATATA
1 AAAAAT-TATAAA-TTATTATAATAAATATA
17014364 AAA
1 AAA
17014367 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 15 0.54
30 7 0.25
31 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTATAAATTATTATAATAAATATA
Found at i:17014754 original size:21 final size:21
Alignment explanation
Indices: 17014701--17014754 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17014691 TTTTTATATT
*
17014701 TTTATAA-ATTTTTATAATAA
1 TTTATAATATTTTCATAATAA
* *
17014721 TTTCAT-GTTTTTTCATAATAA
1 TTT-ATAATATTTTCATAATAA
17014742 TTTATAATATTTT
1 TTTATAATATTTT
17014755 TATAGTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTATAATATTTTCATAATAA
Found at i:17014765 original size:31 final size:30
Alignment explanation
Indices: 17014690--17014765 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
17014680 AGTTTCTATA
*
17014690 ATTTTTATATTTTT-ATAAATTTTTATAAT
1 ATTTTTATATTTTTCATAAATATTTATAAT
* * *
17014719 AATTTCATGTTTTTTCAT-AATAATTTATAAT
1 ATTTTTAT-ATTTTTCATAAAT-ATTTATAAT
17014750 ATTTTTATAGTTTTTC
1 ATTTTTATA-TTTTTC
17014766 TATCTTTCTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
29 6 0.17
30 8 0.22
31 22 0.61
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (30 bp):
ATTTTTATATTTTTCATAAATATTTATAAT
Found at i:17018386 original size:24 final size:25
Alignment explanation
Indices: 17018354--17018401 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
17018344 TTTTTACTTT
* *
17018354 ACATTAATTT-CCTCCCAACCCCCA
1 ACATAAATTTGCCTCCCAAACCCCA
*
17018378 ACATAAATTTGCCTCTCAAACCCC
1 ACATAAATTTGCCTCCCAAACCCC
17018402 TCCCCACACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.31, C:0.42, G:0.02, T:0.25
Consensus pattern (25 bp):
ACATAAATTTGCCTCCCAAACCCCA
Found at i:17019698 original size:21 final size:19
Alignment explanation
Indices: 17019665--17019706 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
17019655 ATTTTTATTG
17019665 AAATTTATTTTAAATATGT
1 AAATTTATTTTAAATATGT
*
17019684 AAATTGTATATTTAAATTTGT
1 AAATT-TAT-TTTAAATATGT
17019705 AA
1 AA
17019707 TAGTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 12 0.60
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
AAATTTATTTTAAATATGT
Found at i:17022280 original size:30 final size:29
Alignment explanation
Indices: 17022227--17022306 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
17022217 AAATTAAATT
*
17022227 TTTTGGAAAATTTGGGAT-TAAAAT-TGAAC
1 TTTTGGAAAATTTGGG-TCAAAAATGTG-AC
17022256 TTTTGGAAAATTTGAGGTCAAAAATGTGAC
1 TTTTGGAAAATTTG-GGTCAAAAATGTGAC
*
17022286 TTTTGG-AAATTTGGGGCAAAA
1 TTTTGGAAAATTTGGGTCAAAA
17022307 TGGTAATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
28 7 0.15
29 22 0.48
30 15 0.33
31 2 0.04
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (29 bp):
TTTTGGAAAATTTGGGTCAAAAATGTGAC
Found at i:17022366 original size:29 final size:28
Alignment explanation
Indices: 17022330--17022831 Score: 317
Period size: 29 Copynumber: 17.5 Consensus size: 28
17022320 ATATTCGGGG
17022330 TAAAATGTAATTTTGGGAAAGTTTAGGGT
1 TAAAATGTAATTTT-GGAAAGTTTAGGGT
* *
17022359 TAAAATGTAATTTTGGAAAATTTTGAGGT
1 TAAAATGTAATTTTGGAAAGTTTAG-GGT
*
17022388 TAAAATGCAATTTTGGAGAAGTTTA-GG-
1 TAAAATGTAATTTTGGA-AAGTTTAGGGT
*
17022415 ------GTAATTTTGGAAAAGATTAAGGGT
1 TAAAATGTAATTTTGG-AAAG-TTTAGGGT
* *
17022439 TAAAATGTAATTTTGAAGAAGTTTTGGGT
1 TAAAATGTAATTTTGGA-AAGTTTAGGGT
* * * **
17022468 TAAAATATAATTTTAGAGAAGTTCGAGGAC
1 TAAAATGTAATTTTGGA-AAGTT-TAGGGT
* * * *
17022498 AAAAATATAATTTTGAAGAAGTTTGGGGT
1 TAAAATGTAATTTTGGA-AAGTTTAGGGT
*
17022527 TAAAATGTAATTTTAGAAAAGTTTTAGGGT
1 TAAAATGTAATTTT-GGAAAG-TTTAGGGT
* *
17022557 TCAAAATGTGATTTTGGAGAAGTTTAAGGT
1 T-AAAATGTAATTTTGGA-AAGTTTAGGGT
* * *
17022587 CAAAATGTAATTTTAGAGATGTTTA-GG-
1 TAAAATGTAATTTTGGA-AAGTTTAGGGT
17022614 -ACAAATGTAATTTTGGGAAAGTTTAGGGT
1 TA-AAATGTAATTTT-GGAAAGTTTAGGGT
* * *
17022643 TAAAATGTAATTTTAGAAAATTTTAGGAT
1 TAAAATGTAATTTT-GGAAAGTTTAGGGT
* * * *
17022672 TAAAATGTGATTTTAGAGAAGTTCAAGGT
1 TAAAATGTAATTTTGGA-AAGTTTAGGGT
* ** *
17022701 CAAAATGTAATTTCAGAGAAGATTAAGGGT
1 TAAAATGTAATTTTGGA-AAG-TTTAGGGT
*
17022731 TAAAATGTAATGTTT-TAGAAGTTTAGGGT
1 TAAAATGTAAT-TTTGGA-AAGTTTAGGGT
* * *
17022760 CAAAATGTAATGTTGGAAAAGTTTTGGGT
1 TAAAATGTAATTTTGG-AAAGTTTAGGGT
* * * * *
17022789 CAAAATATGATTTTGGGAAGTCTTAAGGT
1 TAAAATGTAATTTTGGAAAGT-TTAGGGT
* *
17022818 CAAAATGTGATTTT
1 TAAAATGTAATTTT
17022832 AAAACAAAGC
Statistics
Matches: 377, Mismatches: 67, Indels: 58
0.75 0.13 0.12
Matches are distributed among these distances:
21 12 0.03
22 4 0.01
23 2 0.01
26 1 0.00
27 18 0.05
28 24 0.06
29 217 0.58
30 82 0.22
31 17 0.05
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.36
Consensus pattern (28 bp):
TAAAATGTAATTTTGGAAAGTTTAGGGT
Found at i:17022446 original size:80 final size:79
Alignment explanation
Indices: 17022336--17022490 Score: 224
Period size: 80 Copynumber: 1.9 Consensus size: 79
17022326 GGGGTAAAAT
* * *
17022336 GTAATTTTGGGAAAGTTTAGGGTTAAAATGTAATTTTGGAA-AA-TTTTGAGGTTAAAATGCAAT
1 GTAATTTTGGAAAAGTTAAGGGTTAAAATGTAATTTT-GAAGAAGTTTTG-GGTTAAAATACAAT
*
17022399 TTTGGAGAAGTTTAGG
64 TTTAGAGAAGTTTAGG
*
17022415 GTAATTTTGGAAAAGATTAAGGGTTAAAATGTAATTTTGAAGAAGTTTTGGGTTAAAATATAATT
1 GTAATTTTGGAAAAG-TTAAGGGTTAAAATGTAATTTTGAAGAAGTTTTGGGTTAAAATACAATT
17022480 TTAGAGAAGTT
65 TTAGAGAAGTT
17022491 CGAGGACAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
79 17 0.25
80 46 0.68
81 5 0.07
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.38
Consensus pattern (79 bp):
GTAATTTTGGAAAAGTTAAGGGTTAAAATGTAATTTTGAAGAAGTTTTGGGTTAAAATACAATTT
TAGAGAAGTTTAGG
Found at i:17022451 original size:51 final size:50
Alignment explanation
Indices: 17022365--17022467 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 50
17022355 GGGTTAAAAT
** * *
17022365 GTAATTTTGGAAAATTTTGAGGTTAAAATGCAATTTTGGAGAAGTTTAGG
1 GTAATTTTGGAAAAGATTAAGGTTAAAATGCAATTTTGAAGAAGTTTAGG
* *
17022415 GTAATTTTGGAAAAGATTAAGGGTTAAAATGTAATTTTGAAGAAGTTTTGG
1 GTAATTTTGGAAAAGATTAA-GGTTAAAATGCAATTTTGAAGAAGTTTAGG
17022466 GT
1 GT
17022468 TAAAATATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 17 0.37
51 29 0.63
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (50 bp):
GTAATTTTGGAAAAGATTAAGGTTAAAATGCAATTTTGAAGAAGTTTAGG
Found at i:17022509 original size:59 final size:57
Alignment explanation
Indices: 17022440--17022832 Score: 301
Period size: 59 Copynumber: 6.8 Consensus size: 57
17022430 ATTAAGGGTT
* * *
17022440 AAAATGTAATTTTGAAGAAGTTTTGGGTTAAAATATAATTTTAGAGAAGTTCGAGGAC
1 AAAATGTAATTTTGAAGAAGTTTAGGGTTAAAATGTAATTTTAGAGAAGTT-TAGGAC
* * * *
17022498 AAAAATATAATTTTGAAGAAGTTTGGGGTTAAAATGTAATTTTAGAAAAGTTTTAGGGTTC
1 -AAAATGTAATTTTGAAGAAGTTTAGGGTTAAAATGTAATTTTAGAGAAG-TTTA-GG-AC
* * * * *
17022559 AAAATGTGATTTTGGAGAAGTTTAAGGTCAAAATGTAATTTTAGAGATGTTTAGGAC
1 AAAATGTAATTTTGAAGAAGTTTAGGGTTAAAATGTAATTTTAGAGAAGTTTAGGAC
* * * *
17022616 -AAATGTAATTTTG-GGAAAGTTTAGGGTTAAAATGTAATTTTAGAAAATTTTAGGATT
1 AAAATGTAATTTTGAAG-AAGTTTAGGGTTAAAATGTAATTTTAGAGAAGTTTAGGA-C
* * * * * * **
17022673 AAAATGTGATTTT-AGAGAAGTTCAAGGTCAAAATGTAATTTCAGAGAAGATTAAGGGTT
1 AAAATGTAATTTTGA-AGAAGTTTAGGGTTAAAATGTAATTTTAGAGAAG-TTTA-GGAC
* * * * * * *
17022732 AAAATGTAATGTTT-TAGAAGTTTAGGGTCAAAATGTAATGTTGGAAAAGTTTTGGGTC
1 AAAATGTAAT-TTTGAAGAAGTTTAGGGTTAAAATGTAATTTTAGAGAAG-TTTAGGAC
* * * * * *
17022790 AAAATATGATTTTG-GGAAGTCTTAAGGTCAAAATGTGATTTTA
1 AAAATGTAATTTTGAAGAAGT-TTAGGGTTAAAATGTAATTTTA
17022833 AAACAAAGCA
Statistics
Matches: 269, Mismatches: 52, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
55 1 0.00
56 46 0.17
57 9 0.03
58 68 0.25
59 94 0.35
60 50 0.19
61 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (57 bp):
AAAATGTAATTTTGAAGAAGTTTAGGGTTAAAATGTAATTTTAGAGAAGTTTAGGAC
Found at i:17022790 original size:88 final size:86
Alignment explanation
Indices: 17022415--17022794 Score: 270
Period size: 88 Copynumber: 4.3 Consensus size: 86
17022405 GAAGTTTAGG
* * * * * * *
17022415 GTAATTTTGGAAAAGATTAAGGGTTAAAATGTAATTTTGAAGAAG-TTTTGGGTTAAAATATAAT
1 GTAATTTTAGAAAAGTTTTA-GGTCAAAATGTAATTTAG-AGAAGATTTAGGGTTAAAATGTAAT
* * *
17022479 TTTAGAGAAG-TTCGAGGACAAAAAT
64 TTT-TAGAAGTTTAG-GGTC-AAAAT
* ** * * * *
17022504 ATAATTTT-GAAGAAGTTTGGGGTTAAAATGTAATTTTAGAAAAGTTTTAGGGTTCAAAATGTGA
1 GTAATTTTAGAA-AAGTTTTAGGTCAAAATGTAA-TTTAGAGAAGATTTAGGGTT-AAAATGTAA
* *
17022568 TTTTGGAGAAGTTTAAGGTCAAAAT
