Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 147 of 153
Found at i:45925325 original size:24 final size:24
Alignment explanation
Indices: 45925284--45925329 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
45925274 AGCGCGCTTC
*
45925284 AATTCAATCCTCTTATTTCTATTTA
1 AATTCAATCCTCTCATTT-TATTTA
*
45925309 AATTTAAT-CTCTCATTTTATT
1 AATTCAATCCTCTCATTTTATT
45925330 ATTGTTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 8 0.42
25 7 0.37
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.54
Consensus pattern (24 bp):
AATTCAATCCTCTCATTTTATTTA
Found at i:45931846 original size:38 final size:38
Alignment explanation
Indices: 45931795--45931870 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
45931785 TAATGAAAAC
45931795 TTGGATAAAAAGAAAACCAAGCCTTACTTATAGATAGG
1 TTGGATAAAAAGAAAACCAAGCCTTACTTATAGATAGG
* *
45931833 TTGGATAAAAAGAAAACCAAGTCTTACTTGTAGATAGG
1 TTGGATAAAAAGAAAACCAAGCCTTACTTATAGATAGG
45931871 GAGGATTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (38 bp):
TTGGATAAAAAGAAAACCAAGCCTTACTTATAGATAGG
Found at i:45935037 original size:18 final size:19
Alignment explanation
Indices: 45935016--45935052 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45935006 TTTTTAAAAA
45935016 ATATAAA-ATTTGGAATTT
1 ATATAAATATTTGGAATTT
*
45935034 ATATAAATATTTTGAATTT
1 ATATAAATATTTGGAATTT
45935053 TAAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (19 bp):
ATATAAATATTTGGAATTT
Found at i:45939328 original size:43 final size:42
Alignment explanation
Indices: 45939265--45939390 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 42
45939255 AGGACTCTGA
45939265 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGT-GGCATCG-C
* *
45939309 T-TGTGTTTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* * * *
45939351 TATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACG-TGGCAT
45939391 TGCACTAGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.04
43 63 0.90
44 4 0.06
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (42 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:45941180 original size:40 final size:40
Alignment explanation
Indices: 45941082--45941228 Score: 129
Period size: 40 Copynumber: 3.6 Consensus size: 40
45941072 TGAATGCTGT
* * *
45941082 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATA-TATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC---GAG-ATACTAAAA
* * *
45941124 CCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAAA
* * * *
45941164 CCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAAA
*
45941204 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45941229 AACGAGGAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
39 4 0.05
40 59 0.67
42 17 0.19
43 8 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAAA
Found at i:45943518 original size:114 final size:114
Alignment explanation
Indices: 45943356--45944378 Score: 1951
Period size: 114 Copynumber: 9.0 Consensus size: 114
45943346 GAGTAAATGA
** * *
45943356 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
45943421 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
66 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
45943470 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
45943535 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
66 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
45943584 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
45943649 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
66 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
45943698 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
45943763 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
66 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
45943812 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
45943877 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
66 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
45943926 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
45943991 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
66 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
45944040 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
45944105 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
66 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
45944154 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
45944219 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
66 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
45944268 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
* * * *
45944333 TTTTATGTACAAATGCAGTCCAATT-T-TGTATATATGCTGTCCAAAT
66 TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGT-CAAAT
45944379 TTTGGTGTGA
Statistics
Matches: 900, Mismatches: 8, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
112 13 0.01
113 6 0.01
114 881 0.98
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (114 bp):
ATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
TTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTCAAATAT
Found at i:45944268 original size:67 final size:67
Alignment explanation
Indices: 45944197--45944330 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
45944187 CAGTCCAATT
*
45944197 ATATATGTATATGCTGTCAATTTTTAACGTATAAATGCAGTCCAATTATATGTGTATATGCTGTC
1 ATATATGTATATGCTGTCAATTTTTAACGTATAAATGCAGTCCAATTATATATGTATATGCTGTC
45944262 AA
66 AA
* *
45944264 ATATATGTATATGCTGTCACTTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTC
1 ATATATGTATATGCTGTCAATTTTTAACGTATAAATGCAGTCCAATTATATATGTATATGCTGTC
45944329 AA
66 AA
45944331 TTTTTTATGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (67 bp):
ATATATGTATATGCTGTCAATTTTTAACGTATAAATGCAGTCCAATTATATATGTATATGCTGTC
AA
Found at i:45944717 original size:12 final size:12
Alignment explanation
Indices: 45944700--45944724 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45944690 GTTATGTGTT
45944700 TATATATATATG
1 TATATATATATG
45944712 TATATATATATG
1 TATATATATATG
45944724 T
1 T
45944725 GGAATGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:45946080 original size:16 final size:16
Alignment explanation
Indices: 45946057--45946092 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45946047 AGCAAATTAT
45946057 TAAAAAAATATAAAAAA
1 TAAAAAAA-ATAAAAAA
*
45946074 TAAAAAAAATTAAAAA
1 TAAAAAAAATAAAAAA
45946090 TAA
1 TAA
45946093 GAAGAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:45949086 original size:16 final size:16
Alignment explanation
Indices: 45949065--45949100 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
45949055 TTTGGTTCGC
*
45949065 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAAG
45949081 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAAG
45949097 TGTA
1 TGTA
45949101 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAAG
Found at i:45949429 original size:150 final size:153
Alignment explanation
Indices: 45949224--45949533 Score: 491
Period size: 150 Copynumber: 2.0 Consensus size: 153
45949214 TAGAATACCC
*
45949224 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGT-AA-GATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
45949289 TTATCAATAATAAATATTTTAATCATATTTAAAC-ATTATTATTAAACCCATTTTAATTAAAATA
64 ATATCAATAATAAATAATTTAATCATATTTAAACAATTATTATTAAACACATTATAATTAAAATA
*
45949353 TATAATTTCATAAAATTCTTAATAA
129 TATAATTTAATAAAATTCTTAATAA
45949378 TTAGCAGAAATTTGTTTTGGT-A-ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
1 TTAGCAGAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
* *
45949441 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATA
66 ATCAATAATAAATAATTTAATCATATTTAAAC--AATTATTATTAAACACATTATAATTAAAATA
45949506 TATAATTTAATAAAATTCTTAATAA
129 TATAATTTAATAAAATTCTTAATAA
45949531 TTA
1 TTA
45949534 ATATTCTTAT
Statistics
Matches: 145, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
150 71 0.49
152 1 0.01
153 53 0.37
154 20 0.14
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (153 bp):
TTAGCAGAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
ATCAATAATAAATAATTTAATCATATTTAAACAATTATTATTAAACACATTATAATTAAAATATA
TAATTTAATAAAATTCTTAATAA
Found at i:45949504 original size:16 final size:16
Alignment explanation
Indices: 45949467--45949508 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45949457 TTAATCATAT
*
45949467 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
45949483 TT-AAATATATTATAA
1 TTAAAATATATTATAA
45949498 TTAAAATATAT
1 TTAAAATATAT
45949509 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:45949515 original size:14 final size:15
Alignment explanation
Indices: 45949476--45949517 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45949466 TTTAAACATA
*
45949476 ATTATTATTAAATAT
1 ATTATAATTAAATAT
45949491 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
45949505 A-TATAATTTAATA
1 ATTATAATTAAATA
45949518 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:45949635 original size:14 final size:15
Alignment explanation
Indices: 45949586--45949637 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45949576 GTAAAATATA
45949586 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
45949601 TATTAAATATATTAT
1 AATTAAATATATTAT
45949616 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
45949629 AATTTAATA
1 AATTAAATA
45949638 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:45949755 original size:14 final size:15
Alignment explanation
Indices: 45949706--45949757 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45949696 ATAAAATATA
45949706 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
45949721 TATTAAATATATTAT
1 AATTAAATATATTAT
45949736 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
45949749 AATTTAATA
1 AATTAAATA
45949758 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:45949893 original size:120 final size:120
Alignment explanation
Indices: 45949470--45949882 Score: 749
Period size: 120 Copynumber: 3.4 Consensus size: 120
45949460 ATCATATTTA
45949470 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
45949535 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
45949590 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
45949655 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
45949710 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
45949775 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAA-TT
