Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 43 of 172
Found at i:13705422 original size:75 final size:74
Alignment explanation
Indices: 13705315--13705604 Score: 225
Period size: 75 Copynumber: 3.9 Consensus size: 74
13705305 CATAAGATTA
* * * * *
13705315 GCCACAAAGGCTTTCCAGACAATACGCCACAAAGGCTTCTCTTAATATTAGCGACAAAGGCTTTC
1 GCCACAAAGGCTTTCCAGATAATAAGCCACAAAGGATT-TCATAATATTAGCCACAAAGGCTTTC
13705380 TAGATAATAC
65 TAGATAATAC
* * *
13705390 GCCACAAAGGCTTTCTAGATAATAAGCCACAAAGGATTTACAT-ATAATACGCCACAAAGAGTTT
1 GCCACAAAGGCTTTCCAGATAATAAGCCACAAAGGATTT-CATAATATTA-GCCACAAAG-GCTT
13705454 TCATAAGAT--TA-
63 TC-T-AGATAATAC
* * * * * *
13705465 GCCATAAAGGCTTTCCAAATAATATGCCATAAAGGTTTTTCATAAGATTAGCCACAAAGGCTTTC
1 GCCACAAAGGCTTTCCAGATAATAAGCCACAAAGG-ATTTCATAATATTAGCCACAAAGGCTTTC
* *
13705530 CAGACAATAC
65 TAGATAATAC
* * * * * * *
13705540 ACCACAAAAGCTTTTCATA-AGATTAA-CTACAAAGGCTTTC-TAGATATTATGGCACAAAGGCT
1 GCCACAAAGGCTTTCCAGATA-A-TAAGCCACAAAGGATTTCATA-ATATTA-GCCACAAAGGCT
13705602 TTC
62 TTC
13705605 CAGTTAATCC
Statistics
Matches: 171, Mismatches: 30, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
72 3 0.02
73 2 0.01
74 23 0.13
75 122 0.71
76 16 0.09
77 1 0.01
78 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (74 bp):
GCCACAAAGGCTTTCCAGATAATAAGCCACAAAGGATTTCATAATATTAGCCACAAAGGCTTTCT
AGATAATAC
Found at i:13705448 original size:100 final size:99
Alignment explanation
Indices: 13705285--13705604 Score: 369
Period size: 100 Copynumber: 3.2 Consensus size: 99
13705275 CTTTCCATAC
13705285 AATATGCCACAATA-GCTTTGCATAAGATTAGCCACAAAGGCTTTCCAGACAATACGCCACAAAG
1 AATATGCCACAA-AGGCTTT-CATAAGATTAGCCACAAAGGCTTTCCAGACAATACGCCACAAAG
* * * *
13705349 GCTTCTCTTAATATTAGCGACAAAGGCTTTCTAGAT
64 GCTTTTCATAAGATTAGCCACAAAGGCTTTCTAGAT
* * * * *
13705385 AATACGCCACAAAGGCTTTC-T-AGATAATAAGCCACAAAGGATTTACATATAATACGCCACAAA
1 AATATGCCACAAAGGCTTTCATAAGAT--T-AGCCACAAAGGCTTTCCAGACAATACGCCACAAA
* * *
13705448 GAG-TTTTCATAAGATTAGCCATAAAGGCTTTCCAAAT
63 G-GCTTTTCATAAGATTAGCCACAAAGGCTTTCTAGAT
* * * *
13705485 AATATGCCATAAAGGTTTTTCATAAGATTAGCCACAAAGGCTTTCCAGACAATACACCACAAAAG
1 AATATGCCACAAAGG-CTTTCATAAGATTAGCCACAAAGGCTTTCCAGACAATACGCCACAAAGG
* *
13705550 CTTTTCATAAGATTAACTACAAAGGCTTTCTAGAT
65 CTTTTCATAAGATTAGCCACAAAGGCTTTCTAGAT
* *
13705585 ATTATGGCACAAAGGCTTTC
1 AATATGCCACAAAGGCTTTC
13705605 CAGTTAATCC
Statistics
Matches: 181, Mismatches: 30, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
97 4 0.02
98 1 0.01
99 8 0.04
100 157 0.87
101 6 0.03
102 1 0.01
103 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (99 bp):
AATATGCCACAAAGGCTTTCATAAGATTAGCCACAAAGGCTTTCCAGACAATACGCCACAAAGGC
TTTTCATAAGATTAGCCACAAAGGCTTTCTAGAT
Found at i:13712336 original size:40 final size:39
Alignment explanation
Indices: 13712251--13712329 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
13712241 TTAATTAGAG
*
13712251 AATATTTTTGAAAATTTAAATAAACAAAATTTTTAAGTT
1 AATATTTTTGAAAATTTAAATAAACAAAAATTTTAAGTT
13712290 AATATTTTTGAAAATTTAAATAAACAAAAATTTTAAGTT
1 AATATTTTTGAAAATTTAAATAAACAAAAATTTTAAGTT
13712329 A
1 A
13712330 TTTATTTGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.42
Consensus pattern (39 bp):
AATATTTTTGAAAATTTAAATAAACAAAAATTTTAAGTT
Found at i:13719993 original size:46 final size:47
Alignment explanation
Indices: 13719943--13720031 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 47
13719933 AGTATAAAAA
*
13719943 AATTTAAAATAAAACAAAGCAACT-TAAAATAAATAATATATATAAC
1 AATTTAAAATAAAACAAAGAAACTCTAAAATAAATAATATATATAAC
* * * *
13719989 AATTTAAAATAACATATAGAAAGTCTAAAATAAATAATATATA
1 AATTTAAAATAAAACAAAGAAACTCTAAAATAAATAATATATA
13720032 AAAAGAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 19 0.51
47 18 0.49
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (47 bp):
AATTTAAAATAAAACAAAGAAACTCTAAAATAAATAATATATATAAC
Found at i:13720000 original size:22 final size:21
Alignment explanation
Indices: 13719973--13720034 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
13719963 AACTTAAAAT
*
13719973 AAATAATATATATAACAATTTA
1 AAATAATATATATAA-AATCTA
* * *
13719995 AAATAACATATAGAAAGTCTA
1 AAATAATATATATAAAATCTA
13720016 AAATAAATAATATATAAAA
1 AAAT-AAT-ATATATAAAA
13720035 AGAAATTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 8 0.26
22 15 0.48
23 8 0.26
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (21 bp):
AAATAATATATATAAAATCTA
Found at i:13720349 original size:27 final size:27
Alignment explanation
Indices: 13720281--13720368 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
13720271 AAAGTAATTA
* *
13720281 ATATATAAAATAATTCAAAA-TAATA-T
1 ATATA-AAAACAATTTAAAATTAATACT
* * *
13720307 GTATTAAAACAGTTTAAAATTAATACT
1 ATATAAAAACAATTTAAAATTAATACT
* *
13720334 ATATAAAAACAATTTAACATGAATAAC-
1 ATATAAAAACAATTTAAAATTAAT-ACT
13720361 ATATAAAA
1 ATATAAAA
13720369 TGCATAATAT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
25 11 0.22
26 8 0.16
27 28 0.57
28 2 0.04
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (27 bp):
ATATAAAAACAATTTAAAATTAATACT
Found at i:13720413 original size:24 final size:24
Alignment explanation
Indices: 13720386--13720463 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
13720376 TATGTAAAAA
*
13720386 AAAAACTTAAAATATATAATATGT
1 AAAAACTTAAAATAAATAATATGT
** * *
13720410 AAAAGTTTAAAATAAATAATGTCTAT
1 AAAAACTTAAAATAAATAA--TATGT
*
13720436 AAAAACTTAAAAGAAATAATATGT
1 AAAAACTTAAAATAAATAATATGT
13720460 AAAA
1 AAAA
13720464 TAATTTAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 23 0.55
26 19 0.45
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAACTTAAAATAAATAATATGT
Found at i:13720471 original size:26 final size:25
Alignment explanation
Indices: 13720385--13720476 Score: 96
Period size: 26 Copynumber: 3.6 Consensus size: 25
13720375 ATATGTAAAA
* *
13720385 AAAAAACTTAAAATATATAATATGT
1 AAAAAATTTAAAATAAATAATATGT
* * *
13720410 -AAAAGTTTAAAATAAATAATGTCT
1 AAAAAATTTAAAATAAATAATATGT
* *
13720434 ATAAAAACTTAAAAGAAATAATATGT
1 A-AAAAATTTAAAATAAATAATATGT
13720460 AAAATAATTTAAAATAA
1 AAAA-AATTTAAAATAA
13720477 TATATAATGA
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
24 19 0.37
25 3 0.06
26 30 0.58
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.30
Consensus pattern (25 bp):
AAAAAATTTAAAATAAATAATATGT
Found at i:13722149 original size:44 final size:44
Alignment explanation
Indices: 13722099--13722223 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
13722089 AAGACTTGAA
* * * *
13722099 CTTCAACTTGCTCCACTACAACTTCAAGGAGGTAAGGTTTGTGG
1 CTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGATTAGTGG
* *
13722143 CTTCAACCTGCTCCACTGCAACTTCATGGAGATAAGATTAGTGG
1 CTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGATTAGTGG
** * ** *
13722187 CTTCAGTCTGCTCCATTGTAACTTCAGGGAGATAAGA
1 CTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGA
13722224 ATCGTCATGG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
CTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGATTAGTGG
Found at i:13722439 original size:44 final size:44
Alignment explanation
Indices: 13722333--13722503 Score: 146
Period size: 44 Copynumber: 3.9 Consensus size: 44
13722323 GATTTGTTAT
* * ** * **
13722333 CTTCAATCTATTCCACTGCAACTTTAGGGAGATGAGATTCA-TTA
1 CTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATT-AGTGG
* * ** * * *
13722377 CTTCAACCTGCTTTACTGCAACTTCAGGAAGATAAGGTTTGTGG
1 CTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATTAGTGG
* *
13722421 TTTTAATCTACTCCACTGCAACTTCAGAAAGATAAGATTAGTGG
1 CTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATTAGTGG
* * * *
13722465 CTTCAATCTGCTCCGCTGCAACTTTAAAAAGATAAGATT
1 CTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATT
13722504 CTCCATGATG
Statistics
Matches: 99, Mismatches: 27, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
44 99 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGATTAGTGG
Found at i:13730156 original size:19 final size:20
Alignment explanation
Indices: 13730132--13730178 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13730122 TTATGAAACT
* *
13730132 TAATGCATATG-ATGGAATG
1 TAATGCAAATGAATGAAATG
13730151 TAATGCAAATGAATGAAATG
1 TAATGCAAATGAATGAAATG
13730171 -AATGCAAA
1 TAATGCAAA
13730179 AAGAAACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGAATGAAATG
Found at i:13733652 original size:26 final size:27
Alignment explanation
Indices: 13733591--13733709 Score: 79
Period size: 26 Copynumber: 4.6 Consensus size: 27
13733581 AAATAATGAG
13733591 ACAATTTAAAATAAATAATACATAAAA
1 ACAATTTAAAATAAATAATACATAAAA
* * *
13733618 ATAAGTTTAAAATAGAT-AT-TATAAAA
1 ACAA-TTTAAAATAAATAATACATAAAA
* * *
13733644 AGCAATTTAAAGTGAAT-A-GCAT-AAA
1 A-CAATTTAAAATAAATAATACATAAAA
* * * * *
13733669 GCAATCTAAAATAATTAATATACAAAA
1 ACAATTTAAAATAAATAATACATAAAA
13733696 A-AATTTAAAATAAA
1 ACAATTTAAAATAAA
13733710 ACAAAGTAAT
Statistics
Matches: 67, Mismatches: 19, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
24 11 0.16
25 4 0.06
26 31 0.46
27 10 0.15
28 11 0.16
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (27 bp):
ACAATTTAAAATAAATAATACATAAAA
Found at i:13733736 original size:46 final size:45
Alignment explanation
Indices: 13733666--13733804 Score: 143
Period size: 46 Copynumber: 3.0 Consensus size: 45
13733656 TGAATAGCAT
* *
13733666 AAAGCAATCTAAAATAATTAATATACAAAAAAATTTAAAATAAAAC
1 AAAGAAATCTAAAATAAATAATATA-AAAAAAATTTAAAATAAAAC
* * * * * *
13733712 AAAGTAATTTAAAATAAATAATATATATAACAATTTAAAATAACAT
1 AAAGAAATCTAAAATAAATAATATA-AAAAAAATTTAAAATAAAAC
*
13733758 ATAGAAAGTCTAAAATAAATAATATGTAAAAAGAAATTTAAAATAAA
1 AAAGAAA-TCTAAAATAAATAATA--TAAAAA-AAATTTAAAATAAA
13733805 TAATATACAT
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