63 TTTT-TAGAAGTTTAGGGTCAAAAT
* * * * *
17022593 GTAATTTTAGAGATG-TTTAGGAC-AAATGTAATTTTGGGAA-AGTTTAGGGTTAAAATGTAA-T
1 GTAATTTTAGAAAAGTTTTAGGTCAAAATGTAATTTAGAGAAGA-TTTAGGGTTAAAATGTAATT
* * *
17022654 TTTAGAAAATTTTAGGATTAAAAT
65 TTTAG--AAGTTTAGGGTCAAAAT
* * ** *
17022678 GTGATTTTAGAGAAGTTCAAGGTCAAAATGTAATTTCAGAGAAGATTAAGGGTTAAAATGTAATG
1 GTAATTTTAGAAAAGTTTTAGGTCAAAATGTAATTT-AGAGAAGATTTAGGGTTAAAATGTAAT-
17022743 TTTTAGAAGTTTAGGGTCAAAAT
64 TTTTAGAAGTTTAGGGTCAAAAT
* * *
17022766 GTAATGTTGGAAAAGTTTTGGGTCAAAAT
1 GTAATTTTAGAAAAGTTTTAGGTCAAAAT
17022795 ATGATTTTGG
Statistics
Matches: 228, Mismatches: 48, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
83 2 0.01
84 3 0.01
85 34 0.15
86 20 0.09
87 19 0.08
88 81 0.36
89 39 0.17
90 28 0.12
91 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.36
Consensus pattern (86 bp):
GTAATTTTAGAAAAGTTTTAGGTCAAAATGTAATTTAGAGAAGATTTAGGGTTAAAATGTAATTT
TTAGAAGTTTAGGGTCAAAAT
Found at i:17022800 original size:117 final size:113
Alignment explanation
Indices: 17022415--17022830 Score: 433
Period size: 117 Copynumber: 3.6 Consensus size: 113
17022405 GAAGTTTAGG
* * * * * ** * *
17022415 GTAATTTTGGAAAAGATTAAGGGTTAAAATGTAATTTTGAAGAAGTTTTGGGTTAAAATATAATT
1 GTAATTTTAGAAAAGTTTTAGGGTCAAAATGTGATTTTG-AGAAGTTTAAGGTCAAAATGTAATT
* * * *
17022480 TTAGAGAAGTTCGAGGACAAAAATATAATTTTGAAGAAGTTTGGGGTTAAAAT
65 TCAGAGAAGTT-AAGGAC--AAATGTAATTTTG-AGAAGTTTAGGGTTAAAAT
17022533 GTAATTTTAGAAAAGTTTTAGGGTTCAAAATGTGATTTTGGAGAAGTTTAAGGTCAAAATGTAAT
1 GTAATTTTAGAAAAGTTTTAGGG-TCAAAATGTGATTTT-GAGAAGTTTAAGGTCAAAATGTAAT
* * * *
17022598 TTTAGAGATGTTTAGGACAAATGTAATTTTGGGAAAGTTTAGGGTTAAAAT
64 TTCAGAGAAGTTAAGGACAAATGTAATTTTGAG-AAGTTTAGGGTTAAAAT
* * *
17022649 GTAATTTTAGAAAA-TTTTAGGATTAAAATGTGATTTTAGAGAAGTTCAAGGTCAAAATGTAATT
1 GTAATTTTAGAAAAGTTTTAGGGTCAAAATGTGATTTT-GAGAAGTTTAAGGTCAAAATGTAATT
* *
17022713 TCAGAGAAGATTAAGGGTTA-AAATGTAATGTTTTAGAAGTTTAGGGTCAAAAT
65 TCAGAGAAG-TTAA-GG--ACAAATGTAAT-TTTGAGAAGTTTAGGGTTAAAAT
* * * * *
17022766 GTAATGTTGGAAAAGTTTT-GGGTCAAAATATGATTTTGGGAAGTCTTAAGGTCAAAATGTGATT
1 GTAATTTTAGAAAAGTTTTAGGGTCAAAATGTGATTTTGAGAAGT-TTAAGGTCAAAATGTAATT
17022830 T
65 T
17022831 TAAAACAAAG
Statistics
Matches: 256, Mismatches: 32, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
114 46 0.18
115 11 0.04
116 50 0.20
117 70 0.27
118 34 0.13
119 44 0.17
120 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (113 bp):
GTAATTTTAGAAAAGTTTTAGGGTCAAAATGTGATTTTGAGAAGTTTAAGGTCAAAATGTAATTT
CAGAGAAGTTAAGGACAAATGTAATTTTGAGAAGTTTAGGGTTAAAAT
Found at i:17024449 original size:27 final size:28
Alignment explanation
Indices: 17024400--17024459 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
17024390 GGCTGAAGAA
* * *
17024400 GGAAAGAATGGGTTTTGT-TTTTTTAAT
1 GGAAAGAATGGATTATGTCTTTTCTAAT
17024427 GGAAAGAATGGATTATGTCTTTTCTAAT
1 GGAAAGAATGGATTATGTCTTTTCTAAT
17024455 GGAAA
1 GGAAA
17024460 TAATCAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.40
Consensus pattern (28 bp):
GGAAAGAATGGATTATGTCTTTTCTAAT
Found at i:17024786 original size:30 final size:30
Alignment explanation
Indices: 17024752--17024879 Score: 143
Period size: 30 Copynumber: 4.3 Consensus size: 30
17024742 AAAATCATTT
17024752 TTTGACCCTTAAAGTTTT-CAAAAATTCAAA
1 TTTGACCCTTAAA-TTTTCCAAAAATTCAAA
**
17024782 TTTGACCCTCGAATTTTCCAAAAATTCAAA
1 TTTGACCCTTAAATTTTCCAAAAATTCAAA
* * *
17024812 TTTAACCCCTAAATTTTCCAAAAATTCAAC
1 TTTGACCCTTAAATTTTCCAAAAATTCAAA
* * * *
17024842 TCTAACCCTTACAGTTTT-CAAAAATTAAAA
1 TTTGACCCTTA-AATTTTCCAAAAATTCAAA
17024872 TTTGACCC
1 TTTGACCC
17024880 CGTTTTAATG
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.05
30 73 0.89
31 5 0.06
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (30 bp):
TTTGACCCTTAAATTTTCCAAAAATTCAAA
Found at i:17029294 original size:56 final size:56
Alignment explanation
Indices: 17029220--17029335 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
17029210 CAGTTTGGCT
*
17029220 GGATTAGCTTCAAAGTGGTATAATCAATTGAGTCGTGCCAAGATCAGTTCTTGAAA
1 GGATCAGCTTCAAAGTGGTATAATCAATTGAGTCGTGCCAAGATCAGTTCTTGAAA
17029276 GGATCAGCTTCAAAGTGGTATAATCAATTGAGTCGTGCCAAGATCAGTTCTTGAAA
1 GGATCAGCTTCAAAGTGGTATAATCAATTGAGTCGTGCCAAGATCAGTTCTTGAAA
17029332 GGAT
1 GGAT
17029336 TTGGCACAGG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (56 bp):
GGATCAGCTTCAAAGTGGTATAATCAATTGAGTCGTGCCAAGATCAGTTCTTGAAA
Found at i:17036517 original size:50 final size:50
Alignment explanation
Indices: 17036458--17036556 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
17036448 AGATGCAAAT
*
17036458 TGAAACCGCAATAGAAAATCTAATACACCTAAAGTTGTAGAGGGACAGAA
1 TGAAACCGCAATAGAAAATCTAATACACCTAAAGCTGTAGAGGGACAGAA
* * * * * * *
17036508 TGAAGCCGCAATGGCAAATCTCATTCACTTAAAGCTGTAGAGGGGCAGA
1 TGAAACCGCAATAGAAAATCTAATACACCTAAAGCTGTAGAGGGACAGA
17036557 TTAAAGTTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (50 bp):
TGAAACCGCAATAGAAAATCTAATACACCTAAAGCTGTAGAGGGACAGAA
Found at i:17036683 original size:40 final size:39
Alignment explanation
Indices: 17036616--17036709 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 39
17036606 AGTTACATCC
* * * *
17036616 TCCAATCTCTTATCCTAATCAGAGGGCAGATTGAAGACCA
1 TCCAATCTCTTACCCCAATCAGAGGGCAGAATGAA-ACAA
*
17036656 TCCAATCTCTTACCCCGATCATG-GGGCAGAATGAAACAA
1 TCCAATCTCTTACCCCAATCA-GAGGGCAGAATGAAACAA
* *
17036695 TTCAATCTTTTACCC
1 TCCAATCTCTTACCC
17036710 TTAAAGTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 16 0.35
40 29 0.63
41 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (39 bp):
TCCAATCTCTTACCCCAATCAGAGGGCAGAATGAAACAA
Found at i:17037963 original size:28 final size:26
Alignment explanation
Indices: 17037906--17037964 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
17037896 GGTTGAAGAA
* *
17037906 GGAAAGAATGGGTTTTGTTTTTAAAT
1 GGAAAGAATGGGTTGTCTTTTTAAAT
*
17037932 GGAAAGAATGGGTTACGTCTTTTTTAAT
1 GGAAAGAATGGGTT--GTCTTTTTAAAT
17037960 GGAAA
1 GGAAA
17037965 TAATTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.50
28 14 0.50
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.37
Consensus pattern (26 bp):
GGAAAGAATGGGTTGTCTTTTTAAAT
Found at i:17038286 original size:30 final size:29
Alignment explanation
Indices: 17038247--17038375 Score: 127
Period size: 30 Copynumber: 4.3 Consensus size: 29
17038237 TAAAATCATT
17038247 TTTTGACCCCCAAAGTTTT-CAAAAATTTAAA
1 TTTT-ACCCCCAAA-TTTTCCAAAAA-TTAAA
17038278 TTTTACCCCCAAATTTTCCAAAAATTCAAA
1 TTTTACCCCCAAATTTTCCAAAAATT-AAA
* ** *
17038308 TTTCACCCTTAAATTTTCCAAAAATTCAA
1 TTTTACCCCCAAATTTTCCAAAAATTAAA
* * *
17038337 GTTAACCCCTAAAGTTTT-CAAAAATTAAA
1 TTTTACCCCCAAA-TTTTCCAAAAATTAAA
17038366 TTTTGACCCC
1 TTTT-ACCCC
17038376 GTTTTAATGT
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
29 30 0.36
30 50 0.60
31 4 0.05
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (29 bp):
TTTTACCCCCAAATTTTCCAAAAATTAAA
Found at i:17039203 original size:11 final size:11
Alignment explanation
Indices: 17039181--17039230 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
17039171 CAAATCTCTT
17039181 TTTATT-AATA
1 TTTATTAAATA
17039191 TTTATTAAATA
1 TTTATTAAATA
*
17039202 -TTA-TAATTA
1 TTTATTAAATA
**
17039211 TTTATTATTTA
1 TTTATTAAATA
17039222 TTTATTAAA
1 TTTATTAAA
17039231 ACGTTTAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 5 0.15
10 12 0.36
11 16 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATTAAATA
Found at i:17039688 original size:21 final size:20
Alignment explanation
Indices: 17039657--17039700 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
17039647 GTTTGTAAAA
17039657 TTTGGATTTTGGATTTGGAC
1 TTTGGATTTTGGATTTGGAC
*
17039677 TTTGGAATTTTGTATTTGGAC
1 TTTGG-ATTTTGGATTTGGAC
17039698 TTT
1 TTT
17039701 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.16, C:0.05, G:0.25, T:0.55
Consensus pattern (20 bp):
TTTGGATTTTGGATTTGGAC
Found at i:17040951 original size:28 final size:28
Alignment explanation
Indices: 17040910--17040972 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
17040900 AATGGTAAGT
17040910 TTGATTTATATGTTTGAGATATGTATTGG
1 TTGA-TTATATGTTTGAGATATGTATTGG
17040939 TTGATTATATGTTTGAGATATGTATTGG
1 TTGATTATATGTTTGAGATATGTATTGG
17040967 TTGATT
1 TTGATT
17040973 TGGTTCATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (28 bp):
TTGATTATATGTTTGAGATATGTATTGG
Found at i:17042612 original size:21 final size:20