* * *
45949830 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
45949883 TAAAATAATT
Statistics
Matches: 286, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
119 3 0.01
120 281 0.98
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:45949969 original size:24 final size:25
Alignment explanation
Indices: 45949923--45949970 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
45949913 TATGAATTTG
45949923 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
45949949 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
45949971 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:45949974 original size:92 final size:92
Alignment explanation
Indices: 45949878--45950106 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
45949868 TGATTTAATA
* * *
45949878 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
45949940 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
45949970 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
45950035 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
45950060 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
45950107 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:45953172 original size:11 final size:11
Alignment explanation
Indices: 45953156--45953182 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45953146 GATTTTATCA
45953156 ATTGTTGAGAT
1 ATTGTTGAGAT
45953167 ATTGTTGAGAT
1 ATTGTTGAGAT
45953178 ATTGT
1 ATTGT
45953183 CATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (11 bp):
ATTGTTGAGAT
Found at i:45953383 original size:97 final size:97
Alignment explanation
Indices: 45953271--45953797 Score: 1018
Period size: 97 Copynumber: 5.4 Consensus size: 97
45953261 TTTAATAACA
45953271 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
45953336 TAAATTATGAAGATTTAATCTTAAATTTGGAT
66 TAAATTATGAAGATTTAATCTTAAATTTGGAT
45953368 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
45953433 TAAATTATGAAGATTTAATCTTAAATTTGGAT
66 TAAATTATGAAGATTTAATCTTAAATTTGGAT
45953465 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
45953530 TAAATTATGAAGATTTAATCTTAAATTTGGAT
66 TAAATTATGAAGATTTAATCTTAAATTTGGAT
45953562 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
* *
45953627 TAAAATATGCAGATTTAATCTTAAATTTGGAT
66 TAAATTATGAAGATTTAATCTTAAATTTGGAT
45953659 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
* *
45953724 TAAAATATGCAGATTTAATCTTAAATTTGGAT
66 TAAATTATGAAGATTTAATCTTAAATTTGGAT
45953756 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
45953798 CATAATTTAA
Statistics
Matches: 428, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 428 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.42
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAATTATGAAGATTTAATCTTAAATTTGGAT
Found at i:45962390 original size:21 final size:21
Alignment explanation
Indices: 45962352--45962391 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
45962342 GTAATGCTTC
*
45962352 TTGGAGGAGGAGGAAGCAGGT
1 TTGGAGGAGAAGGAAGCAGGT
45962373 TTGGAGGA-AAGGAGAGCAG
1 TTGGAGGAGAAGGA-AGCAG
45962392 TAAAATCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.05, G:0.50, T:0.12
Consensus pattern (21 bp):
TTGGAGGAGAAGGAAGCAGGT
Found at i:45978703 original size:29 final size:26
Alignment explanation
Indices: 45978663--45978722 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 26
45978653 AAAAACCTTT
*
45978663 TTTTTTAAATTTATCGAAATAGGCCA
1 TTTTTTAAATTTACCGAAATAGGCCA
* *
45978689 CTTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTTAA--ATTTACCGAAATAGGCCA
45978718 TTTTT
1 TTTTT
45978723 CGCGAAATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.29
28 5 0.18
29 15 0.54
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (26 bp):
TTTTTTAAATTTACCGAAATAGGCCA
Found at i:45979634 original size:27 final size:28
Alignment explanation
Indices: 45979585--45979638 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
45979575 TGCGAAAAAT
*
45979585 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGATAAAT-ATTAAAAAACC
*
45979614 GGCCCATTTCGATAAAT-TTAAAAAA
1 GGCCCATTCCGATAAATATTAAAAAA
45979639 AATGCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
29 15 0.65
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (28 bp):
GGCCCATTCCGATAAATATTAAAAAACC
Found at i:45986763 original size:26 final size:26
Alignment explanation
Indices: 45986690--45986757 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
45986680 TTCAATAATG
45986690 TTCACACGAGCTGTGGAATGGGCCTA
1 TTCACACGAGCTGTGGAATGGGCCTA
* *
45986716 CTCACACGAGCTGTGGAATGGGCTTA
1 TTCACACGAGCTGTGGAATGGGCCTA
45986742 TTCACACGAGCTGTGG
1 TTCACACGAGCTGTGG
45986758 GTTGGGACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (26 bp):
TTCACACGAGCTGTGGAATGGGCCTA
Found at i:45989274 original size:448 final size:448
Alignment explanation
Indices: 45988427--45989327 Score: 1766
Period size: 448 Copynumber: 2.0 Consensus size: 448
45988417 AATCGACTAC
45988427 CAATGCCTTCAATTGCATGAATAAGTACCGGACAGTGATCGAAAAAACCATACGGGAGGTGTTTA
1 CAATGCCTTCAATTGCATGAATAAGTACCGGACAGTGATCGAAAAAACCATACGGGAGGTGTTTA
45988492 ATTGTATAGCCCGGGAATAGATCCCACCAATTCGAGTTGGCCACCCCTCGACTTAGAAATTCTTA
66 ATTGTATAGCCCGGGAATAGATCCCACCAATTCGAGTTGGCCACCCCTCGACTTAGAAATTCTTA
45988557 TATATTATTTACTGGTAGCCTTCCACTCTTCCATGTAAACCATTGTCATGAGAACTCCAAATAAC
131 TATATTATTTACTGGTAGCCTTCCACTCTTCCATGTAAACCATTGTCATGAGAACTCCAAATAAC
45988622 TTAGATCACATTCCTCCAAAATTCCCCGAAAAGCCATCAGTTATTGCTCTTCTCGGAGGCACCCC
196 TTAGATCACATTCCTCCAAAATTCCCCGAAAAGCCATCAGTTATTGCTCTTCTCGGAGGCACCCC
45988687 CTTTTTTCTCAAACGAATACATTATTCATTAAAATCTCCCATTACTAACCACAATAAAGAACTAT
261 CTTTTTTCTCAAACGAATACATTATTCATTAAAATCTCCCATTACTAACCACAATAAAGAACTAT
*
45988752 TTCTGCTCAAATGTTGCAACAAATTCCATGATTCTACCCTTCGTCGTTCCACTAATGATCTATAA
326 TTCTGCTCAAATGTTGCAACAAATTCCATGATTCTACCCTTCGTCGTTCCACTAATGATCCATAA
* *
45988817 AATCTGTAAACCTCCATGATATTGTCTTATCCCCTTAATTTATTTCAACATCAACATA
391 AACCTGTAAACCTCCATGATATTGTCTCATCCCCTTAATTTATTTCAACATCAACATA
*
45988875 CAATGCCTTCAATTGTATGAATAAGTACCGGACAGTGATCGAAAAAACCATACGGGAGGTGTTTA
1 CAATGCCTTCAATTGCATGAATAAGTACCGGACAGTGATCGAAAAAACCATACGGGAGGTGTTTA
45988940 ATTGTATAGCCCGGGAATAGATCCCACCAATTCGAGTTGGCCACCCCTCGACTTAGAAATTCTTA
66 ATTGTATAGCCCGGGAATAGATCCCACCAATTCGAGTTGGCCACCCCTCGACTTAGAAATTCTTA
45989005 TATATTATTTACTGGTAGCCTTCCACTCTTCCATGTAAACCATTGTCATGAGAACTCCAAATAAC
131 TATATTATTTACTGGTAGCCTTCCACTCTTCCATGTAAACCATTGTCATGAGAACTCCAAATAAC
45989070 TTAGATCACATTCCTCCAAAATTCCCCGAAAAGCCATCAGTTATTGCTCTTCTCGGAGGCACCCC
196 TTAGATCACATTCCTCCAAAATTCCCCGAAAAGCCATCAGTTATTGCTCTTCTCGGAGGCACCCC
45989135 CTTTTTTCTCAAACGAATACATTATTCATTAAAATCTCCCATTACTAACCACAATAAAGAACTAT
261 CTTTTTTCTCAAACGAATACATTATTCATTAAAATCTCCCATTACTAACCACAATAAAGAACTAT
45989200 TTCTGCTCAAATGTTGCAACAAATTCCATGATTCTACCCTTCGTCGTTCCACTAATGATCCATAA
326 TTCTGCTCAAATGTTGCAACAAATTCCATGATTCTACCCTTCGTCGTTCCACTAATGATCCATAA
45989265 AACCTGTAAACCTCCATGATATTGTCTCATCCCCTTAATTTATTTCAACATCAACATA
391 AACCTGTAAACCTCCATGATATTGTCTCATCCCCTTAATTTATTTCAACATCAACATA
45989323 CAATG
1 CAATG
45989328 AAGAGAAACT
Statistics
Matches: 449, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
448 449 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.31
Consensus pattern (448 bp):
CAATGCCTTCAATTGCATGAATAAGTACCGGACAGTGATCGAAAAAACCATACGGGAGGTGTTTA
ATTGTATAGCCCGGGAATAGATCCCACCAATTCGAGTTGGCCACCCCTCGACTTAGAAATTCTTA
TATATTATTTACTGGTAGCCTTCCACTCTTCCATGTAAACCATTGTCATGAGAACTCCAAATAAC
TTAGATCACATTCCTCCAAAATTCCCCGAAAAGCCATCAGTTATTGCTCTTCTCGGAGGCACCCC
CTTTTTTCTCAAACGAATACATTATTCATTAAAATCTCCCATTACTAACCACAATAAAGAACTAT
TTCTGCTCAAATGTTGCAACAAATTCCATGATTCTACCCTTCGTCGTTCCACTAATGATCCATAA
AACCTGTAAACCTCCATGATATTGTCTCATCCCCTTAATTTATTTCAACATCAACATA
Found at i:45994146 original size:21 final size:22
Alignment explanation
Indices: 45994081--45994152 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 22
45994071 TGAGAAACCC
45994081 CACA-TCTATTGTTTGAAGCGA
1 CACATTCTATTGTTTGAAGCGA
*
45994102 CACCATTTCTTATGTTGCTTGAAGCGA
1 CA-CA-TTC-TA--TTGTTTGAAGCGA
45994129 CAC-TTCTATTGTTTGAAGCGA
1 CACATTCTATTGTTTGAAGCGA
45994150 CAC
1 CAC
45994153 CACTCATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
21 17 0.40
22 2 0.05
23 2 0.05
24 5 0.12
25 2 0.05
26 1 0.02
27 14 0.33
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (22 bp):
CACATTCTATTGTTTGAAGCGA
Found at i:45994156 original size:24 final size:24
Alignment explanation
Indices: 45994080--45994156 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
45994070 ATGAGAAACC
*
45994080 CCACATCTATTGTTTGAAGCGACA
1 CCACTTCTATTGTTTGAAGCGACA
* *
45994104 CCATTTCTTATGTTGCTTGAAGCG--A
1 CCACTTC-TA--TTGTTTGAAGCGACA
45994129 -CACTTCTATTGTTTGAAGCGACA
1 CCACTTCTATTGTTTGAAGCGACA
45994152 CCACT
1 CCACT
45994157 CATATAGGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
21 11 0.26
23 3 0.07
24 14 0.33
25 3 0.07
27 11 0.26
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (24 bp):
CCACTTCTATTGTTTGAAGCGACA
Found at i:45994875 original size:13 final size:13
Alignment explanation
Indices: 45994857--45994881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45994847 CACCCTGAAA
45994857 TCTGGGTTAAATT
1 TCTGGGTTAAATT
45994870 TCTGGGTTAAAT
1 TCTGGGTTAAAT
45994882 CTGTAATTTT
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:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (13 bp):
TCTGGGTTAAATT
Found at i:46003120 original size:6 final size:6
Alignment explanation
Indices: 46003109--46003164 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
46003099 ATAAACCTTA
46003109 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
46003157 TATTAC TA
1 TATTAC TA
46003165 CTTGATAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTAC
Found at i:46004624 original size:17 final size:18
Alignment explanation
Indices: 46004590--46004635 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
46004580 CCGTTATGTC
46004590 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
46004605 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
46004622 CGCGACCGCGACCG
1 CGCGACCGCGACCG
46004636 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:46007435 original size:15 final size:16
Alignment explanation
Indices: 46007415--46007453 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
46007405 CTACCATCGT
46007415 CTTTCTTCTT-TTTTC
1 CTTTCTTCTTCTTTTC
*
