Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 227 of 253
Found at i:74323635 original size:30 final size:31
Alignment explanation
Indices: 74323575--74323635 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
74323565 ACCAAAACAC
*
74323575 ATCACTTAATTTTTTTAAACATGAAACATAT
1 ATCACTTAATTGTTTTAAACATGAAACATAT
*
74323606 ATCACTTAGTTGTTTTAAACATG-AACATAT
1 ATCACTTAATTGTTTTAAACATGAAACATAT
74323636 GTTCACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (31 bp):
ATCACTTAATTGTTTTAAACATGAAACATAT
Found at i:74325891 original size:13 final size:13
Alignment explanation
Indices: 74325875--74325899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74325865 TTAAATTAGT
74325875 TAATTAGTTTAAA
1 TAATTAGTTTAAA
74325888 TAATTAGTTTAA
1 TAATTAGTTTAA
74325900 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:74326893 original size:9 final size:9
Alignment explanation
Indices: 74326870--74326907 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
74326860 TTCAATTCTG
*
74326870 TTTCTTTTC
1 TTTCTTTTA
*
74326879 TATCTTTTA
1 TTTCTTTTA
74326888 TTTCTTTTA
1 TTTCTTTTA
74326897 TTTCTTTTA
1 TTTCTTTTA
74326906 TT
1 TT
74326908 CAATTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:74326925 original size:7 final size:7
Alignment explanation
Indices: 74326913--74326942 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
74326903 TTATTCAATT
74326913 TATATAA
1 TATATAA
74326920 TATATAA
1 TATATAA
74326927 TATATAA
1 TATATAA
74326934 TAATATAA
1 T-ATATAA
74326942 T
1 T
74326943 TTATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:74331204 original size:17 final size:21
Alignment explanation
Indices: 74331182--74331224 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
74331172 TCCTAAAAAT
74331182 TTTCAA-CC-AAACAA-T-TA
1 TTTCAAGCCAAAACAAGTATA
74331199 TTTCAAGCCAAAACAAGTATA
1 TTTCAAGCCAAAACAAGTATA
74331220 TTTCA
1 TTTCA
74331225 TTTTCCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
19 6 0.27
20 1 0.05
21 7 0.32
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAGCCAAAACAAGTATA
Found at i:74338523 original size:78 final size:78
Alignment explanation
Indices: 74338392--74338540 Score: 246
Period size: 78 Copynumber: 1.9 Consensus size: 78
74338382 TCTTGCTCTA
* * * *
74338392 GCTACTCCAAGGATCTCATCCAAATATTCAGGGCAGTTTCTCTTCTCTTCCTCTCTTCTGATATT
1 GCTACTCCAAGGATCTCATCCAAATATTCAGGGCAATTTCTCTTCACTCCCTCTATTCTGATATT
74338457 CTGCTTTGCTCCC
66 CTGCTTTGCTCCC
74338470 GCTACTCCAAGGATCTCATCCAAATATTCAGGGCAATTT-TGCTTCACTCCCTCTATTCTGATAT
1 GCTACTCCAAGGATCTCATCCAAATATTCAGGGCAATTTCT-CTTCACTCCCTCTATTCTGATAT
74338534 TCTGCTT
65 TCTGCTT
74338541 ATATTGTTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
77 1 0.02
78 65 0.98
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (78 bp):
GCTACTCCAAGGATCTCATCCAAATATTCAGGGCAATTTCTCTTCACTCCCTCTATTCTGATATT
CTGCTTTGCTCCC
Found at i:74342209 original size:22 final size:22
Alignment explanation
Indices: 74342184--74342227 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
74342174 AACCTGCAGA
74342184 AATTCACA-GAAATGTTAACTTT
1 AATTCACATG-AATGTTAACTTT
* *
74342206 AATTTACATGCATGTTAACTTT
1 AATTCACATGAATGTTAACTTT
74342228 TATTATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (22 bp):
AATTCACATGAATGTTAACTTT
Found at i:74345220 original size:15 final size:17
Alignment explanation
Indices: 74345189--74345225 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
74345179 AGAAAAACCA
74345189 TTTTATATTTTTAATTT
1 TTTTATATTTTTAATTT
74345206 TTTTATA-TTTT-ATTT
1 TTTTATATTTTTAATTT
74345221 TTTTA
1 TTTTA
74345226 GAATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 7 0.35
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATATTTTTAATTT
Found at i:74345281 original size:21 final size:20
Alignment explanation
Indices: 74345252--74345291 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
74345242 TTAGTAGGAG
74345252 GGGAAAACTTAAGTTTTATA
1 GGGAAAACTTAAGTTTTATA
*
74345272 GGGAATAACTTGAGTTTTAT
1 GGGAA-AACTTAAGTTTTAT
74345292 CTTGTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.38
Consensus pattern (20 bp):
GGGAAAACTTAAGTTTTATA
Found at i:74345335 original size:75 final size:75
Alignment explanation
Indices: 74345213--74345369 Score: 192
Period size: 76 Copynumber: 2.1 Consensus size: 75
74345203 TTTTTTTATA
* * ** * *
74345213 TTTTAT-TTTTTTAGAATTAATTTTAATTTTTAGTAGGAGGGGAAAACTTAAG-TTTTATAGGGA
1 TTTTATCTTGTTTAGAACTAATTTTAATTTTTAGTACAAGGGGAAAACTTAAGTTTTTACAAGGA
*
74345276 ATAACTTGAG
66 AAAACTTGAG
* * *
74345286 TTTTATCTTGTTTAGAACTAATTTTAGCTTTTTAGTACAAGGGGGAAACTTGAGTTTTTACAAGG
1 TTTTATCTTGTTTAGAACTAATTTTA-ATTTTTAGTACAAGGGGAAAACTTAAGTTTTTACAAGG
74345351 AAAAACTTGAG
65 AAAAACTTGAG
*
74345362 TTTCATCT
1 TTTTATCT
74345370 CCTAGTTGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
73 6 0.09
74 17 0.24
75 22 0.31
76 25 0.36
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.43
Consensus pattern (75 bp):
TTTTATCTTGTTTAGAACTAATTTTAATTTTTAGTACAAGGGGAAAACTTAAGTTTTTACAAGGA
AAAACTTGAG
Found at i:74349292 original size:43 final size:43
Alignment explanation
Indices: 74349169--74349555 Score: 195
Period size: 44 Copynumber: 8.7 Consensus size: 43
74349159 CATCGTGGCG
* * * *
74349169 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCACA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTACA
* * *
74349212 AACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA-A
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* *
74349255 AATCTCATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATAGCG
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TA-CA
* * * * * *
74349300 AATCTCATTTCCCTAGAGTTGCAGTGAAACAAATTAAAGCTACA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* * ** * ** * * * *
74349344 AGTCACAAAT-CATATACCTCTTGTAGTAGG-GCGGATTAAATCTACCA
1 AATCTCATCTCCCTA-A--AGTTGCAGT-GGAGCAGATTGAA-GTA-CA
* * * *
74349391 TGCTGAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTACA
1 -----AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* ** * *
74349440 AATCTTATCTCTATCAAGTTGCAGTGGAGCAGATTGAAGCCACA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* * * * *
74349484 AATCTTATCTCCTTAAAGTTGCTGTGGAGCAGATTGAAGATGCG
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-TACA
* * * *
74349528 AATTTTATTTCCCTGAAGTTGCAGTGGA
1 AATCTCATCTCCCTAAAGTTGCAGTGGA
74349556 AAAGATTAAA
Statistics
Matches: 259, Mismatches: 68, Indels: 33
0.72 0.19 0.09
Matches are distributed among these distances:
43 76 0.29
44 105 0.41
45 34 0.13
46 15 0.06
47 3 0.01
49 4 0.02
50 14 0.05
52 6 0.02
53 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (43 bp):
AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTACA
Found at i:74349320 original size:45 final size:43
Alignment explanation
Indices: 74349169--74349325 Score: 172
Period size: 43 Copynumber: 3.6 Consensus size: 43
74349159 CATCGTGGCG
* * * *
74349169 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCA-CA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG-ATAA
* * * *
74349212 AACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTAA
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAA
* *
74349255 AATCTCATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATAGCG
1 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA--A
* *
74349300 AATCTCATTTCCCTAGAGTTGCAGTG
1 AATCTCATCTCCCTAAAGTTGCAGTG
74349326 AAACAAATTA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
43 73 0.75
45 24 0.25
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (43 bp):
AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAA
Found at i:74349547 original size:44 final size:44
Alignment explanation
Indices: 74349396--74349656 Score: 198
Period size: 44 Copynumber: 5.8 Consensus size: 44
74349386 TACCATGCTG
* * *
74349396 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
** * **
74349440 AATCTTATCTCTATCAAGTTGCAGTGGAGCAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
74349484 AATCTTATCTCCTTAAAGTTGCTGTGGAGCAGATTGAAGATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * ** *
74349528 AATTTTATTTCCCTGAAGTTGCAGTGGAAAAGATTAAAGCTACGAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A--AGATACA
* * * * * *
74349579 AATCTTATCACCCTGAAGTTACAGTGGAGAAGATTGTAGATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
74349623 AGTCTAATCTCCTTGAAGTTACAGTGGAGTAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
74349657 CAAAGCATTA
Statistics
Matches: 172, Mismatches: 38, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
44 135 0.78
47 1 0.01
48 1 0.01
49 1 0.01
51 34 0.20
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:74349566 original size:228 final size:227
Alignment explanation
Indices: 74349168--74349582 Score: 584
Period size: 228 Copynumber: 1.8 Consensus size: 227
74349158 TCATCGTGGC
* *
74349168 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAGCACAAACCTTATCTCCCTAAAGTTG
1 GAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTAAAGCACAAACCTTATCTCCATAAAGTTG
* ** *
74349233 CAGTGGAGCAGGTTGAAGTTAAAATCTCATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATAG
66 CAGTGGAGCAGATTGAAGCCAAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAG
74349298 CGAATCTCATTTCCCTAGAGTTGCAGTGAAACAAATTAAAGCTACAAGTCACAAATCATATACCT