Alignment explanation
Indices: 17042586--17042642 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
17042576 AAAATATTTG
*
17042586 TTTTTATTTTATTTTTTCACA
1 TTTTTATTTT-TTTTTTCAAA
*
17042607 TTTTTATTTTTTTATTTTAAA
1 TTTTTATTTTTTT-TTTCAAA
*
17042628 TTTATATTTTTTTTT
1 TTTTTATTTTTTTTT
17042643 AATATGTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTATTTTTTTTTTCAAA
Found at i:17042631 original size:19 final size:18
Alignment explanation
Indices: 17042609--17042644 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
17042599 TTTTCACATT
*
17042609 TTTATTTTTTTATTTTAAA
1 TTTATATTTTT-TTTTAAA
17042628 TTTATATTTTTTTTTAA
1 TTTATATTTTTTTTTAA
17042645 TATGTTGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATATTTTTTTTTAAA
Found at i:17045611 original size:157 final size:158
Alignment explanation
Indices: 17045343--17045659 Score: 453
Period size: 157 Copynumber: 2.0 Consensus size: 158
17045333 GCCTAAACTA
* *
17045343 CCTTTTTCTTTTAAGTGACTAAGGTTCATATTCTAAATAAAACTCAATAGCCTAAAAGTCCAAAC
1 CCTTTTTCTTTGAAGTGACTAAGGTTCATATTCTAAATAAAACTCAATAGCCTAAAAGGCCAAAC
* * * *
17045408 AGTATAAAACTATAAGTACGGATTATGCTAGATTGCTAATAACAGAAAGCTGTTCTTAATTCAAA
66 AGTATAAAACTATAAGTACGGATTATACTAGATTGCTAACAACAGAAAGCTGTTCTCAACTCAAA
* *
17045473 TACACCTGTC-AATAAATTCTGAACCCC
131 TACACCTGTCAAATAAATACTGAACACC
17045500 CCTTTTTCTTTGAAGTGACTAAGGTTCATATT-TAAATAAAACTCAATAGCCTAAAAGGCCAAAC
1 CCTTTTTCTTTGAAGTGACTAAGGTTCATATTCTAAATAAAACTCAATAGCCTAAAAGGCCAAAC
* * * *
17045564 ATTATAAAACTATTAA-TATGGA-TATCACTAGGTTTCTCAACAACAGAAAGCTGTTCTCAACTC
66 AGTATAAAACTA-TAAGTACGGATTAT-ACTAGATTGCT-AACAACAGAAAGCTGTTCTCAACTC
* *
17045627 AAATGCACCTGTCAAATTAATACTGAACACC
128 AAATACACCTGTCAAATAAATACTGAACACC
17045658 CC
1 CC
17045660 ACCCTCCCAA
Statistics
Matches: 142, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
155 3 0.02
156 55 0.39
157 68 0.48
158 16 0.11
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (158 bp):
CCTTTTTCTTTGAAGTGACTAAGGTTCATATTCTAAATAAAACTCAATAGCCTAAAAGGCCAAAC
AGTATAAAACTATAAGTACGGATTATACTAGATTGCTAACAACAGAAAGCTGTTCTCAACTCAAA
TACACCTGTCAAATAAATACTGAACACC
Found at i:17051478 original size:16 final size:17
Alignment explanation
Indices: 17051457--17051494 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17051447 TCTTAAAATT
*
17051457 TATATTAACGTATA-AA
1 TATATTAACATATATAA
*
17051473 TATATTTACATATATAA
1 TATATTAACATATATAA
17051490 TATAT
1 TATAT
17051495 ACAGAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (17 bp):
TATATTAACATATATAA
Found at i:17066779 original size:19 final size:20
Alignment explanation
Indices: 17066736--17066779 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
17066726 TCTAAAAAGA
*
17066736 TATTTAAATTTTTATAACAT
1 TATTTTAATTTTTATAACAT
*
17066756 T-TTTTAATTTTTAT-ATAT
1 TATTTTAATTTTTATAACAT
17066774 TATTTT
1 TATTTT
17066780 GACTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 16 0.76
20 1 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTTAATTTTTATAACAT
Found at i:17066821 original size:31 final size:28
Alignment explanation
Indices: 17066761--17066821 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
17066751 AACATTTTTT
*
17066761 AATTTTTATATATTATTTTGACTTTTAA
1 AATTTTAATATATTATTTTGACTTTTAA
17066789 AATTTTAACTATA-TATTTTAGAACTTTATAA
1 AATTTTAA-TATATTATTTT-G-ACTTT-TAA
17066820 AA
1 AA
17066822 AAGTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 13 0.46
29 5 0.18
30 5 0.18
31 5 0.18
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.52
Consensus pattern (28 bp):
AATTTTAATATATTATTTTGACTTTTAA
Found at i:17066852 original size:2 final size:2
Alignment explanation
Indices: 17066847--17066875 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17066837 TTTTTTTATT
17066847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17066876 GTGTGTGTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17067038 original size:8 final size:7
Alignment explanation
Indices: 17067022--17067079 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
17067012 AAAAGTATTT
17067022 TTTAATA
1 TTTAATA
17067029 TTTAAATA
1 TTT-AATA
17067037 TTTAATA
1 TTTAATA
*
17067044 TTATAATTT
1 TT-TAA-TA
17067053 TTTAAT-
1 TTTAATA
17067059 TTT-A-A
1 TTTAATA
17067064 TTTAAT-
1 TTTAATA
17067070 TTTAATA
1 TTTAATA
17067077 TTT
1 TTT
17067080 TTTATTTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
5 4 0.09
6 10 0.23
7 13 0.30
8 13 0.30
9 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTAATA
Found at i:17067042 original size:15 final size:15
Alignment explanation
Indices: 17067022--17067063 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
17067012 AAAAGTATTT
17067022 TTTAATATTTAAATA
1 TTTAATATTTAAATA
* *
17067037 TTTAATATTATAATTT
1 TTTAATATT-TAAATA
17067053 TTTAAT-TTTAA
1 TTTAATATTTAA
17067064 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 11 0.46
16 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAATATTTAAATA
Found at i:17067079 original size:27 final size:27
Alignment explanation
Indices: 17067017--17067107 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
17067007 AATTCAAAAG
*
17067017 TATTTTTTAATATTTAAATATTTAATATT-A
1 TATTTTTTAAT-TTT--A-ATTTAATTTTAA
17067047 TAATTTTTTAATTTTAATTTAATTTTAA
1 T-ATTTTTTAATTTTAATTTAATTTTAA
* *
17067075 TATTTTTT-ATTTTAA-ATAAATTTACA
1 TATTTTTTAATTTTAATTTAATTTTA-A
17067101 TATTTTT
1 TATTTTT
17067108 CATTAACCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.13
26 15 0.27
27 16 0.29
28 3 0.05
30 4 0.07
31 10 0.18
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (27 bp):
TATTTTTTAATTTTAATTTAATTTTAA
Found at i:17067087 original size:26 final size:26
Alignment explanation
Indices: 17067036--17067107 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
17067026 ATATTTAAAT
17067036 ATTTAATATTATAAT-TTTTTAATTTTA
1 ATTTAAT-TT-TAATATTTTTAATTTTA
*
17067063 ATTTAATTTTAATATTTTTTATTTTA
1 ATTTAATTTTAATATTTTTAATTTTA
* *
17067089 A-ATAAATTTACATATTTTT
1 ATTTAATTTTA-ATATTTTT
17067108 CATTAACCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 11 0.28
26 22 0.55
27 7 0.17
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTAATTTTAATATTTTTAATTTTA
Found at i:17067510 original size:21 final size:21
Alignment explanation
Indices: 17067469--17067509 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
17067459 TTTATCCAAA
17067469 ATTATTTAAGAAATATAAAAT
1 ATTATTTAAGAAATATAAAAT
17067490 ATTATATTAATGAAAT-TAAA
1 ATTAT-TTAA-GAAATATAAA
17067510 TTTATGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
ATTATTTAAGAAATATAAAAT
Found at i:17072764 original size:28 final size:30
Alignment explanation
Indices: 17072706--17072766 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
17072696 TTTTAACTTT
* * *
17072706 TTTTTTATATATATTTTTAGAATTTTTAAA
1 TTTTTTATACATATTTTTAGAATTATAAAA
*
17072736 TTTTTTATACATTTTTTTA-AA-TATAAAA
1 TTTTTTATACATATTTTTAGAATTATAAAA
17072764 TTT
1 TTT
17072767 GAAATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 8 0.30
29 2 0.07
30 17 0.63
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTTATACATATTTTTAGAATTATAAAA
Found at i:17072791 original size:18 final size:19
Alignment explanation
Indices: 17072770--17072805 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17072760 AAAATTTGAA
*
17072770 ATTTTTATAAA-TATTTTG
1 ATTTTTAAAAATTATTTTG
17072788 ATTTTTAAAAATTATTTT
1 ATTTTTAAAAATTATTTT
17072806 AAATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTTAAAAATTATTTTG
Found at i:17078248 original size:17 final size:17
Alignment explanation
Indices: 17078218--17078250 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17078208 ATAGAAACAA
17078218 ACAAACAAACACCAAAC
1 ACAAACAAACACCAAAC
17078235 ACAAGACAAA-ACCAAA
1 ACAA-ACAAACACCAAA
17078251 ACTCTCTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.67, C:0.30, G:0.03, T:0.00
Consensus pattern (17 bp):
ACAAACAAACACCAAAC
Found at i:17089609 original size:33 final size:33
Alignment explanation
Indices: 17089560--17089627 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
17089550 AACTACTTGC
*
17089560 AAAGAATCCGATAAATATTTGTAGCTTAATCTA
1 AAAGAATCCGACAAATATTTGTAGCTTAATCTA
*
17089593 AAAGAATCTGACAAATATTTGTAGCTTAATCTA
1 AAAGAATCCGACAAATATTTGTAGCTTAATCTA
17089626 AA
1 AA
17089628 TATTGTACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (33 bp):
AAAGAATCCGACAAATATTTGTAGCTTAATCTA