46007430 CTTTCTTCTTCTTTTT
1 CTTTCTTCTTCTTTTC
46007446 C-TTCTTCT
1 CTTTCTTCT
46007454 CGTCATCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
CTTTCTTCTTCTTTTC
Found at i:46007519 original size:24 final size:24
Alignment explanation
Indices: 46007474--46007519 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
46007464 ACCACCATCG
* **
46007474 CTATCACGGTCGCTTTCACGATCA
1 CTATCACGGTCCCGATCACGATCA
*
46007498 CTATCACGGTCCCGATCGCGAT
1 CTATCACGGTCCCGATCACGAT
46007520 GGTGCTCACG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.26
Consensus pattern (24 bp):
CTATCACGGTCCCGATCACGATCA
Found at i:46007577 original size:18 final size:18
Alignment explanation
Indices: 46007556--46007591 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46007546 TGGTCACGAT
*
46007556 CACGACTGCTATCGCGAC
1 CACGACTACTATCGCGAC
*
46007574 CACGGCTACTATCGCGAC
1 CACGACTACTATCGCGAC
46007592 GATGGTCGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.39, G:0.22, T:0.17
Consensus pattern (18 bp):
CACGACTACTATCGCGAC
Found at i:46007703 original size:21 final size:21
Alignment explanation
Indices: 46007677--46007718 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
46007667 CTTTGCGTTC
*
46007677 CTTGTGCTTATGGTCATCTTT
1 CTTGTGCTTATCGTCATCTTT
46007698 CTTGTGCTTATCGTCATCTTT
1 CTTGTGCTTATCGTCATCTTT
46007719 ATCACCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.21, G:0.17, T:0.52
Consensus pattern (21 bp):
CTTGTGCTTATCGTCATCTTT
Found at i:46007880 original size:105 final size:105
Alignment explanation
Indices: 46007617--46007880 Score: 413
Period size: 105 Copynumber: 2.5 Consensus size: 105
46007607 GATCGTCATC
* * * * * * *
46007617 CCCGTGGATCTTGTCTTTGATCTTATCTAGCATCCCTTCATCCTTGTGTTCTTTGCGTTCCTTGT
1 CCCGT-GATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGTCTTCTTTGCGGTCCTTGT
*
46007682 GCTTATGGTCATCTTTCTTGTGCTTATCGTCATCTTTATCA
65 GCTTATGGTCATCTTTCTTATGCTTATCGTCATCTTTATCA
*
46007723 CCAGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGTGC-TCTTTGCGGTCCTTGT
1 CCCGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGT-CTTCTTTGCGGTCCTTGT
46007787 GCTTATGGTCATCTTTCTTATGCTTATCGTCATCTTTATCA
65 GCTTATGGTCATCTTTCTTATGCTTATCGTCATCTTTATCA
*
46007828 CCCGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCTTTGTCTTCTTT
1 CCCGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGTCTTCTTT
46007881 ATGATCTTTA
Statistics
Matches: 145, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
104 1 0.01
105 140 0.97
106 4 0.03
ACGTcount: A:0.13, C:0.27, G:0.14, T:0.46
Consensus pattern (105 bp):
CCCGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGTCTTCTTTGCGGTCCTTGTG
CTTATGGTCATCTTTCTTATGCTTATCGTCATCTTTATCA
Found at i:46007917 original size:18 final size:18
Alignment explanation
Indices: 46007866--46007918 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
46007856 TCATCCCTTC
*
46007866 ATCTTTGTC-TTCTTTATG
1 ATCTTTGTCTTTC-TTGTG
**
46007884 ATCTTTACCTTTCTTGTG
1 ATCTTTGTCTTTCTTGTG
46007902 ATCTTTGTCTTTCTTGT
1 ATCTTTGTCTTTCTTGT
46007919 CCTTTTTGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 26 0.90
19 3 0.10
ACGTcount: A:0.09, C:0.19, G:0.11, T:0.60
Consensus pattern (18 bp):
ATCTTTGTCTTTCTTGTG
Found at i:46007918 original size:9 final size:9
Alignment explanation
Indices: 46007906--46007946 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
46007896 CTTGTGATCT
*
46007906 TTGTCTTTC
1 TTGTCCTTC
*
46007915 TTGTCCTTT
1 TTGTCCTTC
46007924 TTGTCCTTC
1 TTGTCCTTC
46007933 TTGTCCTTC
1 TTGTCCTTC
46007942 TTGTC
1 TTGTC
46007947 GTCCTCGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.00, C:0.27, G:0.12, T:0.61
Consensus pattern (9 bp):
TTGTCCTTC
Found at i:46008898 original size:25 final size:25
Alignment explanation
Indices: 46008852--46008907 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
46008842 CCTGTTTTTT
* * *
46008852 AATA-ATTTTTTTTTGTTTTTTAAA
1 AATATATTATTTTTTATTATTTAAA
46008876 AATATATTATTTTTTATTATTTAAA
1 AATATATTATTTTTTATTATTTAAA
46008901 AATATAT
1 AATATAT
46008908 ATATCGGGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
AATATATTATTTTTTATTATTTAAA
Found at i:46009218 original size:14 final size:14
Alignment explanation
Indices: 46009181--46009247 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 14
46009171 GAGCGGGAGT
46009181 GAAGAAAAAAA-AA
1 GAAGAAAAAAAGAA
* * *
46009194 G-TGAAAGAAAGGA
1 GAAGAAAAAAAGAA
46009207 GAAGAAAAAAAGAA
1 GAAGAAAAAAAGAA
*
46009221 GAAG--AAGAAGAA
1 GAAGAAAAAAAGAA
*
46009233 GAAAGAAAGAAAGAA
1 G-AAGAAAAAAAGAA
46009248 AAAATGTATG
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
12 15 0.38
13 6 0.15
14 13 0.32
15 6 0.15
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (14 bp):
GAAGAAAAAAAGAA
Found at i:46009232 original size:23 final size:25
Alignment explanation
Indices: 46009182--46009248 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 25
46009172 AGCGGGAGTG
*
46009182 AAGAA-AAAAAAAG-TGAAAGAAAG
1 AAGAAGAAAAAAAGAAGAAAGAAAG
*
46009205 GAGAAGAAAAAAAGAAG-AAG-AAG
1 AAGAAGAAAAAAAGAAGAAAGAAAG
*
46009228 AAGAAGAAAGAAAGAAAGAAA
1 AAGAAGAAAAAAAG-AAGAAA
46009249 AAATGTATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 19 0.53
24 14 0.39
25 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.01
Consensus pattern (25 bp):
AAGAAGAAAAAAAGAAGAAAGAAAG
Found at i:46009518 original size:80 final size:82
Alignment explanation
Indices: 46009409--46009582 Score: 253
Period size: 80 Copynumber: 2.1 Consensus size: 82
46009399 ATAATTATTT
* * * **
46009409 TAAAATCATTTTGTAAGTAATTTAGGATTATGTTATAAATTGTT-GTGTTTAGTTTTTTGTTTTG
1 TAAAATTATTTTGTAAGTAATTTAGGATTAGGTTATAAATTGTTAGTGTTAAGTTTAGTGTTTTG
*
46009473 TGA-TTTTTTATTAATG
66 TGATTTTTTTAGTAATG
* *
46009489 TAAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTAAGTTTAGTGTTTTG
1 TAAAATTATTTTGTAAGTAATTTAGGATTAGGTTATAAATTGTTAGTGTTAAGTTTAGTGTTTTG
46009554 TGATTTTTTTAGTAATG
66 TGATTTTTTTAGTAATG
*
46009571 TAAAATTTTTTT
1 TAAAATTATTTT
46009583 AAAAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 40 0.48
81 20 0.24
82 23 0.28
ACGTcount: A:0.28, C:0.01, G:0.16, T:0.56
Consensus pattern (82 bp):
TAAAATTATTTTGTAAGTAATTTAGGATTAGGTTATAAATTGTTAGTGTTAAGTTTAGTGTTTTG
TGATTTTTTTAGTAATG
Found at i:46009706 original size:103 final size:103
Alignment explanation
Indices: 46009494--46009683 Score: 348
Period size: 103 Copynumber: 1.9 Consensus size: 103
46009484 TAATGTAAAA
46009494 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTAAGTTTAGTGTTTTGTGATT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTAAGTTTAGTGTTTTGTGATT
*
46009559 TTTTTAGTAATGTAAAATTTTTTTAAAAAAAATTATAG
66 TTTTTAGTAATGTAAAATTTATTTAAAAAAAATTATAG
*
46009597 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA-T
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTAAGTTTAGTGTTTTGTGATT
46009661 TTTTTAGTAATGT-AAATTTATTT
66 TTTTTAGTAATGTAAAATTTATTT
46009684 GATTTTTGTT
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
101 9 0.11
102 14 0.16
103 62 0.73
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (103 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTAAGTTTAGTGTTTTGTGATT
TTTTTAGTAATGTAAAATTTATTTAAAAAAAATTATAG
Found at i:46011771 original size:65 final size:66
Alignment explanation
Indices: 46011663--46011790 Score: 170
Period size: 65 Copynumber: 2.0 Consensus size: 66
46011653 TTGATATCTT
*
46011663 CAGCCCACTACCACCTTAGTACTCCACTCCTCCCGGCCCGTATCCACCTCAATACTCCACTCCTC
1 CAGCCCACTACCACCTTAGTACTCCACTCCTCCCGGCCCGTATCCACCGCAATACTCCACTCCTC
46011728 C
66 C
* * ** * *
46011729 CAGCCCA-TATCCACTTTAGTAC-CCACTCCTCTCGGCTTGTATCCACCGCAGTACTTCACTCC
1 CAGCCCACTA-CCACCTTAGTACTCCACTCCTCCCGGCCCGTATCCACCGCAATACTCCACTCC
46011791 CCAGCTCAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
65 36 0.67
66 18 0.33
ACGTcount: A:0.20, C:0.47, G:0.09, T:0.24
Consensus pattern (66 bp):
CAGCCCACTACCACCTTAGTACTCCACTCCTCCCGGCCCGTATCCACCGCAATACTCCACTCCTC
C
Found at i:46011772 original size:32 final size:33
Alignment explanation
Indices: 46011673--46011790 Score: 130
Period size: 33 Copynumber: 3.6 Consensus size: 33
46011663 CAGCCCACTA
46011673 CCACCTTAGTACTCCACTCCTCCCGGCCCGTAT
1 CCACCTTAGTACTCCACTCCTCCCGGCCCGTAT
* * * *
46011706 CCACCTCAATACTCCACTCCTCCCAGCCCATAT
1 CCACCTTAGTACTCCACTCCTCCCGGCCCGTAT
* * **
46011739 CCACTTTAGTAC-CCACTCCTCTCGGCTTGTAT
1 CCACCTTAGTACTCCACTCCTCCCGGCCCGTAT
** *
46011771 CCACCGCAGTACTTCACTCC
1 CCACCTTAGTACTCCACTCC
46011791 CCAGCTCAAG
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
32 24 0.35
33 44 0.65
ACGTcount: A:0.19, C:0.47, G:0.09, T:0.25
Consensus pattern (33 bp):
CCACCTTAGTACTCCACTCCTCCCGGCCCGTAT
Found at i:46012075 original size:75 final size:75
Alignment explanation
Indices: 46011965--46012119 Score: 222
Period size: 75 Copynumber: 2.1 Consensus size: 75
46011955 TTTTAGGGGG
*
46011965 TTTTGCAATTTGAATAATCAAGTTTGTATTTATGTAATGACTTTTTT-TCCATTTCAATTATTAA
1 TTTTGCAATTTAAATAATCAAGTTTGTATTTATGTAATGACTTTTTTGT-CATTTCAATTATTAA
46012029 TTTTAGGAGTT
65 TTTTAGGAGTT
* * * * *
46012040 TTTTTCAATTTAAATAGTTAAGTTTGTATTTATGTAATGACTTTTTTGTCATTTTAGTTATTAAT
1 TTTTGCAATTTAAATAATCAAGTTTGTATTTATGTAATGACTTTTTTGTCATTTCAATTATTAAT
*
46012105 TTTAGGGGTT
66 TTTAGGAGTT
*
46012115 CTTTG
1 TTTTG
46012120 TATTATTTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
75 69 0.99
76 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (75 bp):
TTTTGCAATTTAAATAATCAAGTTTGTATTTATGTAATGACTTTTTTGTCATTTCAATTATTAAT
TTTAGGAGTT
Found at i:46030320 original size:103 final size:103
Alignment explanation
Indices: 46030095--46030566 Score: 811
Period size: 103 Copynumber: 4.6 Consensus size: 103
46030085 TGTATATAAA
** * * * * *
46030095 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATTT
*
46030159 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
46030199 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATTTT
46030264 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
46030302 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATTTT
46030367 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
46030405 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATTTT
46030470 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * * *
46030508 AGGGGTTGCTAAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCA
46030567 ATAACGGTTA
Statistics
Matches: 355, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