46 43 0.57
47 15 0.20
48 3 0.04
49 14 0.19
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.27
Consensus pattern (45 bp):
AAAGAAATCTAAAATAAATAATATAAAAAAAATTTAAAATAAAAC
Found at i:13734047 original size:26 final size:26
Alignment explanation
Indices: 13734013--13734063 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
13734003 GTTTAAAATA
* *
13734013 AATAAATAAAGTAATGCAAAGTAATT
1 AATAAATAAAATAATGCAAAATAATT
* *
13734039 AATATATAAAATAATTCAAAATAAT
1 AATAAATAAAATAATGCAAAATAAT
13734064 ATGTATTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (26 bp):
AATAAATAAAATAATGCAAAATAATT
Found at i:13734109 original size:27 final size:27
Alignment explanation
Indices: 13734040--13734127 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
13734030 AAAGTAATTA
* *
13734040 ATATATAAAATAATTCAAAAT-AATA-T
1 ATATAAAAAAAAATT-AAAATGAATACT
* * * *
13734066 GTATTAAAACAATTTAAAATGAATACT
1 ATATAAAAAAAAATTAAAATGAATACT
*
13734093 ATATAAAAAAAAATTAACATGAATAAC-
1 ATATAAAAAAAAATTAAAATGAAT-ACT
13734120 ATATAAAA
1 ATATAAAA
13734128 TACATAATAT
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
25 5 0.10
26 13 0.27
27 28 0.58
28 2 0.04
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (27 bp):
ATATAAAAAAAAATTAAAATGAATACT
Found at i:13734203 original size:26 final size:24
Alignment explanation
Indices: 13734144--13734204 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
13734134 ATATGTAAAA
**
13734144 AAAAACTTAAAATATATAATATGT
1 AAAAACTTAAAATATATAATACAT
**
13734168 AAAAGTTTAAAATATATAATGTACAT
1 AAAAACTTAAAATATATAA--TACAT
13734194 AAAAACTTAAA
1 AAAAACTTAAA
13734205 GGAAATAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 17 0.59
26 12 0.41
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (24 bp):
AAAAACTTAAAATATATAATACAT
Found at i:13739369 original size:46 final size:46
Alignment explanation
Indices: 13739297--13739386 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
13739287 CTTATTAATG
*
13739297 ATATTGAGTTTGAACATGCTCTCATACATATATCTTTTCCCTACTA
1 ATATAGAGTTTGAACATGCTCTCATACATATATCTTTTCCCTACTA
13739343 ATATAGAGTTTGAACATGCTCTCATACATATATCTTTTCCCTAC
1 ATATAGAGTTTGAACATGCTCTCATACATATATCTTTTCCCTAC
13739387 AAAAATTCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (46 bp):
ATATAGAGTTTGAACATGCTCTCATACATATATCTTTTCCCTACTA
Found at i:13744848 original size:38 final size:38
Alignment explanation
Indices: 13744806--13744896 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 38
13744796 GTCCAACATA
13744806 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
1 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
* * * *
13744844 ACACACCGAGTATGGGGATAAAATCGATCCATCCAGGCCT
1 ACACACC-A-TGTGGGGATAAAATCGACCCACCCAGCCCT
*
13744884 ACACACCAAGTGG
1 ACACACCATGTGG
13744897 TACTGTAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 10 0.22
39 2 0.04
40 33 0.73
ACGTcount: A:0.33, C:0.32, G:0.21, T:0.14
Consensus pattern (38 bp):
ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
Found at i:13751986 original size:38 final size:38
Alignment explanation
Indices: 13751944--13752034 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 38
13751934 GTCCAACCCA
13751944 ACACACCATGTGGAGATAAAATCGACCCACCCAGCCCT
1 ACACACCATGTGGAGATAAAATCGACCCACCCAGCCCT
* * ****
13751982 ACACACCAAGTATGGGGATAAAATCGACTTTTCCAGCCCT
1 ACACACC-A-TGTGGAGATAAAATCGACCCACCCAGCCCT
*
13752022 ACACACCAAGTGG
1 ACACACCATGTGG
13752035 TAATGTGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 10 0.23
39 2 0.05
40 31 0.72
ACGTcount: A:0.34, C:0.32, G:0.18, T:0.16
Consensus pattern (38 bp):
ACACACCATGTGGAGATAAAATCGACCCACCCAGCCCT
Found at i:13757921 original size:13 final size:13
Alignment explanation
Indices: 13757903--13757928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13757893 TTAAATCTGC
13757903 TAAAAAATAAAAA
1 TAAAAAATAAAAA
13757916 TAAAAAATAAAAA
1 TAAAAAATAAAAA
13757929 GTAGTTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:13761665 original size:5 final size:5
Alignment explanation
Indices: 13761655--13761679 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13761645 ATAATAATAA
13761655 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
13761680 GCAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:13762135 original size:90 final size:89
Alignment explanation
Indices: 13761974--13762149 Score: 289
Period size: 90 Copynumber: 2.0 Consensus size: 89
13761964 TTGTTTTAAT
*
13761974 TAACTAATTATCTAAACTAAGAACGCACTGAGAAAGAATTGGGGAACTACTTTTGGGAAAATCGA
1 TAACTAATTATCTAAACTAAGAACGCACAGAGAAAGAATTGGGGAACTACTTTTGGGAAAATCGA
*
13762039 TTGACTTGAGGCAATACCTAATGC
66 TTGACTTGAGACAATACCTAATGC
* * * *
13762063 TAACTAATTATCTAAACTAAGAACGCACAGAGAAAAGAATTGGGGCATTGCTTTTGGGAAAATTG
1 TAACTAATTATCTAAACTAAGAACGCACAGAG-AAAGAATTGGGGAACTACTTTTGGGAAAATCG
13762128 ATTGACTTGAGACAATACCTAA
65 ATTGACTTGAGACAATACCTAA
13762150 GAAAAAATCC
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 31 0.39
90 49 0.61
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (89 bp):
TAACTAATTATCTAAACTAAGAACGCACAGAGAAAGAATTGGGGAACTACTTTTGGGAAAATCGA
TTGACTTGAGACAATACCTAATGC
Found at i:13762703 original size:159 final size:159
Alignment explanation
Indices: 13762414--13762735 Score: 635
Period size: 159 Copynumber: 2.0 Consensus size: 159
13762404 CCCAAAAGCA
13762414 GTTCCCCAATTCCATTCTCTTTGAATTCTTAGTTTAGATAATTAGTTAGTTAAAACAAAAACCTC
1 GTTCCCCAATTCCATTCTCTTTGAATTCTTAGTTTAGATAATTAGTTAGTTAAAACAAAAACCTC
13762479 TTTATTCTTAGGCTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGA
66 TTTATTCTTAGGCTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGA
*
13762544 CAATCCGGTCTTGCTAAAACTATACTACT
131 CAATCCGGTCTTGCTAAAACTATACGACT
13762573 GTTCCCCAATTCCATTCTCTTTGAATTCTTAGTTTAGATAATTAGTTAGTTAAAACAAAAACCTC
1 GTTCCCCAATTCCATTCTCTTTGAATTCTTAGTTTAGATAATTAGTTAGTTAAAACAAAAACCTC
13762638 TTTATTCTTAGGCTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGA
66 TTTATTCTTAGGCTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGA
13762703 CAATCCGGTCTTGCTAAAACTATACGACT
131 CAATCCGGTCTTGCTAAAACTATACGACT
13762732 GTTC
1 GTTC
13762736 GATAGGTACA
Statistics
Matches: 162, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 162 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (159 bp):
GTTCCCCAATTCCATTCTCTTTGAATTCTTAGTTTAGATAATTAGTTAGTTAAAACAAAAACCTC
TTTATTCTTAGGCTAGATAATAAAAAGACAGTCATTACTAGTACTTTTAGTTCCTTTGGGTTCGA
CAATCCGGTCTTGCTAAAACTATACGACT
Found at i:13765651 original size:72 final size:72
Alignment explanation
Indices: 13765532--13765665 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 72
13765522 GTGAGTCATT
* *
13765532 CCAAGTTCGGTAGTTTTAAGGTAAACAACACCCATCTAAAATCTTATTTTGATGAGAATGATAGA
1 CCAAGTTCGGCACTTTTAAGGTAAACAACACCCATCTAAAATCTTATTTTGATGAGAATGATAGA
13765597 GGTCACC
66 GGTCACC
* * *
13765604 CCAAGTTCGGCACTTTTAAGGTATACAACACCCATTTAAAA-CATTATTTTGATGAGATTGAT
1 CCAAGTTCGGCACTTTTAAGGTAAACAACACCCATCTAAAATC-TTATTTTGATGAGAATGAT
13765666 GGCAGGAATG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.02
72 55 0.98
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
CCAAGTTCGGCACTTTTAAGGTAAACAACACCCATCTAAAATCTTATTTTGATGAGAATGATAGA
GGTCACC
Found at i:13771803 original size:19 final size:19
Alignment explanation
Indices: 13771775--13771824 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
13771765 GCAACAAAAG
* *
13771775 AAAATTTAAATTAAAACAA
1 AAAATATAAAATAAAACAA
*
13771794 AAAATATAAAATAAAATAA
1 AAAATATAAAATAAAACAA
*
13771813 AATAAAATAAAA
1 AA-AATATAAAA
13771825 ATGGATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATAAAATAAAACAA
Found at i:13771807 original size:5 final size:5
Alignment explanation
Indices: 13771781--13771824 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
13771771 AAAGAAAATT
* * *
13771781 TAAAT TAAAA CAAAA -AATA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
13771825 ATGGATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 3 0.09
5 31 0.91
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:13779827 original size:24 final size:24
Alignment explanation
Indices: 13779800--13779870 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
13779790 TTTTTTGTGT
*
13779800 ATGTGCAGATCAAGTAACTCAGAG
1 ATGTGCAGATCAAGTAAATCAGAG
* *
13779824 ATGT----ATC-AGAAAATCA-AA
1 ATGTGCAGATCAAGTAAATCAGAG
*
13779842 ATGTGCAGATCAAGTAATTCAGAG
1 ATGTGCAGATCAAGTAAATCAGAG
13779866 ATGTG
1 ATGTG
13779871 TCACAAAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 5 0.14
19 7 0.20
20 3 0.09
22 3 0.09
23 7 0.20
24 10 0.29
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.24
Consensus pattern (24 bp):
ATGTGCAGATCAAGTAAATCAGAG
Found at i:13779864 original size:42 final size:42
Alignment explanation
Indices: 13779800--13779881 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
13779790 TTTTTTGTGT
*
13779800 ATGTGCAGATCAAGTAACTCAGAGATGTATCAGAAAATCAAA
1 ATGTGCAGATCAAGTAACTCAGAGATGTATCACAAAATCAAA
* *
13779842 ATGTGCAGATCAAGTAATTCAGAGATGTGTCACAAAATCA
1 ATGTGCAGATCAAGTAACTCAGAGATGTATCACAAAATCA
13779882 GAAGAGAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGTGCAGATCAAGTAACTCAGAGATGTATCACAAAATCAAA
Found at i:13781391 original size:3 final size:3
Alignment explanation
Indices: 13781383--13781446 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
13781373 TATTCCTTAT
* *
13781383 TTA TTA TTA GTA GTA -TA TTA TT- TTA TTTA TTTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA -TTA TTA TTA
*
13781429 TTC TTA TTA TTA GTTA TT
1 TTA TTA TTA TTA -TTA TT
13781447 TGAATTGTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
2 4 0.08
3 36 0.68
4 13 0.25
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:13781427 original size:26 final size:30
