Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 196 of 255
Found at i:65378975 original size:26 final size:26
Alignment explanation
Indices: 65378946--65378998 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
65378936 TTTACAGTTT
65378946 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
65378972 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
65378998 T
1 T
65378999 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:65379037 original size:22 final size:21
Alignment explanation
Indices: 65379010--65379050 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
65379000 CATGTTTGAC
65379010 TGTTGTTATTTA-CTGCATGCCA
1 TGTTGTT-TTTATCTG-ATGCCA
65379032 TGTTGTTTTTATCTGATGC
1 TGTTGTTTTTATCTGATGC
65379051 ATGAGACTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.51
Consensus pattern (21 bp):
TGTTGTTTTTATCTGATGCCA
Found at i:65385521 original size:26 final size:26
Alignment explanation
Indices: 65385492--65385599 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
65385482 TGGTACAAAT
*
65385492 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
65385518 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65385544 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
65385570 TGATAATGGTTTAGGTAAATGTCCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65385596 TGAT
1 TGAT
65385600 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:65387105 original size:26 final size:26
Alignment explanation
Indices: 65387076--65387128 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
65387066 TTTACAGTTT
65387076 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
65387102 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
65387128 T
1 T
65387129 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:65390444 original size:44 final size:44
Alignment explanation
Indices: 65390385--65390472 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
65390375 TAAATATGAG
* * *
65390385 GCATCTGAGCTCGTTGAGTTAGTCCGAGTTCACT-ATGGATGCGA
1 GCATCCGAACTCGTTGAATTAGTCCGAGTTCA-TAATGGATGCGA
*
65390429 GCATCCGAACTCGTTGAATTGGTCCGAGTTCATAATGGATGCGA
1 GCATCCGAACTCGTTGAATTAGTCCGAGTTCATAATGGATGCGA
65390473 TACATGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (44 bp):
GCATCCGAACTCGTTGAATTAGTCCGAGTTCATAATGGATGCGA
Found at i:65392462 original size:12 final size:12
Alignment explanation
Indices: 65392445--65392472 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
65392435 TATTTCACAT
65392445 TCATAAGACTTG
1 TCATAAGACTTG
65392457 TCATAAGACTTG
1 TCATAAGACTTG
65392469 TCAT
1 TCAT
65392473 TTGATGACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (12 bp):
TCATAAGACTTG
Found at i:65394174 original size:45 final size:45
Alignment explanation
Indices: 65394017--65394186 Score: 132
Period size: 45 Copynumber: 3.6 Consensus size: 45
65394007 GTAGAATGCT
* * * *
65394017 GATGCCATGTCCTAGACATGGTCTTACA-CTGGC-TCATCCATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACCTCGCAT-ATCCGT---GCC
* * *
65394064 GATGCCATTTCCCAGACATGGTCTTACACTGACTATCG-AAAT-CGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC---C--TCGCATATCCG-TGCC
* * *
65394113 GATTCTATATCCCAGACATGGTCTTACACCTCGCATATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACCTCGCATATCCGTGCC
65394158 GATGCCATGTCCCAGACATGGTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
65394187 TGGCTCTCGT
Statistics
Matches: 98, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
44 3 0.03
45 32 0.33
46 3 0.03
47 26 0.27
49 28 0.29
51 2 0.02
52 2 0.02
53 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
GATGCCATGTCCCAGACATGGTCTTACACCTCGCATATCCGTGCC
Found at i:65404183 original size:15 final size:16
Alignment explanation
Indices: 65404156--65404186 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
65404146 AATTTATTTG
65404156 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
65404172 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
65404187 GTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:65407902 original size:117 final size:116
Alignment explanation
Indices: 65407661--65407902 Score: 287
Period size: 117 Copynumber: 2.1 Consensus size: 116
65407651 ATACTCAAAT
* *
65407661 CGAAT-AAAAAACGAAACCCAATACGGTAGGGCACGTTTTTTTTAAACGATTAAGTATAGAAAAT
1 CGAATAAAAAAACGAAACCCAATACGGTAAGGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
* * * * *
65407725 TGCCTTTATTTAAAACTATTTGGGAACAAAATGTTGAATAAAATACTTAAAT
66 TGCCTTTATTTAAAACAAGTTGAGAACAAAATG-TGAATAAAAAACTTAAAA
65407777 CGAATAAAAAAGACG-AACCCAATACGGTAAGGCACG-TTTTTTAAAACGATTAAGTATAGAAAA
1 CGAATAAAAAA-ACGAAACCCAATACGGTAAGGCACGTTTTTTTAAAACGATTAAGTATAGAAAA
** **
65407840 TTGTTTTTATGTTAAAACAAGTTGAGAATGCATTATG-GAATAAAAGAAC-TAAAA
65 TTGCCTTTAT-TTAAAACAAGTTGAGAA--CAAAATGTGAATAAAA-AACTTAAAA
*
65407894 CGATTAAAA
1 CGAATAAAA
65407903 TTTGGGGAGG
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
116 39 0.36
117 59 0.55
118 5 0.05
119 5 0.05
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (116 bp):
CGAATAAAAAAACGAAACCCAATACGGTAAGGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
TGCCTTTATTTAAAACAAGTTGAGAACAAAATGTGAATAAAAAACTTAAAA
Found at i:65408610 original size:19 final size:20
Alignment explanation
Indices: 65408586--65408624 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
65408576 GACATGTATT
65408586 AAAAATATAA-AATA-AATAA
1 AAAAATA-AATAATACAATAA
65408605 AAAAATAAATAATACAATAA
1 AAAAATAAATAATACAATAA
65408625 TACATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 11 0.61
20 5 0.28
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAATAAATAATACAATAA
Found at i:65410039 original size:44 final size:44
Alignment explanation
Indices: 65409859--65410039 Score: 132
Period size: 44 Copynumber: 4.1 Consensus size: 44
65409849 ATCCGCAACT
* * * * * * *
65409859 TGCTCTCTGCAACTTTAGAGAAACAAGGTTTGGTATCTTCGATC
1 TGCTCTCTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
* ** * * * *
65409903 TGCTCCACTACTGCTT-AGGGAGATAAGATCTGTTATCTTTAATA
1 TGCT-CTCTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
** * * *
65409947 TGCTCTGCTACGGCTTCAGAGAGATAAGACTTG-TAACTTCAACC
1 TGCTCT-CTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
* * *
65409991 TGCTCTCTGCAACTTCAGAGAGATAAGGTTTGTTATCTTCGATC
1 TGCTCTCTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
65410035 TGCTC
1 TGCTC
65410040 CACTACTGCT
Statistics
Matches: 103, Mismatches: 30, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
43 22 0.21
44 61 0.59
45 20 0.19
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (44 bp):
TGCTCTCTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
Found at i:65410059 original size:44 final size:44
Alignment explanation
Indices: 65409887--65410415 Score: 173
Period size: 44 Copynumber: 11.9 Consensus size: 44
65409877 AGAAACAAGG
*
65409887 TTTGGTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* ** * ** * *
65409931 TCTGTTATCTTTAATATGCTCTGCTACGGCTTCAGAGAGATAAGA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGA
* * * * * * ** * *
65409976 CTTG-TAACTTCAACCTGCT-CTCTGCAACTTCAGAGAGATAAGG
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGA
65410019 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * * * ** * *
65410063 TATTGTAATCCTCCAGCCTTTTACC-CTACTACTTAGGGAGTTAA-A
1 T-TTGTTATCTTCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGA
** * ** *
65410108 GCCTGCTCATCGTCTTCGATCTGCTCCGTTGCTGCTTAGGGAGATAAGA
1 -TTTG-T--T-ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * * * *
65410157 TCTGTAATCTTC-AGCTTGCTCCACTGCTGCTCAGGGAGATAAGA
1 TTTGTTATCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGA
* * * * * *
65410201 TCTATAATCTTC-AGCTTGCTCCACTGCTGCTTAAGGAGATAA-A
1 TTTGTTATCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGA
* ** * * * *
65410244 GCTTGCCA-CTTTCGATCCGCTCCACTATTGCTTAGGGAAATAGGA
1 -TTTGTTATC-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * * * * *
65410289 TCTG-TATTTTC-AGTTTGTTACC-CTATTGCTTAGGG-GTTAAGA
1 TTTGTTATCTTCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGA
* **** * * *
65410331 CTCACCATCTTTGATTTGCTCCACTATTGCTTAGGGAGATAAGA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * * * ** * *
65410375 TCTATAATTTTCGATCCACTCCAATATTGCTTAGGGAGATA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
65410416 GGATCTGCCA
Statistics
Matches: 356, Mismatches: 104, Indels: 50
0.70 0.20 0.10
Matches are distributed among these distances:
42 7 0.02
43 67 0.19
44 193 0.54
45 36 0.10
46 21 0.06
47 5 0.01
48 21 0.06
49 6 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (44 bp):
TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
Found at i:65410467 original size:44 final size:46
Alignment explanation
Indices: 65410411--65410528 Score: 132
Period size: 44 Copynumber: 2.6 Consensus size: 46
65410401 TTGCTTAGGG
* * * *
65410411 AGATAGGATCTGCCAAAATTTAATCTGTTCCACTCCTGC-CAGC-G
1 AGATAAGATCTGCCAAAATTTGATCTGCTCCACTCCTGCTCAGCAA
* * * *
65410455 GGATAAGATCTGCTAAAATTTGATCCGCTCCGCTCCTGCTCAGCAA
1 AGATAAGATCTGCCAAAATTTGATCTGCTCCACTCCTGCTCAGCAA
* *
65410501 AGATAAGATCTACCGAAATTTGATCTGC
1 AGATAAGATCTGCCAAAATTTGATCTGC
65410529 CCCGCTCCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
44 32 0.54
45 4 0.07
46 23 0.39
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (46 bp):
AGATAAGATCTGCCAAAATTTGATCTGCTCCACTCCTGCTCAGCAA
Found at i:65411109 original size:26 final size:26
Alignment explanation
Indices: 65411080--65411187 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
65411070 TGATACAAAT
65411080 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
65411106 TGATCATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65411132 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65411158 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65411184 TGAT
1 TGAT
65411188 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:65411769 original size:26 final size:26
Alignment explanation
Indices: 65411740--65411821 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
65411730 TGATACAAAT
*
65411740 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65411766 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
65411792 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65411818 TGAT
1 TGAT
65411822 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:65417271 original size:46 final size:45
Alignment explanation
Indices: 65417221--65417396 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
65417211 TGGTTGAGCA
65417221 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
65417267 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
65417314 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
65417360 -CCTGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65417397 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 65 0.60
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:65417377 original size:93 final size:93
Alignment explanation
Indices: 65417218--65417388 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
65417208 GGATGGTTGA
* *
65417218 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
65417283 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
65417311 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGAG
*
65417375 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
65417389 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:65421729 original size:26 final size:26
Alignment explanation
Indices: 65421700--65421804 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
