Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 161 of 427
Found at i:44610534 original size:15 final size:15
Alignment explanation
Indices: 44610514--44610543 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44610504 CATTTTATTT
*
44610514 ATATTAGGATAATTA
1 ATATTAAGATAATTA
44610529 ATATTAAGATAATTA
1 ATATTAAGATAATTA
44610544 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:44610565 original size:16 final size:18
Alignment explanation
Indices: 44610538--44610579 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
44610528 AATATTAAGA
44610538 TAATTATTAGGA-TTATT
1 TAATTATTAGGATTTATT
44610555 TAATT-TTAGGATTTTATT
1 TAATTATTAGGA-TTTATT
44610573 TAATTAT
1 TAATTAT
44610580 ATTTAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
17 5 0.23
18 10 0.45
19 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
TAATTATTAGGATTTATT
Found at i:44610571 original size:27 final size:26
Alignment explanation
Indices: 44610510--44610572 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
44610500 ACTCCATTTT
44610510 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
44610537 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
44610565 ATTTTATT
1 ATTTTATT
44610573 TAATTATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:44610584 original size:10 final size:10
Alignment explanation
Indices: 44610569--44610608 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
44610559 TTTAGGATTT
44610569 TATTTAATTA
1 TATTTAATTA
44610579 TATTTAATTA
1 TATTTAATTA
*
44610589 TCTTTAATTA
1 TATTTAATTA
*
44610599 TCTTTAATTA
1 TATTTAATTA
44610609 AATGTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTTAATTA
Found at i:44614333 original size:22 final size:23
Alignment explanation
Indices: 44614308--44614366 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
44614298 CAACCCAATT
44614308 TTTATTTTTATTTTCCTT-TTAG
1 TTTATTTTTATTTTCCTTATTAG
* * *
44614330 TTTATTTTATTTTTTTCTTATTAT
1 TTTATTTT-TATTTTCCTTATTAG
44614354 TTTATTATTTATT
1 TTTATT-TTTATT
44614367 ATTTTTAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 8 0.27
23 8 0.27
24 12 0.40
25 2 0.07
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTATTTTTATTTTCCTTATTAG
Found at i:44615901 original size:15 final size:15
Alignment explanation
Indices: 44615881--44615910 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44615871 CATTTTATTT
*
44615881 ATATTAGGATAATTA
1 ATATTAAGATAATTA
44615896 ATATTAAGATAATTA
1 ATATTAAGATAATTA
44615911 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:44615938 original size:27 final size:26
Alignment explanation
Indices: 44615877--44615939 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
44615867 ACTCCATTTT
44615877 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
44615904 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
44615932 ATTTTATT
1 ATTTTATT
44615940 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:44615954 original size:10 final size:10
Alignment explanation
Indices: 44615935--44615986 Score: 97
Period size: 10 Copynumber: 5.3 Consensus size: 10
44615925 TTTTAGGATT
44615935 TTAT-TTTAA
1 TTATCTTTAA
44615944 TTATCTTTAA
1 TTATCTTTAA
44615954 TTATCTTTAA
1 TTATCTTTAA
44615964 TTATCTTTAA
1 TTATCTTTAA
44615974 TTATCTTTAA
1 TTATCTTTAA
44615984 TTA
1 TTA
44615987 AATGTATTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
9 4 0.10
10 38 0.90
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:44615997 original size:20 final size:20
Alignment explanation
Indices: 44615951--44616001 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
44615941 TAATTATCTT
** *
44615951 TAATTATCTTTAATTATCTT
1 TAATTATCTTTAATTAAATG
44615971 TAATTATCTTTAATTAAATG
1 TAATTATCTTTAATTAAATG
*
44615991 TATTTATCTTT
1 TAATTATCTTT
44616002 TTAGAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTATCTTTAATTAAATG
Found at i:44615998 original size:30 final size:30
Alignment explanation
Indices: 44615934--44616001 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
44615924 ATTTTAGGAT
** *
44615934 TTTAT-TTTAATTATCTTTAATTATCTTTA
1 TTTATCTTTAATTATCTTTAATTAAATGTA
*
44615963 ATTATCTTTAATTATCTTTAATTAAATGTA
1 TTTATCTTTAATTATCTTTAATTAAATGTA
44615993 TTTATCTTT
1 TTTATCTTT
44616002 TTAGAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTATCTTTAATTATCTTTAATTAAATGTA
Found at i:44619865 original size:26 final size:26
Alignment explanation
Indices: 44619823--44619871 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
44619813 TCTCTTGGTT
*
44619823 TTCTTTTTCTTTCTTTTTCAAAATTC
1 TTCTTTATCTTTCTTTTTCAAAATTC
44619849 TTCTTTAT-TTTCTTTTTCAAAAT
1 TTCTTTATCTTTCTTTTTCAAAAT
44619872 GGTTTGCCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.65
Consensus pattern (26 bp):
TTCTTTATCTTTCTTTTTCAAAATTC
Found at i:44624390 original size:28 final size:28
Alignment explanation
Indices: 44624358--44624425 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
44624348 ACAGTAAACA
* *
44624358 TGGCAAAGTCACCAGAGTAGTAATTACG
1 TGGCAAAGCCACCAAAGTAGTAATTACG
44624386 TGGCAAAGCCACCAAAGTAGTAATTACG
1 TGGCAAAGCCACCAAAGTAGTAATTACG
44624414 TGGCAAAGCCAC
1 TGGCAAAGCCAC
44624426 TAATACAGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (28 bp):
TGGCAAAGCCACCAAAGTAGTAATTACG
Found at i:44625483 original size:12 final size:12
Alignment explanation
Indices: 44625466--44625496 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44625456 GCCTAGACAT
44625466 GCCCGTGCGGTC
1 GCCCGTGCGGTC
44625478 GCCCGTGCGGTC
1 GCCCGTGCGGTC
*
44625490 ACCCGTG
1 GCCCGTG
44625497 TCCAAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.42, G:0.39, T:0.16
Consensus pattern (12 bp):
GCCCGTGCGGTC
Found at i:44628742 original size:8 final size:8
Alignment explanation
Indices: 44628729--44628757 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
44628719 CATCAGGTAC
44628729 TTTAGCGA
1 TTTAGCGA
44628737 TTTAGCGA
1 TTTAGCGA
44628745 TTTAGCGA
1 TTTAGCGA
44628753 TTTAG
1 TTTAG
44628758 TCTATCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (8 bp):
TTTAGCGA
Found at i:44630611 original size:27 final size:27
Alignment explanation
Indices: 44630581--44630639 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
44630571 TGTCATGTGA
*
44630581 AATTGAATGGCAAATTAATGTTACATG
1 AATTGAATGGCAAATTAATATTACATG
**
44630608 AATTGAATGTTAAATTAATATTACATG
1 AATTGAATGGCAAATTAATATTACATG
*
44630635 GATTG
1 AATTG
44630640 CATGAGTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (27 bp):
AATTGAATGGCAAATTAATATTACATG
Found at i:44646306 original size:25 final size:24
Alignment explanation
Indices: 44646239--44646314 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 24
44646229 CTTTTACATA
*
44646239 TTTTAAATTTAATATATTATTATT
1 TTTTAAATTTAATATTTTATTATT
* *
44646263 TTTATCAACA-AT-ATTTTTTATATATT
1 TTT-T-AA-ATTTAATATTTTAT-TATT
44646289 TTTTAAATTTAATATTTTATTTATT
1 TTTTAAATTTAATATTTTA-TTATT
44646314 T
1 T
44646315 GAAAATATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
23 1 0.03
24 6 0.15
25 21 0.52
26 11 0.28
27 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTAAATTTAATATTTTATTATT
Found at i:44647893 original size:28 final size:28
Alignment explanation
Indices: 44647846--44647900 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
44647836 AACTCTTCAA
*
44647846 AATTTTAAAAAATAAAAAAAATTTAAAT
1 AATTTTAAAAAATAAAAAAAATATAAAT
* **
44647874 AATTTTAAAATATATGAAAAATATAAA
1 AATTTTAAAAAATAAAAAAAATATAAA
44647901 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
AATTTTAAAAAATAAAAAAAATATAAAT
Found at i:44652803 original size:26 final size:26
Alignment explanation
Indices: 44652767--44652851 Score: 145
Period size: 26 Copynumber: 3.3 Consensus size: 26
44652757 ACATGAAATT
44652767 ATTATCATGAAACATTTACCTAACCC
1 ATTATCATGAAACATTTACCTAACCC
44652793 ATTATCATGAAACATTTACCTAACCC
1 ATTATCATGAAACATTTACCTAACCC
*
44652819 ATTATCATTG-AACATTTACCTAACCT
1 ATTATCA-TGAAACATTTACCTAACCC
44652845 ATTATCA
1 ATTATCA
44652852 ATTTGTATCA
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 55 0.96
27 2 0.04
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (26 bp):
ATTATCATGAAACATTTACCTAACCC
Found at i:44653526 original size:19 final size:20
Alignment explanation
Indices: 44653481--44653529 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
44653471 AAAGCCCCCT
*
44653481 AACCTTTTTTTTCAACATGC
1 AACCTTTTTTTTCAACATCC
* **
44653501 AAGCTTTTTTTTTTAC-TCC
1 AACCTTTTTTTTCAACATCC
44653520 AACCTTTTTT
1 AACCTTTTTT
44653530 AAAAGTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.53
Consensus pattern (20 bp):
AACCTTTTTTTTCAACATCC
Found at i:44654504 original size:32 final size:31
Alignment explanation
Indices: 44654456--44654537 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
44654446 GATAATAAAA
* * *
44654456 ATAAATTATTTTATATTTTATATATCATTAT
1 ATAAATTATTTAATATTTCATATATCAGTAT
* *
44654487 ATAAATTATTTGAATATTTCATGTATTAGTAT
1 ATAAATTATTT-AATATTTCATATATCAGTAT
44654519 ATTAAATTATTTAAATATT
1 A-TAAATTATTT-AATATT
44654538 ATTTTTCATC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 11 0.26
32 16 0.37
33 16 0.37
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (31 bp):
ATAAATTATTTAATATTTCATATATCAGTAT