Alignment explanation
Indices: 13781379--13781436 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
13781369 TTTTTATTCC
13781379 TTATTTATTATTAGTAGTATATTATT-TTAT
1 TTATTTATTATTA-TAGTATATTATTCTTAT
13781409 TTATTTATTATT-TA-T-TATTATTCTTAT
1 TTATTTATTATTATAGTATATTATTCTTAT
13781436 T
1 T
13781437 ATTAGTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 7 0.26
27 6 0.22
28 2 0.07
30 12 0.44
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (30 bp):
TTATTTATTATTATAGTATATTATTCTTAT
Found at i:13781445 original size:26 final size:24
Alignment explanation
Indices: 13781382--13781447 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
13781372 TTATTCCTTA
*
13781382 TTTATTATTAG-TA-GTATATTAT
1 TTTATTATTAGTTATTTATATTAT
13781404 TTTATTTATTTA-TTATTTATTATTAT
1 TTTA-TTA-TTAGTTATTTA-TATTAT
13781430 TCTTATTATTAGTTATTT
1 T-TTATTATTAGTTATTT
13781448 GAATTGTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
22 4 0.11
23 3 0.08
24 5 0.14
25 5 0.14
26 16 0.44
27 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (24 bp):
TTTATTATTAGTTATTTATATTAT
Found at i:13781772 original size:25 final size:25
Alignment explanation
Indices: 13781738--13781787 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
13781728 ACTTAGTTTC
*
13781738 ACTATATAGTTCTGGAATGCTTGAG
1 ACTATATAGTTCTAGAATGCTTGAG
13781763 ACTATATAGTTCTAGAATGCTTGAG
1 ACTATATAGTTCTAGAATGCTTGAG
13781788 TTTTCTTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (25 bp):
ACTATATAGTTCTAGAATGCTTGAG
Found at i:13786390 original size:23 final size:23
Alignment explanation
Indices: 13786364--13786408 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13786354 TGGGTATGTG
*
13786364 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
13786387 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
13786409 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:13793278 original size:86 final size:86
Alignment explanation
Indices: 13793133--13793303 Score: 333
Period size: 86 Copynumber: 2.0 Consensus size: 86
13793123 TTAGATCCAA
*
13793133 AAGATTCAAATACGAAGCTAGATCGAGGAAAGGAAAAAGTTCAGGATTAGTAGATTTTTGTACAC
1 AAGATTCAAATACGAAGCTAGATAGAGGAAAGGAAAAAGTTCAGGATTAGTAGATTTTTGTACAC
13793198 GAACAAGTATCAAGGTAAGTG
66 GAACAAGTATCAAGGTAAGTG
13793219 AAGATTCAAATACGAAGCTAGATAGAGGAAAGGAAAAAGTTCAGGATTAGTAGATTTTTGTACAC
1 AAGATTCAAATACGAAGCTAGATAGAGGAAAGGAAAAAGTTCAGGATTAGTAGATTTTTGTACAC
13793284 GAACAAGTATCAAGGTAAGT
66 GAACAAGTATCAAGGTAAGT
13793304 TCATGTCACT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.23
Consensus pattern (86 bp):
AAGATTCAAATACGAAGCTAGATAGAGGAAAGGAAAAAGTTCAGGATTAGTAGATTTTTGTACAC
GAACAAGTATCAAGGTAAGTG
Found at i:13793658 original size:59 final size:59
Alignment explanation
Indices: 13793585--13793722 Score: 276
Period size: 59 Copynumber: 2.3 Consensus size: 59
13793575 TAGGGTATGA
13793585 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
13793644 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
13793703 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
13793723 CCCGACACTA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (59 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
Found at i:13794943 original size:74 final size:74
Alignment explanation
Indices: 13794809--13794950 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 74
13794799 GGGACACGCA
* * * * *
13794809 CGTGTGACACACCCATGTGTGATTACTTCAGGCCGTGCTCGAGCCTGCCAAATTGACACGGTCGT
1 CGTGTGACACACCCATGTGCGATTACTTAAGGCCGTGCTCAAGCCTGCCAAATGGACACGGGCGT
13794874 GTGGGTCAC
66 GTGGGTCAC
* * * * ** *
13794883 CGTGTGACACGCCCATGTGCGATTACTTAAGGTCGTGTTCAAGGCTGTTAAATGGGCACGGGCGT
1 CGTGTGACACACCCATGTGCGATTACTTAAGGCCGTGCTCAAGCCTGCCAAATGGACACGGGCGT
13794948 GTG
66 GTG
13794951 ATCTACCCGT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
74 56 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (74 bp):
CGTGTGACACACCCATGTGCGATTACTTAAGGCCGTGCTCAAGCCTGCCAAATGGACACGGGCGT
GTGGGTCAC
Found at i:13795478 original size:6 final size:6
Alignment explanation
Indices: 13795467--13795518 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
13795457 ATTTATCTTA
* * * * *
13795467 TTTTAT TTTTATT TTTTAG TTTTAT TTCTAT TTTTAT GTCTAT TGTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
13795516 TTT
1 TTT
13795519 CTTAGACTTC
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:13795501 original size:12 final size:12
Alignment explanation
Indices: 13795464--13795517 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
13795454 TCCATTTATC
13795464 TTATTT-TATTT
1 TTATTTCTATTT
* *
13795475 TTATTTTTTAGTT
1 TTA-TTTCTATTT
13795488 TTATTTCTATTT
1 TTATTTCTATTT
* *
13795500 TTATGTCTATTG
1 TTATTTCTATTT
13795512 TTATTT
1 TTATTT
13795518 TCTTAGACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
11 3 0.09
12 25 0.71
13 7 0.20
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (12 bp):
TTATTTCTATTT
Found at i:13812358 original size:40 final size:40
Alignment explanation
Indices: 13812314--13812575 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
13812304 GCTCCTCGTT
* *
13812314 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
13812354 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
13812394 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
13812433 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
13812472 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
13812511 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
13812552 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13812576 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:13815820 original size:45 final size:45
Alignment explanation
Indices: 13815715--13815890 Score: 245
Period size: 45 Copynumber: 4.0 Consensus size: 45
13815705 TGAATTCATC
* *
13815715 CACCGGCA-TATTGCCTGCTAGGCTCGAA-GCCCGA-TA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATTAGT-ATCT
13815757 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATTAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATTAGTATCT
*
13815802 CACCGGCATTATAACCTGCTAGGCTC-AAGGGCCCGATTAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAA-GGCCCGATTAGTATCT
* **
13815847 CACCGGCATTATAGCTTGCTAGGCTTAAAGGCCCGATTAGTATC
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATTAGTATC
13815891 ATACGATATT
Statistics
Matches: 122, Mismatches: 6, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
42 8 0.07
43 19 0.16
44 8 0.07
45 84 0.69
46 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATTAGTATCT
Found at i:13818038 original size:3 final size:3
Alignment explanation
Indices: 13818030--13818061 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13818020 TTGCAGTAGT
*
13818030 TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13818062 GGTAAACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:13818415 original size:25 final size:26
Alignment explanation
Indices: 13818382--13818451 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
13818372 AAAATTCTTC
*
13818382 TTAACAATAATTATATA-AAAATAAA
1 TTAAAAATAATTATATATAAAATAAA
*
13818407 TTAAAAATAATTAAATTTATAAAATAAA
1 TTAAAAATAATT--ATATATAAAATAAA
**
13818435 TTCTAAA-AATTATATAT
1 TTAAAAATAATTATATAT
13818452 GTAATCCATG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 16 0.43
27 8 0.22
28 13 0.35
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (26 bp):
TTAAAAATAATTATATATAAAATAAA
Found at i:13818873 original size:23 final size:23
Alignment explanation
Indices: 13818829--13818876 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13818819 GTGCACATAA
* *
13818829 AATATATAATTTTTTATCAAAAT
1 AATATATAATTTATTAACAAAAT
*
13818852 AATATATAATTTATTAAGAAAAT
1 AATATATAATTTATTAACAAAAT
13818875 AA
1 AA
13818877 AAAAATAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AATATATAATTTATTAACAAAAT
Found at i:13818927 original size:64 final size:60
Alignment explanation
Indices: 13818853--13818973 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 60
13818843 TATCAAAATA
**
13818853 ATATATAATTTATTAAGAAAATA-AAAAAAT-AGATTATAAATATCTATGAAAAATATTTAAATG
1 ATATATAATTTACCAA-AAAA-ACAAAAAATGAGATTAT--ATA--TATGAAAAATATTTAAATG
13818916 G
60 G
*
13818917 ATATATAATTTACCAAAAAAACTAAAAATGAGATTATATATATGAAAAATATTTAAA
1 ATATATAATTTACCAAAAAAACAAAAAATGAGATTATATATATGAAAAATATTTAAA
13818974 ACATTGATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
60 17 0.33
62 4 0.08
63 10 0.19
64 21 0.40
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (60 bp):
ATATATAATTTACCAAAAAAACAAAAAATGAGATTATATATATGAAAAATATTTAAATGG
Found at i:13824683 original size:22 final size:22
Alignment explanation
Indices: 13824655--13824699 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
13824645 AATATAAAGT
*
13824655 AAATAAAGTAATCATCATTGGG
1 AAATAAAATAATCATCATTGGG
13824677 AAATAAAATAATCATCATTGGG
1 AAATAAAATAATCATCATTGGG
13824699 A
1 A
13824700 CCATCCTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (22 bp):
AAATAAAATAATCATCATTGGG
Found at i:13829709 original size:36 final size:36
Alignment explanation
Indices: 13829669--13829742 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
13829659 TGCATAGCGA
13829669 AATTGTGATAA-GAAAATATTAGTTCATTGATTATCT
1 AATTGTGATAATG-AAATATTAGTTCATTGATTATCT
*
13829705 AATTGTGATAATGAATTATTAGTTCATTGATTATCT
1 AATTGTGATAATGAAATATTAGTTCATTGATTATCT
13829741 AA
1 AA
13829743 GTTCAAACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (36 bp):
AATTGTGATAATGAAATATTAGTTCATTGATTATCT
Found at i:13830799 original size:13 final size:13
Alignment explanation
Indices: 13830780--13830813 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13830770 AATTGTAGAG
13830780 AAAAAATTATTT-
1 AAAAAATTATTTC
13830792 AAAGAAATTATTTC