Found at i:17090675 original size:6 final size:6
Alignment explanation
Indices: 17090664--17090689 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17090654 GAAATGGAGA
17090664 ACATAT ACATAT ACATAT ACATAT AC
1 ACATAT ACATAT ACATAT ACATAT AC
17090690 TATCCATGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (6 bp):
ACATAT
Found at i:17096448 original size:11 final size:11
Alignment explanation
Indices: 17096430--17096501 Score: 75
Period size: 11 Copynumber: 7.0 Consensus size: 11
17096420 GCTTTTATTT
17096430 TTGTTGTTTTG
1 TTGTTGTTTTG
*
17096441 TTGCTG-TTT-
1 TTGTTGTTTTG
17096450 TTGTTGTTATT-
1 TTGTTGTT-TTG
17096461 TTG-T-TTTTG
1 TTGTTGTTTTG
17096470 TTGTTGTTTT-
1 TTGTTGTTTTG
17096480 TTGTTGTTTTG
1 TTGTTGTTTTG
*
17096491 CTGTTGTTTTG
1 TTGTTGTTTTG
17096502 GTTATTATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
8 2 0.04
9 10 0.19
10 16 0.31
11 24 0.46
ACGTcount: A:0.01, C:0.03, G:0.24, T:0.72
Consensus pattern (11 bp):
TTGTTGTTTTG
Found at i:17096450 original size:20 final size:19
Alignment explanation
Indices: 17096387--17096520 Score: 94
Period size: 20 Copynumber: 6.6 Consensus size: 19
17096377 TATTGATATT
* *
17096387 TTTTTGCTGTTTCTTG-TG
1 TTTTTGTTGTTTTTTGTTG
*
17096405 TTTTT-TTGTTCTTTTGCTTTTA
1 TTTTTGTTGTT-TTTTG---TTG
*
17096427 TTTTTGTTGTTTTGTTGCTG
1 TTTTTGTTGTTTT-TTGTTG
17096447 TTTTTGTTGTTATTTTGTT-
1 TTTTTGTTGTT-TTTTGTTG
17096466 TTTGTTGTTGTTTTTTGTTG
1 TTT-TTGTTGTTTTTTGTTG
* *
17096486 TTTTGCTGTTGTTTTGGTTATTA
1 TTTT--TGTTGTTTT--TTGTTG
17096509 TTTTTGTTGTTT
1 TTTTTGTTGTTT
17096521 GAGTATTATT
Statistics
Matches: 94, Mismatches: 8, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
17 4 0.04
18 9 0.10
19 11 0.12
20 27 0.29
21 19 0.20
22 8 0.09
23 16 0.17
ACGTcount: A:0.03, C:0.04, G:0.19, T:0.73
Consensus pattern (19 bp):
TTTTTGTTGTTTTTTGTTG
Found at i:17096460 original size:32 final size:32
Alignment explanation
Indices: 17096403--17096519 Score: 102
Period size: 32 Copynumber: 3.8 Consensus size: 32
17096393 CTGTTTCTTG
* *
17096403 TGTTTTTTTGTT-CTTTTGCTT-TTATTTTTGT
1 TGTTTTGTTGTTGTTTTTG-TTGTTATTTTTGT
*
17096434 TGTTTTGTTGCTGTTTTTGTTGTTA-TTTTG-
1 TGTTTTGTTGTTGTTTTTGTTGTTATTTTTGT
**
17096464 T-TTTTGTTGTTGTTTTTTGTTGTT-TTGCTGT
1 TGTTTTGTTGTTG-TTTTTGTTGTTATTTTTGT
* *
17096495 TGTTTTGGTTATTATTTTTGTTGTT
1 TGTTTT-GTTGTTGTTTTTGTTGTT
17096520 TGAGTATTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
29 10 0.14
30 15 0.21
31 18 0.25
32 23 0.32
33 5 0.07
ACGTcount: A:0.03, C:0.03, G:0.20, T:0.74
Consensus pattern (32 bp):
TGTTTTGTTGTTGTTTTTGTTGTTATTTTTGT
Found at i:17096465 original size:17 final size:17
Alignment explanation
Indices: 17096422--17096479 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
17096412 GTTCTTTTGC
* *
17096422 TTTTATTTTTGTTGTTT
1 TTTTGTTTTTGTTGTTA
17096439 TGTTGCTGTTTTTGTTGTTA
1 T-TT--TGTTTTTGTTGTTA
*
17096459 TTTTGTTTTTGTTGTTG
1 TTTTGTTTTTGTTGTTA
17096476 TTTT
1 TTTT
17096480 TTGTTGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 18 0.51
18 2 0.06
19 2 0.06
20 13 0.37
ACGTcount: A:0.03, C:0.02, G:0.19, T:0.76
Consensus pattern (17 bp):
TTTTGTTTTTGTTGTTA
Found at i:17096477 original size:43 final size:41
Alignment explanation
Indices: 17096403--17096485 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 41
17096393 CTGTTTCTTG
* *
17096403 TGTTTTTTTGTTCTTTTGCTTTTATTTTTGTTGTTTTGTTGC
1 TGTTTTTTTGTTATTTTGCTTTTATTGTTGTT-TTTTGTTGC
* *
17096445 TGTTTTTGTTGTTATTTTGTTTTTGTTGTTGTTTTTTGTTG
1 TGTTTTT-TTGTTATTTTGCTTTTATTGTTGTTTTTTGTTG
17096486 TTTTGCTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 15 0.42
43 21 0.58
ACGTcount: A:0.02, C:0.04, G:0.19, T:0.75
Consensus pattern (41 bp):
TGTTTTTTTGTTATTTTGCTTTTATTGTTGTTTTTTGTTGC
Found at i:17096518 original size:3 final size:3
Alignment explanation
Indices: 17096430--17096498 Score: 58
Period size: 3 Copynumber: 24.7 Consensus size: 3
17096420 GCTTTTATTT
* * * *
17096430 TTG TTG TT- TTG TTG CTG TTT TTG TTG TTA TT- TTG TTT TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
*
17096476 TT- TT- TTG TTG TT- TTG CTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
17096499 TTGGTTATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
2 10 0.19
3 43 0.81
ACGTcount: A:0.01, C:0.03, G:0.23, T:0.72
Consensus pattern (3 bp):
TTG
Found at i:17096733 original size:16 final size:16
Alignment explanation
Indices: 17096690--17096734 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 16
17096680 TTATTGTTTT
17096690 AATGTTTTTAAGTGT-
1 AATGTTTTTAAGTGTA
* *
17096705 ACT-TTTTT-TGTGTA
1 AATGTTTTTAAGTGTA
17096719 AATGTTTTTAAGTGTA
1 AATGTTTTTAAGTGTA
17096735 TTTTATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
13 4 0.17
14 7 0.30
15 7 0.30
16 5 0.22
ACGTcount: A:0.24, C:0.02, G:0.18, T:0.56
Consensus pattern (16 bp):
AATGTTTTTAAGTGTA
Found at i:17100320 original size:17 final size:18
Alignment explanation
Indices: 17100298--17100336 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17100288 ATTACTTAAC
17100298 AATA-TTTTTAT-CTCAAA
1 AATATTTTTTATCCT-AAA
17100315 AATATTTTTTATCCTAAA
1 AATATTTTTTATCCTAAA
17100333 AATA
1 AATA
17100337 ATTACGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 14 0.70
19 2 0.10
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATTTTTTATCCTAAA
Found at i:17101914 original size:24 final size:24
Alignment explanation
Indices: 17101869--17101914 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17101859 ATCATTTCAC
*
17101869 GTAAGTTTTATGGTTAATTATTTT
1 GTAAGTTTTATGGTTAAGTATTTT
* *
17101893 GTAATTTTTATGGTTGAGTATT
1 GTAAGTTTTATGGTTAAGTATT
17101915 GAGAACAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.57
Consensus pattern (24 bp):
GTAAGTTTTATGGTTAAGTATTTT
Found at i:17112101 original size:20 final size:21
Alignment explanation
Indices: 17112078--17112116 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17112068 AGGTTTTTTT
17112078 AAAAAAATT-AGAATTTTAAG
1 AAAAAAATTAAGAATTTTAAG
* *
17112098 AAAATATTTAAGAATTTTA
1 AAAAAAATTAAGAATTTTA
17112117 TGTACTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAAAAATTAAGAATTTTAAG
Found at i:17112488 original size:10 final size:11
Alignment explanation
Indices: 17112475--17112500 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17112465 TAAAATTCTT
17112475 AAAAAAATTCA
1 AAAAAAATTCA
17112486 AAAAAAATTCA
1 AAAAAAATTCA
17112497 AAAA
1 AAAA
17112501 TTGTTCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:17115809 original size:19 final size:20
Alignment explanation
Indices: 17115777--17115816 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
17115767 AATGTAAAGG
*
17115777 AAAATAAATTTGAAATTATA
1 AAAATAAATATGAAATTATA
*
17115797 AAAATAAA-ATGAAGTTATA
1 AAAATAAATATGAAATTATA
17115816 A
1 A
17115817 TTTGGGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATAAATATGAAATTATA
Found at i:17116733 original size:5 final size:5
Alignment explanation
Indices: 17116723--17116760 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
17116713 TTTGGTTATT
17116723 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
17116761 GGTTAGTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:17117190 original size:3 final size:3
Alignment explanation
Indices: 17117184--17117217 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
17117174 AATAATAATA
*
17117184 ATG ATG ATG ATG ATG GTG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
17117218 AAGATCTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:17117610 original size:32 final size:33
Alignment explanation
Indices: 17117544--17117610 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
17117534 GTCGGTAAAT
17117544 AAGGAAACACACCTAGCCAATCTCAATGTAATA
1 AAGGAAACACACCTAGCCAATCTCAATGTAATA
17117577 AAGGAAACACACCTAGCCAATCTC-ATGTAATA
1 AAGGAAACACACCTAGCCAATCTCAATGTAATA
17117609 AA
1 AA
17117611 ATTATTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 10 0.29
33 24 0.71
ACGTcount: A:0.46, C:0.24, G:0.12, T:0.18
Consensus pattern (33 bp):
AAGGAAACACACCTAGCCAATCTCAATGTAATA
Found at i:17118652 original size:43 final size:43
Alignment explanation
Indices: 17118604--17118701 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
17118594 TTATTCATTG
* *
17118604 ACATGTTATTAAATTATATTACTTGACTCGTGTTAATATGGAA
1 ACATGTTATTAAATTATATTACTTGACTCGTATTAATATCGAA
* ** **
