Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 33 of 135
Found at i:8591832 original size:200 final size:199
Alignment explanation
Indices: 8591473--8592073 Score: 936
Period size: 200 Copynumber: 3.0 Consensus size: 199
8591463 GGAGTAGTTC
*
8591473 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATACG
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAGA-G
*
8591538 AGCAAATCTTCGAACCCAGCTTTCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTT
65 AGCAAATCTTCGAACCCAGCTTTCTGATGAAACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTT
* * ** *
8591603 AGCTTCTTGATGAGATACAGAGAAGTGGACCAGATCCGTCTTCCTGAAAAGATCCGGAGAAGCGA
130 AGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
8591668 ATCTA
195 ATCTA
* * *
8591673 AACAA-CAGATGCGGTTATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAACGCTCAACGA
1 AACAAGC-GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA-GA
*
8591737 GAGCAAATCTTCGAACCCAGCTTTCTGATGAAACACTGTGAAGCAGGTCGAAGCAATAAAAAGGT
64 GAGCAAATCTTCGAACCCAGCTTTCTGATGAAACACTGAGAAGCAGGTCGAAGCAATAAAAAGGT
8591802 TAGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
129 TAGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
*
8591867 AATCAA
194 AATCTA
* *
8591873 AACAAGCGAGGCGATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAATGCG
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA-GAG
* * * * * *
8591938 AGCAAATCTTCGAACCCGGCTTCCTGATGAAATACTGAGAAGCAAGACAAAGCAATAAAAAGGTT
65 AGCAAATCTTCGAACCCAGCTTTCTGATGAAACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTT
* * * *
8592003 AGCTTCCTGATGAGACATAGAAAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAACGA
130 AGCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
8592068 AT-TA
195 ATCTA
8592072 AA
1 AA
8592074 ACAGATAATT
Statistics
Matches: 368, Mismatches: 30, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
199 4 0.01
200 362 0.98
201 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (199 bp):
AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAGAGA
GCAAATCTTCGAACCCAGCTTTCTGATGAAACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTA
GCTTCCTGATGAGATACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAA
TCTA
Found at i:8593262 original size:15 final size:16
Alignment explanation
Indices: 8593233--8593269 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
8593223 AACTTTGTTC
8593233 ATAATATTAATAATAA
1 ATAATATTAATAATAA
*
8593249 TTAATATT-ATAATAA
1 ATAATATTAATAATAA
8593264 ATAATA
1 ATAATA
8593270 AAAAATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATATTAATAATAA
Found at i:8594376 original size:58 final size:59
Alignment explanation
Indices: 8594311--8594563 Score: 279
Period size: 58 Copynumber: 4.3 Consensus size: 59
8594301 CTAAACTATT
*
8594311 CAAAAATTACCATTTTACGCCT-AAACTTTCCAAAATTCCA-TTTTAACCCCAATTTTAC
1 CAAAAATTACCATTTTAC-CCTCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTTAC
* ** *
8594369 CAAAAATTACCATTTTACCC-CTAAATTTTCCAAAATCCCATTTTTAACCCTGATTTCAC
1 CAAAAATTACCATTTTACCCTC-AAACTTTCCAAAATCCCATTTTTAACCCCAATTTTAC
* * * *
8594428 C-AAAATTACCGTTTTACCCTCAAACTTTCCAACA-CCTC-GTTTTAACCTCAATTTTAC
1 CAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCC-CATTTTTAACCCCAATTTTAC
* * * *
8594485 TAAAAACTACCATTTTACCCTCAAACCTTCTAAAATCCCATTTTTAACCCCAAATTTT-C
1 CAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCC-AATTTTAC
*
8594544 CTAAAATTA-CATTTTTACCC
1 CAAAAATTACCA-TTTTACCC
8594564 CTTGAGAGTC
Statistics
Matches: 161, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
57 18 0.11
58 94 0.58
59 43 0.27
60 6 0.04
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTTAC
Found at i:8594459 original size:29 final size:28
Alignment explanation
Indices: 8594299--8594459 Score: 125
Period size: 29 Copynumber: 5.5 Consensus size: 28
8594289 GCTTATAGGT
*
8594299 CCCTAAACTATTCAAAAATTACCATTTTA
1 CCCTAAACT-TTCCAAAATTACCATTTTA
8594328 CGCCTAAACTTTCCAAAATT-CCATTTTAA
1 C-CCTAAACTTTCCAAAATTACCATTTT-A
* *
8594357 CCC-CAATTTTACCAAAAATTACCATTTTA
1 CCCTAAACTTT-CC-AAAATTACCATTTTA
* *
8594386 CCCCTAAATTTTCCAAAA-TCCCATTTTTAA
1 -CCCTAAACTTTCCAAAATTACCA-TTTT-A
* *
8594416 CCCT-GA-TTTCACCAAAATTACCGTTTTA
1 CCCTAAACTTT--CCAAAATTACCATTTTA
8594444 CCCTCAAACTTTCCAA
1 CCCT-AAACTTTCCAA
8594460 CACCTCGTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 30
0.73 0.06 0.20
Matches are distributed among these distances:
27 8 0.07
28 21 0.19
29 45 0.42
30 25 0.23
31 9 0.08
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (28 bp):
CCCTAAACTTTCCAAAATTACCATTTTA
Found at i:8594530 original size:29 final size:29
Alignment explanation
Indices: 8594497--8594564 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
8594487 AAAACTACCA
*
8594497 TTTTACCCTCAAACCTT-CTAAAATCCCAT
1 TTTTACCC-CAAACCTTCCTAAAATCACAT
** *
8594526 TTTTAACCCCAAATTTTCCTAAAATTACAT
1 TTTT-ACCCCAAACCTTCCTAAAATCACAT
8594556 TTTTACCCC
1 TTTTACCCC
8594565 TTGAGAGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTTACCCCAAACCTTCCTAAAATCACAT
Found at i:8596889 original size:2 final size:2
Alignment explanation
Indices: 8596882--8596909 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8596872 GCCACTAATT
8596882 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
8596910 AAGAAAGCTT
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:8599437 original size:21 final size:21
Alignment explanation
Indices: 8599374--8599437 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
8599364 TTTAAAAAAC
* *
8599374 TAAATAGAAAATAACTTAATT
1 TAAATATAAAATAACTAAATT
* * * *
8599395 GAATTAATAAACTAATTAAATT
1 TAAAT-ATAAAATAACTAAATT
*
8599417 TAAATATAAAATAACTCAATT
1 TAAATATAAAATAACTAAATT
8599438 ACTTAATTTT
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (21 bp):
TAAATATAAAATAACTAAATT
Found at i:8600269 original size:82 final size:83
Alignment explanation
Indices: 8600132--8600298 Score: 318
Period size: 82 Copynumber: 2.0 Consensus size: 83
8600122 AAGCGACATT
8600132 AGTAAAATACATGGCAATAGTATTTACTTTAGTAGCATCATGCAAGATGCCTTTGGCACGTAAGT
1 AGTAAAATACATGGCAATAGTATTTACTTTAGTAGCATCATGCAAGATGCCTTTGGCACGTAAGT
8600197 ATTGCTCCATT-CCCAGA
66 ATTGCTCCATTCCCCAGA
*
8600214 AGTAAAATACATGGCAATAGTATTTACTTTAGTAGCATCATGCATGATGCCTTTGGCACGTAAGT
1 AGTAAAATACATGGCAATAGTATTTACTTTAGTAGCATCATGCAAGATGCCTTTGGCACGTAAGT
8600279 ATTGCTCCATTCCCCAGA
66 ATTGCTCCATTCCCCAGA
8600297 AG
1 AG
8600299 AAATTGTCCA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 75 0.90
83 8 0.10
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (83 bp):
AGTAAAATACATGGCAATAGTATTTACTTTAGTAGCATCATGCAAGATGCCTTTGGCACGTAAGT
ATTGCTCCATTCCCCAGA
Found at i:8602929 original size:34 final size:34
Alignment explanation
Indices: 8602881--8602959 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
8602871 TGGCAAAATG
8602881 AAGCCGAGCCTGAGCTTGAAAGTTCGATCTGAAA
1 AAGCCGAGCCTGAGCTTGAAAGTTCGATCTGAAA
** *
8602915 AAGCCGAGTTTGAGCTTGAAAGTTCGATTTGAAA
1 AAGCCGAGCCTGAGCTTGAAAGTTCGATCTGAAA
*
8602949 AAACCGAGCCT
1 AAGCCGAGCCT
8602960 AAACTTGTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (34 bp):
AAGCCGAGCCTGAGCTTGAAAGTTCGATCTGAAA
Found at i:8615328 original size:6 final size:6