131 CGAATCTCATTTCCCTAGAGTTGCAGTGAAACAAATTAAAGCTACAAGTCACAAATCATATACCT
74349363 CTTGTAGTAGGGCGGATTAAATCTACCATGCT
196 CTTGTAGTAGGGCGGATTAAATCTACCATGCT
* * * * * * *
74349395 GAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCTACAAATCTTATCTCTATCAAGTT
1 GAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTAAAGC-ACAAACCTTATCTCCATAAAGTT
* * *
74349460 GCAGTGGAGCAGATTGAAGCCACAAATCTTATCTCCTTAAAGTTGCTGTGGAGCAGATTGAAGAT
65 GCAGTGGAGCAGATTGAAGCCA-AAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGAT
* * * * *
74349525 -GCGAATTTTATTTCCCT-GAAGTTGCAGTGGAAA-AGATTAAAGCTACGAGTTACAAATC
129 AGCGAATCTCATTTCCCTAG-AGTTGCAGT-GAAACAAATTAAAGCTACAAGTCACAAATC
74349583 TTATCACCCT
Statistics
Matches: 163, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
227 37 0.23
228 84 0.52
229 42 0.26
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (227 bp):
GAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTAAAGCACAAACCTTATCTCCATAAAGTTG
CAGTGGAGCAGATTGAAGCCAAAATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAG
CGAATCTCATTTCCCTAGAGTTGCAGTGAAACAAATTAAAGCTACAAGTCACAAATCATATACCT
CTTGTAGTAGGGCGGATTAAATCTACCATGCT
Found at i:74349662 original size:95 final size:95
Alignment explanation
Indices: 74349481--74349662 Score: 220
Period size: 95 Copynumber: 1.9 Consensus size: 95
74349471 GATTGAAGCC
* * * * * * * *
74349481 ACAAATCTTATCTCCTTAAAGTTGCTGTGGAGCAGATTGAAGATGCGAATTTTATTTCCCTGAAG
1 ACAAATCTTATCACCCTAAAGTTACAGTGGAGAAGATTGAAGATGCGAATCTAATCTCCCTGAAG
* *
74349546 TTGCAGTGGAAAAGATTAAAGCTACGAGTT
66 TTACAGTGGAAAAGATCAAAGCTACGAGTT
* * * *
74349576 ACAAATCTTATCACCCTGAAGTTACAGTGGAGAAGATTGTAGATGCGAGTCTAATCTCCTTGAAG
1 ACAAATCTTATCACCCTAAAGTTACAGTGGAGAAGATTGAAGATGCGAATCTAATCTCCCTGAAG
**
74349641 TTACAGTGGAGTAGATCAAAGC
66 TTACAGTGGAAAAGATCAAAGC
74349663 ATTAATTCCT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
95 71 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (95 bp):
ACAAATCTTATCACCCTAAAGTTACAGTGGAGAAGATTGAAGATGCGAATCTAATCTCCCTGAAG
TTACAGTGGAAAAGATCAAAGCTACGAGTT
Found at i:74351430 original size:20 final size:20
Alignment explanation
Indices: 74351386--74351424 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
74351376 TTTATAAACT
74351386 ATTTATTTATTCATTCATTC
1 ATTTATTTATTCATTCATTC
74351406 ATTTATTTA-TCACTTCATT
1 ATTTATTTATTCA-TTCATT
74351425 TTTTTACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTATTTATTCATTCATTC
Found at i:74351672 original size:22 final size:22
Alignment explanation
Indices: 74351647--74351688 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
74351637 TTGTAATTAC
74351647 ATCAT-TATTATTATGATATTTT
1 ATCATCTATT-TTATGATATTTT
*
74351669 ATCATCTATTTTATGTTATT
1 ATCATCTATTTTATGATATT
74351689 ATTAAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (22 bp):
ATCATCTATTTTATGATATTTT
Found at i:74363503 original size:44 final size:45
Alignment explanation
Indices: 74363440--74363614 Score: 167
Period size: 44 Copynumber: 3.8 Consensus size: 45
74363430 TACCATGCAG
*
74363440 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCT-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCTACA
* * * * *
74363484 AATCTTATCTCCCTCAAGTTGTAGTGGAGCAGATTGAAG-ATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCTACA
** *
74363528 AATCTTAT-TCCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACGAGTTACA
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C----TACA
* *
74363579 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAAATTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG
74363615 TAGATGCGAG
Statistics
Matches: 103, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
43 2 0.02
44 69 0.67
51 32 0.31
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCTACA
Found at i:74363751 original size:16 final size:18
Alignment explanation
Indices: 74363716--74363752 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
74363706 CTGCTTAAAA
*
74363716 AAGAGAAGCTACTTAAAG
1 AAGAGAAGCTACTCAAAG
74363734 AAGAGAAGC-AC-CAAAG
1 AAGAGAAGCTACTCAAAG
74363750 AAG
1 AAG
74363753 TCAAGATTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.54, C:0.14, G:0.24, T:0.08
Consensus pattern (18 bp):
AAGAGAAGCTACTCAAAG
Found at i:74364675 original size:19 final size:18
Alignment explanation
Indices: 74364651--74364686 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
74364641 ATACAATTAA
*
74364651 AATAAAATAAAATAAAAAT
1 AATAAAACAAAA-AAAAAT
74364670 AATAAAACAAAAAAAAA
1 AATAAAACAAAAAAAAA
74364687 GGGGGATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (18 bp):
AATAAAACAAAAAAAAAT
Found at i:74366873 original size:24 final size:24
Alignment explanation
Indices: 74366846--74366902 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
74366836 GATTTTGTGG
74366846 TGAAAA-AATATTGTATAAAAATAA
1 TGAAAATAAT-TTGTATAAAAATAA
* *
74366870 TGAAAATACTTTTTATAAAAATAA
1 TGAAAATAATTTGTATAAAAATAA
74366894 T-ATAAATAA
1 TGA-AAATAA
74366903 ATAAGAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (24 bp):
TGAAAATAATTTGTATAAAAATAA
Found at i:74367347 original size:31 final size:29
Alignment explanation
Indices: 74367309--74367366 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 29
74367299 TAAATTTTAT
*
74367309 ATTAATATTAATATTAAATAAAAATAACTAA
1 ATTAATATTAA-A-TAAATAAAAAAAACTAA
74367340 ATTAATATTAAATAAATAAAAAAAACT
1 ATTAATATTAAATAAATAAAAAAAACT
74367367 TCCCCATCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 14 0.54
30 1 0.04
31 11 0.42
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (29 bp):
ATTAATATTAAATAAATAAAAAAAACTAA
Found at i:74369517 original size:9 final size:9
Alignment explanation
Indices: 74369505--74369544 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
74369495 ATTTAAAAAA
*
74369505 TTAATTATT
1 TTAATTAAT
74369514 TTAATTAAT
1 TTAATTAAT
74369523 TTAATTTAAT
1 TTAA-TTAAT
74369533 TTAATTTAAT
1 TTAA-TTAAT
74369543 TT
1 TT
74369545 GGAGAAGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 12 0.41
10 17 0.59
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTAATTAAT
Found at i:74369528 original size:5 final size:5
Alignment explanation
Indices: 74369513--74369544 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
74369503 AATTAATTAT
74369513 TTTAA -TTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
74369545 GGAGAAGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:74369536 original size:15 final size:14
Alignment explanation
Indices: 74369503--74369544 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
74369493 TAATTTAAAA
*
74369503 AATTAA-TTATTTT
1 AATTAATTTAATTT
74369516 AATTAATTTAATTT
1 AATTAATTTAATTT
74369530 AATTTAATTTAATTT
1 AA-TTAATTTAATTT
74369545 GGAGAAGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 6 0.23
14 8 0.31
15 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTAATTTAATTT
Found at i:74369690 original size:3 final size:3
Alignment explanation
Indices: 74369682--74369709 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
74369672 AAATGTAGGG
74369682 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
74369710 ACACATAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:74370808 original size:12 final size:12
Alignment explanation
Indices: 74370791--74370820 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
74370781 TGTATTGCTA
74370791 ACCATTTATATC
1 ACCATTTATATC
74370803 ACCATTTATATC
1 ACCATTTATATC
*
74370815 GCCATT
1 ACCATT
74370821 CTTTTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (12 bp):
ACCATTTATATC
Found at i:74377583 original size:19 final size:20
Alignment explanation
Indices: 74377559--74377597 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
74377549 GTTAAAGCAT
74377559 GATTAAAATA-ATTAATTAA
1 GATTAAAATATATTAATTAA
74377578 GATTAAAATATATTAATTAA
1 GATTAAAATATATTAATTAA
74377598 CCTATATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
GATTAAAATATATTAATTAA
Found at i:74378028 original size:21 final size:21
Alignment explanation
Indices: 74377986--74378030 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
74377976 AATAGTAGCA
* *
74377986 AAACAACATCAAAATGGCAAT
1 AAACAACAGCAAAATAGCAAT
* *
74378007 AAACAACAGCAAGATAGTAAT
1 AAACAACAGCAAAATAGCAAT
74378028 AAA
1 AAA
74378031 TGGTGGTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (21 bp):
AAACAACAGCAAAATAGCAAT
Found at i:74380726 original size:17 final size:17
Alignment explanation
Indices: 74380701--74380734 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
74380691 TTACACATAG
*
74380701 TTTTTTAAATTATAAAA
1 TTTTATAAATTATAAAA
*
74380718 TTTTATAAATTTTAAAA
1 TTTTATAAATTATAAAA
74380735 ATATAAAATA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTATAAATTATAAAA
Found at i:74380739 original size:25 final size:25
Alignment explanation
Indices: 74380702--74380777 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
74380692 TACACATAGT
* * *
74380702 TTTTTAAATTATAAAATTTTATAAA
1 TTTTAAAAATATAAAATATTATAAA
*
74380727 TTTTAAAAATATAAAATATTAAAAA
1 TTTTAAAAATATAAAATATTATAAA
*
74380752 TTGTAAAATATTATAAAA-ATTATAAA
1 TTTTAAAA-A-TATAAAATATTATAAA
74380778 AAAATGGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
25 28 0.65
26 8 0.19
27 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (25 bp):