103 291 0.82
104 63 0.18
105 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATTTT
TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:46041046 original size:18 final size:18
Alignment explanation
Indices: 46041020--46041062 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
46041010 AAAAGCTATT
*
46041020 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
46041038 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
46041056 TTTATAT
1 TTTATAT
46041063 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:46041121 original size:18 final size:18
Alignment explanation
Indices: 46041100--46041135 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46041090 TACTCAATTA
46041100 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
46041118 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
46041136 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:46041619 original size:25 final size:25
Alignment explanation
Indices: 46041584--46041640 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
46041574 AATTTTACAT
*
46041584 AAAAAATAATATTTTTTTATGTATA
1 AAAAAACAATATTTTTTTATGTATA
46041609 AAAAAACAATATTTTTTTATGTATA
1 AAAAAACAATATTTTTTTATGTATA
46041634 AAAAAAC
1 AAAAAAC
46041641 TCACCATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (25 bp):
AAAAAACAATATTTTTTTATGTATA
Found at i:46044968 original size:79 final size:79
Alignment explanation
Indices: 46044837--46045071 Score: 470
Period size: 79 Copynumber: 3.0 Consensus size: 79
46044827 CACACGCCCA
46044837 TGTGGTCAACACGACCCAAATAACGCAGACTGCGTGTCACACACAGTCCCACACACGGCTGTGTG
1 TGTGGTCAACACGACCCAAATAACGCAGACTGCGTGTCACACACAGTCCCACACACGGCTGTGTG
46044902 GAGTCGACAGTGCG
66 GAGTCGACAGTGCG
46044916 TGTGGTCAACACGACCCAAATAACGCAGACTGCGTGTCACACACAGTCCCACACACGGCTGTGTG
1 TGTGGTCAACACGACCCAAATAACGCAGACTGCGTGTCACACACAGTCCCACACACGGCTGTGTG
46044981 GAGTCGACAGTGCG
66 GAGTCGACAGTGCG
46044995 TGTGGTCAACACGACCCAAATAACGCAGACTGCGTGTCACACACAGTCCCACACACGGCTGTGTG
1 TGTGGTCAACACGACCCAAATAACGCAGACTGCGTGTCACACACAGTCCCACACACGGCTGTGTG
46045060 GAGTCGACAGTG
66 GAGTCGACAGTG
46045072 TCATTTTTCT
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 156 1.00
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.17
Consensus pattern (79 bp):
TGTGGTCAACACGACCCAAATAACGCAGACTGCGTGTCACACACAGTCCCACACACGGCTGTGTG
GAGTCGACAGTGCG
Found at i:46048815 original size:22 final size:21
Alignment explanation
Indices: 46048785--46048850 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 21
46048775 TACAAATTAA
46048785 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* *
46048807 ATCTTCAAGATTACATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
46048828 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
46048847 ATCT
1 ATCT
46048851 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 18 0.44
21 10 0.24
22 13 0.32
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:46048837 original size:19 final size:19
Alignment explanation
Indices: 46048802--46048954 Score: 224
Period size: 19 Copynumber: 8.2 Consensus size: 19
46048792 AGATTACAAG
*
46048802 ATCATATCTTCAAGATTACAT
1 ATCATATC-T-AAGATTGCAT
46048823 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
46048842 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
* *
46048859 ATCATATCTAATATTACAT
1 ATCATATCTAAGATTGCAT
46048878 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
46048895 ATAATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
46048914 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
46048933 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
46048952 ATC
1 ATC
46048955 CTTAAAGATT
Statistics
Matches: 121, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
17 31 0.26
19 81 0.67
20 1 0.01
21 8 0.07
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:46048879 original size:55 final size:56
Alignment explanation
Indices: 46048802--46048954 Score: 231
Period size: 55 Copynumber: 2.7 Consensus size: 56
46048792 AGATTACAAG
46048802 ATCATATCTTCAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTG-T
1 ATCATATC-T-AAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGAT
* *
46048859 ATCATATCTAATATTACATATCATATCTAAGATTG--TATAATATCTAAGATTGCAT
1 ATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTG-AT
*
46048914 ATCATATCTAAGATTGCATATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTACATATCATATCTAAGATTGCATATC
46048955 CTTAAAGATT
Statistics
Matches: 87, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
53 16 0.18
55 59 0.68
56 1 0.01
57 11 0.13
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (56 bp):
ATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGAT
Found at i:46048964 original size:36 final size:36
Alignment explanation
Indices: 46048822--46048954 Score: 221
Period size: 36 Copynumber: 3.6 Consensus size: 36
46048812 CAAGATTACA
46048822 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
* *
46048858 TATCATATCTAATATTACATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
*
46048894 TATAATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
46048930 CATATCATATCTAAGATTGCATATC
1 --TATCATATCTAAGATTGCATATC
46048955 CTTAAAGATT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 67 0.75
38 22 0.25
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:46052870 original size:60 final size:60
Alignment explanation
Indices: 46052777--46052916 Score: 244
Period size: 60 Copynumber: 2.3 Consensus size: 60
46052767 TAGGGTCTGA
* *
46052777 ATTTAGCTTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTTGTTGCAAGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTCGTTGCAAGGG
*
46052837 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTCGTTGCAAGGG
*
46052897 ATTTAGCCTAGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
46052917 CCCACTGTAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (60 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTCGTTGCAAGGG
Found at i:46059122 original size:17 final size:18
Alignment explanation
Indices: 46059089--46059123 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46059079 GGAAACTTTG
46059089 ATTGTTATCTGTCTATTA
1 ATTGTTATCTGTCTATTA
*
46059107 ATTGTT-TCTGTTTATTA
1 ATTGTTATCTGTCTATTA
46059124 CCATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (18 bp):
ATTGTTATCTGTCTATTA
Found at i:46066963 original size:42 final size:42
Alignment explanation
Indices: 46066911--46067006 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
46066901 GCTCTCGGTA
*
46066911 TCGCACACTTAGTGCCCGTTATACAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATACAACATCATCATTTTAATT
* *
46066953 TCGCACACTTAGTGCCCATTATCCAACATCATTATTTTAATT
1 TCGCACACTTAGTGCCCATTATACAACATCATCATTTTAATT
46066995 TCGCACACTTAG
1 TCGCACACTTAG
46067007 CGCCGTTCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.35
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATACAACATCATCATTTTAATT
Found at i:46067444 original size:16 final size:17
Alignment explanation
Indices: 46067411--46067444 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46067401 TATAAAGTTC
*
46067411 ATATTTACCTTATTACT
1 ATATTAACCTTATTACT
46067428 ATATTAACCTT-TTACT
1 ATATTAACCTTATTACT
46067444 A
1 A
46067445 ATAATTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAACCTTATTACT
Found at i:46068293 original size:18 final size:18
Alignment explanation
Indices: 46068270--46068305 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
46068260 TTAATTGATC
46068270 TATCATATTAAAAGACAA
1 TATCATATTAAAAGACAA
46068288 TATCATATTAAAAGACAA
1 TATCATATTAAAAGACAA
46068306 AAACACCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (18 bp):
TATCATATTAAAAGACAA
Found at i:46068749 original size:12 final size:12
Alignment explanation
Indices: 46068732--46068758 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46068722 GCTAACATAC
46068732 AATAAACAATGA
1 AATAAACAATGA
46068744 AATAAACAATGA
1 AATAAACAATGA
46068756 AAT
1 AAT
46068759 GTATGGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (12 bp):
AATAAACAATGA
Found at i:46072308 original size:77 final size:77
Alignment explanation
Indices: 46072151--46072539 Score: 390
Period size: 77 Copynumber: 5.1 Consensus size: 77
46072141 GTGAATTAGT
* * * * * *
46072151 GAACTATTAGAAAA-CTGAAAGTCGTGATATTAAATCAA-CGGACTGTAAAAATGACAGTCACGA
1 GAACTATTAGAAAATC-GAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGCGA
*
46072214 TATTAAATCAAGT
65 TATTAAATCAAGC
** * *
46072227 GAACTATTAGAAAA-CTGATGGTTGCGATCTTAAATCAAGTGAACCGTAAAAATGACAGCCGCGA
1 GAACTATTAGAAAATC-GAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGCGA
*
46072291 TATTAAATCGAGC
65 TATTAAATCAAGC
* * * * * *
46072304 GAACTATTAGAATATCGAAAGTCGGGATCTTAAATCAAGCGAACCGTAAAAATGAAAACCACAAT
1 GAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGCGAT
*
46072369 ATTAAATCAAGT
66 ATTAAATCAAGC
* * * * * * * *
46072381 GAACTGTTAGAATATCGAAAGTTGCAATCTTAAATCAAGTGAACCGTAAAAATGATAACCGCAAT
1 GAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGCGAT
46072446 ATTAAATCAAGC
66 ATTAAATCAAGC
* * * * * * * * *
46072458 AAACTATTA-AAATATCGAAGGTCGTGATATTAAATCGAGCAAACCATAAAAATGATAGTCGCGA
1 GAACTATTAGAAA-ATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGCGA
46072522 TATTAAATCAAGC
65 TATTAAATCAAGC
*
46072535 AAACT
1 GAACT
46072540 GTTAAAATAT
Statistics
Matches: 263, Mismatches: 47, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
76 35 0.13
77 227 0.86
78 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (77 bp):
GAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGCGAT
ATTAAATCAAGC
Found at i:46072379 original size:37 final size:37
Alignment explanation
Indices: 46072256--46072457 Score: 143
Period size: 37 Copynumber: 5.3 Consensus size: 37
46072246 GGTTGCGATC
* * * *
46072256 TTAAATCAAGTGAACCGTAAAAATGACAGCCGCGATA
1 TTAAATCAAGCGAACCGTAAAAATGAAAACCGCAATA
* ** * ** ** *
46072293 TTAAATCGAGCGAACTATTAGAATATCGAAAGTCGGGATC
1 TTAAATCAAGCGAAC-CGTA-AAAAT-GAAAACCGCAATA
*
46072333 TTAAATCAAGCGAACCGTAAAAATGAAAACCACAATA
1 TTAAATCAAGCGAACCGTAAAAATGAAAACCGCAATA
* * * *** *
46072370 TTAAATCAAGTGAACTGTTAGAATATCGAAAGTTGCAATC
1 TTAAATCAAGCGAACCG-TA-AAAAT-GAAAACCGCAATA
* *
46072410 TTAAATCAAGTGAACCGTAAAAATGATAACCGCAATA
1 TTAAATCAAGCGAACCGTAAAAATGAAAACCGCAATA
46072447 TTAAATCAAGC
1 TTAAATCAAGC
46072458 AAACTATTAA