65421690 TGGTACAAAT
65421700 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
65421726 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65421752 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
65421778 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65421804 T
1 T
65421805 TATGGGCATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:65447308 original size:117 final size:116
Alignment explanation
Indices: 65447067--65447308 Score: 269
Period size: 117 Copynumber: 2.1 Consensus size: 116
65447057 ATACTCAAAT
* **
65447067 CGAAT-AAAAAACGAAACCCAGTACGGTAGGGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
1 CGAATAAAAAAACGAAACCCAATACGGTAAAGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
* * * * *
65447131 TGCCTTTATTAAAAACTATTTGGGAACAAAATGTTGAATAAAATACTTAAAT
66 TGCCTTTATTAAAAACAAGTTGAGAACAAAATG-TGAATAAAAAACTTAAAA
65447183 CGAATAAAAAAGACG-AACCCAATACGGTAAAGCACG-TTTTTTAAAACGATTAAGTATAGAAAA
1 CGAATAAAAAA-ACGAAACCCAATACGGTAAAGCACGTTTTTTTAAAACGATTAAGTATAGAAAA
** * **
65447246 TTGTTTTTATGTTAAAACAAGTTGAGAATGCATTATG-GAATAAAAGAAC-TAAAA
65 TTGCCTTTAT-TAAAAACAAGTTGAGAA--CAAAATGTGAATAAAA-AACTTAAAA
*
65447300 CGATTAAAA
1 CGAATAAAA
65447309 TTTGGGGAGG
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
116 40 0.38
117 56 0.53
118 5 0.05
119 5 0.05
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (116 bp):
CGAATAAAAAAACGAAACCCAATACGGTAAAGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
TGCCTTTATTAAAAACAAGTTGAGAACAAAATGTGAATAAAAAACTTAAAA
Found at i:65447778 original size:36 final size:36
Alignment explanation
Indices: 65447731--65447802 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
65447721 ATGAGTTAAT
65447731 CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
1 CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
65447767 CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
1 CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
65447803 ATAAAATATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.28, G:0.17, T:0.14
Consensus pattern (36 bp):
CGCCAACTTGAAAGAGGTTCCAAGCAAAATACCCAA
Found at i:65448347 original size:17 final size:18
Alignment explanation
Indices: 65448327--65448360 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65448317 ACTAAAGGGA
65448327 TAATC-TATAAATAAAAC
1 TAATCATATAAATAAAAC
*
65448344 TAATCATTTAAATAAAA
1 TAATCATATAAATAAAA
65448361 TTGCGGGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCATATAAATAAAAC
Found at i:65451710 original size:17 final size:18
Alignment explanation
Indices: 65451688--65451725 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
65451678 TTTATATATG
65451688 ATATTA-ATTATTACAAA
1 ATATTATATTATTACAAA
* *
65451705 ATATTATTTTATTATAAA
1 ATATTATATTATTACAAA
65451723 ATA
1 ATA
65451726 ATTTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATTACAAA
Found at i:65459747 original size:25 final size:25
Alignment explanation
Indices: 65459709--65459769 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
65459699 ACCAAACAAA
*
65459709 CCTTTGTGGCGAATTCTCTATAAAG
1 CCTTTGTGGTGAATTCTCTATAAAG
* * *
65459734 CCTTTATGGTGAATTCTTTGTAAAG
1 CCTTTGTGGTGAATTCTCTATAAAG
*
65459759 TCTTTGTGGTG
1 CCTTTGTGGTG
65459770 TATTATCTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.43
Consensus pattern (25 bp):
CCTTTGTGGTGAATTCTCTATAAAG
Found at i:65459789 original size:25 final size:25
Alignment explanation
Indices: 65459755--65459817 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
65459745 AATTCTTTGT
*
65459755 AAAGTCTTTGTGGTGTATTATCTGG
1 AAAGTCTTTGTGGTGTATAATCTGG
*
65459780 GAAG-CTTTTGTGGTGTATAATCTGG
1 AAAGTC-TTTGTGGTGTATAATCTGG
65459805 AAAGTCTTTGTGG
1 AAAGTCTTTGTGG
65459818 CATATTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.21, C:0.08, G:0.30, T:0.41
Consensus pattern (25 bp):
AAAGTCTTTGTGGTGTATAATCTGG
Found at i:65476329 original size:51 final size:50
Alignment explanation
Indices: 65476232--65476352 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 50
65476222 ACAACTAAGT
* *
65476232 TATCCGGATGAAATATGAAGCTCTTGTTGAAACTAGAGCAATAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTATTGAAACCAGA-CAATAAAGTAATA
* *
65476283 TATCCGGATGAAATATGAAGTTCTTATTGAAGCCAGA-ATATCAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTATTGAAACCAGACA-AT-AAAGTAATA
* *
65476334 -ATTCTGGATGAAGTATGAA
1 TA-TCCGGATGAAATATGAA
65476353 ATAAGTTTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 3 0.05
51 57 0.93
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (50 bp):
TATCCGGATGAAATATGAAGCTCTTATTGAAACCAGACAATAAAGTAATA
Found at i:65476951 original size:24 final size:22
Alignment explanation
Indices: 65476924--65476970 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
65476914 AGGATTTATA
65476924 ATATTCCGGGTGTGTTTGGGCTGG
1 ATATT-CGGGTGTGTTTGGG-TGG
*
65476948 ATATTCTGGTGTGTTTGGGTGG
1 ATATTCGGGTGTGTTTGGGTGG
65476970 A
1 A
65476971 ATCCGCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 13 0.59
24 5 0.23
ACGTcount: A:0.11, C:0.09, G:0.40, T:0.40
Consensus pattern (22 bp):
ATATTCGGGTGTGTTTGGGTGG
Found at i:65491150 original size:49 final size:49
Alignment explanation
Indices: 65491078--65491238 Score: 281
Period size: 49 Copynumber: 3.3 Consensus size: 49
65491068 NNNNNNNNAA
* *
65491078 GGCCTAATGGTCGATGTGTTGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
65491127 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
65491174 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
65491223 GGCCTAATGGCCGATG
1 GGCCTAATGGCCGATG
65491239 AAAGTGTATA
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
47 46 0.43
49 60 0.57
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:65494328 original size:49 final size:50
Alignment explanation
Indices: 65494252--65494449 Score: 177
Period size: 50 Copynumber: 4.0 Consensus size: 50
65494242 AGCCAAAGCT
* *
65494252 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACAT-TCGA-C-CAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGT-GACCTCAAC
* * **
65494300 AGTCTGGTACACGTAGTAGCCTGAACTTAATACTACACATGTGACCTCGCC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCAAC
** * * * * **
65494351 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACAGACGTGATCACAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCA-AC
* * * * *
65494402 TTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCA
65494450 CAATAGATCA
Statistics
Matches: 117, Mismatches: 28, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
48 1 0.01
49 36 0.31
50 40 0.34
51 40 0.34
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCAAC
Found at i:65497854 original size:98 final size:93
Alignment explanation
Indices: 65497691--65497865 Score: 228
Period size: 98 Copynumber: 1.8 Consensus size: 93
65497681 AAGTAAGCCA
* * * *
65497691 ATGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTGTAAAACCATTTCTGGGAC
1 ATGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGTGCCAGTGTAAAACCATTCCTGGGAC
65497756 ATGGCATCAGCACGAATATGCGAGAGCT
66 ATGGCATCAGCACGAATATGCGAGAGCT
*
65497784 ATGTAAGACCATGTCTAGGACATGGCATCGGCCT-CAATGATGATAGCCAGTGTAAGACCATATC
1 ATGTAAGA-CATGTCTAGGACAT-GCATCGG-CTACAA-GATG-T-GCCAGTGTAAAACCAT-TC
65497848 CT-GGACATGGCATCAGCA
59 CTGGGACATGGCATCAGCA
65497866 ACTGGCCCCA
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
93 8 0.11
94 13 0.19
95 9 0.13
96 6 0.09
97 1 0.01
98 30 0.43
99 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (93 bp):
ATGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGTGCCAGTGTAAAACCATTCCTGGGAC
ATGGCATCAGCACGAATATGCGAGAGCT
Found at i:65502484 original size:11 final size:11
Alignment explanation
Indices: 65502466--65502495 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
65502456 TTTCTTGCAA
65502466 TCTAATTTTAT
1 TCTAATTTTAT
*
65502477 TTTAATTTTAT
1 TCTAATTTTAT
65502488 TCTAATTT
1 TCTAATTT
65502496 ACTGATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
TCTAATTTTAT
Found at i:65506102 original size:11 final size:12
Alignment explanation
Indices: 65506085--65506117 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
65506075 TTGTCATACA
65506085 CATGCCATTACT
1 CATGCCATTACT
65506097 -ATGCCATT-CT
1 CATGCCATTACT
65506107 CATGCCATTAC
1 CATGCCATTAC
65506118 AATGATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.11
11 16 0.84
12 1 0.05
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.33
Consensus pattern (12 bp):
CATGCCATTACT
Found at i:65507612 original size:25 final size:25
Alignment explanation
Indices: 65507584--65507640 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
65507574 TTTGTGCATG
65507584 TATGCTCA-TACGAGCTGT-GAATCGA
1 TATGCTCACT-CGAGCTGTAG-ATCGA
*
65507609 TATGCTCACTCGAGCTGTAGATCGG
1 TATGCTCACTCGAGCTGTAGATCGA
65507634 TATGCTC
1 TATGCTC
65507641 TCACGACCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (25 bp):
TATGCTCACTCGAGCTGTAGATCGA
Found at i:65509738 original size:24 final size:24
Alignment explanation
Indices: 65509695--65509744 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
65509685 CCAAATGCTT
*
65509695 GGGATTAAGGAGTGATAAGG-GGA
1 GGGATTAAGGAGTGAGAAGGAGGA
65509718 GGGATTTAAGGAAGTG-GAAGGAGGA
1 GGGA-TTAAGG-AGTGAGAAGGAGGA
65509743 GG
1 GG
65509745 CGTAAGGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (24 bp):
GGGATTAAGGAGTGAGAAGGAGGA
Found at i:65513608 original size:47 final size:47
Alignment explanation
Indices: 65513554--65513985 Score: 578
Period size: 47 Copynumber: 9.1 Consensus size: 47
65513544 TTAGGATCTT
** * * * * **
65513554 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCAAATGGAAA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
65513601 ATGTGATGAATGTGAACCTGTATATATATATGAGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
65513654 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
65513701 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
65513748 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCGGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
65513795 ATGTGATGAATGTGAACATG-AGTATGTGTGATAAGGCGGAATGGCCA
1 ATGTGATGAATGTGAACATGCA-TATGTGTGATAAGGCCGAATGGCCA
*
65513842 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
65513889 ATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
65513936 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
65513983 ATG
1 ATG
65513986 CGAAATGTGT
Statistics
Matches: 351, Mismatches: 26, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
47 312 0.89
52 1 0.00
53 38 0.11
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:65513801 original size:22 final size:22
Alignment explanation
Indices: 65513774--65513848 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
65513764 CATGCGTATG
65513774 TGTGATAAGGCGGAATGGCCAA
1 TGTGATAAGGCGGAATGGCCAA
* * * * *
65513796 TGTGATGAATGTGAACATGAG-TATG
1 TGTGAT-AAGGCGGA-ATG-GCCA-A
65513821 TGTGATAAGGCGGAATGGCCAA
1 TGTGATAAGGCGGAATGGCCAA
65513843 TGTGAT
1 TGTGAT
65513849 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 13 0.34
23 9 0.24
24 9 0.24
25 7 0.18
ACGTcount: A:0.31, C:0.09, G:0.35, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCGGAATGGCCAA
Found at i:65514095 original size:46 final size:46
Alignment explanation
Indices: 65513959--65514095 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
65513949 GAACATGTAT
* * *
65513959 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
* * *
65514005 ATATGAGGTAAAGCCGAACGGCTAATGCGAAACATGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
* * *
