Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 75 of 226
Found at i:23967539 original size:32 final size:32
Alignment explanation
Indices: 23967503--23967588 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
23967493 AACTTTTTTG
*
23967503 GAAAATATTTTCAGGAAATC-TGCCAAACAACA
1 GAAAATATTTTCAGCAAATCAT-CCAAACAACA
* *
23967535 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTT-CAGCA-AATCATCCAAACAACA
*
23967568 GAAAATATTTTCAGTAAATCA
1 GAAAATATTTTCAGCAAATCA
23967589 ATTTCCAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
32 18 0.40
33 26 0.58
34 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAGCAAATCATCCAAACAACA
Found at i:23967605 original size:20 final size:20
Alignment explanation
Indices: 23967580--23967619 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23967570 AAATATTTTC
23967580 AGTAAATCAATTTCCAGAAA
1 AGTAAATCAATTTCCAGAAA
* *
23967600 AGTAAATCATTTTCTAGAAA
1 AGTAAATCAATTTCCAGAAA
23967620 TCAATTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAATCAATTTCCAGAAA
Found at i:23967621 original size:34 final size:33
Alignment explanation
Indices: 23967570--23967634 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
23967560 AAACACCAGA
23967570 AAATATTTTCAGTAAATCAATTTCCAGAAAAGT
1 AAATATTTTCAGTAAATCAATTTCCAGAAAAGT
*
23967603 AAATCATTTTCTAG-AAATCAATTTCCGGAAAA
1 AAAT-ATTTTC-AGTAAATCAATTTCCAGAAAA
23967635 CATTTTACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 23 0.79
35 2 0.07
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (33 bp):
AAATATTTTCAGTAAATCAATTTCCAGAAAAGT
Found at i:23973861 original size:12 final size:12
Alignment explanation
Indices: 23973822--23973885 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
23973812 TAAGTGTAAG
*
23973822 AACATAACAATAA
1 AACATAAAAAT-A
23973835 AACAACTAAAAATA
1 AAC-A-TAAAAATA
*
23973849 AACATAAACATA
1 AACATAAAAATA
23973861 AACAT-AAAATA
1 AACATAAAAATA
*
23973872 AAAATAAAAATA
1 AACATAAAAATA
23973884 AA
1 AA
23973886 ACTAAAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.20
12 20 0.45
13 4 0.09
14 5 0.11
15 6 0.14
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (12 bp):
AACATAAAAATA
Found at i:23973891 original size:23 final size:23
Alignment explanation
Indices: 23973838--23973907 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
23973828 ACAATAAAAC
* *
23973838 AACTAAAAATAAACATAAACAT-A
1 AACT-AAAATAAAAATAAAAATAA
23973861 AACATAAAATAAAAATAAAAATAA
1 AAC-TAAAATAAAAATAAAAATAA
*
23973885 AACTAAAA-AGAAA-AAAAATAA
1 AACTAAAATAAAAATAAAAATAA
23973906 AA
1 AA
23973908 TCAATGATCT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.24
22 4 0.10
23 23 0.55
24 5 0.12
ACGTcount: A:0.77, C:0.07, G:0.01, T:0.14
Consensus pattern (23 bp):
AACTAAAATAAAAATAAAAATAA
Found at i:23973907 original size:6 final size:6
Alignment explanation
Indices: 23973841--23973899 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
23973831 ATAAAACAAC
* * * *
23973841 TAAAAA TAAACA TAAACA TAAACA T-AAAA TAAAAA TAAAAA TAAAAC
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
23973888 TAAAAA GAAAAA
1 TAAAAA TAAAAA
23973900 AAATAAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 4 0.09
6 43 0.91
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (6 bp):
TAAAAA
Found at i:23975347 original size:15 final size:15
Alignment explanation
Indices: 23975329--23975375 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
23975319 GAAAATCATA
*
23975329 AATAATAATAATACT
1 AATAATAATAATACG
*
23975344 AATAATAAAAATACG
1 AATAATAATAATACG
*
23975359 AACTAAAAATAATACG
1 AA-TAATAATAATACG
23975375 A
1 A
23975376 GTAAACAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (15 bp):
AATAATAATAATACG
Found at i:23991221 original size:21 final size:23
Alignment explanation
Indices: 23991183--23991227 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
23991173 ATTATGTGTA
*
23991183 TTAATTCATAATATAA-TTAATT
1 TTAATTCATAATACAATTTAATT
*
23991205 TTAATT-ATAATCCAATTTAATT
1 TTAATTCATAATACAATTTAATT
23991227 T
1 T
23991228 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATTCATAATACAATTTAATT
Found at i:23997104 original size:279 final size:280
Alignment explanation
Indices: 23996764--23997323 Score: 1059
Period size: 279 Copynumber: 2.0 Consensus size: 280
23996754 TCGTACCCAC
23996764 AAGGACTGTGAAAAGAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTG
1 AAGGACTGTGAAAAGAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTG
23996829 ATTTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGT
66 ATTTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGT
23996894 ACCAATGCACGATTTT-AAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACAT
131 ACCAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACAT
*
23996958 TTCTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCATGGCAACTCGGTA
196 TTCTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCACGGCAACTCGGTA
*
23997023 ATTTGCTAACTTAGGAACAT
261 ATTTGCAAACTTAGGAACAT
*
23997043 AAGGACTGTGAAAAGAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAGAAAAATATTTTG
1 AAGGACTGTGAAAAGAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTG
*
23997108 ATTTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAGAAGT
66 ATTTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGT
23997173 ACCAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACAT
131 ACCAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACAT
* *
23997238 TTCTTAACTTAGAACTATTAAACTCATGTTTATGTTGTTATGAATAAATTCACGGCAACTCGGTA
196 TTCTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCACGGCAACTCGGTA
23997303 ATTTGCAAACTTAGGAACAT
261 ATTTGCAAACTTAGGAACAT
23997323 A
1 A
23997324 CTCACTACCA
Statistics
Matches: 274, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
279 144 0.53
280 130 0.47
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (280 bp):
AAGGACTGTGAAAAGAATTATTTATGAATGCAATTAAAAACACTTTGGTGAAAAAAAATATTTTG
ATTTGAGGAGGTGATTCAAAACTAAGATTTTAACTAAGTAAAATAAATAAAAATAAAATAAAAGT
ACCAATGCACGATTTTAAAAGATGATTTTAATCAAGATGACATAATTGTGTTAGATTAATTACAT
TTCTTAACTTAGAACTATTAAACTCATGTTTATATTGTTACGAATAAATTCACGGCAACTCGGTA
ATTTGCAAACTTAGGAACAT
Found at i:23999011 original size:16 final size:15
Alignment explanation
Indices: 23998984--23999017 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
23998974 ATAACTAGTA
*
23998984 TATAATTATATTTAT
1 TATAATTATATTAAT
23998999 TATAATATATATTAAT
1 TATAAT-TATATTAAT
23999015 TAT
1 TAT
23999018 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:24001288 original size:51 final size:50
Alignment explanation
Indices: 24001125--24001309 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 50
24001115 GAAGCTGCTA
*
24001125 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-ATA-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGG-ATGAAAAT
*** * * * ***
24001175 GGTTGTATGTGTAGTACTATGTGCAGGCTACTATGCGTACTAGAT-AGCTT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-GGATGAAAAT
* * * *
24001225 CGATTACGTGTGTAGTACTATGTGCAGTCTACTACGTGTATCGGATGAAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGATGAAAAT
24001277 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
24001310 TGTGAACCGG
Statistics
Matches: 105, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
49 3 0.03
50 35 0.33
51 64 0.61
52 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGGATGAAAAT
Found at i:24003942 original size:3 final size:3
Alignment explanation
Indices: 24003934--24003980 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
24003924 CGAGGATCCT
* *
24003934 GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA AAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
24003981 TCCCATAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24006168 original size:21 final size:23
Alignment explanation
Indices: 24006130--24006174 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
24006120 ATTATGTGTA
*
24006130 TTAATTCATAATATAA-TTAATT
1 TTAATTCATAATACAATTTAATT
*
24006152 TTAATT-ATAATCCAATTTAATT
1 TTAATTCATAATACAATTTAATT
24006174 T
1 T
24006175 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATTCATAATACAATTTAATT
Found at i:24010389 original size:28 final size:29
Alignment explanation
Indices: 24010340--24010394 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
24010330 TTAAAATTTT
24010340 AATAAAAGGAAAAAATTAATAAAATAAAA
1 AATAAAAGGAAAAAATTAATAAAATAAAA
* * *
24010369 AATAAAATG-AAATATTGATAAAATAA
1 AATAAAAGGAAAAAATTAATAAAATAA
24010395 TATATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (29 bp):
AATAAAAGGAAAAAATTAATAAAATAAAA
Found at i:24015280 original size:35 final size:35
Alignment explanation
Indices: 24015241--24015316 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
24015231 AGCATAAGCC
24015241 ATACAAACATAAGAATTTCAAATCATAATCATGTT
1 ATACAAACATAAGAATTTCAAATCATAATCATGTT
24015276 ATACAAACATAAGAATTTCAAATCATAATCATGTT
1 ATACAAACATAAGAATTTCAAATCATAATCATGTT
24015311 ATACAA
1 ATACAA
24015317 CATTTCCCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.30
Consensus pattern (35 bp):
ATACAAACATAAGAATTTCAAATCATAATCATGTT
Found at i:24020173 original size:29 final size:29
Alignment explanation
Indices: 24020111--24020177 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
24020101 TTGATGAATG
* *
24020111 AAAAGGGATAGCTTCAGCTATCGAATACG
1 AAAAGGGATAGCTCCAGCTATCGAATACA
* * * *
24020140 GAAAGGGATAGCTCCGGCTATCGATTATA
1 AAAAGGGATAGCTCCAGCTATCGAATACA
24020169 AAAAGGGAT
1 AAAAGGGAT
24020178 GGTGACAACC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (29 bp):
AAAAGGGATAGCTCCAGCTATCGAATACA
Found at i:24020228 original size:30 final size:30
Alignment explanation
Indices: 24020194--24020269 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
24020184 AACCATCGAA
*
24020194 CTATGAAGAAGGATGGCTTCCGCTATC-AAT
1 CTATGAA-AAGGATGGCTTCAGCTATCAAAT
*
24020224 CTATGAAAAGTGATAGCTTCAGCTATCAAAT