Alignment explanation
Indices: 8615317--8615346 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8615307 AACTGTTGGG
8615317 ATAGCA ATAGCA ATAGCA ATAGCA ATAGCA
1 ATAGCA ATAGCA ATAGCA ATAGCA ATAGCA
8615347 TTCTCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ATAGCA
Found at i:8622691 original size:17 final size:17
Alignment explanation
Indices: 8622669--8622750 Score: 94
Period size: 17 Copynumber: 4.8 Consensus size: 17
8622659 AACTTTTAAT
8622669 TTTTAAATCTT-AATTTA
1 TTTTAAAT-TTAAATTTA
* *
8622686 TTTTAAATTTAAGTTCA
1 TTTTAAATTTAAATTTA
*
8622703 TTTTGAATTTAAATTTA
1 TTTTAAATTTAAATTTA
*
8622720 TGTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
* *
8622737 TTTTGAATTAAAAT
1 TTTTAAATTTAAAT
8622751 GATTTAAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
16 2 0.04
17 52 0.96
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:8622718 original size:34 final size:34
Alignment explanation
Indices: 8622680--8622750 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
8622670 TTTAAATCTT
* * *
8622680 AATTTATTTTAAATTTAAGTTCATTTTGAATTTA
1 AATTTATGTTAAATTTAAATTCATTTTGAATTAA
*
8622714 AATTTATGTTAAATTTAAATTTATTTTGAATTAA
1 AATTTATGTTAAATTTAAATTCATTTTGAATTAA
8622748 AAT
1 AAT
8622751 GATTTAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (34 bp):
AATTTATGTTAAATTTAAATTCATTTTGAATTAA
Found at i:8622734 original size:23 final size:23
Alignment explanation
Indices: 8622687--8622736 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
8622677 CTTAATTTAT
* * *
8622687 TTTAAATTTAAGTTCATTTTGAA
1 TTTAAATTTAAGTTAAATTTAAA
*
8622710 TTTAAATTTATGTTAAATTTAAA
1 TTTAAATTTAAGTTAAATTTAAA
8622733 TTTA
1 TTTA
8622737 TTTTGAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (23 bp):
TTTAAATTTAAGTTAAATTTAAA
Found at i:8622835 original size:23 final size:23
Alignment explanation
Indices: 8622793--8622836 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8622783 TACAAAATTA
* *
8622793 AAGTCCATTTACATGTCCAAAAG
1 AAGTCCATTTACAAGCCCAAAAG
8622816 AAGTCCATTTACAAGCCCAAA
1 AAGTCCATTTACAAGCCCAAA
8622837 TTGGGGCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (23 bp):
AAGTCCATTTACAAGCCCAAAAG
Found at i:8631099 original size:49 final size:47
Alignment explanation
Indices: 8631015--8631259 Score: 170
Period size: 50 Copynumber: 5.0 Consensus size: 47
8631005 CAGGTTTGAC
* * *
8631015 AAGGAAAGATCTAAGACCGTAATGG-TAGATCCAGTACCACGAAGATAA
1 AAGGAAAGATTTAAG-CCGTAACGGCGA-ATCCAGTACCACGAAGATAA
* * *
8631063 GAAGAGAAAGATTTAAGCCGTAACGGCGAATTCAGTATCATGAAGACATAA
1 -AAG-GAAAGATTTAAGCCGTAACGGCGAATCCAGTACCACGAAG--ATAA
* * * *
8631114 AAGGAAAGACTTAAGACCGCAACGGCGGATCCAGTACCACAAAGATGCAA
1 AAGGAAAGATTTAAG-CCGTAACGGCGAATCCAGTACCACGAAGAT--AA
* * * * *
8631164 AAGGGAAAGGTTTAAGTCGTAACGGCGAA-CCGTGTACCTCAGAAGACAGGA
1 AA-GGAAAGATTTAAGCCGTAACGGCGAATCC-AGTACCAC-GAAGATA--A
* * * * *
8631215 AAGGAAAGATTTGAGCCGCAATGGCGAATCCAATATCACGAAGAT
1 AAGGAAAGATTTAAGCCGTAACGGCGAATCCAGTACCACGAAGAT
8631260 TTGAAAGGGA
Statistics
Matches: 151, Mismatches: 32, Indels: 26
0.72 0.15 0.12
Matches are distributed among these distances:
48 2 0.01
49 43 0.28
50 82 0.54
51 24 0.16
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (47 bp):
AAGGAAAGATTTAAGCCGTAACGGCGAATCCAGTACCACGAAGATAA
Found at i:8631234 original size:100 final size:99
Alignment explanation
Indices: 8631015--8631307 Score: 272
Period size: 100 Copynumber: 2.9 Consensus size: 99
8631005 CAGGTTTGAC
* * ** * *
8631015 AAGGAAAGA-TCTAAGACCGTAATGGTAGATCCAGTACCACGAAGATAAGAAGAGAAAGATTTAA
1 AAGGAAAGACT-TAAGACCGCAACGGCGGATCCAGTACCACGAAGATAA-AAGGGAAAGGTTTAA
* ** * *
8631079 GCCGTAACGGCGAATTCAGTA--TCATGAAGACATAA
64 GTCGTAACGGCGAACCCGGTACCTCA-GAAGACAGAA
*
8631114 AAGGAAAGACTTAAGACCGCAACGGCGGATCCAGTACCACAAAGATGCAAAAGGGAAAGGTTTAA
1 AAGGAAAGACTTAAGACCGCAACGGCGGATCCAGTACCACGAAGAT--AAAAGGGAAAGGTTTAA
*
8631179 GTCGTAACGGCGAA-CCGTGTACCTCAGAAGACAGGA
64 GTCGTAACGGCGAACCCG-GTACCTCAGAAGACAGAA
* * * * * * *
8631215 AAGGAAAGATTTGAG-CCGCAATGGCGAATCCAATATCACGAAGATTTGAAAGGGAAAGGTTTAA
1 AAGGAAAGACTTAAGACCGCAACGGCGGATCCAGTACCACGAAGA--TAAAAGGGAAAGGTTTAA
* * *
8631279 GTCGTGATGGCGAACCCGGTACCTTAGAA
64 GTCGTAACGGCGAACCCGGTACCTCAGAA
8631308 ACATGATGAG
Statistics
Matches: 162, Mismatches: 23, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
99 40 0.25
100 92 0.57
101 26 0.16
102 4 0.02
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (99 bp):
AAGGAAAGACTTAAGACCGCAACGGCGGATCCAGTACCACGAAGATAAAAGGGAAAGGTTTAAGT
CGTAACGGCGAACCCGGTACCTCAGAAGACAGAA
Found at i:8631578 original size:78 final size:78
Alignment explanation
Indices: 8631449--8631592 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
8631439 AGTGAAGTTA
* * * *
8631449 CATCATCAACCAATCTCCTACCCCGAATCTGGGGCAAATTAGAGCCATTTGAT-CTTTCACCCCA
1 CATCATCAACCAATCTCCTACCCCGAACCTGAGGCAAATCACAGCCATTTGATCCTTT-ACCCCA
8631513 AGCTTGGGGTAGAT
65 AGCTTGGGGTAGAT
* * * **
8631527 CATCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATCACAGTTATTTGATCCTTTACCCCAA
1 CATCATCAACCAATCTCCTACCCCGAACCTGAGGCAAATCACAGCCATTTGATCCTTTACCCCAA
8631592 G
66 G
8631593 TTTAGAGGAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 52 0.93
79 4 0.07
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (78 bp):
CATCATCAACCAATCTCCTACCCCGAACCTGAGGCAAATCACAGCCATTTGATCCTTTACCCCAA
GCTTGGGGTAGAT
Found at i:8631605 original size:78 final size:78
Alignment explanation
Indices: 8631449--8631613 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 78
8631439 AGTGAAGTTA
* * * *
8631449 CATCATCAACCAATCTCCTACCCCGAATCTGGGGCAAATTAGAGCCATTTGATCTTTCACCCCAA
1 CATCATCAACCAATCTCCTACCCCGAACCTGAGGCAAATCACAGCCATTTGATCTTTCACCCCAA
*
8631514 GCTTGGGGTAGAT
66 GCTTGAGGTAGAT
* * * **
8631527 CATCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATCACAGTTATTTGATCCTTT-ACCCCA
1 CATCATCAACCAATCTCCTACCCCGAACCTGAGGCAAATCACAGCCATTTGAT-CTTTCACCCCA
*
8631591 AGTTTAGAGG-AGAT
65 AGCTT-GAGGTAGAT
*
8631605 CACCATCAA
1 CATCATCAA
8631614 TCAACCTTAC
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
78 66 0.90
79 7 0.10
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (78 bp):
CATCATCAACCAATCTCCTACCCCGAACCTGAGGCAAATCACAGCCATTTGATCTTTCACCCCAA
GCTTGAGGTAGAT
Found at i:8632087 original size:200 final size:200
Alignment explanation
Indices: 8631655--8632311 Score: 915
Period size: 202 Copynumber: 3.3 Consensus size: 200
8631645 GATTACACAC
* * * * *
8631655 AAAACAAGTGAGGCGGTCATCTTTCTGATGAGATACAGAGCAGTATGCCAACTCAACGCTCAATG
1 AAAACAAGTGAGGCGGTCATCTTCCTGATGAGACACAGAGAAGAATGCCAACTCAACGCTCAATA
* * * *
8631720 TGAGCAAAACTTCGAACCCAGCTTCCTGATGAGACACTGAAAAGCAGGTCGAAGCAAT-AAACGG
66 CGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
* * *
8631784 TTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTTCTGAGGAGATCTAGAGAAGC
131 TTAGTTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
8631849 GAATT
196 GAATT
* * *
8631854 AAAACAAGCGAGGCGGTTATCTTTCTGATGAGACACAGAGAAGAATGCCAACTCAACGCTCAATA
1 AAAACAAGTGAGGCGGTCATCTTCCTGATGAGACACAGAGAAGAATGCCAACTCAACGCTCAATA
* * *
8631919 CGAGCAAATCTTCGAACCCAGCTTCCTGATAAGATACTGAGAAGTAGGTCGAAGCAATAAAATGG