65514051 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATG
65514096 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:65514308 original size:37 final size:37
Alignment explanation
Indices: 65514278--65514424 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
65514268 GTGGTGACTA
65514278 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
65514315 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
65514352 TGTCAGGGTAAAACCCGATGACTACGTGTGGAGA-TT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
65514388 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
65514425 CATCTGAGCT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 32 0.31
37 71 0.69
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:65514421 original size:73 final size:74
Alignment explanation
Indices: 65514278--65514424 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 74
65514268 GTGGTGACTA
* * *
65514278 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
1 TGTCAGGGTAAAACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTACGTG
65514343 TGGAGATTT
66 TGGAGATTT
*
65514352 TGTCAGGGTAAAACCCGATGACTACGTGTGGAGA-TTTGTCCGGGTAAGACCCGATAACTTCGTG
1 TGTCAGGGTAAAACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTACGTG
65514416 TGGAGATTT
66 TGGAGATTT
65514425 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
73 37 0.54
74 32 0.46
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (74 bp):
TGTCAGGGTAAAACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTACGTG
TGGAGATTT
Found at i:65515990 original size:40 final size:40
Alignment explanation
Indices: 65515687--65515977 Score: 456
Period size: 40 Copynumber: 7.3 Consensus size: 40
65515677 TGAGAGTTAT
*
65515687 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
65515727 ATATATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
65515767 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
65515807 ATATATCCGGGCTAAGTTTCGAAGAGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
65515847 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * * * *
65515887 ATATGTCCGGGCTAAGTTCCAAAGAGCATTTGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
65515927 ATATGTCCGGGCTAAGTTCCGAAGAGCAATCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
65515967 ATATATCCGGG
1 ATATATCCGGG
65515978 TTAAACCTCG
Statistics
Matches: 231, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 231 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:65516118 original size:57 final size:57
Alignment explanation
Indices: 65516009--65516143 Score: 134
Period size: 57 Copynumber: 2.4 Consensus size: 57
65515999 GCTAGAATTA
*
65516009 TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAGATCAGCGGT
1 TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAAATCAGCGGT
* ** * * *
65516066 TGAGGCACTAG-GTGTGCGAGTTCTTTAA-TCGAGCGCTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACT-GTGTGTGCAAGTTCTCCAACT-GAGCACTATGTGTGCCAAATCAG-CGGT
*
65516123 TG-GGCACTGTGTATGCGAAGT
1 TGAGGCACTGTGTGTGC-AAGT
65516144 GTGTTTCATG
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
55 1 0.02
56 12 0.19
57 48 0.75
58 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.27
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAAATCAGCGGT
Found at i:65519863 original size:52 final size:48
Alignment explanation
Indices: 65519778--65520208 Score: 282
Period size: 47 Copynumber: 9.1 Consensus size: 48
65519768 TTAGGATCTT
*
65519778 ATGTGATGAATGTGAA-TGTGTATATATGAGATAAGGCCAAATGG-AA
1 ATGTGATGAATGTGAACTGTATATATATGAGATAAGGCCAAATGGCAA
* *
65519824 ATGTGATGAATGTGAACCTGTATATATATATGAGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-CTG--TATATATATGA--GATAAGGCCAAATGGCAA
** * * * *
65519877 ATGTGATGAATGTGAACATG--CGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAC-TGTATATATATGAGATAAGGCCAAATGGCAA
** * * * *
65519924 ATGTGATGAATGTGAACATG--CGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAC-TGTATATATATGAGATAAGGCCAAATGGCAA
** * * ** *
65519971 ATGTGATGAATGTGAACATG--CGTATGTGTGATAAGGCGGAATGGCCA
1 ATGTGATGAATGTGAAC-TGTATATATATGAGATAAGGCCAAATGGCAA
* * * ** *
65520018 ATGTGATGAATGTGAACATG-A-GTATGTGTGATAAGGCGGAATGGCCA
1 ATGTGATGAATGTGAAC-TGTATATATATGAGATAAGGCCAAATGGCAA
** * * * *
65520065 ATGTGATGAATGTGAACATG--CGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAC-TGTATATATATGAGATAAGGCCAAATGGCAA
* * *
65520112 ATGTGATGAATGTGAACATGCATATA-A-GAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAC-TGTATATATATGAGATAAGGCCAAATGGCAA
* * *
65520159 ATGTGATGAATGTGAACATGTATATATGTG-G-TAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAAC-TGTATATATATGAGATAAGGCCAAATGGCAA
65520206 ATG
1 ATG
65520209 CGAAATGTGT
Statistics
Matches: 355, Mismatches: 16, Indels: 27
0.89 0.04 0.07
Matches are distributed among these distances:
46 16 0.05
47 284 0.80
48 3 0.01
49 8 0.02
50 10 0.03
52 15 0.04
53 19 0.05
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (48 bp):
ATGTGATGAATGTGAACTGTATATATATGAGATAAGGCCAAATGGCAA
Found at i:65519910 original size:47 final size:47
Alignment explanation
Indices: 65519852--65520208 Score: 597
Period size: 47 Copynumber: 7.6 Consensus size: 47
65519842 TGTATATATA
*
65519852 TATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
65519899 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
65519946 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* *
65519993 TATGTGTGATAAGGCGGAATGGCCAATGTGATGAATGTGAACATGAG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
*
65520040 TATGTGTGATAAGGCGGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
*
65520087 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
** * **
65520134 TATAAGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
65520181 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
65520209 CGAAATGTGT
Statistics
Matches: 296, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 296 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:65520024 original size:22 final size:22
Alignment explanation
Indices: 65519997--65520071 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
65519987 CATGCGTATG
65519997 TGTGATAAGGCGGAATGGCCAA
1 TGTGATAAGGCGGAATGGCCAA
* * * * *
65520019 TGTGATGAATGTGAACATGAG-TATG
1 TGTGAT-AAGGCGGA-ATG-GCCA-A
65520044 TGTGATAAGGCGGAATGGCCAA
1 TGTGATAAGGCGGAATGGCCAA
65520066 TGTGAT
1 TGTGAT
65520072 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 13 0.34
23 9 0.24
24 9 0.24
25 7 0.18
ACGTcount: A:0.31, C:0.09, G:0.35, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCGGAATGGCCAA
Found at i:65520318 original size:46 final size:46
Alignment explanation
Indices: 65520182--65520318 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
65520172 GAACATGTAT
* * *
65520182 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
* * *
65520228 ATATGAGGTAAAGCCGAACGGCTAATGCGAAACATGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
* * *
65520274 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATG
65520319 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:65520531 original size:37 final size:37
Alignment explanation
Indices: 65520501--65520648 Score: 260
Period size: 37 Copynumber: 4.0 Consensus size: 37
65520491 GTGGTGACTA
65520501 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
65520538 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
65520575 TGTCAGGGTAAAACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
65520612 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
65520649 CATCTGAGCT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:65522221 original size:40 final size:40
Alignment explanation
Indices: 65521918--65522208 Score: 456
Period size: 40 Copynumber: 7.3 Consensus size: 40
65521908 TGAGAGTTAT
*
65521918 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
65521958 ATATATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
65521998 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
65522038 ATATATCCGGGCTAAGTTTCGAAGAGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
65522078 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * * * *
65522118 ATATGTCCGGGCTAAGTTCCAAAGAGCATTTGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
65522158 ATATGTCCGGGCTAAGTTCCGAAGAGCAATCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
65522198 ATATATCCGGG
1 ATATATCCGGG
65522209 TTAAACCTCG
Statistics
Matches: 231, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 231 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:65522349 original size:57 final size:57
Alignment explanation
Indices: 65522240--65522374 Score: 134
Period size: 57 Copynumber: 2.4 Consensus size: 57
65522230 GCTAGAATTA
*
65522240 TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAGATCAGCGGT
1 TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAAATCAGCGGT
* ** * * *
65522297 TGAGGCACTAG-GTGTGCGAGTTCTTTAA-TCGAGCGCTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACT-GTGTGTGCAAGTTCTCCAACT-GAGCACTATGTGTGCCAAATCAG-CGGT
*
65522354 TG-GGCACTGTGTATGCGAAGT
1 TGAGGCACTGTGTGTGC-AAGT
65522375 GTGTTTCATG
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
55 1 0.02
56 12 0.19
57 48 0.75
58 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.27
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAAATCAGCGGT
Found at i:65526072 original size:47 final size:47
Alignment explanation
Indices: 65526018--65526442 Score: 582
Period size: 47 Copynumber: 8.9 Consensus size: 47
65526008 TTAGGATCTT
** * * *
65526018 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
65526065 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATATAT--GTGATAAGGCCGAATGGCCA
* *
65526118 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
65526165 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
65526212 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCGGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
65526259 ATGTGATGAATGTGAACATG-AGTATGTGTGATAAGGCGGAATGGCCA
1 ATGTGATGAATGTGAACATGCA-TATATGTGATAAGGCCGAATGGCCA
* *
65526306 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
65526353 ATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
65526400 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATG
65526443 CCTAATGCGA
Statistics
Matches: 349, Mismatches: 21, Indels: 16
0.90 0.05 0.04
Matches are distributed among these distances:
47 300 0.86
49 6 0.02
51 8 0.02
52 1 0.00
53 34 0.10
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:65526265 original size:22 final size:22
Alignment explanation
Indices: 65526238--65526312 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
65526228 CATGCGTATG
65526238 TGTGATAAGGCGGAATGGCCAA
1 TGTGATAAGGCGGAATGGCCAA
* * * * *
65526260 TGTGATGAATGTGAACATGAG-TATG
1 TGTGAT-AAGGCGGA-ATG-GCCA-A
65526285 TGTGATAAGGCGGAATGGCCAA
1 TGTGATAAGGCGGAATGGCCAA
65526307 TGTGAT
1 TGTGAT
65526313 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 13 0.34
23 9 0.24
24 9 0.24
25 7 0.18
ACGTcount: A:0.31, C:0.09, G:0.35, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCGGAATGGCCAA
Found at i:65526559 original size:46 final size:46
Alignment explanation
Indices: 65526423--65526559 Score: 168
Period size: 46 Copynumber: 3.0 Consensus size: 46
65526413 GAACATGTAT
* * * *
65526423 ATATGTGGTAAGGCCGAATGCCTAATGCGAAATGTGTATGAGATAG
1 ATATGTAGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
65526469 ATATG-AGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGTA-GTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
