Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 210 of 292
Found at i:62164767 original size:9 final size:9
Alignment explanation
Indices: 62164744--62164846 Score: 107
Period size: 9 Copynumber: 11.1 Consensus size: 9
62164734 ATTGATCATT
*
62164744 ACTTAAATA
1 ACTTACATA
*
62164753 AATTACATA
1 ACTTACATA
62164762 ACTTACATA
1 ACTTACATA
* *
62164771 ACTCATATA
1 ACTTACATA
62164780 ACTTACATA
1 ACTTACATA
*
62164789 ATTTACATAACA
1 ACTTACAT---A
62164801 ACTTACATA
1 ACTTACATA
*
62164810 ACTCACATA
1 ACTTACATA
62164819 ACTTACATA
1 ACTTACATA
*
62164828 ATTTACATA
1 ACTTACATA
*
62164837 ACTCACATA
1 ACTTACATA
62164846 A
1 A
62164847 TGTATATAAC
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
9 69 0.90
12 8 0.10
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:62164813 original size:39 final size:39
Alignment explanation
Indices: 62164761--62164838 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
62164751 TAAATTACAT
*
62164761 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
62164800 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
62164839 TCACATAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:62164838 original size:57 final size:57
Alignment explanation
Indices: 62164757--62164869 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
62164747 TAAATAAATT
* * *
62164757 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAATGTACATAACAACTTACATAACTC
* * *
62164814 ACATAACTTACATAATTTACATAACTCACATAATGTATATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAATGTACATAACAACTTACATAACT
62164870 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAATGTACATAACAACTTACATAACTC
Found at i:62164855 original size:18 final size:18
Alignment explanation
Indices: 62164814--62164856 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
62164804 TACATAACTC
* *
62164814 ACATAACTTACATAATTT
1 ACATAACTCACATAATGT
62164832 ACATAACTCACATAATGT
1 ACATAACTCACATAATGT
*
62164850 ATATAAC
1 ACATAAC
62164857 AACTTACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (18 bp):
ACATAACTCACATAATGT
Found at i:62164855 original size:27 final size:27
Alignment explanation
Indices: 62164758--62164856 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
62164748 AAATAAATTA
* *
62164758 CATAACTTACATAACTCATATAACTTA
1 CATAATTTACATAACTCACATAACTTA
* *
62164785 CATAATTTACATAACAACTTACATAACTCA
1 CATAATTTACAT---AACTCACATAACTTA
* * * *
62164815 CATAACTTACATAATTTACATAACTCA
1 CATAATTTACATAACTCACATAACTTA
* *
62164842 CATAATGTATATAAC
1 CATAATTTACATAAC
62164857 AACTTACATA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 36 0.61
30 23 0.39
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.32
Consensus pattern (27 bp):
CATAATTTACATAACTCACATAACTTA
Found at i:62168344 original size:32 final size:34
Alignment explanation
Indices: 62168308--62168372 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
62168298 TAACAGTGGT
*
62168308 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
62168340 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
62168373 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:62169300 original size:887 final size:889
Alignment explanation
Indices: 62167574--62169347 Score: 2983
Period size: 887 Copynumber: 2.0 Consensus size: 889
62167564 AGTGCATGTG
* * * *
62167574 TAGCACCCAAAACCCGGCCCAGACGTTATGGCCGGATTCGACATGCCACATCGAAGCATTCAAAA
1 TAGCACCCAAAACCCGGCCCAGAAGTTATGGCCGGATCCGACATGCCACATCAAAACATTCAAAA
* * * *
62167639 CATTTCCGATCCAGAAAGAAAACTTACTGAGTGTTTTAAAAGATGATTTCATTATAGGTTAAAAT
66 CATTTCCGATCAAGAAAGAAAACGTACTGAGTGTTTCAAAAGATGAATTCATTATAGGTTAAAAT
62167704 GAATGGAAGCTGTACACCAGGTAGGAAACCGGAAAAGAGGAGGTGAGTCCATCAAACTGCTTAAG
131 GAATGGAAGCTGTACACCAGGTAGGAAACCGGAAAAGAGGAGGTGAGTCCATCAAACTGCTTAAG
* * *
62167769 TACCAAACTCCCTTCGGATCCAATCCTAGACATGCAAACTGCCATTGTCATACCTTAACGTCATG
196 TACCAAACTCCCTTCGGATCCAATCCTAGACATGCAAACCGCCATTGCCACACCTTAACGTCATG
* * * *
62167834 TATATTTCTAGGAAACTGATTTAATTAAGTCCTTTTTCGGAAAAGTGATTAATTTTGGAAAATAT
261 GATATTTCTAGGAAACCGATTTAATTAAGTCATTTTTAGGAAAAGTGATTAATTTTGGAAAATAT
* *
62167899 CTTCATTGCGGAAGCTTTGCTTGTTTTCGTGTCATTTTGAAATCAATTACAGTTTTTGAAAACGC
326 CTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTCATTTTGAAATCAACTACAGTTTTTGAAAACGC
62167964 GCCCTAAAGCTATCCAATTTCAACAGTTAAATATAAATATTACCTATCTTAATAAAACATATAAA
391 GCCCTAAAGCTATCCAATTTCAACAGTTAAATATAAATATTACCTATCTTAATAAAACATATAAA
*
62168029 AACCATCAAAAATAAATAAGTGGCCTTATTACATTTAAAAGCCCAAAACCTCAAACGTAATTAAA
456 AACCATCAAAAATAAATAAGCGGCCTTATTACATTTAAAAGCCCAAAACCTCAAACGTAATTAAA
* *
62168094 AGGATGTCTAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTGGCCACTCCGAATTCTCTCA
521 AGGATGTCCAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTGGCCACTCCGAATTCCCTCA
*
62168159 CAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGTGTGGATGAAAATAAAAGGGGTGAGTTTGGG
586 CAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGGG
*
62168224 GAAACTCAGTGTGTAAGGAAAACCCATTCAAAGCCCAAGTCAGCTCCAGCCCATTGGGCCTAAGC
651 GAAACTCAGTGTGTAAGGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATTGGGCCTAAGC
62168289 CCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCC
716 CCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCC
62168354 CCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATAT
781 CCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATAT
62168419 GCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACTA
846 GCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACTA
* * *
62168463 TAGCACCCCAAACCCGGCCCAGAAGTTATGGCTGGATCCGGCATGCCACATCAAAAACATT-AAA
1 TAGCACCCAAAACCCGGCCCAGAAGTTATGGCCGGATCCGACATGCCACATC-AAAACATTCAAA
* ** *
62168527 A-TTTTCC-ATTCTAAGTCCAGAAAATCGTACTTGA-TG-TTCAAAAGATTAATTCATTA-AGGG
65 ACATTTCCGA-TC-AAG-AAAGAAAA-CGTAC-TGAGTGTTTCAAAAGATGAATTCATTATA-GG
* * * **
62168587 TTAAAGTGAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGAGGTGGTGAGTCCATCGGACT
124 TTAAAATGAATGGAAGCTGTACACCAGGTAGGAAACCGGAAAAGAGGAGGTGAGTCCATCAAACT
* *
62168652 GCTTAAGTACCAAGCTCCCTTCGGATCCAATCCTAGACATGCATACCGCCATTGCCACACCTTAA
189 GCTTAAGTACCAAACTCCCTTCGGATCCAATCCTAGACATGCAAACCGCCATTGCCACACCTTAA
*
62168717 CGTCATGGATATTTCTAGGAAACCGA-TTGATTAAGTCATTTTTAGGAAAAGTGATTAATTTTGG
254 CGTCATGGATATTTCTAGGAAACCGATTTAATTAAGTCATTTTTAGGAAAAGTGATTAATTTTGG
* ***
62168781 AAAATA-CTTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATCAACTGTTGTTTTT
319 AAAATATC-TTCATTGCGGAAGCTTTGCTTGTTGTCGTGTCATTTTGAAATCAACTACAGTTTTT
* * *
62168845 GAAAACGCGCCCTAAAGCTATCCAATTTCAACAGTTAAA-ATAAGTATTACCTATCTTAGTAATA
383 GAAAACGCGCCCTAAAGCTATCCAATTTCAACAGTTAAATATAAATATTACCTATCTTAATAAAA
*
62168909 CATATTAAAACCATCAAAAATAAATAAGCGGCCTTATTACATTTAAAAGCCCAAAACCTCAAACG
448 CATATAAAAACCATCAAAAATAAATAAGCGGCCTTATTACATTTAAAAGCCCAAAACCTCAAACG
62168974 TAATTAAAAGGATGTCCAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTGGCCACTCCGAA
513 TAATTAAAAGGATGTCCAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTGGCCACTCCGAA
62169039 TTCCCTCACAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAA-GGGTG
578 TTCCCTCACAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTG
*
62169103 AGTTTGGGGAAACTCAGTGTGTAAGGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCTATTGG
643 AGTTTGGGGAAACTCAGTGTGTAAGGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATTGG
62169168 GCCTAAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGG
708 GCCTAAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGG
*
62169233 CCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAA
773 CCTTAGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAA
62169298 TAACATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTAC
838 TAACATATGCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTAC
62169348 ACTCCACCCG
Statistics
Matches: 830, Mismatches: 47, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
887 248 0.30
888 214 0.26
889 184 0.22
890 175 0.21
891 6 0.01
892 3 0.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (889 bp):
TAGCACCCAAAACCCGGCCCAGAAGTTATGGCCGGATCCGACATGCCACATCAAAACATTCAAAA
CATTTCCGATCAAGAAAGAAAACGTACTGAGTGTTTCAAAAGATGAATTCATTATAGGTTAAAAT
GAATGGAAGCTGTACACCAGGTAGGAAACCGGAAAAGAGGAGGTGAGTCCATCAAACTGCTTAAG
TACCAAACTCCCTTCGGATCCAATCCTAGACATGCAAACCGCCATTGCCACACCTTAACGTCATG
GATATTTCTAGGAAACCGATTTAATTAAGTCATTTTTAGGAAAAGTGATTAATTTTGGAAAATAT
CTTCATTGCGGAAGCTTTGCTTGTTGTCGTGTCATTTTGAAATCAACTACAGTTTTTGAAAACGC
GCCCTAAAGCTATCCAATTTCAACAGTTAAATATAAATATTACCTATCTTAATAAAACATATAAA
AACCATCAAAAATAAATAAGCGGCCTTATTACATTTAAAAGCCCAAAACCTCAAACGTAATTAAA
AGGATGTCCAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTGGCCACTCCGAATTCCCTCA
CAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGTGAGTTTGGG
GAAACTCAGTGTGTAAGGAAAACCCATTCAAAGCCCAAGTCAGCTCAAGCCCATTGGGCCTAAGC
CCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCC
CCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACATAT
GCAAGCCCATTTGGGGAGACTACTCAACCCACCAACCACTACTA
Found at i:62171170 original size:26 final size:26
Alignment explanation
Indices: 62171101--62171208 Score: 184
Period size: 25 Copynumber: 4.2 Consensus size: 26
62171091 CATGAAATTC
*
62171101 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
62171127 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
62171152 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCCA
*
62171177 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