Found at i:44656300 original size:80 final size:79
Alignment explanation
Indices: 44655942--44656358 Score: 542
Period size: 77 Copynumber: 5.3 Consensus size: 79
44655932 GAAAATTAAA
* * * * *
44655942 AGTAAAAT-AAAAATCGTTTCGGGATTGGTTCCTGCCATTTAACGATTTTATTCCAAAATTGTTT
1 AGTAAAATAAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
* *
44656006 TATTTCTAAAAACA
66 TATTTCCAAAAACG
* * *
44656020 AGTAAAAT--AAAATCGTTTCGGGATCGATTCTCGCCGTTCAACGGTTTTATTCCAAATTTGTTT
1 AGTAAAATAAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
44656083 TATTTCCAAAAACG
66 TATTTCCAAAAACG
* * *
44656097 AGTAAAAT--AAAATAGTTTCGGGATTGACTCCCGCCGTTCAATGATTTTATTCCAAATTTGTTT
1 AGTAAAATAAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
* *
44656160 AATTTTCAAAAACG
66 TATTTCCAAAAACG
* *
44656174 AGTAAAATAAAAAATCGTTTCGAGATTGATTCCCACCGTTCAACGATTTTATTCCAAATTTGTTT
1 AGTAAAATAAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
* *
44656239 TATTTCCAAACATG
66 TATTTCCAAAAACG
* ** * *
44656253 AGAAAAATAAAAAAATCGTTTCGGGATTGATTTTCGCTGTTCAACGATTTTACTCCAAATTTGTT
1 AGTAAAAT-AAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTT
44656318 TTATTTCCAAAAACG
65 TTATTTCCAAAAACG
*
44656333 AGTAACAT--AAAATCCGTTTCGGGATT
1 AGTAAAATAAAAAAT-CGTTTCGGGATT
44656359 TATTTGCTGT
Statistics
Matches: 297, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
77 141 0.47
78 20 0.07
79 67 0.23
80 69 0.23
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (79 bp):
AGTAAAATAAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
TATTTCCAAAAACG
Found at i:44656375 original size:159 final size:157
Alignment explanation
Indices: 44655859--44656358 Score: 587
Period size: 156 Copynumber: 3.1 Consensus size: 157
44655849 TAAAAATAGG
44655859 TAAAATTCGTTTCGGGATTGATTCCCGCCGTTCAACAGATTTTATTCCATTAATTTGATTTTATT
1 TAAAA-TCGTTTCGGGATTGATTCCCGCCGTTCAAC-GATTTTATTCCA--AATTTG-TTTTATT
* * * * *
44655924 TCCAAAC-GGAAAATTAAAAGTAAAATAAAAATCGTTTCGGGATTG-GTTCCTGCCATTTAACGA
61 TCCAAACACG-AGA--AAAA-T--AA-AAAAATCGTTTCGGGATTGACTTCC-GCCGTTCAACGA
* * *
44655987 TTTTATTCCAAAATTGTTTTATTTCTAAAAACAAGTAAAA
118 TTTTATTCCAAATTTGTTTTATTTCCAAAAACGAGTAAAA
* * *
44656027 TAAAATCGTTTCGGGATCGATTCTCGCCGTTCAACGGTTTTATTCCAAATTTGTTTTATTTCCAA
1 TAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAA
* * * * *
44656092 AAACGAGTAAAAT---AAAATAGTTTCGGGATTGACTCCCGCCGTTCAATGATTTTATTCCAAAT
66 ACACGAGAAAAATAAAAAAATCGTTTCGGGATTGACTTCCGCCGTTCAACGATTTTATTCCAAAT
* *
44656154 TTGTTTAATTTTCAAAAACGAGTAAAA
131 TTGTTTTATTTCCAAAAACGAGTAAAA
* *
44656181 TAAAAAATCGTTTCGAGATTGATTCCCACCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCC
1 T--AAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCC
* * * * *
44656246 AAACATGAGAAAAATAAAAAAATCGTTTCGGGATTGATTTTCGCTGTTCAACGATTTTACTCCAA
64 AAACACGAGAAAAATAAAAAAATCGTTTCGGGATTGACTTCCGCCGTTCAACGATTTTATTCCAA
*
44656311 ATTTGTTTTATTTCCAAAAACGAGTAACA
129 ATTTGTTTTATTTCCAAAAACGAGTAAAA
44656340 TAAAATCCGTTTCGGGATT
1 TAAAAT-CGTTTCGGGATT
44656359 TATTTGCTGT
Statistics
Matches: 287, Mismatches: 37, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
154 62 0.22
155 3 0.01
156 69 0.24
157 5 0.02
158 11 0.04
159 67 0.23
160 1 0.00
161 4 0.01
163 14 0.05
164 7 0.02
166 11 0.04
167 28 0.10
168 5 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (157 bp):
TAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCCAA
ACACGAGAAAAATAAAAAAATCGTTTCGGGATTGACTTCCGCCGTTCAACGATTTTATTCCAAAT
TTGTTTTATTTCCAAAAACGAGTAAAA
Found at i:44656384 original size:159 final size:153
Alignment explanation
Indices: 44655945--44656385 Score: 508
Period size: 159 Copynumber: 2.8 Consensus size: 153
44655935 AATTAAAAGT
* * * *
44655945 AAAATAAAAATCGTTTCGGGATTG-GTTCCTGCCATTTAACGATTTTATTCCAAAATTGTTTTAT
1 AAAATAAAAATCGTTTCGGGATTGACTTCC-GCCGTTCAACGATTTTATTCCAAATTTGTTTTAT
* * * *
44656009 TTCTAAAAACAAGTAAAATAAAATCGTTTCGGGATCGATTCTCGCCGTTCAACGGTTTTATTCCA
65 TTCCAAAAACGAGTAAAATAAAATCGTTTCGGGATTGATTCT-GCCGTTCAA-GGATTTATTCCA
*
44656074 AATTTGTTTTATTTCCAAAAACGAGT
128 AATTTGTTTTATTTCCAAAAACGAGA
* * * *
44656100 AAAAT-AAAATAGTTTCGGGATTGACTCCCGCCGTTCAATGATTTTATTCCAAATTTGTTTAATT
1 AAAATAAAAATCGTTTCGGGATTGACTTCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATT
* * ** *
44656164 TTCAAAAACGAGTAAAATAAAAAATCGTTTCGAGATTGATTCCCACCGTTCAACGATTTTATTCC
66 TCCAAAAACGAGTAAAAT--AAAATCGTTTCGGGATTGATT-CTGCCGTTCAAGGA-TTTATTCC
* *
44656229 AAATTTGTTTTATTTCCAAACATGAGA
127 AAATTTGTTTTATTTCCAAAAACGAGA
* * * *
44656256 AAAATAAAAAAATCGTTTCGGGATTGATTTTCGCTGTTCAACGATTTTACTCCAAATTTGTTTTA
1 AAAAT--AAAAATCGTTTCGGGATTGACTTCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTA
* * *
44656321 TTTCCAAAAACGAGTAACATAAAATCCGTTTCGGGATTTATTTGCTGTCGTTCAATGGATTTATT
64 TTTCCAAAAACGAGTAAAATAAAAT-CGTTTCGGGATTGA-TT-CTGCCGTTCAA-GGATTTATT
44656386 ACTTTTTTTG
Statistics
Matches: 238, Mismatches: 37, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
154 62 0.26
155 9 0.04
156 64 0.27
157 6 0.03
158 12 0.05
159 83 0.35
160 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (153 bp):
AAAATAAAAATCGTTTCGGGATTGACTTCCGCCGTTCAACGATTTTATTCCAAATTTGTTTTATT
TCCAAAAACGAGTAAAATAAAATCGTTTCGGGATTGATTCTGCCGTTCAAGGATTTATTCCAAAT
TTGTTTTATTTCCAAAAACGAGA
Found at i:44656630 original size:84 final size:85
Alignment explanation
Indices: 44656410--44656653 Score: 339
Period size: 85 Copynumber: 2.9 Consensus size: 85
44656400 AAAAAATAAG
* * *
44656410 AAATTAAATAAAATATATTTCAGAATTTATTCTCGCCGTTTAACAATATTTTATTTGATTTTATT
1 AAATTAAATAAAATATATTTCGGGATTTATTCCCGCCGTTTAACAATATTTTATTTGATTTTATT
*
44656475 TTGTTTCCAAATTCAAAATT
66 TTGTTTCCAAATTCAAAACT
* *
44656495 AAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTTAATAATATTTTATTTGATTTTATT
1 AAATTAAATAAAATATATTTCGGGATTTATTCCCGCCGTTTAACAATATTTTATTTGATTTTATT
* **
44656560 TTGTTTCGAAATT-TGAACT
66 TTGTTTCCAAATTCAAAACT
* * * * *
44656579 AAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATATT-TT
1 AAATTAAATAAAATATATTTCGGGATTTATTCCCGCCGTTTAACAATATTTTATTTGATTTTATT
*
44656643 TTGTTTTCAAA
66 TTGTTTCCAAA
44656654 CAAAGACATA
Statistics
Matches: 142, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
83 11 0.08
84 59 0.42
85 72 0.51
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (85 bp):
AAATTAAATAAAATATATTTCGGGATTTATTCCCGCCGTTTAACAATATTTTATTTGATTTTATT
TTGTTTCCAAATTCAAAACT
Found at i:44669635 original size:46 final size:46
Alignment explanation
Indices: 44669585--44669760 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44669575 TGGTTGAGCA
44669585 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44669631 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44669676 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44669724 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44669761 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44669741 original size:93 final size:93
Alignment explanation
Indices: 44669582--44669753 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44669572 GGATGGTTGA
* *
44669582 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44669647 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44669675 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44669740 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44669754 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44673333 original size:19 final size:19
Alignment explanation
Indices: 44673309--44673348 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
44673299 GTGTTTTATG
44673309 ATAGAATATGAGGTTTTAA
1 ATAGAATATGAGGTTTTAA
44673328 ATAGAATATGAGGTTTTAA
1 ATAGAATATGAGGTTTTAA
44673347 AT
1 AT
44673349 TATGTTAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
ATAGAATATGAGGTTTTAA
Found at i:44676317 original size:15 final size:15
Alignment explanation
Indices: 44676299--44676366 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
44676289 ATCTTGGGTT
*
44676299 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
*
44676314 TCTTTATTCTGGATT
1 TCTTTATTCTGGATC
* *
44676329 TCTTTATTCTGGGTT
1 TCTTTATTCTGGATC
* *
44676344 TCTCTATT-TGGATT
1 TCTTTATTCTGGATC
44676358 TCTTTATTC
1 TCTTTATTC
44676367 GGTTTTCTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.26
15 34 0.74
ACGTcount: A:0.12, C:0.18, G:0.13, T:0.57
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:44676360 original size:29 final size:28
Alignment explanation
Indices: 44676292--44676378 Score: 95
Period size: 30 Copynumber: 3.0 Consensus size: 28
44676282 GTATCGTATC
* * *
44676292 TTGGGTTTCTTTATCCTGGATCTCTTTAT
1 TTGGATTTCTTTATTCTGGATTTC-TTAT
*
44676321 TCTGGATTTCTTTATTCTGGGTTTCTCTAT
1 T-TGGATTTCTTTATTCTGGATTTCT-TAT
*
44676351 TTGGATTTCTTTATTC-GGTTTTCTTAT
1 TTGGATTTCTTTATTCTGGATTTCTTAT
44676378 T
1 T
44676379 ATCTTTGTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.08
28 7 0.14
29 17 0.33
30 23 0.45
ACGTcount: A:0.10, C:0.15, G:0.16, T:0.59
Consensus pattern (28 bp):
TTGGATTTCTTTATTCTGGATTTCTTAT
Found at i:44682268 original size:49 final size:49
Alignment explanation
Indices: 44682215--44682486 Score: 394
Period size: 49 Copynumber: 5.7 Consensus size: 49
44682205 GATTTTATGC
*
44682215 GATGAATGTGAATGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