65526515 ATATGTAGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTAGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
65526560 TGTATATATA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
46 76 0.99
47 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.26
Consensus pattern (46 bp):
ATATGTAGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:65526772 original size:37 final size:37
Alignment explanation
Indices: 65526742--65526890 Score: 253
Period size: 37 Copynumber: 4.0 Consensus size: 37
65526732 GTGGTGACTA
*
65526742 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
65526779 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
*
65526816 TGTCCGGGTAAAACTCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
* * *
65526853 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
65526890 T
1 T
65526891 ATCTGAGCTA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (37 bp):
TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
Found at i:65527743 original size:39 final size:39
Alignment explanation
Indices: 65527700--65527870 Score: 297
Period size: 39 Copynumber: 4.4 Consensus size: 39
65527690 TGTTACAACT
*
65527700 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
65527739 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
* * *
65527778 TTAGCCCGGATATAACACCAGCATGAATACCTTCGAGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
*
65527817 TTAGCCCAGATATAACACCAGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
65527856 TTAGCCCGGATATAA
1 TTAGCCCGGATATAA
65527871 TTCTCCATTA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 123 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
Found at i:65540265 original size:27 final size:27
Alignment explanation
Indices: 65540166--65540275 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
65540156 GCATGGCTGT
* * *
65540166 CAGAACAGATAA-TGTGACAGAGTCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
* *
65540192 CAGATACAGATAATCGTGGCAAAGCCAC
1 CAGAT-CAGATAATTGTGGCAGAGCCAC
* *
65540220 TAGA-CAGA-AATATGCGGCAGAGCCAC
1 CAGATCAGATAAT-TGTGGCAGAGCCAC
*
65540246 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
65540273 CAG
1 CAG
65540276 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.04
26 22 0.33
27 26 0.39
28 16 0.24
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (27 bp):
CAGATCAGATAATTGTGGCAGAGCCAC
Found at i:65548075 original size:28 final size:28
Alignment explanation
Indices: 65548030--65548134 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 28
65548020 CTGCCAGAAT
* *
65548030 AGATAA-TGTGACAGAGTCACCAGATAC
1 AGATAATTGTGGCAGAGCCACCAGATAC
* *
65548057 AGATAATCGTGGCAGAGTCACCAGA-AC
1 AGATAATTGTGGCAGAGCCACCAGATAC
*
65548084 AGA-AATATGTGGTAGAGCCACCAGAT-C
1 AGATAAT-TGTGGCAGAGCCACCAGATAC
*
65548111 AGATAATTGTGGCATAGCCACCAG
1 AGATAATTGTGGCAGAGCCACCAG
65548135 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 3 0.04
27 45 0.67
28 19 0.28
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (28 bp):
AGATAATTGTGGCAGAGCCACCAGATAC
Found at i:65554853 original size:13 final size:12
Alignment explanation
Indices: 65554835--65554865 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
65554825 TTCAAAAAAA
65554835 TTTTTTCTTCTTT
1 TTTTTTC-TCTTT
65554848 TTTTTTCTCTTT
1 TTTTTTCTCTTT
65554860 TTTTTT
1 TTTTTT
65554866 GAAAATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:65554874 original size:16 final size:16
Alignment explanation
Indices: 65554855--65554888 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
65554845 TTTTTTTTTC
*
65554855 TCTTTTTTTTTGAAAA
1 TCTTTGTTTTTGAAAA
*
65554871 TCTTTGTTTTTGTAAA
1 TCTTTGTTTTTGAAAA
65554887 TC
1 TC
65554889 CATTCCACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.62
Consensus pattern (16 bp):
TCTTTGTTTTTGAAAA
Found at i:65555904 original size:28 final size:27
Alignment explanation
Indices: 65555850--65555961 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
65555840 AACATGGCTG
* *
65555850 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
65555876 CCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
65555904 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
65555931 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
65555958 CCAG
1 CCAG
65555962 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.64
28 19 0.25
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:65555942 original size:54 final size:54
Alignment explanation
Indices: 65555850--65555961 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
65555840 AACATGGCTG
* * *
65555850 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
65555904 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
65555958 CCAG
1 CCAG
65555962 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:65563039 original size:22 final size:23
Alignment explanation
Indices: 65563014--65563067 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
65563004 TCAACTTGAT
*
65563014 GAGCTTACTATTT-AGCTCAATA
1 GAGCTTACGATTTCAGCTCAATA
*
65563036 GAGCTTACCGGTTTCAGCTCAATA
1 GAGCTTA-CGATTTCAGCTCAATA
65563060 GAGCTTAC
1 GAGCTTAC
65563068 CGCTTATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 5 0.18
24 16 0.57
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (23 bp):
GAGCTTACGATTTCAGCTCAATA
Found at i:65565022 original size:46 final size:46
Alignment explanation
Indices: 65564972--65565144 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
65564962 TGGTTGAGCA
*
65564972 TCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
65565018 TCCGAACTTGTTGAGTTGAGTTCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65565063 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
65565111 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65565145 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65565128 original size:93 final size:93
Alignment explanation
Indices: 65564969--65565139 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
65564959 GGATGGTTGA
* * * *
65564969 GCATCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
65565034 TGAGTTCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
65565062 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65565127 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
65565140 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:65574343 original size:23 final size:23
Alignment explanation
Indices: 65574317--65574368 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
65574307 TGAAGTGTGC
*
65574317 CATATCTTTGCTTTGAGATACAA
1 CATATCTTTGCTTCGAGATACAA
*
65574340 CATATCTTTGCTTCGAGATACAG
1 CATATCTTTGCTTCGAGATACAA
65574363 CATATC
1 CATATC
65574369 ACGGGTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (23 bp):
CATATCTTTGCTTCGAGATACAA
Found at i:65584505 original size:40 final size:40
Alignment explanation
Indices: 65584468--65584693 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
65584458 GCTACTCGTT
*
65584468 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
65584508 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
65584548 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
65584587 CAAATGCCTTC-GGATCTTAGTCTGGATATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAACTCGCA
* * * * *
65584628 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
65584669 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65584694 CATCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 75 0.47
41 52 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65584579 original size:79 final size:81
Alignment explanation
Indices: 65584435--65584640 Score: 221
Period size: 80 Copynumber: 2.6 Consensus size: 81
65584425 AAATCACGTA
** **
65584435 CCTTCGGAAT-TTAA-CCGGATA-TAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTA
1 CCTTCGG-ATCTTAACCCGGATATTAG-TAACTCGCACAAATGCCTTCGGGACATAGCCCGAATA
*
65584496 TAGTAACTCGCACAATTG
64 TAGTAACTCGCACAAATG
*
65584514 CCTTCGGGA-CTTAACCCGGAT-TTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGAA-AT
1 CCTTC-GGATCTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGACATAGCCCGAATA-
*
65584575 TAGTATCTCGCACAAATG
64 TAGTAACTCGCACAAATG
** * *
65584593 CCTTCGGATCTTAGTCTGGATATTAGTATCTCGCACAAATGCCTTCGG
1 CCTTCGGATCTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGG
65584641 ATCTTAGTCC
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
78 4 0.04
79 49 0.45
80 55 0.51
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGACATAGCCCGAATATA
GTAACTCGCACAAATG
Found at i:65584630 original size:80 final size:80
Alignment explanation
Indices: 65584468--65584693 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 80
65584458 GCTACTCGTT
** *
65584468 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
65584533 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * ** *
65584548 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCT
1 CAAATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
65584610 GGATATTAGTATCTCGCA
64 GGAT-TTAGTAACTCGCA
* * * * * * *
65584628 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
65584691 GGA
64 GGA
65584694 CATCATTCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
78 4 0.03
79 40 0.33
80 37 0.31
81 28 0.23
82 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:65587672 original size:23 final size:23
Alignment explanation
Indices: 65587637--65587721 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 23
65587627 TGGACTCACC
* *
65587637 AGCTCGTATGAGCTTACCGATTT
1 AGCTCATAAGAGCTTACCGATTT
*
65587660 AGCTCATAAGAGCTTA-CTATTT
1 AGCTCATAAGAGCTTACCGATTT
* ** *
65587682 CAACTCATTGGAGCTTACCGATTC
1 -AGCTCATAAGAGCTTACCGATTT
65587706 AGCTCA-ATAGAGCTTA
1 AGCTCATA-AGAGCTTA
65587722 TTGTTCAACT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
22 5 0.10
23 39 0.81
24 4 0.08
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (23 bp):
AGCTCATAAGAGCTTACCGATTT
Found at i:65587699 original size:46 final size:46
Alignment explanation
Indices: 65587646--65587773 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 46
65587636 CAGCTCGTAT
* *
65587646 GAGCTTACCGATTTAGCTC-ATAAGAGCTTACTATTTCAACTCATTG
1 GAGCTTACCGATTTAGCTCAAT-AGAGCTTACTATTTCAACTCAATA
*
65587692 GAGCTTACCGATTCAGCTCAATAGAGCTTA-T-TGTTCAACTCAATA
1 GAGCTTACCGATTTAGCTCAATAGAGCTTACTAT-TTCAACTCAATA
* *
65587737 GAGCTTATCGTTTTCAGCTCAATAGAGCTTACTATTT
1 GAGCTTACCGATTT-AGCTCAATAGAGCTTACTATTT
65587774 ATCATATCGG
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
44 1 0.01
45 22 0.31
46 42 0.59
47 5 0.07
48 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (46 bp):
GAGCTTACCGATTTAGCTCAATAGAGCTTACTATTTCAACTCAATA
Found at i:65587733 original size:22 final size:22
Alignment explanation
Indices: 65587680--65587767 Score: 86
Period size: 22 Copynumber: 3.9 Consensus size: 22
65587670 AGCTTACTAT
* * **
65587680 TTCAACTCATTGGAGCTTACCG
1 TTCAACTCAATAGAGCTTATTG
*
65587702 ATTCAGCTCAATAGAGCTTATTG
1 -TTCAACTCAATAGAGCTTATTG
*
65587725 TTCAACTCAATAGAGCTTATCGTT
1 TTCAACTCAATAGAGCTTAT--TG
*
65587749 TTCAGCTCAATAGAGCTTA
1 TTCAACTCAATAGAGCTTA
65587768 CTATTTATCA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 19 0.35
23 17 0.31
24 19 0.35
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (22 bp):
TTCAACTCAATAGAGCTTATTG
Found at i:65587757 original size:24 final size:22
Alignment explanation
Indices: 65587703--65587767 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
65587693 AGCTTACCGA
65587703 TTCAGCTCAATAGAGCTTATTG
1 TTCAGCTCAATAGAGCTTATTG
* *