TTTTAAAAATATAAAATATTATAAA
Found at i:74380751 original size:17 final size:18
Alignment explanation
Indices: 74380709--74380778 Score: 65
Period size: 17 Copynumber: 3.9 Consensus size: 18
74380699 AGTTTTTTAA
* *
74380709 ATTATAAAATTTTATAAAT
1 ATTATAAAAATATA-AAAT
74380728 -TT-TAAAAATATAAAAT
1 ATTATAAAAATATAAAAT
* *
74380744 ATTA-AAAATTGTAAAAT
1 ATTATAAAAATATAAAAT
74380761 ATTATAAAAATTATAAAA
1 ATTATAAAAA-TATAAAA
74380779 AAATGGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
16 4 0.10
17 25 0.61
18 6 0.15
19 6 0.15
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (18 bp):
ATTATAAAAATATAAAAT
Found at i:74380779 original size:9 final size:9
Alignment explanation
Indices: 74380707--74380779 Score: 64
Period size: 9 Copynumber: 8.3 Consensus size: 9
74380697 ATAGTTTTTT
74380707 AAATTAT-A
1 AAATTATAA
* *
74380715 AAATTTTAT
1 AAATTATAA
*
74380724 AAATTTTAA
1 AAATTATAA
74380733 AAA-TAT-A
1 AAATTATAA
74380740 AAA-TATTAA
1 AAATTA-TAA
*
74380749 AAATTGTAA
1 AAATTATAA
74380758 AATATTATAA
1 AA-ATTATAA
74380768 AAATTATAA
1 AAATTATAA
74380777 AAA
1 AAA
74380780 AATGGAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
7 6 0.11
8 9 0.17
9 30 0.56
10 9 0.17
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
AAATTATAA
Found at i:74381392 original size:10 final size:10
Alignment explanation
Indices: 74381379--74381454 Score: 50
Period size: 10 Copynumber: 7.6 Consensus size: 10
74381369 AAACTAGTAA
74381379 AAAAATATTT
1 AAAAATATTT
74381389 AAAAA-ATTT
1 AAAAATATTT
* * *
74381398 TAAAATCTAAT
1 AAAAATAT-TT
*
74381409 AAAAATATAT
1 AAAAATATTT
*
74381419 AAAAACAATTT
1 AAAAA-TATTT
*
74381430 -AAAATATTG
1 AAAAATATTT
74381439 AAAAAT-TTGT
1 AAAAATATT-T
74381449 AAAAAT
1 AAAAAT
74381455 TCTTAAACGT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
9 13 0.25
10 28 0.55
11 10 0.20
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATATTT
Found at i:74381394 original size:41 final size:41
Alignment explanation
Indices: 74381348--74381433 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 41
74381338 AAAAAACTTG
*
74381348 AAAAAATTATTCAAAAT-T-ATAAAACTAGTA-AAAAA-ATATTT
1 AAAAAATT-TT-AAAATCTAATAAAAATA-TATAAAAACA-ATTT
74381389 AAAAAATTTTAAAATCTAATAAAAATATATAAAAACAATTT
1 AAAAAATTTTAAAATCTAATAAAAATATATAAAAACAATTT
74381430 AAAA
1 AAAA
74381434 TATTGAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
39 5 0.12
40 5 0.12
41 29 0.73
42 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (41 bp):
AAAAAATTTTAAAATCTAATAAAAATATATAAAAACAATTT
Found at i:74381444 original size:30 final size:29
Alignment explanation
Indices: 74381360--74381433 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
74381350 AAAATTATTC
* *
74381360 AAAATTATAAAACTAGTAAAAAAATATTTAAA
1 AAAATT-TAAAACTA--ATAAAAATATATAAA
*
74381392 AAATTTTAAAATCTAATAAAAATATATAAA
1 AAAATTTAAAA-CTAATAAAAATATATAAA
74381422 AACAATTTAAAA
1 AA-AATTTAAAA
74381434 TATTGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 15 0.42
31 13 0.36
32 8 0.22
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (29 bp):
AAAATTTAAAACTAATAAAAATATATAAA
Found at i:74381875 original size:28 final size:29
Alignment explanation
Indices: 74381817--74381875 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 29
74381807 CTAAGATCAA
* *
74381817 TTTTAAACATTATTATAATTTTTACAGTT
1 TTTTAAACATTATTATAATTTTCACAATT
* * *
74381846 TTTTAAA-ATTTTTATGATTTTCAGAATT
1 TTTTAAACATTATTATAATTTTCACAATT
74381874 TT
1 TT
74381876 AACTCTCTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTTAAACATTATTATAATTTTCACAATT
Found at i:74395534 original size:97 final size:97
Alignment explanation
Indices: 74395368--74395563 Score: 365
Period size: 97 Copynumber: 2.0 Consensus size: 97
74395358 TTTCTATTCA
*
74395368 ATCAGCTTCCAATGATCATGTATGACTAGTATTCGGAGGATTGGAGAACGTTTAATGAATTTAAA
1 ATCAGCTTCCAACGATCATGTATGACTAGTATTCGGAGGATTGGAGAACGTTTAATGAATTTAAA
74395433 ACAGTTCTCCCTCCTAAGAGAGTGTCATATGT
66 ACAGTTCTCCCTCCTAAGAGAGTGTCATATGT
*
74395465 ATCAGCTTCCAACGATCATGTATGACTAGTATTCGTAGGATTGGAGAACGTTTAATGAATTTAAA
1 ATCAGCTTCCAACGATCATGTATGACTAGTATTCGGAGGATTGGAGAACGTTTAATGAATTTAAA
*
74395530 ACAGTTCTTCCTCCTAAGAGAGTGTCATATGT
66 ACAGTTCTCCCTCCTAAGAGAGTGTCATATGT
74395562 AT
1 AT
74395564 GTATATATAG
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (97 bp):
ATCAGCTTCCAACGATCATGTATGACTAGTATTCGGAGGATTGGAGAACGTTTAATGAATTTAAA
ACAGTTCTCCCTCCTAAGAGAGTGTCATATGT
Found at i:74397409 original size:67 final size:66
Alignment explanation
Indices: 74397321--74397459 Score: 251
Period size: 67 Copynumber: 2.1 Consensus size: 66
74397311 TTTCAGTCAT
*
74397321 TACTGTACCCAAGTAACTACTTACTCGTTAAGTTAGTTTTTCCTTTTATTTTTTTTATAATTAAT
1 TACT-TACCCAAGTAACTACTTACTCGTTAAGTTAGTTTTTCCTTTTA-GTTTTTTATAATTAAT
74397386 AAA
64 AAA
74397389 TACTTACCCAAGTAACTACTTACTCGTTAAGTTAGTTTTTCCTTTTAGTTTTTTATAATTAATAA
1 TACTTACCCAAGTAACTACTTACTCGTTAAGTTAGTTTTTCCTTTTAGTTTTTTATAATTAATAA
74397454 A
66 A
74397455 TACTT
1 TACTT
74397460 TTATTCCTTG
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
66 23 0.33
67 43 0.61
68 4 0.06
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.48
Consensus pattern (66 bp):
TACTTACCCAAGTAACTACTTACTCGTTAAGTTAGTTTTTCCTTTTAGTTTTTTATAATTAATAA
A
Found at i:74398841 original size:7 final size:7
Alignment explanation
Indices: 74398831--74398858 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
74398821 GTTCCAATTT
74398831 CCAGATA
1 CCAGATA
74398838 CCAGATA
1 CCAGATA
74398845 CCAGATA
1 CCAGATA
74398852 CCAGATA
1 CCAGATA
74398859 ATGGAGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (7 bp):
CCAGATA
Found at i:74400384 original size:3 final size:3
Alignment explanation
Indices: 74400378--74400417 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
74400368 CCTTCTTCTT
74400378 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
74400418 AAGTTTTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:74401749 original size:22 final size:21
Alignment explanation
Indices: 74401706--74401762 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
74401696 TACGCTAAGG
* * *
74401706 AACAAATAAAAATAAAAATAA
1 AACAAATTAATATACAAATAA
74401727 AA-ATAATTATATATACAAATAA
1 AACA-AATTA-ATATACAAATAA
74401749 AACAAATTAATATA
1 AACAAATTAATATA
74401763 AGTAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.37
22 17 0.57
23 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AACAAATTAATATACAAATAA
Found at i:74402631 original size:30 final size:30
Alignment explanation
Indices: 74402597--74402659 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
74402587 ATTTAACAAG
74402597 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
74402627 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
74402657 CAA
1 CAA
74402660 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:74403080 original size:143 final size:142
Alignment explanation
Indices: 74402805--74403105 Score: 566
Period size: 143 Copynumber: 2.1 Consensus size: 142
74402795 CTTTAGTGAA
74402805 TTCGGGCCGGGCCGGGTCGGACCCGGGCTAAAAATACCTTACCTGAGGCTCGGCCCATTTTTTAA
1 TTCGGGCCGGGCCGGGTCGGACCCGGGCTAAAAATACCTTACCTGAGGCTCGGCCCATTTTTTAA
*
74402870 CGGGCCTTATTTTTTTGTCCAAGCCCATTTTTCGAGCCTATATTTTTTCCCAAACCCTCTCACAT
66 CGGGCCTTATTTTTTTGTCCAAGCCCATTTTTCGAGCCTATATTTTTGCCCAAACCCTCTCACAT
74402935 TTCGGGCGGGCC
131 TTCGGGCGGGCC
74402947 TTCGGGCCGGGCCGGGTCGGACCCGGGCTAAAAATACCTTACCTGAGGCTCGGCCCATTTTTTTA
1 TTCGGGCCGGGCCGGGTCGGACCCGGGCTAAAAATACCTTACCTGAGGCTCGGCCCA-TTTTTTA
*
74403012 ACGGGCCTTATTTTTTTGTCCAAGCCCATTTTTTGAGCCTATATTTTTGCCCAAACCCTCTCACA
65 ACGGGCCTTATTTTTTTGTCCAAGCCCATTTTTCGAGCCTATATTTTTGCCCAAACCCTCTCACA
74403077 TTTCGGGCGGGCC
130 TTTCGGGCGGGCC
*
74403090 TTCGGGCCGGGTCGGG
1 TTCGGGCCGGGCCGGG
74403106 GAGCCCGGCC
Statistics
Matches: 155, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
142 57 0.37
143 98 0.63
ACGTcount: A:0.16, C:0.30, G:0.25, T:0.30
Consensus pattern (142 bp):
TTCGGGCCGGGCCGGGTCGGACCCGGGCTAAAAATACCTTACCTGAGGCTCGGCCCATTTTTTAA
CGGGCCTTATTTTTTTGTCCAAGCCCATTTTTCGAGCCTATATTTTTGCCCAAACCCTCTCACAT
TTCGGGCGGGCC
Found at i:74420260 original size:6 final size:6
Alignment explanation
Indices: 74420249--74420328 Score: 119
Period size: 6 Copynumber: 13.2 Consensus size: 6
74420239 CTTCGAAAAT
74420249 AAATAA AAATAA AAATAA AAATAAAA AAATAA AAA-AA TAAATAA AAATAA
1 AAATAA AAATAA AAATAA AAAT--AA AAATAA AAATAA -AAATAA AAATAA
74420299 AAATAA AAATAA AAATAA AAAT-A AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
74420329 TAAATGGACT
Statistics
Matches: 69, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
5 7 0.10
6 54 0.78
7 2 0.03
8 6 0.09
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:74420286 original size:38 final size:39
Alignment explanation
Indices: 74420244--74420332 Score: 155
Period size: 38 Copynumber: 2.3 Consensus size: 39
74420234 TAAGCCTTCG
74420244 AAAATAAATAAAAATAAAAATAAAAATAAAAA-AATAAA-
1 AAAATAAATAAAAATAAAAATAAAAATAAAAATAA-AAAT
74420282 AAAATAAATAAAAATAAAAATAAAAATAAAAATAAAAAT
1 AAAATAAATAAAAATAAAAATAAAAATAAAAATAAAAAT
74420321 AAAATAAATAAA
1 AAAATAAATAAA
74420333 TGGACTCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
38 35 0.71
39 14 0.29
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (39 bp):
AAAATAAATAAAAATAAAAATAAAAATAAAAATAAAAAT