44682264 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
44682313 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * *
44682362 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
44682409 GATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
44682456 GATGGATGTGGAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
44682487 TTCCGAAGGG
Statistics
Matches: 207, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
47 92 0.44
48 7 0.03
49 108 0.52
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:44688223 original size:40 final size:40
Alignment explanation
Indices: 44688168--44688388 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
44688158 TATTCGAATG
44688168 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
44688208 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
44688248 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
44688288 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
44688328 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
44688368 ATATCC-GGCTAAATCCC-AAGG
1 ATATCCGGGCTAAGTCCCGAAGG
44688389 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
38 4 0.02
39 9 0.05
40 154 0.91
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:44691068 original size:43 final size:43
Alignment explanation
Indices: 44690993--44691200 Score: 251
Period size: 43 Copynumber: 4.9 Consensus size: 43
44690983 ATACAGCTCG
* * * *
44690993 TACAATG-CAATATACCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * * * *
44691034 TATCGATGCCACTGTCCCAGACAGGGTCTTACATGTAATC-GAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* *
44691077 TAACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * *
44691121 TACAATGCCAATGTCCTAGACATGGTCTTACACGTACTCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
44691164 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAA
44691201 CCTAATGCGA
Statistics
Matches: 142, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
41 2 0.01
42 4 0.03
43 133 0.94
44 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:44698459 original size:39 final size:40
Alignment explanation
Indices: 44698401--44698501 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
44698391 AAATTGAATG
* *
44698401 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
44698440 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
44698480 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
44698502 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:44698494 original size:40 final size:40
Alignment explanation
Indices: 44698401--44698583 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
44698391 AAATTGAATG
* * * * *
44698401 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
44698440 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
44698480 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
44698520 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
44698560 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
44698584 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:44706558 original size:39 final size:40
Alignment explanation
Indices: 44706500--44706600 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
44706490 AAATTGAATG
* *
44706500 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
44706539 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
44706579 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
44706601 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:44706593 original size:40 final size:40
Alignment explanation
Indices: 44706500--44706682 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
44706490 AAATTGAATG
* * * * *
44706500 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
44706539 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
44706579 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
44706619 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
44706659 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
44706683 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:44709854 original size:38 final size:38
Alignment explanation
Indices: 44709803--44710011 Score: 148
Period size: 38 Copynumber: 5.0 Consensus size: 38
44709793 CGAATGGAAA
* *
44709803 AACATAGTGCTAAGTGGATATACCACGGTTATACGTGT
1 AACATGGTGCTAAGTGGATATACCACGGTTATACATGT
*
44709841 AACATGGTGCTAAGTGGATATACCACGATTACATATATTGATACATGT
1 AACATGGTGCTAAGTGGATATACCACG---------GTT-ATACATGT
* * * *
44709889 AACGTGGTGCTATGTGGATATTCCACGGTTACATATATTGATTCATT
1 AACATGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
44709936 AACATGGTGCTAAGTGGATATACCACGATTAAACATGT
1 AACATGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
44709974 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACATGGTGCTAAGTGGATATACCACGGTTATACATGT
44710012 TAATTTGAAA
Statistics
Matches: 134, Mismatches: 19, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
38 61 0.46
39 2 0.01
40 4 0.03
41 2 0.01
44 2 0.01
45 3 0.02
47 29 0.22
48 31 0.23
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (38 bp):
AACATGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:44709962 original size:47 final size:48
Alignment explanation
Indices: 44709833--44709966 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
44709823 TACCACGGTT
*
44709833 ATACGTGTAACATGGTGCTAAGTGGATATACCACGATTACATATATTG
1 ATACATGTAACATGGTGCTAAGTGGATATACCACGATTACATATATTG
* * * *
44709881 ATACATGTAACGTGGTGCTATGTGGATATTCCACGGTTACATATATTG
1 ATACATGTAACATGGTGCTAAGTGGATATACCACGATTACATATATTG
*
44709929 ATTCAT-TAACATGGTGCTAAGTGGATATACCACGATTA
1 ATACATGTAACATGGTGCTAAGTGGATATACCACGATTA
44709967 AACATGTAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 28 0.37
48 48 0.63
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (48 bp):
ATACATGTAACATGGTGCTAAGTGGATATACCACGATTACATATATTG
Found at i:44714909 original size:40 final size:40
Alignment explanation
Indices: 44714864--44715029 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
44714854 CGGAATATAA
44714864 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44714904 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44714944 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44714984 CCGGATATAATTTCCAGCATAATTGTCTTCGGG--TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44715022 CCGGATAT
1 CCGGATAT
44715030 CATTCAATTT
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
38 12 0.11
39 1 0.01
40 93 0.88
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44725543 original size:40 final size:40
Alignment explanation
Indices: 44725416--44725545 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
44725406 ATGCTGGAAA
* *
44725416 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
44725456 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
44725496 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
44725536 TTATATCCGG
1 TTATATCCGG
44725546 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:44729687 original size:19 final size:19
Alignment explanation
Indices: 44729663--44729701 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44729653 AGGTCTGAGT
44729663 TCATAATGGATGCGATTCA
1 TCATAATGGATGCGATTCA
44729682 TCATAATGGATGCGATTCA
1 TCATAATGGATGCGATTCA
44729701 T
1 T
44729702 GTAACATCCG
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:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (19 bp):
TCATAATGGATGCGATTCA
Found at i:44732544 original size:40 final size:40
Alignment explanation
Indices: 44732485--44732692 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
44732475 CAATTGAATG
* * * *
44732485 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44732525 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
44732565 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
44732605 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44732645 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
44732685 ATATCCGG
1 ATATCCGG
44732693 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:44732623 original size:80 final size:80
Alignment explanation
Indices: 44732487--44732692 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
44732477 ATTGAATGAT
* * ** * * *
44732487 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
44732551 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
44732567 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
44732632 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
44732647 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
44732693 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:44740546 original size:40 final size:40
Alignment explanation
Indices: 44740487--44740693 Score: 191
Period size: 40 Copynumber: 5.2 Consensus size: 40
44740477 CAATTGAATG
* * * *
44740487 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44740527 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * * **
44740567 ACATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
44740607 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
44740647 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
44740687 ATATCCG
1 ATATCCG