65587725 TTCAACTCAATAGAGCTTATCGTT
1 TTCAGCTCAATAGAGCTTAT--TG
65587749 TTCAGCTCAATAGAGCTTA
1 TTCAGCTCAATAGAGCTTA
65587768 CTATTTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 19 0.50
24 19 0.50
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (22 bp):
TTCAGCTCAATAGAGCTTATTG
Found at i:65595309 original size:13 final size:13
Alignment explanation
Indices: 65595288--65595319 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
65595278 TAATATGTCC
*
65595288 ATTAACTTAGTCA
1 ATTAGCTTAGTCA
65595301 ATTAGCTTAGTCA
1 ATTAGCTTAGTCA
65595314 ATTAGC
1 ATTAGC
65595320 AAATAAGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (13 bp):
ATTAGCTTAGTCA
Found at i:65595533 original size:33 final size:33
Alignment explanation
Indices: 65595495--65595603 Score: 132
Period size: 33 Copynumber: 3.3 Consensus size: 33
65595485 GGTGTACATT
**
65595495 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
*
65595528 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGTGGTACACACAAAGTATACCTAA
* * * *
65595561 CCTTTCCAACT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
65595593 CCTTTTCAAGT
1 CCTTTTCAAGT
65595604 TATTCCACTT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
32 28 0.43
33 36 0.55
34 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACCTAA
Found at i:65597318 original size:29 final size:29
Alignment explanation
Indices: 65597286--65597381 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
65597276 CCTGAGAATG
65597286 ACATGAGATATGATGAACTTATGGTAAGA
1 ACATGAGATATGATGAACTTATGGTAAGA
* * * **
65597315 ACATGTGTATATATATATGCACACATGAG-AATG-
1 ACA--TG-AGATAT-GATGAACTTATG-GTAA-GA
*
65597348 ACATGAGATATGATGAACTTGTGGTAAGA
1 ACATGAGATATGATGAACTTATGGTAAGA
65597377 ACATG
1 ACATG
65597382 TGTATATATA
Statistics
Matches: 48, Mismatches: 11, Indels: 16
0.64 0.15 0.21
Matches are distributed among these distances:
28 2 0.04
29 17 0.35
30 5 0.10
31 4 0.08
32 5 0.10
33 13 0.27
34 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (29 bp):
ACATGAGATATGATGAACTTATGGTAAGA
Found at i:65602553 original size:59 final size:61
Alignment explanation
Indices: 65602476--65602592 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
65602466 ACCACTTTAA
* * ** *
65602476 TATTAAATTAACATAATATTTA-T-CAAGATAAATATTGGATTATATTTAATATTAAATCT
1 TATTAAAATAACAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
* *
65602535 TATTAAAATAATAGAATATTTATCTACAAGATGAATATTAAATTAAATTTAATATTAA
1 TATTAAAATAACAGAATATTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
65602593 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (61 bp):
TATTAAAATAACAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:65605390 original size:86 final size:85
Alignment explanation
Indices: 65605226--65605390 Score: 181
Period size: 86 Copynumber: 1.9 Consensus size: 85
65605216 TCACTTATTT
* * * *
65605226 AGGTACTTGAACTTTCAAAATACATAAAAAAAAATCTCAAACTTTTGAAAAAAAACTAATTAAGC
1 AGGTACTTGAACTTCCAAAATACATAAAAAAAAACCTCAAACTTTTAAAAAAAAACCAATTAAG-
* **
65605291 CCCTACTTTTTTTACTCAATC
65 CCCTAATGCTTTTACTCAATC
* * * *
65605312 AGGTACTTGTACTTCCAAAATGCATAAAAAAGACCCTCAAACTTTTTTAAAAAAAAACACAATTA
1 AGGTACTTGAACTTCCAAAATACATAAAAAAAAACCTCAAAC--TTTTAAAAAAAAAC-CAATTA
65605377 AG-CC-AATGCTTTTA
63 AGCCCTAATGCTTTTA
65605391 TTAAAAATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
86 43 0.66
87 2 0.03
88 13 0.20
89 7 0.11
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (85 bp):
AGGTACTTGAACTTCCAAAATACATAAAAAAAAACCTCAAACTTTTAAAAAAAAACCAATTAAGC
CCTAATGCTTTTACTCAATC
Found at i:65605470 original size:37 final size:36
Alignment explanation
Indices: 65605428--65605531 Score: 102
Period size: 37 Copynumber: 2.8 Consensus size: 36
65605418 AATTAAAATC
65605428 AATTAAATCTATAAATATTATTAAATTTTA-ATAAAAA
1 AATTAAATCT-TAAATATTATTAAATTTTAGA-AAAAA
* * *
65605465 AATTAAATATTAAAAATTTATTAAAATTTAGAAAAAA
1 AATTAAATCTTAAATA-TTATTAAATTTTAGAAAAAA
* *
65605502 TATAAAACTCTTAAATATATATATAAATTT
1 AATTAAA-TCTTAAATAT-TAT-TAAATTT
65605532 GTAAAATTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
36 5 0.09
37 32 0.59
38 11 0.20
39 6 0.11
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (36 bp):
AATTAAATCTTAAATATTATTAAATTTTAGAAAAAA
Found at i:65605567 original size:10 final size:10
Alignment explanation
Indices: 65605469--65605607 Score: 63
Period size: 10 Copynumber: 14.2 Consensus size: 10
65605459 TAAAAAAATT
65605469 AAATAT-TAA
1 AAATATATAA
* *
65605478 AAATTTATTA
1 AAATATATAA
* *
65605488 AAATTTAGAA
1 AAATATATAA
65605498 AAA-ATATAA
1 AAATATATAA
* *
65605507 AACTCT-TAA
1 AAATATATAA
* *
65605516 ATATATATAT
1 AAATATATAA
* *
65605526 AAATTTGTAA
1 AAATATATAA
* *
65605536 AATTTTATAA
1 AAATATATAA
*
65605546 AAATCGTA-AA
1 AAAT-ATATAA
65605556 AAATATAT-A
1 AAATATATAA
*
65605565 AAATATATAG
1 AAATATATAA
*
65605575 AAATATAAAAA
1 AAATAT-ATAA
*
65605586 AAATTTATAA
1 AAATATATAA
* *
65605596 AATTTTATAA
1 AAATATATAA
65605606 AA
1 AA
65605608 TCGTAAGAAA
Statistics
Matches: 96, Mismatches: 27, Indels: 13
0.71 0.20 0.10
Matches are distributed among these distances:
9 28 0.29
10 59 0.61
11 9 0.09
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (10 bp):
AAATATATAA
Found at i:65605567 original size:30 final size:30
Alignment explanation
Indices: 65605533--65605629 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
65605523 TATAAATTTG
65605533 TAAAATTTTATAAAAATCGTAAAAAATATA
1 TAAAATTTTATAAAAATCGTAAAAAATATA
* ** *
65605563 TAAAA-TATATAGAAATAT-AAAAAAAATTTA
1 TAAAATTTTATA-AAA-ATCGTAAAAAATATA
65605593 TAAAATTTTAT-AAAATCGTAAGAAAATTATA
1 TAAAATTTTATAAAAATCGTAA-AAAA-TATA
*
65605624 CAAAAT
1 TAAAAT
65605630 GTAAATAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
28 2 0.04
29 10 0.19
30 26 0.50
31 14 0.27
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (30 bp):
TAAAATTTTATAAAAATCGTAAAAAATATA
Found at i:65605618 original size:21 final size:20
Alignment explanation
Indices: 65605594--65605633 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
65605584 AAAAATTTAT
* *
65605594 AAAATTTTATAAAATCGTAAG
1 AAAATTATACAAAAT-GTAAG
65605615 AAAATTATACAAAATGTAA
1 AAAATTATACAAAATGTAA
65605634 ATAAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATTATACAAAATGTAAG
Found at i:65605854 original size:36 final size:35
Alignment explanation
Indices: 65605804--65605879 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 35
65605794 AGTCATTAAT
* **
65605804 TTTTTTATGATTTTAT-AAAATTTTATAATTTTTTA
1 TTTTTTACGATTTTATAAAAAAATT-TAATTTTTTA
65605839 TTTTTTACGATTTTTATAAAAAAATTTAATTTTTTA
1 TTTTTTACGA-TTTTATAAAAAAATTTAATTTTTTA
65605875 TTTTT
1 TTTTT
65605880 ATTAAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 9 0.25
36 21 0.58
37 6 0.17
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (35 bp):
TTTTTTACGATTTTATAAAAAAATTTAATTTTTTA
Found at i:65605899 original size:20 final size:19
Alignment explanation
Indices: 65605874--65605927 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
65605864 TTAATTTTTT
65605874 ATTTTTATTAAAATTTAATA
1 ATTTTT-TTAAAATTTAATA
* *
65605894 ATTTTTTTTAAATTTATTA
1 ATTTTTTTAAAATTTAATA
65605913 ATTACTTTTTAAAAT
1 ATT--TTTTTAAAAT
65605928 AATTTAAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 14 0.48
20 6 0.21
21 9 0.31
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTTTAAAATTTAATA
Found at i:65606452 original size:21 final size:21
Alignment explanation
Indices: 65606426--65606481 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
65606416 TTTTCAAATC
*
65606426 GAGTTGAGTAAAATGAAGTTT
1 GAGTTGAGTAAAATGAAATTT
*
65606447 GAGTTGAGTGAAATGAAATTT
1 GAGTTGAGTAAAATGAAATTT
* * *
65606468 AAGTCGAGTCAAAT
1 GAGTTGAGTAAAAT
65606482 CGAGTGACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.27, T:0.30
Consensus pattern (21 bp):
GAGTTGAGTAAAATGAAATTT
Found at i:65612850 original size:28 final size:27
Alignment explanation
Indices: 65612819--65612892 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
65612809 AATATAGAAT
* * *
65612819 AAATAATATATATATAAATGAATTTTTA
1 AAATAATATATATA-AAAAGAACTTTGA
65612847 AAATAAGTAT-TATAAAAAGAACTTTGA
1 AAATAA-TATATATAAAAAGAACTTTGA
* *
65612874 AAAGAATACTATACAAAAA
1 AAATAATA-TATATAAAAA
65612893 TAATTTAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 2 0.05
27 16 0.42
28 17 0.45
29 3 0.08
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATAATATATATAAAAAGAACTTTGA
Found at i:65615376 original size:176 final size:176
Alignment explanation
Indices: 65614901--65615554 Score: 663
Period size: 176 Copynumber: 3.7 Consensus size: 176
65614891 CTGGTGACTT
* * * * * * * *
65614901 AAATCTGCCCCATTGCCAATACATGGAGATAAGATTCGCCATCCTCAATCTGCTCCGCAACTACC
1 AAATCTGCTCCATTGCCAATACATAGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
* * * * *
65614966 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCC-TTGCTACATCAGGAATATAAGACTACAA
66 TAGAGAGATAAGATCTTCAATCTTCAGTCTGC-TCCACTGCAACCTCAGGAAGATAAGACTACAA
* * *
65615030 TCGCCAACCTGCTCTCTTGCTACTTCAGAGAGGTAAGGTCAGTGGTA
130 TTGCCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCCAGTGGTA
* * * *
65615077 AAATCTGCTCCATTTCCGATACATAGAGATAAGATTCACCATCTTCGATCTGCTCCCCTACTGCT
1 AAATCTGCTCCATTGCCAATACATAGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
* * * * * ** * * *
65615142 TAAAGATATAAAATCTTCAATTTTCAGTCTGCTTCTTTGCTACCTCAAGAAAATAAGACTACAAT
66 TAGAGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGACTACAAT
65615207 TGCCAACCTGCTCTCTTGCTACCTT-AGAGAGATAAGGCCAGTGGTA
131 TGCCAACCTGCTCTCTTGCTA-CTTCAGAGAGATAAGGCCAGTGGTA
* *
65615253 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCTCTACTGCT
1 AAATCTGCTCCATTGCCAATACATAGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
* * * **
65615318 TAGGGAGATAAGATCTTCAATCTTTAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTAT
66 TAGAGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGAC-TACA-
* * * * ** * *
65615383 ATTG--AGCCTGCTC-CACTGCAACTTCAGGGAGATAAGGCTGGTGACTT
129 ATTGCCAACCTGCTCTC-TTGCTACTTCAGAGAGATAAGGCCAGTG-GTA
* * ** * *** * * * *
65615430 AAATTTGCTCCGTTGCCGGTACATAGAGATAAGACTCGTTGTCTTTGGTTTGTTCCACTACTGCT
1 AAATCTGCTCCATTGCCAATACATAGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
* * *
65615495 TAGAGAAATAAGA-CTTGCAATCTTCAGTCTACTCCACTGCAACCTCAGGGAGATAAGACT
66 TAGAGAGATAAGATCTT-CAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGACT
65615555 TGTTATGATC
Statistics
Matches: 401, Mismatches: 69, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
175 6 0.01
176 283 0.71
177 108 0.27
178 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (176 bp):
AAATCTGCTCCATTGCCAATACATAGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
TAGAGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGACTACAAT
TGCCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCCAGTGGTA
Found at i:65615394 original size:44 final size:45
Alignment explanation
Indices: 65615319--65615418 Score: 139
Period size: 44 Copynumber: 2.2 Consensus size: 45
65615309 TCTACTGCTT
* * *
65615319 AGGGAGATAAGATCTTCAATCTTTAGTCTGCTCCACTGCAACCTC
1 AGGGAGATAAGATCTTCAATATTGAGCCTGCTCCACTGCAACCTC
** *
65615364 AGGGAGATAAGA-CTTGTATATTGAGCCTGCTCCACTGCAACTTC
1 AGGGAGATAAGATCTTCAATATTGAGCCTGCTCCACTGCAACCTC
65615408 AGGGAGATAAG
1 AGGGAGATAAG
65615419 GCTGGTGACT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
44 37 0.76
45 12 0.24
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (45 bp):
AGGGAGATAAGATCTTCAATATTGAGCCTGCTCCACTGCAACCTC
Found at i:65615833 original size:64 final size:64
Alignment explanation
Indices: 65615732--65615923 Score: 330