62171203 TTATCA
1 TTATCA
62171209 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 49 0.63
26 29 0.37
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:62171189 original size:51 final size:51
Alignment explanation
Indices: 62171101--62171208 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
62171091 CATGAAATTC
62171101 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
* *
62171152 TTATCATGGAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCAT-GAACATTTACCTAACCCA
62171203 TTATCA
1 TTATCA
62171209 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 10 0.19
51 44 0.81
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
Found at i:62171740 original size:25 final size:27
Alignment explanation
Indices: 62171703--62171755 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
62171693 TCAAACATGC
62171703 ATTTAAGTCAATTTAACC-CT-AGGGGT
1 ATTTAAGTCAATTT-ACCTCTCAGGGGT
*
62171729 ATTTCAGT-AATTTACCTCTCAGGGGT
1 ATTTAAGTCAATTTACCTCTCAGGGGT
62171755 A
1 A
62171756 AAACTGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 7 0.29
26 14 0.58
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTTAAGTCAATTTACCTCTCAGGGGT
Found at i:62173263 original size:26 final size:26
Alignment explanation
Indices: 62173233--62173339 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
62173223 TGAAATTCCC
62173233 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
62173259 ATCATGGAACATTTATCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
*
62173284 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
62173310 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
62173336 ATCA
1 ATCA
62173340 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.30
26 53 0.70
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:62173309 original size:51 final size:52
Alignment explanation
Indices: 62173233--62173339 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
62173223 TGAAATTCCC
* *
62173233 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTATCTAA-CCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
62173284 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
62173336 ATCA
1 ATCA
62173340 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 44 0.83
52 9 0.17
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:62177027 original size:15 final size:16
Alignment explanation
Indices: 62177007--62177036 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62176997 GCACTTTTCA
62177007 CACAAACG-CGCTAAC
1 CACAAACGCCGCTAAC
62177022 CACAAACGCCGCTAA
1 CACAAACGCCGCTAA
62177037 AAGCGTGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.40, G:0.13, T:0.07
Consensus pattern (16 bp):
CACAAACGCCGCTAAC
Found at i:62177069 original size:43 final size:44
Alignment explanation
Indices: 62177021--62177120 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
62177011 AACGCGCTAA
* *
62177021 CCACAAACGCCGCTAAAAG-CGTGTCTTTTAGCGACAGTTTTTC
1 CCACAAACGCCACTAAAAGCCGTGACTTTTAGCGACAGTTTTTC
* * * *
62177064 CCACAAACGTCACTAAAAGCCGTGACTTTTAGCGGCATTTTTTT
1 CCACAAACGCCACTAAAAGCCGTGACTTTTAGCGACAGTTTTTC
* *
62177108 CAATAAACGCCAC
1 CCACAAACGCCAC
62177121 AAATTTTTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 17 0.36
44 30 0.64
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (44 bp):
CCACAAACGCCACTAAAAGCCGTGACTTTTAGCGACAGTTTTTC
Found at i:62181162 original size:16 final size:17
Alignment explanation
Indices: 62181141--62181176 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
62181131 TATGTTTCAC
62181141 TTATTTTGAAAAG-GTT
1 TTATTTTGAAAAGAGTT
*
62181157 TTATTTTTAAAAGAGTT
1 TTATTTTGAAAAGAGTT
62181174 TTA
1 TTA
62181177 CTCATCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (17 bp):
TTATTTTGAAAAGAGTT
Found at i:62182207 original size:2 final size:2
Alignment explanation
Indices: 62182200--62182230 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
62182190 GGTATTAAGA
62182200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62182231 CAATATAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62182270 original size:24 final size:23
Alignment explanation
Indices: 62182243--62182303 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
62182233 ATATAGTGTT
62182243 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
*
62182267 TAAAAATATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
62182291 TAAGAAATATATA
1 TAA-AAATATATA
62182304 TAATTATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 20 0.62
25 10 0.31
26 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:62182475 original size:21 final size:22
Alignment explanation
Indices: 62182438--62182551 Score: 101
Period size: 21 Copynumber: 5.2 Consensus size: 22
62182428 ACACATATAT
*
62182438 ATATA-AATAATAGTATTAGAA
1 ATATACAATAATAATATTAGAA
62182459 ATATACAAT-ATAATATTAGAA
1 ATATACAATAATAATATTAGAA
* * *
62182480 ATATACATATAATAGTATAAAAA
1 ATATACA-ATAATAATATTAGAA
*
62182503 ATATATAACTAATAATATTA-AA
1 ATATACAA-TAATAATATTAGAA
* * *
62182525 ATATA-TATAATATATATAAAAA
1 ATATACAATAATA-ATATTAGAA
62182547 ATATA
1 ATATA
62182552 TATATTGAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
20 5 0.06
21 29 0.37
22 20 0.26
23 24 0.31
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATACAATAATAATATTAGAA
Found at i:62182493 original size:44 final size:43
Alignment explanation
Indices: 62182438--62182551 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 43
62182428 ACACATATAT
* * *
62182438 ATATAAATAATAGTATTAGAAATATACAA-T-ATAATATTAGAA
1 ATATATATAATAGTATAAAAAATATACAACTAATAATATTA-AA
*
62182480 ATATACATATAATAGTATAAAAAATATATAACTAATAATATTAAA
1 ATAT--ATATAATAGTATAAAAAATATACAACTAATAATATTAAA
*
62182525 ATATATATAATATATATAAAAAATATA
1 ATATATATAATA-GTATAAAAAATATA
62182552 TATATTGAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
42 4 0.06
43 8 0.13
44 34 0.55
45 7 0.11
46 9 0.15
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (43 bp):
ATATATATAATAGTATAAAAAATATACAACTAATAATATTAAA
Found at i:62182509 original size:11 final size:11
Alignment explanation
Indices: 62182490--62182553 Score: 58
Period size: 11 Copynumber: 5.7 Consensus size: 11
62182480 ATATACATAT
62182490 AATAGTATAAAA
1 AATA-TATAAAA
**
62182502 AATATATAACT
1 AATATATAAAA
*
62182513 AATA-ATATTAA
1 AATATATA-AAA
*
62182524 AATATATATAA
1 AATATATAAAA
*
62182535 TATATATAAAA
1 AATATATAAAA
62182546 AATATATA
1 AATATATA
62182554 TATTGAAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
10 3 0.07
11 32 0.76
12 7 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
AATATATAAAA
Found at i:62182536 original size:17 final size:16
Alignment explanation
Indices: 62182514--62182570 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 16
62182504 TATATAACTA
62182514 ATAATATTAAAATATAT
1 ATAATATTAAAA-ATAT
*
62182531 ATAATATATATAAAAAAT
1 ATAATAT-TA-AAAATAT
62182549 ATATATATTGAAAACATAT
1 ATA-ATATT-AAAA-ATAT
62182568 ATA
1 ATA
62182571 CATAACATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 7 0.21
18 12 0.36
19 14 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
ATAATATTAAAAATAT
Found at i:62182801 original size:3 final size:3
Alignment explanation
Indices: 62182793--62182944 Score: 50
Period size: 3 Copynumber: 50.7 Consensus size: 3
62182783 ACACTAGTAT
* *
62182793 TAA TAA TAA TAA TAA -AA CTAGA -AA TAG TAA TAA TTAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA TAA TAA TAA
* * * ** * *
62182839 TACG TTA GAA -AA TAA TTAA T-A TGT TAA TAA AAA TAA TAG TAA TGAA
1 TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * *
62182885 -AA TAA TAC TAA CAG TAA TAA TAA -AGA TAGA -AA TAA -AA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA
*
62182928 TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TA
62182945 TGTAAAAAAA
Statistics
Matches: 108, Mismatches: 26, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
2 13 0.12
3 82 0.76
4 12 0.11
5 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:62182941 original size:35 final size:36
Alignment explanation
Indices: 62182874--62182942 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
62182864 AATAAAAATA
* *
62182874 ATAGTAATGAAAATAATACTAACAGTAATAATAAAG
1 ATAGAAATGAAAATAATACTAACAATAATAATAAAG
* * *
62182910 ATAGAAAT-AAAATAATAGTAATAATATTAATAA
1 ATAGAAATGAAAATAATACTAACAATAATAATAA
62182943 TATGTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 21 0.75
36 7 0.25
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.28
Consensus pattern (36 bp):
ATAGAAATGAAAATAATACTAACAATAATAATAAAG
Found at i:62184675 original size:14 final size:14
Alignment explanation
Indices: 62184656--62184690 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
62184646 GTTTTTTTTT
*
62184656 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
*
62184670 TTGAAAAACAGATA
1 TTGAAAAACAGAAA
62184684 TTGAAAA
1 TTGAAAA
62184691 TACCTCAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:62184820 original size:85 final size:84
Alignment explanation
Indices: 62184653--62184861 Score: 269
Period size: 85 Copynumber: 2.5 Consensus size: 84
62184643 CGGGTTTTTT
* * *
62184653 TTTTTGAAAAACGGAAATTGAAAAACAGATATTGAAAATACCTCAACGTGCCCTGAGGCTCAACT
1 TTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCT--A-GAGCCCTGAGGCTCAACT
*
62184718 CACATCTTGCAATATGAGCTGA
63 CACATCTCGCAATATGAGCTGA
* *
62184740 TTTTTGAAAAACATAAATTGGAGAAAACAGAAATTGAAATTACCT-GAGCCCTGAGGCTCAACTC