66 CGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
8631984 TTAGTTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
131 TTAGTTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
8632049 GAATT
196 GAATT
* * *
8632054 AAAACAAGTGAGG-GGATTATCTTCCTAATGAGACACAGAGAAGAATACCAACTCAACGCTCAAA
1 AAAACAAGTGAGGCGG-TCATCTTCCTGATGAGACACAGAGAAGAATGCCAACTCAACGCTC-AA
* * * *
8632118 TACGAGCAAATCTTCGAACCTCGGCTTTCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAGAA
64 TACGAGCAAATCTTCGAACC-CAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* * * *
8632183 TAGTTA-TCTTCCTGATGAGACACAAAAAAGTGGATCAAATTCGTCTTCCTGAGGAGATCCAGAG
128 TGGTTAGT-TTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAG
*
8632247 AAACGAATT
192 AAGCGAATT
* * * * * * * *
8632256 CAAATAAGTAATGTGGTCATCTTCCTGATGAGACACGGAGAAGAAGGCCAAGTCAA
1 AAAACAAGTGAGGCGGTCATCTTCCTGATGAGACACAGAGAAGAATGCCAACTCAA
8632312 TAAAACCAAA
Statistics
Matches: 410, Mismatches: 42, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
199 113 0.28
200 126 0.31
201 23 0.06
202 146 0.36
203 2 0.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (200 bp):
AAAACAAGTGAGGCGGTCATCTTCCTGATGAGACACAGAGAAGAATGCCAACTCAACGCTCAATA
CGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
TTAGTTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
GAATT
Found at i:8632658 original size:17 final size:17
Alignment explanation
Indices: 8632636--8632717 Score: 85
Period size: 17 Copynumber: 4.8 Consensus size: 17
8632626 AACTTTTAAT
8632636 TTTTAAATCTT-AATTTA
1 TTTTAAAT-TTAAATTTA
* *
8632653 TTTTAAATTTAAGTTCA
1 TTTTAAATTTAAATTTA
*
8632670 TTTTGAATTTAAATTTA
1 TTTTAAATTTAAATTTA
* *
8632687 TGTTAAATTTGAATTTA
1 TTTTAAATTTAAATTTA
* *
8632704 TTTTGAATTAAAAT
1 TTTTAAATTTAAAT
8632718 GATTTAAATA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
16 2 0.04
17 50 0.96
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:8632680 original size:23 final size:23
Alignment explanation
Indices: 8632654--8632703 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
8632644 CTTAATTTAT
* *
8632654 TTTAAATTTAAGTTCATTTTGAA
1 TTTAAATTTAAGTTAAATTTGAA
*
8632677 TTTAAATTTATGTTAAATTTGAA
1 TTTAAATTTAAGTTAAATTTGAA
8632700 TTTA
1 TTTA
8632704 TTTTGAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (23 bp):
TTTAAATTTAAGTTAAATTTGAA
Found at i:8632685 original size:34 final size:34
Alignment explanation
Indices: 8632647--8632717 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
8632637 TTTAAATCTT
* *
8632647 AATTTATTTTAAATTT-AAGTTCATTTTGAATTTA
1 AATTTATGTTAAATTTGAA-TTCATTTTGAATTAA
*
8632681 AATTTATGTTAAATTTGAATTTATTTTGAATTAA
1 AATTTATGTTAAATTTGAATTCATTTTGAATTAA
8632715 AAT
1 AAT
8632718 GATTTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 31 0.94
35 2 0.06
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (34 bp):
AATTTATGTTAAATTTGAATTCATTTTGAATTAA
Found at i:8641108 original size:52 final size:52
Alignment explanation
Indices: 8641029--8641368 Score: 425
Period size: 52 Copynumber: 6.5 Consensus size: 52
8641019 ACGGAAAAGA
*
8641029 TCCGATGACTATGTTTCATCGTGAGTATATGAATCCTTTACAGATTATGAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGG
*
8641081 TCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTACAGATTATGAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGG
* * * *
8641133 TCCGAAGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATGAGA
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGG
* * * * * * *
8641185 TCCGATGATTATGTGTCATCATGAATATATGAATCTTTTACGGATTCTAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGG
** * *
8641237 TATGATGA-TAATGTGTCATCGTAAGTATATGAATCCTTTAC-GAATTATGAGT
1 TCCGATGACT-ATGTGTCATCGTGAGTATATGAATCCTTTACAG-ATTATGAGG
* * * * *
8641289 TCTGATGACTATGTGTCATCGTGAGCATATGGATCCTTTTTCAGATT-TAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCC-TTTACAGATTATGAGG
*
8641341 TCCGATGACTTTGTGTCATCGTGAGTAT
1 TCCGATGACTATGTGTCATCGTGAGTAT
8641369 TAACAGTTCA
Statistics
Matches: 248, Mismatches: 35, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
51 2 0.01
52 237 0.96
53 8 0.03
54 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (52 bp):
TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGAGG
Found at i:8654462 original size:34 final size:34
Alignment explanation
Indices: 8654419--8654502 Score: 150
Period size: 34 Copynumber: 2.4 Consensus size: 34
8654409 CATAAACTAA
*
8654419 ACCCAAATATTTTTAATTTTTTACCTTTTATCTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
8654453 ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
8654487 ACCCAAATATTGTTTA
1 ACCCAAATATT-TTTA
8654503 CTTGGACTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 44 0.92
35 4 0.08
ACGTcount: A:0.29, C:0.19, G:0.01, T:0.51
Consensus pattern (34 bp):
ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
Found at i:8656707 original size:34 final size:32
Alignment explanation
Indices: 8656633--8656708 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 32
8656623 CTAAAATATG
*
8656633 TCTTTTTTTTTTACAAATTTAAAATTTAAAAT
1 TCTTTTTTTTTTAAAAATTTAAAATTTAAAAT
* *
8656665 T-TAATTTTTATTTTAAAAATTTAATATTATTAAAT
1 TCT--TTTTT-TTTTAAAAATTTAAAATT-TAAAAT
8656700 TCTTTTTTT
1 TCTTTTTTT
8656709 AAATTTATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
31 1 0.03
32 1 0.03
33 6 0.17
34 21 0.58
35 6 0.17
36 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (32 bp):
TCTTTTTTTTTTAAAAATTTAAAATTTAAAAT
Found at i:8660123 original size:22 final size:22
Alignment explanation
Indices: 8660098--8660148 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
8660088 ATAAAATTTT
*
8660098 TGTTATACTATAACTAATTCCA
1 TGTTATACGATAACTAATTCCA
* *
8660120 TGTTATAGGATAATTAATTCCA
1 TGTTATACGATAACTAATTCCA
*
8660142 TATTATA
1 TGTTATA
8660149 GCACATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (22 bp):
TGTTATACGATAACTAATTCCA
Found at i:8660149 original size:22 final size:22
Alignment explanation
Indices: 8660107--8660149 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8660097 TTGTTATACT
*
8660107 ATAACTAATTCCATGTTATAGG
1 ATAACTAATTCCATATTATAGG
*
8660129 ATAATTAATTCCATATTATAG
1 ATAACTAATTCCATATTATAG
8660150 CACATAAATT
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:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (22 bp):
ATAACTAATTCCATATTATAGG
Found at i:8672931 original size:20 final size:22
Alignment explanation
Indices: 8672895--8672936 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
8672885 TCAACAAATG
8672895 ATTTTAAAATTATTAAAATTAT
1 ATTTTAAAATTATTAAAATTAT
8672917 ATTTTAAAA-TA-TAAAATTAT
1 ATTTTAAAATTATTAAAATTAT
8672937 TAAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTAAAATTATTAAAATTAT
Found at i:8674913 original size:13 final size:13
Alignment explanation
Indices: 8674895--8674946 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
8674885 AGTTTAGCAT
8674895 TATTTTTAAAAAA
1 TATTTTTAAAAAA
8674908 TATTTTT-AAAAA
1 TATTTTTAAAAAA
* ** **
8674920 TGTAATGGAAAAA
1 TATTTTTAAAAAA
8674933 TATTTTTAAAAAA
1 TATTTTTAAAAAA
8674946 T
1 T
8674947 TTAGTTTAAG
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (13 bp):
TATTTTTAAAAAA