Found at i:74427220 original size:33 final size:33
Alignment explanation
Indices: 74427173--74427238 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
74427163 GTCCCTCAAC
* *
74427173 TTAGACTCGTCGAAGTTGAATTGTTTTACCAAA
1 TTAGACTCGTCGAAGTTCAATCGTTTTACCAAA
*
74427206 TTAGGCTCGTCGAAGTTCAATCGTTTTACCAAA
1 TTAGACTCGTCGAAGTTCAATCGTTTTACCAAA
74427239 AGGTCTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (33 bp):
TTAGACTCGTCGAAGTTCAATCGTTTTACCAAA
Found at i:74429981 original size:24 final size:25
Alignment explanation
Indices: 74429943--74429991 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
74429933 AGAGTTTAAA
74429943 AAATTATTTTAATTCTATTAACGGT
1 AAATTATTTTAATTCTATTAACGGT
74429968 AAATT-TTTTAATTCTATTAACGGT
1 AAATTATTTTAATTCTATTAACGGT
74429992 TGAGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (25 bp):
AAATTATTTTAATTCTATTAACGGT
Found at i:74438090 original size:6 final size:6
Alignment explanation
Indices: 74438066--74438119 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
74438056 CTTTAGAAAT
* *
74438066 AAAT-A AAAGAA AGATAA AAATAA AAATAA AAATAA AAATAA AAA-ATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATA-A
74438113 AAATAA A
1 AAATAA A
74438120 TAAATGGACT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
5 4 0.10
6 37 0.88
7 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:74439730 original size:18 final size:19
Alignment explanation
Indices: 74439704--74439751 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
74439694 AATAATAATT
* *
74439704 AAAAGTAAAAAGAGTA-AA
1 AAAAATAAAAAGAGAATAA
*
74439722 AAAAATAAAAATAGAATAA
1 AAAAATAAAAAGAGAATAA
74439741 AAAAATGAAAA
1 AAAAAT-AAAA
74439752 CAAAACTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 13 0.52
19 8 0.32
20 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAAATAAAAAGAGAATAA
Found at i:74442350 original size:25 final size:25
Alignment explanation
Indices: 74442321--74442371 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
74442311 TATTGAACTT
74442321 GTTCCTCCTCGGTGCCGGGGTTGAA
1 GTTCCTCCTCGGTGCCGGGGTTGAA
74442346 GTTCCTCCTCGGTGCCGGGGTTGAA
1 GTTCCTCCTCGGTGCCGGGGTTGAA
74442371 G
1 G
74442372 GGTGGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.08, C:0.27, G:0.37, T:0.27
Consensus pattern (25 bp):
GTTCCTCCTCGGTGCCGGGGTTGAA
Found at i:74443445 original size:20 final size:18
Alignment explanation
Indices: 74443417--74443455 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
74443407 ACCTGCCAGA
*
74443417 AGTAAATAAAAGAAAATTT
1 AGTAAAT-AAACAAAATTT
74443436 AGTAATATAAACAAAATTT
1 AGTAA-ATAAACAAAATTT
74443455 A
1 A
74443456 AATTGCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.28
Consensus pattern (18 bp):
AGTAAATAAACAAAATTT
Found at i:74452103 original size:3 final size:3
Alignment explanation
Indices: 74452090--74452181 Score: 68
Period size: 3 Copynumber: 32.0 Consensus size: 3
74452080 TTCTATTTTC
* * * * *
74452090 TCT TAT TCT TCT TCT CCT CCT T-T TCT TTT TCT TCT TCT TCT TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
74452137 TCT TC- TCT GT-T TCT TC- TCT TAT TCT TCT TTT TC- ACT TCT TCT
1 TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
74452179 TCT
1 TCT
74452182 ATTGCCCAGG
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
2 8 0.12
3 60 0.87
4 1 0.01
ACGTcount: A:0.03, C:0.29, G:0.01, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:74452121 original size:23 final size:25
Alignment explanation
Indices: 74452085--74452140 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
74452075 TCTCCTTCTA
74452085 TTTTCTCTTATTCTTCTTCTCCTCC
1 TTTTCTCTTATTCTTCTTCTCCTCC
* *
74452110 TTTTCT-TT-TTCTTCTTCTTCTTC
1 TTTTCTCTTATTCTTCTTCTCCTCC
74452133 TTTT-TCTT
1 TTTTCTCTT
74452141 CTCTGTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 19 0.68
24 2 0.07
25 6 0.21
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTCTCTTATTCTTCTTCTCCTCC
Found at i:74452752 original size:20 final size:21
Alignment explanation
Indices: 74452714--74452754 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
74452704 ATTTTTAGAA
* *
74452714 TTTTTTAAAATTTTTAAATTT
1 TTTTTTAAAATTATAAAATTT
74452735 TTTTTTAAAA-TATAAAATTT
1 TTTTTTAAAATTATAAAATTT
74452755 GAAATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTAAAATTATAAAATTT
Found at i:74452801 original size:19 final size:18
Alignment explanation
Indices: 74452752--74452802 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
74452742 AAATATAAAA
*
74452752 TTTGAAATTTTATAAATAT
1 TTTG-AATTTTTTAAATAT
*
74452771 TTTGAATGTTTTAAA-AT
1 TTTGAATTTTTTAAATAT
74452788 TATTGTAATTTTTTA
1 T-TTG-AATTTTTTA
74452803 TTGTAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.11
18 12 0.44
19 12 0.44
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (18 bp):
TTTGAATTTTTTAAATAT
Found at i:74452818 original size:12 final size:13
Alignment explanation
Indices: 74452787--74452813 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74452777 TGTTTTAAAA
74452787 TTATTGTAATTTT
1 TTATTGTAATTTT
74452800 TTATTGTAATTTT
1 TTATTGTAATTTT
74452813 T
1 T
74452814 GTTGTGAGAG
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:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTATTGTAATTTT
Found at i:74463951 original size:131 final size:130
Alignment explanation
Indices: 74463781--74464036 Score: 386
Period size: 131 Copynumber: 2.0 Consensus size: 130
74463771 AATTTAGAGA
* *
74463781 ACATGAGTGAAATTCTAAAGGAACATTCGATTATTTTGAACAAACAGGAAAACACAACCTAGCAC
1 ACATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAAACACAACCCAGCAC
* * * *
74463846 GATAGGGCACGATTCCTTGAATTTCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
66 GATAGGGCACGATT-CTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAA
74463911 G
130 G
* * * * * *
74463912 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAGCGGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAAACACAACCCAGCAC
*
74463977 GATAGGGCACGATTCTCGAATTGCCAAACATCGAGTATTGCCTTCGTTTTAAAGAATTTT
66 GATAGGGCACGATTCTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTT
74464037 CAAATGAATA
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
130 41 0.37
131 71 0.63
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (130 bp):
ACATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAAACACAACCCAGCAC
GATAGGGCACGATTCTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAAG
Found at i:74464674 original size:18 final size:17
Alignment explanation
Indices: 74464653--74464687 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74464643 TATGTGTAAA
74464653 GTATAAAAAAATAATAAT
1 GTATAAAAAAAT-ATAAT
*
74464671 GTATAATAAAATATAAT
1 GTATAAAAAAATATAAT
74464688 CTTTAAAACA
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:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
GTATAAAAAAATATAAT
Found at i:74467935 original size:18 final size:17
Alignment explanation
Indices: 74467902--74467940 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
74467892 TTGTATAAAT
74467902 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
74467920 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
74467937 TGTG
1 TGTG
74467941 GAAGGAAAGT
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:74468072 original size:8 final size:8
Alignment explanation
Indices: 74468059--74468087 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
74468049 CACTAGAGAC
74468059 CAGTGTTA
1 CAGTGTTA
74468067 CAGTGTTA
1 CAGTGTTA
74468075 CAGTGTTA
1 CAGTGTTA
74468083 CAGTG
1 CAGTG
74468088 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:74468201 original size:23 final size:23
Alignment explanation
Indices: 74468174--74468271 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
74468164 AGTGTTATTG
74468174 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
74468197 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
74468220 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
74468242 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
74468265 ATCAGTG
1 ATCAGTG
74468272 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:74468240 original size:45 final size:45
Alignment explanation
Indices: 74468176--74468264 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
74468166 TGTTATTGAT
* *
74468176 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
74468221 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
74468265 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:74474471 original size:18 final size:17
Alignment explanation
Indices: 74474438--74474476 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
74474428 TTGTATAAAT
74474438 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
74474456 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
74474473 TGTG
1 TGTG
74474477 GAAGGAAAGT
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:74474608 original size:8 final size:8
Alignment explanation
Indices: 74474595--74474623 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
74474585 CACTAGAGAC
74474595 CAGTGTTA
1 CAGTGTTA
74474603 CAGTGTTA
1 CAGTGTTA
74474611 CAGTGTTA
1 CAGTGTTA
74474619 CAGTG
1 CAGTG
74474624 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:74474737 original size:23 final size:23