1 TTTTTGAAAAACAGAAATT-GA-AAAACAGAAATTGAAAATACCTAGAGCCCTGAGGCTCAACTC
* * *
62184804 ACCTCTCGCAGTATGAGTTGA
64 ACATCTCGCAATATGAGCTGA
*
62184825 TTTTTGAAAAACAGAAATT-AAAAATAGAAATTGAAAA
1 TTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAA
62184862 GATCTCAGCA
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
82 15 0.14
83 1 0.01
85 53 0.49
87 17 0.16
88 2 0.02
89 20 0.19
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (84 bp):
TTTTTGAAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTAGAGCCCTGAGGCTCAACTCAC
ATCTCGCAATATGAGCTGA
Found at i:62184853 original size:13 final size:14
Alignment explanation
Indices: 62184828--62184861 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
62184818 GAGTTGATTT
62184828 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
62184842 TT-AAAAATAGAAA
1 TTGAAAAACAGAAA
62184855 TTGAAAA
1 TTGAAAA
62184862 GATCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:62185045 original size:72 final size:73
Alignment explanation
Indices: 62184940--62185163 Score: 263
Period size: 72 Copynumber: 3.0 Consensus size: 73
62184930 ATAGAAATTG
* *
62184940 AAATTACCTCAGCGTGTCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTCGAAAACG
1 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAACA
* *
62185005 GAGA-TCA
66 AAAATTCA
* * * *
62185012 AAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTATTTTGAAAG
1 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTCGAAA-
*
62185077 ACAAAAATTGA
63 ACAAAAATTCA
* * * * *
62185088 AAA-TACCTCAACGTGCCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTCGAAAAAA
1 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAACA
*
62185152 ATAAATTGA
66 A-AAATTCA
62185161 AAA
1 AAA
62185164 ACATAAATTG
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
72 52 0.40
73 18 0.14
74 8 0.06
75 46 0.36
76 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (73 bp):
AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAACA
AAAATTCA
Found at i:62185164 original size:14 final size:14
Alignment explanation
Indices: 62185145--62185176 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
62185135 GTTGATTTTC
62185145 GAAAAAAATAAATT
1 GAAAAAAATAAATT
*
62185159 GAAAAACATAAATT
1 GAAAAAAATAAATT
62185173 GAAA
1 GAAA
62185177 CTGACTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.19
Consensus pattern (14 bp):
GAAAAAAATAAATT
Found at i:62197610 original size:28 final size:27
Alignment explanation
Indices: 62197558--62197610 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
62197548 CTATTCAGAA
* *
62197558 ATCAGTGTTAACTAGGCCTTAGCCCAT
1 ATCAGTATTAACTAGGCCATAGCCCAT
*
62197585 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTAGGCCATAGCCC
62197611 CTTACAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTAGGCCATAGCCCAT
Found at i:62197695 original size:60 final size:59
Alignment explanation
Indices: 62197572--62197706 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
62197562 GTGTTAACTA
* *
62197572 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* * *
62197633 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
62197693 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
62197707 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:62197724 original size:20 final size:20
Alignment explanation
Indices: 62197699--62197744 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
62197689 ATTGGGCCTT
62197699 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
62197719 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
62197738 GCCCATA
1 GCCCATA
62197745 ACAGAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:62199457 original size:14 final size:14
Alignment explanation
Indices: 62199438--62199465 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62199428 CTAATACATG
62199438 GTCACAATTAATTA
1 GTCACAATTAATTA
62199452 GTCACAATTAATTA
1 GTCACAATTAATTA
62199466 TAAACCTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
GTCACAATTAATTA
Found at i:62201386 original size:2 final size:2
Alignment explanation
Indices: 62201379--62201407 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62201369 GGTATTAAGA
62201379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62201408 CAATATAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62201661 original size:21 final size:22
Alignment explanation
Indices: 62201624--62201726 Score: 106
Period size: 21 Copynumber: 4.8 Consensus size: 22
62201614 ATATATATAT
*
62201624 ATATA-AATAATAGTATTAGAA
1 ATATACAATAATAATATTAGAA
62201645 ATATACAAT-ATAATATTAGAA
1 ATATACAATAATAATATTAGAA
* * *
62201666 ATATACATATAATAGTATAAAAA
1 ATATACA-ATAATAATATTAGAA
*
62201689 ATATATAACTAATAATATTA-AA
1 ATATACAA-TAATAATATTAGAA
*
62201711 ATATA-TATAATAATAT
1 ATATACAATAATAATAT
62201727 ATATAAAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
20 9 0.13
21 24 0.34
22 13 0.19
23 24 0.34
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATACAATAATAATATTAGAA
Found at i:62201704 original size:46 final size:44
Alignment explanation
Indices: 62201620--62201741 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 44
62201610 ATATATATAT
* * * *
62201620 ATATATATAAATAATAGTATTAGAAATATACAATATAATATTAGAA
1 ATATACAT-AATAATAGTATAAAAAATATATAATATAATATTA-AA
62201666 ATATACAT-ATAATAGTATAAAAAATATATAACTAATAATATTAAA
1 ATATACATAATAATAGTATAAAAAATATATAA-T-ATAATATTAAA
*
62201711 ATATATATAATAATA-TATATAAAAATATATA
1 ATATACATAATAATAGTATA-AAAAATATATA
62201742 TATTGAAAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 20 0.30
45 14 0.21
46 33 0.49
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (44 bp):
ATATACATAATAATAGTATAAAAAATATATAATATAATATTAAA
Found at i:62201706 original size:12 final size:12
Alignment explanation
Indices: 62201665--62201743 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
62201655 TAATATTAGA
*
62201665 AATATACAT-AT
1 AATATATATAAT
62201676 AATAGTATA-AA-
1 AATA-TATATAAT
62201687 AA-ATATATAACT
1 AATATATATAA-T
62201699 AATA-ATATTAA-
1 AATATATA-TAAT
62201710 AATATATATAAT
1 AATATATATAAT
*
62201722 AATATATATAAA
1 AATATATATAAT
62201734 AATATATATA
1 AATATATATA
62201744 TTGAAAACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
9 4 0.07
10 3 0.05
11 13 0.23
12 33 0.58
13 4 0.07
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (12 bp):
AATATATATAAT
Found at i:62201730 original size:14 final size:13
Alignment explanation
Indices: 62201681--62201758 Score: 60
Period size: 12 Copynumber: 6.2 Consensus size: 13
62201671 CATATAATAG
62201681 TATAAAA-A-ATA
1 TATAAAATATATA
62201692 TATAACTAATA-ATA
1 TATAA--AATATATA
62201706 T-TAAAATATATA
1 TATAAAATATATA
*
62201718 TA-ATAATATATA
1 TATAAAATATATA
62201730 TA-AAAATATATA
1 TATAAAATATATA
*
62201742 TATTGAAAACATATA
1 TA-T-AAAATATATA
62201757 TA
1 TA
62201759 CATAACATAC
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
11 9 0.16
12 26 0.46
13 5 0.09
14 5 0.09
15 11 0.20
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (13 bp):
TATAAAATATATA
Found at i:62202129 original size:35 final size:36
Alignment explanation
Indices: 62202062--62202130 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
62202052 AATAAAAATA
* *
62202062 ATAGTAATGAAAATAATACTAACAGTAATAATAAAG
1 ATAGAAATGAAAATAATACTAACAATAATAATAAAG
* * *
62202098 ATAGAAAT-AAAATAATAGTAATAATATTAATAA
1 ATAGAAATGAAAATAATACTAACAATAATAATAA
62202131 TATGTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 21 0.75
36 7 0.25
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.28
Consensus pattern (36 bp):
ATAGAAATGAAAATAATACTAACAATAATAATAAAG
Found at i:62204396 original size:127 final size:127
Alignment explanation
Indices: 62204244--62204482 Score: 363
Period size: 127 Copynumber: 1.9 Consensus size: 127
62204234 AGAAAAATGT
** **
62204244 GGACGGAATTTTAAAGGGATGTTTGATTATTTGGATAAACAGAAA-ATCGAAACCCAACACGTTA
1 GGACGGAATTTTAAAGGGAAATTTGATTATTTAAATAAA-AGAAAGATCGAAACCCAACACGTTA
* *
62204308 GGGCACGATCCCTCGAATTCCCAAACATCAATCATCGCTTTTGTTTTAAAGTTTAGAAAACGC
65 GGGCACGATCCCTCGAATTCCCAAACATCAAACATCGCCTTTGTTTTAAAGTTTAGAAAACGC
* * *
62204371 GGACGGGATTTTAAAGGGAAATTTGATTATTTAAATAAATGAAAGATCGAAACCCAACATGTTAG
1 GGACGGAATTTTAAAGGGAAATTTGATTATTTAAATAAAAGAAAGATCGAAACCCAACACGTTAG
* *
62204436 GGCACGATCCCTCGAATTTCTAAACATCAAACATCGCCTTTGTTTTA
66 GGCACGATCCCTCGAATTCCCAAACATCAAACATCGCCTTTGTTTTA
62204483 TAAAGTCAAC
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
126 4 0.04
127 96 0.96
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (127 bp):
GGACGGAATTTTAAAGGGAAATTTGATTATTTAAATAAAAGAAAGATCGAAACCCAACACGTTAG
GGCACGATCCCTCGAATTCCCAAACATCAAACATCGCCTTTGTTTTAAAGTTTAGAAAACGC
Found at i:62204956 original size:21 final size:20
Alignment explanation
Indices: 62204912--62204958 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
62204902 GACTTAAAGT
*
62204912 AAATAACATATAACAATTTA
1 AAATAACATATAACAATCTA
62204932 AAATAACATATAA-AAGGTCTA
1 AAATAACATATAACAA--TCTA
62204953 AAATAA
1 AAATAA
62204959 ATAATATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 13 0.54
21 9 0.38
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.26
Consensus pattern (20 bp):
AAATAACATATAACAATCTA
Found at i:62205280 original size:18 final size:17
Alignment explanation
Indices: 62205257--62205312 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
62205247 GGGGTGAAAA
*
62205257 AATAATAATAAACTAAGG