1 AAA-AAATTATTTC
13830806 AAAAAATT
1 AAAAAATT
13830814 TCTAGAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 14 0.70
14 3 0.15
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (13 bp):
AAAAAATTATTTC
Found at i:13840854 original size:26 final size:26
Alignment explanation
Indices: 13840825--13840878 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
13840815 AATAACAAAA
*
13840825 TTATATTAGAATTTTA-TCTAATTAAG
1 TTATATTA-AATTATATTCTAATTAAG
* *
13840851 TTATTTTAAATTATATTCTATTTAAG
1 TTATATTAAATTATATTCTAATTAAG
13840877 TT
1 TT
13840879 GGCTTATCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (26 bp):
TTATATTAAATTATATTCTAATTAAG
Found at i:13844663 original size:44 final size:44
Alignment explanation
Indices: 13844598--13844687 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
13844588 GAGACAAAAT
* *
13844598 CTACAATCTTCAATCTGCTCCCTTGCTACCTCA-AGAAGATAAGG
1 CTACAATCTTCAACCTACTCCCTTGCTACCTCAGAG-AGATAAGG
*
13844642 CTACAATCTTCAGCCTACTCCCTTGCTACCTCAGAGAGATAAGG
1 CTACAATCTTCAACCTACTCCCTTGCTACCTCAGAGAGATAAGG
13844686 CT
1 CT
13844688 GGTGGCTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (44 bp):
CTACAATCTTCAACCTACTCCCTTGCTACCTCAGAGAGATAAGG
Found at i:13844690 original size:178 final size:177
Alignment explanation
Indices: 13844322--13844723 Score: 633
Period size: 178 Copynumber: 2.3 Consensus size: 177
13844312 CAACTTTAGG
* ** * *
13844322 GAGATAAGGCTGGTGACTTTAATCTGCTCCCCTACTACCTCAAGAAGATAAGATTCATCATCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTCATCATCTTC
* * * *
13844387 GATCTTCCCCACTACTATCTCGAGGAGACAAATCTACAGTCTTCAATCTGCTCCCTTGCTACGTC
66 GATCTGCCCCACTACTATCTCAAGGAGACAAATCTACAATCTTCAATCTGCTCCCTTGCTACCTC
* * *
13844452 AGGAAAATAAGACTACAATCTCCAGCCTACTCCCTTGCTACTTTAGA
131 AAGAAAATAAGACTACAATCTCCAGCCTACTCCCTTGCTACCTCAGA
*
13844499 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTCATCGTCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTCATCATCTTC
*
13844564 GATCTGCCCCACTGCTATCTCAAGGAGACAAAATCTACAATCTTCAATCTGCTCCCTTGCTACCT
66 GATCTGCCCCACTACTATCTCAAGGAGAC-AAATCTACAATCTTCAATCTGCTCCCTTGCTACCT
* * *
13844629 CAAGAAGATAAGGCTACAATCTTCAGCCTACTCCCTTGCTACCTCAGA
130 CAAGAAAATAAGACTACAATCTCCAGCCTACTCCCTTGCTACCTCAGA
*
13844677 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAG
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAG
13844724 TGATAAACTG
Statistics
Matches: 206, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
177 85 0.41
178 121 0.59
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (177 bp):
GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTCATCATCTTC
GATCTGCCCCACTACTATCTCAAGGAGACAAATCTACAATCTTCAATCTGCTCCCTTGCTACCTC
AAGAAAATAAGACTACAATCTCCAGCCTACTCCCTTGCTACCTCAGA
Found at i:13845450 original size:12 final size:13
Alignment explanation
Indices: 13845414--13845451 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
13845404 AAATATTTAA
13845414 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
13845427 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
13845441 CTTG-TCTTAAT
1 CTTGTTCTTAAT
13845452 ATTCCAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:13861823 original size:27 final size:26
Alignment explanation
Indices: 13861775--13861826 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
13861765 GCGAGGCTGC
*
13861775 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
13861801 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
13861827 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:13865306 original size:20 final size:20
Alignment explanation
Indices: 13865281--13865318 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13865271 TCAGTACAGG
*
13865281 TGCCTCGGTCAGAACTTTCT
1 TGCCTCGGTCAAAACTTTCT
13865301 TGCCTCGGTCAAAACTTT
1 TGCCTCGGTCAAAACTTT
13865319 ATTCAACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.34
Consensus pattern (20 bp):
TGCCTCGGTCAAAACTTTCT
Found at i:13874885 original size:113 final size:113
Alignment explanation
Indices: 13874684--13874891 Score: 328
Period size: 113 Copynumber: 1.8 Consensus size: 113
13874674 TCCGGTCTTG
* *
13874684 CTAAAACTATACTACTATTTGATAGGTACACTTGTCGACATCGTGATAATAGTTAGTTTCAAGAA
1 CTAAAACTATACTACTACTCGATAGGTACACTTGTCGACATCGTGATAATAGTTAGTTTCAAGAA
*
13874749 CGATTAATTATAAATTTATAAAACTTATCACACAAATATCACGTATCA
66 CGATTAATTATAAATTTATAAAACCTATCACACAAATATCACGTATCA
* * **
13874797 CTAAAGCTATACTACTGCTCGATAGGTACACTTGTCTTCATCGTGATAATAGTTAGTTTCAAGAA
1 CTAAAACTATACTACTACTCGATAGGTACACTTGTCGACATCGTGATAATAGTTAGTTTCAAGAA
*
13874862 TGATTAATTATAAATTT-TCAAAACCTATCA
66 CGATTAATTATAAATTTAT-AAAACCTATCA
13874892 TGAAGATCAC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 1 0.01
113 85 0.99
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (113 bp):
CTAAAACTATACTACTACTCGATAGGTACACTTGTCGACATCGTGATAATAGTTAGTTTCAAGAA
CGATTAATTATAAATTTATAAAACCTATCACACAAATATCACGTATCA
Found at i:13876445 original size:51 final size:51
Alignment explanation
Indices: 13876390--13876505 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
13876380 TTTTATTTTC
13876390 TTTTTTTTTAAAGTCTCAAAGCGCCCTTTGT-GGGAATTT-ACCTTGG-CCCT
1 TTTTTTTTTAAAGTCTCAAAGCGCCCTTT-TCGGG-ATTTCACCTTGGCCCCT
* * *
13876440 TTTTTTTTTGAAGGTCTCAAAGTGCCCTTTTCGGGTTTTCACCTTGGCCCCT
1 TTTTTTTTT-AAAGTCTCAAAGCGCCCTTTTCGGGATTTCACCTTGGCCCCT
*
13876492 TTTTTTTCTAAAGT
1 TTTTTTTTTAAAGT
13876506 GTAGTACTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
50 13 0.23
51 32 0.56
52 12 0.21
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.46
Consensus pattern (51 bp):
TTTTTTTTTAAAGTCTCAAAGCGCCCTTTTCGGGATTTCACCTTGGCCCCT
Found at i:13906751 original size:27 final size:27
Alignment explanation
Indices: 13906720--13906897 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13906710 TAAATTGTAC
13906720 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13906747 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13906773 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13906801 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13906829 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13906856 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13906883 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13906898 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13906834 original size:82 final size:81
Alignment explanation
Indices: 13906721--13906876 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13906711 AAATTGTACA
* *
13906721 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13906785 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13906802 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13906867 TGCGAGTTGA
65 TGCGAATTGA
13906877 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13906888 original size:82 final size:81
Alignment explanation
Indices: 13906717--13906897 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
13906707 GATTAAATTG
* *
13906717 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13906782 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13906798 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13906862 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13906880 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13906898 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13917859 original size:3 final size:3
Alignment explanation
Indices: 13917851--13918053 Score: 127
Period size: 3 Copynumber: 68.7 Consensus size: 3
13917841 AATGAGAACG
* * * *
13917851 ATA ATA ATA ATA ATA ATA ATA ATA ATG GTA ATA ATA ATA GTG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
13917899 AGA ATA TTA ATA TTA GTA ATA ATA ATG ATA ATA GTA AT- ATA A-A AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
13917944 ATA A-A ATA AAA ATA AT- ATA ATA ATA GTAA ATA A-A AGTA A-A AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA A-TA ATA A-TA
* * * * * *
13917988 ATA GTA ATA GTA ATA ATA ATG GTA ATA ATAA ATA GTA ATA AT- ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
13918033 ATA ATA CA-A ATA ATAA ATA AT
1 ATA ATA -ATA ATA AT-A ATA AT
13918054 CTAAAGTTTG
Statistics
Matches: 150, Mismatches: 35, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
2 16 0.11
3 121 0.81
4 13 0.09
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13918222 original size:3 final size:3
Alignment explanation
Indices: 13918216--13918420 Score: 91
Period size: 3 Copynumber: 69.7 Consensus size: 3
13918206 AAAGAAAATG
* * *
13918216 TAA TAA TAA TAA TAG TAA TAA T-A CAA TAG TAA TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** * * *
13918262 TAG TAA TAA TAA T-G TAT TAAA TGG TAA -AA GAA TAA TAG TAA CAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * * * *
13918306 TAA TTT TAA -AA AAA TGA TAA TAG TCA TAAA TAA -GA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * ** * * *
13918350 TAA TAT TAA TAA AAA TAA -ACA TAA AAA GGA TAG TAA TAA TAG TAG
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
13918395 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
13918421 GAAGTAGTAA
Statistics
Matches: 145, Mismatches: 47, Indels: 20
0.68 0.22 0.09
Matches are distributed among these distances:
2 10 0.07
3 130 0.90
4 5 0.03
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:13918248 original size:20 final size:20
Alignment explanation
Indices: 13918220--13918274 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
13918210 AAAATGTAAT
* * *
13918220 AATAATAATAGTAATAATAC
1 AATAGTAATAATAATAATAA
13918240 AATAGTAATAATAATAATAA
1 AATAGTAATAATAATAATAA
13918260 AATAGTAATAATAAT
1 AATAGTAATAATAAT
13918275 GTATTAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (20 bp):