44740694 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 135 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:44740625 original size:80 final size:80
Alignment explanation
Indices: 44740489--44740693 Score: 218
Period size: 80 Copynumber: 2.6 Consensus size: 80
44740479 ATTGAATGAT
* ** * * *
44740489 ATCCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 ATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
44740553 -TTGTGCTAGT-GACCAC
64 TTTGTGCAAGTCGACC-C
* * *
44740569 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
44740634 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
44740649 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCG
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCG
44740694 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.03
80 100 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:44748126 original size:105 final size:103
Alignment explanation
Indices: 44747530--44748495 Score: 1008
Period size: 104 Copynumber: 9.3 Consensus size: 103
44747520 GTAATTCAGC
* * * *
44747530 GAGCTGTTAGAAGTTACGATCTTAAATCA-AAGAACTCAAATAATTGGAAGTTGCGATCTTAAAT
1 GAGCTGTTAGGAGTTGCGATCTTAAATCAGCA-AACTCAAATAATTGGAGGTTGCGATCTTAAAT
* * * *
44747594 CAACTAGCCTTAATAATACCAACTATGAACGTAGGTCA-
65 CAACTAGCCTTAATAATATCAGCTGTGAACATAGGTCAT
* * * * * * *
44747632 GCAAGTTGTTAGGAGTTGTGATATTAAATTAGCAAACTCAAATAATTGGAGGCTACGATATTAAA
1 G--AGCTGTTAGGAGTTGCGATCTTAAATCAGCAAACTCAAATAATTGGAGGTTGCGATCTTAAA
44747697 TCAACTAGCCTTAATAATATCAGCTGTGAACATAGGTCAGT
64 TCAACTAGCCTTAATAATATCAGCTGTGAACATAGGTCA-T
* * * * *
44747738 GAGCTGTTAAGAGTTGAGATC-TAATATCAACGAACTCAAATAATTGGAAGTTGCGATCTTAAAT
1 GAGCTGTTAGGAGTTGCGATCTTAA-ATCAGCAAACTCAAATAATTGGAGGTTGCGATCTTAAAT
* * * **
44747802 CAACTAGCCTTAATAATACCAACTATGAATGTAGGTCAGT
65 CAACTAGCCTTAATAATATCAGCTGTGAACATAGGTCA-T
* * * * * * * *
44747842 GAGTTGTTAGGAGTTGTGATATTAAATTAGCAAACTCAAATAATTGGAGGCTGTGATATTAAATT
1 GAGCTGTTAGGAGTTGCGATCTTAAATCAGCAAACTCAAATAATTGGAGGTTGCGATCTTAAATC
**
44747907 AACTAGCCTTAATAATATCAGCTGTGAACATAGAACAGT
66 AACTAGCCTTAATAATATCAGCTGTGAACATAGGTCA-T
* * * * * *
44747946 GAGCTGTTAGGAGTTGCGATCTTAAATCAACAAACTCAAATAATAGGATGTCGTGATTTTAAATC
1 GAGCTGTTAGGAGTTGCGATCTTAAATCAGCAAACTCAAATAATTGGAGGTTGCGATCTTAAATC
*
44748011 AACTACCCTTAATAATATCAGCTGTGAACATAGGTCAT
66 AACTAGCCTTAATAATATCAGCTGTGAACATAGGTCAT
* * * * * * * *
44748049 CAAGCTGCTCAGGAGTTGTGATTTTAAATCAGCTAACTCAAATAATCGAAAGTTGCGATCTTAAA
1 -GAGCTG-TTAGGAGTTGCGATCTTAAATCAGCAAACTCAAATAATTGGAGGTTGCGATCTTAAA
* *
44748114 TCACCTAGCCTTAATAATATCAACTGTGAACATAGGTCAT
64 TCAACTAGCCTTAATAATATCAGCTGTGAACATAGGTCAT
** * * *
44748154 CGAGCTGTTTAGGAGTTGTTATCTTAAATCAGCTAACTCAAATAATCGGAGGCTGCGATCTTAAA
1 -GAGCTG-TTAGGAGTTGCGATCTTAAATCAGCAAACTCAAATAATTGGAGGTTGCGATCTTAAA
* *
44748219 TCAACTAGCCTTAATAATATCAGTTGTGAACATAGGTTATT
64 TCAACTAGCCTTAATAATATCAGCTGTGAACATAGGTCA-T
* * * * * * **
44748260 GAGCTATTTAGGAGTTGCGATCTTAAATCAACGAACTCGAATAATTGAAGGCTATGATCTTAAAT
1 GAGCT-GTTAGGAGTTGCGATCTTAAATCAGCAAACTCAAATAATTGGAGGTTGCGATCTTAAAT
* ** * * *
44748325 CAGCTAGCCTTAATAATATCAATTATGAACGTAGGCCAAT
65 CAACTAGCCTTAATAATATCAGCTGTGAACATAGGTC-AT
* * ** *
44748365 GAGCTGTTAGGAGTTACGATCTTAAATAAGC--A-TCAAATAATCAGAGGTAGCGATCTTAAATC
1 GAGCTGTTAGGAGTTGCGATCTTAAATCAGCAAACTCAAATAATTGGAGGTTGCGATCTTAAATC
* * *
44748427 AACTAGCCTTAATAATACCAGTTGTTAACATAGGTCAT
66 AACTAGCCTTAATAATATCAGCTGTGAACATAGGTCAT
*
44748465 CGAGCTGTTTAAGAGTTGCGATCTTAAATCA
1 -GAGCTG-TTAGGAGTTGCGATCTTAAATCA
44748496 ACTAACCTTA
Statistics
Matches: 721, Mismatches: 129, Indels: 28
0.82 0.15 0.03
Matches are distributed among these distances:
100 2 0.00
101 57 0.08
102 22 0.03
103 4 0.01
104 363 0.50
105 270 0.37
106 3 0.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (103 bp):
GAGCTGTTAGGAGTTGCGATCTTAAATCAGCAAACTCAAATAATTGGAGGTTGCGATCTTAAATC
AACTAGCCTTAATAATATCAGCTGTGAACATAGGTCAT
Found at i:44748533 original size:68 final size:68
Alignment explanation
Indices: 44748414--44748566 Score: 195
Period size: 68 Copynumber: 2.3 Consensus size: 68
44748404 ATCAGAGGTA
* ** * * * * *
44748414 GCGATCTTAAATCAACTAGCCTTAATAATACCAGTTGTTAACATAGGTCATCGAGCTGTTTAAGA
1 GCGATCTTAAATCAACTAACCTTAATAATACCAACTGTGAACATAGATCATCAAGCTATGTAAGA
44748479 GTT
66 GTT
* *
44748482 GCGATCTTAAATCAACTAACCTTAATAATATCAACTGTGAACGTAGATCATCAAGCTATGTAAGA
1 GCGATCTTAAATCAACTAACCTTAATAATACCAACTGTGAACATAGATCATCAAGCTATGTAAGA
44748547 GTT
66 GTT
44748550 --G-TCTTAAATCAACTAAC
1 GCGATCTTAAATCAACTAAC
44748567 TCAAATAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
65 16 0.21
66 1 0.01
68 58 0.77
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (68 bp):
GCGATCTTAAATCAACTAACCTTAATAATACCAACTGTGAACATAGATCATCAAGCTATGTAAGA
GTT
Found at i:44754792 original size:16 final size:16
Alignment explanation
Indices: 44754764--44754805 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
44754754 CCTCTTCATT
44754764 CTCTTTT-TATTTTCTTC
1 CTCTTTTCT-TTTTC-TC
44754781 CTCTTTTCTTTTTCTC
1 CTCTTTTCTTTTTCTC
44754797 CTCTTTTCT
1 CTCTTTTCT
44754806 CTTGTAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.46
17 12 0.50
18 1 0.04
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (16 bp):
CTCTTTTCTTTTTCTC
Found at i:44759400 original size:10 final size:10
Alignment explanation
Indices: 44759387--44759420 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
44759377 TTTAAATTTA
44759387 AAAAATATAT
1 AAAAATATAT
*
44759397 AAAAAT-TCT
1 AAAAATATAT
44759406 AAAAATATAT
1 AAAAATATAT
44759416 AAAAA
1 AAAAA
44759421 AAGTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATATAT
Found at i:44775479 original size:16 final size:16
Alignment explanation
Indices: 44775458--44775500 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 16
44775448 ACTCAAAAGA
44775458 AATAAATATATTTTAT
1 AATAAATATATTTTAT
44775474 AATAAATTCTATATTTTAT
1 AATAAA---TATATTTTAT
44775493 AATTAAAT
1 AA-TAAAT
44775501 TAAGTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 6 0.26
17 1 0.04
19 12 0.52
20 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAAATATATTTTAT
Found at i:44775488 original size:19 final size:20
Alignment explanation
Indices: 44775464--44775501 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
44775454 AAGAAATAAA
44775464 TATATTTTATAA-TAAATTC
1 TATATTTTATAATTAAATTC
44775483 TATATTTTATAATTAAATT
1 TATATTTTATAATTAAATT
44775502 AAGTATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTTTATAATTAAATTC
Found at i:44775720 original size:5 final size:5
Alignment explanation
Indices: 44775679--44775708 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
44775669 TATAAAATCA
44775679 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
44775709 TATTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:44776303 original size:20 final size:20
Alignment explanation
Indices: 44776278--44776334 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
44776268 TTATTCTCTC
44776278 AATTTTTTTTAAAATTAATA
1 AATTTTTTTTAAAATTAATA
*
44776298 AATTTTTATTAAAA--AAT-
1 AATTTTTTTTAAAATTAATA
*
44776315 -ATATTTTTTAAAATT-ATA
1 AATTTTTTTTAAAATTAATA
44776333 AA
1 AA
44776335 ATATATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
16 11 0.37
17 2 0.07
18 3 0.10
19 1 0.03
20 13 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTTTTTAAAATTAATA
Found at i:44776359 original size:24 final size:22
Alignment explanation
Indices: 44776305--44776347 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
44776295 ATAAATTTTT
*
44776305 ATTAAAAAATATATTTTTTAAA
1 ATTATAAAATATATTTTTTAAA
*
44776327 ATTATAAAATATATTATTTAA
1 ATTATAAAATATATTTTTTAA
44776348 TAAACTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTATAAAATATATTTTTTAAA
Found at i:44781076 original size:45 final size:44
Alignment explanation
Indices: 44780879--44781088 Score: 199
Period size: 46 Copynumber: 4.6 Consensus size: 44
44780869 AGAAACGAGA
* * **
44780879 AAGACCAT-GATTGAAAGATATTATGGCATTATACCCAAAATGAGA-
1 AAGACCATAG-TTGAAAGATACTATGGCATTA-AACCTGAATGA-AT
* * * **
44780924 AAGACAATAAAGTTGAAAGATACTATGGCATTAAACCAGAACGGGT
1 AAGACCAT--AGTTGAAAGATACTATGGCATTAAACCTGAATGAAT
* * * *
44780970 AAGACCCTAGTTGAAAGATACTACGGCACTATACCTGAAGATGAAT
1 AAGACCATAGTTGAAAGATACTATGGCATTAAACCTG-A-ATGAAT
**
44781016 AAGACCATAGTTGAAAGATACTATGGCATTAAAGGTGAATGAAT
1 AAGACCATAGTTGAAAGATACTATGGCATTAAACCTGAATGAAT
44781060 CAAGACCATAGTTGAAAGATACTATGGCA
1 -AAGACCATAGTTGAAAGATACTATGGCA
44781089 CCACTTTGGG
Statistics
Matches: 136, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
44 31 0.23
45 37 0.27
46 47 0.35
47 20 0.15
48 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.22
Consensus pattern (44 bp):
AAGACCATAGTTGAAAGATACTATGGCATTAAACCTGAATGAAT
Found at i:44786236 original size:29 final size:30
Alignment explanation
Indices: 44786189--44786256 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
44786179 TGGCCCAAGA
* *
44786189 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
44786219 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
44786249 GCAAATAT
1 GTAAATAT
44786257 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:44788388 original size:46 final size:46
Alignment explanation
Indices: 44788323--44788554 Score: 315
Period size: 46 Copynumber: 5.0 Consensus size: 46