Period size: 64 Copynumber: 3.0 Consensus size: 64
65615722 TTCATGTATC
* *
65615732 ATGCTTATGCCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
*
65615796 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCGCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
** *
65615860 ATGCTTATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTGGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
65615924 TTATGAATGA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 121 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:65617078 original size:9 final size:9
Alignment explanation
Indices: 65617064--65617106 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
65617054 TCTTCTTCTT
65617064 TTTTTTTGA
1 TTTTTTTGA
65617073 TTTTTTTGA
1 TTTTTTTGA
65617082 TTTATTTT--
1 TTT-TTTTGA
65617090 TTTATTTTGA
1 TTT-TTTTGA
65617100 TTTTTTT
1 TTTTTTT
65617107 AAAAAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.26
9 16 0.52
10 7 0.23
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:65617102 original size:14 final size:14
Alignment explanation
Indices: 65617062--65617107 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
65617052 TTTCTTCTTC
65617062 TTTTT-TTTTGATT
1 TTTTTATTTTGATT
65617075 TTTTTGA-TTT-ATT
1 TTTTT-ATTTTGATT
65617088 TTTTTATTTTGATT
1 TTTTTATTTTGATT
65617102 TTTTTA
1 TTTTTA
65617108 AAAAGTCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.03
13 16 0.55
14 12 0.41
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (14 bp):
TTTTTATTTTGATT
Found at i:65622697 original size:6 final size:6
Alignment explanation
Indices: 65622686--65622717 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
65622676 GTATAATTAC
*
65622686 AAAAAT AAAAAT AAAAAT AAAAAT AAACAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
65622718 TATCATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:65624664 original size:79 final size:81
Alignment explanation
Indices: 65624553--65624737 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
65624543 GCTACTCGTT
* *
65624553 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
65624616 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
65624633 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
65624697 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
65624713 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCG-GGCTTAGCCCGGA
65624738 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.58
80 35 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:65624670 original size:39 final size:40
Alignment explanation
Indices: 65624553--65624737 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
65624543 GCTACTCGTT
*
65624553 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
65624593 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
65624633 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
65624672 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
65624713 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65624738 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65632697 original size:79 final size:82
Alignment explanation
Indices: 65632586--65632770 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
65632576 GCTACTCGTT
* *
65632586 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
65632649 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
65632666 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
65632729 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
65632746 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65632771 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:65632770 original size:40 final size:40
Alignment explanation
Indices: 65632567--65632770 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
65632557 CGGAATTTAA
** *
65632567 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
65632607 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
65632647 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
65632686 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
65632726 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
65632766 CCGGA
1 CCGGA
65632771 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:65635314 original size:6 final size:6
Alignment explanation
Indices: 65635304--65635334 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
65635294 ATTATTTATT
*
65635304 TTTTGT TTTTGG TTTTGG TTTTGG TTTTGG T
1 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG T
65635335 GTAAGCCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (6 bp):
TTTTGG
Found at i:65636303 original size:27 final size:27
Alignment explanation
Indices: 65636230--65636294 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
65636220 TGTAACCCTA
* *
65636230 TGTTTACTATCCCGAC-GAACTACCCCG
1 TGTTTACTGTCTCGACAG-ACTACCCCG
*
65636257 TGTTTACTGTCTCGATAGACTACCCCG
1 TGTTTACTGTCTCGACAGACTACCCCG
65636284 TGTTTACTGTC
1 TGTTTACTGTC
65636295 CTGGCAGACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (27 bp):
TGTTTACTGTCTCGACAGACTACCCCG
Found at i:65637382 original size:23 final size:23
Alignment explanation
Indices: 65637351--65638487 Score: 871
Period size: 23 Copynumber: 49.7 Consensus size: 23
65637341 AAATAAGTAC
*
65637351 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
65637374 TTAAGCACTTCAATTTACTGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65637397 TTAAACACTTCAATTTGTAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65637420 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
65637444 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
*
65637466 TTAAACACCTCAATTAT--AGCGA-
1 TTAAACACTTCAATT-TGCAGC-AT
* * * *
65637488 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* ** *
65637511 CTAAACACTTCAATTTGCAATAC
1 TTAAACACTTCAATTTGCAGCAT
*
65637534 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
65637557 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
65637580 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65637603 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
65637627 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
*
65637649 TTAAACACCTCAATTAT--AGCGA-
1 TTAAACACTTCAATT-TGCAGC-AT
* * * *
65637671 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * *
65637694 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
65637717 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
65637740 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65637763 TCAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65637786 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
*
65637810 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65637832 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
* ** *
65637856 TT-TACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
* * *
65637878 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * * *
65637900 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* * * *
65637923 CTAAACACTTCAATTTACAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
65637946 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
65637969 TTAAGCACATCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
65637992 TTAAACACTTCAACTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65638015 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
*
65638039 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
65638061 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
* ** *
65638085 TT-AGCA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
* * *
65638107 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * * * *
65638129 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTGCAGCAT
* *
65638152 CTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
65638175 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65638198 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65638221 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
* *
65638245 TT-AACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTGCAGCAT
*
65638267 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
** *
65638291 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
* * *
65638313 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * *
65638335 TAAAACA-TCTCAATATCCAGCCA-
1 TTAAACACT-TCAATTTGCAG-CAT
* * *
65638358 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
65638381 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
65638404 TTAAGCATTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
65638427 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
65638450 TCAAACACTTCAGTTTGCAGCAGT
1 TTAAACACTTCAATTTGCAGCA-T
*
65638474 TT-AACACCTCAATT
1 TTAAACACTTCAATT
65638488 AACAATATTT
Statistics
Matches: 887, Mismatches: 170, Indels: 114
0.76 0.15 0.10
Matches are distributed among these distances:
21 2 0.00
22 102 0.11
23 756 0.85
24 27 0.03
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAACACTTCAATTTGCAGCAT
Found at i:65637774 original size:229 final size:228
Alignment explanation
Indices: 65637512--65638487 Score: 1254
Period size: 229 Copynumber: 4.3 Consensus size: 228
65637502 GTCCAGCAAC
* ** *
65637512 TAAACACTTCAATTTGCAATACTT-AAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACA
1 TAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTGCAGCATTTAA-CACTTCAATTTACA
* *
65637576 GCA-TTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAAT
64 GCACTTT-AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAAT
*
65637640 TAACAACATTTAAACACCTCAATTATAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTC
128 TAACAACATTTAAACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTC
** *
65637705 AATTTGCAGTACTTAAACACTTCAATTTGCAACATT
193 AATTTGCAACACTTAAACACTTCAATTTACAACATT
* * *
65637741 TAAGCACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCATT-TAACACTTCAATTTACAG
* *
65637806 CACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTA
65 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
*
65637871 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAA
130 ACAACATTTAAACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAA
* ** *
65637936 TTTACAGTACTTAAACACTTCAATTTGCAACATT
195 TTTGCAACACTTAAACACTTCAATTTACAACATT
* * * * * * *
65637970 TAAGCACATCAATTTACAGCATTTAAACACTTCAACTTACAGCATTCAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCATT-TAACACTTCAATTTACAG
*
65638035 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAGCATCTCAATTA
65 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
* *
65638100 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAACAACTAAACACTTCAA
130 ACAACATTTAAACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAA
* * *
65638165 TTTGCAACATTTAAGCACTTCAATTTACAGCATT
195 TTTGCAACACTTAAACACTTCAATTTACAACATT
*
65638199 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAA
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCA-TTTAACACTTCAATTTACAG
* ** * *
65638264 CA-TTTAAGCACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACA-TTTATACACCTCA
65 CACTTTAA-CACTTCAATTTACAGCA-TTTAAACACT-TCAATTTGCAGCACTTTA-ACATCTCA
* * * * * * * *
65638325 ATT-ACAGCGA-TAAAACATCTCAATATCCAGCCACT-AAACA-CTTCAATTTGCAG-TACTTAA
126 ATTAACAAC-ATTTAAACACCTCAAT-TACAGCGA-TAAAACATC-TCAATGTCCAGCAAC-TAA
* * * *
65638385 ACACTTCAATTTGCAACATTTAAGCATTTCAATTTACAGCATT
186 ACACTTCAATTTGCAACACTTAAACACTTCAATTTACAACATT
* *
65638428 TAAACACTTCAATTTACAGCATTCAAACACTTCAGTTTGCAGCAGTTTAACACCTCAATT
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCA-TTTAACACTTCAATT