AATAGTAATAATAATAATAA
Found at i:13926704 original size:14 final size:14
Alignment explanation
Indices: 13926685--13926720 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
13926675 AATAGATACA
13926685 CATGCTTTAATTTT
1 CATGCTTTAATTTT
*
13926699 CATGCTTCAATTTT
1 CATGCTTTAATTTT
13926713 CATGCTTT
1 CATGCTTT
13926721 TACATACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.53
Consensus pattern (14 bp):
CATGCTTTAATTTT
Found at i:13933046 original size:52 final size:53
Alignment explanation
Indices: 13932954--13933089 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 53
13932944 TGTGCACCTG
* * *
13932954 TATAAAACCATGGCTGGGTTATGGCATCGGTGCAACGTGAT-ACGTG-TTCCCA
1 TATAAGACCATAGCTGGGATATGGCATCGGTGCAACGTGATAACGTGATT-CCA
* * * ** * * *
13933006 TATAAGACCGTAGCTGGGCTATGGCGTCGGTGTGATGTGATAATGTGATTCCG
1 TATAAGACCATAGCTGGGATATGGCATCGGTGCAACGTGATAACGTGATTCCA
*
13933059 TATAAGACCATATCTGGGATATGGCATCGGT
1 TATAAGACCATAGCTGGGATATGGCATCGGT
13933090 ATTATATGTA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
52 33 0.49
53 33 0.49
54 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (53 bp):
TATAAGACCATAGCTGGGATATGGCATCGGTGCAACGTGATAACGTGATTCCA
Found at i:13937125 original size:28 final size:29
Alignment explanation
Indices: 13937058--13937125 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
13937048 TTAATATTTA
* *
13937058 ATAATTTTATAATTTTTAAATAATTAAATT
1 ATAATTTTATAATTTTT-AAGAATTAAAAT
*
13937088 A-AATTATTATTATTTTT-AGAATTAAAAT
1 ATAATT-TTATAATTTTTAAGAATTAAAAT
13937116 ATAATTTTAT
1 ATAATTTTAT
13937126 CATTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 14 0.42
29 8 0.24
30 11 0.33
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (29 bp):
ATAATTTTATAATTTTTAAGAATTAAAAT
Found at i:13938777 original size:17 final size:17
Alignment explanation
Indices: 13938755--13938797 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
13938745 CACAAGGGCA
*
13938755 ATCCACATGGCTATGTG
1 ATCCACACGGCTATGTG
13938772 ATCCACACGGCTATGTG
1 ATCCACACGGCTATGTG
13938789 ATCCACACG
1 ATCCACACG
13938798 AATATGTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (17 bp):
ATCCACACGGCTATGTG
Found at i:13938803 original size:17 final size:17
Alignment explanation
Indices: 13938766--13938805 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
13938756 TCCACATGGC
**
13938766 TATGTGATCCACACGGC
1 TATGTGATCCACACGAA
13938783 TATGTGATCCACACGAA
1 TATGTGATCCACACGAA
13938800 TATGTG
1 TATGTG
13938806 TCTAAGGCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (17 bp):
TATGTGATCCACACGAA
Found at i:13941276 original size:47 final size:44
Alignment explanation
Indices: 13941175--13941436 Score: 201
Period size: 44 Copynumber: 5.7 Consensus size: 44
13941165 TATGCGTGTT
* * *
13941175 GATGCATGTCCCAAACATGTCTTACACTAGCA-CAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCATC-TCTCTTAGCC
* * * *
13941219 GATACGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ATCTCTCTT-A-GCC
* *
13941266 GATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTA-CT
1 GATGCATGTCCCAGACATGTCTTACACTGGCA-TC-TCTCT-TAGCC
*
13941312 GATGCCATGTCCTAGACATGGTCTTACACTGGC-TCTCAT-TTATGCGTGC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTC-TCTTA-GC---C
* * *
13941361 TGATGCATGTACCAGACATGTCTTACACTAGCA-CAACTCTTAGCC
1 -GATGCATGTCCCAGACATGTCTTACACTGGCATC-TCTCTTAGCC
* * *
13941406 GATACGTGTCCCAGACACGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
13941437 GCACAAATTA
Statistics
Matches: 174, Mismatches: 25, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
44 54 0.31
45 9 0.05
46 12 0.07
47 45 0.26
48 33 0.19
49 17 0.10
50 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATCTCTCTTAGCC
Found at i:13941350 original size:48 final size:46
Alignment explanation
Indices: 13941266--13941394 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 46
13941256 TGTTGAGGCC
* *
13941266 GATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCT-GTACT
1 GATGCATGT-CCAGACATGTCTTACACTGGCACTCATCTATCGTACT
* * *
13941312 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATTTATGCGTGCT
1 GATG-CATGTCC-AGACAT-GTCTTACACTGGCACTCATCTAT-CGTACT
*
13941362 GATGCATGTACCAGACATGTCTTACACTAGCAC
1 GATGCATGT-CCAGACATGTCTTACACTGGCAC
13941395 AACTCTTAGC
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
46 6 0.09
47 11 0.16
48 32 0.46
49 11 0.16
50 10 0.14
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCAGACATGTCTTACACTGGCACTCATCTATCGTACT
Found at i:13948782 original size:49 final size:48
Alignment explanation
Indices: 13948626--13948842 Score: 193
Period size: 44 Copynumber: 4.6 Consensus size: 48
13948616 ATATATTGTC
*
13948626 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGTGCTTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATATGCTTGCT
* * * * *
13948676 GATGAATGTCCCAGACATGTCTTACACTAG--CACA-A-CT-CTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATATGCTT-GCT
* *
13948720 GATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGTT
1 GATGCATGTCCCAGACAT-GTCTTACACTGGCTCTCATATATGCTTGCT
* * * * *
13948769 GATGCATGTCCCAGACATGTCTTCCACTAG--CACA-A-CT-CTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATATGCTT-GCT
*
13948813 GATGCATGTCCCAGACACGTCTTACACTGG
1 GATGCATGTCCCAGACATGTCTTACACTGG
13948843 AGCACAAATT
Statistics
Matches: 137, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
43 5 0.04
44 49 0.36
45 13 0.09
46 6 0.04
47 3 0.02
48 22 0.16
49 33 0.24
50 6 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATATGCTTGCT
Found at i:13948790 original size:93 final size:93
Alignment explanation
Indices: 13948625--13948842 Score: 366
Period size: 93 Copynumber: 2.3 Consensus size: 93
13948615 GATATATTGT
* *
13948625 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGTGCTTGCTGATGAATGTCCCAG
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGATGAATGTCCCAG
13948690 ACATGTCTTACACTAGCACAACTCTTAGC
65 ACATGTCTTACACTAGCACAACTCTTAGC
* *
13948719 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGTTGATGCATGTCCCAGA
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGATGAATGTCCCAGA
*
13948784 CATGTCTTCCACTAGCACAACTCTTAGC
66 CATGTCTTACACTAGCACAACTCTTAGC
*
13948812 CGATGCATGTCCCAGACA-CGTCTTACACTGG
1 CGATGCATGTCCCAGACATGGTCTTACACTGG
13948843 AGCACAAATT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
92 12 0.10
93 101 0.86
94 5 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGATGAATGTCCCAGA
CATGTCTTACACTAGCACAACTCTTAGC
Found at i:13950756 original size:48 final size:47
Alignment explanation
Indices: 13950536--13950847 Score: 261
Period size: 44 Copynumber: 6.7 Consensus size: 47
13950526 GATATATTGT
* * * *
13950536 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGTGCTTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTG-TAGC
* * * *
13950586 TGATGAATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTAGC
* *
13950630 CGATGCGTGTCCCAGACACGTCTTACACTGG--CT-ATCTCTGTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-T-A-GC
*
13950677 CGATGCATGTCCCATG-CATGTCTTACTCTGGCACTCATCTCTGT-GC
1 CGATGCATGTCCCA-GACATGTCTTACACTGGCACTCATCTCTGTAGC
* * * *
13950723 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGT-GT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCT--GTAGC
* * * *
13950773 TGATGCATGTCCCAGACATGTCTTCCACTAGCA--CAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTAGC
*
13950817 CGATGCATGTCCCAGACACGTCTTACACTGG
1 CGATGCATGTCCCAGACATGTCTTACACTGG
13950848 AGCACAAATT
Statistics
Matches: 212, Mismatches: 34, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
43 6 0.03
44 57 0.27
45 1 0.00
46 17 0.08
47 40 0.19
48 43 0.20
49 30 0.14
50 18 0.08
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.29
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTAGC
Found at i:13952384 original size:34 final size:34
Alignment explanation
Indices: 13952346--13952413 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
13952336 TAAATAACAC
13952346 GAATAAACCGAAAGAAAAAAGGGATTAGAATAAT
1 GAATAAACCGAAAGAAAAAAGGGATTAGAATAAT
* *
13952380 GAATAAACCTAAAGAAAAAATGGATTAGAATAAT
1 GAATAAACCGAAAGAAAAAAGGGATTAGAATAAT
13952414 CTTGGACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (34 bp):
GAATAAACCGAAAGAAAAAAGGGATTAGAATAAT
Found at i:13953195 original size:17 final size:18
Alignment explanation
Indices: 13953170--13953204 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13953160 GCCCTCAAGC
*
13953170 AAACTAAACAAAA-AAAA
1 AAACAAAACAAAACAAAA
13953187 AAACAAAACAAAACAAAA
1 AAACAAAACAAAACAAAA
13953205 CAAATTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (18 bp):
AAACAAAACAAAACAAAA
Found at i:13954682 original size:2 final size:2
Alignment explanation
Indices: 13954675--13954699 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13954665 AAAAACTAAA
13954675 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
13954700 TATAATACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13954787 original size:20 final size:20
Alignment explanation
Indices: 13954760--13954802 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13954750 ATCCCAAATA
* *
13954760 AAATTAAAGTACAAA-GTCT
1 AAATTAAAATAAAAATGTCT
13954779 AAATATAAAATAAAAATGTCT
1 AAAT-TAAAATAAAAATGTCT
13954800 AAA
1 AAA
13954803 ACTAGTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (20 bp):
AAATTAAAATAAAAATGTCT
Found at i:13956420 original size:40 final size:38
Alignment explanation
Indices: 13956332--13956436 Score: 129
Period size: 40 Copynumber: 2.7 Consensus size: 38
13956322 TGAATTCTCA
* * *
13956332 CACACTAAGTGCCAATAGATAGCCGAAGTTATTTAATCG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATTGAATCG
13956371 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTAT-T-GAATCG