44788313 GTGTGCTCTC
**
44788323 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
44788369 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
44788415 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCACGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
44788461 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
44788507 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
44788553 TG
1 TG
44788555 TCAAAGATAA
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 2 0.01
46 164 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:44788856 original size:16 final size:17
Alignment explanation
Indices: 44788835--44788867 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44788825 ATGATGGAGC
44788835 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
44788851 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
44788868 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:44789740 original size:2 final size:2
Alignment explanation
Indices: 44789733--44789760 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44789723 TCTAATAGTG
44789733 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44789761 AATTTGGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44799422 original size:30 final size:27
Alignment explanation
Indices: 44799388--44799444 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
44799378 TCTCCAAAAT
44799388 TATTATTCTAGAAAATTTTAACTTTCTTTA
1 TATTATTCTA-AAAATTTTAA-TTT-TTTA
* *
44799418 TATTATTTTAAAATTTTTAATTTTTTA
1 TATTATTCTAAAAATTTTAATTTTTTA
44799445 AAAATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 3 0.12
29 9 0.36
30 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TATTATTCTAAAAATTTTAATTTTTTA
Found at i:44799480 original size:19 final size:19
Alignment explanation
Indices: 44799449--44799505 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
44799439 TTTTTAAAAA
44799449 TATAAAT-TTTTGAATTTT
1 TATAAATATTTTGAATTTT
44799467 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
44799486 TGA-AAATTATTTTG-ATTTT
1 T-ATAAA-TATTTTGAATTTT
44799505 T
1 T
44799506 TTTTTAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.19
19 21 0.58
20 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:44801625 original size:171 final size:171
Alignment explanation
Indices: 44801334--44801671 Score: 586
Period size: 171 Copynumber: 2.0 Consensus size: 171
44801324 ATTGCCAACA
*
44801334 GCAATAGCATCGTCGAGGGTCATGGGGCCACTGTCAAGTCACTGAGCAATATTGTGAATGAGTGC
1 GCAATAGCATCGTCGAGGGTCATGGGGCCACTGTCAAGTCACTAAGCAATATTGTGAATGAGTGC
** * * *
44801399 ATCGTGGTGTTACCGTATCCTCCAGACCTGCATAATAATTTTTGACGTTCAATGCAAAATATGGT
66 ATCACGGTGTTAACGTATCCTCCAGACCTGCATAATAATTTTCGACATTCAATGCAAAATATGGT
*
44801464 AGAAATGATGCTGAAACATAATTCAAATATTGATTGGGATG
131 AGAAATGATGCTGAAACATAATTCAAATATCGATTGGGATG
* * *
44801505 GCAATGGCATCGTCGAGGGTGATGGGGCCACTTTCAAGTCACTAAGCAATATTGTGAATGAGTGC
1 GCAATAGCATCGTCGAGGGTCATGGGGCCACTGTCAAGTCACTAAGCAATATTGTGAATGAGTGC
44801570 ATCACGGTGTTAACGTATCCTCCAGACCTGCATAATAATTTTCGACATTCAATGCAAAATATGGT
66 ATCACGGTGTTAACGTATCCTCCAGACCTGCATAATAATTTTCGACATTCAATGCAAAATATGGT
44801635 AGAAATGATGCTGAAACATAATTCAAATATCGATTGG
131 AGAAATGATGCTGAAACATAATTCAAATATCGATTGG
44801672 TGTTTCATGG
Statistics
Matches: 157, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
171 157 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (171 bp):
GCAATAGCATCGTCGAGGGTCATGGGGCCACTGTCAAGTCACTAAGCAATATTGTGAATGAGTGC
ATCACGGTGTTAACGTATCCTCCAGACCTGCATAATAATTTTCGACATTCAATGCAAAATATGGT
AGAAATGATGCTGAAACATAATTCAAATATCGATTGGGATG
Found at i:44805793 original size:29 final size:28
Alignment explanation
Indices: 44805723--44805797 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
44805713 ATACTCGATT
* *
44805723 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
44805751 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
44805780 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
44805798 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:44805814 original size:29 final size:29
Alignment explanation
Indices: 44805781--44805854 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44805771 CCTTCGAGCT
44805781 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
44805810 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44805839 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44805855 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44813667 original size:29 final size:28
Alignment explanation
Indices: 44813597--44813671 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
44813587 ATACTCGATT
* *
44813597 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
44813625 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
44813654 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
44813672 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:44813688 original size:29 final size:29
Alignment explanation
Indices: 44813655--44813728 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44813645 CCTTCGAGCT
44813655 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
44813684 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44813713 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44813729 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44817041 original size:15 final size:15
Alignment explanation
Indices: 44817021--44817089 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44817011 GTATCTTGGG
44817021 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44817036 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44817051 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44817066 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44817081 TTTCTTTAT
1 TTTCTTTAT
44817090 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:44817090 original size:30 final size:30
Alignment explanation
Indices: 44817012--44817099 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
44817002 CATAGTATCG
* * * *
44817012 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44817042 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44817072 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44817100 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:44819601 original size:46 final size:45
Alignment explanation
Indices: 44819434--44819606 Score: 213
Period size: 46 Copynumber: 3.8 Consensus size: 45
44819424 TTTTGGGCAT
* *
44819434 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGC
**** * * * *
44819479 CCGAACTCGTTGAGTTGAGTCCGAGTTCGGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGC
44819523 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ACGC
*
44819571 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44819607 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
44 3 0.03
45 32 0.30
46 67 0.63
47 1 0.01
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGC
Found at i:44824618 original size:15 final size:15
Alignment explanation
Indices: 44824571--44824649 Score: 99
Period size: 15 Copynumber: 5.4 Consensus size: 15
44824561 CAAAGATAAC
*
44824571 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
44824585 AAGAAATCCA-AATA
1 AAGAAATCCAGAATA
* *
44824599 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
44824614 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
44824629 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
44824644 AAGAAA
1 AAGAAA
44824650 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
14 20 0.36
15 35 0.64
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:44824658 original size:15 final size:15
Alignment explanation
Indices: 44824582--44824658 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
44824572 AGAAAACCGA
44824582 ATAAAGAAATCCAA-
1 ATAAAGAAATCCAAG
* *
44824596 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
44824610 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
44824625 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44824641 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44824656 ATA
1 ATA
44824659 CGATACTATG
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
13 3 0.06
14 8 0.16
15 37 0.73
16 3 0.06
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44827701 original size:93 final size:93
Alignment explanation
Indices: 44827589--44827760 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44827579 GCCCATAAGT
* *
44827589 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44827654 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44827682 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44827747 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
44827761 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44827756 original size:46 final size:46
Alignment explanation
Indices: 44827581--44827756 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44827571 TGTAACCCGC
* * *
44827581 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
44827627 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
44827677 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