17118647 ACATGTTACTAAATTATATTACTTGACTTTTATTAATATCGTG
1 ACATGTTATTAAATTATATTACTTGACTCGTATTAATATCGAA
17118690 ACATGTTATTAA
1 ACATGTTATTAA
17118702 TTGTGCAGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (43 bp):
ACATGTTATTAAATTATATTACTTGACTCGTATTAATATCGAA
Found at i:17119155 original size:6 final size:6
Alignment explanation
Indices: 17119140--17119173 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
17119130 CGTCAAAGCC
*
17119140 AGAGCT AGAGCA AGAGCA AGAGCA AGAGCA AGAG
1 AGAGCA AGAGCA AGAGCA AGAGCA AGAGCA AGAG
17119174 GAGGAGGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.35, T:0.03
Consensus pattern (6 bp):
AGAGCA
Found at i:17124970 original size:24 final size:24
Alignment explanation
Indices: 17124938--17124983 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
17124928 CACCATATAC
17124938 GGAGTTGGATCTTCATTTTCTACT
1 GGAGTTGGATCTTCATTTTCTACT
17124962 GGAGTTGGATCTTCATTTTCTA
1 GGAGTTGGATCTTCATTTTCTA
17124984 TTGGTTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (24 bp):
GGAGTTGGATCTTCATTTTCTACT
Found at i:17134187 original size:17 final size:17
Alignment explanation
Indices: 17134167--17134200 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17134157 TAAAATGCGG
17134167 ATTTTTA-AAAATATATT
1 ATTTTTATAAAAT-TATT
17134184 ATTTTTATAAAATTATT
1 ATTTTTATAAAATTATT
17134201 TTGGCATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTATAAAATTATT
Found at i:17136492 original size:43 final size:43
Alignment explanation
Indices: 17136409--17136508 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
17136399 TGTTATTCAT
* * * *
17136409 TGACAGGTTCTTAAATTATATTACTTGACTCGTGTCAATATGG
1 TGACATGTTATTAAATTATATTACTTGACTCGTATCAATATCG
* * *
17136452 TGGCATGTTATTAAATTATATTACTTGACTCTTATTAATATCG
1 TGACATGTTATTAAATTATATTACTTGACTCGTATCAATATCG
*
17136495 TGATATGTTATTAA
1 TGACATGTTATTAA
17136509 TTGTGCAGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (43 bp):
TGACATGTTATTAAATTATATTACTTGACTCGTATCAATATCG
Found at i:17140127 original size:46 final size:46
Alignment explanation
Indices: 17140057--17140176 Score: 170
Period size: 46 Copynumber: 2.6 Consensus size: 46
17140047 CACTAGCGCG
* * *
17140057 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCCGATTAGCACTTTGTGTG
1 CTCTCTGATTAGCACTGTGT-GTGCTCTCCGATTAGCACTTTGTGTA
* *
17140103 CTCTCTGATTAGCACTTTGTGTGCTCTCCGATTAGTACTTTGTGTA
1 CTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACTTTGTGTA
*
17140149 CTCTCTGTTTAGCACTGTGTGTGCTCTC
1 CTCTCTGATTAGCACTGTGTGTGCTCTC
17140177 TGTTGCCCAG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 64 0.97
47 2 0.03
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.42
Consensus pattern (46 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACTTTGTGTA
Found at i:17140170 original size:69 final size:66
Alignment explanation
Indices: 17140088--17140224 Score: 177
Period size: 69 Copynumber: 2.0 Consensus size: 66
17140078 TGCTCTCCGA
* *
17140088 TTAGCACTTTGTGTGCTCTCTGATT-AGCACTTTGTGTGCTCTCCGATTAGTACTTTGTGTACTC
1 TTAGCACTGTGTGTGCTCTCTG-TTCAGCAC-TTATGTGCTCTCCG-TTAGTACTTTG-GTACTC
17140152 TCTGT
62 TCTGT
*
17140157 TTAGCACTGTGTGTGCTCTCTGTTGCCCAGCACTTATGTGCTCTCTGTTAGTACTTTGGTACTCT
1 TTAGCACTGTGTGTGCTCTCTGTT---CAGCACTTATGTGCTCTCCGTTAGTACTTTGGTACTCT
17140222 CTG
63 CTG
17140225 CTTGTTCCGT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
68 2 0.03
69 31 0.51
70 11 0.18
71 12 0.20
72 5 0.08
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (66 bp):
TTAGCACTGTGTGTGCTCTCTGTTCAGCACTTATGTGCTCTCCGTTAGTACTTTGGTACTCTCTG
T
Found at i:17140177 original size:23 final size:23
Alignment explanation
Indices: 17140077--17140224 Score: 151
Period size: 23 Copynumber: 6.4 Consensus size: 23
17140067 AGCACGTCTC
*
17140077 GTGCTCTCCGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
17140100 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* *
17140123 GTGCTCTCCGATTAGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* * *
17140146 GTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
17140169 GTGCTCTCTG-TTGCCCAGCAC-TTAT
1 GTGCTCTCTGATT----AGCACTTTGT
*
17140194 GTGCTCTCTG-TTAGTACTTTG-
1 GTGCTCTCTGATTAGCACTTTGT
*
17140215 GTACTCTCTG
1 GTGCTCTCTG
17140225 CTTGTTCCGT
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.12
22 4 0.04
23 70 0.66
25 14 0.13
26 5 0.05
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.42
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTTTGT
Found at i:17147509 original size:17 final size:17
Alignment explanation
Indices: 17147477--17147510 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17147467 ACTTGAGATT
*
17147477 TTTGAATTTATATTAAG
1 TTTGAATTAATATTAAG
*
17147494 TTTGAATTAATTTTAAG
1 TTTGAATTAATATTAAG
17147511 ATTTATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTGAATTAATATTAAG
Found at i:17147562 original size:17 final size:16
Alignment explanation
Indices: 17147498--17147560 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
17147488 ATTAAGTTTG
*
17147498 AATTAATTTTAAGATTT
1 AATTAAATTTAA-ATTT
*
17147515 ATTTAAATTTAAATTT
1 AATTAAATTTAAATTT
** *
17147531 GTTTTGAATTTAAATTT
1 -AATTAAATTTAAATTT
17147548 AATTAAATTTAAA
1 AATTAAATTTAAA
17147561 ATGGTTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.37
17 24 0.63
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
AATTAAATTTAAATTT
Found at i:17147568 original size:33 final size:33
Alignment explanation
Indices: 17147500--17147582 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
17147490 TAAGTTTGAA
* * * *
17147500 TTAATTTTAAGATTTATTTAAATTTAAATTTGTT
1 TTAAATTTAA-ATTTAATTAAATTTAAAATGGTT
*
17147534 TTGAATTTAAATTTAATTAAATTTAAAATGGTT
1 TTAAATTTAAATTTAATTAAATTTAAAATGGTT
* *
17147567 TTAAACTTAAACTTAA
1 TTAAATTTAAATTTAA
17147583 ATTTAAAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 33 0.80
34 8 0.20
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (33 bp):
TTAAATTTAAATTTAATTAAATTTAAAATGGTT
Found at i:17148294 original size:30 final size:30
Alignment explanation
Indices: 17148253--17148566 Score: 398
Period size: 30 Copynumber: 10.4 Consensus size: 30
17148243 AATTGTCTAG
* * *
17148253 AAATTATATTTTGACCCCAAAACTTTTCCT
1 AAATTACATTTTAACCCCAAAACTTTTCCA
*
17148283 AAATTACATTTTTGACCCCAAAACTTTTCCA
1 AAATTACA-TTTTAACCCCAAAACTTTTCCA
* * * *
17148314 GAATTATATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
*
17148344 AAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
*
17148374 AAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
*
17148404 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
*
17148434 AAATTTCATTTTAACCCCGAAAA-TTTTCCA
1 AAATTACATTTTAACCCC-AAAACTTTTCCA
* * *
17148464 AAATTATATTTTAACCTCGAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
*
17148494 AAATTACATTTTAACCCCAAAACTTTTCTA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
* * * * *
17148524 AAACTATATTTTGACCCCGAAAC-TTTCAA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
17148553 AAATTACCATTTTA
1 AAATTA-CATTTTA
17148567 CCCTCGAACT
Statistics
Matches: 252, Mismatches: 28, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
29 13 0.05
30 208 0.83
31 31 0.12
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTAACCCCAAAACTTTTCCA
Found at i:17148612 original size:58 final size:58
Alignment explanation
Indices: 17148550--17148747 Score: 168
Period size: 58 Copynumber: 3.3 Consensus size: 58
17148540 CCGAAACTTT
*
17148550 CAAAAATTACCATTTTACCCTCGAACTTCCTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCTCGAACTTCCTAAATTCCATTTTTAACCCCGATTTCAC
* * * ** * * * * **
17148608 CAAAACTTACCGTTTT-GCCTCCGAACTTTTTAAAATTTCATTTTTGACCTCGTTTTTGTTGC
1 CAAAAATTACCATTTTACCCT-CGAACTTCCT-AAATTCCATTTTTAACCCCG--ATT-TCAC
* * **
17148670 CAAAATTTACCATTTTATCCCTCAAACTTTCC-AAATTCCATTTTTAGTCCCGATTTCA-
1 CAAAAATTACCATTTTA-CCCTCGAAC-TTCCTAAATTCCATTTTTAACCCCGATTTCAC
17148728 CAAAAATTACCATTTTACCC
1 CAAAAATTACCATTTTACCC
17148748 CTAAAAACCC
Statistics
Matches: 105, Mismatches: 27, Indels: 17
0.70 0.18 0.11
Matches are distributed among these distances:
57 6 0.06
58 38 0.36
59 17 0.16
60 2 0.02
61 2 0.02
62 31 0.30
63 4 0.04
64 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCTCGAACTTCCTAAATTCCATTTTTAACCCCGATTTCAC
Found at i:17160921 original size:213 final size:208
Alignment explanation
Indices: 17160524--17162513 Score: 2406