1 AATAATAATAAACTAA-C
62205275 AATAATAATAATACTAAC
1 AATAATAATAA-ACTAAC
*
62205293 AATAAT-ATAAA-TAAA
1 AATAATAATAAACTAAC
62205308 AATAA
1 AATAA
62205313 AAACAACAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 8 0.23
16 1 0.03
17 4 0.11
18 17 0.49
19 5 0.14
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.25
Consensus pattern (17 bp):
AATAATAATAAACTAAC
Found at i:62205354 original size:17 final size:18
Alignment explanation
Indices: 62205332--62205375 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
62205322 GAGAAATAGC
62205332 AAGAATAATAGTAATAA-
1 AAGAATAATAGTAATAAT
*
62205349 AAGAATAAAAGTAATAAT
1 AAGAATAATAGTAATAAT
*
62205367 AATAATAAT
1 AAGAATAAT
62205376 GATAGCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (18 bp):
AAGAATAATAGTAATAAT
Found at i:62205420 original size:18 final size:18
Alignment explanation
Indices: 62205361--62205420 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
62205351 GAATAAAAGT
*
62205361 AATAATAATAATAATGATAGC
1 AATAATAATAA-AAT-A-AAC
* *
62205382 AATAATAATAGAATTAAC
1 AATAATAATAAAATAAAC
62205400 AATAA-AATAAAATAAATC
1 AATAATAATAAAATAAA-C
62205418 AAT
1 AAT
62205421 TTTAATAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 9 0.27
18 11 0.33
20 3 0.09
21 10 0.30
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (18 bp):
AATAATAATAAAATAAAC
Found at i:62206137 original size:15 final size:15
Alignment explanation
Indices: 62206099--62206138 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
62206089 AACAATTTCG
62206099 AAAGAAAAGAAAATAA
1 AAAGAAAA-AAAATAA
*
62206115 AGAGAAAAAAAATAA
1 AAAGAAAAAAAATAA
*
62206130 AAATAAAAA
1 AAAGAAAAA
62206139 GACCCACGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAGAAAAAAAATAA
Found at i:62207654 original size:38 final size:38
Alignment explanation
Indices: 62207549--62207658 Score: 105
Period size: 41 Copynumber: 2.8 Consensus size: 38
62207539 ATACTGACTT
* * *
62207549 TTAGCGGCGTTTTTCAAAAAAGCGCCGCAAAAGGTCGATC
1 TTAGCGGCGTTTTT--AGAAAGCGCCGCTAAAGGTCGATA
* *
62207589 TATAGCGGCGCTTTTTTGAAAAACGCCGCTAAAGGTC-AGTA
1 T-TAGCGGCG-TTTTTAG-AAAGCGCCGCTAAAGGTCGA-TA
*
62207630 TTAGTGGCGTTTTTAGAAAGCGCCGCTAA
1 TTAGCGGCGTTTTTAGAAAGCGCCGCTAA
62207659 GAGTATAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
38 12 0.21
39 6 0.10
40 9 0.16
41 26 0.45
42 5 0.09
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (38 bp):
TTAGCGGCGTTTTTAGAAAGCGCCGCTAAAGGTCGATA
Found at i:62207826 original size:22 final size:21
Alignment explanation
Indices: 62207801--62207857 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
62207791 TAATTTAAAA
62207801 GTTTTTTTATATATGACTAATT
1 GTTTTTTTATATAT-ACTAATT
* *
62207823 GTTTTTATATTTATATATTAATT
1 GTTTTT-T-TATATATACTAATT
62207846 -TTTTTTTATATA
1 GTTTTTTTATATA
62207858 ATTGTAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.17
21 1 0.03
22 11 0.37
23 7 0.23
24 6 0.20
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (21 bp):
GTTTTTTTATATATACTAATT
Found at i:62208091 original size:15 final size:15
Alignment explanation
Indices: 62208064--62208110 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
62208054 TAGGGTTGGG
62208064 TTAGGGG-TTAGGGT
1 TTAGGGGTTTAGGGT
62208078 TTAGGGGTTTAGGGT
1 TTAGGGGTTTAGGGT
*
62208093 TTA-GAGTTTATGGGT
1 TTAGGGGTTTA-GGGT
62208108 TTA
1 TTA
62208111 AGGTTAGAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (15 bp):
TTAGGGGTTTAGGGT
Found at i:62208096 original size:22 final size:21
Alignment explanation
Indices: 62208068--62208123 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
62208058 GTTGGGTTAG
*
62208068 GGGTTAGGGTTTAGGGGTTTA
1 GGGTTAGAGTTTAGGGGTTTA
*
62208089 GGGTTTAGAGTTTATGGGTTTA
1 GGG-TTAGAGTTTAGGGGTTTA
*
62208111 AGGTTAGAGTTTA
1 GGGTTAGAGTTTA
62208124 ATTAGATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (21 bp):
GGGTTAGAGTTTAGGGGTTTA
Found at i:62209267 original size:157 final size:155
Alignment explanation
Indices: 62208926--62209300 Score: 384
Period size: 157 Copynumber: 2.4 Consensus size: 155
62208916 AGAGATTTGT
* * *
62208926 GGCGTTTTTTAAAAAAATGCCGCAAAAAAACAGTATAGTTGAAAGAAAACGGCGTCGTTTTAGTT
1 GGCGTTTTTT-AAAAAACGCCGC-AAAAAACAGTTTAGTTTAAAGAAAACGGCGTCGTTTTAGTT
** * * * *
62208991 GGATAGAGTATTAGTGGCGTTTTGAAAAACGCCGCAACAGAAGTAAATGTACTGGAAGCGTCGTC
64 -GATAGAGTATTAGTGGCACTTTCAAAAACGCCGCAAAAGAAGTAAATGTACAGGAAGCATCGTC
*
62209056 GTTTTAGTTGAATATATAGGGTATTAGT
128 GTTTTAGTTGAATATATAGGGTATTAGC
* * * * *
62209084 GACGTTTTTATAGAAAACGCCACAAAAGACAGTTTAGTTTAAAGAAAACGACGTCGTTTTAGTAT
1 GGCGTTTTT-TAAAAAACGCCGCAAAAAACAGTTTAGTTTAAAGAAAACGGCGTCGTTTTAGT-T
* * * * * *
62209149 -ATGAGGGTATTAGTGGCACTTTCAAAAACGCCGCAAAATAATTCAAGTTTACAGTACA-CATCG
64 GAT-AGAGTATTAGTGGCACTTTCAAAAACGCCGCAAAAGAAGT-AAATGTACAGGA-AGCATCG
*
62209212 TCGTTTTAGTTGAGTATATAGGG-ATTAGC
126 TCGTTTTAGTTGAATATATAGGGTATTAGC
**
62209241 GGCGTTTTTTAAATAAACAACGCAAAAAACA--TTAGTGCTTAACAG-AAACGGCGTCGTTTT
1 GGCGTTTTTTAAA-AAACGCCGCAAAAAACAGTTTAGT--TTAA-AGAAAACGGCGTCGTTTT
62209301 CTTCAGAGAT
Statistics
Matches: 179, Mismatches: 29, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
155 5 0.03
156 5 0.03
157 113 0.63
158 54 0.30
159 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (155 bp):
GGCGTTTTTTAAAAAACGCCGCAAAAAACAGTTTAGTTTAAAGAAAACGGCGTCGTTTTAGTTGA
TAGAGTATTAGTGGCACTTTCAAAAACGCCGCAAAAGAAGTAAATGTACAGGAAGCATCGTCGTT
TTAGTTGAATATATAGGGTATTAGC
Found at i:62209583 original size:25 final size:25
Alignment explanation
Indices: 62209555--62209616 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
62209545 TCGTCGTTCA
*
62209555 CCGTCATCTTTTCTGCGTCCCTTCG
1 CCGTCATCTCTTCTGCGTCCCTTCG
* *
62209580 CCGTCGTCTCTTCTGCGTCCCTTCT
1 CCGTCATCTCTTCTGCGTCCCTTCG
62209605 CCGTCACTCTCT
1 CCGTCA-TCTCT
62209617 GCTTCCGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 27 0.84
26 5 0.16
ACGTcount: A:0.03, C:0.44, G:0.15, T:0.39
Consensus pattern (25 bp):
CCGTCATCTCTTCTGCGTCCCTTCG
Found at i:62211927 original size:99 final size:97
Alignment explanation
Indices: 62211734--62211928 Score: 234
Period size: 99 Copynumber: 2.0 Consensus size: 97
62211724 ATGTTTACTT
**
62211734 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAAAATCATT-ATTT-AATATTTTA
** **
62211799 TTTTATTTTTATGTTACCTAATTTTTAAATTAAC
64 TTTTATTTTTAAATTACCTAATTAGTAAATTAAC
* *
62211833 AAATTAATAAATGCTAATTAAAAGAAAGACTTAACAATGTTTAAAAT-ATT-TTGT-CTACTTTT
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAA-GTTTAAAATCATTATT-TAATA-TTTT
62211895 ATTTTATTTTTAAATTACCTAATTAAAGTAAATT
63 ATTTTATTTTTAAATTACCTAATT--AGTAAATT
62211929 GTATTTAAAG
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
96 2 0.02
97 28 0.34
98 1 0.01
99 45 0.54
100 7 0.08
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (97 bp):
AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAAAATCATTATTTAATATTTTATT
TTATTTTTAAATTACCTAATTAGTAAATTAAC
Found at i:62211944 original size:43 final size:42
Alignment explanation
Indices: 62211896--62212038 Score: 103
Period size: 43 Copynumber: 3.2 Consensus size: 42
62211886 TCTACTTTTA
62211896 TTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAG
1 TTTTATTTTTAAATTACCTAATTAAA-TAAATTGTATTTAAAG
** ** * * *
62211939 TTTTA-TTTTATTTTATTTTAATCAGGAAAAAACTTTTGTCAAATTT-TA-
1 TTTTATTTTTAAATTA-CCTAATTA--AATAAA---TTGT---ATTTAAAG
62211987 TTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG
1 TTTTATTTTTAAATTACCTAATTAAA-TAAATTGTATTTAAAG
62212030 TTTTATTTT
1 TTTTATTTT
62212039 ATTTTATTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 26
0.65 0.12 0.23
Matches are distributed among these distances:
41 4 0.05
42 9 0.12
43 19 0.26
44 7 0.10
45 2 0.03
46 2 0.03
47 7 0.10
48 10 0.14
49 9 0.12
50 4 0.05
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.54
Consensus pattern (42 bp):
TTTTATTTTTAAATTACCTAATTAAATAAATTGTATTTAAAG
Found at i:62212038 original size:5 final size:5
Alignment explanation
Indices: 62212030--62212054 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
62212020 GTATTTAAAG
62212030 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
62212055 ATCAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:62212112 original size:94 final size:95
Alignment explanation
Indices: 62211939--62212242 Score: 461
Period size: 94 Copynumber: 3.2 Consensus size: 95
62211929 GTATTTAAAG
* *
62211939 TTTTATTTTATTTTATTTTAATCAGGAAAAAACTTTTGTCAAATTTTATTTTATTTTTAAATTAC
1 TTTTATTTTATTTTATTTTAATCAGGAAAAAAC-TTTGTCTACTTTTATTTTATTTTTAAATTAC
62212004 CTAATTAAATTAAATTGTATTTAAAGTTTTA
65 CTAATTAAATTAAATTGTATTTAAAGTTTTA
62212035 TTTTATTTTATTTTATTTTAATCAGGAAAAAAC-TTGTCTACTTTTATTTTATTTTTAAATTACC
1 TTTTATTTTATTTTATTTTAATCAGGAAAAAACTTTGTCTACTTTTATTTTATTTTTAAATTACC
*
62212099 TAATTAAATTAAATTATATTTAAAGTTTTAATTTA
66 TAATTAAATTAAATTGTATTTAAAG---T--TTTA
* *
62212134 TTTTAATTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTAC
1 TTTTATTTTATTTTATTTTAATCAGGAAAAAAC-TTTGTCTACTTTTATTTTATTTTTAAATTAC
* *
62212199 CTAAATAAATTAAATTGTATGTAAAG-TTT-
65 CTAATTAAATTAAATTGTATTTAAAGTTTTA
62212228 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
62212243 ATCACGAAAA
Statistics
Matches: 192, Mismatches: 9, Indels: 16
0.88 0.04 0.07
Matches are distributed among these distances:
94 67 0.35
95 3 0.02
96 33 0.17
97 1 0.01
99 35 0.18
101 53 0.28
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.55
Consensus pattern (95 bp):