44827720 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44827757 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:44830178 original size:30 final size:30
Alignment explanation
Indices: 44830134--44830222 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
44830124 CAAAGATAAC
44830134 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
44830163 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
44830193 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
44830223 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:44830182 original size:15 final size:15
Alignment explanation
Indices: 44830134--44830213 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
44830124 CAAAGATAAC
*
44830134 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
44830148 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
44830163 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
44830178 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
44830193 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
44830208 AAGAAA
1 AAGAAA
44830214 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:44830222 original size:15 final size:15
Alignment explanation
Indices: 44830145--44830222 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
44830135 AGAAAACCGA
44830145 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
44830160 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
44830174 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
44830189 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44830205 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44830220 ATA
1 ATA
44830223 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44833287 original size:93 final size:93
Alignment explanation
Indices: 44833175--44833346 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44833165 GCCCATAAGT
* *
44833175 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44833240 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44833268 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44833333 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
44833347 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44833342 original size:46 final size:46
Alignment explanation
Indices: 44833167--44833342 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44833157 TGTAACCCGC
* * *
44833167 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
44833213 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
44833263 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
44833306 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44833343 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:44834995 original size:42 final size:41
Alignment explanation
Indices: 44834880--44835041 Score: 189
Period size: 42 Copynumber: 3.8 Consensus size: 41
44834870 TACCATAACA
* * *
44834880 ATGCCATATCCCAGATATGGTCTTACATGTAATCTTGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTTATATCG
* **
44834922 ATGCCAATAGCCCAGCGATGGTCTTACACGAAGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAA-TCTTATATCG
* * *
44834965 ATGCCATATCCCAGATATGGTCTTATACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTTATATCG
*
44835007 ATGCCATATCCCAGATATGGTCTGACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCT
44835042 CAGTAACCCT
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 67 0.66
43 35 0.34
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTTATATCG
Found at i:44843108 original size:15 final size:15
Alignment explanation
Indices: 44843088--44843117 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44843078 GGAACACATT
44843088 ATGGATCTTTTGCAA
1 ATGGATCTTTTGCAA
44843103 ATGGATCTTTTGCAA
1 ATGGATCTTTTGCAA
44843118 CTCTGATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
ATGGATCTTTTGCAA
Found at i:44848638 original size:39 final size:39
Alignment explanation
Indices: 44848595--44848746 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
44848585 GTGCGAATTG
44848595 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
44848634 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
** *
44848673 TGATATCCGGGCTAAGCCCGAAGGC-ATTCGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATT-GTGCGAGCTA
* *
44848712 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
44848747 GGTTACCATA
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
38 3 0.03
39 84 0.82
40 14 0.14
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:44848762 original size:40 final size:39
Alignment explanation
Indices: 44848595--44848782 Score: 223
Period size: 39 Copynumber: 4.8 Consensus size: 39
44848585 GTGCGAATTG
*
44848595 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGCTA
* *
44848634 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGCTA
* ** *
44848673 TGATATCCGGGCTAAGCCCGAAGGCATTCGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGCTA
* * *
44848712 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTA
** * * *
44848752 CCATAACCGGGCTATGTCCCGAAGGCGTTTG
1 TGATATCCGGGCTAAG-CCCGAAGGCATTTG
44848783 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 86 0.66
40 44 0.34
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGCTA
Found at i:44857725 original size:2 final size:2
Alignment explanation
Indices: 44857718--44857749 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
44857708 GCTTCGCCAC
*
44857718 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44857750 CTGTTCTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:44859414 original size:42 final size:41
Alignment explanation
Indices: 44859307--44859470 Score: 148
Period size: 42 Copynumber: 3.9 Consensus size: 41
44859297 TACCATAACA
* * * *
44859307 ATGCTATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATAG
* * * ** *
44859349 GTGCTAATAGCCCAGCGATGGTCTTACACGAAGTCTCATATTG
1 ATGC-CATATCCCAGATATGGTCTTACACGAA-TCTCATATAG
* * *
44859392 ATGGCATATCCCAGATTTGGTCTTATACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATAG
* *
44859434 ATGCCATATTCCAGATATGGTCTGACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCA
44859471 GTAACCCTAA
Statistics
Matches: 96, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATAG
Found at i:44860882 original size:6 final size:6
Alignment explanation
Indices: 44860844--44860974 Score: 72
Period size: 6 Copynumber: 21.3 Consensus size: 6
44860834 AAGAAACATT
* * * * *
44860844 ATCAGA A-CTAGA ATCAAA ATGAGA ATGAAA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
44860893 ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAAA ATCAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
44860942 ATCAGA ATCAGGTA A-CATA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
44860975 GTGAATACAA
Statistics
Matches: 97, Mismatches: 17, Indels: 22
0.71 0.12 0.16
Matches are distributed among these distances:
5 5 0.05
6 80 0.82
7 8 0.08
8 4 0.04
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:44860906 original size:37 final size:37
Alignment explanation
Indices: 44860853--44860952 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 37
44860843 TATCAGAACT
* * *
44860853 AGAATCAAAATGAGAATGAAAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
44860890 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*
44860927 AAAATCAAAATCAGAATCAGAATCAG
1 AGAATCAAAATCAGAATCAGAATCAG
44860953 GTAACATAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:44860908 original size:31 final size:31
Alignment explanation
Indices: 44860898--44860974 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
44860888 ACAGAATCAG
* * *
44860898 AATCAGAATCAGAATCAGAATTAGGTGACAA
1 AATCAAAATCAGAATCAGAATCAGGTAACAA
*
44860929 AATCAAAATCAGAATCAGAATCAGGTAACAT
1 AATCAAAATCAGAATCAGAATCAGGTAACAA
44860960 AATCAAAATCAGAAT
1 AATCAAAATCAGAAT
44860975 GTGAATACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (31 bp):
AATCAAAATCAGAATCAGAATCAGGTAACAA
Found at i:44860967 original size:37 final size:36
Alignment explanation
Indices: 44860855--44860974 Score: 115
Period size: 37 Copynumber: 3.4 Consensus size: 36
44860845 TCAGAACTAG
* * * *
44860855 AATCAAAATGAGAATGAAAATCAGAATCAGGTGACAG
1 AATCAAAATCAGAATCAGAATCAGAATCAGGT-ACAT
* *
44860892 AATCAGAATCAGAATCAGAATCAGAATTAGG----T
1 AATCAAAATCAGAATCAGAATCAGAATCAGGTACAT
* *
44860924 GA-CAAAATCAAAATCAGAATCAGAATCAGGTAACAT
1 AATCAAAATCAGAATCAGAATCAGAATCAGGT-ACAT
44860960 AATCAAAATCAGAAT
1 AATCAAAATCAGAAT
44860975 GTGAATACAA
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
31 25 0.38
32 1 0.02
36 2 0.03
37 37 0.57
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.18
Consensus pattern (36 bp):
AATCAAAATCAGAATCAGAATCAGAATCAGGTACAT
Found at i:44861141 original size:27 final size:26
Alignment explanation
Indices: 44861094--44861152 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
44861084 CGAGGCTGCT
* *
44861094 AGATATTGTGGCGAAGTCACCAGATAC
1 AGATATTGTGGCGAAGCCACCA-AAAC
* *
44861121 AGATATTGTGGCTAGGCCACCAAAAC
1 AGATATTGTGGCGAAGCCACCAAAAC
44861147 AGATAT
1 AGATAT
44861153 ATATATGTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (26 bp):
AGATATTGTGGCGAAGCCACCAAAAC
Found at i:44862529 original size:46 final size:46
Alignment explanation