Alignment explanation
Indices: 74474711--74474829 Score: 179
Period size: 23 Copynumber: 5.3 Consensus size: 23
74474701 GTGTTATTGA
74474711 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
74474734 TCAGTGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
*
74474756 CCAGTGGTAGCTTCGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
74474778 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
74474801 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
74474824 TCAGTG
1 TCAGTG
74474830 TGGCACTTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
22 42 0.47
23 48 0.53
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:74474763 original size:22 final size:22
Alignment explanation
Indices: 74474712--74474822 Score: 177
Period size: 22 Copynumber: 5.0 Consensus size: 22
74474702 TGTTATTGAT
*
74474712 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACA-TC
*
74474735 CAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
74474757 CAGTGGTAGCTTCGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
*
74474779 CAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACAT-C
74474802 CAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACAT
74474823 ATCAGTGTGG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
22 43 0.52
23 40 0.48
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (22 bp):
CAGTGGTAGCTTCGGCTACATC
Found at i:74474776 original size:45 final size:46
Alignment explanation
Indices: 74474712--74474829 Score: 186
Period size: 45 Copynumber: 2.6 Consensus size: 46
74474702 TGTTATTGAT
*
74474712 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACAT-C
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAC
* *
74474757 CAGTGGTAGCTTCGGCTACA-TCCAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAC
*
74474802 CAGTGGTAGCTTCGGCTACATATCAGTG
1 CAGTGGTAGCTTCGGCTACATTTCAGTG
74474830 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 21 0.32
45 40 0.61
46 5 0.08
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAC
Found at i:74476408 original size:132 final size:133
Alignment explanation
Indices: 74476003--74476605 Score: 976
Period size: 133 Copynumber: 4.5 Consensus size: 133
74475993 TGTTACACTG
* * *
74476003 CTTCACTGTAACTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAGGGA
1 CTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTCAGGGA
* *
74476068 G-CAATATCTGTAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
66 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
74476132 CTA
131 CTA
* ** * * *
74476135 CTTCATTGCAACTTCAGGAAGACAAGATTCGCTATTTTCGATCTGCTCCAGTACAACTTCAAGGA
1 CTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTCAGGGA
74476200 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
66 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
*
74476265 CTG
131 CTA
* * *
74476268 CTTCACTGCAGCTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAGGGA
1 CTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTCAGGGA
74476333 G-CAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
66 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
74476397 CTA
131 CTA
* * * *
74476400 CTTTACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTGTTCCACTGCAACTTCAGGGA
1 CTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTCAGGGA
* *
74476465 GACGAGATCTGTAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
66 GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
74476530 CTA
131 CTA
* *
74476533 CTTCACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGGA
1 CTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTCAGGGA
*
74476598 GACGAGAT
66 GACAAGAT
74476606 TTGTGAATTC
Statistics
Matches: 436, Mismatches: 33, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
132 181 0.42
133 255 0.58
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (133 bp):
CTTCACTGCAACTTCAGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACAACTTCAGGGA
GACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAAT
CTA
Found at i:74476475 original size:265 final size:265
Alignment explanation
Indices: 74476000--74476598 Score: 1009
Period size: 265 Copynumber: 2.3 Consensus size: 265
74475990 GGGTGTTACA
*
74476000 CTGCTTCACTGTAACTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAG
1 CTGCTTCACTGCAACTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAG
* *
74476065 GGAGCAATATCTGTAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAA
66 GGAGCAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAA
* * * * *
74476130 ATCTACTTCATTGCAACTTCAGGAAGACAAGATTCGCTATTTTCGATCTGCTCCAGTACAACTTC
131 ATCTACTTCACTGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCACTACAACTTC
74476195 AAGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCT
196 AAGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCT
74476260 TAAAT
261 TAAAT
*
74476265 CTGCTTCACTGCAGCTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAG
1 CTGCTTCACTGCAACTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAG
74476330 GGAGCAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAA
66 GGAGCAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAA
* * * *
74476395 ATCTACTTTACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTGTTCCACTGCAACTTC
131 ATCTACTTCACTGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCACTACAACTTC
* * *
74476460 AGGGAGACGAGATCTGTAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCT
196 AAGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCT
74476525 TAAAT
261 TAAAT
* * ** *
74476530 CTACTTCACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAG
1 CTGCTTCACTGCAACTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAG
74476595 GGAG
66 GGAG
74476599 ACGAGATTTG
Statistics
Matches: 312, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
265 312 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (265 bp):
CTGCTTCACTGCAACTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACAACTTCAG
GGAGCAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAA
ATCTACTTCACTGCAACTTCAGGAAGACAAGATTCACCATCTTCGATCTGCTCCACTACAACTTC
AAGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCT
TAAAT
Found at i:74476586 original size:45 final size:45
Alignment explanation
Indices: 74476271--74476606 Score: 163
Period size: 45 Copynumber: 7.6 Consensus size: 45
74476261 AAATCTGCTT
* * * ** *
74476271 CACTGCAGCTTTAGGAAGACAAGATTCGTCGTCTTCGATCTGCTC
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCGATCTACTC
* * *
74476316 CACTACAACTTCAGGGAG-CAAGATCTGCA--ATCTTC-AGCCTACTC
1 CACTGCAACTTCAGGGAGACAAGAT-T-CACCGTCTTCGA-TCTACTC
* * * * *** * ** *
74476360 CACTACAACTTTAGGGAGATAGGA-T-GGTGGCTTAAATCTACTT
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCGATCTACTC
* * **
74476403 TACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTGTTC
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCGATCTACTC
* * * *
74476448 CACTGCAACTTCAGGGAGACGAGATCTGTA--ATCTTC-AGCCTACTC
1 CACTGCAACTTCAGGGAGACAAGAT-T-CACCGTCTTCGA-TCTACTC
* * * * *** * ** *
74476493 CACTACAACTTTAGGGAGATAGGA-T-GGTGGCTTAAATCTACTT
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCGATCTACTC
* *
74476536 CACTGCAACTTCAGGAAGACAAGATTCACCGTCTTCGATCTGCTC
1 CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCGATCTACTC
*
74476581 CACTGCAACTTCAGGGAGACGAGATT
1 CACTGCAACTTCAGGGAGACAAGATT
74476607 TGTGAATTCA
Statistics
Matches: 208, Mismatches: 66, Indels: 34
0.68 0.21 0.11
Matches are distributed among these distances:
43 56 0.27
44 38 0.18
45 111 0.53
46 2 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (45 bp):
CACTGCAACTTCAGGGAGACAAGATTCACCGTCTTCGATCTACTC
Found at i:74488346 original size:131 final size:130
Alignment explanation
Indices: 74488175--74488434 Score: 394
Period size: 131 Copynumber: 2.0 Consensus size: 130
74488165 AATTTAGAGA
* * *
74488175 ACATGAGTGAAATTCTAAAGGAACATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGAAACATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAACAC
* *
74488240 GATAGGGCACGATTCCTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTGAAGAGTTTTTAAA
66 GATAGGGCACGATT-CTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAA
74488305 G
130 G
* * * * * *
74488306 ACATGAGTGAAATTCCAAATAAATATTCGATTGTTTTGAACAAGCGGGAAATCGTAACCCAACAC
1 ACATGAGTGAAATTCCAAAGAAACATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAACAC
* *
74488371 GATAGGGCACGATTCTCGAATTGCCAAACATCGAGTATTGCCTTTGTTTTAAAGAATTTTTAAA
66 GATAGGGCACGATTCTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAA
74488435 TGAATAATTA
Statistics
Matches: 116, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
130 46 0.40
131 70 0.60
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (130 bp):
ACATGAGTGAAATTCCAAAGAAACATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAACAC
GATAGGGCACGATTCTCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAGAATTTTTAAAG
Found at i:74489073 original size:18 final size:17
Alignment explanation
Indices: 74489052--74489086 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74489042 TATGTGTAAA
74489052 GTATAAAAAAATAATAAT
1 GTATAAAAAAAT-ATAAT
*
74489070 GTATAATAAAATATAAT
1 GTATAAAAAAATATAAT
74489087 CTTTAAAACA