1 CTATGAAAAG-GATGGCTTCAGCTATCAAAT
*
24020255 -TATAAAAAAGGATGG
1 CTAT-GAAAAGGATGG
24020270 TGACGACCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.08
30 28 0.72
31 8 0.21
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (30 bp):
CTATGAAAAGGATGGCTTCAGCTATCAAAT
Found at i:24020320 original size:30 final size:30
Alignment explanation
Indices: 24020248--24020327 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 30
24020238 AGCTTCAGCT
* * *
24020248 ATCAAATTATAAAAAAGGATGGTGACGACC
1 ATCAAATTATGAAAAGGGATGGTAACGACC
* *** *
24020278 ATCGAGCAATGAAAAGGGATGGTAATGACC
1 ATCAAATTATGAAAAGGGATGGTAACGACC
24020308 ATCAAATTATGAAAAGGGAT
1 ATCAAATTATGAAAAGGGAT
24020328 AGCTTTGGCT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.20
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATGGTAACGACC
Found at i:24020343 original size:90 final size:90
Alignment explanation
Indices: 24020141--24020357 Score: 226
Period size: 90 Copynumber: 2.4 Consensus size: 90
24020131 TCGAATACGG
* * * *
24020141 AAAGGGATAGCTCCGGCTATC-GATTATAAAAAGGGATGGTGACAACCATCGAACTATGAAGAAG
1 AAAGGGATAGCTTCGGCTATCAAATTATAAAAAAGGATGGTGACAACCATCGAACAATGAAGAAG
** *
24020205 GATGGCTTCCGCTATCAATCTATGA
66 GATGGCTAACGCCATCAATCTATGA
* * * *
24020230 AAAGTGATAGCTTCAGCTATCAAATTATAAAAAAGGATGGTGACGACCATCGAGCAATGAA-AAG
1 AAAGGGATAGCTTCGGCTATCAAATTATAAAAAAGGATGGTGACAACCATCGAACAATGAAGAA-
*
24020294 GGATGG-TAATGACCATCAAAT-TATGA
65 GGATGGCTAACG-CCATC-AATCTATGA
* * * * *
24020320 AAAGGGATAGCTTTGGCTGTCAAACTATGAAAATGGAT
1 AAAGGGATAGCTTCGGCTATCAAATTATAAAAAAGGAT
24020358 AACTTCGGTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
89 22 0.21
90 80 0.76
91 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (90 bp):
AAAGGGATAGCTTCGGCTATCAAATTATAAAAAAGGATGGTGACAACCATCGAACAATGAAGAAG
GATGGCTAACGCCATCAATCTATGA
Found at i:24022559 original size:25 final size:24
Alignment explanation
Indices: 24022530--24022674 Score: 143
Period size: 25 Copynumber: 5.8 Consensus size: 24
24022520 TGTATACTCA
*
24022530 TACGAGCT-ATGAATCGGTATGCTC
1 TACGAGCTGA-GAATCGGTAAGCTC
*
24022554 TCACGAGTTGTA-AATCGGTAAGCTC
1 T-ACGAGCTG-AGAATCGGTAAGCTC
24022579 ATACGAGCTGAGAATCGGTAAGCTC
1 -TACGAGCTGAGAATCGGTAAGCTC
* *
24022604 ATATGAGCTGAGAACCGGTAAGCTC
1 -TACGAGCTGAGAATCGGTAAGCTC
* *
24022629 TCATGAGCTGCA-AATCGATAAGCTC
1 T-ACGAGCTG-AGAATCGGTAAGCTC
24022654 TTACGAGCTGAGAATCGGTAA
1 -TACGAGCTGAGAATCGGTAA
24022675 CCCTAATGAC
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
24 4 0.04
25 95 0.92
26 3 0.03
27 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (24 bp):
TACGAGCTGAGAATCGGTAAGCTC
Found at i:24022623 original size:75 final size:75
Alignment explanation
Indices: 24022526--24022674 Score: 210
Period size: 75 Copynumber: 2.0 Consensus size: 75
24022516 TACATGTATA
* * * * *
24022526 CTCATACGAGCTATGAATCGGTATGCTCTCACGAGTTGTAAATCGGTAAGCTCATACGAGCTGAG
1 CTCATACGAGCTATGAACCGGTAAGCTCTCACGAGCTGCAAATCGATAAGCTCATACGAGCTGAG
24022591 AATCGGTAAG
66 AATCGGTAAG
* * *
24022601 CTCATATGAGCTGA-GAACCGGTAAGCTCTCATGAGCTGCAAATCGATAAGCTCTTACGAGCTGA
1 CTCATACGAGCT-ATGAACCGGTAAGCTCTCACGAGCTGCAAATCGATAAGCTCATACGAGCTGA
24022665 GAATCGGTAA
65 GAATCGGTAA
24022675 CCCTAATGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
75 64 0.98
76 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (75 bp):
CTCATACGAGCTATGAACCGGTAAGCTCTCACGAGCTGCAAATCGATAAGCTCATACGAGCTGAG
AATCGGTAAG
Found at i:24028954 original size:41 final size:41
Alignment explanation
Indices: 24028897--24028982 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
24028887 CTCCTCTAAC
*
24028897 ATTTCCTGAGATATTAATTTGATGCAATTTTTTGAGAAGGA
1 ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
24028938 ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
1 ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
24028979 ATTT
1 ATTT
24028983 TCTAAGTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (41 bp):
ATTTCCTGAGAGATTAATTTGATGCAATTTTTTGAGAAGGA
Found at i:24037042 original size:14 final size:14
Alignment explanation
Indices: 24037023--24037050 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24037013 CGATTGTGCC
24037023 AAAAGAAGCTACAA
1 AAAAGAAGCTACAA
24037037 AAAAGAAGCTACAA
1 AAAAGAAGCTACAA
24037051 GTGAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAGAAGCTACAA
Found at i:24038116 original size:25 final size:25
Alignment explanation
Indices: 24038088--24038203 Score: 87
Period size: 25 Copynumber: 4.6 Consensus size: 25
24038078 AAAAATTCTC
24038088 TGGAAAGCCTTTGTGGCATATCACT
1 TGGAAAGCCTTTGTGGCATATCACT
*
24038113 TGGAAAGCCTTTGTGGCGA-ATTC-TT
1 TGGAAAGCCTTTGTGGC-ATA-TCACT
* *
24038138 TGGAAAGCCTTTGTAGTGAAT-TCTC-
1 TGGAAAGCCTTTGT-G-GCATATCACT
** * * *
24038163 AAGAAAGCCTTTATGGCGTATCATT
1 TGGAAAGCCTTTGTGGCATATCACT
*
24038188 TGGAAAGCCCTTGTGG
1 TGGAAAGCCTTTGTGG
24038204 AGAATTCTCT
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
23 2 0.03
24 3 0.04
25 58 0.84
26 5 0.07
27 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (25 bp):
TGGAAAGCCTTTGTGGCATATCACT
Found at i:24038169 original size:50 final size:50
Alignment explanation
Indices: 24038115--24038212 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
24038105 ATATCACTTG
* * *
24038115 GAAAGCCTTTGTGGCGAATTC-TTTGGAAAGCCTTTGTAGTGAATTCTCAA
1 GAAAGCCTTTATGGCGAA-TCATTTGGAAAGCCCTTGTAGAGAATTCTCAA
* *
24038165 GAAAGCCTTTATGGCGTATCATTTGGAAAGCCCTTGTGGAGAATTCTC
1 GAAAGCCTTTATGGCGAATCATTTGGAAAGCCCTTGTAGAGAATTCTC
24038213 TCGAAATCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 2 0.05
50 40 0.95
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (50 bp):
GAAAGCCTTTATGGCGAATCATTTGGAAAGCCCTTGTAGAGAATTCTCAA
Found at i:24039381 original size:13 final size:13
Alignment explanation
Indices: 24039363--24039387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24039353 ATTTTCCCTC
24039363 TTTTTCTTATTCG
1 TTTTTCTTATTCG
24039376 TTTTTCTTATTC
1 TTTTTCTTATTC
24039388 CCTTTCTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTTCTTATTCG
Found at i:24064182 original size:23 final size:23
Alignment explanation
Indices: 24064131--24064182 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
24064121 AGTAATCAAA
* * *
24064131 ATTTAACTGGGAAAAGATAGCAG
1 ATTTAACTGGAAAAAGAAACCAG
*
24064154 AGTTTAACTGGAAAAAGAAACCCG
1 A-TTTAACTGGAAAAAGAAACCAG
24064178 ATTTA
1 ATTTA
24064183 TGTGGGGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (23 bp):
ATTTAACTGGAAAAAGAAACCAG
Found at i:24079210 original size:12 final size:13
Alignment explanation
Indices: 24079169--24079207 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
24079159 GTTGTGTGAA
*
24079169 AAATTTATGAAAC
1 AAATTTATAAAAC
*
24079182 AAATTTATAAAAG
1 AAATTTATAAAAC
24079195 AAATTATATAAAA
1 AAATT-TATAAAA
24079208 AATAAATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (13 bp):
AAATTTATAAAAC
Found at i:24079472 original size:26 final size:27
Alignment explanation
Indices: 24079442--24079499 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
24079432 AGGAAAACTA
* **
24079442 AATAATA-GTATATATATGTTAAGTGT
1 AATAATATGTATAGATATAATAAGTGT
*
24079468 AATAA-ATGTTTAGATATAATAAGTGT
1 AATAATATGTATAGATATAATAAGTGT
24079494 AATAAT
1 AATAAT
24079500 TAATGGTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (27 bp):
AATAATATGTATAGATATAATAAGTGT
Found at i:24081491 original size:14 final size:14
Alignment explanation
Indices: 24081472--24081513 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
24081462 CGACCTGTCC
24081472 ATATTAATTTTTTT
1 ATATTAATTTTTTT
24081486 ATATT-ATTATTTTT
1 ATATTAATT-TTTTT
24081500 ATA-TAATTTTTTT
1 ATATTAATTTTTTT
24081513 A
1 A
24081514 AAAAAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATATTAATTTTTTT
Found at i:24081739 original size:21 final size:22
Alignment explanation
Indices: 24081713--24081754 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24081703 AAATAGTGGC
*
24081713 AAAACAACACCAAAAA-CAGTG
1 AAAACAACAACAAAAAGCAGTG
*
24081734 AAAACAGCAACAAAAAGCAGT
1 AAAACAACAACAAAAAGCAGT
24081755 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.62, C:0.21, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAACAACAACAAAAAGCAGTG
Found at i:24088747 original size:22 final size:22
Alignment explanation
Indices: 24088721--24088788 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
24088711 TTAGATCTAA
24088721 AACATGCATCTCTCAATTAACT
1 AACATGCATCTCTCAATTAACT
* *
24088743 AACAT-TA-C-CTTAGATCTAA--
1 AACATGCATCTCTCA-AT-TAACT
24088762 AACATGCATCTCTCAATTAACT
1 AACATGCATCTCTCAATTAACT
24088784 AACAT
1 AACAT
24088789 TACCCAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 8 0.23
20 7 0.20
21 7 0.20
22 13 0.37
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.31
Consensus pattern (22 bp):
AACATGCATCTCTCAATTAACT
Found at i:24088756 original size:41 final size:41
Alignment explanation
Indices: 24088711--24088792 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
24088701 TCTATAAAAG
24088711 TTAGATCTAAAACATGCATCTCTCAATTAACTAACATTACC
1 TTAGATCTAAAACATGCATCTCTCAATTAACTAACATTACC
24088752 TTAGATCTAAAACATGCATCTCTCAATTAACTAACATTACC
1 TTAGATCTAAAACATGCATCTCTCAATTAACTAACATTACC
24088793 CAAATTTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (41 bp):
TTAGATCTAAAACATGCATCTCTCAATTAACTAACATTACC
Found at i:24090324 original size:41 final size:43
Alignment explanation
Indices: 24090237--24090385 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
24090227 CAATGTCAAC
* * * * **
24090237 GTCCTAGACGTGGTCTTACATGTAATCACATATCGATGCCTTT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAT
*
24090280 GTCCCAGACAAGGTCTTACACG-AATCAAATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAT
* * *
24090321 GTCCCAAACATGGTCTTACACGTAAACACAA-ATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAATCA-AATATCGATGCCAAT
* *
24090364 ATCCCAGACGTGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