65638488 AACAATATTT
Statistics
Matches: 677, Mismatches: 57, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
228 30 0.04
229 636 0.94
230 11 0.02
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (228 bp):
TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCATTTAACACTTCAATTTACAGC
ACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAA
CAACATTTAAACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAAT
TTGCAACACTTAAACACTTCAATTTACAACATT
Found at i:65637934 original size:183 final size:182
Alignment explanation
Indices: 65637353--65638487 Score: 943
Period size: 183 Copynumber: 6.2 Consensus size: 182
65637343 ATAAGTACTT
* * *
65637353 AAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACTGCATTTAAACACTTCAATTTGTAGC
1 AAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
* * *
65637418 ATTCAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTAAACACCTCAATTA
66 ATTCAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAGCATTTAAACACTTCAATT-
* ** *
65637482 T-AGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAATACTT
129 TCAGC-ATAAAACATCTCAATGTACAGCAACTAAACACTTCAATTTGCAGCACTA
*
65637536 AAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
* * *
65637601 ATTCAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTAAACACCTCAATTA
66 ATTCAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAGCATTTAAACACTTCAATT-
* * *
65637665 T-AGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTT
129 TCAGC-ATAAAACATCTCAATGTACAGCAACTAAACACTTCAATTTGCAGCACTA
* *
65637719 AAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
*
65637784 ATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAGCACTTCAATTTG
66 ATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTT-
*** * ** * * *
65637849 CAGCACTTTTACATCTCAAT-TAACAACATTTATACACCTCAA-TTACAGCGA-TA
130 CAGCA-TAAAACATCTCAATGT-ACAGCAACTAAACACTTCAATTTGCAGC-ACTA
* * * ** * * *
65637902 AAACA-TCTCAATGTCCAGCAACTAAACACTTCAATTTACAGTACTTAAACACTTCAATTTGCAA
1 AAACACT-TCAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAG
* * * * * *
65637966 CATTTAAGCACATCAATTTACAGCA-TTTAAACACTTCAACTTACAGCATTCAAACACTTCAATT
65 CATTCAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAGCATTTAAACACTTCAATT
** * ** *
65638030 TGCAGCACTTTAACA-CTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTT
129 T-CAGCA-TAAAACATC-TCAATGTACAGCAACTAAACACTTCAATTTGCAGCACTA
* * ** * * * * *
65638086 TAGCA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGTCC
1 AAACACT-TCAATTTGCAACATTTAAACACTTCAATTTACAGC-ATTTAAACACT-TCAATTTGC
* * *
65638147 AACA-ACTAAACACTTCAATTTGCAACA-TTTAAGCACTTCAATTTACAGCATTTAAACACTTCA
63 AGCATTC-AAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAGCATTTAAACACTTCA
* * * * * * * *
65638210 ATTTACAGCATTCAAACA-CTTCAATTTGCAGC-ACTTTAACACTTCAATTTACAACATTT
126 ATTT-CAGCA-TAAAACATC-TCAATGTACAGCAAC-TAAACACTTCAATTTGCAGCACTA
* * * * * * *
65638269 AAGCACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACATTTATACACCTCAA-TTACA
1 AAACACTTCAATTTGCAACA-TTTAAACACT-TCAATTTACAGCATTTAAACACTTCAATTTGCA
* * * * * * *
65638331 GCGA-TAAAACA-TCTCAATATCCAGCCAC-TAAACACTTCAATTTGCAGTACTTAAACACTTCA
64 GC-ATTCAAACACT-TCAATTTGCAG-CACTTTAACACTTCAATTTACAGCATTTAAACACTTCA
* * * * * ** * * *
65638393 ATTTGCAACATTTAAGCATTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTC
126 ATTT-CAGCA-TAAAACATCTCAATGTACAGCAACTAAACACTTCAATTTGCAGCACTA
* * *
65638452 AAACACTTCAGTTTGCAGCAGTTT-AACACCTCAATT
1 AAACACTTCAATTTGCAACA-TTTAAACACTTCAATT
65638488 AACAATATTT
Statistics
Matches: 808, Mismatches: 114, Indels: 60
0.82 0.12 0.06
Matches are distributed among these distances:
182 10 0.01
183 711 0.88
184 87 0.11
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (182 bp):
AAACACTTCAATTTGCAACATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC
ATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTC
AGCATAAAACATCTCAATGTACAGCAACTAAACACTTCAATTTGCAGCACTA
Found at i:65638282 original size:206 final size:204
Alignment explanation
Indices: 65637351--65638487 Score: 1081
Period size: 206 Copynumber: 5.5 Consensus size: 204
65637341 AAATAAGTAC
* * * * * * *
65637351 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACTGCATTTAAACACTTCAATTTGTA
1 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
* * ** * *
65637416 GCA-TTCAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTAAACACCTCAA
66 GCACTT-TAACACTTCAATTTACAGCA-TTTAACACT-TCAATTTGCAGCATTT-AACATCTCAA
* * * * * * * *
65637479 TTATAGCGA-TAAAACATCTCAATGTCCAGCAACT-AAACACTTCAATTTGCAA-TACTTAAACA
127 TTACAAC-ATTTAAACACCTCAAT-TACAGCGACTAAAACACTTCAATTTCCAACAAC-TAAACA
65637541 CTTCAATTTGCAACAT
189 CTTCAATTTGCAACAT
*
65637557 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCA
1 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
* * * **
65637622 GCACTTTAACA-TCTCAATTAACAACATTTAAACACCTCAATTAT--AGCGATAAAACATCTCAA
66 GCACTTTAACACT-TCAATTTACAGCATTT-AACACTTCAATT-TGCAGC-ATTTAACATCTCAA
* * ** * * * * * ** *
65637684 TGTCCAGCAACTAAACACTTCAATTTGCAG-TACTTAAACACTTCAATTTGCAACATTTAAGCAC
127 T-TACAACATTTAAACACCTCAA-TTACAGCGACTAAAACACTTCAATTTCCAACAACTAAACAC
* *
65637748 TTCAATTTACAGCAT
190 TTCAATTTGCAACAT
* * * * * * *
65637763 TCAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTAC
1 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTGC
* * ** * *
65637827 AGCA-TTTAAGCACTTCAATTTGCAGCACTTTTACA-TCTCAATTAACAACATTTATACACCTCA
65 AGCACTTTAA-CACTTCAATTTACAGCA-TTTAACACT-TCAATTTGCAGCATTTA-ACATCTCA
* * * * * * **
65637890 ATTACAGCGA-TAAAACATCTCAATGTCCAGCAACT-AAACACTTCAATTTAC-AGTACTTAAAC
126 ATTACAAC-ATTTAAACACCTCAAT-TACAGCGACTAAAACACTTCAATTTCCAACAAC-TAAAC
65637952 ACTTCAATTTGCAACAT
188 ACTTCAATTTGCAACAT
* *
65637969 TTAAGCACATCAATTTACAGCATTTAAACACTTCAACTTACAGCATTCAAACACTTCAATTTGCA
1 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
*
65638034 GCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAGCATCTCAATT
66 GCACTTTAACACTTCAATTTACAGCATTT-AACACTTCAATTTGCAGCA-TTTAACATCTCAATT
* *
65638099 AACAACATTTATACACCTCAATTACAGCGA-TAAAACA-TCTCAATGTCCAACAACTAAACACTT
129 -ACAACATTTAAACACCTCAATTACAGCGACTAAAACACT-TCAATTTCCAACAACTAAACACTT
65638162 CAATTTGCAACAT
192 CAATTTGCAACAT
65638175 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
1 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
*
65638240 GCACTTTAACACTTCAATTTACAACATTTAAGCACTTCAATTTGCAGCACTTTAACATCTCAATT
66 GCACTTTAACACTTCAATTTACAGCATTTAA-CACTTCAATTTGCAGCA-TTTAACATCTCAATT
* * * *
65638305 AACAACATTTATACACCTCAATTACAGCGA-TAAAACA-TCTCAATATCCAGCCACTAAACACTT
129 -ACAACATTTAAACACCTCAATTACAGCGACTAAAACACT-TCAATTTCCAACAACTAAACACTT
** *
65638368 CAATTTGCAGTAC
192 CAATTTGCAACAT
* * * * * * *
65638381 TTAAACACTTCAATTTGCAACATTTAAGCATTTCAATTTACAGCATTTAAACACTTCAATTTACA
1 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
* * * *
65638446 GCA-TTCAAACACTTCAGTTTGCAGCAGTTTAACACCTCAATT
66 GCACTT-TAACACTTCAATTTACAGCA-TTTAACACTTCAATT
65638488 AACAATATTT
Statistics
Matches: 784, Mismatches: 111, Indels: 72
0.81 0.11 0.07
Matches are distributed among these distances:
205 38 0.05
206 689 0.88
207 57 0.07
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (204 bp):
TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCA
GCACTTTAACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCATTTAACATCTCAATTAC
AACATTTAAACACCTCAATTACAGCGACTAAAACACTTCAATTTCCAACAACTAAACACTTCAAT
TTGCAACAT
Found at i:65641442 original size:29 final size:28
Alignment explanation
Indices: 65641393--65641448 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
65641383 TTTATATTGA
65641393 ATAAATATAAACATTTATATATGCAATAT
1 ATAAATATAAACATTTATATAT-CAATAT
65641422 ATAAATATAAA-ATGATT-TATATCAATA
1 ATAAATATAAACAT--TTATATATCAATA
65641449 ATTGTGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 7 0.28
29 16 0.64
30 2 0.08
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (28 bp):
ATAAATATAAACATTTATATATCAATAT
Found at i:65641919 original size:15 final size:15
Alignment explanation
Indices: 65641885--65641932 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
65641875 TTTAAACCCC
* *
65641885 AACCCTTAAACCAT-
1 AACCCATAATCCATA
*
65641899 AACCCATAATCCCTA
1 AACCCATAATCCATA
65641914 AACCCATAATCCATA
1 AACCCATAATCCATA
65641929 AACC
1 AACC
65641933 TTAAAATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:65641937 original size:22 final size:21
Alignment explanation
Indices: 65641888--65641961 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
65641878 AAACCCCAAC
*
65641888 CCTTAAACCATAACCCATAAT
1 CCTTAAACCATAACCCATAAA
* *
65641909 CCCTAAACCCATAATCCATAAA
1 CCTTAAA-CCATAACCCATAAA
** *
65641931 CCTTAAAATAGTAACTCATAAA
1 CCTTAAACCA-TAACCCATAAA
*
65641953 CATTAAACC
1 CCTTAAACC
65641962 CTTAACCAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (21 bp):
CCTTAAACCATAACCCATAAA
Found at i:65642249 original size:15 final size:15
Alignment explanation
Indices: 65642222--65642271 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
65642212 AAACTACCTT
*
65642222 TAAA-CCATGATCCC
1 TAAACCCATAATCCC
65642236 TAAACCCATAATCCC
1 TAAACCCATAATCCC
*
65642251 TAAACCCATAATCCA
1 TAAACCCATAATCCC
65642266 TAAACC
1 TAAACC
65642272 TTAAAATAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
14 4 0.12
15 29 0.88
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:65642814 original size:40 final size:40
Alignment explanation
Indices: 65642769--65642864 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
65642759 AAATTCTTTT
65642769 GCGGCGTTTTTAAAAAAACGCAGCTAAAGATCG-AGCAT-TA
1 GCGGCGTTTTTAAAAAAACGCAGCTAAAGAT-GTA-CATATA
* * * * * *
65642809 GCGGCGTTTTTTAATAAGCGCCGCTAAAGGTGTACCTATA
1 GCGGCGTTTTTAAAAAAACGCAGCTAAAGATGTACATATA
65642849 GCGGCGTTTTTAAAAA
1 GCGGCGTTTTTAAAAA
65642865 GCGCCGCTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.07
40 43 0.93
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (40 bp):
GCGGCGTTTTTAAAAAAACGCAGCTAAAGATGTACATATA
Found at i:65642982 original size:155 final size:154
Alignment explanation
Indices: 65642695--65643183 Score: 719
Period size: 155 Copynumber: 3.2 Consensus size: 154
65642685 TTTAAAAAAA
* * * * * * *
65642695 CGGCATTTTTAAAAAGCGCTGCTAAAGCCACTAAAAGCTCAATACAAAACGAAGCCATTTTGCAA
1 CGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTACAA
*
65642760 AATTCTTTTGCGGCGTTTTTAAAAAAACGCAGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATA
66 AAATCTTTTGCGGC-TTTTTAAAAAAACGCAGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATA
65642825 AGCGCCGCTAAAGGTGTACCTATAG
130 AGCGCCGCTAAAGGTGTACCTATAG
* *
65642850 CGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATATAAAACGACTTCGTTTTACAA
1 CGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTACAA
*
65642915 AAATCTTTTGCGGCATTTTTAAAAAAACGCTGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATA
66 AAATCTTTTGCGGC-TTTTTAAAAAAACGCAGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATA
*
65642980 AGCACCGCTAAAGGTGTACCTATAG
130 AGCGCCGCTAAAGGTGTACCTATAG
* *
65643005 TGGCGATTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTACAA
1 CGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTACAA
* * * *** * * * *
65643070 AACTCTTTTGCTGCTCTTTCTGAAAACGCCGCTAAAGATCGAGCATTAGCCGCGCTTTTTAAAAA
66 AAATCTTTTGCGGCTTTTTAAAAAAACGCAGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATAA
*
65643135 ACGCCGCTAAAGGTGTACCTATAG
131 GCGCCGCTAAAGGTGTACCTATAG
65643159 CGGCGTTTTTAATAAA-CGCCGCTAA
1 CGGCGTTTTTAA-AAAGCGCCGCTAA
65643184 TGCTCGATCT
Statistics
Matches: 302, Mismatches: 31, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