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:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
GTATAAAAAAATATAAT
Found at i:74491307 original size:20 final size:20
Alignment explanation
Indices: 74491278--74491320 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
74491268 ATTAGAATGT
*
74491278 AAAAATT-AAATTAAAATAA
1 AAAAATTAAAATAAAAATAA
74491297 AAAATATTAAAATAAAAATAA
1 AAAA-ATTAAAATAAAAATAA
74491318 AAA
1 AAA
74491321 TGACTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 3 0.14
21 14 0.67
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAATTAAAATAAAAATAA
Found at i:74491328 original size:21 final size:21
Alignment explanation
Indices: 74491285--74491328 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
74491275 TGTAAAAATT
* *
74491285 AAATTAAAATAAAAAATATTA
1 AAATAAAAATAAAAAATACTA
74491306 AAATAAAAAT-AAAAATGACTA
1 AAATAAAAATAAAAAAT-ACTA
74491327 AA
1 AA
74491329 TTAATAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATAAAAATAAAAAATACTA
Found at i:74493592 original size:10 final size:9
Alignment explanation
Indices: 74493576--74493670 Score: 59
Period size: 9 Copynumber: 9.9 Consensus size: 9
74493566 GATAATTTTC
74493576 AAAAATTTA
1 AAAAATTTA
*
74493585 AAATAATTTT
1 AAA-AATTTA
* *
74493595 TAACA-TTA
1 AAAAATTTA
74493603 AAAATATTTA
1 AAAA-ATTTA
74493613 TAAAAATTTTAA
1 -AAAAA-TTT-A
*
74493625 AAAAATCTA
1 AAAAATTTA
74493634 AAAATATATATA
1 AAAA-AT-T-TA
74493646 AAAAATTT-
1 AAAAATTTA
*
74493654 AAAATTTTA
1 AAAAATTTA
74493663 AAAAATTT
1 AAAAATTT
74493671 CTAAACCAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
8 11 0.17
9 18 0.27
10 16 0.24
11 14 0.21
12 7 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAAATTTA
Found at i:74503539 original size:13 final size:13
Alignment explanation
Indices: 74503521--74503595 Score: 89
Period size: 13 Copynumber: 5.8 Consensus size: 13
74503511 AACATTGAAA
74503521 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
74503534 TTTTCAAAAGTAC
1 TTTTCAAAAGCAC
* *
74503547 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
74503560 TTTTTCACAA-CAC
1 -TTTTCAAAAGCAC
*
74503573 TTTTCAAAAGCAT
1 TTTTCAAAAGCAC
74503586 TTTTCAAAAG
1 TTTTCAAAAG
74503596 TATTGCCAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
12 8 0.15
13 38 0.72
14 7 0.13
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:74506285 original size:14 final size:15
Alignment explanation
Indices: 74506255--74506287 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
74506245 TATATTTAAA
74506255 TTAAAATTTACATATT
1 TTAAAATTTA-ATATT
74506271 TTAAAATTT-ATATT
1 TTAAAATTTAATATT
74506285 TTA
1 TTA
74506288 TATATTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
16 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAATTTAATATT
Found at i:74510451 original size:27 final size:27
Alignment explanation
Indices: 74510413--74510466 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
74510403 GGTGCAAAGG
74510413 TTCGAACTCAAGACTCCAACACACTAA
1 TTCGAACTCAAGACTCCAACACACTAA
74510440 TTCGAACTCAAGACTCCAACACACTAA
1 TTCGAACTCAAGACTCCAACACACTAA
74510467 CCCCCTTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.33, G:0.07, T:0.19
Consensus pattern (27 bp):
TTCGAACTCAAGACTCCAACACACTAA
Found at i:74520851 original size:30 final size:30
Alignment explanation
Indices: 74520816--74520873 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
74520806 TAGGCACTTC
*
74520816 CACACGGGTGAT-CCACACGCTCGTGTGTGA
1 CACACGGGT-ATACCACACGCCCGTGTGTGA
*
74520846 CACACGGGTTTACCACACGCCCGTGTGT
1 CACACGGGTATACCACACGCCCGTGTGT
74520874 CATGGCCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.21
Consensus pattern (30 bp):
CACACGGGTATACCACACGCCCGTGTGTGA
Found at i:74528524 original size:12 final size:11
Alignment explanation
Indices: 74528501--74528539 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
74528491 TTTTCTTTTC
74528501 ATTTTATCTTT
1 ATTTTATCTTT
74528512 ATTTTATCATTT
1 ATTTTATC-TTT
*
74528524 ATTTTTGTCTTT
1 A-TTTTATCTTT
74528536 ATTT
1 ATTT
74528540 ATCATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 11 0.44
12 8 0.32
13 6 0.24
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (11 bp):
ATTTTATCTTT
Found at i:74528534 original size:24 final size:23
Alignment explanation
Indices: 74528502--74528546 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
74528492 TTTCTTTTCA
74528502 TTTTATCTTTATTTTATCATTTAT
1 TTTTATCTTTA-TTTATCATTTAT
*
74528526 TTTTGTCTTTATTTATCATTT
1 TTTTATCTTTATTTATCATTT
74528547 TTTAAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTATCTTTATTTATCATTTAT
Found at i:74531801 original size:14 final size:15
Alignment explanation
Indices: 74531782--74531818 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
74531772 ATAATTTAAA
74531782 ATATAATAATAAT-G
1 ATATAATAATAATAG
74531796 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
74531810 TTATAATAA
1 ATATAATAA
74531819 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:74538927 original size:14 final size:15
Alignment explanation
Indices: 74538908--74538944 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
74538898 ATAATTTAAA
74538908 ATATAATAATAAT-G
1 ATATAATAATAATAG
74538922 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
74538936 TTATAATAA
1 ATATAATAA
74538945 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:74539035 original size:15 final size:16
Alignment explanation
Indices: 74539001--74539039 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
74538991 ACAGAACAGG
74539001 GAAA-GAAAGAAAGAA
1 GAAAGGAAAGAAAGAA
*
74539016 AAAAGGAAAGAAA-AA
1 GAAAGGAAAGAAAGAA
74539031 GAAAGGAAA
1 GAAAGGAAA
74539040 AATGGGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
GAAAGGAAAGAAAGAA
Found at i:74544201 original size:16 final size:16
Alignment explanation
Indices: 74544182--74544229 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
74544172 TAAGTATAAG
74544182 ATATTTAATATATATA
1 ATATTTAATATATATA
*
74544198 ATA--TATTAT-TATA
1 ATATTTAATATATATA
74544211 ATAATTTAATA-ATATA
1 AT-ATTTAATATATATA
74544227 ATA
1 ATA
74544230 AGATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
13 6 0.23
14 6 0.23
15 1 0.04
16 13 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTTAATATATATA
Found at i:74544220 original size:8 final size:8
Alignment explanation
Indices: 74544187--74544258 Score: 67
Period size: 8 Copynumber: 9.0 Consensus size: 8
74544177 ATAAGATATT
74544187 TAATATATA
1 TAATATA-A
*
74544196 TAATATAT
1 TAATATAA
*
74544204 TATTATAA
1 TAATATAA
*
74544212 TAATTTAA
1 TAATATAA
74544220 TAATATAA
1 TAATATAA
*
74544228 TAAGAT-A
1 TAATATAA
74544235 TAATATAA
1 TAATATAA
*
74544243 TAAGTAAAA
1 TAA-TATAA
74544252 TAA-ATAA
1 TAATATAA
74544259 GAGAAAATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
7 9 0.18
8 28 0.55
9 14 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
TAATATAA
Found at i:74546189 original size:22 final size:22
Alignment explanation
Indices: 74546161--74546212 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
74546151 TTGATGACAA
* *
74546161 GGGCGTGTCATATCAGCCACAC
1 GGGCGTGTCACATAAGCCACAC
74546183 GGGCGTGTCACATAAGCCACAC
1 GGGCGTGTCACATAAGCCACAC
74546205 GGGCGTGT
1 GGGCGTGT
74546213 GGTGCTATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.33, T:0.17
Consensus pattern (22 bp):
GGGCGTGTCACATAAGCCACAC
Found at i:74549548 original size:19 final size:21
Alignment explanation
Indices: 74549526--74549565 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
74549516 TCTCCCTCTC
74549526 TTATGA-TAT-TCTGTTTATA
1 TTATGATTATATCTGTTTATA
*
74549545 TTATGATTATATTTGTTTATA
1 TTATGATTATATCTGTTTATA
74549566 CATTGAGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (21 bp):
TTATGATTATATCTGTTTATA
Found at i:74555076 original size:12 final size:12
Alignment explanation
Indices: 74555056--74555090 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
74555046 ATGTTCCTCA
74555056 TCCACCTCTATT
1 TCCACCTCTATT
* *
74555068 TCCATCTCTAGT
1 TCCACCTCTATT
74555080 TCCACCTCTAT
1 TCCACCTCTAT
74555091 ATCCTCCATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.17, C:0.40, G:0.03, T:0.40
Consensus pattern (12 bp):
TCCACCTCTATT
Found at i:74556382 original size:17 final size:16
Alignment explanation
Indices: 74556360--74556410 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
74556350 AATTAATTGT
74556360 GAAGTTAGACTGTTAAA
1 GAAGTTA-ACTGTTAAA
74556377 GAAGTTAACTGTTAAA
1 GAAGTTAACTGTTAAA
74556393 -AAG----CTGTTAAA
1 GAAGTTAACTGTTAAA
74556404 GAAGTTA
1 GAAGTTA
74556411 GTTTGTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
11 8 0.27
12 3 0.10
15 3 0.10
16 9 0.30
17 7 0.23
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (16 bp):
GAAGTTAACTGTTAAA
Found at i:74558511 original size:17 final size:16
Alignment explanation
Indices: 74558467--74558516 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
74558457 TTGATAATTA
*
74558467 TTAATTTCATTATTAAT
1 TTAATTT-ATTATTTAT
74558484 TTAATTTATTTATTTAT
1 TTAATTTA-TTATTTAT
74558501 TT-ATTTAATT-TTTAT
1 TTAATTT-ATTATTTAT
74558516 T
1 T
74558517 GAACGTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.20
16 7 0.23
17 17 0.57
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TTAATTTATTATTTAT
Found at i:74562853 original size:34 final size:34