TTTTATTTTATTTTATTTTAATCAGGAAAAAACTTTGTCTACTTTTATTTTATTTTTAAATTACC
TAATTAAATTAAATTGTATTTAAAGTTTTA
Found at i:62212121 original size:185 final size:187
Alignment explanation
Indices: 62211883--62212242 Score: 557
Period size: 195 Copynumber: 1.9 Consensus size: 187
62211873 TTAAAATATT
*
62211883 TTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAAG-T-TTTA-T
1 TTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTATATTTAAAGTTATTTATT
* *
62211945 -TTTATTTTATTTTAATCAGGAAAAAACTTTTGTCAAATTTTATTTTATTTTTAAATTACCTAAT
66 ATTTATTTTATTTTAATCACGAAAAAACTTTTGTCAAATTTTATTTTATTTTTAAATTACCTAAA
*
62212009 TAAATTAAATTGTATTTAAAGTTTTATTTTATTTTATTTTATTTTAATCAGGAAAAAAC
131 TAAATTAAATTGTATGTAAAG-TTT-TTTTATTTTATTTTATTTTAATCAGGAAAAAAC
*
62212068 TTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTAATTT
1 TTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTATATTTAAAG--TT-ATTT
* *
62212133 ATTTTAATTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTA
63 A--TT-ATTTATTTTATTTTAATCACGAAAAAACTTTTGTCAAATTTTATTTTATTTTTAAATTA
62212198 CCTAAATAAATTAAATTGTATGTAAAGTTTTTTTATTTTATTTTA
125 CCTAAATAAATTAAATTGTATGTAAAGTTTTTTTATTTTATTTTA
62212243 ATCACGAAAA
Statistics
Matches: 158, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
185 54 0.34
188 1 0.01
190 4 0.03
193 16 0.10
194 3 0.02
195 80 0.51
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (187 bp):
TTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTATATTTAAAGTTATTTATT
ATTTATTTTATTTTAATCACGAAAAAACTTTTGTCAAATTTTATTTTATTTTTAAATTACCTAAA
TAAATTAAATTGTATGTAAAGTTTTTTTATTTTATTTTATTTTAATCAGGAAAAAAC
Found at i:62212139 original size:10 final size:10
Alignment explanation
Indices: 62212124--62212153 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
62212114 ATATTTAAAG
62212124 TTTTAATTTA
1 TTTTAATTTA
62212134 TTTTAATTTA
1 TTTTAATTTA
*
62212144 TTTTATTTTA
1 TTTTAATTTA
62212154 ATCACGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:62212148 original size:15 final size:15
Alignment explanation
Indices: 62212125--62212155 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62212115 TATTTAAAGT
62212125 TTTAATTTATTTTAA
1 TTTAATTTATTTTAA
*
62212140 TTTATTTTATTTTAA
1 TTTAATTTATTTTAA
62212155 T
1 T
62212156 CACGAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTAATTTATTTTAA
Found at i:62212709 original size:26 final size:26
Alignment explanation
Indices: 62212657--62212739 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
62212647 TGATACAAAT
* *
62212657 TGATAATAGGTT-GGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
62212682 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
62212708 TGATGATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
62212734 TGATAA
1 TGATAA
62212740 GAATTTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 11 0.21
26 42 0.79
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:62214463 original size:27 final size:26
Alignment explanation
Indices: 62214359--62214473 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
62214349 TGGAGGAAGC
* *
62214359 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
62214386 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
*
62214413 GTTTTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
** *
62214440 GTATCTGGTAACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
62214467 GTTCTGG
1 GTTCTGG
62214474 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.72
28 15 0.20
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:62215510 original size:9 final size:9
Alignment explanation
Indices: 62215498--62215603 Score: 83
Period size: 9 Copynumber: 11.6 Consensus size: 9
62215488 AAATATATAT
*
62215498 CATATTTTA
1 CATAATTTA
62215507 CATAATTTA
1 CATAATTTA
*
62215516 CATAACTTA
1 CATAATTTA
62215525 CATAA--TA
1 CATAATTTA
62215532 CATAAATATATA
1 CAT-AAT-T-TA
62215544 TCAT-ATCTTA
1 -CATAAT-TTA
62215554 CATAATTTA
1 CATAATTTA
**
62215563 CATAATTCG
1 CATAATTTA
* *
62215572 GATAACTTA
1 CATAATTTA
62215581 CATAATTTA
1 CATAATTTA
*
62215590 CATAACTTA
1 CATAATTTA
62215599 CATAA
1 CATAA
62215604 AACATAAAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
7 5 0.06
8 2 0.03
9 59 0.76
10 4 0.05
11 3 0.04
12 2 0.03
13 3 0.04
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
CATAATTTA
Found at i:62215525 original size:18 final size:18
Alignment explanation
Indices: 62215504--62215603 Score: 96
Period size: 18 Copynumber: 5.4 Consensus size: 18
62215494 ATATCATATT
62215504 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
*
62215522 TTACATAA--TACATAAA
1 TTACATAATTTACATAAC
* *
62215538 TATATATCATATCTTACATAAT
1 T-TACAT-A-AT-TTACATAAC
***
62215560 TTACATAATTCGGATAAC
1 TTACATAATTTACATAAC
62215578 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
62215596 TTACATAA
1 TTACATAA
62215604 AACATAAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
16 8 0.12
17 4 0.06
18 37 0.57
19 3 0.05
20 1 0.02
21 4 0.06
22 8 0.12
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (18 bp):
TTACATAATTTACATAAC
Found at i:62221102 original size:14 final size:15
Alignment explanation
Indices: 62221083--62221111 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62221073 AGCAACAACT
62221083 TAGAGA-GGAGGCAG
1 TAGAGAGGGAGGCAG
62221097 TAGAGAGGGAGGCAG
1 TAGAGAGGGAGGCAG
62221112 CGGCAGCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.07, G:0.52, T:0.07
Consensus pattern (15 bp):
TAGAGAGGGAGGCAG
Found at i:62221116 original size:21 final size:21
Alignment explanation
Indices: 62221092--62221131 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
62221082 TTAGAGAGGA
* *
62221092 GGCAGTAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
*
62221113 GGCAGCAGCGAGAGAGGCA
1 GGCAGCAGAGAGAGAGGCA
62221132 AAGGCACGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.50, T:0.03
Consensus pattern (21 bp):
GGCAGCAGAGAGAGAGGCAGC
Found at i:62221599 original size:43 final size:42
Alignment explanation
Indices: 62221498--62221598 Score: 130
Period size: 43 Copynumber: 2.4 Consensus size: 42
62221488 TCTGCCAAAA
* ** **
62221498 TTAGCGGCGTTTGTTAAAAAAGCGCCGCTAAAAGTGATGGCTT
1 TTAGCGGCGTTTTTTAAAAAA-CGCCGCTAAAAGCCATCACTT
*
62221541 TTAGCGGCGCTTTTTTAACAAACGCCGCTAAAAGCCATCACTT
1 TTAGCGGCG-TTTTTTAAAAAACGCCGCTAAAAGCCATCACTT
62221584 TTAGCGGCGTTTTTT
1 TTAGCGGCGTTTTTT
62221599 TCAATAAACG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 6 0.12
43 35 0.69
44 10 0.20
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAACGCCGCTAAAAGCCATCACTT
Found at i:62222148 original size:18 final size:19
Alignment explanation
Indices: 62222121--62222163 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
62222111 TTTAGAATTA
* *
62222121 TTTTTCTAATAGT-AATAT
1 TTTTTATAATAATCAATAT
62222139 TTTTTATAATAATCAATAT
1 TTTTTATAATAATCAATAT
62222158 TTTTTA
1 TTTTTA
62222164 AGAGTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTTATAATAATCAATAT
Found at i:62222829 original size:22 final size:22
Alignment explanation
Indices: 62222797--62222850 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
62222787 ATGAAAATAG
* *
62222797 TATGCTCTTGTGGCATGTTTTC
1 TATGCTTTTGTGGCACGTTTTC
*
62222819 TATGCTTTTGTGGTACGTTTTC
1 TATGCTTTTGTGGCACGTTTTC
*
62222841 TTTGTCTTTT
1 TATG-CTTTT
62222851 TACTTTGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.07, C:0.15, G:0.20, T:0.57
Consensus pattern (22 bp):
TATGCTTTTGTGGCACGTTTTC
Found at i:62223377 original size:12 final size:12
Alignment explanation
Indices: 62223356--62223398 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
62223346 TTGAATATTC
*
62223356 AAATATTTTTAA
1 AAATAATTTTAA
62223368 AAATAATTTTAAA
1 AAATAATTTT-AA
62223381 AAATAATAATTTAA
1 AAATAAT--TTTAA
62223395 AAAT
1 AAAT
62223399 GTTTTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 6 0.22
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAATTTTAA
Found at i:62223382 original size:13 final size:13
Alignment explanation
Indices: 62223356--62223397 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
62223346 TTGAATATTC
*
62223356 AAAT-ATTTTTAA
1 AAATAATTTTAAA
62223368 AAATAATTTTAAA
1 AAATAATTTTAAA
62223381 AAATAATAATTTAAA
1 AAATAAT--TTTAAA
62223396 AA
1 AA
62223398 TGTTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 14 0.54
15 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAATTTTAAA
Found at i:62223444 original size:20 final size:20
Alignment explanation
Indices: 62223388--62223472 Score: 84
Period size: 20 Copynumber: 4.2 Consensus size: 20
62223378 AAAAAATAAT
* *
62223388 AATTT-AAAAATGT-TTTAT
1 AATTTAAAAAATATATTTAA
*
62223406 AATATTAAAATATTATATTTAA
1 AAT-TTAAAA-AATATATTTAA
62223428 AATTTAAAAAATATATTTAA
1 AATTTAAAAAATATATTTAA
*
62223448 AATTTAAAAATTAATATTATAA
1 AATTTAAAAAAT-ATATT-TAA
62223470 AAT
1 AAT
62223473 ATTTAAAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
18 3 0.05
19 2 0.04
20 24 0.43
21 14 0.25
22 13 0.23
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (20 bp):
AATTTAAAAAATATATTTAA
Found at i:62223444 original size:33 final size:32
Alignment explanation
Indices: 62223407--62223488 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
62223397 ATGTTTTATA
*
62223407 ATATTAAAATATTATATTTAAAATTTAAAAAAT
1 ATATTAAAATATTATAATTAAAA-TTAAAAAAT
* * *
62223440 ATATTTAAAAT-TTAAAAATTAATATTATAAAAT
1 ATA-TTAAAATATT-ATAATTAAAATTAAAAAAT
62223473 AT-TTAAAATATTATAA
1 ATATTAAAATATTATAA