* * *
13956411 TACACTAAGTGTCGTACATAGCCGAA
1 CACACTAAGTGCCATACATAGCCGAA
13956437 TTGTCATCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 16 0.28
39 14 0.24
40 28 0.48
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (38 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATTGAATCG
Found at i:13959021 original size:30 final size:30
Alignment explanation
Indices: 13958987--13959046 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13958977 CTTTAATATG
*
13958987 AACTTTGGAAAAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
13959017 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
13959047 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:13966828 original size:184 final size:184
Alignment explanation
Indices: 13966519--13966886 Score: 736
Period size: 184 Copynumber: 2.0 Consensus size: 184
13966509 AGGGTTTAAA
13966519 CACATACCTGTCAAATTTTCTTATTCATCACACTTACCAACATGTCACCTTCATTTTAGGCATTC
1 CACATACCTGTCAAATTTTCTTATTCATCACACTTACCAACATGTCACCTTCATTTTAGGCATTC
13966584 TTCTCATTCACTTAAGATTCAACCGTTGAACACAACGGAATATAATTTGAATACGCGGATTTCAT
66 TTCTCATTCACTTAAGATTCAACCGTTGAACACAACGGAATATAATTTGAATACGCGGATTTCAT
13966649 GAACGTAAGTGCCATACTCGCAGCTAGACAAACTCAATAGCCTGCAGAACTTAT
131 GAACGTAAGTGCCATACTCGCAGCTAGACAAACTCAATAGCCTGCAGAACTTAT
13966703 CACATACCTGTCAAATTTTCTTATTCATCACACTTACCAACATGTCACCTTCATTTTAGGCATTC
1 CACATACCTGTCAAATTTTCTTATTCATCACACTTACCAACATGTCACCTTCATTTTAGGCATTC
13966768 TTCTCATTCACTTAAGATTCAACCGTTGAACACAACGGAATATAATTTGAATACGCGGATTTCAT
66 TTCTCATTCACTTAAGATTCAACCGTTGAACACAACGGAATATAATTTGAATACGCGGATTTCAT
13966833 GAACGTAAGTGCCATACTCGCAGCTAGACAAACTCAATAGCCTGCAGAACTTAT
131 GAACGTAAGTGCCATACTCGCAGCTAGACAAACTCAATAGCCTGCAGAACTTAT
13966887 TTAGCCAAGC
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 184 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.30
Consensus pattern (184 bp):
CACATACCTGTCAAATTTTCTTATTCATCACACTTACCAACATGTCACCTTCATTTTAGGCATTC
TTCTCATTCACTTAAGATTCAACCGTTGAACACAACGGAATATAATTTGAATACGCGGATTTCAT
GAACGTAAGTGCCATACTCGCAGCTAGACAAACTCAATAGCCTGCAGAACTTAT
Found at i:13967997 original size:18 final size:17
Alignment explanation
Indices: 13967965--13968000 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13967955 ACAACCTTTG
*
13967965 TTTTAATTTTAATTTAC
1 TTTTAATTCTAATTTAC
13967982 TTTTAATTACTAATTTAC
1 TTTTAATT-CTAATTTAC
13968000 T
1 T
13968001 AAACTAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAATTCTAATTTAC
Found at i:13971712 original size:29 final size:29
Alignment explanation
Indices: 13971643--13971702 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
13971633 TTTTTGAATG
13971643 AATGAATAATAAGAGAAAATTATACAAAT
1 AATGAATAATAAGAGAAAATTATACAAAT
13971672 AATGAATAATAAGAGAAAATTATACAAAT
1 AATGAATAATAAGAGAAAATTATACAAAT
13971701 AA
1 AA
13971703 AATAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.63, C:0.03, G:0.10, T:0.23
Consensus pattern (29 bp):
AATGAATAATAAGAGAAAATTATACAAAT
Found at i:13974335 original size:16 final size:16
Alignment explanation
Indices: 13974314--13974355 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
13974304 ATAAACAAAG
13974314 TAAAATAAAATAAT-AA
1 TAAAATAAAA-AATGAA
*
13974330 TAAAATAATAAATGAA
1 TAAAATAAAAAATGAA
*
13974346 TAAAAGAAAA
1 TAAAATAAAA
13974356 GGGAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
TAAAATAAAAAATGAA
Found at i:13974600 original size:14 final size:15
Alignment explanation
Indices: 13974581--13974612 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13974571 TGTGACGAGG
13974581 GAGAAAAG-AAGGGA
1 GAGAAAAGTAAGGGA
13974595 GAGAAAAGTAAGGGA
1 GAGAAAAGTAAGGGA
13974610 GAG
1 GAG
13974613 CGTGTTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.44, T:0.03
Consensus pattern (15 bp):
GAGAAAAGTAAGGGA
Found at i:13977155 original size:21 final size:21
Alignment explanation
Indices: 13977129--13977171 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13977119 CTGCTTATCT
13977129 CTTCGTTGTCCCAGAACCGCA
1 CTTCGTTGTCCCAGAACCGCA
*
13977150 CTTCGTTGTCCTAGAACCGCA
1 CTTCGTTGTCCCAGAACCGCA
13977171 C
1 C
13977172 CTACTGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.26
Consensus pattern (21 bp):
CTTCGTTGTCCCAGAACCGCA
Found at i:13983905 original size:12 final size:12
Alignment explanation
Indices: 13983888--13983918 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
13983878 TTATTAAAAC
13983888 TACTTTTATTTT
1 TACTTTTATTTT
13983900 TACTTTTATTTT
1 TACTTTTATTTT
13983912 TA-TTTTA
1 TACTTTTA
13983919 GCAGATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (12 bp):
TACTTTTATTTT
Found at i:13990045 original size:18 final size:20
Alignment explanation
Indices: 13990009--13990055 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
13989999 AGTTGTAAGT
13990009 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
13990029 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
13990048 ATGATATA
1 AT-ATATA
13990056 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:13990525 original size:50 final size:50
Alignment explanation
Indices: 13990406--13990688 Score: 282
Period size: 50 Copynumber: 5.6 Consensus size: 50
13990396 ATTGGGAGAC
* * **
13990406 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAG--A-TTGTTAGGT
*
13990458 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATTGTTAGGT
* * * * * * * *
13990508 CACATGTGTAGTACTAAGTGTAGGCTACTATGCGTCCCCGATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATTG-TTAGGT
* *
13990559 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAT-CAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGT-TCCAGATTGTTAGGT
* * * * * *
13990609 CACGTGTGTAGTATTAAGTGCAGGCCACTACGTGTACCGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATTGTTAGGT
* * * *
13990659 CGCATGTCTAGTACTAAGTCCAAGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
13990689 TGCATACCCG
Statistics
Matches: 191, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.01
50 114 0.60
51 40 0.21
52 35 0.18
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTTCCAGATTGTTAGGT
Found at i:13990589 original size:101 final size:102
Alignment explanation
Indices: 13990406--13990638 Score: 317
Period size: 101 Copynumber: 2.3 Consensus size: 102
13990396 ATTGGGAGAC
* * ** *
13990406 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTCCAAGACAGTTTTAGATCACGTGTGTAGTA
*
13990471 CTAAGTGCAGGCTACTACGTGT-TCCAGATTGTTAGGT
66 CTAAGTGCAGGCTACTACGTGTAT-CAGATGGTTAGGT
* ** * *
13990508 CACATGTGTAGTACTAAGTGTAGGCTACTATGCGTCCCCGATAG-TTTCGATCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTCCAAGACAGTTTTAGATCACGTGTGTAGTA
13990572 CTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
66 CTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
* * *
13990609 CACGTGTGTAGTATTAAGTGCAGGCCACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
13990639 CGTGTACCGG
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
101 78 0.68
102 37 0.32
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (102 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTCCAAGACAGTTTTAGATCACGTGTGTAGTA
CTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
Found at i:13990686 original size:151 final size:151
Alignment explanation
Indices: 13990406--13990800 Score: 441
Period size: 151 Copynumber: 2.6 Consensus size: 151
13990396 ATTGGGAGAC
* * * * *
13990406 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGA-TG-GTTAGGTCACGTGTGTAGTA
* * * * ** *
13990471 CTAAGTGCAGGCTACTACGTGTTCCAGATTGTTAGGTCACATGTGTAGTACTAAGTGTAGGCTAC
64 CTAAGTGCAGGCCACTACGTGTACCAGATTGATAGGTCACATGTCTAGTACTAAGTCCAAGCTAC
* * *
13990536 TATGCGTCCCCGAT-AGTTTCGAT
129 TATGCATACCCGATAACTTT-GAT
* * *
13990559 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTATT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTAGGTCACGTGTGTAGTACT
* *
13990624 AAGTGCAGGCCACTACGTGTACCGGATTGATAGGTCGCATGTCTAGTACTAAGTCCAAGCTACTA
66 AAGTGCAGGCCACTACGTGTACCAGATTGATAGGTCACATGTCTAGTACTAAGTCCAAGCTACTA
*
13990689 TGCATACCCGTTAACTTTGAT
131 TGCATACCCGATAACTTTGAT
* * * * * * * ** *
13990710 CGCATGTCTCGTACTAACTGTAGGCTACTACGTGTATTAGATGGATAACTCACATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTAGGTCACGTGTGTAGTACT
* * * *
13990775 AAGTGCAGACTACTATGCGTACCAGA
66 AAGTGCAGGCCACTACGTGTACCAGA
13990801 GAGCTTTGGT
Statistics
Matches: 203, Mismatches: 38, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
151 162 0.80
152 5 0.02
153 36 0.18
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGCCACTACGTGTACCAGATTGATAGGTCACATGTCTAGTACTAAGTCCAAGCTACTA
TGCATACCCGATAACTTTGAT
Found at i:13992863 original size:15 final size:15
Alignment explanation
Indices: 13992843--13992887 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
13992833 TATGATATTG
13992843 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
13992858 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
* * *
13992873 AATCCTGGTTTTCTT
1 TATCTTGGATTTCTT
13992888 GTTATCTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:13995551 original size:26 final size:26
Alignment explanation
Indices: 13995470--13995554 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
13995460 GTGAGACCAC
* *
13995470 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGTAGGCTACT
* ** *
13995496 ATGTGT-TTAAGACAGTTTTAGG-TCAC-
1 ATGTGTAGTACTA-AG-TGTAGGCT-ACT
13995522 ATGTGTAGTACTAAGTGTAGGCTACT
1 ATGTGTAGTACTAAGTGTAGGCTACT
13995548 ATGTGTA
1 ATGTGTA
13995555 TCAGATGGTG
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
25 10 0.23
26 24 0.56
27 9 0.21
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGTAGGCTACT
Found at i:13995722 original size:50 final size:50
Alignment explanation
Indices: 13995471--13995809 Score: 292