154 84 0.28
155 218 0.72
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (154 bp):
CGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTACAA
AAATCTTTTGCGGCTTTTTAAAAAAACGCAGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATAA
GCGCCGCTAAAGGTGTACCTATAG
Found at i:65643203 original size:39 final size:39
Alignment explanation
Indices: 65643093--65643225 Score: 124
Period size: 39 Copynumber: 3.3 Consensus size: 39
65643083 CTCTTTCTGA
* * * *
65643093 AAACGCCGCTAAAGATCGAGCATTAGCCGCGCTTTTTAAA
1 AAACGCCGCTAAAGATCGACCTTTAGCGGCG-TTTTTAAT
* *
65643133 AAACGCCGCTAAAGGT-GTACCTATAGCGGCGTTTTTAAT
1 AAACGCCGCTAAAGATCG-ACCTTTAGCGGCGTTTTTAAT
* * * * *
65643172 AAACGCCGCTAATGCTCGATCTTTAGAGGCGTTTTTCATT
1 AAACGCCGCTAAAGATCGACCTTTAGCGGCGTTTTT-AAT
65643212 CAAACGCCGCTAAA
1 -AAACGCCGCTAAA
65643226 AATGCCGCTA
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
39 37 0.49
40 27 0.36
41 12 0.16
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (39 bp):
AAACGCCGCTAAAGATCGACCTTTAGCGGCGTTTTTAAT
Found at i:65647595 original size:13 final size:13
Alignment explanation
Indices: 65647577--65647601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65647567 ATTTAAAAGA
65647577 TTACATAATCAAT
1 TTACATAATCAAT
65647590 TTACATAATCAA
1 TTACATAATCAA
65647602 ATCAAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:65653248 original size:37 final size:36
Alignment explanation
Indices: 65653193--65653324 Score: 112
Period size: 37 Copynumber: 3.6 Consensus size: 36
65653183 AGGACATAGG
65653193 TTTAGCTCGA-ACGAGTAACCTAATGTTGTTTTAAAAT
1 TTTAGCTCGACA-G-GTAACCTAATGTTGTTTTAAAAT
* *
65653230 TTTAGCTCAGACAGGTAACTTGATATG-TG-TTT-ATAT
1 TTTAGCTC-GACAGGTAACCT-A-ATGTTGTTTTAAAAT
*
65653266 TATTAGCTCGA-ACGAGTAACCTAATGTTGTTTTAAAAG
1 T-TTAGCTCGACA-G-GTAACCTAATGTTGTTTTAAAAT
*
65653304 TTTAGCTCGGACGGGTAACCT
1 TTTAGCTC-GACAGGTAACCT
65653325 GATATGTGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
35 4 0.05
36 10 0.13
37 47 0.61
38 12 0.16
39 4 0.05
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (36 bp):
TTTAGCTCGACAGGTAACCTAATGTTGTTTTAAAAT
Found at i:65653283 original size:74 final size:74
Alignment explanation
Indices: 65653194--65653352 Score: 282
Period size: 74 Copynumber: 2.1 Consensus size: 74
65653184 GGACATAGGT
* *
65653194 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAATTTTAGCTCAGACAGGTAACTTGATATGTG
1 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACAGGTAACCTGATATGTG
65653259 TTTATATTA
66 TTTATATTA
* *
65653268 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCGGACGGGTAACCTGATATGTG
1 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACAGGTAACCTGATATGTG
65653333 TTTATATTA
66 TTTATATTA
65653342 TTAGCTCGAAC
1 TTAGCTCGAAC
65653353 AAGCAATTGG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (74 bp):
TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACAGGTAACCTGATATGTG
TTTATATTA
Found at i:65653346 original size:37 final size:37
Alignment explanation
Indices: 65653231--65653349 Score: 127
Period size: 37 Copynumber: 3.2 Consensus size: 37
65653221 TTTTAAAATT
* * *
65653231 TTAGCTCAGACAGGTAACTTGATATGTGTTTATATTA
1 TTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
* * **
65653268 TTAGCTCGAACGAGTAACCT-A-ATGTTGTTT-TAAAA
1 TTAGCTCGGACGGGTAACCTGATATG-TGTTTATATTA
65653303 GTTTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
1 --TTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
65653342 TTAGCTCG
1 TTAGCTCG
65653350 AACAAGCAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
35 6 0.09
36 6 0.09
37 41 0.63
38 6 0.09
39 6 0.09
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (37 bp):
TTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
Found at i:65657283 original size:49 final size:49
Alignment explanation
Indices: 65657227--65657497 Score: 410
Period size: 49 Copynumber: 5.7 Consensus size: 49
65657217 GTATATTTGA
*
65657227 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
*
65657276 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
65657323 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
* *
65657372 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTACTGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
* * * * *
65657421 ATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
*
65657468 ATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGAATGTGAAAGTGTATATATATGTGATAAG
65657498 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 14, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
47 93 0.46
48 1 0.00
49 110 0.54
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
Found at i:65657391 original size:96 final size:96
Alignment explanation
Indices: 65657227--65657497 Score: 411
Period size: 96 Copynumber: 2.8 Consensus size: 96
65657217 GTATATTTGA
*
65657227 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
65657292 ATATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
65657323 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-
* * *
65657388 ATATATATGTGATAAGGCCTACTGGCCGATGTG
65 -TATATATGTGATAAGGCCGAATGGCCAATGTG
* * * * * *
65657421 ATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
*
65657484 ATAAATGTGATAAG
66 ATATATGTGATAAG
65657498 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
94 14 0.09
96 104 0.64
98 44 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:65657391 original size:145 final size:143
Alignment explanation
Indices: 65657227--65657497 Score: 470
Period size: 145 Copynumber: 1.9 Consensus size: 143
65657217 GTATATTTGA
65657227 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
65657292 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
66 ATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAGGC
65657357 CTAATGGCCAATGTG
129 CTAATGGCCAATGTG
*
65657372 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTACTGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * *
65657437 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 ATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
65657498 TCCCGAAGGG
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
143 10 0.08
144 1 0.01
145 109 0.91
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCT
AATGGCCAATGTG
Found at i:65657666 original size:37 final size:37
Alignment explanation
Indices: 65657616--65657760 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
65657606 CCGAGCTCTA
* *
65657616 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
65657653 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
65657690 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
65657727 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
65657761 AGCTAAAGGT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:65659347 original size:40 final size:40
Alignment explanation
Indices: 65659024--65659335 Score: 462
Period size: 40 Copynumber: 7.8 Consensus size: 40
65659014 GAGAATTGAG
65659024 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
65659064 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
65659104 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
65659144 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
65659184 AGTGATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
65659224 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
65659264 AGTGATATATCCGTGCTAAGTTCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
65659304 GGTGTTATATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
65659336 ATCATGCTGG
Statistics
Matches: 244, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 244 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:65663353 original size:47 final size:47
Alignment explanation
Indices: 65663268--65663724 Score: 788
Period size: 47 Copynumber: 9.6 Consensus size: 47
65663258 GTATATTTGA
65663268 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
65663317 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
65663364 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
65663413 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
65663460 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
65663507 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
65663554 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
65663601 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
65663648 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
65663695 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
65663725 TCCCGAAGGG
Statistics
Matches: 392, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
47 331 0.84
49 61 0.16
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:65663893 original size:37 final size:37
Alignment explanation
Indices: 65663843--65663987 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
65663833 CCGAGCTCTA
* *
65663843 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
65663880 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
65663917 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
65663954 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
65663988 AGCTAAAGGT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:65668030 original size:16 final size:15
Alignment explanation
Indices: 65668000--65668028 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
65667990 GTGTCTCCTT
65668000 TTTTTAAAATATTTA
1 TTTTTAAAATATTTA
65668015 TTTTTAAAATATTT
1 TTTTTAAAATATTT
65668029 TACTATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTAAAATATTTA
Found at i:65671390 original size:21 final size:21
Alignment explanation
Indices: 65671343--65671392 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
65671333 GAAACTAGTG
*
65671343 AGAATT-TATTTTCTGAGTAC
1 AGAATTCTATTTTCTGAATAC
65671363 A-AATTCTATTTTCTGGAATA-
1 AGAATTCTATTTTCT-GAATAC
65671383 AGAATTCTAT
1 AGAATTCTAT
65671393 CGGTTTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 12 0.46
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (21 bp):
AGAATTCTATTTTCTGAATAC
Found at i:65678878 original size:43 final size:41
Alignment explanation
Indices: 65678831--65678978 Score: 120
Period size: 43 Copynumber: 3.5 Consensus size: 41
65678821 TATTCTTGTA
* * *
65678831 TAAGACCACGTCTGGAACGTTTGCATCGATATGTGATTATGTG
1 TAAGACCACGTCTGGAACATTGGCATCG-TATGTGATT-CGTG
* * *
65678874 TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCGTG
1 TAAGACCACGTCTGGAACATTGGCATCGTATGTGATTCGTG
* * * *
65678915 TAAGACC-C-TAACTGGGACAGTGGCATCGATATGTGATAGCATG
1 TAAGACCACGT--CTGGAACATTGGCATCG-TATGTGAT-TCGTG
* *
65678958 TAAGACCACGTTTGGGACATT
1 TAAGACCACGTCTGGAACATT
65678979 TGAATTGTAC
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
41 26 0.30
42 15 0.17
43 42 0.49
44 1 0.01
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (41 bp):
TAAGACCACGTCTGGAACATTGGCATCGTATGTGATTCGTG
Found at i:65678930 original size:41 final size:43
Alignment explanation
Indices: 65678853--65678965 Score: 133
Period size: 41 Copynumber: 2.7 Consensus size: 43
65678843 TGGAACGTTT
* ** *
65678853 GCATCGATATGTGATTATGTGTAAGACCATGTCTGGGACATTG
1 GCATCGATATGTGATTACGTGTAAGACCATAACTGGGACAGTG
* *
65678896 GCATCG-TATTTGATT-CGTGTAAGACCCTAACTGGGACAGTG
1 GCATCGATATGTGATTACGTGTAAGACCATAACTGGGACAGTG
*
65678937 GCATCGATATGTGA-TAGCATGTAAGACCA
1 GCATCGATATGTGATTA-CGTGTAAGACCA
65678966 CGTTTGGGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 28 0.48
42 14 0.24
43 16 0.28
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
GCATCGATATGTGATTACGTGTAAGACCATAACTGGGACAGTG
Done.