62223489 AATAAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
31 10 0.24
32 2 0.05
33 15 0.37
34 14 0.34
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
ATATTAAAATATTATAATTAAAATTAAAAAAT
Found at i:62223475 original size:10 final size:10
Alignment explanation
Indices: 62223460--62223492 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
62223450 TTTAAAAATT
62223460 AATATTATAA
1 AATATTATAA
62223470 AATATT-TAA
1 AATATTATAA
62223479 AATATTATAA
1 AATATTATAA
62223489 AATA
1 AATA
62223493 AATAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATATTATAA
Found at i:62223481 original size:42 final size:41
Alignment explanation
Indices: 62223388--62223492 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
62223378 AAAAAATAAT
* *
62223388 AATTT-AAAAATGTTTTATAATATTAAAATATTATATTTAA
1 AATTTAAAAAATATTTTAAAATATTAAAATATTATATTTAA
62223428 AATTTAAAAAATATATTTAAAAT-TTAAAA-ATTAATATTATAA
1 AATTTAAAAAATAT-TTTAAAATATTAAAATATT-ATATT-TAA
* *
62223470 AATATT-TAAAATATTATAAAATA
1 AAT-TTAAAAAATATTTTAAAATA
62223493 AATAATAAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
40 8 0.15
41 25 0.45
42 20 0.36
43 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (41 bp):
AATTTAAAAAATATTTTAAAATATTAAAATATTATATTTAA
Found at i:62223484 original size:19 final size:19
Alignment explanation
Indices: 62223420--62223492 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 19
62223410 TTAAAATATT
*
62223420 ATATTTAAAAT-TTAAAAA
1 ATATTTAAAATATTATAAA
*
62223438 ATATATTTAAA-ATT-TAAA
1 ATAT-TTAAAATATTATAAA
62223456 A-A-TT--AATATTATAAA
1 ATATTTAAAATATTATAAA
62223471 ATATTTAAAATATTATAAA
1 ATATTTAAAATATTATAAA
62223490 ATA
1 ATA
62223493 AATAATAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
13 2 0.04
14 3 0.07
15 7 0.16
16 1 0.02
17 3 0.07
18 8 0.18
19 21 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATTTAAAATATTATAAA
Found at i:62223493 original size:24 final size:24
Alignment explanation
Indices: 62223449--62223494 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
62223439 TATATTTAAA
**
62223449 ATTTAAAAATTAATATTATAAAAT
1 ATTTAAAAATTAATAAAATAAAAT
62223473 ATTTAAAATATT-ATAAAATAAA
1 ATTTAAAA-ATTAATAAAATAAA
62223495 TAATAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTTAAAAATTAATAAAATAAAAT
Found at i:62223501 original size:31 final size:31
Alignment explanation
Indices: 62223440--62223501 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
62223430 TTTAAAAAAT
*
62223440 ATATTTAAAATTTAAAAATTAATATTATAAA
1 ATATTTAAAATTTAAAAATTAATATAATAAA
62223471 ATATTTAAAATATTATAAAA-TAA-ATAATAAA
1 ATATTTAAAAT-TTA-AAAATTAATATAATAAA
62223502 GAAATAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 18 0.64
32 6 0.21
33 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
ATATTTAAAATTTAAAAATTAATATAATAAA
Found at i:62223599 original size:33 final size:33
Alignment explanation
Indices: 62223485--62223599 Score: 135
Period size: 33 Copynumber: 3.5 Consensus size: 33
62223475 TTAAAATATT
* *
62223485 ATAAAATAAATAATAAAGAAATAAAGAAAAACAA
1 ATAAAA-AAATAAGAAGGAAATAAAGAAAAACAA
* *
62223519 ATAAAAAAACTGA-AAGTAAATAAAGAAAAACAA
1 ATAAAAAAA-TAAGAAGGAAATAAAGAAAAACAA
* *
62223552 ATAAAAAAAGAAGAAGGACAA-AATGAAAAACAA
1 ATAAAAAAATAAGAAGGA-AATAAAGAAAAACAA
62223585 ATAAAAAAATAAGAA
1 ATAAAAAAATAAGAA
62223600 AAATGATAGG
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
32 1 0.01
33 59 0.84
34 10 0.14
ACGTcount: A:0.75, C:0.04, G:0.10, T:0.11
Consensus pattern (33 bp):
ATAAAAAAATAAGAAGGAAATAAAGAAAAACAA
Found at i:62224371 original size:92 final size:92
Alignment explanation
Indices: 62224214--62224408 Score: 363
Period size: 92 Copynumber: 2.1 Consensus size: 92
62224204 ATTGTTGTCC
* *
62224214 ATTTCTCTTCTCTCGTTGTTACACATTAAAGTTTTTGTTGCTCTCATAACTTCTATATTGTAGCC
1 ATTTCTCTTATCTCGTTGTTACACATTAAAGCTTTTGTTGCTCTCATAACTTCTATATTGTAGCC
*
62224279 AAATTTAAGTCTCATCTTATCATATTT
66 AAATTTAAGTCTAATCTTATCATATTT
62224306 ATTTCTCTTATCTCGTTGTTACACATTAAAGCTTTTGTTGCTCTCATAACTTCTATATTGTAGCC
1 ATTTCTCTTATCTCGTTGTTACACATTAAAGCTTTTGTTGCTCTCATAACTTCTATATTGTAGCC
62224371 AAATTTAAGTCTAATCTTATCATATTT
66 AAATTTAAGTCTAATCTTATCATATTT
62224398 ATTTCTCTTAT
1 ATTTCTCTTAT
62224409 TTTGCTTTTG
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 100 1.00
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (92 bp):
ATTTCTCTTATCTCGTTGTTACACATTAAAGCTTTTGTTGCTCTCATAACTTCTATATTGTAGCC
AAATTTAAGTCTAATCTTATCATATTT
Found at i:62225279 original size:29 final size:28
Alignment explanation
Indices: 62225233--62225295 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
62225223 TTTGTTGAGC
* *
62225233 TCTGGCGGTATATCTGCAATTACTAGAGT
1 TCTGGCAGTAAATCTGCAATT-CTAGAGT
* * *
62225262 TCTGGCAGTAAATTTGCAATTTTGGAGT
1 TCTGGCAGTAAATCTGCAATTCTAGAGT
62225290 TCTGGC
1 TCTGGC
62225296 GATTTGTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (28 bp):
TCTGGCAGTAAATCTGCAATTCTAGAGT
Found at i:62228315 original size:20 final size:20
Alignment explanation
Indices: 62228290--62228327 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62228280 GGGTCTCACA
62228290 TATTTTTATTA-TACTTTAAC
1 TATTTTTA-TACTACTTTAAC
62228310 TATTTTTATACTACTTTA
1 TATTTTTATACTACTTTA
62228328 TTTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTTATACTACTTTAAC
Found at i:62228465 original size:23 final size:20
Alignment explanation
Indices: 62228435--62228479 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 20
62228425 ACGCAAGACA
62228435 CTCATTTACCCCTTCTTTTCTTT
1 CTCATTTA-CCCTT-TTTT-TTT
62228458 CTCATTTACCCTTTTTTTTT
1 CTCATTTACCCTTTTTTTTT
62228478 CT
1 CT
62228480 TCCTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 5 0.23
23 8 0.36
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.60
Consensus pattern (20 bp):
CTCATTTACCCTTTTTTTTT
Found at i:62232819 original size:72 final size:71
Alignment explanation
Indices: 62232618--62232819 Score: 244
Period size: 72 Copynumber: 2.8 Consensus size: 71
62232608 CACTGCATAA
* * * *
62232618 CCCATGACATGGGCTTGAAGTACTTGCCACCCAGGGGATTGTACTGAAGCTGGTGAATACCGCAA
1 CCCATGACATGGGC-TGAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTGATGAATACCGCAA
**
62232683 GCCTTGC
65 GCCAGGC
* * * *
62232690 CCCATGACATGGGCTCGAACTGCTTGCCACCCAGGGGATTGTACAGGTGC-CAGTGAATACTGCA
1 CCCATGACATGGGCT-GAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTGA-TGAATACCGCA
62232754 AGCCAGGC
64 AGCCAGGC
* * *
62232762 CCCGTGACATGGGCATGAAGTGCTTGCCACCCCGGGGATTGTGCAGGAGCTGATGAAT
1 CCCATGACATGGGC-TGAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTGATGAAT
62232820 GGGTTGCTAC
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
71 1 0.01
72 107 0.97
73 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (71 bp):
CCCATGACATGGGCTGAAGTGCTTGCCACCCAGGGGATTGTACAGGAGCTGATGAATACCGCAAG
CCAGGC
Found at i:62234749 original size:159 final size:157
Alignment explanation
Indices: 62234452--62234931 Score: 584
Period size: 159 Copynumber: 3.0 Consensus size: 157
62234442 GAAATTCTCT
* * * *
62234452 TGCGATCAACATGCTTTTGAGATTCTTTACCATTTCCATTTTTTCTTCTTTCCCCATAATTGTTT
1 TGCGATCACCATG-TTTTGAGATTCTTTACCATTTCCATTATTTCTCCTTT-CCCATAACTGTTT
* ** * * *
62234517 CCTGAATCCCTTTCATCACTTGC-TCCACTAAATCCAGATCTCTCAGTGCTGCGTTTTTCATAGG
64 CCTGAATCTCTTTCATCAC-TGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGA
* *
62234581 TATCTGAAGAAAGCATTTTATGAAGGACAC
128 TTTCTGAAGAAAGCATTCTATGAAGGACAC
* * **
62234611 TGCGATCACCATGTTTCTGAGATTCTTTAACATTTCCAATATTTCTCCTTTCACCATAACCATTT
1 TGCGATCACCATGTTT-TGAGATTCTTTACCATTTCCATTATTTCTCCTTTC-CCATAACTGTTT
* *
62234676 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATTTCTCAACACTGCGTTGTTCAAAGAT
64 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
* * *
62234741 TTCAGAAGAAAGCATTCTGTGAAGGCCAC
129 TTCTGAAGAAAGCATTCTATGAAGGACAC
* * * * *
62234770 TGTGACCACCATGTTTTTCAGATTCTTTACCATTTCCATTATTTCTTCTTTTCCCATAACTGCTT
1 TGCGATCACCATG-TTTTGAGATTCTTTACCATTTCCATTATTTC-TCCTTTCCCATAACTGTTT
* **
62234835 CCTGAATCTCTTTCATCACTTCTTCCAGAAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
64 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
* * * * *
62234900 TTCTGAAGGAAGTACTCTGTGAAGGCCAC
129 TTCTGAAGAAAGCATTCTATGAAGGACAC
62234929 TGC
1 TGC
62234932 TAGGAGTAAA
Statistics
Matches: 276, Mismatches: 40, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
158 7 0.03
159 260 0.94
160 9 0.03
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (157 bp):
TGCGATCACCATGTTTTGAGATTCTTTACCATTTCCATTATTTCTCCTTTCCCATAACTGTTTCC
TGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGATTT
CTGAAGAAAGCATTCTATGAAGGACAC
Found at i:62236055 original size:4 final size:4
Alignment explanation
Indices: 62236046--62236080 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
62236036 TAGTCATTGC
*
62236046 ACAT ACAT ACAT ACAA ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
62236081 ATAAGAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (4 bp):
ACAT
Found at i:62240618 original size:20 final size:18
Alignment explanation
Indices: 62240589--62240640 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
62240579 TTTTACCAAA
*
62240589 ATTAATTAAATTATATGAT
1 ATTAAATAAATTATAT-AT
62240608 ATTTAAATAAATTA-ATAT
1 A-TTAAATAAATTATATAT
*
62240626 AAT-AATAAATTATAT
1 ATTAAATAAATTATAT
62240641 TTAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 9 0.31
17 3 0.10
18 3 0.10
19 3 0.10