Found at i:8675219 original size:20 final size:19
Alignment explanation
Indices: 8675165--8675227 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
8675155 TTTTTAAGCA
*
8675165 ATAAATATTAATT-ATATAT
1 ATAAAT-TTAATTAAAATAT
8675184 A-AAATTTAATTAAAATAT
1 ATAAATTTAATTAAAATAT
* *
8675202 ATAAATTATATTTTAAATAT
1 ATAAATT-TAATTAAAATAT
*
8675222 TTAAAT
1 ATAAAT
8675228 ATAACCATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.16
18 10 0.27
19 6 0.16
20 15 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAAATTTAATTAAAATAT
Found at i:8677016 original size:27 final size:27
Alignment explanation
Indices: 8676986--8677064 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 27
8676976 ATATTAGAGC
* *
8676986 TTTAAAAAATTCAAAAATGGAGGAAGT
1 TTTAAAAAATACAAAAATGGAGAAAGT
8677013 TTTAAAGAAA-ACAAAAAAATGGAGAAAGT
1 TTTAAA-AAATAC--AAAAATGGAGAAAGT
* *
8677042 TTTAAGAAATCCAAAAATGGAGA
1 TTTAAAAAATACAAAAATGGAGA
8677065 TGAATTAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 18 0.41
28 6 0.14
29 20 0.45
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.22
Consensus pattern (27 bp):
TTTAAAAAATACAAAAATGGAGAAAGT
Found at i:8677048 original size:28 final size:28
Alignment explanation
Indices: 8676998--8677064 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 28
8676988 TAAAAAATTC
*
8676998 AAAAATGGAGGAAGTTTTAAAGAAAACAA
1 AAAAATGGAGAAAGTTTTAAAGAAAAC-A
* *
8677027 AAAAATGGAGAAAGTTTT-AAGAAATCC
1 AAAAATGGAGAAAGTTTTAAAGAAAACA
8677054 AAAAATGGAGA
1 AAAAATGGAGA
8677065 TGAATTAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 11 0.31
28 7 0.20
29 17 0.49
ACGTcount: A:0.57, C:0.04, G:0.21, T:0.18
Consensus pattern (28 bp):
AAAAATGGAGAAAGTTTTAAAGAAAACA
Found at i:8677675 original size:25 final size:25
Alignment explanation
Indices: 8677647--8677699 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
8677637 TTTATTTATT
8677647 TTAATCAAACTCTAATTAGTTTAAA
1 TTAATCAAACTCTAATTAGTTTAAA
8677672 TTAATCAAACTCTAATTAGTTTAAA
1 TTAATCAAACTCTAATTAGTTTAAA
8677697 TTA
1 TTA
8677700 TTTTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (25 bp):
TTAATCAAACTCTAATTAGTTTAAA
Found at i:8678147 original size:13 final size:13
Alignment explanation
Indices: 8678129--8678154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8678119 AATCTGTGGC
8678129 AACTTCAGATGAT
1 AACTTCAGATGAT
8678142 AACTTCAGATGAT
1 AACTTCAGATGAT
8678155 GATAATTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
AACTTCAGATGAT
Found at i:8681011 original size:22 final size:22
Alignment explanation
Indices: 8680969--8681011 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8680959 AACATAGATG
* *
8680969 TAATTGTATATTTCTTAAAAAA
1 TAATTATATATTTATTAAAAAA
8680991 TAATTATATATTTATATAAAA
1 TAATTATATATTTAT-TAAAA
8681012 TTTGAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TAATTATATATTTATTAAAAAA
Found at i:8682399 original size:9 final size:9
Alignment explanation
Indices: 8682381--8682444 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
8682371 ATCAATAAAT
8682381 AATT-TTAA
1 AATTATTAA
8682389 AATTATTAA
1 AATTATTAA
8682398 AATTATT--
1 AATTATTAA
*
8682405 --TTTTTAA
1 AATTATTAA
8682412 AA-TA-TAA
1 AATTATTAA
8682419 AATTATTAA
1 AATTATTAA
8682428 AATTATTTTAA
1 AATTA--TTAA
8682439 AATTAT
1 AATTAT
8682445 AATCATCATC
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
5 4 0.09
7 5 0.11
8 7 0.16
9 20 0.44
11 9 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATTATTAA
Found at i:8682436 original size:27 final size:29
Alignment explanation
Indices: 8682381--8682446 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
8682371 ATCAATAAAT
*
8682381 AATTTTAAAATTATTAAAATTATTTTTTTAA
1 AATTATAAAATTATTAAAATTA--TTTTTAA
8682412 AA-TATAAAATTATTAAAATTA-TTTTAA
1 AATTATAAAATTATTAAAATTATTTTTAA
8682439 AATTATAA
1 AATTATAA
8682447 TCATCATCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 8 0.24
28 5 0.15
30 18 0.55
31 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AATTATAAAATTATTAAAATTATTTTTAA
Found at i:8687432 original size:39 final size:39
Alignment explanation
Indices: 8687359--8687433 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
8687349 CTTATGATCA
* * *
8687359 ATAAGCATATCATATGCCCAATAGTTCATATGATCAATT
1 ATAAGCATATCACATGACCAATAGTTAATATGATCAATT
*
8687398 ATAAGCATATCACATGATCAATAGTTGAAT-TGATCA
1 ATAAGCATATCACATGACCAATAGTT-AATATGATCA
8687434 GTTTTTCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 29 0.94
40 2 0.06
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (39 bp):
ATAAGCATATCACATGACCAATAGTTAATATGATCAATT
Found at i:8689779 original size:15 final size:15
Alignment explanation
Indices: 8689759--8689791 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8689749 AAACTTTCTC
*
8689759 AAATATAAAACAACA
1 AAATATAAAAAAACA
8689774 AAATATAAAAAAACA
1 AAATATAAAAAAACA
8689789 AAA
1 AAA
8689792 AAACGCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (15 bp):
AAATATAAAAAAACA
Found at i:8691457 original size:6 final size:6
Alignment explanation
Indices: 8691437--8691512 Score: 63
Period size: 6 Copynumber: 13.0 Consensus size: 6
8691427 TTAAATTGGT
* *
8691437 TTTAAA TTT-AT TTTAAA TTTAAA TTTATCTAA -TTAAA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA---AA TTTAAA TTTAAA TTTAAA
*
8691485 TTTAAG TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
8691513 ACAATAATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
4 2 0.04
5 14 0.25
6 36 0.63
8 3 0.05
9 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:8691457 original size:17 final size:17
Alignment explanation
Indices: 8691437--8691512 Score: 91
Period size: 17 Copynumber: 4.4 Consensus size: 17
8691427 TTAAATTGGT
8691437 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
8691454 TTTAAATTTATCTAATTAAA
1 TTTAAATTTAT-T--TTAAA
* *
8691474 TTTAAATTTACTTTAAG
1 TTTAAATTTATTTTAAA
*
8691491 TTTAAATTTA-ATTAAA
1 TTTAAATTTATTTTAAA
8691507 TTTAAA
1 TTTAAA
8691513 ACAATAATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
16 10 0.19
17 25 0.48
18 1 0.02
19 1 0.02
20 15 0.29
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:8691488 original size:11 final size:11
Alignment explanation
Indices: 8691437--8691511 Score: 61
Period size: 10 Copynumber: 7.0 Consensus size: 11
8691427 TTAAATTGGT
*
8691437 TTTAAATTTAT
1 TTTAAATTTAA
8691448 TTTAAATTTAAA
1 TTTAAATTT-AA
*
8691460 TTT--ATCTAA
1 TTTAAATTTAA
8691469 -TTAAATTTAAA
1 TTTAAATTT-AA
*
8691480 TTT-ACTTTAA
1 TTTAAATTTAA
8691490 GTTTAAATTTAA
1 -TTTAAATTTAA
8691502 -TTAAATTTAA
1 TTTAAATTTAA
8691512 AACAATAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
8 2 0.04
9 2 0.04
10 18 0.35
11 18 0.35
12 12 0.23
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:8693535 original size:30 final size:30
Alignment explanation
Indices: 8693499--8693708 Score: 195
Period size: 29 Copynumber: 7.2 Consensus size: 30
8693489 CTGAACTTTT
*
8693499 AAAAATTACATTTTTGACCCTAAAATTTCC
1 AAAAATTACATTTTTGACCCCAAAATTTCC
*
8693529 AAAAATTACATTTTTG-CCCC-TAATTTCC
1 AAAAATTACATTTTTGACCCCAAAATTTCC
*
8693557 AAAAATTACATTTTTG-CCTCCAAACTTT-C
1 AAAAATTACATTTTTGACC-CCAAAATTTCC
* * *
8693586 AAAAATTCCATTTTTAACCCCAAAACTTCC