24090386 AAAACACATA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
41 28 0.31
42 13 0.15
43 48 0.54
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAT
Found at i:24098317 original size:41 final size:43
Alignment explanation
Indices: 24098239--24098336 Score: 119
Period size: 41 Copynumber: 2.3 Consensus size: 43
24098229 TCCTAGACGT
* * *
24098239 GGTCTTACATGTAATCACATATCGATGCCACTATCCCAAACAG
1 GGTCTTACACGTAATCAAATATCGATGCCAATATCCCAAACAG
* * * *
24098282 GGTCTTACACG-AATCAAATAT-GATGCTAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATCGATGCCAATATCCCAAACAG
24098323 GGTCTTACACGTAA
1 GGTCTTACACGTAA
24098337 ACACAAACCA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 26 0.55
42 11 0.23
43 10 0.21
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGCCAATATCCCAAACAG
Found at i:24104231 original size:13 final size:13
Alignment explanation
Indices: 24104213--24104240 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24104203 AGAAATATTT
24104213 TAAAAATAAAAAA
1 TAAAAATAAAAAA
24104226 TAAAAATAAAAAA
1 TAAAAATAAAAAA
24104239 TA
1 TA
24104241 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:24105496 original size:16 final size:16
Alignment explanation
Indices: 24105460--24105501 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
24105450 AACGTGTTAT
*
24105460 AAAATAAA-AATACAG
1 AAAATAAAGAATAAAG
24105475 AAAATAAAGAATAAAG
1 AAAATAAAGAATAAAG
*
24105491 AGAATAGAAGA
1 AAAATA-AAGA
24105502 GCAAAAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 8 0.35
16 11 0.48
17 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (16 bp):
AAAATAAAGAATAAAG
Found at i:24105902 original size:24 final size:25
Alignment explanation
Indices: 24105855--24105903 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
24105845 AGTAGAGGAA
24105855 AATGAAATTCGATTCAAGTTAAATTG
1 AATGAAATTC-ATTCAAGTTAAATTG
*
24105881 AATGAAATT-ATTTAAGTTAAATT
1 AATGAAATTCATTCAAGTTAAATT
24105904 AAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
26 9 0.41
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (25 bp):
AATGAAATTCATTCAAGTTAAATTG
Found at i:24109604 original size:11 final size:11
Alignment explanation
Indices: 24109580--24109638 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
24109570 CCATATCAGC
*
24109580 AAAAATTAA-A
1 AAAAATTAATT
24109590 AAAAATTAATT
1 AAAAATTAATT
24109601 AAAAATT--TCT
1 AAAAATTAAT-T
*
24109611 -AAAATATATTT
1 AAAAAT-TAATT
24109622 AAAAATTAATT
1 AAAAATTAATT
24109633 AAAAAT
1 AAAAAT
24109639 ACACATCCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.15
10 11 0.27
11 18 0.44
12 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATTAATT
Found at i:24115540 original size:18 final size:18
Alignment explanation
Indices: 24115517--24115552 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24115507 AGAAAGACAA
24115517 GCTTTGAATTTAAGTGAC
1 GCTTTGAATTTAAGTGAC
24115535 GCTTTGAATTTAAGTGAC
1 GCTTTGAATTTAAGTGAC
24115553 ACTTGTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (18 bp):
GCTTTGAATTTAAGTGAC
Found at i:24115563 original size:20 final size:18
Alignment explanation
Indices: 24115518--24115556 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
24115508 GAAAGACAAG
*
24115518 CTTTGAATTTAAGTGACG
1 CTTTGAATTTAAGTGACA
24115536 CTTTGAATTTAAGTGACA
1 CTTTGAATTTAAGTGACA
24115554 CTT
1 CTT
24115557 GTTGAATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (18 bp):
CTTTGAATTTAAGTGACA
Found at i:24119289 original size:14 final size:14
Alignment explanation
Indices: 24119270--24119296 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24119260 TGGAGGATCA
24119270 GATATTTGGGTCCT
1 GATATTTGGGTCCT
24119284 GATATTTGGGTCC
1 GATATTTGGGTCC
24119297 AAGCTACAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (14 bp):
GATATTTGGGTCCT
Found at i:24129795 original size:20 final size:19
Alignment explanation
Indices: 24129770--24129810 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
24129760 ACACGTCAAC
*
24129770 ATTTAATTAATTTTTTAAAA
1 ATTTAAATAA-TTTTTAAAA
24129790 ATTTAAATAATTTTTAAAA
1 ATTTAAATAATTTTTAAAA
24129809 AT
1 AT
24129811 AGTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAAATAATTTTTAAAA
Found at i:24129805 original size:19 final size:20
Alignment explanation
Indices: 24129770--24129841 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
24129760 ACACGTCAAC
*
24129770 ATTTAATTAATTTTTTAAAA
1 ATTTAAATAATTTTTTAAAA
*
24129790 ATTTAAATAATTTTTAAAAA
1 ATTTAAATAATTTTTTAAAA
**
24129810 TAGTTTTTAT-ATTTTTT-AAA
1 -A-TTTAAATAATTTTTTAAAA
24129830 ATTTAAA-AATTT
1 ATTTAAATAATTT
24129842 AATTAAATAC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 8 0.19
19 1 0.02
20 21 0.50
21 7 0.17
22 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (20 bp):
ATTTAAATAATTTTTTAAAA
Found at i:24138803 original size:110 final size:109
Alignment explanation
Indices: 24138614--24139018 Score: 602
Period size: 110 Copynumber: 3.7 Consensus size: 109
24138604 ATGTTTAGCT
* * * * *
24138614 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTCGAATTT-CCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
* *
24138675 GCAAAACATTGCCATATTTTGAAATTTTTAAAAGGATATTAAGCC
66 GCAAAACATTGCCTTATTTT-AAATTTTTAAAAGGATATTAAGTC
* *
24138720 ATTTGGTTGAACGAGAAAAATCGACACCCATCACCTTAGGGCATGTTTTCTCAAATTTCCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
*
24138785 GCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTGAGTC
66 GCAAAACATTGCCTTATTTT-AAATTTTTAAAAGGATATTAAGTC
* *
24138830 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
24138895 GCAAAACATTGCCTTATTTTAAATTTTTTAAAAGGATATTAAGTC
66 GCAAAACATTGCCTTATTTTAAA-TTTTTAAAAGGATATTAAGTC
* * *
24138940 ATTTGATTGAATGAAAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
* *
24139005 GCTAAATATTGCCT
66 GCAAAACATTGCCT
24139019 CATTCAGAAA
Statistics
Matches: 271, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
106 14 0.05
108 24 0.09
109 13 0.05
110 220 0.81
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
GCAAAACATTGCCTTATTTTAAATTTTTAAAAGGATATTAAGTC
Found at i:24140387 original size:14 final size:15
Alignment explanation
Indices: 24140361--24140398 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
24140351 GTTACTTTTA
*
24140361 TTTCTTCTTGAATCC
1 TTTCTTTTTGAATCC
24140376 TTT-TTTTTGAATCC
1 TTTCTTTTTGAATCC
24140390 TTTCTTTTT
1 TTTCTTTTT
24140399 TTTTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.11, C:0.18, G:0.05, T:0.66
Consensus pattern (15 bp):
TTTCTTTTTGAATCC
Found at i:24141214 original size:46 final size:45
Alignment explanation
Indices: 24141147--24141615 Score: 251
Period size: 44 Copynumber: 10.7 Consensus size: 45
24141137 TTTTCGTCTG
* * * **
24141147 CTCCACTGCAACTTCAAGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCAATCTA
* * * *
24141193 CTCCACTGTAACCTTAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCAATCTA
** * * ** *
24141234 CTCTGCTGTAACTTCAGAGAGATAAGATTCTTTATT-TT-AATCCA
1 CTCCACTGTAACCTCAGGGAGATAAGA-TCTGAATTCTTCAATCTA
* * * * * *
24141278 CTCTACGGTAATCTCAGGGAGATAGGAT-T-ACTATCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * * * *
24141322 CTCCGCTGTAATCTCAGGGAGATAAGATCT--CTGGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
**
24141366 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCAATCTA
* * * *
24141412 CTCCACTATAACCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCAATCTA
* * * ** **
24141453 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTGAATTCTTCAATCTA
* * * * * * *
24141497 CTCCACGGTAACTTCAGGAAGATAGGA--T-AGTGTCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
* * * * *
24141540 CTCCGCTGTAATCTCAGGGAGATAAGATCT--CTGGCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCAATCTA
24141584 CTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGA
24141616 TGCGATCTAC
Statistics
Matches: 327, Mismatches: 74, Indels: 44
0.73 0.17 0.10
Matches are distributed among these distances:
40 1 0.00
41 62 0.19
42 8 0.02
43 30 0.09
44 159 0.49
45 4 0.01
46 62 0.19
47 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCAATCTA
Found at i:24141368 original size:219 final size:218
Alignment explanation
Indices: 24141143--24141615 Score: 804
Period size: 219 Copynumber: 2.2 Consensus size: 218
24141133 GTATTTTTCG
* * * * *
24141143 TCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTT
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTC
* *
24141208 AGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATTCTTTATTTTA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* *
24141273 ATCCACTCTACGGTAA-TCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTC
131 ATCCACTCCACGGTAACT-TCAGGAAGATAGGA-TACTATCTTCAATCTGCTCCGCTGTAATCTC
24141337 AGGGAGATAAGATCTCTGGCTTCAA
194 AGGGAGATAAGATCTCTGGCTTCAA
24141362 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTC
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTC
24141427 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * *
24141492 ATCCGCTCCACGGTAACTTCAGGAAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCAG
131 ATCCACTCCACGGTAACTTCAGGAAGATAGGATACTATCTTCAATCTGCTCCGCTGTAATCTCAG
24141557 GGAGATAAGATCTCTGGCTTCAA
196 GGAGATAAGATCTCTGGCTTCAA
24141580 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA
24141616 TGCGATCTAC
Statistics
Matches: 240, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
218 89 0.37
219 150 0.62
220 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (218 bp):
TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTC
AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCCACTCCACGGTAACTTCAGGAAGATAGGATACTATCTTCAATCTGCTCCGCTGTAATCTCAG
GGAGATAAGATCTCTGGCTTCAA
Found at i:24141394 original size:44 final size:44
Alignment explanation
Indices: 24141285--24141613 Score: 258
Period size: 44 Copynumber: 7.5 Consensus size: 44
24141275 CCACTCTACG
* * ** *