Period size: 50 Copynumber: 6.7 Consensus size: 50
13995461 TGAGACCACA
* * * *
13995471 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-CCAGATTGATAGGTCACG
* * * *
13995523 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGA-TGGTGAGGTCAGG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGAT-AGGTCACG
* * * * * * *
13995573 TGTGTAGTCCTAAATGCAAGCTACTATATGTACCGGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACG
* * * * * *
13995623 TGTGTAGTACTAAGTGCAGGCTACTATG-CTACCCG-TTAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGGTCACG
* * * * *
13995673 TGTGTAGTACTAAGTGCAGGCTGCTATGTGTATCAGATGGATAAGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACG
* * * *
13995723 TGTGTAGTACTAAGTGTAGGCAACTACGTGTACCAGATTGATAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACG
* *
13995773 TGTGTAGTATTAGGTGCAGGCTACTATGTGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
13995810 GAGCTGCGGT
Statistics
Matches: 227, Mismatches: 52, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
48 7 0.03
49 7 0.03
50 176 0.78
51 7 0.03
52 30 0.13
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACG
Found at i:13995755 original size:150 final size:150
Alignment explanation
Indices: 13995523--13995800 Score: 405
Period size: 150 Copynumber: 1.9 Consensus size: 150
13995513 TTAGGTCACA
* * *
13995523 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGATGGTGAGGTCAGGTGTGTAGTCCTAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTGAAGTCAGGTGTGTAGTACTAAAT
* * * *
13995588 GCAAGCTACTATATGTACCGGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCT
66 GCAAGCAACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCT
13995653 ACCCGTTAACTTCGATCATG
131 ACCCGTTAACTTCGATCATG
* * *
13995673 TGTGTAGTACTAAGTGCAGGCTGCTATGTGTATCAGATGGAT-AAGTCATGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGG-TGAAGTCAGGTGTGTAGTACTAAA
* * * * *
13995737 TGTAGGCAACTACGTGTACCAGATTGATAGGTCACATGTGTAGTATTAGGTGCAGGCTACTATG
65 TGCAAGCAACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
13995801 TGTACCAGAG
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
150 111 0.99
151 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTGAAGTCAGGTGTGTAGTACTAAAT
GCAAGCAACTACATGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCT
ACCCGTTAACTTCGATCATG
Found at i:13996030 original size:16 final size:16
Alignment explanation
Indices: 13996009--13996040 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13995999 AGAATGGAGT
13996009 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
13996025 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
13996041 TAAAACAATT
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:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:13996624 original size:180 final size:180
Alignment explanation
Indices: 13996367--13996704 Score: 534
Period size: 180 Copynumber: 1.9 Consensus size: 180
13996357 TCAGAGAGCT
* * *
13996367 GTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTAGGAACTGTCAGACATTGAAATAGGGGTA
1 GTACCATAAAATAAATAATTTTTAGTGAAGAGAGGTAGGAACTGTCAGACAGTGAAATAGGGGTA
* *
13996432 TATTTAATGAATAAACTGTACTAATTGAATAAACTAAAAATTCT-AAAAGTTTTATGGTAATAAT
66 TATTTAATGAATAAACTGTACTAATTGAATAAACCAAAAATTCTGAAAA-TTTTATGGTAAAAAT
* *
13996496 ATATGTGAGTCTAGTTTCTGAGAAAATTAGTGGTTCTCAATTTGGAGTCTC
130 ATATATGAGTCTAGTTTCAGAGAAAATTAGTGGTTCTCAATTTGGAGTCTC
* * * *
13996547 GTACCATAAAATAAATAATTTTTAGTGAAGAGAGGTCGGAACTTTCGGATAGTGAAATAGGGGTA
1 GTACCATAAAATAAATAATTTTTAGTGAAGAGAGGTAGGAACTGTCAGACAGTGAAATAGGGGTA
* **
13996612 TTTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAAAATA
66 TATTTAATGAATAAACTGTACTAATTGAATAAACCAAAAATTCTGAAAATTTTATGGTAAAAATA
13996677 TATATGAGTCTAGTTTCAGAGAAAATTA
131 TATATGAGTCTAGTTTCAGAGAAAATTA
13996705 ACGGATCTTA
Statistics
Matches: 143, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 139 0.97
181 4 0.03
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.33
Consensus pattern (180 bp):
GTACCATAAAATAAATAATTTTTAGTGAAGAGAGGTAGGAACTGTCAGACAGTGAAATAGGGGTA
TATTTAATGAATAAACTGTACTAATTGAATAAACCAAAAATTCTGAAAATTTTATGGTAAAAATA
TATATGAGTCTAGTTTCAGAGAAAATTAGTGGTTCTCAATTTGGAGTCTC
Found at i:14004644 original size:13 final size:13
Alignment explanation
Indices: 14004626--14004650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14004616 GGGTTGTTAT
14004626 TAAACTAATTAAA
1 TAAACTAATTAAA
14004639 TAAACTAATTAA
1 TAAACTAATTAA
14004651 CTAATTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTAATTAAA
Found at i:14005669 original size:37 final size:37
Alignment explanation
Indices: 14005619--14005693 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
14005609 CCTCGAAAGA
* *
14005619 CACGGGCGTGTGAGCTACTCGTGTGGCAAGGCTTAGG
1 CACGGGCGTGTGAGCTACCCATGTGGCAAGGCTTAGG
*
14005656 CACGGGCGTGTGAGCTGCCCATGTGGCAAGGCTTAGG
1 CACGGGCGTGTGAGCTACCCATGTGGCAAGGCTTAGG
14005693 C
1 C
14005694 CGTGTCATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (37 bp):
CACGGGCGTGTGAGCTACCCATGTGGCAAGGCTTAGG
Found at i:14008249 original size:17 final size:17
Alignment explanation
Indices: 14008229--14008262 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14008219 TCTATTTGTA
* *
14008229 TTGATTTTACATGTTTG
1 TTGATGTTACACGTTTG
14008246 TTGATGTTACACGTTTG
1 TTGATGTTACACGTTTG
14008263 ATAAATTTAG
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:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (17 bp):
TTGATGTTACACGTTTG
Found at i:14014927 original size:13 final size:14
Alignment explanation
Indices: 14014911--14014942 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14014901 ATGTAAAGAT
14014911 AAAAGTG-AAAATA
1 AAAAGTGAAAAATA
14014924 AAAA-TGAAAAATA
1 AAAAGTGAAAAATA
14014937 AAAAGT
1 AAAAGT
14014943 CTTTAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.12
13 14 0.82
14 1 0.06
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (14 bp):
AAAAGTGAAAAATA
Found at i:14027821 original size:27 final size:28
Alignment explanation
Indices: 14027791--14027860 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
14027781 ATATTAAGTC
*
14027791 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
14027818 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
14027846 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14027861 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:14034489 original size:20 final size:21
Alignment explanation
Indices: 14034456--14034499 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
14034446 GATTTATTTT
14034456 ATTTTAGTGGTTA-TATTGCA
1 ATTTTAGTGGTTATTATTGCA
* * *
14034476 ATTTTTGTGTTTATTCTTGCA
1 ATTTTAGTGGTTATTATTGCA
14034497 ATT
1 ATT
14034500 ATGAACTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.16, T:0.57
Consensus pattern (21 bp):
ATTTTAGTGGTTATTATTGCA
Found at i:14039997 original size:27 final size:24
Alignment explanation
Indices: 14039967--14040088 Score: 70
Period size: 25 Copynumber: 4.8 Consensus size: 24
14039957 AACCCTATTT
*
14039967 TTATATTTATATTATATAGTTATTCTA
1 TTATATTT-TATT-TATA-TTATTATA
* *
14039994 TTATGTATTATTTATATTATTATA
1 TTATATTTTATTTATATTATTATA
* *
14040018 TTAT-TATTT-TTCACTAATTATTATT
1 TTATAT-TTTATTTA-T-ATTATTATA
* *
14040043 TTACATTATTATTTATA-TATTATTG
1 TTATATT-TTATTTATATTATTA-TA
*
14040068 TTATATTTTTACTTATATTAT
1 TTATA-TTTTATTTATATTAT
14040089 ATGTTTATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
23 4 0.05
24 19 0.25
25 30 0.40
26 13 0.17
27 9 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (24 bp):
TTATATTTTATTTATATTATTATA
Found at i:14040024 original size:16 final size:15
Alignment explanation
Indices: 14039973--14040066 Score: 70
Period size: 16 Copynumber: 6.1 Consensus size: 15
14039963 ATTTTTATAT
14039973 TTATATTATATAGTTA
1 TTATATTATATA-TTA
* *
14039989 TTCTATTATGTATTA
1 TTATATTATATATTA
14040004 TTTATATTATTATATTA
1 -TTATATTA-TATATTA
*
14040021 TTAT-TTTTCACTAATTA
1 TTATATTAT-A-T-ATTA
*
14040038 TTAT-TT-TACATTA
1 TTATATTATATATTA
14040051 TTAT-TTATATATTA
1 TTATATTATATATTA
14040065 TT
1 TT
14040067 GTTATATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
13 10 0.15
14 9 0.14
15 7 0.11
16 23 0.35
17 16 0.25
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TTATATTATATATTA
Found at i:14040058 original size:17 final size:17
Alignment explanation
Indices: 14040016--14040055 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
14040006 TATATTATTA
*
14040016 TATTATTATTTTTCACT
1 TATTATTATTTTACACT
*
14040033 AATTATTATTTTACA-T
1 TATTATTATTTTACACT
14040049 TATTATT
1 TATTATT
14040056 TATATATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTATTTTACACT
Found at i:14040174 original size:19 final size:17
Alignment explanation
Indices: 14040145--14040204 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 17
14040135 TACTTTCGTA
14040145 TTATATATTATAATTATT
1 TTATATATTATAATT-TT
14040163 TTATATTATTATGTCAATTTT
1 TTATA-TATTA--T-AATTTT
14040184 TTATACTATTAT-ATTTT
1 TTATA-TATTATAATTTT
14040201 TTAT
1 TTAT
14040205 CTATATATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 9 0.24
18 5 0.14
19 6 0.16
21 13 0.35
22 4 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATATATTATAATTTT
Found at i:14040211 original size:15 final size:17
Alignment explanation
Indices: 14040179--14040213 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14040169 TATTATGTCA
14040179 ATTTTTTATACTATTAT
1 ATTTTTTATACTATTAT
14040196 ATTTTTTAT-CTA-TAT
1 ATTTTTTATACTATTAT
14040211 ATT
1 ATT
14040214 ATTATCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 3 0.17
17 9 0.50
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTTTATACTATTAT
Found at i:14040497 original size:17 final size:16
Alignment explanation