Alignment explanation
Indices: 74562815--74562886 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
74562805 ACTAAGTTAT
*
74562815 AAGTAAAATTTTATTTTAATTACTTAACTAAAAA
1 AAGTAAAATTTTATTTTAATCACTTAACTAAAAA
* *
74562849 AAGTAATATTTTATTTTGATCACTTAACTAAAAA
1 AAGTAAAATTTTATTTTAATCACTTAACTAAAAA
74562883 AAGT
1 AAGT
74562887 TATAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (34 bp):
AAGTAAAATTTTATTTTAATCACTTAACTAAAAA
Found at i:74562858 original size:29 final size:29
Alignment explanation
Indices: 74562826--74562901 Score: 80
Period size: 34 Copynumber: 2.4 Consensus size: 29
74562816 AGTAAAATTT
*
74562826 TATTTTAATTACTTAACTAAAAAAAGTAA
1 TATTTTAATCACTTAACTAAAAAAAGTAA
*
74562855 TATTTTATTTTGATCACTTAACTAAAAAAAGTTA
1 TATTTTA-----ATCACTTAACTAAAAAAAGTAA
*
74562889 TAATTTAATCACT
1 TATTTTAATCACT
74562902 AATGTTTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
29 13 0.33
34 26 0.67
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (29 bp):
TATTTTAATCACTTAACTAAAAAAAGTAA
Found at i:74574623 original size:14 final size:14
Alignment explanation
Indices: 74574606--74574651 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
74574596 TATTTATTCT
74574606 TTTTATTTTAAATA
1 TTTTATTTTAAATA
74574620 TTTTA--TT-AATA
1 TTTTATTTTAAATA
*
74574631 TGTTATTTTAAATA
1 TTTTATTTTAAATA
74574645 TTTTATT
1 TTTTATT
74574652 GGTTGTTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.30
12 2 0.07
13 2 0.07
14 15 0.56
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTTATTTTAAATA
Found at i:74575189 original size:27 final size:25
Alignment explanation
Indices: 74575152--74575206 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
74575142 ATTCTTCTAC
*
74575152 ATTATTTATTTTAAACTCGCTTTATGT
1 ATTATTCATTTTAAA-TCGCTTTAT-T
*
74575179 ATTATTCATTTTAAATCGTTTTATT
1 ATTATTCATTTTAAATCGCTTTATT
74575204 ATT
1 ATT
74575207 TACTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 4 0.15
26 8 0.31
27 14 0.54
ACGTcount: A:0.27, C:0.09, G:0.05, T:0.58
Consensus pattern (25 bp):
ATTATTCATTTTAAATCGCTTTATT
Found at i:74575393 original size:27 final size:27
Alignment explanation
Indices: 74575304--74575397 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 27
74575294 GTATATTGCC
*
74575304 TATTTTAAAATTTC--TTTTACATATACTC
1 TATTTT-AAATTTCTTTTTTACAT-TA-TT
* * *
74575332 TATTTCTAAA-TTGTTTTGTACATTGTT
1 TATTT-TAAATTTCTTTTTTACATTATT
* *
74575359 GATATTAAATTTCTTTTTTACATTATT
1 TATTTTAAATTTCTTTTTTACATTATT
74575386 TATTTTAAATTT
1 TATTTTAAATTT
74575398 GTTACAGGCC
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
26 4 0.08
27 30 0.59
28 9 0.18
29 8 0.16
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.59
Consensus pattern (27 bp):
TATTTTAAATTTCTTTTTTACATTATT
Found at i:74576499 original size:27 final size:27
Alignment explanation
Indices: 74576469--74576535 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
74576459 TTATTTTAAA
* *
74576469 TATTATTTATATTATCCTTATGACTAT
1 TATTATTTATATTATCATTATCACTAT
* * *
74576496 TATTATTAATATTCTTATTATCACTAT
1 TATTATTTATATTATCATTATCACTAT
* *
74576523 TATTTTTTTTATT
1 TATTATTTATATT
74576536 TTATCAATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.61
Consensus pattern (27 bp):
TATTATTTATATTATCATTATCACTAT
Found at i:74576501 original size:3 final size:3
Alignment explanation
Indices: 74576493--74576599 Score: 78
Period size: 3 Copynumber: 36.7 Consensus size: 3
74576483 TCCTTATGAC
* * * * * *
74576493 TAT TAT TAT TAA TAT TCT TAT TAT CAC TAT TAT TTT TTT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
74576540 CAA TA- TAT TAT TAC TA- TAGT TAC TAT TAT TA- TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
74576583 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
74576600 ATTTTTAATA
Statistics
Matches: 81, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
2 8 0.10
3 71 0.88
4 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:74576731 original size:3 final size:3
Alignment explanation
Indices: 74576723--74576920 Score: 68
Period size: 3 Copynumber: 63.0 Consensus size: 3
74576713 TTTCTTTTTA
* *
74576723 TAT TAT TAT TAT TATT TAT TAT TAT TTT TCAT GTACG TAT TAT TA- TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT T-AT -TA-T TAT TAT TAT TAT
* *** * * *
74576771 TAT TA- TATT TACT T-T TAC CCG TAT TAT AAT TAT TAT TAA TAT TAG
1 TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
74576816 TAT ATAT T-T TAT TAT ATAT GTAT ATAT ATACT TTT TAT ATAG TAT TAT
1 TAT -TAT TAT TAT TAT -TAT -TAT -TAT -TA-T TAT TAT -TAT TAT TAT
* * *
74576864 T-T TTT CTAT TAT TA- TATT TAT TAT T-T TCAC TAT TAT TAT TAT TTT
1 TAT TAT -TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TAT TAT TAT
*
74576909 TAT CAT TAT TAT
1 TAT TAT TAT TAT
74576921 ACATATATAC
Statistics
Matches: 145, Mismatches: 31, Indels: 38
0.68 0.14 0.18
Matches are distributed among these distances:
2 14 0.10
3 95 0.66
4 34 0.23
5 2 0.01
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:74576818 original size:24 final size:22
Alignment explanation
Indices: 74576795--74576844 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
74576785 TTACCCGTAT
74576795 TATA-ATTATTATTA-ATATTAG
1 TATATATT-TTATTATATATTAG
74576816 TATATATTTTATTATATATGTA-
1 TATATATTTTATTATATAT-TAG
74576838 TATATAT
1 TATATAT
74576845 ACTTTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 10 0.38
22 14 0.54
23 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TATATATTTTATTATATATTAG
Found at i:74576884 original size:21 final size:21
Alignment explanation
Indices: 74576853--74576921 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 21
74576843 ATACTTTTTA
74576853 TATAGTATTATTTTTTCTATTAT
1 TATA-TATTATTTTTTC-ATTAT
*
74576876 TATAT-TTATTATTTTCACTAT
1 TATATATTATT-TTTTCATTAT
74576897 TAT-TATTATTTTTATCATTAT
1 TATATATTATTTTT-TCATTAT
74576918 TATA
1 TATA
74576922 CATATATACA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 4 0.10
21 26 0.65
22 6 0.15
23 4 0.10
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (21 bp):
TATATATTATTTTTTCATTAT
Found at i:74576887 original size:24 final size:25
Alignment explanation
Indices: 74576858--74576911 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
74576848 TTTTATATAG
**
74576858 TATTATTTTTTCTATTATTA-TATT
1 TATTATTTTCACTATTATTATTATT
74576882 TATTATTTTCACTATTATTATTATT
1 TATTATTTTCACTATTATTATTATT
74576907 T-TTAT
1 TATTAT
74576912 CATTATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (25 bp):
TATTATTTTCACTATTATTATTATT
Found at i:74577090 original size:15 final size:15
Alignment explanation
Indices: 74577015--74577091 Score: 50
Period size: 15 Copynumber: 4.9 Consensus size: 15
74577005 ATCTCTGCCT
*
74577015 TATTTTTTTAT-TTA
1 TATTTTTATATATTA
* *
74577029 TTATTTTAATACTCTTA
1 -TATTTTTATA-TATTA
*
74577046 TATTATGTATATTATTA
1 TATT-TTTATA-TATTA
*
74577063 T-TTTTTAAAATATTA
1 TATTTTT-ATATATTA
74577078 TATTTTTATATATT
1 TATTTTTATATATT
74577092 TTGTATATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
15 22 0.46
16 14 0.29
17 12 0.25
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (15 bp):
TATTTTTATATATTA
Found at i:74577139 original size:40 final size:39
Alignment explanation
Indices: 74577044--74577132 Score: 108
Period size: 42 Copynumber: 2.2 Consensus size: 39
74577034 TTAATACTCT
* * *
74577044 TATATTATGTATATTATTATTTTTTAAAATATTATATTTTTA
1 TATATTTTGTATA-TA-TATTTTTT-AAATATCATATTTTCA
74577086 TATATTTTGTATATATATTTTTT-AATATCATATTATTCA
1 TATATTTTGTATATATATTTTTTAAATATCATATT-TTCA
74577125 TATATTTT
1 TATATTTT
74577133 ATTATATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 10 0.23
39 11 0.26
40 8 0.19
41 2 0.05
42 12 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (39 bp):
TATATTTTGTATATATATTTTTTAAATATCATATTTTCA
Found at i:74577164 original size:26 final size:26
Alignment explanation
Indices: 74577097--74577252 Score: 129
Period size: 26 Copynumber: 6.3 Consensus size: 26
74577087 ATATTTTGTA
*
74577097 TATATATTTTTTAATATC-ATATTAT-
1 TATATA-TTTTTAATAACTATATTATG
74577122 TCATATA-TTTT-AT---TATATTATG
1 T-ATATATTTTTAATAACTATATTATG
74577144 TATATATTTTTAATAACTATATTATG
1 TATATATTTTTAATAACTATATTATG
* *
74577170 TATGTATTTTTAA-CACTATATTATG
1 TATATATTTTTAATAACTATATTATG
* * *
74577195 TACATACTTTTAATATC-ATTATTATG
1 TATATATTTTTAATAACTA-TATTATG
*
74577221 TATCTATTTTTAAT-A-TATA-TATG
1 TATATATTTTTAATAACTATATTATG
*
74577244 TGTATATTT
1 TATATATTT
74577253 ATGTAGTATT
Statistics
Matches: 107, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
21 12 0.11
22 5 0.05
23 15 0.14
24 6 0.06
25 24 0.22
26 45 0.42
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATATTTTTAATAACTATATTATG
Found at i:74577166 original size:47 final size:45
Alignment explanation
Indices: 74577073--74577168 Score: 115
Period size: 47 Copynumber: 2.1 Consensus size: 45
74577063 TTTTTTAAAA
* *
74577073 TATTATATTTTTATATATTTTGTATATATATTTTTTAATATCATAT
1 TATTATATTTTTATATATTATG-ATATATATTTTTTAATAACATAT
74577119 TATTCATATATTTTATTATATTATG-TATATA-TTTTTAATAACTATAT
1 TATT-ATAT-TTTTA-TATATTATGATATATATTTTTTAATAAC-ATAT
74577166 TAT
1 TAT
74577169 GTATGTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
46 14 0.32
47 17 0.39
48 5 0.11
49 8 0.18
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (45 bp):