24141285 GTAATCTCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCGCT
1 GTAACCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACT
*
24141329 GTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT
1 GTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT
* * ** *
24141373 GTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTCCACT
1 GTAACCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCACT
* * * * * *
24141419 ATAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCTACT
1 GTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT
* * *** * * *
24141460 GTAACTTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACG
1 GTAACCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCACT
* * * ** * * *
24141504 GTAACTTCAGGAAGATAGGAT-AGTGTCTTCGATCTGCTCCGCT
1 GTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT
*
24141547 GTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT
1 GTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT
24141591 GTAACCTCAGGGAGATAAGATCT
1 GTAACCTCAGGGAGATAAGATCT
24141614 GATGCGATCT
Statistics
Matches: 225, Mismatches: 51, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
41 31 0.14
42 2 0.01
43 30 0.13
44 126 0.56
45 2 0.01
46 33 0.15
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
GTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT
Found at i:24141661 original size:172 final size:172
Alignment explanation
Indices: 24141356--24141696 Score: 504
Period size: 172 Copynumber: 2.0 Consensus size: 172
24141346 AGATCTCTGG
* **
24141356 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTAT
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT--AATGCTTCAATCTACTCCACTAT
* *
24141421 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
64 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCCTTT
24141486 ATTTTAATCCGCTCCACGGTAACTTCAGGAAGATAGGATAGTGT
129 ATTTTAATCCGCTCCACGGTAACTTCAGGAAGATAGGATAGTGT
* * * * * *
24141530 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTA
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAT-GCTTCAATCTACTCCACTATA
* * *
24141594 ACCTCAGGGAGATAAGATCTGATGCGATCTACTTTACTGTAACTTCAGAAAGATAAAATCTTTTA
65 ACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCCTTTA
* *
24141659 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT
130 TTTTAATCCGCTCCACGGTAACTTCAGGAAGATAGGAT
24141697 TTGTAACTCG
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
171 1 0.01
172 112 0.75
174 37 0.25
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (172 bp):
CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAATGCTTCAATCTACTCCACTATAA
CCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAAATCCTTTAT
TTTAATCCGCTCCACGGTAACTTCAGGAAGATAGGATAGTGT
Found at i:24141672 original size:85 final size:85
Alignment explanation
Indices: 24141412--24141692 Score: 312
Period size: 85 Copynumber: 3.3 Consensus size: 85
24141402 CTTCGGTCTA
* *
24141412 CTCCACTATAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
*
24141477 AGATCCTTTATTTTAATCCG
66 AGATCTTTTATTTTAATCCG
* * * * * * * * ** *
24141497 CTCCACGGTAACTTCAGGAAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAA-TCTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTG-ATGCGATCTACTCTACTGTAACT-TCAGAGAG
* *** * *
24141561 ATAAGATCTCTGGCTTCAATCTG
63 ATAAGATCTTTTATTTTAATCCG
* *
24141584 CTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCTACTTTACTGTAACTTCAGAAAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
*
24141649 AAATCTTTTATTTTAATCCG
66 AGATCTTTTATTTTAATCCG
*
24141669 CTCCACTGTAACTTCAGGGAGATA
1 CTCCACTGTAACCTCAGGGAGATA
24141693 GGATTTGTAA
Statistics
Matches: 151, Mismatches: 41, Indels: 8
0.75 0.20 0.04
Matches are distributed among these distances:
85 82 0.54
86 6 0.04
87 63 0.42
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (85 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCTTTTATTTTAATCCG
Found at i:24141692 original size:44 final size:44
Alignment explanation
Indices: 24141143--24141692 Score: 245
Period size: 44 Copynumber: 12.6 Consensus size: 44
24141133 GTATTTTTCG
* * * **
24141143 TCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGAAATT-CTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT---TTTACTTCAA
* * * * *
24141189 TCTACTCCACTGTAACCTT-AGGGAGATAAGA-C-CTGA-TGCGA
1 TCTGCTCCACTGTAA-CTTCAGGGAGATAAGATCTTTTACTTCAA
* ** * * *
24141230 TCTACTCTGCTGTAACTTCAGAGAGATAAGAT-TCTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT-TTTACTTCAA
** * * * **
24141274 TCCACTCTACGGTAA-TCTCAGGGAGATAGGAT-TACTATCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTTTTA-CTTCAA
* * **
24141318 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTTTTACTTCAA
* * **
24141362 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-CTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCT---TTTACTTCAA
* * * * * * *
24141408 TCTACTCCACTATAACCTCAGGGAGATAAGA-C-CTGA-TGCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTACTTCAA
* * * * * *
24141449 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTACTTCAA
* * * * ** * *
24141493 TCCGCTCCACGGTAACTTCAGGAAGATAGGATAGTGT-CTTCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTACTTCAA
* * **
24141536 TCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCTTTTACTTCAA
* * * *
24141580 TCTGCTCCACTGTAACCTCAGGGAGATAAGATC--TGA-TGCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTACTTCAA
* ** ** * * *
24141621 TCTACTTTACTGTAACTTCAGAAAGATAAAATCTTTTATTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTACTTCAA
*
24141665 TCCGCTCCACTGTAACTTCAGGGAGATA
1 TCTGCTCCACTGTAACTTCAGGGAGATA
24141693 GGATTTGTAA
Statistics
Matches: 379, Mismatches: 101, Indels: 50
0.72 0.19 0.09
Matches are distributed among these distances:
40 3 0.01
41 88 0.23
42 4 0.01
43 37 0.10
44 183 0.48
45 3 0.01
46 57 0.15
47 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGATCTTTTACTTCAA
Found at i:24141870 original size:125 final size:125
Alignment explanation
Indices: 24141736--24142495 Score: 1405
Period size: 125 Copynumber: 6.1 Consensus size: 125
24141726 TTCGTTATTA
* * **
24141736 TGGCTTTAATCTTTTTAACTGTAATGTCGGAGAAACAAGATTCACCAATTTGGTTTTAATCTGCT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
24141801 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
* *
24141861 TGGCTTTAATCTTTTTAACTGCAATGTCGGAAAAACAAGATTTACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
24141926 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
24141986 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
24142051 CCACTGCATCGCTTGGGGCATAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
24142111 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
24142176 CCACTGCATCGCTTGGGGCGTAAGATTCGTTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
24142236 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
24142301 CCACTGCATCACTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
24142361 TGGCTTTAATC-TTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
* *
24142425 CCACTGTATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGAGG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
24142485 TGGCTTTAATC
1 TGGCTTTAATC
24142496 GTTTGAATTG
Statistics
Matches: 617, Mismatches: 18, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
124 121 0.20
125 496 0.80
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (125 bp):
TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
Found at i:24153408 original size:16 final size:16
Alignment explanation
Indices: 24153375--24153409 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24153365 TTCTATAATG
*
24153375 AAATGCCATGTAGACA
1 AAATGCCATGCAGACA
*
24153391 AAATGCCATGCAGTCA
1 AAATGCCATGCAGACA
24153407 AAA
1 AAA
24153410 CAAAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGACA
Found at i:24154536 original size:110 final size:110
Alignment explanation
Indices: 24154340--24154744 Score: 575
Period size: 110 Copynumber: 3.7 Consensus size: 110
24154330 ATGTTTAGCT
* * * * * *
24154340 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTCGAATTT-CTAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
* * *
24154401 GCAAAATATTGCCATATTTTGAAATTTTTAAAAGGATATTAAGCC
66 GCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
*
24154446 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
*
24154511 GCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTGAGCC
66 GCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
* * **
24154556 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGCTTTCTCGAATTTTTCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
* * *
24154621 GCAAAACATTGCCTTATTTTCAATTTTTTAAAAGGATATTAAGTC
66 GCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
* * *
24154666 ATTTGATTGAATGAAAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
* *
24154731 GCTAAATATTGCCT
66 GCAAAACATTGCCT
24154745 CATTCAGAAA
Statistics
Matches: 266, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
106 14 0.05
108 25 0.09
109 10 0.04
110 217 0.82
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (110 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
GCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
Found at i:24154856 original size:5 final size:5
Alignment explanation
Indices: 24154842--24154873 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
24154832 GTAAAGAATG
24154842 AAAT- AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA
24154874 AATCAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:24155357 original size:3 final size:3
Alignment explanation
Indices: 24155311--24155336 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24155301 AATAAAATGC
24155311 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
24155337 ACTAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24155654 original size:18 final size:17