Period size: 213 Copynumber: 9.3 Consensus size: 208
17160514 ATCATTTCCA
* * *
17160524 ATCCGCTTGAAATTGAAGT-AGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
*
17160588 CGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAG
66 CGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAG
* * *
17160653 CAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAATTGAAGTA
131 CAACGTCATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGTA
*
17160718 AGAGTAACATCGTTTCC
196 AGAG-AACAACG--T-C
* *
17160735 TATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTTCGTCTCTGAAATTGAAGTAAGAGCA
1 -ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
* * *
17160800 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
65 ACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGA
* *
17160865 GCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGT
130 GCAACGTCATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGT
*
17160930 AAGAGTAACATCGTTTCC
195 AAGAG-AACAACG--T-C
* * *
17160948 TATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 -ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
17161013 ACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAATTGAAGTAAG
65 ACGTCATCCTCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAG
* * * * *
17161078 AGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTTCGTCTCTGAA
129 AG---CAACG--T-C-ATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCTGAA
17161143 ATTGAAGTAAGAG--CAACGTC
187 ATTGAAGTAAGAGAACAACGTC
* * *
17161163 ATCCCCTTGAAATTGAAGT-AAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
*
17161227 CATCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGA
66 CGTCATCCTCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGA
* * * *
17161292 GTAACATTGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAA
130 GCAAC---G--T-C-ATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCTGAAA
17161357 TTGAAGTAAGAG--CAACGTC
188 TTGAAGTAAGAGAACAACGTC
* ** * *
17161376 ATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG---
* * * * * *
17161441 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTTCGTCTCTGAAATTGA
63 CAACG--T-C-ATCCTCTTGAAATTGAAGT-AGAGTGGATAACAAGTCTTCATCTCTGAAATTGA
* * *
17161506 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTGAAA
123 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCTGAAA
*
17161570 TTGAAGTAAGAG--CAACATC
188 TTGAAGTAAGAGAACAACGTC
* ** * *
17161589 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
* * * *
17161654 CATTGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGA
66 C---G--T-C-ATCCTCTTGAAATTGAAGT-AGAGTGGATAACAAGTCTTCATCTCTGAAATTGA
* * *
17161719 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
123 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCTGAAA
*
17161784 TTGAAGTAAGAGTAACATCGTTTCC
188 TTGAAGTAAGAG-AACAACG--T-C
* *
17161809 TATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTTCGTCTCTGAAATTGAAGTAAGAGCA
1 -ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
* * *
17161874 ACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
65 ACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGA
* *
17161939 GCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGT
130 GCAACGTCATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGT
*
17162004 AAGAGTAACATCGTTTCC
195 AAGAG-AACAACG--T-C
* * * *
17162022 TATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTAAAAATTGAAGTAAGAGC
1 -ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCT-GAAATTGAAGTAAGAGC
*
17162087 AACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAATTGAAGTAA
64 AACGTCATCCTCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTAA
* * * * *
17162152 GAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTTCGTCTCTGA
128 GAG---CAACG--T-C-ATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCTGA
17162217 AATTGAAGTAAGAG--CAACGTC
186 AATTGAAGTAAGAGAACAACGTC
* * * *
17162238 ATCCCCTTGAAATTGAAGT-AGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
17162302 CGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGA
66 CGTCATCCTCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGA
* * * * *
17162367 GTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTAAAA
130 G---CAACG--T-C-ATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCT-GAA
17162432 ATTGAAGTAAGAG--CAACGTC
187 ATTGAAGTAAGAGAACAACGTC
* ** * * *
17162452 ATCCTCTTGAAATTGAAGTAGAGTTGGACAACACGCCTTTATCTCTGAAATTGAAGTAAGAG
1 ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
17162514 AAAGATCATT
Statistics
Matches: 1621, Mismatches: 114, Indels: 83
0.89 0.06 0.05
Matches are distributed among these distances:
210 4 0.00
212 18 0.01
213 971 0.60
214 269 0.17
215 92 0.06
216 4 0.00
217 11 0.01
218 10 0.01
219 7 0.00
220 4 0.00
221 173 0.11
222 58 0.04
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (208 bp):
ATCCTCTTGAAATTGAAGTAAAACTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
CGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAG
CAACGTCATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCATCTCTGAAATTGAAGTA
AGAGAACAACGTC
Found at i:17161279 original size:358 final size:358
Alignment explanation
Indices: 17160524--17162557 Score: 3762
Period size: 358 Copynumber: 5.7 Consensus size: 358
17160514 ATCATTTCCA
* *
17160524 ATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG---
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
* * * * * *
17160585 CAACG--T-C-ATCCCCTTGAAATTGAAGT-AGAGTGGATAACAAGTCTTCATCTCTGAAATTGA
66 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGA
17160645 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
131 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
17160710 TTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTT
196 TTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTT
17160775 CGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
261 CGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
17160840 CTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
326 CTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
17160873 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
17160938 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGA
66 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGA
17161003 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
131 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
17161068 TTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTT
196 TTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTT
*
17161133 CGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAAAGTGGATAACACGT
261 CGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
*
17161198 CTTTATCTCTGAAATTGAAGTAAGAGCAACATC
326 CTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
17161231 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
*
17161296 CATTGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGA
66 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGA
17161361 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
131 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
17161426 TTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTT
196 TTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTT
*
17161491 CGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAAAGTGGATAACACGT
261 CGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
*
17161556 CTTTATCTCTGAAATTGAAGTAAGAGCAACATC
326 CTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
17161589 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
*
17161654 CATTGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGA
66 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGA
17161719 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
131 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
17161784 TTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTT
196 TTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTT
17161849 CGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
261 CGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
17161914 CTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
326 CTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
17161947 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
*