Statistics
Matches: 124, Mismatches: 35, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
37 53 0.43
38 12 0.10
39 12 0.10
40 47 0.38
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (37 bp):
TTAAATCAAGCGAACCGTAAAAATGAAAACCGCAATA
Found at i:46072391 original size:154 final size:154
Alignment explanation
Indices: 46072151--46072512 Score: 469
Period size: 154 Copynumber: 2.4 Consensus size: 154
46072141 GTGAATTAGT
* * * * ** *
46072151 GAACTATTAGAA-AACTGAAAGTCGTGATATTAAATCAA-CGGACTGTAAAAATGACAGTCACGA
1 GAACTATTAGAATATC-GAAAGTCGTGATATTAAATCAAGCGAACCGTAAAAATGAAAACCACAA
** *
46072214 TATTAAATCAAGTGAACTATTAGAAAA-CTGATGGTTGCGATCTTAAATCAAGTGAACCGTAAAA
65 TATTAAATCAAGTGAACTATTAGAAAATC-GAAAGTTGCAATCTTAAATCAAGTGAACCGTAAAA
* * *
46072278 ATGACAGCCGCGATATTAAATCGAGC
129 ATGACAACCGCAATATTAAATCAAGC
* *
46072304 GAACTATTAGAATATCGAAAGTCGGGATCTTAAATCAAGCGAACCGTAAAAATGAAAACCACAAT
1 GAACTATTAGAATATCGAAAGTCGTGATATTAAATCAAGCGAACCGTAAAAATGAAAACCACAAT
* *
46072369 ATTAAATCAAGTGAACTGTTAGAATATCGAAAGTTGCAATCTTAAATCAAGTGAACCGTAAAAAT
66 ATTAAATCAAGTGAACTATTAGAAAATCGAAAGTTGCAATCTTAAATCAAGTGAACCGTAAAAAT
*
46072434 GATAACCGCAATATTAAATCAAGC
131 GACAACCGCAATATTAAATCAAGC
* * * * * *
46072458 AAACTATTAAAATATCGAAGGTCGTGATATTAAATCGAGCAAACCATAAAAATGA
1 GAACTATTAGAATATCGAAAGTCGTGATATTAAATCAAGCGAACCGTAAAAATGA
46072513 TAGTCGCGAT
Statistics
Matches: 180, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
153 32 0.18
154 147 0.82
155 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (154 bp):
GAACTATTAGAATATCGAAAGTCGTGATATTAAATCAAGCGAACCGTAAAAATGAAAACCACAAT
ATTAAATCAAGTGAACTATTAGAAAATCGAAAGTTGCAATCTTAAATCAAGTGAACCGTAAAAAT
GACAACCGCAATATTAAATCAAGC
Found at i:46072493 original size:40 final size:40
Alignment explanation
Indices: 46072286--46072550 Score: 154
Period size: 37 Copynumber: 6.8 Consensus size: 40
46072276 AAATGACAGC
* * * *
46072286 CGCGATATTAAATCGAGCGAACTATTAGAATATCGAAAGT
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCGATAGT
* * * ** * **
46072326 CGGGATCTTAAATCAAGCGAAC-CGTAAAA-AT-GAAAAC
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCGATAGT
* * ** * * *
46072363 CACAATATTAAATCAAGTGAACTGTTAGAATATCGAAAGT
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCGATAGT
* * * ** ** **
46072403 TGCAATCTTAAATCAAGTGAAC-CGTAAAA-AT-GATAAC
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCGATAGT
*
46072440 CGCAATATTAAATCAAGCAAACTATTAAAATATCGA-AGGT
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCGATA-GT
* * *
46072480 CGTGATATTAAATCGAGCAAACCA-TAAAA-AT-GATAGT
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCGATAGT
*
46072517 CGCGATATTAAATCAAGCAAACTGTTAAAATATC
1 CGCGATATTAAATCAAGCAAACTATTAAAATATC
46072551 AAATGTCGCA
Statistics
Matches: 171, Mismatches: 43, Indels: 22
0.72 0.18 0.09
Matches are distributed among these distances:
37 66 0.39
38 21 0.12
39 20 0.12
40 64 0.37
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (40 bp):
CGCGATATTAAATCAAGCAAACTATTAAAATATCGATAGT
Found at i:46072559 original size:40 final size:39
Alignment explanation
Indices: 46072286--46072559 Score: 148
Period size: 40 Copynumber: 7.1 Consensus size: 39
46072276 AAATGACAGC
* * *
46072286 CGCGATATTAAATCGAGCGAACTATTAGAATATCGAAAGT
1 CGCGATATTAAATCAAGCAAACTATTAAAATATC-AAAGT
* * * ** * **
46072326 CGGGATCTTAAATCAAGCGAAC-CGTAAAA-ATGAAAAC
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCAAAGT
* * ** * *
46072363 CACAATATTAAATCAAGTGAACTGTTAGAATATCGAAAGT
1 CGCGATATTAAATCAAGCAAACTATTAAAATATC-AAAGT
* * * ** ** * *
46072403 TGCAATCTTAAATCAAGTGAAC-CGTAAAA-ATGATAA-C
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCA-AAGT
* *
46072440 CGCAATATTAAATCAAGCAAACTATTAAAATATCGAAGGT
1 CGCGATATTAAATCAAGCAAACTATTAAAATATC-AAAGT
* * * * *
46072480 CGTGATATTAAATCGAGCAAACCA-TAAAA-ATGATAGT
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCAAAGT
*
46072517 CGCGATATTAAATCAAGCAAACTGTTAAAATATCAAATGT
1 CGCGATATTAAATCAAGCAAACTATTAAAATATCAAA-GT
46072557 CGC
1 CGC
46072560 AATTGTGATA
Statistics
Matches: 173, Mismatches: 50, Indels: 22
0.71 0.20 0.09
Matches are distributed among these distances:
37 62 0.36
38 22 0.13
39 22 0.13
40 67 0.39
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (39 bp):
CGCGATATTAAATCAAGCAAACTATTAAAATATCAAAGT
Found at i:46072562 original size:154 final size:154
Alignment explanation
Indices: 46072167--46072562 Score: 458
Period size: 154 Copynumber: 2.6 Consensus size: 154
46072157 TTAGAAAACT
* ** ** *
46072167 GAAAGTCGTGATATTAAATCAA-CGGACTGTAAAAATGACAGTCACGATATTAAATCAAGTGAAC
1 GAAAGTCGGGATATTAAATCAAGCAAACCATAAAAATGAAAGTCACGATATTAAATCAAGTGAAC
* ** * * *
46072231 TATTAGAAA-A-CTGATGGTTGCGATCTTAAATCAAGTGAACCGTAAAAATGACAGCCGCGATAT
66 TGTTA-AAATATCAAAT-GTTGCAATCTTAAATCAAGTGAACCGTAAAAATGACAACCGCAATAT
* * *
46072294 TAAATCGAGCGAACTATTAGAATATC
129 TAAATCAAGCAAACTATTAAAATATC
* * * ** *
46072320 GAAAGTCGGGATCTTAAATCAAGCGAACCGTAAAAATGAAAACCACAATATTAAATCAAGTGAAC
1 GAAAGTCGGGATATTAAATCAAGCAAACCATAAAAATGAAAGTCACGATATTAAATCAAGTGAAC
* *
46072385 TGTTAGAATATCGAAA-GTTGCAATCTTAAATCAAGTGAACCGTAAAAATGATAACCGCAATATT
66 TGTTAAAATATC-AAATGTTGCAATCTTAAATCAAGTGAACCGTAAAAATGACAACCGCAATATT
46072449 AAATCAAGCAAACTATTAAAATATC
130 AAATCAAGCAAACTATTAAAATATC
* * * * * **
46072474 GAAGGTCGTGATATTAAATCGAGCAAACCATAAAAATGATAGTCGCGATATTAAATCAAGCAAAC
1 GAAAGTCGGGATATTAAATCAAGCAAACCATAAAAATGAAAGTCACGATATTAAATCAAGTGAAC
*
46072539 TGTTAAAATATCAAATGTCGCAAT
66 TGTTAAAATATCAAATGTTGCAAT
46072563 TGTGATACCC
Statistics
Matches: 204, Mismatches: 34, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
153 25 0.12
154 177 0.87
155 1 0.00
156 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (154 bp):
GAAAGTCGGGATATTAAATCAAGCAAACCATAAAAATGAAAGTCACGATATTAAATCAAGTGAAC
TGTTAAAATATCAAATGTTGCAATCTTAAATCAAGTGAACCGTAAAAATGACAACCGCAATATTA
AATCAAGCAAACTATTAAAATATC
Found at i:46079102 original size:79 final size:82
Alignment explanation
Indices: 46078991--46079175 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
46078981 GCTACTCGTT
* * *
46078991 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
46079054 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
46079071 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
46079134 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
46079151 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46079176 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 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:46079175 original size:40 final size:40
Alignment explanation
Indices: 46078972--46079175 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
46078962 CGGAATTTAA
** *
46078972 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
46079012 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46079052 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46079091 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46079131 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46079171 CCGGA
1 CCGGA
46079176 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
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:46088534 original size:32 final size:32
Alignment explanation
Indices: 46088490--46088554 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
46088480 GAACGGATCA
*
46088490 AAAGCATTACACTATCACAAGGTATATGTGGC
1 AAAGCATCACACTATCACAAGGTATATGTGGC
46088522 AAAGCATCACACTATCACAAGGTATATGTGGC
1 AAAGCATCACACTATCACAAGGTATATGTGGC
46088554 A
1 A
46088555 TGTATATACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (32 bp):
AAAGCATCACACTATCACAAGGTATATGTGGC
Found at i:46089051 original size:12 final size:12
Alignment explanation
Indices: 46089036--46089062 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46089026 TGCTAGGTCG
46089036 TGTGCTAGGCTA
1 TGTGCTAGGCTA
46089048 TGTGCTAGGCTA
1 TGTGCTAGGCTA
46089060 TGT
1 TGT
46089063 AACTGCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (12 bp):
TGTGCTAGGCTA
Found at i:46098784 original size:13 final size:13
Alignment explanation
Indices: 46098766--46098791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46098756 GGTCTTAAGT
46098766 GTTGAGTTGAATC
1 GTTGAGTTGAATC
46098779 GTTGAGTTGAATC
1 GTTGAGTTGAATC
46098792 CATTATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
GTTGAGTTGAATC
Found at i:46099442 original size:60 final size:60
Alignment explanation
Indices: 46099349--46099468 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
46099339 GCTTGTCACA
46099349 ATTTTGCTATGCATGCAATATATAAAAGACATAAATACAAAATACATATTAGTGAAATGT
1 ATTTTGCTATGCATGCAATATATAAAAGACATAAATACAAAATACATATTAGTGAAATGT
46099409 ATTTTGCTATGCATGCAATATATAAAAGACATAAATACAAAATACATATTAGTGAAATGT
1 ATTTTGCTATGCATGCAATATATAAAAGACATAAATACAAAATACATATTAGTGAAATGT
46099469 GAAATTAACT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.32
Consensus pattern (60 bp):
ATTTTGCTATGCATGCAATATATAAAAGACATAAATACAAAATACATATTAGTGAAATGT
Found at i:46106647 original size:26 final size:26
Alignment explanation
Indices: 46106618--46106667 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
46106608 TACCAATATT
* * *
46106618 AGTATTGCAGCAAAGCTGCTAGTAAC
1 AGTATCGCAACAAAGCTGCCAGTAAC
*
46106644 AGTATCGTAACAAAGCTGCCAGTA
1 AGTATCGCAACAAAGCTGCCAGTA
46106668 CAATATACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
AGTATCGCAACAAAGCTGCCAGTAAC
Found at i:46115340 original size:8 final size:8
Alignment explanation
Indices: 46115321--46115350 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
46115311 TTTATTGATC
46115321 TCAATATCA
1 TCAAT-TCA
46115330 TCAATTCA
1 TCAATTCA
46115338 TCAATTCA
1 TCAATTCA
46115346 TCAAT
1 TCAAT
46115351 CAAGACAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAATTCA
Found at i:46130612 original size:15 final size:15
Alignment explanation
Indices: 46130592--46130621 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46130582 TTTATTACTC
*
46130592 TTTTGAATTATTTAA
1 TTTTGAATGATTTAA
46130607 TTTTGAATGATTTAA
1 TTTTGAATGATTTAA
46130622 AAAATATTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (15 bp):
TTTTGAATGATTTAA
Found at i:46131833 original size:45 final size:44
Alignment explanation
Indices: 46131765--46131852 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 44
46131755 ATGTTTTTAA
* *
46131765 TTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTAG
1 TTTCCCACTTAAACTCTAATTAGTGTAAGTTATTTTAATATTAG
46131809 TTTCCCACTTAAAACTCTAATTAGTGTAAGTTATTTTAATATTA
1 TTTCCCACTT-AAACTCTAATTAGTGTAAGTTATTTTAATATTA
46131853 TTTGACCTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 10 0.24
45 31 0.76
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (44 bp):
TTTCCCACTTAAACTCTAATTAGTGTAAGTTATTTTAATATTAG
Found at i:46133604 original size:10 final size:10
Alignment explanation
Indices: 46133573--46133606 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
46133563 TGAGAATTCT
*
46133573 CCTAAGTCAT
1 CCTAAGTCAG
46133583 CCTAAGTCAG
1 CCTAAGTCAG
*
46133593 CCTAAGTTAG
1 CCTAAGTCAG
46133603 CCTA
1 CCTA
46133607 GCTCTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (10 bp):
CCTAAGTCAG
Found at i:46139014 original size:3 final size:3
Alignment explanation
Indices: 46138999--46139254 Score: 440
Period size: 3 Copynumber: 85.0 Consensus size: 3
46138989 TTTAAGATTT
* * **
46138999 TTA TTA TTG TTA TTA TTA TTA TTA TTA ATA CCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46139047 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46139095 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46139143 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46139191 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
** *
46139237 CCA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
46139255 AATTTTTTTA
Statistics
Matches: 240, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
3 237 0.99
4 3 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:46142735 original size:18 final size:18
Alignment explanation
Indices: 46142708--46142746 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46142698 GTATCACCCA
* *
46142708 CCTTCACCTCACATGTAT
1 CCTTCACCTCAAATATAT
*
46142726 CCTTCTCCTCAAATATAT
1 CCTTCACCTCAAATATAT
46142744 CCT
1 CCT
46142747 CCATATCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.03, T:0.36
Consensus pattern (18 bp):
CCTTCACCTCAAATATAT
Found at i:46143126 original size:48 final size:48
Alignment explanation
Indices: 46143067--46143170 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
46143057 TAAATTATAT
*
46143067 ATGAAAGTAGAATGAGTGAGAATAAGTGGTAGGAAATAGGAATAATTA
1 ATGAAAATAGAATGAGTGAGAATAAGTGGTAGGAAATAGGAATAATTA
46143115 ATGAAAATAGAATGAGTGAGAATAAGTGGTAGGAAATAGGAATAATTA
1 ATGAAAATAGAATGAGTGAGAATAAGTGGTAGGAAATAGGAATAATTA
46143163 ATGAAAAT
1 ATGAAAAT
46143171 CTATACATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (48 bp):
ATGAAAATAGAATGAGTGAGAATAAGTGGTAGGAAATAGGAATAATTA
Found at i:46145500 original size:2 final size:2
Alignment explanation
Indices: 46145495--46145541 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
46145485 TTTTTTACAT
46145495 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
46145537 AG AG A
1 AG AG A
46145542 TAGATGGGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46149758 original size:282 final size:282
Alignment explanation
Indices: 46149254--46150396 Score: 1546
Period size: 282 Copynumber: 4.1 Consensus size: 282
46149244 ATGAAGGCGA
** * *
46149254 AGACTAATGCAGTGCTGCCAGTTCTTGAAGCAAGATCAGCAGAAGAAATTTATTTGGCTTTTAAG
1 AGACTAATGTGGTGCTGCCAGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
* * *
46149319 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAACTGTTCTGAGTATGATCGAGAAACCGCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATCGAGAAACTGCCAGA
* * *
46149384 TCATGGAGGTAACAAATCAAAATTACCTGTT-TTCGAGGCAAGGTCTCTGGAGGATATACATAAA
131 TCATGGAGATAACAAATCAAAATTACCTGTTGTT-GAGGCAAGATCTCTGGAGGATATACACAAA
* * * *
46149448 GCTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCACATTCTTCAGGCTCAAAGAATGA
195 GCTATTCAACAACTTCCGAAATCTAATCCAGCTGAGCCGCCACATTCTTCAGGCTCAAGGAATGA
*
46149513 ATCATCAAAAGATACGAAAACTG
260 ATCATCAAAAGATACGAAGACTG
* *
46149536 AGACTAATGTGGTGCTGCCTA-TTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGACTTTTAA
1 AGACTAATGTGGTGCTGCC-AGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAA
* * * *
46149600 GCAACTTCATGAAGGAGTCGACGTTGAGGAAGTCATTGTTCCAAGTATGATCGAGAAACTGACAG
65 GCAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATCGAGAAACTGCCAG
* * * *
46149665 ATCATGGAGATATCAAATCAAAATTACCTATTGTTGAGGCAAGGTCTCTGGAGGATATACATAAA
130 ATCATGGAGATAACAAATCAAAATTACCTGTTGTTGAGGCAAGATCTCTGGAGGATATACACAAA
* * * * *
46149730 GCTGTTCGACAACTTCCGGAATCTAATCCAGCTGAGCCGCCGCATTCTTCAGGCTTAAGGAATGA
195 GCTATTCAACAACTTCCGAAATCTAATCCAGCTGAGCCGCCACATTCTTCAGGCTCAAGGAATGA
* *
46149795 ATCATCAACAGATACGAATACTG
260 ATCATCAAAAGATACGAAGACTG
* * *
46149818 AGACTAATGTGGTGCTTCCAGTTCTTGAAACAAGGTCAGCAGAAGATATTGATTTGGCTTTTAAG
1 AGACTAATGTGGTGCTGCCAGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
*
46149883 CAACTTCATGAAGGAGT---C-----------AA-TGTTCCGAGTATGATTGAGAAACTGCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATCGAGAAACTGCCAGA
* * * *
46149933 TCTTGGAGATAACAAATCAAAATTACCTGTTGTTGAGGCAAGATCTCTGGAGGATTTAGACAAAT
131 TCATGGAGATAACAAATCAAAATTACCTGTTGTTGAGGCAAGATCTCTGGAGGATATACACAAAG
* * *
46149998 CTATTCAACAACTTGCGAAACCTAAT-C--C--A---G-CATATTCTTCAGGCTCAAGGAATGAA
196 CTATTCAACAACTTCCGAAATCTAATCCAGCTGAGCCGCCACATTCTTCAGGCTCAAGGAATGAA
* *
46150054 TCATCAAAAGATGCGAAGACCG
261 TCATCAAAAGATACGAAGACTG
*
46150076 AGACTAATGTGGTGCTGCCAGTTCTTGAAGCAAGATCAGCCGAAGATATTGATTTGGCTTTTAAG
1 AGACTAATGTGGTGCTGCCAGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
* *
46150141 CAACTTCATGAAGGAGTGGACATTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCCAGA
66 CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATCGAGAAACTGCCAGA
* * ** * *
46150206 CCATGGAGATAACAAATCAAAATTACGTGTTGTCAAGGCAAGATCTCTGGAGGACATAGACAAAG
131 TCATGGAGATAACAAATCAAAATTACCTGTTGTTGAGGCAAGATCTCTGGAGGATATACACAAAG
* * **
46150271 CTATCCAACAACTTCCGAAATCTAATCCAGCTGAGCTGCCACATTCTTCAGTTTCAAGGAATGAA
196 CTATTCAACAACTTCCGAAATCTAATCCAGCTGAGCCGCCACATTCTTCAGGCTCAAGGAATGAA
* *
46150336 CCATCAAAAGATATGAAGACTG
261 TCATCAAAAGATACGAAGACTG
46150358 AGACTAATGTGGTGCTGCCAGTTCTTGAAGCAAGATCAG
1 AGACTAATGTGGTGCTGCCAGTTCTTGAAGCAAGATCAG
46150397 TCGGCTAGAC
Statistics
Matches: 762, Mismatches: 72, Indels: 54
0.86 0.08 0.06
Matches are distributed among these distances:
258 119 0.16
259 1 0.00
261 1 0.00
262 1 0.00
264 1 0.00
266 1 0.00
267 105 0.14
268 1 0.00
272 2 0.00
273 110 0.14
274 1 0.00
276 1 0.00
278 1 0.00
279 1 0.00
281 2 0.00
282 411 0.54
283 3 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (282 bp):
AGACTAATGTGGTGCTGCCAGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
CAACTTCATGAAGGAGTCGACATTGAGGAAGTAATTGTTCCGAGTATGATCGAGAAACTGCCAGA
TCATGGAGATAACAAATCAAAATTACCTGTTGTTGAGGCAAGATCTCTGGAGGATATACACAAAG
CTATTCAACAACTTCCGAAATCTAATCCAGCTGAGCCGCCACATTCTTCAGGCTCAAGGAATGAA
TCATCAAAAGATACGAAGACTG
Found at i:46153149 original size:5 final size:5
Alignment explanation
Indices: 46153139--46153179 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
46153129 AATTTTAAAA
* *
46153139 TATTT TATTT TATTT TATTT TA--T TATTT CAGTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TAT
46153180 AATATTTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
3 3 0.10
5 27 0.90
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:46153166 original size:18 final size:18
Alignment explanation
Indices: 46153152--46153192 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
46153142 TTTATTTTAT
46153152 TTTATTTTATTATTTCAG
1 TTTATTTTATTATTTCAG
46153170 TTTATTTTATAATATTT-AG
1 TTTATTTTAT--TATTTCAG
46153189 TTTA
1 TTTA
46153193 AAGTATTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 6 0.29
20 5 0.24
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTATTTTATTATTTCAG
Found at i:46157437 original size:31 final size:31
Alignment explanation
Indices: 46157402--46157467 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
46157392 AACAAACTAG
*
46157402 TGACTTAAATAAAAAATTTTGAATAGCTCAA
1 TGACTTAAATAAAAAATTTCGAATAGCTCAA
* * * *
46157433 TGACTTAAATGAAAACTTTCGAATAGTTCAG
1 TGACTTAAATAAAAAATTTCGAATAGCTCAA
46157464 TGAC
1 TGAC
46157468 CAAAACAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (31 bp):
TGACTTAAATAAAAAATTTCGAATAGCTCAA
Found at i:46159306 original size:25 final size:25
Alignment explanation
Indices: 46159268--46159317 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
46159258 TTGAGTTAAT
46159268 AAAATTCTCTTTAAGTTTTCTTTTA
1 AAAATTCTCTTTAAGTTTTCTTTTA
46159293 AAAATT-TCTCTTAAGTTTTCTTTTA
1 AAAATTCTCT-TTAAGTTTTCTTTTA
46159318 GAAGAGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.56
Consensus pattern (25 bp):
AAAATTCTCTTTAAGTTTTCTTTTA
Found at i:46160708 original size:59 final size:58
Alignment explanation
Indices: 46160618--46160740 Score: 158
Period size: 59 Copynumber: 2.1 Consensus size: 58
46160608 TAGAAATGGT
* * *
46160618 AAAATCGAGAAATAGGAAACATTTGAGAATGATTACGGTTTTCTCCAAAATGAAAAATGA
1 AAAATCGAGAAATA-GAAACATTTGAAAATGAATACGATTTTCTCCAAAAT-AAAAATGA
* **
46160678 AAAATGGAGAAAT-GAAATCATTTGAAAATGAATGTGATTTTCTCCAAAATAAAAATGA
1 AAAATCGAGAAATAGAAA-CATTTGAAAATGAATACGATTTTCTCCAAAATAAAAATGA
46160736 AAAAT
1 AAAAT
46160741 AAAATTTCGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
58 17 0.30
59 27 0.48
60 12 0.21
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (58 bp):
AAAATCGAGAAATAGAAACATTTGAAAATGAATACGATTTTCTCCAAAATAAAAATGA
Found at i:46163753 original size:58 final size:60
Alignment explanation
Indices: 46163626--46163738 Score: 144
Period size: 58 Copynumber: 1.9 Consensus size: 60
46163616 AATATTAAAT
* * *
46163626 AATTTAAATTTAATATTTATCTTATAGATAAATATTTTATTAATTTAATAGATTTAATAATA
1 AATTT-AATATAATATTTATCTTATAGATAAATATTATATTAATTTAATA-ATTAAATAATA
*
46163688 AATTTAATATAATATTTATC-T-T-GATAAGTATTATATTAATTTAAT-ATTAAA
1 AATTTAATATAATATTTATCTTATAGATAAATATTATATTAATTTAATAATTAAA
46163739 GTGATTAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
56 5 0.11
58 21 0.45
59 1 0.02
60 1 0.02
61 14 0.30
62 5 0.11
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (60 bp):
AATTTAATATAATATTTATCTTATAGATAAATATTATATTAATTTAATAATTAAATAATA
Found at i:46167151 original size:12 final size:12
Alignment explanation
Indices: 46167134--46167158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46167124 ACCGAGCCAT
46167134 AAATATTTTTAG
1 AAATATTTTTAG
46167146 AAATATTTTTAG
1 AAATATTTTTAG
46167158 A
1 A
46167159 GTGTCATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AAATATTTTTAG