Alignment explanation
Indices: 24155583--24155651 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
24155573 AAACTTAATT
24155583 GCACAATTTAATATTTAAA
1 GCACAATTTAATA-TT-AA
** *
24155602 G-ACAAGATAATATAATA
1 GCACAATTTAATATTA-A
*
24155619 GACACAATTAAATATTAA
1 G-CACAATTTAATATTAA
24155637 GCACAATTTAATATT
1 GCACAATTTAATATT
24155652 TAAAATCCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
16 1 0.03
17 16 0.41
18 11 0.28
19 11 0.28
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (17 bp):
GCACAATTTAATATTAA
Found at i:24156938 original size:6 final size:6
Alignment explanation
Indices: 24156914--24156989 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
24156904 TTCGCGTCTG
* * *
24156914 TTTCTT TCTTCTT TCTCTT TTTCTT TTTCTT TGCTTC-C TTTCTG TTTCATT
1 TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT T--TTCTT TTTCTT TTTC-TT
* * *
24156965 TTACTT TCTCTC TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
24156990 ATTTCTTTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
5 3 0.06
6 37 0.69
7 11 0.20
8 3 0.06
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:24156943 original size:25 final size:24
Alignment explanation
Indices: 24156914--24156989 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 24
24156904 TTCGCGTCTG
24156914 TTTCTTTCTTCTTTCTCTTTTTCTT
1 TTTCTTTCTTCTTT-TCTTTTTCTT
* *
24156939 TTTCTTTGCTTCCTTTCTGTTTCATT
1 TTTCTTT-CTTCTTTTCTTTTTC-TT
*
24156965 TTACTTTC-TCTCTTTCTTTTTCTT
1 TTTCTTTCTTCT-TTTCTTTTTCTT
24156989 T
1 T
24156990 ATTTCTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
24 5 0.12
25 24 0.56
26 14 0.33
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (24 bp):
TTTCTTTCTTCTTTTCTTTTTCTT
Found at i:24160448 original size:110 final size:109
Alignment explanation
Indices: 24160262--24160587 Score: 386
Period size: 110 Copynumber: 3.0 Consensus size: 109
24160252 GCACCAAATA
* * * * * * * *
24160262 CATTCAAAAAAAATTTTGTGTGGTGGCCAGTAGATGGCCGGCACCAGGTACATTTTTTGGGTCCC
1 CATTTAAAAAAAA-TTTGGGTGCTGGCCAATAGATGGCCGGCACCAAGTACATTTTTCGGCTCAC
* ** * * *
24160327 CAGACACTTTTTTTTACTTTGGGACACTGATGGTAGGCACCAGTGT
65 AAGGTA-TTTTTTTTACTTTGGGACACTGATGGCAGACACCAATGT
*
24160373 CATTTAAAAAAAATTTGGGTGCTGGCCAATAGATGGTCGGCACCAAGTACATTTTTCGGCTCACA
1 CATTTAAAAAAAATTTGGGTGCTGGCCAATAGATGGCCGGCACCAAGTACATTTTTCGGCTCACA
* *
24160438 AGGTATTTTTTTTTACTTTGGGACACTGATGGCCGACACCAATTT
66 AGGTA-TTTTTTTTACTTTGGGACACTGATGGCAGACACCAATGT
* * * *
24160483 CATTTAAAAAAAAACTTAGGTGCT-GACAAGTAGATGGCCGGCA-CAAGTACATTTTTCGGCTCT
1 CATTT-AAAAAAAATTTGGGTGCTGGCCAA-TAGATGGCCGGCACCAAGTACATTTTTCGGCTCA
* *
24160546 CAATGTATTTTTTTTACTTTGGGACACTGATGGCTGACACCA
64 CAAGGTATTTTTTTTACTTTGGGACACTGATGGCAGACACCA
24160588 CCTTTTTCGG
Statistics
Matches: 188, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
109 34 0.18
110 114 0.61
111 40 0.21
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (109 bp):
CATTTAAAAAAAATTTGGGTGCTGGCCAATAGATGGCCGGCACCAAGTACATTTTTCGGCTCACA
AGGTATTTTTTTTACTTTGGGACACTGATGGCAGACACCAATGT
Found at i:24160624 original size:55 final size:56
Alignment explanation
Indices: 24160534--24160647 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 56
24160524 CACAAGTACA
*
24160534 TTTTTCGGCTCTCAATGTATTTTTTTTACTTTGGGACA-CTGATGGCTGACACCACC
1 TTTTTCGGCTCTCAATGTATTTTTTTTACTTTGGGACATC-GATGGCTGACACCAAC
* ** *
24160590 TTTTTCGGGTCTCGAAT-T-TTTTTTTTGTTTTGGGACATCGATGGCTGGCACCAAC
1 TTTTTCGGCTCTC-AATGTATTTTTTTTACTTTGGGACATCGATGGCTGACACCAAC
24160645 TTT
1 TTT
24160648 ATCACATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
55 34 0.67
56 14 0.27
57 3 0.06
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (56 bp):
TTTTTCGGCTCTCAATGTATTTTTTTTACTTTGGGACATCGATGGCTGACACCAAC
Found at i:24161422 original size:90 final size:90
Alignment explanation
Indices: 24161308--24161634 Score: 437
Period size: 90 Copynumber: 3.6 Consensus size: 90
24161298 TTTATATTTG
* * *
24161308 TAAATTTAATTTAGTCCGTATTATATGTAGTGTAAATTTAAAATTTTCGAGTATTAATTTTACCT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCT
24161373 ATCTGTTTGTAGTTTGTTGGGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* * * * *
24161398 TAAATTTAATTTAGTCTGTGTTATATATAGTTTGAATTTAAAAATTTT-GTGCACTAATTTTATC
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTT-AAAATTTTCGTGTATTAATTTTA-C
24161462 C-ATCTGTTTGTAGTTTGTTGGGTGTT
64 CTATCTGTTTGTAGTTTGTTGGGTGTT
* *
24161488 TAAATTTAATTTAGTCCGTATTATATGTAATTTGAATTTAGAATTTTCGTGTATTAATTTTA-CT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCT
*
24161552 CATCTGTTTGTATTTTGTTGGGTGTT
66 -ATCTGTTTGTAGTTTGTTGGGTGTT
* * * * * * *
24161578 TAAATTTAATTTAGTGCATATTAT-TTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
24161635 ATTCTAGAAT
Statistics
Matches: 207, Mismatches: 25, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
88 1 0.00
89 33 0.16
90 163 0.79
91 10 0.05
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (90 bp):
TAAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCT
ATCTGTTTGTAGTTTGTTGGGTGTT
Found at i:24164109 original size:5 final size:5
Alignment explanation
Indices: 24164099--24164142 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
24164089 CTTTTTTTTC
*
24164099 TCATT TCATT TCATTT TCATT TCCATT TCATT TGATT TCCATT T
1 TCATT TCATT TCA-TT TCATT T-CATT TCATT TCATT T-CATT T
24164143 AAATTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 20 0.59
6 14 0.41
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.59
Consensus pattern (5 bp):
TCATT
Found at i:24164152 original size:16 final size:16
Alignment explanation
Indices: 24164117--24164177 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 16
24164107 TTTCATTTTC
*
24164117 ATTTCCATTT-CATTT
1 ATTTCCATTTAAATTT
24164132 GATTTCCATTTAAATTT
1 -ATTTCCATTTAAATTT
24164149 ATTTTTTTCCATTTAAATTT
1 A----TTTCCATTTAAATTT
24164169 ATTT-CATTT
1 ATTTCCATTT
24164178 CTATTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
15 5 0.13
16 14 0.36
17 4 0.10
20 16 0.41
ACGTcount: A:0.25, C:0.13, G:0.02, T:0.61
Consensus pattern (16 bp):
ATTTCCATTTAAATTT
Found at i:24164152 original size:21 final size:20
Alignment explanation
Indices: 24164123--24164198 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 20
24164113 TTTCATTTCC
24164123 ATTTCATTTGATTTCCATTTAA
1 ATTT-ATTT-ATTTCCATTTAA
*
24164145 ATTTATTTTTTTCCATTTAA
1 ATTTATTTATTTCCATTTAA
*
24164165 ATTTATTTCATTTCTATTTAA
1 ATTTATTT-ATTTCCATTTAA
24164186 ATTTATTT-TTTCC
1 ATTTATTTATTTCC
24164199 TAATATACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 4 0.08
20 19 0.39
21 22 0.45
22 4 0.08
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (20 bp):
ATTTATTTATTTCCATTTAA
Found at i:24164159 original size:20 final size:20
Alignment explanation
Indices: 24164134--24164196 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
24164124 TTTCATTTGA
24164134 TTTCCATTTAAATTTATTTT
1 TTTCCATTTAAATTTATTTT
*
24164154 TTTCCATTTAAATTTATTTCA
1 TTTCCATTTAAATTTATTT-T
*
24164175 TTTCTATTTAAATTTATTTT
1 TTTCCATTTAAATTTATTTT
24164195 TT
1 TT
24164197 CCTAATATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
20 21 0.54
21 18 0.46
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTCCATTTAAATTTATTTT
Found at i:24164267 original size:20 final size:19
Alignment explanation
Indices: 24164242--24164297 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 19
24164232 ATAGTCTCAT
24164242 TTCAATTTATCTTTTTTCAA
1 TTCAATTTAT-TTTTTTCAA
24164262 TTCAA-TT-TTTTTTTCAA
1 TTCAATTTATTTTTTTCAA
24164279 TTC-ATTTCATATTTTTTCA
1 TTCAATTT-AT-TTTTTTCA
24164298 TATTAATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.03
17 14 0.44
18 1 0.03
19 3 0.09
20 13 0.41
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCAATTTATTTTTTTCAA
Found at i:24164350 original size:21 final size:21
Alignment explanation
Indices: 24164324--24164363 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24164314 TCTCAATTAC
24164324 ATTTTATTTAAAATTTTTCAT
1 ATTTTATTTAAAATTTTTCAT
*
24164345 ATTTTATTTAAATTTTTTC
1 ATTTTATTTAAAATTTTTC
24164364 TCAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTATTTAAAATTTTTCAT
Found at i:24164371 original size:21 final size:21
Alignment explanation
Indices: 24164326--24164371 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
24164316 TCAATTACAT
*
24164326 TTTATTTAAAATTTTTCATAT
1 TTTATTTAAAATTTTTCATAA
*
24164347 TTTATTTAAATTTTTTC-TCAA
1 TTTATTTAAAATTTTTCAT-AA
24164368 TTTA
1 TTTA
24164372 AATATCATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTATTTAAAATTTTTCATAA
Found at i:24164606 original size:6 final size:6
Alignment explanation
Indices: 24164585--24164639 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
24164575 ACTTTTTTTT
*
24164585 CATTT- CATTTC TATTTC CATTT- CATTT- CATTTC CATTTC CATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
24164630 CATTT- CATTT
1 CATTTC CATTT
24164640 AAATTATCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 20 0.43
6 26 0.57
ACGTcount: A:0.18, C:0.25, G:0.00, T:0.56
Consensus pattern (6 bp):
CATTTC
Found at i:24164607 original size:22 final size:22
Alignment explanation
Indices: 24164582--24164639 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
24164572 TCAACTTTTT
*
24164582 TTTCATTTCATTTCTATTTCCA
1 TTTCATTTCATTTCCATTTCCA
24164604 TTTCATTTCATTTCCATTTCCA
1 TTTCATTTCATTTCCATTTCCA
24164626 TTTCCATTTCATTT
1 TTT-CATTTCATTT
24164640 AAATTATCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 24 0.71
23 10 0.29
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTCATTTCATTTCCATTTCCA
Found at i:24164660 original size:22 final size:24
Alignment explanation
Indices: 24164626--24164699 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 24
24164616 TCCATTTCCA
*
24164626 TTTCCATTTCATTTAAATTATCTT
1 TTTCTATTTCATTTAAATTATCTT
24164650 TTT-T-TTTCATTTAAATTTAAT-TT
1 TTTCTATTTCATTTAAA-TT-ATCTT
24164673 TTTCCTCATTTCATTTAAATTATCTT