17162012 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTAAAAATTG
66 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCT-GAAATTG
17162077 AAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAA
130 AAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAA
17162142 ATTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCT
195 ATTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCT
17162207 TCGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG
260 TCGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG
17162272 TCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
325 TCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
17162306 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
1 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
*
17162371 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTAAAAATTG
66 CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCT-GAAATTG
* * *
17162436 AAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACACGCCTTTATCTCTGAA
130 AAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAA
* * * ** *
17162501 ATTGAAGTAAGAGAAAGATCATTTCCTATCCTCAAGAAATTGAAGTAAAATTGGATA
195 ATTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATA
17162558 GCAAAGTCTT
Statistics
Matches: 1651, Mismatches: 24, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
349 22 0.01
350 37 0.02
353 4 0.00
355 1 0.00
356 1 0.00
357 18 0.01
358 1090 0.66
359 478 0.29
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (358 bp):
ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGTAA
CATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCAAGTCTTTATCTCTGAAATTGA
AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGACAACAAGTCTTCATCTCTGAAA
TTGAAGTAAGAGTAACATCGTTTCCTATCCTCTTGAAATTGAAGTAAAACTGGATATCACGTCTT
CGTCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
CTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
Found at i:17162881 original size:17 final size:17
Alignment explanation
Indices: 17162849--17162882 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17162839 ACTTGAGATT
*
17162849 TTTGAATTTATATTAAG
1 TTTGAATTAATATTAAG
*
17162866 TTTGAATTAATTTTAAG
1 TTTGAATTAATATTAAG
17162883 ATTTATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTGAATTAATATTAAG
Found at i:17162934 original size:17 final size:16
Alignment explanation
Indices: 17162870--17162932 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
17162860 ATTAAGTTTG
*
17162870 AATTAATTTTAAGATTT
1 AATTAAATTTAA-ATTT
*
17162887 ATTTAAATTTAAATTT
1 AATTAAATTTAAATTT
** *
17162903 GTTTTGAATTTAAATTT
1 -AATTAAATTTAAATTT
17162920 AATTAAATTTAAA
1 AATTAAATTTAAA
17162933 ATGGTTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.37
17 24 0.63
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
AATTAAATTTAAATTT
Found at i:17162940 original size:33 final size:33
Alignment explanation
Indices: 17162872--17162954 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
17162862 TAAGTTTGAA
* * * *
17162872 TTAATTTTAAGATTTATTTAAATTTAAATTTGTT
1 TTAAATTTAA-ATTTAATTAAATTTAAAATGGTT
*
17162906 TTGAATTTAAATTTAATTAAATTTAAAATGGTT
1 TTAAATTTAAATTTAATTAAATTTAAAATGGTT
* *
17162939 TTAAACTTAAACTTAA
1 TTAAATTTAAATTTAA
17162955 ATTTAAAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 33 0.80
34 8 0.20
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (33 bp):
TTAAATTTAAATTTAATTAAATTTAAAATGGTT
Found at i:17163739 original size:16 final size:16
Alignment explanation
Indices: 17163718--17163749 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17163708 ATTAATGATT
17163718 TTAATAATAATAATAA
1 TTAATAATAATAATAA
*
17163734 TTAATACTAATAATAA
1 TTAATAATAATAATAA
17163750 CAAAAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAATAATAATAATAA
Found at i:17164927 original size:30 final size:30
Alignment explanation
Indices: 17164842--17165015 Score: 203
Period size: 30 Copynumber: 5.8 Consensus size: 30
17164832 AATTGTCTAG
*
17164842 AAATTATATTTTGA--CCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
17164870 AAATTACATTTTTTAACCCTAAAACTTTTCCA
1 AAATTACA--TTTTGACCCCAAAACTTTTCCA
*
17164902 AAATTACATTTTGACCCCGAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
17164932 AAATTACATTTTGACCCCAAAGCTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* * *
17164962 AAATTATATTTTGACCCTAAAAC-TTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
17164991 AAATTACCATTTT-ACCCCTAAACTT
1 AAATTA-CATTTTGACCCCAAAACTT
17165016 CCCTAAATCC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
28 7 0.06
29 19 0.15
30 77 0.62
32 21 0.17
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:17165002 original size:90 final size:88
Alignment explanation
Indices: 17164842--17165015 Score: 226
Period size: 90 Copynumber: 1.9 Consensus size: 88
17164832 AATTGTCTAG
* * *
17164842 AAATTATATTTTGACCAAAACTTTTCCAAAATTACATTTTTTAACCCTAAAACTTTTCCAAAATT
1 AAATTACATTTTGACCAAAACTTTTCCAAAATTA-ATATTTTAACCCTAAAACTTTTCAAAAATT
17164907 ACATTTTGACCCCGAAACTTTTCCA
65 ACATTTT-ACCCCGAAACTTTTCCA
* * *
17164932 AAATTACATTTTGACCCCAAAGCTTTTCTAAAATT-ATATTTTGACCCTAAAAC-TTTCAAAAAT
1 AAATTACATTTTGA--CCAAAACTTTTCCAAAATTAATATTTTAACCCTAAAACTTTTCAAAAAT
*
17164995 TACCATTTTACCCCTAAACTT
64 TA-CATTTTACCCCGAAACTT
17165016 CCCTAAATCC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
89 22 0.30
90 35 0.47
92 17 0.23
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.37
Consensus pattern (88 bp):
AAATTACATTTTGACCAAAACTTTTCCAAAATTAATATTTTAACCCTAAAACTTTTCAAAAATTA
CATTTTACCCCGAAACTTTTCCA
Found at i:17165051 original size:59 final size:58
Alignment explanation
Indices: 17164988--17165190 Score: 185
Period size: 59 Copynumber: 3.4 Consensus size: 58
17164978 CTAAAACTTT
* *
17164988 CAAAAATTACCATTTTACCCCTAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCC-AAATTCCATTTTTAACCCCGATTTCAC
* * * * * * * * **
17165047 CAAAACTTACCGTTTTGCCTCC-GAACTTTCCAAAATTTCATTTTTGACCTCGTTTTTTTGC
1 CAAAAATTACCATTTTACC-CCTAAACTTTCC-AAATTCCATTTTTAACCCCG--ATTTCAC
* * **
17165108 CAAAATTTACCATTTTATCCCCCAAACTTTCCAAATTCCATTTTTAGTCCCGATTTCA-
1 CAAAAATTACCATTTTA-CCCCTAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
*
17165166 CAAAAATTATCATTTTACCCCTAAA
1 CAAAAATTACCATTTTACCCCTAAA
17165191 AACCTAAATT
Statistics
Matches: 111, Mismatches: 28, Indels: 12
0.74 0.19 0.08
Matches are distributed among these distances:
57 7 0.06
58 15 0.14
59 42 0.38
60 2 0.02
61 35 0.32
62 10 0.09
ACGTcount: A:0.30, C:0.29, G:0.04, T:0.37
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
Found at i:17166668 original size:24 final size:24
Alignment explanation
Indices: 17166641--17166687 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
17166631 ACCATACACA
17166641 GAGTTGGATCTTCATTTTCTACTG
1 GAGTTGGATCTTCATTTTCTACTG
17166665 GAGTTGGATCTTCATTTTCTACT
1 GAGTTGGATCTTCATTTTCTACT
17166688 AGTTCCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (24 bp):
GAGTTGGATCTTCATTTTCTACTG
Found at i:17167606 original size:64 final size:64
Alignment explanation
Indices: 17167505--17167628 Score: 205
Period size: 64 Copynumber: 1.9 Consensus size: 64
17167495 GGCGAAAACA
* *
17167505 CCTCTTGGTATCCCCATTCAATCTCCCTCCTTTGGTGCCGCCATTCTATGTTCCTCCACCCAGT
1 CCTCTTGGTAGCCCCATTCAATCCCCCTCCTTTGGTGCCGCCATTCTATGTTCCTCCACCCAGT
*
17167569 CCTCTTGGT-GCCGCCATTCAATCCCCCTCTTTTGGTGCCGCCATTCTATGTTCCTCCACC
1 CCTCTTGGTAGCC-CCATTCAATCCCCCTCCTTTGGTGCCGCCATTCTATGTTCCTCCACC
17167629 TAGTGTCAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 2 0.04
64 54 0.96
ACGTcount: A:0.11, C:0.41, G:0.14, T:0.34
Consensus pattern (64 bp):
CCTCTTGGTAGCCCCATTCAATCCCCCTCCTTTGGTGCCGCCATTCTATGTTCCTCCACCCAGT
Found at i:17168523 original size:15 final size:15
Alignment explanation
Indices: 17168505--17168539 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
17168495 TAAAATGCGA
17168505 ATTTTTA-AAAATATT
1 ATTTTTATAAAA-ATT
17168520 ATTTTTATAAAAATT
1 ATTTTTATAAAAATT
17168535 ATTTT
1 ATTTT
17168540 GGCATGGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTATAAAAATT
Found at i:17180196 original size:20 final size:21
Alignment explanation
Indices: 17180171--17180218 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
17180161 CTCAGAAAAA
17180171 GTCAACGATCAA-AGTCAACG
1 GTCAACGATCAACAGTCAACG
*
17180191 GTCAACGATCAACAGTTAACG
1 GTCAACGATCAACAGTCAACG
*
17180212 ATCAACG
1 GTCAACG