Found at i:46168306 original size:36 final size:36
Alignment explanation
Indices: 46168265--46168455 Score: 238
Period size: 36 Copynumber: 5.0 Consensus size: 36
46168255 GGTAGCTTTA
46168265 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
46168301 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
*
46168346 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* * *
46168383 GTTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
46168419 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
46168455 G
1 G
46168456 GTAGCTTAGC
Statistics
Matches: 138, Mismatches: 7, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
36 100 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:46168339 original size:82 final size:82
Alignment explanation
Indices: 46168229--46168455 Score: 321
Period size: 82 Copynumber: 2.9 Consensus size: 82
46168219 TTTGAGTACT
* *
46168229 TCTGTTCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
46168294 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
46168311 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
46168376 GATAAGTGTTATACTTA
66 GATAAGTGCTACACTTA
*
46168393 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
46168448 GATAAGTG
66 GATAAGTG
46168456 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
72 31 0.23
74 1 0.01
76 2 0.01
78 2 0.01
79 2 0.01
82 99 0.72
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:46168418 original size:118 final size:117
Alignment explanation
Indices: 46168270--46168481 Score: 388
Period size: 118 Copynumber: 1.8 Consensus size: 117
46168260 CTTTAGCTAC
*
46168270 ACTTATCTGATCAAGTGACAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
46168335 GTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
66 GTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
* *
46168388 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
46168453 GTGGTAGCTTAGCTACACTTATCTGATCA
66 GTGGTAGCTTAGCTACACTTATCTGATCA
46168482 GGGACAAATG
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
117 21 0.23
118 70 0.77
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (117 bp):
ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
GTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
Found at i:46175068 original size:18 final size:19
Alignment explanation
Indices: 46175035--46175073 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
46175025 TAAATAGTTT
46175035 GAGTTATTCAAGTTAA-TC
1 GAGTTATTCAAGTTAACTC
46175053 GAGTTATTC-AGATTAACTC
1 GAGTTATTCAAG-TTAACTC
46175072 GA
1 GA
46175074 ATAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 13 0.68
19 4 0.21
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (19 bp):
GAGTTATTCAAGTTAACTC
Found at i:46175132 original size:15 final size:15
Alignment explanation
Indices: 46175112--46175142 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46175102 CGAATATGAA
46175112 TTACACAATTCGAGT
1 TTACACAATTCGAGT
46175127 TTACACAATTCGAGT
1 TTACACAATTCGAGT
46175142 T
1 T
46175143 ATCCGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
TTACACAATTCGAGT
Found at i:46178032 original size:23 final size:23
Alignment explanation
Indices: 46177989--46178038 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
46177979 TAGATTTAGT
**
46177989 TAAAAAAATAAATGTTAAAGTGA
1 TAAAAAAATAAACATTAAAGTGA
*
46178012 TAAAAAATATAAACATT-AAGTGT
1 TAAAAAA-ATAAACATTAAAGTGA
46178035 TAAA
1 TAAA
46178039 TTTATCTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (23 bp):
TAAAAAAATAAACATTAAAGTGA
Found at i:46178942 original size:11 final size:12
Alignment explanation
Indices: 46178922--46178973 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
46178912 AATATTACAA
46178922 AATTTAAAAAAT
1 AATTTAAAAAAT
46178934 AATTTAAAAATGAT
1 AATTTAAAAA--AT
46178948 AAATTTACAAAAA-
1 -AATTTA-AAAAAT
*
46178961 AATGTAAAAAAT
1 AATTTAAAAAAT
46178973 A
1 A
46178974 TCAAACATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
11 5 0.15
12 16 0.47
14 3 0.09
15 6 0.18
16 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (12 bp):
AATTTAAAAAAT
Found at i:46178943 original size:20 final size:19
Alignment explanation
Indices: 46178834--46179027 Score: 89
Period size: 19 Copynumber: 10.3 Consensus size: 19
46178824 TGACCAGTCC
*
46178834 AAAAAGTATTAAAAA-TAT
1 AAAAAATATTAAAAATTAT
*
46178852 AAAAAAATATTTAGAAATTAT
1 -AAAAAATA-TTAAAAATTAT
* * * * *
46178873 AGAAATTTTTATAAATTCT
1 AAAAAATATTAAAAATTAT
46178892 -AAAAA-A-TAAAAATTAT
1 AAAAAATATTAAAAATTAT
*
46178908 TAAAAATATTACAAAATT-T
1 AAAAAATATTA-AAAATTAT
*
46178927 AAAAAATAATTTAAAAATGAT
1 AAAAAAT-A-TTAAAAATTAT
** ** * *
46178948 -AAATTTACAAAAAAATGT
1 AAAAAATATTAAAAATTAT
* *
46178966 AAAAAATATCAAACATTAT
1 AAAAAATATTAAAAATTAT
* *
46178985 CAAAAAT-TGAAAAATTAT
1 AAAAAATATTAAAAATTAT
*
46179003 AAAAAAATTAGTAAAAATT-T
1 -AAAAAA-TATTAAAAATTAT
46179023 AAAAA
1 AAAAA
46179028 TAAAAATATT
Statistics
Matches: 128, Mismatches: 34, Indels: 26
0.68 0.18 0.14
Matches are distributed among these distances:
16 8 0.06
17 5 0.04
18 19 0.15
19 53 0.41
20 29 0.23
21 14 0.11
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAAAATATTAAAAATTAT
Found at i:46200322 original size:19 final size:19
Alignment explanation
Indices: 46200306--46200360 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
46200296 AATTTTTATT
46200306 TTTATTTATTTTTTTTAAA
1 TTTATTTATTTTTTTTAAA
**
46200325 TTTATTTA-TTACTTT-AA
1 TTTATTTATTTTTTTTAAA
46200342 TTTAATTTATTTTATTTTA
1 TTT-ATTTATTTT-TTTTA
46200361 CTTATTGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 5 0.18
18 10 0.36
19 10 0.36
20 3 0.11
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATTTATTTTTTTTAAA
Found at i:46201398 original size:17 final size:17
Alignment explanation
Indices: 46201376--46201408 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46201366 CCTAAAGCAT
*
46201376 AAAAAAGAGAAAAAAAC
1 AAAAAAAAGAAAAAAAC
46201393 AAAAAAAAGAAAAAAA
1 AAAAAAAAGAAAAAAA
46201409 ATTTAGGGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAC
Found at i:46201409 original size:9 final size:9
Alignment explanation
Indices: 46201376--46201409 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
46201366 CCTAAAGCAT
46201376 AAAAAAGAGA
1 AAAAAAGA-A
*
46201386 AAAAAACAA
1 AAAAAAGAA
46201395 AAAAAAGAA
1 AAAAAAGAA
46201404 AAAAAA
1 AAAAAA
46201410 TTTAGGGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:46205950 original size:28 final size:29
Alignment explanation
Indices: 46205919--46205980 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
46205909 ATTAGGTTAT
* *
46205919 GACATATTAAAAACTT-GTATTAAAATAA
1 GACATATTAAAAACTTAATAATAAAATAA
* * *
46205947 GACACATTAAACACTTAATAATAAAATCA
1 GACATATTAAAAACTTAATAATAAAATAA
46205976 GACAT
1 GACAT
46205981 TTATTTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.27
Consensus pattern (29 bp):
GACATATTAAAAACTTAATAATAAAATAA
Found at i:46212339 original size:24 final size:19
Alignment explanation
Indices: 46212289--46212327 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
46212279 TGCAGTTTTT
46212289 AAGTACAATGCTACAGTTC
1 AAGTACAATGCTACAGTTC
46212308 AAGTACAATGCTACAGTTC
1 AAGTACAATGCTACAGTTC
46212327 A
1 A
46212328 CAATGTGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (19 bp):
AAGTACAATGCTACAGTTC
Found at i:46214004 original size:40 final size:40
Alignment explanation
Indices: 46213904--46214075 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
46213894 GCTCCTCGTT
* * *
46213904 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
46213944 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
46213983 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
46214023 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
46214063 CAAATGCCTTCGG
1 CAAATGCCTTCGG
46214076 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:46214088 original size:80 final size:79
Alignment explanation
Indices: 46213904--46214118 Score: 227
Period size: 80 Copynumber: 2.7 Consensus size: 79
46213894 GCTCCTCGTT
* * *
46213904 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
46213969 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* * * * * *
46213983 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG
* *
46214048 AATTT-GTATCTCGCA
65 -ATTTAATAACTCGCA
* * * * * *
46214063 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGAC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGAC
46214119 TTAGCCCTGA
Statistics
Matches: 110, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
79 38 0.35
80 65 0.59
81 7 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
TTTAATAACTCGCA
Found at i:46214137 original size:41 final size:41
Alignment explanation
Indices: 46214060--46214137 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
46214050 TTTGTATCTC
* *
46214060 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATACATTCACTTA
*
46214101 GCACAAA-GCCTTCGGGA-CTTAGCCCTGATAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGATA-CATTCA
46214138 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGATACATTCACTTA
Found at i:46220422 original size:30 final size:30
Alignment explanation
Indices: 46220302--46220511 Score: 151
Period size: 30 Copynumber: 7.1 Consensus size: 30
46220292 TAAAATCACA
* * * *
46220302 ATGGTTGTCACCATCCATTTCCATAGTTTG
1 ATGGTCGTCACCATCCCTTTTCATAATTTG
* * * *
46220332 ATAGTCG-AAGCTATCCCTTTTCATATTTTG
1 ATGGTCGTCA-CCATCCCTTTTCATAATTTG
* ** *
46220362 ATGGTCGTCACCATCCTTTTTTGT-AGTTG
1 ATGGTCGTCACCATCCCTTTTCATAATTTG
**
46220391 ATGAACGTCACCATCCCTTTTCATAATTTG
1 ATGGTCGTCACCATCCCTTTTCATAATTTG
* * * * *
46220421 ATAGCCG-AAGCTATCCCTTTTCATAGTTTG
1 ATGGTCGTCA-CCATCCCTTTTCATAATTTG
* * *
46220451 ATGGTCATTACCATCCCTTTTCGT--TGTTG
1 ATGGTCGTCACCATCCCTTTTCATAAT-TTG
*
46220480 ATGGTTGTCACCATCCCTTTTCATAATTTG
1 ATGGTCGTCACCATCCCTTTTCATAATTTG
46220510 AT
1 AT
46220512 AGCTGAAGCT
Statistics
Matches: 135, Mismatches: 37, Indels: 16
0.72 0.20 0.09
Matches are distributed among these distances:
28 1 0.01
29 47 0.35
30 84 0.62
31 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (30 bp):
ATGGTCGTCACCATCCCTTTTCATAATTTG
Found at i:46220464 original size:89 final size:89
Alignment explanation
Indices: 46220308--46220534 Score: 319
Period size: 89 Copynumber: 2.6 Consensus size: 89
46220298 CACAATGGTT
* * * * * *