1 TTT-CT-ATTTCATTTAAATTATCTT
24164699 T
1 T
24164700 CTTTCCATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
22 11 0.26
23 7 0.17
24 5 0.12
25 3 0.07
26 5 0.12
27 11 0.26
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTCTATTTCATTTAAATTATCTT
Found at i:24164809 original size:44 final size:44
Alignment explanation
Indices: 24164751--24164866 Score: 180
Period size: 44 Copynumber: 2.7 Consensus size: 44
24164741 CTTATTGTAA
* * *
24164751 TGTATT-TCATTTAATGTGTTTTAAATTAAATATGTATGTATAT
1 TGTATTATAATTTAATGTGTTTTAAATTAAATACGCATGTATAT
*
24164794 TGTATTATAATTTAATGTGCTTTAAATTAAATACGCATGTATAT
1 TGTATTATAATTTAATGTGTTTTAAATTAAATACGCATGTATAT
*
24164838 TGTATTATAATTTAACGTGTTTTAAATTA
1 TGTATTATAATTTAATGTGTTTTAAATTA
24164867 GGAATAAGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
43 6 0.09
44 60 0.91
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.50
Consensus pattern (44 bp):
TGTATTATAATTTAATGTGTTTTAAATTAAATACGCATGTATAT
Found at i:24166403 original size:12 final size:12
Alignment explanation
Indices: 24166372--24166397 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24166362 TTCAACTAAT
24166372 AAAGCAAACAAA
1 AAAGCAAACAAA
24166384 AAAGCAAACAAA
1 AAAGCAAACAAA
24166396 AA
1 AA
24166398 CTCAAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAACAAA
Found at i:24166813 original size:111 final size:112
Alignment explanation
Indices: 24166606--24166861 Score: 304
Period size: 111 Copynumber: 2.3 Consensus size: 112
24166596 CTGAAAAAGG
* * * *
24166606 TGGTGCCAACCATCAGTGTCCCAAAGT-AAAAAAAAAAGCGCATTGGGAGTCAAAAAATGTACTT
1 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAAAAACGCATTAGGAGCCAAAAAATATACTT
* *
24166670 GGTGCTAGCCATCTACTTGCCAGCACAAAATTTTTTTTAAATGACAT
66 GGTGCGAGCCATCTACTTGCCAGCACAAAATTTTTTTTAAATGACAC
** * * * * *
24166717 TGGTGCCGGCCATCAGCGTCCCAAAGTAAAAAAAAAAAATGCCTTAGGAGCCGAAAAATATATTT
1 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAAAAACGCATTAGGAGCCAAAAAATATACTT
*
24166782 GGTGCCGA-CCATCTA-TTGGCCAGCAC-CAATTTTTTTTAAATGACAC
66 GGTG-CGAGCCATCTACTT-GCCAGCACAAAATTTTTTTTAAATGACAC
* * * *
24166828 TGGTGCTATCCATTAGTGTCCCAAAATAAAAAAA
1 TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAA
24166862 TACCTTGGGA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
111 72 0.59
112 48 0.39
113 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (112 bp):
TGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAAAAACGCATTAGGAGCCAAAAAATATACTT
GGTGCGAGCCATCTACTTGCCAGCACAAAATTTTTTTTAAATGACAC
Found at i:24168233 original size:21 final size:20
Alignment explanation
Indices: 24168194--24168248 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
24168184 TTGAAAATTA
24168194 ATTATTTTATAAT-TTTTAT
1 ATTATTTTATAATATTTTAT
*
24168213 CTTATTTATATAATATTTTAT
1 ATTATTT-TATAATATTTTAT
24168234 ATTATTTTAATAATA
1 ATTATTTT-ATAATA
24168249 AATATGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.19
20 7 0.23
21 18 0.58
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATTTTATAATATTTTAT
Found at i:24174138 original size:24 final size:24
Alignment explanation
Indices: 24174110--24174196 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
24174100 CTCACAAAAC
24174110 ACAAAAATTTATAATAAATTACTA
1 ACAAAAATTTATAATAAATTACTA
* * *
24174134 ACAAAATATTTAACAAAATAAAACTCACAAA
1 ACAAAA-ATTT---ATAAT-AAA-TTAC-TA
24174165 ACACAACAATTTATAATAAATTACTA
1 ACA-AA-AATTTATAATAAATTACTA
24174191 ACAAAA
1 ACAAAA
24174197 TAATTTTACA
Statistics
Matches: 48, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
24 7 0.15
25 6 0.12
26 4 0.08
27 3 0.06
28 7 0.15
29 7 0.15
30 3 0.06
31 4 0.08
32 6 0.12
33 1 0.02
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (24 bp):
ACAAAAATTTATAATAAATTACTA
Found at i:24174139 original size:31 final size:31
Alignment explanation
Indices: 24174103--24174196 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
24174093 CTATAAACTC
24174103 ACAAAACACAAAAATTTATAATAAATTACTA
1 ACAAAACACAAAAATTTATAATAAATTACTA
* ** * *
24174134 ACAAAATATTTAACA---A-AATAAA--ACTC
1 ACAAAACA-CAAAAATTTATAATAAATTACTA
*
24174160 ACAAAACACAACAATTTATAATAAATTACTA
1 ACAAAACACAAAAATTTATAATAAATTACTA
24174191 ACAAAA
1 ACAAAA
24174197 TAATTTTACA
Statistics
Matches: 45, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 2 0.04
26 10 0.22
28 7 0.16
29 7 0.16
31 16 0.36
32 3 0.07
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (31 bp):
ACAAAACACAAAAATTTATAATAAATTACTA
Found at i:24174158 original size:57 final size:59
Alignment explanation
Indices: 24174097--24174221 Score: 200
Period size: 57 Copynumber: 2.1 Consensus size: 59
24174087 ACATTACTAT
24174097 AAACTCACAAAACACAAAAATTTATAATAAATTACTAACAAAAT-ATTTAACA-AAATA
1 AAACTCACAAAACACAAAAATTTATAATAAATTACTAACAAAATAATTTAACATAAATA
* * *
24174154 AAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATAATTTTACATTAATA
1 AAACTCACAAAACACAAAAATTTATAATAAATTACTAACAAAATAATTTAACATAAATA
24174213 AAACATCAC
1 AAAC-TCAC
24174222 CAAATACTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
57 43 0.69
58 7 0.11
59 8 0.13
60 4 0.06
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (59 bp):
AAACTCACAAAACACAAAAATTTATAATAAATTACTAACAAAATAATTTAACATAAATA
Found at i:24174478 original size:3 final size:3
Alignment explanation
Indices: 24174472--24174504 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
24174462 TTTTCTTTCT
*
24174472 TTC TTC TTC TTC TTC TTC TTC TT- TTT TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
24174505 CCTTTCTCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:24174484 original size:13 final size:13
Alignment explanation
Indices: 24174468--24174534 Score: 63
Period size: 13 Copynumber: 5.4 Consensus size: 13
24174458 TTTTTTTTCT
24174468 TTCTTTCTTCTTC
1 TTCTTTCTTCTTC
24174481 TTC-TTCTTCTTC
1 TTCTTTCTTCTTC
24174493 TT-TTT-TTCTTC
1 TTCTTTCTTCTTC
* *
24174504 TCCTTTCTCTCAT-
1 TTCTTTCT-TCTTC
24174517 TTCTTTCTCTCTT-
1 TTCTTTCT-TCTTC
24174530 TTCTT
1 TTCTT
24174535 CCCTACACAC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 7 0.15
12 16 0.35
13 20 0.43
14 3 0.07
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (13 bp):
TTCTTTCTTCTTC
Found at i:24174491 original size:23 final size:23
Alignment explanation
Indices: 24174464--24174535 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
24174454 TACCTTTTTT
24174464 TTCTTTCTTTCTTCTTCTTCTTC
1 TTCTTTCTTTCTTCTTCTTCTTC
* *
24174487 TTC-TTCTTTTTTTCTTCTCCTTTC
1 TTCTTTC-TTTCTTCTTCTTC-TTC
24174511 TCTCATTTCTTTCTCTCTT-TTCTTC
1 T-TC-TTTCTTTCT-TCTTCTTCTTC
24174536 CCTACACACC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
22 3 0.08
23 14 0.36
24 4 0.10
25 5 0.13
26 6 0.15
27 7 0.18
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (23 bp):
TTCTTTCTTTCTTCTTCTTCTTC
Found at i:24175119 original size:37 final size:37
Alignment explanation
Indices: 24175069--24175146 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
24175059 ATACATGAGA
24175069 CATATAATTCATCTATATCATGCACATAAATTAAAAC
1 CATATAATTCATCTATATCATGCACATAAATTAAAAC
*
24175106 CATATGATTCATCTATATCATGCACATAAATTAAAAC
1 CATATAATTCATCTATATCATGCACATAAATTAAAAC
24175143 CATA
1 CATA
24175147 GTAACTTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (37 bp):
CATATAATTCATCTATATCATGCACATAAATTAAAAC
Found at i:24175781 original size:25 final size:25
Alignment explanation
Indices: 24175747--24175796 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24175737 AACTTAATCA
24175747 ATATACAAACCTACTAAAACAAAAC
1 ATATACAAACCTACTAAAACAAAAC
24175772 ATATACAAACCTACTAAAACAAAAC
1 ATATACAAACCTACTAAAACAAAAC
24175797 CGATTACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (25 bp):
ATATACAAACCTACTAAAACAAAAC
Found at i:24179313 original size:18 final size:17
Alignment explanation
Indices: 24179280--24179318 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24179270 TTTTATAAAT
24179280 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
24179298 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
24179315 TGTG
1 TGTG
24179319 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:24179589 original size:23 final size:23
Alignment explanation
Indices: 24179552--24179650 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
24179542 AGTGTTATTC
* *
24179552 ATCAATGGTACCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
24179575 TTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
24179598 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24179621 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24179644 ATCAGTG
1 ATCAGTG
24179651 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:24183131 original size:33 final size:33
Alignment explanation
Indices: 24183063--24183131 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
24183053 ATATGCATGT
* *
24183063 ATATACATGTATTATAAACGTATAAGTGTACAA
1 ATATACATGTATTATAAACATATAAGTATACAA
* * *
24183096 ATATATATGTA-TATATACATATAAGGTATATAA
1 ATATACATGTATTATAAACATATAA-GTATACAA
24183129 ATA
1 ATA
24183132 AAATATAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (33 bp):
ATATACATGTATTATAAACATATAAGTATACAA
Found at i:24184978 original size:133 final size:131
Alignment explanation
Indices: 24184772--24185184 Score: 628
Period size: 132 Copynumber: 3.1 Consensus size: 131
24184762 CGTTATTGTT
* * * * ** *
24184772 GATCTGCTCCACTACTGATTAGGGGGACAGAATCTACAGTCTTTGACCTACTCCACTACTACTTA
1 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
* *
24184837 GAGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGAAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAAT-TGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
24184902 TC
130 TC
*
24184904 GATCTGCTCCACTACTGCTTAGGGTTGACAGAATCTGCAATCTTCAACCTACCCCACTACTGCTT
1 GATCTGCTCCACTACTGCTTAGGG-TGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTT
*
24184969 AGGGTGATAGGACTAATGGCTTAAATTCGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATT
65 AGGGTGATAGGACTAATGGCTTAAATT-GCTTCTCCACTGTATTGGGAAGATAAGATTCACCATC
24185034 TTC
129 TTC
* * * * *
24185037 GATCTGCTCTAATACTGCTTAGGGTGACAGAATTTGCAATTTTCAACCTACTCCACTACTGTTTA
1 GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
* *
24185102 GGGTGATAGGATTAATGGCTTAAATCTGCTACTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAAT-TGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
24185167 TC
130 TC
24185169 GATCTGCTCCACTACT
1 GATCTGCTCCACTACT
24185185 AAATACAGGA
Statistics
Matches: 256, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
132 137 0.54
133 119 0.46
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (131 bp):
GATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
GGGTGATAGGACTAATGGCTTAAATTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTT
C
Found at i:24185203 original size:46 final size:45
Alignment explanation
Indices: 24185163--24186217 Score: 1446
Period size: 46 Copynumber: 23.0 Consensus size: 45
24185153 AAGATTCACC
* * * *
24185163 ATCTTCGATCTGCTCCACTACTAAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
24185209 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGATAAGGTCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
24185255 ATCTTCGATCTTCTCCGCTGCCAAATACAGGAAGATAAGATCTGTT
1 ATCTTCGATC-TCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24185301 ATCTTCGATCTCTTCCGCTGCCAAATACAAGAAGACAAGATCTGCT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24185347 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCC
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
24185393 ATCTTCGATCTCTTCTGCTGCCAAATAGAGGAAGATAAGATCTGCC
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24185439 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCC
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
24185485 ATCTTCGATCTCCTCTGCTGCCAAATACAGGAAGATAAGATATGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* **
24185531 ATCTTCGATCTCCTCCGCTGCCAAATATAGGAAGGTAAGATCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
24185577 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGATAAGATCTGCC
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
24185623 ATCTTCGATCTCTCCGCTACCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24185668 ATCTTCGATCTCCTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24185714 ATATTCGATCTCATCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
24185760 ATCTTCGATTTCTTCTGCTGCCAAATACAGGAAGAAAAGATCTACT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24185806 ATCTTCGATTTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
24185852 ATCTTCAATCTCTTCTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
**
24185898 ATCTTCGATCTCCTTTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
** * * *
24185944 ATCTTCGATCTCTTCCGCTGCCAAATACAAAAAGATAAAATCTGCC
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* ** *
24185990 ATTTTTTATCTCCTCCACTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24186036 ATCTTCGATCTCTTTCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
24186082 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATAAGAT-TAGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCT-GCT
24186128 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
24186174 ATCTTTGATCTCCTCCGCTGCCAAATATAGGAATACAAGATCTG
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTG
24186218 TTGTCTTCAT
Statistics
Matches: 911, Mismatches: 79, Indels: 38
0.89 0.08 0.04
Matches are distributed among these distances:
45 50 0.05
46 852 0.94
47 9 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
ATCTTCGATCTCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:24187340 original size:21 final size:21
Alignment explanation
Indices: 24187314--24187360 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
24187304 AGTATAGCAA
24187314 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** * *
24187335 GATCACTTCATGCCCTATTCT
1 GATCACCACATGCCCCAATCT
24187356 GATCA
1 GATCA
24187361 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:24187489 original size:19 final size:17
Alignment explanation
Indices: 24187452--24187492 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
24187442 CCATTTTTAC
*
24187452 TTTTTCATTTTTTTTCA
1 TTTTTCATTTTTATTCA
24187469 TTTTTCATTTTTACATTCA
1 TTTTTCATTTTT--ATTCA
24187488 TTTTT
1 TTTTT
24187493 TTAAGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTCATTTTTATTCA
Found at i:24188388 original size:6 final size:6
Alignment explanation
Indices: 24188379--24188426 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
24188369 GACCTTGATT
* *
24188379 TTTTTA TTTTGA TTTTTG TTTTT- TTTTTA TTTTTTA TTTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTTTT
24188427 TTGATTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 5 0.14
6 19 0.51
7 13 0.35
ACGTcount: A:0.10, C:0.00, G:0.04, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:24188404 original size:24 final size:23
Alignment explanation
Indices: 24188377--24188443 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 23
24188367 TTGACCTTGA
*
24188377 TTTTTTTATTTTGATTTTTGTTT
1 TTTTTTTATTTTGATTTTTATTT
*
24188400 TTTTTTTATTTTTTATTTTTTATTT
1 TTTTTTTA-TTTTGA-TTTTTATTT
*
24188425 TTTTGATT-TTTTGATTTTT
1 TTTT-TTTATTTTGATTTTT
24188444 TTTGGAGTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
23 13 0.35
24 10 0.27
25 12 0.32
26 2 0.05
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (23 bp):
TTTTTTTATTTTGATTTTTATTT
Found at i:24188407 original size:23 final size:23
Alignment explanation
Indices: 24188377--24188444 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
24188367 TTGACCTTGA
24188377 TTTTTTTATTTTGATTTTTGT-TT
1 TTTTTTTATTTTGATTTTT-TATT
*
24188400 TTTTTTTATTTTTTATTTTTTATT
1 TTTTTTTA-TTTTGATTTTTTATT
24188424 TTTTTGATT-TTTTGATTTTTT
1 TTTTT--TTATTTTGATTTTTT
24188445 TTGGAGTCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 9 0.23
24 28 0.72
26 2 0.05
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (23 bp):
TTTTTTTATTTTGATTTTTTATT
Found at i:24188444 original size:24 final size:24
Alignment explanation
Indices: 24188385--24188444 Score: 86
Period size: 23 Copynumber: 2.5 Consensus size: 24
24188375 GATTTTTTTA
* *
24188385 TTTTGATTTTTGTTTTTTTTTTATT
1 TTTTGATTTTT-TATTTTTTTGATT
24188410 TTTT-ATTTTTTATTTTTTTGATT
1 TTTTGATTTTTTATTTTTTTGATT
24188433 TTTTGATTTTTT
1 TTTTGATTTTTT
24188445 TTGGAGTCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 15 0.47
24 13 0.41
25 4 0.12
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (24 bp):
TTTTGATTTTTTATTTTTTTGATT
Found at i:24192205 original size:18 final size:17
Alignment explanation
Indices: 24192179--24192224 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
24192169 ATATACACGT
24192179 ATATATATATGACAAAA
1 ATATATATATGACAAAA
* * *
24192196 AGTATGTATATTATAAAA
1 A-TATATATATGACAAAA
24192214 ATATATATATG
1 ATATATATATG
24192225 TGTATATAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (17 bp):
ATATATATATGACAAAA
Found at i:24194486 original size:37 final size:37
Alignment explanation
Indices: 24194413--24194491 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
24194403 TTATTACGAA
* * *
24194413 GTCTTACCCGAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
* * *
24194450 GTCTTACCCGGACAAAATCCCCACGCGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
24194487 GTCTT
1 GTCTT
24194492 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:24194734 original size:49 final size:49
Alignment explanation
Indices: 24194615--24194972 Score: 582
Period size: 49 Copynumber: 7.4 Consensus size: 49
24194605 CGGGACTTAT
* * * * * * *
24194615 CATATTTATACACTTTCACATCCATCA-AGTTGGCCACTCGGCCCTGTCA
1 CATATATATACACTTTCACATTCATCACA-TCGGCCATTAGGCCTTATCA
24194664 C--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
24194711 CATATATATACACTTTCACATTCATCACATCGGCCCTTAGGCCTTATCA
1 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
24194760 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
24194809 CATATATATACACTTTCACATTCATCACATCGGCCCTTAGGCCTTATCA
1 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
24194858 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
24194907 C--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCG
1 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
24194954 CATATATATACACTTTCAC
1 CATATATATACACTTTCAC
24194973 GTATACACAC
Statistics
Matches: 292, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
47 84 0.29
48 1 0.00
49 207 0.71
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:24194880 original size:147 final size:147
Alignment explanation
Indices: 24194615--24194972 Score: 582
Period size: 145 Copynumber: 2.5 Consensus size: 147
24194605 CGGGACTTAT
* * * * * * *
24194615 CATATTTATACACTTTCACATCCATCA-AGTTGGCCACTCGGCCCTGTCAC--ATATATACACTT
1 CATATATATACACTTTCACATTCATCACA-TCGGCCATTAGGCCTTATCACATATATATACACTT
24194677 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATC
65 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATC
*
24194742 GGCCCTTAGGCCTTATCA
130 GGCCATTAGGCCTTATCA
24194760 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
*
24194825 CACATTCATCACATCGGCCCTTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
66 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
24194890 GCCATTAGGCCTTATCA
131 GCCATTAGGCCTTATCA
*
24194907 C--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATATACACTTT
1 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
24194970 CAC
66 CAC
24194973 GTATACACAC
Statistics
Matches: 200, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
145 105 0.52
146 1 0.00
147 94 0.47
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (147 bp):
CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCA
Found at i:24198769 original size:3 final size:3
Alignment explanation