Indices: 44862479--44862654 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44862469 TGGTTGAGCA
44862479 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44862525 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44862570 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44862618 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44862655 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44862635 original size:93 final size:93
Alignment explanation
Indices: 44862476--44862647 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44862466 GGATGGTTGA
* *
44862476 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44862541 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44862569 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44862634 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44862648 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44870107 original size:46 final size:46
Alignment explanation
Indices: 44870057--44870232 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44870047 TGGTTGAGCA
44870057 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44870103 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44870148 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44870196 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44870233 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44870213 original size:93 final size:93
Alignment explanation
Indices: 44870054--44870225 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44870044 GGATGGTTGA
* *
44870054 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44870119 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44870147 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44870212 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44870226 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44871573 original size:26 final size:27
Alignment explanation
Indices: 44871544--44871595 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
44871534 TACAGGCTAC
*
44871544 CAGATAT-TGTGACGAAGTCACCAGAA
1 CAGATATATGTGACGAAGCCACCAGAA
* *
44871570 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATATATGTGACGAAGCCACCAGA
44871596 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (27 bp):
CAGATATATGTGACGAAGCCACCAGAA
Found at i:44872115 original size:27 final size:27
Alignment explanation
Indices: 44871831--44872104 Score: 372
Period size: 27 Copynumber: 10.2 Consensus size: 27
44871821 AACACCCTAG
* *
44871831 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
44871858 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
44871885 GGGCAAAATAGTAATCCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
44871912 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
44871939 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
44871966 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
** *
44871993 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
** **
44872020 GGGTAAAACAGTAATTCTGTAAATTAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
**
44872047 GGGTAAAACAGTAATTCTGT-AATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
44872073 GGGTAAAACT-GTAATTCTATAAATCGA
1 GGGTAAAA-TGGTAATTCTGTAAATCGA
44872100 GGGTA
1 GGGTA
44872105 CTTTGGTAAT
Statistics
Matches: 225, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 21 0.09
27 204 0.91
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTGTAAATCGA
Found at i:44874507 original size:25 final size:25
Alignment explanation
Indices: 44874479--44874526 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44874469 TTATACCATG
* * *
44874479 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
44874504 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
44874527 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:44874595 original size:20 final size:20
Alignment explanation
Indices: 44874570--44874628 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
44874560 TAAATATGGT
44874570 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
44874590 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
44874610 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
44874629 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:44874610 original size:11 final size:11
Alignment explanation
Indices: 44874574--44874628 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
44874564 TATGGTATGT
44874574 ATGATATGCAC
1 ATGATATGCAC
* *
44874585 ATGAAATG--T
1 ATGATATGCAC
44874594 ATGATATGCAC
1 ATGATATGCAC
*
44874605 ATGATATG--T
1 ATGATATGCAC
44874614 ATGATATGCAC
1 ATGATATGCAC
44874625 ATGA
1 ATGA
44874629 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:44874706 original size:24 final size:24
Alignment explanation
Indices: 44874679--44874797 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
44874669 GAGGAAGTGA
*
44874679 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
44874703 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
44874726 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
44874750 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
44874774 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44874798 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:44874748 original size:47 final size:48
Alignment explanation
Indices: 44874679--44874797 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
44874669 GAGGAAGTGA
44874679 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
44874726 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
44874774 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44874798 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:44875024 original size:31 final size:31
Alignment explanation
Indices: 44874989--44875052 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
44874979 CGTTTACAGT
44874989 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
44875020 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
44875051 AA
1 AA
44875053 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:44878173 original size:43 final size:43
Alignment explanation
Indices: 44878125--44878241 Score: 207
Period size: 43 Copynumber: 2.7 Consensus size: 43
44878115 GTGTGAATTC
*
44878125 GTGTAAGACCATGTCTGGGACATTGGTATCGAAGTGATAAAAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGATAAAAT
*
44878168 GTGTAAGACCATGTCTGGGACATTGGCATTGAAGTGATAAAAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGATAAAAT
*
44878211 GTGTAAGACCATGTCTGGAACATTGGCATCG
1 GTGTAAGACCATGTCTGGGACATTGGCATCG
44878242 TATATGACTC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGATAAAAT
Found at i:44878279 original size:41 final size:42
Alignment explanation
Indices: 44878123--44878290 Score: 114
Period size: 43 Copynumber: 4.0 Consensus size: 42
44878113 ATGTGTGAAT
* * * * *
44878123 TCGTGTAAGACCATGTCTGGGACATTGGTATCGA-AGTGATAAAA
1 TCGTGTAAGACCATGTCTGGAACAGTGGCATCGATA-T-AT-GAC
* * * * *
44878167 T-GTGTAAGACCATGTCTGGGACATTGGCATTGA-AGTGATAAAA
1 TCGTGTAAGACCATGTCTGGAACAGTGGCATCGATA-T-AT-GAC
*
44878210 T-GTGTAAGACCATGTCTGGAACATTGGCATCG-TATATGAC
1 TCGTGTAAGACCATGTCTGGAACAGTGGCATCGATATATGAC
* *
44878250 TCGTGTAAGACCCTGTCTAGG-ATAGTGGCATCGATATATGA
1 TCGTGTAAGACCATGTCT-GGAACAGTGGCATCGATATATGA
44878291 TAACATATAA
Statistics
Matches: 111, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
40 2 0.02
41 27 0.24
42 10 0.09
43 71 0.64
44 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGAACAGTGGCATCGATATATGAC
Found at i:44878292 original size:86 final size:86
Alignment explanation
Indices: 44878125--44878293 Score: 191
Period size: 86 Copynumber: 2.0 Consensus size: 86
44878115 GTGTGAATTC
* * *
44878125 GTGTAAGACCATGTCTGGGACATTGGTATCGAAGTGATAAAATGTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCATGTCTGGAACATTGGCATCGAAGTGATAAAATGTGTAAGACCATGTCTAGGACA
* * *
44878190 TTGGCATTGAAGTGATAAAAT
66 GTGGCATCGAAATGATAAAAT
* * * * *
44878211 GTGTAAGACCATGTCTGGAACATTGGCATCGTA-T-AT-GACTCGTGTAAGACCCTGTCTAGGAT
1 GTGTAAGACCATGTCTGGAACATTGGCATCGAAGTGATAAAAT-GTGTAAGACCATGTCTAGGAC
44878273 AGTGGCATCGATATATGATAA
65 AGTGGCATCGA-A-ATGATAA
44878294 CATATAATAC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
83 2 0.03
84 29 0.42
85 2 0.03
86 36 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (86 bp):
GTGTAAGACCATGTCTGGAACATTGGCATCGAAGTGATAAAATGTGTAAGACCATGTCTAGGACA
GTGGCATCGAAATGATAAAAT
Found at i:44880238 original size:20 final size:20
Alignment explanation
Indices: 44880210--44880247 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44880200 AATTAATCTT
44880210 GTTTAATTA-ACTTAATTTAG
1 GTTTAATTATAC-TAATTTAG
*
44880230 GTTTTATTATACTAATTT
1 GTTTAATTATACTAATTT
44880248 TACTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (20 bp):
GTTTAATTATACTAATTTAG
Found at i:44883259 original size:27 final size:27
Alignment explanation
Indices: 44883240--44883651 Score: 484
Period size: 27 Copynumber: 15.2 Consensus size: 27
44883230 ATTACCAAAG
*
44883240 TACCCTCGATTTATAGAATTA-CAGTTT
1 TACCCTCGATTTACAGAATTACCA-TTT
* **
44883267 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
**
44883294 TACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