Indices: 14040474--14040532 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
14040464 CCAATATATT
14040474 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
14040490 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
14040506 -TATACTTTTTATTATATA
1 TTATA-TTTTTA-TATA-A
14040524 TTATATTTT
1 TTATATTTT
14040533 AAATCTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 7 0.20
17 10 0.29
18 5 0.14
19 4 0.11
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:14049439 original size:39 final size:39
Alignment explanation
Indices: 14049396--14049543 Score: 190
Period size: 39 Copynumber: 3.8 Consensus size: 39
14049386 ACCAGCTCGA
* * * *
14049396 AGCCTGCGGGA-CTTTAGCCCAGACGTAATTCCACCATAT
1 AGCCTGC-GGACCTTAAGTCCAGACATAATTCCAGCATAT
*
14049435 AGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCATAT
1 AGCCTGCGGACCTTAAGTCCAGACATAATTCCAGCATAT
* *
14049474 AGCCTGCAGACCTAAAGTCCAGACATAATTCCAGCATAT
1 AGCCTGCGGACCTTAAGTCCAGACATAATTCCAGCATAT
* * *
14049513 AGCCTGTGGACCTTAAGTCCGGATATAATTC
1 AGCCTGCGGACCTTAAGTCCAGACATAATTC
14049544 ATCACTGAGT
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 3 0.03
39 92 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCAGACATAATTCCAGCATAT
Found at i:14066952 original size:14 final size:14
Alignment explanation
Indices: 14066933--14066962 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14066923 TTATATCGAG
14066933 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
14066947 ACCAATCCAATTCA
1 ACCAATCCAAATCA
14066961 AC
1 AC
14066963 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:14073119 original size:40 final size:41
Alignment explanation
Indices: 14072936--14073119 Score: 186
Period size: 40 Copynumber: 4.6 Consensus size: 41
14072926 GCTACTCGTT
* *
14072936 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* *
14072976 CAATTGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * *
14073016 CAAATGCCTT-GGG-CTTAGCGC-GAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * * * *
14073054 CAAATGCCTTC-AGATCGTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
14073095 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
14073120 CATCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
37 2 0.02
38 29 0.25
39 3 0.03
40 67 0.58
41 15 0.13
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:14074208 original size:79 final size:79
Alignment explanation
Indices: 14074092--14074251 Score: 302
Period size: 79 Copynumber: 2.0 Consensus size: 79
14074082 TATATGAGAA
14074092 ATTAAATGCTTAATATTAGCATTAGGATTGTGAATTCATTCAAAAAGGACCTAGTTGACAAAGTT
1 ATTAAATGCTTAATATTAGCATTAGGATTGTGAATTCATTCAAAAAGGACCTAGTTGACAAAGTT
14074157 AGAAAAGATGATAG
66 AGAAAAGATGATAG
*
14074171 ATTAAATGCTTAATATTAGCATTAGGATTGTGAATTCATTCAAAAAGGACCTAGTTGACGAAGTT
1 ATTAAATGCTTAATATTAGCATTAGGATTGTGAATTCATTCAAAAAGGACCTAGTTGACAAAGTT
*
14074236 AGGAAAGATGATAG
66 AGAAAAGATGATAG
14074250 AT
1 AT
14074252 GAATTATAAG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (79 bp):
ATTAAATGCTTAATATTAGCATTAGGATTGTGAATTCATTCAAAAAGGACCTAGTTGACAAAGTT
AGAAAAGATGATAG
Found at i:14075781 original size:27 final size:26
Alignment explanation
Indices: 14075748--14075925 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
14075738 TAAATTGTAC
14075748 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
14075775 TGTACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
14075801 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
14075829 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
14075857 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
14075884 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
14075911 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
14075926 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:14075866 original size:82 final size:81
Alignment explanation
Indices: 14075749--14075904 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
14075739 AAATTGTACA
* * * *
14075749 GCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
14075813 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
14075830 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
14075895 TGCGAGTTGA
65 TGCGAATTGA
14075905 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 47 0.72
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:14075916 original size:82 final size:81
Alignment explanation
Indices: 14075745--14075925 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
14075735 GATTAAATTG
* * * *
14075745 TACAGCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
14075810 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
14075826 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
14075890 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
14075908 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
14075926 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:14075936 original size:27 final size:27
Alignment explanation
Indices: 14075830--14075936 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
14075820 TGACCATGCG
* * *
14075830 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
14075858 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
14075885 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
14075912 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
14075937 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:14086273 original size:24 final size:24
Alignment explanation
Indices: 14086246--14086357 Score: 82
Period size: 24 Copynumber: 4.6 Consensus size: 24
14086236 AGAGATTTCA
* **
14086246 GCACTATGTGTGCGAGGTTATGCG
1 GCACTATGTGTGCGAGATTACACG
* * * *
14086270 GCACTATGTGTGCAAAAACTACATG
1 GCACTATGTGTGC-GAGATTACACG
* **
14086295 GCACTATGTGTGCGAGATTATATA
1 GCACTATGTGTGCGAGATTACACG
* * *
14086319 GCACTATGTGTGCAAGGA-AACGCG
1 GCACTATGTGTGCGA-GATTACACG
14086343 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
14086358 ATGAGTAAGA
Statistics
Matches: 67, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
24 48 0.72
25 19 0.28
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (24 bp):
GCACTATGTGTGCGAGATTACACG
Found at i:14086323 original size:49 final size:47
Alignment explanation
Indices: 14086246--14086380 Score: 139
Period size: 49 Copynumber: 2.8 Consensus size: 47
14086236 AGAGATTTCA
* * *
14086246 GCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGCAA-AAACTACATG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAAGAAAC-AC--G
* *
14086295 GCACTATGTGTGCGAGATTATATAGCACTATGTGTGCAAGGAAACGCG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAA-GAAACACG
* *
14086343 GCACTATGTGTGCGA-ATGAGTAAGAGCACTATGTGTGC
1 GCACTATGTGTGCGAGATTA-T-ACAGCACTATGTGTGC
14086381 GGACCTTTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
47 3 0.04
48 17 0.23
49 50 0.67
50 1 0.01
51 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAAGAAACACG
Found at i:14093816 original size:24 final size:24
Alignment explanation
Indices: 14093789--14093900 Score: 82
Period size: 24 Copynumber: 4.6 Consensus size: 24
14093779 AGAGATTTCA
* **
14093789 GCACTATGTGTGCGAGGTTATGCG
1 GCACTATGTGTGCGAGATTACACG
* * * *
14093813 GCACTATGTGTGCAAAAACTACATG
1 GCACTATGTGTGC-GAGATTACACG
* **
14093838 GCACTATGTGTGCGAGATTATATA
1 GCACTATGTGTGCGAGATTACACG
* * *
14093862 GCACTATGTGTGCAAGGA-AACGCG
1 GCACTATGTGTGCGA-GATTACACG
14093886 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
14093901 ATGAGTAAGA
Statistics
Matches: 67, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
24 48 0.72
25 19 0.28
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (24 bp):
GCACTATGTGTGCGAGATTACACG
Found at i:14093866 original size:49 final size:47
Alignment explanation
Indices: 14093789--14093923 Score: 139
Period size: 49 Copynumber: 2.8 Consensus size: 47
14093779 AGAGATTTCA
* * *
14093789 GCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGCAA-AAACTACATG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAAGAAAC-AC--G
* *
14093838 GCACTATGTGTGCGAGATTATATAGCACTATGTGTGCAAGGAAACGCG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAA-GAAACACG
* *
14093886 GCACTATGTGTGCGA-ATGAGTAAGAGCACTATGTGTGC
1 GCACTATGTGTGCGAGATTA-T-ACAGCACTATGTGTGC
14093924 GGACCTTTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
47 3 0.04
48 17 0.23
49 50 0.67
50 1 0.01
51 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAAGAAACACG
Found at i:14101906 original size:28 final size:28
Alignment explanation
Indices: 14101864--14101965 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 28
14101854 ACCTATATAT
* *
14101864 ATATGGCCCACTAGGCCCAATCTGTTTC
1 ATATGGCCCATTAGGCCCAATCTATTTC
*
14101892 ATATGGCCCATTAGGCCCATTCTAATTT-
1 ATATGGCCCATTAGGCCCAATCT-ATTTC
* * * *
14101920 ATGTAGCCGATTAGGCCCAAATC-ACATTC
1 ATATGGCCCATTAGGCCC-AATCTA-TTTC
14101949 ATATGGCCCATTAGGCC
1 ATATGGCCCATTAGGCC
14101966 TAAGTCACAT
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
27 1 0.02
28 38 0.64
29 20 0.34
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCTATTTC
Found at i:14106454 original size:28 final size:28
Alignment explanation
Indices: 14106412--14106516 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 28
14106402 ACCTATATAT
* * *
14106412 ATATGGCCTACTAGGTCCAATCTCTTTC
1 ATATGGCCCATTAGGCCCAATCTCTTTC
* *
14106440 ATATGGCCCATTAGGCCCATTCTAATTT-
1 ATATGGCCCATTAGGCCCAATCT-CTTTC
* * * * *
14106468 ATGTAGCCGATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCTCTTTC
*
14106497 ATCTGGCCCATTAGGCCCAA
1 ATATGGCCCATTAGGCCCAA
14106517 ATCACATTTA
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
28 38 0.64
29 21 0.36
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCTCTTTC
Done.