20 11 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAATAAATTATATAT
Found at i:62240619 original size:29 final size:31
Alignment explanation
Indices: 62240587--62240666 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
62240577 ATTTTTACCA
* *
62240587 AAATTAAT-TAA-ATTATATGATATTTAAAT
1 AAATTAATATAATAATAAATGATATTTAAAT
*
62240616 AAATTAATATAATAATAAATTATATTTAAAT
1 AAATTAATATAATAATAAATGATATTTAAAT
* * * *
62240647 TATTTAATAGAATGATAAAT
1 AAATTAATATAATAATAAAT
62240667 AAAACATAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.19
30 3 0.07
31 31 0.74
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (31 bp):
AAATTAATATAATAATAAATGATATTTAAAT
Found at i:62240641 original size:31 final size:31
Alignment explanation
Indices: 62240606--62240666 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
62240596 AAATTATATG
*
62240606 ATATTTAAATAAATTAATATAATAATAAATT
1 ATATTTAAATAAATTAATAGAATAATAAATT
* * *
62240637 ATATTTAAATTATTTAATAGAATGATAAAT
1 ATATTTAAATAAATTAATAGAATAATAAAT
62240667 AAAACATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (31 bp):
ATATTTAAATAAATTAATAGAATAATAAATT
Found at i:62242553 original size:25 final size:25
Alignment explanation
Indices: 62242521--62242614 Score: 95
Period size: 24 Copynumber: 3.8 Consensus size: 25
62242511 GTTGTTTCAT
* *
62242521 GAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTCCCGATTAATGGCTCTCAG
* * *
62242546 GAGCTTCCCGA-TAGTGGCTCACAT
1 GAGCTTCCCGATTAATGGCTCTCAG
* *
62242570 GAGCTTCCCGATT-ATGGCTCTTAT
1 GAGCTTCCCGATTAATGGCTCTCAG
62242594 GAGCTTCCCG-TTATATGGCTC
1 GAGCTTCCCGATTA-ATGGCTC
62242615 GAATGAGCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.03
24 38 0.66
25 18 0.31
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCAG
Found at i:62242573 original size:24 final size:24
Alignment explanation
Indices: 62242518--62242660 Score: 110
Period size: 25 Copynumber: 5.8 Consensus size: 24
62242508 AAGGTTGTTT
* *
62242518 CATGAGCTTCCTGATTAATGGCTCT
1 CATGAGCTTCCCGATT-ATGGCTCA
**
62242543 CCGGAGCTTCCCGA-TAGTGGCTCA
1 CATGAGCTTCCCGATTA-TGGCTCA
*
62242567 CATGAGCTTCCCGATTATGGCTCT
1 CATGAGCTTCCCGATTATGGCTCA
* *
62242591 TATGAGCTTCCCGTTATATGGCTCGA
1 CATGAGCTTCCCGAT-TATGGCTC-A
* * *
62242617 -ATGAGCTTCCTGTTTATGTGCTCG
1 CATGAGCTTCCCGATTATG-GCTCA
* *
62242641 TATGAGCATTCCCGAATATG
1 CATGAGC-TTCCCGATTATG
62242661 AATTGACGGA
Statistics
Matches: 96, Mismatches: 15, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
23 1 0.01
24 42 0.44
25 44 0.46
26 9 0.09
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (24 bp):
CATGAGCTTCCCGATTATGGCTCA
Found at i:62242613 original size:49 final size:49
Alignment explanation
Indices: 62242518--62242655 Score: 156
Period size: 49 Copynumber: 2.8 Consensus size: 49
62242508 AAGGTTGTTT
***
62242518 CATGAGCTTCCTGATTAATGGCTCTCCGGAGCTTCCCGATAGTGGCTC-A
1 CATGAGCTTCCTGATT-ATGGCTCTTATGAGCTTCCCGATAGTGGCTCGA
*
62242567 CATGAGCTTCCCGATTATGGCTCTTATGAGCTTCCCGTTATA-TGGCTCGA
1 CATGAGCTTCCTGATTATGGCTCTTATGAGCTTCCCG--ATAGTGGCTCGA
* *
62242617 -ATGAGCTTCCTGTTTATGTGCTCGTATGAGCATTCCCGA
1 CATGAGCTTCCTGATTATG-GCTCTTATGAGC-TTCCCGA
62242656 ATATGAATTG
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
48 18 0.23
49 38 0.49
50 15 0.19
51 6 0.08
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (49 bp):
CATGAGCTTCCTGATTATGGCTCTTATGAGCTTCCCGATAGTGGCTCGA
Found at i:62244096 original size:28 final size:28
Alignment explanation
Indices: 62244065--62244150 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 28
62244055 GCACTTAACA
*
62244065 TGCGAAGTATTGGGGATGGCACTTAGTG
1 TGCGAAGTATTGAGGATGGCACTTAGTG
* ** *
62244093 TGCGATA-CATCCAGAATGGCACTTAGTG
1 TGCGA-AGTATTGAGGATGGCACTTAGTG
*
62244121 TGCGAAGTAATGAGGATGGCACTTAGTG
1 TGCGAAGTATTGAGGATGGCACTTAGTG
62244149 TG
1 TG
62244151 TGAAACATCC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
27 1 0.02
28 44 0.96
29 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.27
Consensus pattern (28 bp):
TGCGAAGTATTGAGGATGGCACTTAGTG
Found at i:62244139 original size:56 final size:56
Alignment explanation
Indices: 62244065--62244179 Score: 185
Period size: 56 Copynumber: 2.1 Consensus size: 56
62244055 GCACTTAACA
* * * *
62244065 TGCGAAGTATTGGGGATGGCACTTAGTGTGCGATACATCCAGAATGGCACTTAGTG
1 TGCGAAGTAATGAGGATGGCACTTAGTGTGCGAAACATCCAGAACGGCACTTAGTG
*
62244121 TGCGAAGTAATGAGGATGGCACTTAGTGTGTGAAACATCCAGAACGGCACTTAGTG
1 TGCGAAGTAATGAGGATGGCACTTAGTGTGCGAAACATCCAGAACGGCACTTAGTG
62244177 TGC
1 TGC
62244180 AAGGTATCGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (56 bp):
TGCGAAGTAATGAGGATGGCACTTAGTGTGCGAAACATCCAGAACGGCACTTAGTG
Found at i:62244169 original size:28 final size:28
Alignment explanation
Indices: 62244080--62244179 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
62244070 AGTATTGGGG
*
62244080 ATGGCACTTAGTGTGCGATACATCCAGA
1 ATGGCACTTAGTGTGCGAAACATCCAGA
* *
62244108 ATGGCACTTAGTGTGCGAAGTA-AT-GAGG
1 ATGGCACTTAGTGTGCGAA--ACATCCAGA
*
62244136 ATGGCACTTAGTGTGTGAAACATCCAGA
1 ATGGCACTTAGTGTGCGAAACATCCAGA
*
62244164 ACGGCACTTAGTGTGC
1 ATGGCACTTAGTGTGC
62244180 AAGGTATCGG
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 2 0.03
28 54 0.90
29 2 0.03
30 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAACATCCAGA
Found at i:62244293 original size:32 final size:32
Alignment explanation
Indices: 62244257--62244355 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 32
62244247 TGAGTATGAG
* * *
62244257 ATTGGTACGAGATGATATAGGTATTTAC-AGAA
1 ATTGGTACAAGATGATACAGGTATGTACGA-AA
* *
62244289 ATTGGTACAATATGGTACAGGTATGTACGAAA
1 ATTGGTACAAGATGATACAGGTATGTACGAAA
* **
62244321 ATTGGTACAACAT-AGTACATATATGTACGAAA
1 ATTGGTACAAGATGA-TACAGGTATGTACGAAA
62244353 ATT
1 ATT
62244356 CAATTGAGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
32 55 0.98
33 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (32 bp):
ATTGGTACAAGATGATACAGGTATGTACGAAA
Found at i:62247739 original size:23 final size:23
Alignment explanation
Indices: 62247710--62247779 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
62247700 CAAACTACTA
* *
62247710 TGCTATAGAAGCAGACATAATCG
1 TGCTATAAAAGCAGACATAACCG
* *
62247733 TGTTATAAAAGTAGACATAACCG
1 TGCTATAAAAGCAGACATAACCG
* *
62247756 TGCCATAAAAGCAGACAAAACCG
1 TGCTATAAAAGCAGACATAACCG
62247779 T
1 T
62247780 TTTAAGAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (23 bp):
TGCTATAAAAGCAGACATAACCG
Found at i:62259937 original size:7 final size:7
Alignment explanation
Indices: 62259921--62259953 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
62259911 GACAGAGAGT
62259921 AATC-GC
1 AATCGGC
62259927 AATCGGC
1 AATCGGC
62259934 AATCGGC
1 AATCGGC
62259941 AATCGGC
1 AATCGGC
62259948 AATCGG
1 AATCGG
62259954 TAATTCAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.15
7 22 0.85
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.15
Consensus pattern (7 bp):
AATCGGC
Found at i:62260295 original size:78 final size:79
Alignment explanation
Indices: 62260157--62260317 Score: 193
Period size: 78 Copynumber: 2.1 Consensus size: 79
62260147 ATTCTCCTAC
* ** *
62260157 TTTTTCAATTTAAAAATCATAGTCCAATTATTATTGTTGTTAGTAGATTTTTTTAAAATTTATCA
1 TTTTTCAATTTAAAAATCATAGTCCAATCATTATTGTCATGAGTAGATTTTTTTAAAATTTATCA
* *
62260222 ACTTAATATGTTTA
66 ACTTAACATATTTA
** *
62260236 TTTTT-AATTTAAAAATTTTAGTCCAATCATTATTGTCATCGA-TA-ATTTTTGTTAGAATTTAT
1 TTTTTCAATTTAAAAATCATAGTCCAATCATTATTGTCAT-GAGTAGATTTTT-TTAAAATTTAT
*
62260298 CAATTTAACATATTTA
64 CAACTTAACATATTTA
62260314 TTTT
1 TTTT
62260318 CCGTCAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 6 0.09
78 58 0.83
79 6 0.09
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.52
Consensus pattern (79 bp):
TTTTTCAATTTAAAAATCATAGTCCAATCATTATTGTCATGAGTAGATTTTTTTAAAATTTATCA
ACTTAACATATTTA
Found at i:62260758 original size:14 final size:14
Alignment explanation
Indices: 62260739--62260790 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
62260729 CATTTAAATG
62260739 ATAATTTTTTTTAC
1 ATAATTTTTTTTAC
* *
62260753 ATAATTTTTTTAAT
1 ATAATTTTTTTTAC
* **
62260767 AAAATTACTTTTAC
1 ATAATTTTTTTTAC
62260781 ATAATTTTTT
1 ATAATTTTTT
62260791 CTCACTTATG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
ATAATTTTTTTTAC
Found at i:62261388 original size:12 final size:12
Alignment explanation
Indices: 62261371--62261396 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62261361 AATTTGTTTG
62261371 TTGTTTTAATAT
1 TTGTTTTAATAT
62261383 TTGTTTTAATAT
1 TTGTTTTAATAT
62261395 TT
1 TT
62261397 AAGTGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:62269054 original size:16 final size:16
Alignment explanation
Indices: 62269033--62269065 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62269023 ACACCCAATT
62269033 TGGTGGGGCTCATCAA
1 TGGTGGGGCTCATCAA
62269049 TGGTGGGGCTCATCAA
1 TGGTGGGGCTCATCAA
62269065 T
1 T
62269066 TACGATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (16 bp):
TGGTGGGGCTCATCAA
Found at i:62270025 original size:5 final size:5
Alignment explanation
Indices: 62270015--62270041 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
62270005 TATTAATTAA
62270015 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
62270042 TATAAAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:62271115 original size:23 final size:24
Alignment explanation
Indices: 62271080--62271142 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