46220308 GTCACCATCCATTTCCATAGTTTGATAGTCGAAGCTATCCCTTTTCATATTTTGATGGTCGTCAC
1 GTCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAGTTTGATGGTCATCAC
* *
46220373 CATCCTTTTTTGTAGTTGATGAAC
66 CATCCCTTTTCGTAGTTGATGAAC
*
46220397 GTCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAGTTTGATGGTCATTAC
1 GTCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAGTTTGATGGTCATCAC
* ***
46220462 CATCCCTTTTCGTTGTTGATGGTT
66 CATCCCTTTTCGTAGTTGATGAAC
* *
46220486 GTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCATTTTCATA
1 GTCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATA
46220535 ATTCGACAGT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 123 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (89 bp):
GTCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAGTTTGATGGTCATCAC
CATCCCTTTTCGTAGTTGATGAAC
Found at i:46220531 original size:30 final size:30
Alignment explanation
Indices: 46220492--46220594 Score: 136
Period size: 30 Copynumber: 3.4 Consensus size: 30
46220482 GGTTGTCACC
*
46220492 ATCCCTTTTCATAATTTGATAGCTGAAGCT
1 ATCCCTTTTCATAATTTGACAGCTGAAGCT
* *
46220522 ATCCATTTTCATAATTCGACAG-TGAAAGCT
1 ATCCCTTTTCATAATTTGACAGCTG-AAGCT
* **
46220552 ATCCCTTTTCATAATTTGACAACCAAAGCT
1 ATCCCTTTTCATAATTTGACAGCTGAAGCT
46220582 ATCCCTTTTCATA
1 ATCCCTTTTCATA
46220595 TTTCGATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.03
30 61 0.97
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGACAGCTGAAGCT
Found at i:46220556 original size:89 final size:88
Alignment explanation
Indices: 46220302--46220561 Score: 288
Period size: 89 Copynumber: 2.9 Consensus size: 88
46220292 TAAAATCACA
* * * *
46220302 ATGGTTGTCACCATCCATTTCCATAGTTTGATAG-TCGAAGCTATCCCTTTTCATATTTTGATGG
1 ATGGTTGTCACCATCCCTTTTCATAATTTGATAGCT-GAAGCTATCCCTTTTCATAATTTGATGG
** * *
46220366 TCGTCACCATCCTTTTTTGTAGTTG
65 T-GAAACCATCCCTTTTCGTAGTTG
*** * *
46220391 ATGAACGTCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAGTTTGATGGT
1 ATGGTTGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATAATTTGATGGT
* * *
46220456 CATTACCATCCCTTTTCGTTGTTG
66 GA-AACCATCCCTTTTCGTAGTTG
* * **
46220480 ATGGTTGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCATTTTCATAATTCGACAGT
1 ATGGTTGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATAATTTGATGGT
*
46220545 GAAAGCTATCCCTTTTC
66 GAAA-CCATCCCTTTTC
46220562 ATAATTTGAC
Statistics
Matches: 142, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
88 1 0.01
89 141 0.99
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (88 bp):
ATGGTTGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATAATTTGATGGT
GAAACCATCCCTTTTCGTAGTTG
Found at i:46222733 original size:45 final size:44
Alignment explanation
Indices: 46222669--46222843 Score: 205
Period size: 45 Copynumber: 4.0 Consensus size: 44
46222659 TATCGTACAG
46222669 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCC-TTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* * *
46222714 TACTATTCCGGCCATTGAGCCTAGTAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCC-TTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
46222759 TACTATTCGGGCCTTCGAGCCTAACAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTT-GAGCCTAGCAGGCTATGATGCCGGTGAAA
* * *
46222804 TGA-TA-TCGGG-CTTCAAGCCTAGCAAGCTA-AATGCCGGTGA
1 T-ACTATTCGGGCCTT-GAGCCTAGCAGGCTATGATGCCGGTGA
46222844 TTTGATAAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
42 11 0.09
43 16 0.14
44 7 0.06
45 81 0.70
46 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (44 bp):
TACTATTCGGGCCTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
Found at i:46228291 original size:43 final size:43
Alignment explanation
Indices: 46228134--46228292 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 43
46228124 ATGTGTTCTT
*
46228134 GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATTGATATGTGATTAC
* * * * *
46228177 GTGTAAGACCATGTCTGGGATATCGACA-TCATAT-TGGAATT-C
1 GTGTAAGACCACGTCTGGGACATTGGCATTGATATGT-G-ATTAC
* *
46228219 GTGTAAGACC-CTGTCTGGGACAGTGGCATTGATATGTGATTAT
1 GTGTAAGACCAC-GTCTGGGACATTGGCATTGATATGTGATTAC
*
46228262 ATGTAAGACCACGTCTGGGA-AGTTGGCATTG
1 GTGTAAGACCACGTCTGGGACA-TTGGCATTG
46228293 TACGATATGT
Statistics
Matches: 93, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 32 0.34
43 58 0.62
44 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATTGATATGTGATTAC
Found at i:46230645 original size:133 final size:133
Alignment explanation
Indices: 46230407--46230673 Score: 516
Period size: 133 Copynumber: 2.0 Consensus size: 133
46230397 TAGGGTTATT
46230407 TATGCGCTATTCAAGATATATGTGATGGTACGGAGATATTACTGATTATACCAGAATCCAACATT
1 TATGCGCTATTCAAGATATATGTGATGGTACGGAGATATTACTGATTATACCAGAATCCAACATT
*
46230472 TTTTTGCAGATTACTGAGTTATACTAGTGTGGTGGAGGCATATATTAATACTGATTATATGATGC
66 TTTTTGCAGATTACTGAGTTATACTAGTGTGGTGGAGGCATATATTAATACTAATTATATGATGC
46230537 CTA
131 CTA
46230540 TATGCGCTATTCAAGATATATGTGATGGTACGGAGATATTACTGATTATACCAGAATCCAACATT
1 TATGCGCTATTCAAGATATATGTGATGGTACGGAGATATTACTGATTATACCAGAATCCAACATT
*
46230605 TTTTTGCGGATTACTGAGTTATACTAGTGTGGTGGAGGCATATATTAATACTAATTATATGATGC
66 TTTTTGCAGATTACTGAGTTATACTAGTGTGGTGGAGGCATATATTAATACTAATTATATGATGC
46230670 CTA
131 CTA
46230673 T
1 T
46230674 GGGCTGTGCG
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 132 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (133 bp):
TATGCGCTATTCAAGATATATGTGATGGTACGGAGATATTACTGATTATACCAGAATCCAACATT
TTTTTGCAGATTACTGAGTTATACTAGTGTGGTGGAGGCATATATTAATACTAATTATATGATGC
CTA
Found at i:46236601 original size:31 final size:31
Alignment explanation
Indices: 46236563--46236625 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
46236553 TGTATATAAG
46236563 TTTGAAATGAACATGTACCTAAGATGTCATA
1 TTTGAAATGAACATGTACCTAAGATGTCATA
46236594 TTTGAAATGAACATGTACCTAAGATGTCATA
1 TTTGAAATGAACATGTACCTAAGATGTCATA
46236625 T
1 T
46236626 GGTAATGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (31 bp):
TTTGAAATGAACATGTACCTAAGATGTCATA
Found at i:46239823 original size:64 final size:63
Alignment explanation
Indices: 46239754--46239894 Score: 264
Period size: 64 Copynumber: 2.2 Consensus size: 63
46239744 GTAGCAAATT
46239754 AACTAAGTTGGCCTCTAGAGATGACATCCTGGCATGAGCTAAAGTCCACCTTGCATAAAAAAAA
1 AACTAAGTTGGCCTCTAGAGATGACATCCTGGCATGAGCTAAAGTCCACCTTGCAT-AAAAAAA
*
46239818 AACTAAGTTGGCCTCTAGAGATGACATCCTGGCATGAGCTAAGGTCCACCTTGCATAAAAAAA
1 AACTAAGTTGGCCTCTAGAGATGACATCCTGGCATGAGCTAAAGTCCACCTTGCATAAAAAAA
46239881 AACTAAGTTGGCCT
1 AACTAAGTTGGCCT
46239895 TGAGAATGTT
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 21 0.28
64 55 0.72
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (63 bp):
AACTAAGTTGGCCTCTAGAGATGACATCCTGGCATGAGCTAAAGTCCACCTTGCATAAAAAAA
Found at i:46241332 original size:41 final size:42
Alignment explanation
Indices: 46241272--46241392 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
46241262 TAGGGTTAGT
* *
46241272 TGAGATTACGTGTACGACCATATCT-AGATATGGCATCAATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
* * *
46241313 TGAGATTTCGTGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATA-TCTGGGATA-TGGCATCAATA
** * *
46241356 TGAGATCCCATGTAAGACCGTATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
46241393 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
41 21 0.32
42 11 0.17
43 34 0.52
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:46242904 original size:12 final size:13
Alignment explanation
Indices: 46242887--46242918 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
46242877 ATAGCACATT
46242887 TCAAAAC-ATGCA
1 TCAAAACTATGCA
46242899 TCAAAACTATGCA
1 TCAAAACTATGCA
46242912 -CAAAACT
1 TCAAAACT
46242919 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:46243506 original size:44 final size:43
Alignment explanation
Indices: 46243374--46243520 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 43
46243364 CAATGCAGAC
* * **
46243374 GTCCCAGACATGGTCTTACATGT-AATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCCAAT
* * * *
46243417 GTCCCAGACAAGGTCTTATACG-AAA-ACAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCCAAT
* *
46243459 GTCCAAGACATGGTCTTACACGTAAATTTCAAATCGATGCCAGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCCAAT
*
46243503 GTCCCAGACACGGTCTTA
1 GTCCCAGACATGGTCTTA
46243521 TACGATAATT
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 29 0.35
43 24 0.29
44 25 0.30
45 4 0.05
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCAAT
Found at i:46243531 original size:44 final size:42
Alignment explanation
Indices: 46243374--46243530 Score: 145
Period size: 44 Copynumber: 3.6 Consensus size: 42
46243364 CAATGCAGAC
* * **
46243374 GTCCCAGACATGGTCTTACATGTAATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAATTCA-AATCGATGCCAAT
* * ** *
46243417 GTCCCAGACAAGGTCTTATACG-AAAACAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAATTCAAAT-CGATGCCAAT
* *
46243459 GTCCAAGACATGGTCTTACACGTAAATTTCAAATCGATGCCAGT
1 GTCCCAGACATGGTCTTACACGT-AA-TTCAAATCGATGCCAAT
* *
46243503 GTCCCAGACACGGTCTTATACGATAATT
1 GTCCCAGACATGGTCTTACACG-TAATT
46243531 TAGATCAATA
Statistics
Matches: 91, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.34
43 21 0.23
44 32 0.35
45 5 0.05
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAATTCAAATCGATGCCAAT
Found at i:46252721 original size:62 final size:64
Alignment explanation
Indices: 46252649--46252771 Score: 171
Period size: 65 Copynumber: 1.9 Consensus size: 64
46252639 ATACATACTA
*
46252649 AATTAATTTAATCAATTTAGTG-AA-T-GTATAAGACAGGGTGAAGTAAAAATATTCCTATGCTG
1 AATTAATTTAATCAATTT-GTGTAAGTAGTATAAGACAGAGTGAAGTAAAAATATTCCTATGCTG
* * *
46252711 AATTAATTTAATCAATTTTTGTAAGTAAGTATAAGACAGAGTGAAGTAAATATATTTCTAT
1 AATTAATTTAATCAATTTGTGTAAGT-AGTATAAGACAGAGTGAAGTAAAAATATTCCTAT
46252772 AATTTAATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
61 2 0.04
62 20 0.38
63 1 0.02
65 30 0.57
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (64 bp):
AATTAATTTAATCAATTTGTGTAAGTAGTATAAGACAGAGTGAAGTAAAAATATTCCTATGCTG
Found at i:46268021 original size:18 final size:20
Alignment explanation
Indices: 46267979--46268015 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46267969 ATATTTTATG
*
46267979 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
46267998 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
46268016 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Done.