Indices: 24198761--24198786 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24198751 CATCTTTTAA
24198761 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
24198787 GACACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:24199022 original size:16 final size:16
Alignment explanation
Indices: 24198998--24199029 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24198988 TAATAATTGG
*
24198998 ATATTTTTTAAAATAT
1 ATATATTTTAAAATAT
24199014 ATATATTTTAAAATAT
1 ATATATTTTAAAATAT
24199030 TTTCTTTTAC
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:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTTTAAAATAT
Found at i:24199197 original size:3 final size:3
Alignment explanation
Indices: 24199189--24199220 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24199179 GTATTAATAG
24199189 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24199221 GGCCCCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24200444 original size:78 final size:78
Alignment explanation
Indices: 24200315--24200467 Score: 288
Period size: 78 Copynumber: 2.0 Consensus size: 78
24200305 AACCAATTTT
*
24200315 GTGCAAGCCAAAGAAAATAAGGACTCGACCCCGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
1 GTGCAAGCCAAAGAAAATAAGGACTCAACCCCGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
24200380 ACCTCAACAAGCG
66 ACCTCAACAAGCG
*
24200393 GTGCAAGCCAAAGAAAATAAGGACTCAACCCTGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
1 GTGCAAGCCAAAGAAAATAAGGACTCAACCCCGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
24200458 ACCTCAACAA
66 ACCTCAACAA
24200468 TCGGAAGACT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.39, C:0.26, G:0.24, T:0.11
Consensus pattern (78 bp):
GTGCAAGCCAAAGAAAATAAGGACTCAACCCCGGTACAGTCCAAAGAGTCAGACCTGGAGGAGCA
ACCTCAACAAGCG
Found at i:24206387 original size:21 final size:21
Alignment explanation
Indices: 24206346--24206387 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24206336 CGCCATTGTA
**
24206346 GAGGCCACACATGCCCATGTG
1 GAGGCCACACACACCCATGTG
*
24206367 GAGGCCACACACACCCGTGTG
1 GAGGCCACACACACCCATGTG
24206388 AGTAGCCCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.36, G:0.29, T:0.12
Consensus pattern (21 bp):
GAGGCCACACACACCCATGTG
Found at i:24208460 original size:5 final size:5
Alignment explanation
Indices: 24208452--24208542 Score: 59
Period size: 5 Copynumber: 18.0 Consensus size: 5
24208442 ATTTAAAATA
* *
24208452 TATAT TATAT TATAT T-TACT TA-AT TA-AT AAGTAT GT-TTT TATAT
1 TATAT TATAT TATAT TATA-T TATAT TATAT TA-TAT -TATAT TATAT
24208496 TATAT TATTAT TA-A- TATAT TATAT TATAT TATTAT TAATAT ATATAT
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TA-TAT T-ATAT -TATAT
24208543 AAAACAAAAG
Statistics
Matches: 70, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
3 2 0.03
4 11 0.16
5 37 0.53
6 18 0.26
7 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:24208517 original size:24 final size:24
Alignment explanation
Indices: 24208490--24208543 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
24208480 AAGTATGTTT
24208490 TTATATTATATTATTATTAATATA
1 TTATATTATATTATTATTAATATA
24208514 TTATATTATATTATTATTAATATA
1 TTATATTATATTATTATTAATATA
24208538 TATATA
1 T-TATA
24208544 AAACAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATATTATATTATTATTAATATA
Found at i:24208538 original size:19 final size:18
Alignment explanation
Indices: 24208491--24208526 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
24208481 AGTATGTTTT
24208491 TATATTATATTATTATTAA
1 TATATTATATTA-TATTAA
24208510 TATATTATATTATATTA
1 TATATTATATTATATTA
24208527 TTATTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTATATTATATTAA
Found at i:24208584 original size:15 final size:16
Alignment explanation
Indices: 24208551--24208585 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
24208541 ATAAAACAAA
*
24208551 AGAAAGAATAGAAATG
1 AGAAAGAATAGAAACG
24208567 AGAAAGAA-AGAAACG
1 AGAAAGAATAGAAACG
24208582 AGAA
1 AGAA
24208586 GCAAAACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.66, C:0.03, G:0.26, T:0.06
Consensus pattern (16 bp):
AGAAAGAATAGAAACG
Found at i:24210090 original size:13 final size:13
Alignment explanation
Indices: 24210072--24210098 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24210062 AATGATCAAG
24210072 TTGATTTAAAGTA
1 TTGATTTAAAGTA
24210085 TTGATTTAAAGTA
1 TTGATTTAAAGTA
24210098 T
1 T
24210099 GAGATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGATTTAAAGTA
Found at i:24210855 original size:18 final size:17
Alignment explanation
Indices: 24210827--24210861 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24210817 ATTATTAAGA
*
24210827 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24210844 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24210862 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24211072 original size:44 final size:45
Alignment explanation
Indices: 24211023--24211117 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
24211013 TTACACCTCT
* * *
24211023 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
24211067 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
24211112 ATTACA
1 ATTACA
24211118 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:24211117 original size:16 final size:16
Alignment explanation
Indices: 24211098--24211149 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
24211088 GATTTGCTAT
* * *
24211098 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
24211114 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24211130 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24211146 TACA
1 TACA
24211150 ACGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:24216058 original size:17 final size:17
Alignment explanation
Indices: 24216036--24216069 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24216026 ATCCACTAAT
*
24216036 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
24216053 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
24216070 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:24220695 original size:17 final size:17
Alignment explanation
Indices: 24220673--24220706 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24220663 ATCCACTAAT
*
24220673 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
24220690 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
24220707 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:24232695 original size:6 final size:6
Alignment explanation
Indices: 24232686--24232726 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
24232676 AGAAGAAGAA
*
24232686 GAAGGT GAAGGT GAAGGT GAAGGT GAAGAT G-AGAGT GAAGG
1 GAAGGT GAAGGT GAAGGT GAAGGT GAAGGT GAAG-GT GAAGG
24232727 AAGTGGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 2 0.06
6 27 0.87
7 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.49, T:0.15
Consensus pattern (6 bp):
GAAGGT
Found at i:24236122 original size:27 final size:27
Alignment explanation
Indices: 24236054--24236122 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
24236044 CTATCAAGAT
* * *
24236054 AGTAAATACGGGGTAGTCCATTATGAC
1 AGTAAATATGGGGTAGTCCACTAGGAC
* *
24236081 AGTAAACT-TGAGGTAGTCCGCTAGGAC
1 AGTAAA-TATGGGGTAGTCCACTAGGAC
*
24236108 ATTAAATATGGGGTA
1 AGTAAATATGGGGTA
24236123 AAAGGGTGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (27 bp):
AGTAAATATGGGGTAGTCCACTAGGAC
Found at i:24238823 original size:41 final size:41
Alignment explanation
Indices: 24238764--24239154 Score: 453
Period size: 41 Copynumber: 9.5 Consensus size: 41
24238754 GGTTTTTGGA
* * * * *
24238764 TTAGAAAAACGCCACTAATGATCTGGTCTTTGGCGGCTTTT
1 TTAGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
** * *
24238805 TTAGAAAAATGCCGCTAATGCTCTGGTCTTTAACGGCATTT
1 TTAGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
* * * *
24238846 TTGGAAAAGCGACGCTAATGCTCTGGTATTTAGTGGCG-TT
1 TTAGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
* * * *
24238886 TTCGAAAAAGCGCCGCAAATGCTCTAGTCTTTAGCGTCGTTT
1 TTAG-AAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
* * *
24238928 TCAGAAAAGCGCCACGAATGCTCTGGTCTTTAGCGGCGTTT
1 TTAGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
* * *
24238969 TTGGCAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGTGTTT
1 TTAGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
* *
24239010 TTAGAAAAGCGCCACTAATGCTCTGGCCTTTAGCGGCGTTT
1 TTAGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
* * *
24239051 TTAAAAAAGCGCCGCTAATGATCTGGCCTTTAGCGGCGTTTT
1 TTAGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCG-TTT
* * *
24239093 TTGGAAAAGCACCGCTAATGCTCTGGTTTTTAGCGGCGTTT
1 TTAGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
*
24239134 TT-GCAAAAGCCCCGCTAATGC
1 TTAG-AAAAGCGCCGCTAATGC
24239155 AAAATACTAT
Statistics
Matches: 298, Mismatches: 48, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
40 6 0.02
41 253 0.85
42 39 0.13
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (41 bp):
TTAGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTT
Found at i:24239419 original size:14 final size:15
Alignment explanation
Indices: 24239380--24239426 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
24239370 TATTTTAAGG
* *
24239380 TTTAGGGAGTATGAA
1 TTTAGGGATTATGGA
*
24239395 TTTAAGGATTATGGA
1 TTTAGGGATTATGGA
24239410 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
24239423 TTTA
1 TTTA
24239427 AAGGTTGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:24239462 original size:15 final size:15
Alignment explanation
Indices: 24239442--24239475 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
24239432 TGGAATTTAG
24239442 GGTTTAAGGGTTAAA
1 GGTTTAAGGGTTAAA
*
24239457 GGTTTAAGGGTTAGA
1 GGTTTAAGGGTTAAA
24239472 GGTT
1 GGTT
24239476 ATAGTGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.35
Consensus pattern (15 bp):
GGTTTAAGGGTTAAA
Done.