44883321 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
** *
44883348 TACCCTCGATTTATGGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
44883375 TACTCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
44883402 TACCCTCGATTTATAAAATTATACTGTTT
1 TACCCTCGATTTACAGAA-T-TACCATTT
* *
44883431 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
44883458 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
44883485 CACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
44883512 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
44883539 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
44883566 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
44883593 TACCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
44883620 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
44883647 TACCC
1 TACCC
44883652 CTAGGGTGTT
Statistics
Matches: 331, Mismatches: 51, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
27 306 0.92
28 2 0.01
29 23 0.07
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:44884006 original size:26 final size:27
Alignment explanation
Indices: 44883977--44884036 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
44883967 CCACATATAT
*
44883977 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
44884003 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
44884030 ATATCTG
1 ATATCTG
44884037 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:44884190 original size:31 final size:31
Alignment explanation
Indices: 44884155--44884258 Score: 154
Period size: 31 Copynumber: 3.4 Consensus size: 31
44884145 TTGCATTCAC
* * *
44884155 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
*
44884186 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
* *
44884217 ATTTTGATTCTGATTCTGTCATCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
44884248 ATTCTGATTCT
1 ATTCTGATTCT
44884259 CATTTTGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTCTG
Found at i:44884194 original size:6 final size:6
Alignment explanation
Indices: 44884155--44884270 Score: 94
Period size: 6 Copynumber: 18.8 Consensus size: 6
44884145 TTGCATTCAC
* * *
44884155 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
44884204 -TCACCTG ATTCTG ATTTTG ATTCTG ATTCTG -TCATCTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
44884254 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
44884271 AGTTCTAATA
Statistics
Matches: 87, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
5 4 0.05
6 70 0.80
7 10 0.11
8 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:44895603 original size:21 final size:21
Alignment explanation
Indices: 44895579--44895618 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44895569 TTTAATCTGC
44895579 CTTTTATTATC-TTTACCATAT
1 CTTTTATT-TCTTTTACCATAT
*
44895600 CTTTTGTTTCTTTTACCAT
1 CTTTTATTTCTTTTACCAT
44895619 TTTTGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.17, C:0.20, G:0.03, T:0.60
Consensus pattern (21 bp):
CTTTTATTTCTTTTACCATAT
Found at i:44898818 original size:32 final size:33
Alignment explanation
Indices: 44898758--44898821 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
44898748 CTACGGGCCA
44898758 TACTGTATTCTGAAAAGGGGCTATGGCCCAGTT
1 TACTGTATTCTGAAAAGGGGCTATGGCCCAGTT
44898791 TACTGTATTCTGAAAA-GGGCT-TCGGCCCAGT
1 TACTGTATTCTGAAAAGGGGCTAT-GGCCCAGT
44898822 ACCCACTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 1 0.03
32 13 0.43
33 16 0.53
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (33 bp):
TACTGTATTCTGAAAAGGGGCTATGGCCCAGTT
Found at i:44905506 original size:28 final size:28
Alignment explanation
Indices: 44905426--44905511 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
44905416 GTGAGCATGA
* * *
44905426 ATATGAATGTGACTGGGCCTAACGGTCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
44905454 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
44905483 ATATGAATCTGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
44905511 A
1 A
44905512 GATACAGGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 27 0.54
29 23 0.46
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:44917642 original size:50 final size:50
Alignment explanation
Indices: 44917525--44917770 Score: 273
Period size: 49 Copynumber: 4.9 Consensus size: 50
44917515 TAGCCAAAGC
* * * * * * *
44917525 TATCTGGTACGCATAGTAGCATGCACTTAGTACTACAGATGCGACC-ACT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * *
44917574 TATCTGGTACACGTAGTAGCTTGGACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * * *
44917624 CATCTGATACACGTAGTAGCTTGCACTAAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* * *
44917675 TAT-TGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
*
44917724 TATCTGGTACACGTAGTAGCCCGCACTTAGTACTACACACGTGACCT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
44917771 CACAATAGAT
Statistics
Matches: 164, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
49 80 0.49
50 48 0.29
51 36 0.22
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:44917757 original size:100 final size:101
Alignment explanation
Indices: 44917579--44917767 Score: 272
Period size: 100 Copynumber: 1.9 Consensus size: 101
44917569 CCACTTATCT
* * * *
44917579 GGTACACGTAGTAGCTTGGACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGC
**
44917644 TTGCACTAAGTACTACACACGTGATCGAAGTTATTG
66 CCGCACTAAGTACTACACACGTGATCGAAGTTATTG
* ** *
44917680 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGC
*
44917744 CCGCACTTAGTACTACACACGTGA
66 CCGCACTAAGTACTACACACGTGA
44917768 CCTCACAATA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 41 0.53
101 36 0.47
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGC
CCGCACTAAGTACTACACACGTGATCGAAGTTATTG
Found at i:44922223 original size:5 final size:5
Alignment explanation
Indices: 44922213--44922265 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
44922203 ATCCTAAAAT
*
44922213 AATAA AATAA AATAA AAT-A AAT-A AATAA TAATAAA AACAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA -AAT-AA AATAA AATAA AATAA
44922263 AAT
1 AAT
44922266 CTTTTATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 8 0.19
5 28 0.65
6 5 0.12
7 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:44924900 original size:7 final size:7
Alignment explanation
Indices: 44924876--44924917 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
44924866 CTTAATCCTA
44924876 AAATAAT
1 AAATAAT
44924883 -AA-AAT
1 AAATAAT
44924888 -AATAAT
1 AAATAAT
44924894 AAATAAT
1 AAATAAT
44924901 AAATAAT
1 AAATAAT
44924908 AAATAAT
1 AAATAAT
44924915 AAA
1 AAA
44924918 AACAAAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.15
6 5 0.15
7 23 0.70
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATAAT
Found at i:44935291 original size:40 final size:40
Alignment explanation
Indices: 44935218--44935424 Score: 168
Period size: 40 Copynumber: 5.2 Consensus size: 40
44935208 CAATTGAATG
* ** * * *
44935218 ATATCCGGGCTAAGTCCCGAAGATATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* * ** *
44935258 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* **
44935298 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
* * * **
44935338 AAATCCGGGCTAATACCCGAAGGCATTTGT-CAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* * **
44935377 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
44935417 ATATCCGG
1 ATATCCGG
44935425 TTGTATTCCG
Statistics
Matches: 136, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
38 2 0.01
39 34 0.25
40 98 0.72
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
Found at i:44935383 original size:39 final size:40
Alignment explanation
Indices: 44935260--44935424 Score: 183
Period size: 40 Copynumber: 4.2 Consensus size: 40
44935250 TAGTAATTAT
* * * *
44935260 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TTAA
*
44935300 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * **
44935340 ATCCGGGCTAATACCCGAAGGCATTTGT-CAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * *
44935379 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
44935419 ATCCGG
1 ATCCGG
44935425 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
39 37 0.35
40 69 0.64
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
Found at i:44949016 original size:17 final size:18
Alignment explanation
Indices: 44948974--44949022 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
44948964 AGTTGAAAAG
44948974 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
44948993 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
44949010 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
44949023 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:44949911 original size:40 final size:40
Alignment explanation
Indices: 44949845--44950011 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
44949835 AAATTGAATG
* * *
44949845 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
44949884 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44949924 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
44949964 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
44950004 ATATCCGG
1 ATATCCGG
44950012 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Done.