62271070 CACTTAGTGC
62271080 CATTCTGGTGTGTTTGGGA-GGAT
1 CATTCTGGTGTGTTTGGGATGGAT
* * *
62271103 TATTTTGGTGTGTTT-AGATGGAT
1 CATTCTGGTGTGTTTGGGATGGAT
62271126 CATTCTGGTGTGTTTGG
1 CATTCTGGTGTGTTTGG
62271143 TTGGAATCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 2 0.06
23 30 0.94
ACGTcount: A:0.13, C:0.06, G:0.35, T:0.46
Consensus pattern (24 bp):
CATTCTGGTGTGTTTGGGATGGAT
Found at i:62271751 original size:20 final size:20
Alignment explanation
Indices: 62271726--62271763 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62271716 TTGTAATTAA
62271726 ATATTATT-TAATTATAATGT
1 ATATTATTAT-ATTATAATGT
62271746 ATATTATTATATTATAAT
1 ATATTATTATATTATAAT
62271764 ATTGTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATTATTATATTATAATGT
Found at i:62271961 original size:3 final size:3
Alignment explanation
Indices: 62271953--62271994 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
62271943 ATGACATTGG
62271953 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62271995 ATAATAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:62272401 original size:42 final size:42
Alignment explanation
Indices: 62272345--62272432 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
62272335 GAAATTTTGA
*
62272345 AAGTTAGCATATTATTAGATGTTGTTCATGCTGAATAAATTG
1 AAGTTAGCAAATTATTAGATGTTGTTCATGCTGAATAAATTG
*
62272387 AAGTTAGCAAATTATTAGATGTTGTTCATGTTGAATAAATTG
1 AAGTTAGCAAATTATTAGATGTTGTTCATGCTGAATAAATTG
62272429 AAGT
1 AAGT
62272433 AGTATTTATC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (42 bp):
AAGTTAGCAAATTATTAGATGTTGTTCATGCTGAATAAATTG
Found at i:62272779 original size:3 final size:3
Alignment explanation
Indices: 62272771--62272806 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
62272761 TCTTTAATTT
*
62272771 ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62272807 CCAATGTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62273004 original size:20 final size:21
Alignment explanation
Indices: 62272979--62273029 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
62272969 TATTTATAAT
*
62272979 TAATATAAATGACA-ATATTA
1 TAATATAAATAACATATATTA
*
62272999 TAATAT-AATAATATATATTA
1 TAATATAAATAACATATATTA
62273019 TAAT-TAAATAA
1 TAATATAAATAA
62273030 TATTTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TAATATAAATAACATATATTA
Found at i:62273030 original size:20 final size:20
Alignment explanation
Indices: 62272993--62273032 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
62272983 ATAAATGACA
62272993 ATATTATAATATAATAATAT
1 ATATTATAATATAATAATAT
62273013 ATATTATAAT-TAAATAATAT
1 ATATTATAATAT-AATAATAT
62273033 TTAATTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTATAATATAATAATAT
Found at i:62273037 original size:15 final size:17
Alignment explanation
Indices: 62272993--62273039 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
62272983 ATAAATGACA
62272993 ATATTATAATATAATAATAT
1 ATATTATAAT-T-A-AATAT
62273013 ATATTATAATTAAATA-
1 ATATTATAATTAAATAT
62273029 ATATT-TAATTA
1 ATATTATAATTA
62273040 CAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.22
16 5 0.19
17 4 0.15
18 1 0.04
19 1 0.04
20 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTATAATTAAATAT
Found at i:62281125 original size:20 final size:20
Alignment explanation
Indices: 62281100--62281138 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
62281090 GGCAAACACT
62281100 TATATTATT-TAATTATAATG
1 TATATTATTAT-ATTATAATG
62281120 TATATTATTATATTATAAT
1 TATATTATTATATTATAAT
62281139 ATTGTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TATATTATTATATTATAATG
Found at i:62281333 original size:3 final size:3
Alignment explanation
Indices: 62281325--62281365 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
62281315 ATGACATTGG
62281325 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
62281366 AAGAAAGACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:62281542 original size:15 final size:14
Alignment explanation
Indices: 62281516--62281549 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
62281506 TAAAGGAAAT
62281516 GAAA-AAAAAAAAA
1 GAAACAAAAAAAAA
62281529 GAAACAAAACAAAAA
1 GAAACAAAA-AAAAA
62281544 GAAACA
1 GAAACA
62281550 GAGAGCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 4 0.21
15 11 0.58
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (14 bp):
GAAACAAAAAAAAA
Found at i:62281755 original size:40 final size:40
Alignment explanation
Indices: 62281710--62281787 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
62281700 TTGATTTATA
* *
62281710 TTGAAATTTTAAAAGTTAATAGATTATTAGATGTTGTTTG
1 TTGAAATTTTAAAAGTTAACAGATTAGTAGATGTTGTTTG
*
62281750 TTGAAATTTTAAAAGTTAGCAGATTAGTAGATGTTGTT
1 TTGAAATTTTAAAAGTTAACAGATTAGTAGATGTTGTT
62281788 CATGTTCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (40 bp):
TTGAAATTTTAAAAGTTAACAGATTAGTAGATGTTGTTTG
Found at i:62282858 original size:11 final size:12
Alignment explanation
Indices: 62282842--62282870 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
62282832 AAATTGACAC
62282842 ATATTTTTTTA-
1 ATATTTTTTTAT
62282853 ATATTTTTTTAT
1 ATATTTTTTTAT
62282865 ATATTT
1 ATATTT
62282871 ATAGGACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATATTTTTTTAT
Found at i:62285949 original size:2 final size:2
Alignment explanation
Indices: 62285942--62285969 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62285932 ATTATTTATT
62285942 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62285970 ATTCAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62300874 original size:46 final size:46
Alignment explanation
Indices: 62300821--62301079 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
62300811 GCTCTCTGAA
** * *
62300821 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * ** *
62300867 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAATGTGGC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
62300913 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
62300959 GGGAAATGAATAAGACCATGGTTGAAAGGTACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
62301005 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
62301051 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
62301080 CACTACGGCA
Statistics
Matches: 186, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.01
46 185 0.99
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:62305052 original size:40 final size:37
Alignment explanation
Indices: 62304944--62305057 Score: 117
Period size: 40 Copynumber: 3.1 Consensus size: 37
62304934 TGATATTGAA
*
62304944 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATT
1 TGTGAGCCCAGCTCTAGTTAGATAAACCAACGATATT
* * * *
62304981 T-TCA-CCCA-ATGCTAGTTAGATATACCGACGATAATAAT
1 TGTGAGCCCAGCT-CTAGTTAGATAAACCAACGAT-AT--T
*
62305019 TGTGAGCCCAGCTCTAGTTAGATAAACCAACGATTTT
1 TGTGAGCCCAGCTCTAGTTAGATAAACCAACGATATT
62305056 TG
1 TG
62305058 CACCCAGTGT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
34 1 0.02
35 22 0.37
36 4 0.07
37 4 0.07
38 2 0.03
39 3 0.05
40 23 0.38
41 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (37 bp):
TGTGAGCCCAGCTCTAGTTAGATAAACCAACGATATT
Found at i:62305079 original size:75 final size:75
Alignment explanation
Indices: 62304944--62305120 Score: 259
Period size: 75 Copynumber: 2.4 Consensus size: 75
62304934 TGATATTGAA
* *
62304944 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTTCACCCAATGCTAGTTAGATATACCGA
1 TGTGAGCCCAGCTCTAGTTAGATAAACCAACGATATTTTCACCCAATGCTAGTGAGATATACCGA
*
62305009 CGATAATAAT
66 CGATAAAAAT
* * *
62305019 TGTGAGCCCAGCTCTAGTTAGATAAACCAACGAT-TTTTGCACCCAGTGTTAGTCGA-ATATACT
1 TGTGAGCCCAGCTCTAGTTAGATAAACCAACGATATTTT-CACCCAATGCTAGT-GAGATATACC
62305082 GACGATAAAAAT
64 GACGATAAAAAT
*
62305094 TGTGAGCCCAGCTCTAGTTTGATAAAC
1 TGTGAGCCCAGCTCTAGTTAGATAAAC
62305121 TAACAATAAT
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
74 4 0.04
75 88 0.95
76 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
TGTGAGCCCAGCTCTAGTTAGATAAACCAACGATATTTTCACCCAATGCTAGTGAGATATACCGA
CGATAAAAAT
Found at i:62309337 original size:32 final size:32
Alignment explanation
Indices: 62309243--62309338 Score: 174
Period size: 32 Copynumber: 3.0 Consensus size: 32
62309233 AACCATAAGA
* *
62309243 AAGCAACACACACAATGTGTTTGAGCATATAC
1 AAGCAATACACACAATGTGTTTGAGCATATGC
62309275 AAGCAATACACACAATGTGTTTGAGCATATGC
1 AAGCAATACACACAATGTGTTTGAGCATATGC
62309307 AAGCAATACACACAATGTGTTTGAGCATATGC
1 AAGCAATACACACAATGTGTTTGAGCATATGC
62309339 TCTCAAAAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (32 bp):
AAGCAATACACACAATGTGTTTGAGCATATGC
Found at i:62310202 original size:13 final size:14
Alignment explanation
Indices: 62310186--62310227 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
62310176 TTTCAATTTT
62310186 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
62310199 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
62310214 ATTTTAAATAATAT
1 ATTTT-AATAATAT
62310228 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:62310212 original size:16 final size:16
Alignment explanation
Indices: 62310190--62310226 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
62310180 AATTTTATTT
62310190 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
62310207 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
62310222 TAATA
1 TAATA
62310227 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Done.