TATTATATTTTTATATATTATGATATATATTTTTTAATAACATAT
Found at i:74577178 original size:47 final size:47
Alignment explanation
Indices: 74577076--74577252 Score: 171
Period size: 51 Copynumber: 3.6 Consensus size: 47
74577066 TTTAAAATAT
*
74577076 TATATTTTT-ATATATTTTGTATATATATTTTTTAATATCATATTAT-TCA
1 TATATTTTTAATATATTATG--TATATA-TTTTTAATATCATATTATGT-A
* *
74577125 TATA-TTTTATTATATTATGTATATATTTTTAATAACTATATTATGTA
1 TATATTTTTAATATATTATGTATATATTTTTAATATC-ATATTATGTA
* * *
74577172 TGTATTTTTAACACTATATTATGTACATACTTTTAATATCATTATTATGTA
1 TATATTTTT-A-A-TATATTATGTATATATTTTTAATATCA-TATTATGTA
* *
74577223 TCTATTTTTAATATATATATGTGTATATTT
1 TATATTTTTAATATAT-TATGTATATATTT
74577253 ATGTAGTATT
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
46 10 0.09
47 17 0.16
48 14 0.13
49 24 0.22
50 2 0.02
51 40 0.37
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (47 bp):
TATATTTTTAATATATTATGTATATATTTTTAATATCATATTATGTA
Found at i:74577440 original size:136 final size:135
Alignment explanation
Indices: 74577191--74577440 Score: 310
Period size: 136 Copynumber: 1.8 Consensus size: 135
74577181 AACACTATAT
* * * ** *
74577191 TATGTACATACTTTTAATATCATTATTATGTATCTATTTTTAATATATATATGTGTATATTTATG
1 TATGTACATACTTTTAATATCATTATTACGTATATATTTTTAATACATATATGTAAATATTTATA
*
74577256 TAGTATTATTAATAGTTGTTTTTAATATTATTATTTCTAATATGTATATATTATGTACATATTTT
66 TAGTATTATTAATAGTTGTTTTTAATATTACTATTTCTAATA-GTATATATTATGTACATATTTT
74577321 TAATAC
130 TAATAC
* *
74577327 TATGTATATACTTTTTAT-TCCTATTATTACGTATATA-TTTTAATACATATATGTAAATATTTA
1 TATGTACATACTTTTAATAT-C-ATTATTACGTATATATTTTTAATACATATATGTAAATATTTA
* * *
74577390 TATA-TCGTTATTATTAGTTGTTTTTATATTATTACTATTTTTAATA-TATAT
64 TATAGT-ATTATTAATAGTTGTTTTTA-A-TATTACTATTTCTAATAGTATAT
74577441 TGTATATATA
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
135 2 0.02
136 66 0.68
137 14 0.14
138 15 0.15
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (135 bp):
TATGTACATACTTTTAATATCATTATTACGTATATATTTTTAATACATATATGTAAATATTTATA
TAGTATTATTAATAGTTGTTTTTAATATTACTATTTCTAATAGTATATATTATGTACATATTTTT
AATAC
Found at i:74581259 original size:22 final size:22
Alignment explanation
Indices: 74581225--74581266 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
74581215 CATGACTAAT
*
74581225 ATTCATTCATCATTTATTCAAC
1 ATTCATTCATCATTCATTCAAC
**
74581247 ATTCATTTGTCATTCATTCA
1 ATTCATTCATCATTCATTCA
74581267 CTGCATGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTCATTCATCATTCATTCAAC
Found at i:74588731 original size:44 final size:42
Alignment explanation
Indices: 74588658--74588765 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 42
74588648 AAAAAAAGGG
* * *
74588658 TCAAAATGAAAACCCGAAAAGGGCGTCTTGATTAACACAGAAGA
1 TCAAGATGAAAACCCGAAAGGGGCCTCTTGATTAACAC--AAGA
74588702 TCAAGATGAAAACCCGAAAGGGGCCTCTTGATTAACACAAGA
1 TCAAGATGAAAACCCGAAAGGGGCCTCTTGATTAACACAAGA
* * * *
74588744 TTAGGACGAAAACCCAAAAGGG
1 TCAAGATGAAAACCCGAAAGGG
74588766 CATTCTAATG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 22 0.39
44 35 0.61
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (42 bp):
TCAAGATGAAAACCCGAAAGGGGCCTCTTGATTAACACAAGA
Found at i:74589641 original size:75 final size:74
Alignment explanation
Indices: 74589547--74589743 Score: 256
Period size: 75 Copynumber: 2.7 Consensus size: 74
74589537 TGATGTTTTT
* **
74589547 ATTTCTATTTTCAAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGTTGA
1 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCACACGCCGA
74589611 GGTATTTTCA
66 GGTA-TTTCA
* ** *
74589621 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCC
1 ATTTCTAT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-CACACGCC
74589686 GAGGTATTTCA
64 GAGGTATTTCA
** *
74589697 AAATCTATTTTC--AAAAATCAACACATATTGCGAGAGGTGAGTTGAGC
1 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
74589744 ATTGGCTTAC
Statistics
Matches: 109, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
73 34 0.31
74 7 0.06
75 48 0.44
76 10 0.09
77 10 0.09
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (74 bp):
ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCACACGCCGA
GGTATTTCA
Found at i:74589767 original size:73 final size:74
Alignment explanation
Indices: 74589636--74589781 Score: 195
Period size: 73 Copynumber: 2.0 Consensus size: 74
74589626 TGTCTTTCAA
* * * *
74589636 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA-TTTCAAAA
1 AAAAATCAACACATATTGCGAGAGGTGAGTTGAGCATCGGCTCACATGCCGAGCTATTTTCAAAA
74589700 TCTATTTTC
66 TCTATTTTC
* * * * **
74589709 AAAAATCAACACATATTGCGAGAGGTGAGTTGAGCATTGGCTTACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACACATATTGCGAGAGGTGAGTTGAGCATCGGCTCACATGCCGAGCTATTTTCAAAA
74589774 TCTATTTT
66 TCTATTTT
74589782 TAATGTCTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
73 48 0.77
74 14 0.23
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAAATCAACACATATTGCGAGAGGTGAGTTGAGCATCGGCTCACATGCCGAGCTATTTTCAAAA
TCTATTTTC
Found at i:74591561 original size:28 final size:28
Alignment explanation
Indices: 74591523--74591629 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
74591513 GAATCATTCG
* *
74591523 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
74591551 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
74591579 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
74591607 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
74591630 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:74596625 original size:28 final size:28
Alignment explanation
Indices: 74596591--74596745 Score: 139
Period size: 28 Copynumber: 5.5 Consensus size: 28
74596581 AACAGATCTT
**
74596591 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
74596619 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
* ***
74596648 GCACACATAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
74596676 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
* *
74596705 GCACACACAGTGTTCTATTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
*
74596733 ACACACACAGTGC
1 GCACACACAGTGC
74596746 CTATGTTCAC
Statistics
Matches: 95, Mismatches: 30, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
28 53 0.56
29 42 0.44
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (28 bp):
GCACACACAGTGCTCAATTACGGAACTC
Found at i:74596631 original size:57 final size:57
Alignment explanation
Indices: 74596561--74596747 Score: 275
Period size: 57 Copynumber: 3.2 Consensus size: 57
74596551 GATCTCATTT
* * *
74596561 CACACACTTAGTGCCCCAACAACAGATCTTGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
74596620 CACACACAGTGCCTCAACAACCGATCTCGCACACATAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* ** *
74596677 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGTTCTATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
74596734 CACACACAGTGCCT
1 CACACACAGTGCCT
74596748 ATGTTCACTT
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
57 110 0.94
59 7 0.06
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:74596659 original size:29 final size:29
Alignment explanation
Indices: 74596561--74596716 Score: 127
Period size: 29 Copynumber: 5.4 Consensus size: 29
74596551 GATCTCATTT
* * *
74596561 CACACACTTAGTGCCCCAACAACAGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
**** * *
74596592 CACACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
74596620 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* ***** * *
74596649 CACACATAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
74596677 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
74596706 CACACACAGTG
1 CACACACAGTG
74596717 TTCTATTACG
Statistics
Matches: 93, Mismatches: 30, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
28 40 0.43
29 46 0.49
31 7 0.08
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:74598759 original size:28 final size:28
Alignment explanation
Indices: 74598726--74598804 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
74598716 GAATCATTCG
* * *
74598726 ATATTTTGCATACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
74598754 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
74598782 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
74598805 ATTTGATTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:74600803 original size:13 final size:13
Alignment explanation
Indices: 74600785--74600837 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
74600775 TACCCTATGG
*
74600785 TCTGCCACTACCT
1 TCTGCCACCACCT
*
74600798 TCTGCCACCACCG
1 TCTGCCACCACCT
* *
74600811 TCGGCCACCTACCC
1 TCTGCCACC-ACCT
*
74600825 TCTACCACCACCT
1 TCTGCCACCACCT
74600838 GCTCCTCCAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
13 22 0.69
14 10 0.31
ACGTcount: A:0.17, C:0.53, G:0.09, T:0.21
Consensus pattern (13 bp):
TCTGCCACCACCT
Found at i:74601062 original size:27 final size:27
Alignment explanation
Indices: 74601023--74601078 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
74601013 CAGAAGGTGG
* *
74601023 TTTGTATCCTTTTCTTTTTTTCCTTCT
1 TTTGAATCCTTTTCTTTCTTTCCTTCT
* *
74601050 TTTGAATCTTTTTCTTTCTTTCTTTCT
1 TTTGAATCCTTTTCTTTCTTTCCTTCT
74601077 TT
1 TT
74601079 CTTTTTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.05, C:0.20, G:0.04, T:0.71
Consensus pattern (27 bp):
TTTGAATCCTTTTCTTTCTTTCCTTCT
Done.