17180219 GGTCGGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.17
Consensus pattern (21 bp):
GTCAACGATCAACAGTCAACG
Found at i:17182728 original size:3 final size:3
Alignment explanation
Indices: 17182722--17182762 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
17182712 TCTTCTTCTT
17182722 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
17182763 TCTTCTTCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:17184719 original size:17 final size:17
Alignment explanation
Indices: 17184697--17184735 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
17184687 CTCCACATTG
*
17184697 ACAAGAATTCTCT-ACGA
1 ACAAGAACTCT-TAACGA
17184714 ACAAGAACTCTTAACGA
1 ACAAGAACTCTTAACGA
17184731 ACAAG
1 ACAAG
17184736 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (17 bp):
ACAAGAACTCTTAACGA
Found at i:17186512 original size:17 final size:17
Alignment explanation
Indices: 17186490--17186523 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17186480 TCTATACTAA
17186490 CTTGAGAAGTTGACTCT
1 CTTGAGAAGTTGACTCT
17186507 CTTGAGAAGTTGACTCT
1 CTTGAGAAGTTGACTCT
17186524 GTTGTAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (17 bp):
CTTGAGAAGTTGACTCT
Found at i:17189150 original size:17 final size:18
Alignment explanation
Indices: 17189112--17189150 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17189102 CTTTACTTTT
* *
17189112 ATTTTATTTTACCACTGA
1 ATTTTATTTTAACACAGA
17189130 ATTTTATTTTAACA-AGA
1 ATTTTATTTTAACACAGA
17189147 ATTT
1 ATTT
17189151 CAATCACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTTTATTTTAACACAGA
Found at i:17191489 original size:13 final size:14
Alignment explanation
Indices: 17191473--17191505 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
17191463 AATAATAAAA
17191473 TAAAATTAAT-TTT
1 TAAAATTAATCTTT
17191486 T-AAATTAATCTTT
1 TAAAATTAATCTTT
17191499 TAAAATT
1 TAAAATT
17191506 TGTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 5 0.28
14 5 0.28
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAAATTAATCTTT
Found at i:17191652 original size:26 final size:27
Alignment explanation
Indices: 17191590--17191652 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 27
17191580 TTATATATTT
*
17191590 TTATTT-TTATTAAATTATATTTAATA
1 TTATTTATTATTAAAATATATTTAATA
* *
17191616 ATAATTA-TATTAAAATATGA-TTAA-A
1 TTATTTATTATTAAAATAT-ATTTAATA
17191641 TTATTTATTATT
1 TTATTTATTATT
17191653 TATTATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
25 6 0.21
26 22 0.76
27 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TTATTTATTATTAAAATATATTTAATA
Found at i:17192106 original size:26 final size:25
Alignment explanation
Indices: 17192069--17192129 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
17192059 CATCTCTCTA
**
17192069 TTTTTCTTTTTTACTAGTTTAGTATTG
1 TTTTT-TTTTTT-CTAAATTAGTATTG
*
17192096 TTTTTTTTTTTGTAAATTAGTATTG
1 TTTTTTTTTTTCTAAATTAGTATTG
17192121 TTTTTTTTT
1 TTTTTTTTT
17192130 ACTATTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 20 0.65
26 6 0.19
27 5 0.16
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (25 bp):
TTTTTTTTTTTCTAAATTAGTATTG
Found at i:17193972 original size:23 final size:23
Alignment explanation
Indices: 17193946--17194048 Score: 100
Period size: 23 Copynumber: 4.4 Consensus size: 23
17193936 AATATTCATA
*
17193946 AACATGTTCATTTAAC-TTAATCG
1 AACATGTTCA-TTAACATTAAACG
17193969 AACATGTTCATTAACATTAAACG
1 AACATGTTCATTAACATTAAACG
* * **
17193992 AATATATTCACGAACATTAAACG
1 AACATGTTCATTAACATTAAACG
* * **
17194015 AACATGTTTATGAACATATAATTG
1 AACATGTTCATTAACAT-TAAACG
17194039 AACATGTTCA
1 AACATGTTCA
17194049 CAAATAATGT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
22 5 0.08
23 48 0.73
24 13 0.20
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (23 bp):
AACATGTTCATTAACATTAAACG
Found at i:17195498 original size:30 final size:30
Alignment explanation
Indices: 17195462--17195544 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
17195452 TTGGGAGGAG
17195462 AGTAAAAGTTTTGGGG-AGAAAGTGAGAAGA
1 AGTAAAAGTTTTGGGGTA-AAAGTGAGAAGA
17195492 AGTAAAAGTTTTGGGGTAAAAGTGAGAAGA
1 AGTAAAAGTTTTGGGGTAAAAGTGAGAAGA
*
17195522 AGTAAAATTTTTGGGGTAAAAGT
1 AGTAAAAGTTTTGGGGTAAAAGT
17195545 AAAAAGGTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 50 0.98
31 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (30 bp):
AGTAAAAGTTTTGGGGTAAAAGTGAGAAGA
Found at i:17195498 original size:167 final size:168
Alignment explanation
Indices: 17195199--17195512 Score: 435
Period size: 167 Copynumber: 1.9 Consensus size: 168
17195189 AAAATTTTGA
* *
17195199 GGGAAGTAAATAGGAGAGTAAAATTTTGGAGAGAAAATATTCAAAAAAAATGGAGGTGGAATGAG
1 GGGAAGTAAATAGGAGAGAAAAATTTTGGAGAGAAAATATTCAAAAAAAATGGAGGTGAAATGAG
*
17195264 TTTGGGGTAGATGGGGGTTAGATTGAAGGAGAGTAAAAGTTTTAGGAGGAAAGTGGAAGAGAGTA
66 TTTGGGGTAGATGGGGGTGAGATTGAAGGAGAGTAAAAGTTTTAGGAGGAAAGTGGAAGAGAGTA
17195329 AAAGTTTTGGGGAAAAATGAAAAGTTTTGAGAGTTTTT
131 AAAGTTTTGGGGAAAAATGAAAAGTTTTGAGAGTTTTT
* **
17195367 GGGACAGTAAATGGGAGAGAAAAATTTTGGA-AGAAAAATATT-AAAAAATTTGG-GG-GAAATG
1 GGGA-AGTAAATAGGAGAGAAAAATTTTGGAGAG-AAAATATTCAAAAAAAATGGAGGTGAAATG
* * *
17195428 TGTTTGGGGTAGATGGGGAGTGAG-TTGGGAGGAGAGTAAAAGTTTT-GGGGAGAAAGTGAGAAG
64 AGTTTGGGGTAGATGGGG-GTGAGATT-GAAGGAGAGTAAAAGTTTTAGGAG-GAAAGTG-GAAG
*
17195491 A-AGTAAAAGTTTTGGGGTAAAA
125 AGAGTAAAAGTTTTGGGGAAAAA
17195513 GTGAGAAGAA
Statistics
Matches: 130, Mismatches: 10, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
166 27 0.21
167 51 0.39
168 20 0.15
169 32 0.25
ACGTcount: A:0.39, C:0.01, G:0.35, T:0.25
Consensus pattern (168 bp):
GGGAAGTAAATAGGAGAGAAAAATTTTGGAGAGAAAATATTCAAAAAAAATGGAGGTGAAATGAG
TTTGGGGTAGATGGGGGTGAGATTGAAGGAGAGTAAAAGTTTTAGGAGGAAAGTGGAAGAGAGTA
AAAGTTTTGGGGAAAAATGAAAAGTTTTGAGAGTTTTT
Found at i:17195535 original size:167 final size:167
Alignment explanation
Indices: 17195186--17195536 Score: 419
Period size: 167 Copynumber: 2.1 Consensus size: 167
17195176 GGGTTTTGGG
* *
17195186 AGTAAAATTTTGAGGGAAGTAAATAGGAGAGTAAAATTTTGGAGAGAAAATATTCAAAAAAAATG
1 AGTAAAATTTT-TGGGAAGTAAATAGGAGAGAAAAATTTTGGAGAGAAAATATTCAAAAAAAATG
* *
17195251 GAGGTGGAATGAGTTTGGGGTAGATGGGGGTTAGATTGAAGGAGAGTAAAAGTTTTAGGAGGAAA
65 GAGGTGAAATGAGTTTGGGGTAGATGGGGGTGAGATTGAAGGAGAGTAAAAGTTTTAGGAGGAAA
*
17195316 GTGGAAGAGAGTAAAAGTTTTGGGGAAAAATGAAAAGT
130 GTGGAAGAGAGTAAAAGTTTTGGGGAAAAATGAAAAGA
** * * * **
17195354 TTTGAGAGTTTTTGGGACAGTAAATGGGAGAGAAAAATTTTGGA-AGAAAAATATT-AAAAAATT
1 AGT-AAAATTTTTGGGA-AGTAAATAGGAGAGAAAAATTTTGGAGAG-AAAATATTCAAAAAAAA
* * *
17195417 TGG-GG-GAAATGTGTTTGGGGTAGATGGGGAGTGAG-TTGGGAGGAGAGTAAAAGTTTT-GGGG
63 TGGAGGTGAAATGAGTTTGGGGTAGATGGGG-GTGAGATT-GAAGGAGAGTAAAAGTTTTAGGAG
* *
17195478 AGAAAGTGAGAAGA-AGTAAAAGTTTTGGGGTAAAAGTGAGAAGA
126 -GAAAGTG-GAAGAGAGTAAAAGTTTTGGGG-AAAAATGAAAAGA
17195522 AGTAAAATTTTTGGG
1 AGTAAAATTTTTGGG
17195537 GTAAAAGTAA
Statistics
Matches: 154, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
166 27 0.18
167 57 0.37
168 32 0.21
169 38 0.25
ACGTcount: A:0.40, C:0.01, G:0.34, T:0.25
Consensus pattern (167 bp):
AGTAAAATTTTTGGGAAGTAAATAGGAGAGAAAAATTTTGGAGAGAAAATATTCAAAAAAAATGG
AGGTGAAATGAGTTTGGGGTAGATGGGGGTGAGATTGAAGGAGAGTAAAAGTTTTAGGAGGAAAG
TGGAAGAGAGTAAAAGTTTTGGGGAAAAATGAAAAGA
Found at i:17196760 original size:18 final size:17
Alignment explanation
Indices: 17196724--17196784 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
17196714 ATATATATAT
17196724 TTTTATAATTTATTA-GA
1 TTTTATAATTT-TTATGA
*
17196741 TTCTTATAAATTTTATGA
1 TT-TTATAATTTTTATGA
*
17196759 TTTTTTATATTTTTATGA
1 TTTTATA-ATTTTTATGA
17196777 TTTT-TAAT
1 TTTTATAAT
17196785 GGGAGAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.05
17 11 0.29
18 25 0.66
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTATAATTTTTATGA
Found at i:17196763 original size:9 final size:9
Alignment explanation
Indices: 17196722--17196782 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
17196712 TTATATATAT
*
17196722 ATTTTTATA
1 ATTTTTATG
17196731 ATTTATTA-G
1 ATTT-TTATG
* *
17196740 ATTCTTATA
1 ATTTTTATG
*
17196749 AATTTTATG
1 ATTTTTATG
17196758 ATTTTTTAT-
1 A-TTTTTATG
17196767 ATTTTTATG
1 ATTTTTATG
17196776 ATTTTTA
1 ATTTTTA
17196783 ATGGGAGAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
8 10 0.24
9 22 0.54
10 9 0.22
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (9 bp):
ATTTTTATG
Done.