1 AAAAATTACATTTTTGACCCCAAAATTTCC
* **
8693616 ATAAAATTACATTTTTGACCCC-GAGCTTCC
1 A-AAAATTACATTTTTGACCCCAAAATTTCC
* * *
8693646 CAATATTACA-TTTTGACCTCAAAACTTT-C
1 AAAAATTACATTTTTGACCCCAAAA-TTTCC
* *
8693675 AAAAATTACCA-TTTT-ACCCCCAAATATCC
1 AAAAATTA-CATTTTTGACCCCAAAATTTCC
8693704 AAAAA
1 AAAAA
8693709 CTCTATTTTT
Statistics
Matches: 148, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
28 36 0.24
29 56 0.38
30 38 0.26
31 18 0.12
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAAATTACATTTTTGACCCCAAAATTTCC
Found at i:8693676 original size:89 final size:87
Alignment explanation
Indices: 8693492--8693698 Score: 256
Period size: 89 Copynumber: 2.4 Consensus size: 87
8693482 TTAACTCCTG
* * * * * * *
8693492 AACTTTTAAAAATTACATTTTTGACCCTAAAATTTCCAAAAATTACATTTTTGCCCCTAATTTCC
1 AACTTTCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTGCCCCGAACTTCC
*
8693557 AAAAATTACATTTTTGCCTCCA
66 AAAAATTACATTTTTGCCTCAA
*
8693579 AACTTTCAAAAATTCCATTTTTAACCCCAAAACTTCCATAAAATTACATTTTTGACCCCGAGCTT
1 AACTTTCAAAAATTCCATTTTTAACCCCAAAACTTCCA-AAAATTACATTTTTG-CCCCGAACTT
* *
8693644 CCCAATATTACA-TTTTGACCTCAA
64 CCAAAAATTACATTTTTG-CCTCAA
*
8693668 AACTTTCAAAAATTACCA-TTTTACCCCCAAA
1 AACTTTCAAAAATT-CCATTTTTAACCCCAAA
8693699 TATCCAAAAA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
87 33 0.32
88 20 0.19
89 48 0.46
90 3 0.03
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.35
Consensus pattern (87 bp):
AACTTTCAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTGCCCCGAACTTCC
AAAAATTACATTTTTGCCTCAA
Found at i:8699150 original size:14 final size:14
Alignment explanation
Indices: 8699128--8699178 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
8699118 ACGTTCGAGG
8699128 TTTAGGGTTTGAAA
1 TTTAGGGTTTGAAA
* *
8699142 TTTAAGGTTTGAGTTTA
1 TTTAGGGTTTGA---AA
8699159 TTTAGGGTTTGAAA
1 TTTAGGGTTTGAAA
8699173 TTTAGG
1 TTTAGG
8699179 ATTTAAGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 18 0.60
17 12 0.40
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTGAAA
Found at i:8702836 original size:85 final size:83
Alignment explanation
Indices: 8702675--8702836 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 83
8702665 ATTCAATCGA
**
8702675 TTCAAAGCAAATAAATTATTAAAAAATCAAAAATAAAATTATAAAAATTGGTTATGCTACCCGTT
1 TTCAAAGCAAATAAATTATTAAAAAATCAAAAATAAAATTATAAAAATTGGTTATGCTA-CAATT
*
8702740 CAAATGTTTTTTAGCTTGG
65 CAAATGGTTTTTAGCTTGG
* *
8702759 TTCAAATCAAATAAATTATTAAAAAATCGAAAATAAAAATTATAAAAATTGGTTCAATTG-T-CA
1 TTCAAAGCAAATAAATTATTAAAAAATCAAAAAT-AAAATTATAAAAATTGGTT--A-TGCTACA
8702822 ATTCAAATGGTTTTT
62 ATTCAAATGGTTTTT
8702837 TAGCCCGATT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
84 32 0.46
85 33 0.48
87 2 0.03
88 2 0.03
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.35
Consensus pattern (83 bp):
TTCAAAGCAAATAAATTATTAAAAAATCAAAAATAAAATTATAAAAATTGGTTATGCTACAATTC
AAATGGTTTTTAGCTTGG
Found at i:8702852 original size:85 final size:83
Alignment explanation
Indices: 8702672--8702846 Score: 219
Period size: 84 Copynumber: 2.1 Consensus size: 83
8702662 CCAATTCAAT
* *
8702672 CGATTCAAAGCAAATAAATTATTAAAAAATCAAAAATAAAATTATAAAAATTGGTTATGCTACCC
1 CGATTCAAATCAAATAAATTATTAAAAAATCAAAAATAAAATTATAAAAATTGGTTATGCTA-CA
* *
8702737 GTTCAAATGTTTTTTAGCT
65 ATTCAAATGTTTTTTAGCC
* * *
8702756 TGGTTCAAATCAAATAAATTATTAAAAAATCGAAAATAAAAATTATAAAAATTGGTTCAATTG-T
1 CGATTCAAATCAAATAAATTATTAAAAAATCAAAAAT-AAAATTATAAAAATTGGTT--A-TGCT
8702820 -CAATTCAAATGGTTTTTTAGCC
62 ACAATTCAAAT-GTTTTTTAGCC
8702842 CGATT
1 CGATT
8702847 TAATCAGTCT
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
84 33 0.43
85 27 0.35
86 13 0.17
87 2 0.03
88 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (83 bp):
CGATTCAAATCAAATAAATTATTAAAAAATCAAAAATAAAATTATAAAAATTGGTTATGCTACAA
TTCAAATGTTTTTTAGCC
Found at i:8705648 original size:11 final size:11
Alignment explanation
Indices: 8705617--8705658 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8705607 CCCAACTTGG
8705617 ATTTTAAATTA
1 ATTTTAAATTA
* *
8705628 AGTTTGAATTA
1 ATTTTAAATTA
*
8705639 ATTTTAAATTT
1 ATTTTAAATTA
8705650 A-TTTAAATT
1 ATTTTAAATT
8705659 TAAATTTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:8705658 original size:17 final size:17
Alignment explanation
Indices: 8705619--8705680 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
8705609 CAACTTGGAT
*
8705619 TTTAAA-TTAAGTTTGA
1 TTTAAATTTAAATTTGA
* *
8705635 ATTAATTTTAAATTT-A
1 TTTAAATTTAAATTTGA
*
8705651 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGA
8705668 TTTAAATTTAAAT
1 TTTAAATTTAAAT
8705681 ACATTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 18 0.47
17 20 0.53
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTGA
Found at i:8705661 original size:22 final size:22
Alignment explanation
Indices: 8705617--8705658 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8705607 CCCAACTTGG
*
8705617 ATTTTAAATTAAGTTTGAATTA
1 ATTTTAAATTAAGTTTAAATTA
*
8705639 ATTTTAAATTTA-TTTAAATT
1 ATTTTAAATTAAGTTTAAATT
8705659 TAAATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTAAGTTTAAATTA
Found at i:8705664 original size:27 final size:27
Alignment explanation
Indices: 8705623--8705705 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 27
8705613 TTGGATTTTA
* *
8705623 AATTAAGTTTGAATTAATTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* **
8705650 ATTTAAATTTAAATTTGTTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* * * * *
8705677 AAATACATTTAAAATAATTTGAAACTT
1 AATTAAATTTAAATTAATTTTAAATTT
8705704 AA
1 AA
8705706 AATAAAATTA
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (27 bp):
AATTAAATTTAAATTAATTTTAAATTT
Found at i:8705689 original size:16 final size:16
Alignment explanation
Indices: 8705636--8705689 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
8705626 TAAGTTTGAA
* *
8705636 TTAATTTTAAATTTAT
1 TTAAATTTAAATTCAT
**
8705652 TTAAATTTAAATTTGTT
1 TTAAATTTAAA-TTCAT
*
8705669 TTAAATTTAAATACAT
1 TTAAATTTAAATTCAT
8705685 TTAAA
1 TTAAA
8705690 ATAATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTCAT
Found at i:8706565 original size:10 final size:10
Alignment explanation
Indices: 8706543--8706599 Score: 66
Period size: 10 Copynumber: 6.0 Consensus size: 10
8706533 AATAACTGTT
8706543 TTAATAA-TA
1 TTAATAATTA
*
8706552 TTAATATTTA
1 TTAATAATTA
8706562 TTAATAATTA
1 TTAATAATTA
* *
8706572 ATAATAATAA
1 TTAATAATTA
8706582 TTAAT-ATTA
1 TTAATAATTA
8706591 -TAATAATTA
1 TTAATAATTA
8706600 AATAAAAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 4 0.10
9 13 0.32
10 23 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTAATAATTA
Found at i:8706573 original size:7 final size:7
Alignment explanation
Indices: 8706561--8706600 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
8706551 ATTAATATTT
8706561 ATTAATA
1 ATTAATA
8706568 ATTAATA
1 ATTAATA
8706575 A-TAATA
1 ATTAATA
8706581 ATTAATA
1 ATTAATA
*
8706588 TTATAATA
1 AT-TAATA
8706596 ATTAA
1 ATTAA
8706601 ATAAAAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.21
7 17 0.59
8 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATTAATA
Found at i:8706579 original size:13 final size:14
Alignment explanation
Indices: 8706563--8706600 Score: 60
Period size: 13 Copynumber: 2.7 Consensus size: 14
8706553 TAATATTTAT
8706563 TAATAATTAATA-A
1 TAATAATTAATATA
8706576 TAATAATTAATATTA
1 TAATAATTAATA-TA
8706591 TAATAATTAA
1 TAATAATTAA
8706601 ATAAAAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 12 0.52
15 11 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATAATTAATATA
Found at i:8706604 original size:26 final size:29
Alignment explanation
Indices: 8706544--8706600 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
8706534 ATAACTGTTT
8706544 TAATAATATTAATATTTATTAATAATTAA
1 TAATAATATTAATATTTATTAATAATTAA
8706573 TAATAATAATTAATA-TTA-TAATAATTAA
1 TAATAAT-ATTAATATTTATTAATAATTAA
8706601 ATAAAAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 10 0.37
29 10 0.37
30 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TAATAATATTAATATTTATTAATAATTAA
Found at i:8707837 original size:30 final size:30
Alignment explanation
Indices: 8707743--8707897 Score: 101
Period size: 30 Copynumber: 5.2 Consensus size: 30
8707733 CCTTGAATTG
* * *
8707743 TCCAAAAATTACCGTTTTACCCCTAAACAT
1 TCCAAAAATTACCATTTTATCCCTAAACTT
* **
8707773 TCC-AAAATT-CCATTTT-TGACCTCGA-TT
1 TCCAAAAATTACCATTTTAT-CCCTAAACTT
8707800 TCACCAAAAATTACCATTTTATCCCTAAACTT
1 T--CCAAAAATTACCATTTTATCCCTAAACTT
* **
8707832 TCC-AAAATT-CCATTTT-TGACCTCGA-TT
1 TCCAAAAATTACCATTTTAT-CCCTAAACTT
* *
8707859 TCACCAAAAATTACCATTTTACCCCCAAACTT
1 T--CCAAAAATTACCATTTTATCCCTAAACTT
8707891 TCCAAAA
1 TCCAAAA
8707898 TTCTATTTTG
Statistics
Matches: 94, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
27 6 0.06
28 21 0.22
29 16 0.17
30 23 0.24
31 21 0.22
32 7 0.07
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (30 bp):
TCCAAAAATTACCATTTTATCCCTAAACTT
Found at i:8707865 original size:29 final size:31
Alignment explanation
Indices: 8707776--8707878 Score: 119
Period size: 31 Copynumber: 3.5 Consensus size: 31
8707766 TAAACATTCC
8707776 AAAATT-CCATTTTTGACCTCGATTTCACCA
1 AAAATTACCATTTTTGACCTCGATTTCACCA
* **
8707806 AAAATTACCATTTTAT-CCCTAAACTTT--CC-
1 AAAATTACCATTTT-TGACCTCGA-TTTCACCA
8707835 AAAATT-CCATTTTTGACCTCGATTTCACCA
1 AAAATTACCATTTTTGACCTCGATTTCACCA
8707865 AAAATTACCATTTT
1 AAAATTACCATTTT
8707879 ACCCCCAAAC
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
27 4 0.07
28 11 0.19
29 8 0.14
30 14 0.24
31 18 0.31
32 4 0.07
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (31 bp):
AAAATTACCATTTTTGACCTCGATTTCACCA
Found at i:8707935 original size:58 final size:59
Alignment explanation
Indices: 8707744--8708000 Score: 324
Period size: 59 Copynumber: 4.4 Consensus size: 59
8707734 CTTGAATTGT
* * *
8707744 CCAAAAATTACCGTTTTACCCCTAAACATTCCAAAATTCCATTTTTGACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA
* *
8707803 CCAAAAATTACCATTTTATCCCTAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA
* * *
8707862 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTA-TTTTGACCTAGGTTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA
* * * * * * * *
8707920 CAAAAAATTACCATTTTACCCTCGAACTTTCTAAAATCCCAATTTT-AACTCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCT-CGATTTCA
8707979 CC-AAAATT-CCATTTTTACCCCC
1 CCAAAAATTACCA-TTTTACCCCC
8708001 GAAAGTCAAA
Statistics
Matches: 177, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
57 3 0.02
58 68 0.38
59 106 0.60
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA
Found at i:8707956 original size:117 final size:118
Alignment explanation
Indices: 8707744--8708000 Score: 335
Period size: 117 Copynumber: 2.2 Consensus size: 118
8707734 CTTGAATTGT
* * * *
8707744 CCAAAAATTACCGTTTTACCCCTAAACATTCCAAAATTCCATTTTTGACCTCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTTGACCTAGATTTCACAAAAA
* * *
8707809 ATTACCATTTTATCCCTAAACTTTCCAAAATTCCATTTTTGAC-CTCGATTTCA
66 ATTACCATTTTATCCCTAAACTTTCCAAAATCCCAATTTTAACTC-CGATTTCA
* * *
8707862 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTA-TTTTGACCTAGGTTTCACAAAAA
1 CCAAAAATTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTTGACCTAGATTTCACAAAAA
* * *
8707926 ATTACCATTTTA-CCCTCGAACTTTCTAAAATCCCAATTTTAACTCCGGTTTCA
66 ATTACCATTTTATCCCT-AAACTTTCCAAAATCCCAATTTTAACTCCGATTTCA
8707979 CC-AAAATT-CCATTTTTACCCCC
1 CCAAAAATTACCA-TTTTACCCCC
8708001 GAAAGTCAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
115 3 0.02
116 20 0.16
117 62 0.50
118 38 0.31
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCCAAACATTCCAAAATTCCATTTTTGACCTAGATTTCACAAAAA
ATTACCATTTTATCCCTAAACTTTCCAAAATCCCAATTTTAACTCCGATTTCA
Found at i:8719565 original size:200 final size:201
Alignment explanation
Indices: 8718801--8719997 Score: 1902
Period size: 200 Copynumber: 6.0 Consensus size: 201
8718791 AAACGGTAAG
*
8718801 GCGGTAATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAGCGCTCAAACATGAGCAAATCT
1 GCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACATGAGCAAATCT
* * *
8718866 TCGAACCCATCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGATAGATTCCTG
66 TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTG
* *
8718931 ATGAGACATAGAGAAGTGGACCAGATTCGTCTTCCTGAAGAGATCCAGAGAAGCGAATCAAAACA
131 ATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACA
*
8718996 AG-TAA
196 AGCGAA
*
8719001 GGCAGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACATGAGCAAATC
1 -GCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACATGAGCAAATC
* *
8719066 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGATAGATTCCT
65 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
* * *
8719131 GATGAGACATAAAGAAGTGGACCAGATTCGTCTTCCTGAAGAGATCCAGAGAAGCGAATCAAAAC
130 GATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC
*
8719196 AAG-TAA
195 AAGCGAA
* * * *
8719202 GGCAGTAATCTTCCTGATGAGATACAAAGAAGAACACCAACTCAACGCTCAAACATTAGCAAATC
1 -GCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACATGAGCAAATC
*
8719267 TTCGAACCTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
65 TTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCT
*
8719332 GATGAGACACAAAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC
130 GATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAAC
*
8719397 GAGCGAA
195 AAGCGAA
* *
8719404 GCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTC-AACATGAGCGAATCT
1 GCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACATGAGCAAATCT
*
8719468 TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTCCTG
66 TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTG
* * *
8719533 ATGAGACATAGAGAAGTGGACTAGATTCGTCTTCCTGAGGAGATCCAAAGAAGCGAATCAAAACA
131 ATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACA
*
8719598 AGC-ATG
196 AGCGA-A
* * *
8719604 GCGATCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTC-AACACGAGCAAATCT
1 GCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACATGAGCAAATCT
* * * *
8719668 TCGAACCCAGCTTCCTGATGAGACACTGAAAAGCAGGTCGAGGCAATACAAAGGTCAGCTTCCTG
66 TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTG
* *
8719733 ATGAGACACAGAGAAGTGGACTAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACA
131 ATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACA
*
8719798 AGCGAG
196 AGCGAA
* * *
8719804 GAGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTC-AACACGAGCAAATCT
1 GCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACATGAGCAAATCT
*
8719868 TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTCCTG
66 TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTG
* * * * *
8719933 ATCAGACACAGAGAAGTGGACCAGATTCGTCTTCCTAAGGGGATCTAGAGAAGCGAATTAAAACA
131 ATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACA
8719998 GATGATTGTA
Statistics
Matches: 940, Mismatches: 53, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
199 1 0.00
200 506 0.54
201 431 0.46
202 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (201 bp):
GCGGTAATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCGCTCAAACATGAGCAAATCT
TCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTG
ATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACA
AGCGAA
Found at i:8720406 original size:11 final size:11
Alignment explanation
Indices: 8720375--8720416 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8720365 CCCAACATGG
8720375 ATTTTAAATTA
1 ATTTTAAATTA
* *
8720386 AGTTTGAATTA
1 ATTTTAAATTA
*
8720397 ATTTTAAATTT
1 ATTTTAAATTA
8720408 A-TTTAAATT
1 ATTTTAAATT
8720417 TAAATTTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:8720416 original size:17 final size:17
Alignment explanation
Indices: 8720377--8720438 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
8720367 CAACATGGAT
*
8720377 TTTAAA-TTAAGTTTGA
1 TTTAAATTTAAATTTGA
* *
8720393 ATTAATTTTAAATTT-A
1 TTTAAATTTAAATTTGA
*
8720409 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGA
8720426 TTTAAATTTAAAT
1 TTTAAATTTAAAT
8720439 ACATTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 18 0.47
17 20 0.53
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTGA
Found at i:8720419 original size:22 final size:22
Alignment explanation
Indices: 8720375--8720416 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8720365 CCCAACATGG
*
8720375 ATTTTAAATTAAGTTTGAATTA
1 ATTTTAAATTAAGTTTAAATTA
*
8720397 ATTTTAAATTTA-TTTAAATT
1 ATTTTAAATTAAGTTTAAATT
8720417 TAAATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTAAGTTTAAATTA
Found at i:8720422 original size:27 final size:27
Alignment explanation
Indices: 8720381--8720454 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
8720371 ATGGATTTTA
* *
8720381 AATTAAGTTTGAATTAATTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* **
8720408 ATTTAAATTTAAATTTGTTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* * *
8720435 AAATACATTTAAAATAATTT
1 AATTAAATTTAAATTAATTT
8720455 GAAACTGAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (27 bp):
AATTAAATTTAAATTAATTTTAAATTT
Found at i:8720447 original size:16 final size:16
Alignment explanation
Indices: 8720394--8720447 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
8720384 TAAGTTTGAA
* *
8720394 TTAATTTTAAATTTAT
1 TTAAATTTAAATTCAT
**
8720410 TTAAATTTAAATTTGTT
1 TTAAATTTAAA-TTCAT
*
8720427 TTAAATTTAAATACAT
1 TTAAATTTAAATTCAT
8720443 TTAAA
1 TTAAA
8720448 ATAATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTCAT
Found at i:8721322 original size:10 final size:10
Alignment explanation
Indices: 8721300--8721359 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
8721290 AATAACTGTT
8721300 TTAATAA-TA
1 TTAATAATTA
*
8721309 TTAATATTTA
1 TTAATAATTA
8721319 TTAATAATTAA
1 TTAATAATT-A
*
8721330 TAATAATAATAA
1 T--TAATAATTA
8721342 TTAAT-ATTA
1 TTAATAATTA
8721351 -TAATAATTA
1 TTAATAATTA
8721360 AATAAAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 4 0.10
9 13 0.31
10 14 0.33
11 2 0.05
12 2 0.05
13 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTAATAATTA
Found at i:8721323 original size:16 final size:17
Alignment explanation
Indices: 8721299--8721360 Score: 78
Period size: 16 Copynumber: 3.9 Consensus size: 17
8721289 TAATAACTGT
8721299 TTTAATAAT-ATTAATA
1 TTTAATAATAATTAATA
*
8721315 TTTATTAATAATTAATA
1 TTTAATAATAATTAATA
*
8721332 -ATAATAATAATTAATA
1 TTTAATAATAATTAATA
8721348 -TT-ATAATAATTAA
1 TTTAATAATAATTAA
8721361 ATAAAAAAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
15 11 0.27
16 23 0.56
17 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAATAATAATTAATA
Found at i:8721336 original size:13 final size:13
Alignment explanation
Indices: 8721310--8721360 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
8721300 TTAATAATAT
* *
8721310 TAATATTTATTAA
1 TAATAATTAATAA
8721323 TAATTAA-TAATAA
1 TAA-TAATTAATAA
8721336 TAATAATTAATATTA
1 TAATAATTAATA--A
8721351 TAATAATTAA
1 TAATAATTAA
8721361 ATAAAAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 3 0.09
13 16 0.50
14 2 0.06
15 11 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATAATTAATAA
Found at i:8721364 original size:29 final size:32
Alignment explanation
Indices: 8721301--8721360 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
8721291 ATAACTGTTT
8721301 TAATAATATTAATATTTATTAATAATTAATAA
1 TAATAATATTAATATTTATTAATAATTAATAA
8721333 TAATAATAATTAATA-TTA-TAATAATTAA
1 TAATAAT-ATTAATATTTATTAATAATTAA
8721361 ATAAAAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 10 0.37
32 10 0.37
33 7 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
TAATAATATTAATATTTATTAATAATTAATAA
Found at i:8722567 original size:58 final size:59
Alignment explanation
Indices: 8722501--8722808 Score: 448
Period size: 58 Copynumber: 5.3 Consensus size: 59
8722491 CTTGAACTGT
* * *
8722501 CCAAAAATTACCGTTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCA
* *
8722560 CC-AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGATCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCA
*
8722618 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTTCA-TTTTGACCCC-AGTTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGA-TTTCA
* * *
8722676 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCTCGATTTTA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCA
* * *
8722735 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAA-TCCAATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCC-ATTTTTGACCCCGATTTCA
8722794 CC-AAAATT-CCATTTT
1 CCAAAAATTACCATTTT
8722809 TATCCTCGAA
Statistics
Matches: 228, Mismatches: 16, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
57 8 0.04
58 115 0.50
59 104 0.46
60 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCA
Found at i:8722707 original size:117 final size:118
Alignment explanation
Indices: 8722501--8722808 Score: 477
Period size: 117 Copynumber: 2.6 Consensus size: 118
8722491 CTTGAACTGT
*
8722501 CCAAAAATTACCGTTTTACCCCCAAACTTTCCAAAA-TTCTATTTTTAACCCCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTTCTATTTTTAACCCCGATTTCACCAAA
8722565 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGATCC-CGATTTCA
66 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGA-CCTCGATTTCA
*
8722618 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTTC-A-TTTTGACCCC-AGTTTCACCAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTTCTATTTTTAACCCCGA-TTTCACC-A
*
8722680 AAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCTCGATTTTA
64 AAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA
* * * *
8722735 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAA-TCCAATTTTTAACCTCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTTCTATTTTTAACCCCGATTTCACCAAA
8722799 ATT-CCATTTT
66 ATTACCATTTT
8722809 TATCCTCGAA
Statistics
Matches: 177, Mismatches: 7, Indels: 15
0.89 0.04 0.08
Matches are distributed among these distances:
115 1 0.01
116 27 0.15
117 130 0.73
118 18 0.10
119 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTTCTATTTTTAACCCCGATTTCACCAAA
ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCTCGATTTCA
Found at i:8736595 original size:97 final size:97
Alignment explanation
Indices: 8736424--8736682 Score: 446
Period size: 97 Copynumber: 2.7 Consensus size: 97
8736414 AACGTTTGAA
* * * * *
8736424 AAGGATATTCGATTATCTCGATTCGAAGAAAAATTGCGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATTTCGATTTGAAGGAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
8736489 GAATCGGAGATAAAGAAACATTGCCTTCATTT
66 GAATCGGAGATAAAGAAACATTGCCTTCATTT
* *
8736521 AAGGGTATTCGATTATTTCGATTTGAAGGAAAATCGCGCCTAGCAAGTTAAGACACAAATTTTCA
1 AAGGGTATTCGATTATTTCGATTTGAAGGAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
8736586 GAATCGGAGATAAAGAAACATTGCCTTCATTT
66 GAATCGGAGATAAAGAAACATTGCCTTCATTT
*
8736618 AAGGGTATTCGATTATTCCGATTTGAAGGAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATTTCGATTTGAAGGAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
8736683 AAACTCGAAA
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 152 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (97 bp):
AAGGGTATTCGATTATTTCGATTTGAAGGAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
GAATCGGAGATAAAGAAACATTGCCTTCATTT
Found at i:8737071 original size:30 final size:30
Alignment explanation
Indices: 8736976--8737108 Score: 105
Period size: 30 Copynumber: 4.5 Consensus size: 30
8736966 CTTCAGGAAT
* * *
8736976 AAAATGGTAA-TTTTCGAAAGGTTCGAGGTTA
1 AAAATGGTAATTTTTAG-AAGATTCG-GGGTA
* *
8737007 AAAATGG-AATTTTTAG-ACATCCGAGGGT-
1 AAAATGGTAATTTTTAGAAGATTCG-GGGTA
*
8737035 AAAATGGTAATTTTTAGAAGATTCGGGGTC
1 AAAATGGTAATTTTTAGAAGATTCGGGGTA
* * **
8737065 AAAATGGTAATTTTTGGAAGGTTTAGGGTA
1 AAAATGGTAATTTTTAGAAGATTCGGGGTA
*
8737095 AAAATTG-AATTTTT
1 AAAATGGTAATTTTT
8737109 GGAAAATTTG
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
28 7 0.08
29 28 0.33
30 38 0.45
31 12 0.14
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTTAGAAGATTCGGGGTA
Found at i:8737093 original size:59 final size:58
Alignment explanation
Indices: 8737030--8737268 Score: 189
Period size: 59 Copynumber: 4.1 Consensus size: 58
8737020 TAGACATCCG
* * * * *
8737030 AGGGT-AAAATGGTAATTTTTAGAAGATTCGGGGTCAAAATGGTAATTTTTGGAAGGTTT
1 AGGGTAAAAATGG-AATTTTTAGAAAATTCGAGGTCAAAAT-GCAATTTTTAGAAAGTTT
* * * *
8737089 AGGGTAAAAATTGAATTTTTGGAAAATTTGAGGTCAAAATGCATTTTTTAGAAAGTTT
1 AGGGTAAAAATGGAATTTTTAGAAAATTCGAGGTCAAAATGCAATTTTTAGAAAGTTT
* * ** * * * *
8737147 AGGGTCAAAAATGGAA-TTTTGGAAAGTTTAAGGACAAAAATGTAATTTTCAAAAAGTTT
1 AGGGT-AAAAATGGAATTTTTAGAAAATTCGAGGTC-AAAATGCAATTTTTAGAAAGTTT
* ** * *
8737206 AGGGTTAAAAAT-GAAATTTT-GAAAAGTTCGAGGGTCAAAATATAATTTTTGGACAGTTT
1 AGGG-TAAAAATGGAATTTTTAGAAAA-TTCGA-GGTCAAAATGCAATTTTTAGAAAGTTT
8737265 AGGG
1 AGGG
8737269 ACCTCTAAGG
Statistics
Matches: 147, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
58 42 0.29
59 95 0.65
60 10 0.07
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (58 bp):
AGGGTAAAAATGGAATTTTTAGAAAATTCGAGGTCAAAATGCAATTTTTAGAAAGTTT
Found at i:8737105 original size:29 final size:29
Alignment explanation
Indices: 8737073--8737268 Score: 134
Period size: 29 Copynumber: 6.7 Consensus size: 29
8737063 TCAAAATGGT
*
8737073 AATTTTTGGAAGGTTTAGGGTAAAAATTG
1 AATTTTTGGAAAGTTTAGGGTAAAAATTG
* *
8737102 AATTTTTGGAAAATTT-GAGGTCAAAA-TG
1 AATTTTTGGAAAGTTTAG-GGTAAAAATTG
* * *
8737130 CATTTTTTAGAAAGTTTAGGGTCAAAAATGG
1 -AATTTTTGGAAAGTTTAGGGT-AAAAATTG
* *
8737161 AA-TTTTGGAAAGTTTAAGG-ACAAAAATG
1 AATTTTTGGAAAGTTTAGGGTA-AAAATTG
***
8737189 TAATTTTCAAAAAGTTTAGGGTTAAAAA-TG
1 -AATTTTTGGAAAGTTTAGGG-TAAAAATTG
* * * *
8737219 AAATTTTGAAAAGTTCGAGGGTCAAAATAT-
1 AATTTTTGGAAAGTT-TAGGGTAAAAAT-TG
*
8737249 AATTTTTGGACAGTTTAGGG
1 AATTTTTGGAAAGTTTAGGG
8737269 ACCTCTAAGG
Statistics
Matches: 128, Mismatches: 26, Indels: 26
0.71 0.14 0.14
Matches are distributed among these distances:
27 1 0.01
28 8 0.06
29 75 0.59
30 37 0.29
31 6 0.05
32 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (29 bp):
AATTTTTGGAAAGTTTAGGGTAAAAATTG
Found at i:8738268 original size:16 final size:17
Alignment explanation
Indices: 8738247--8738279 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8738237 TTTTTCTTTT
8738247 ATTATTATTAA-TATTA
1 ATTATTATTAATTATTA
8738263 ATTATTATTAATTATTA
1 ATTATTATTAATTATTA
8738280 TTAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTATTAATTATTA
Found at i:8738271 original size:10 final size:10
Alignment explanation
Indices: 8738245--8738297 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
8738235 ACTTTTTCTT
8738245 TTATTATT-A
1 TTATTATTAA
*
8738254 TTAATATTAA
1 TTATTATTAA
8738264 TTATTATTAA
1 TTATTATTAA
8738274 TTATTATTAA
1 TTATTATTAA
* *
8738284 ATATATATTTA
1 TTAT-TATTAA
8738295 TTA
1 TTA
8738298 CCATATTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 7 0.19
10 23 0.62
11 7 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATTATTAA
Found at i:8739038 original size:17 final size:16
Alignment explanation
Indices: 8739011--8739046 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
8739001 TTTGGACATT
8739011 AATTTAAATAAACTTA
1 AATTTAAATAAACTTA
*
8739027 AATTTAAAATAAATTTA
1 AATTT-AAATAAACTTA
8739044 AAT
1 AAT
8739047 CTGTTGGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTTAAATAAACTTA
Found at i:8739555 original size:49 final size:48
Alignment explanation
Indices: 8739502--8740363 Score: 550
Period size: 49 Copynumber: 17.5 Consensus size: 48
8739492 GAGTTCGCCA
* * **
8739502 TTGCGACTTAAACCTTTCCTCTCGTGTCTTCGCGGTACTGGATTCACCG
1 TTGCGACTTAAACCTTTCC-CTCATGTCTTCGAGGTACTGGATTCGTCG
* *
8739551 TTGCGACTTAAATCTTTCCCTTCATGTC-TCTGAGGTACAAGG-TTCGTCG
1 TTGCGACTTAAACCTTTCCC-TCATGTCTTC-GAGGTAC-TGGATTCGTCG
** * * * * * *
8739600 TTATGACTTAAACCTTTCCATTCGTGTCTTCGTGGCATTGGATTCGCCG
1 TTGCGACTTAAACCTTTCC-CTCATGTCTTCGAGGTACTGGATTCGTCG
* * * *
8739649 TTGCGGCTTAAATCTTTCCCTTCATG-CTTCTAAGGTACAAGG-TTCGTCG
1 TTGCGACTTAAACCTTTCCC-TCATGTCTTC-GAGGTAC-TGGATTCGTCG
* * * *
8739698 TTGCGACTTAAACCTTTCCTTTCGTGTCTTTGTGGTACTGGATTCGTCG
1 TTGCGACTTAAACCTTTCC-CTCATGTCTTCGAGGTACTGGATTCGTCG
* * * *
8739747 TTGTGGCTTAAATCTTTCCCTTCATG-CTTCTGAGGTACAAGG-TTCGTCG
1 TTGCGACTTAAACCTTTCCC-TCATGTCTTC-GAGGTAC-TGGATTCGTCG
** * *
8739796 TTGCGACTTAAACCTTTCCCTTTTGTGTCTTCGTGGTACTGGATTCATCG
1 TTGCGACTTAAACCTTTCCC--TCATGTCTTCGAGGTACTGGATTCGTCG
* *
8739846 TTGCGGCTTAAATCTTTCCCTTCATGT-TTCTGAGGTA-TAAGG-TTCGTCG
1 TTGCGACTTAAACCTTTCCC-TCATGTCTTC-GAGGTACT--GGATTCGTCG
** * * * * *
8739895 TTGCGACTTAAACCTTTCCCTTTGTGTCTTTGTGGTACTAGATTCGCCA
1 TTGCGACTTAAACCTTTCCC-TCATGTCTTCGAGGTACTGGATTCGTCG
* ** *
8739944 TTGCGGCTTAAATATTTCCCTTCATG-CTTCTGAGGTACAAGG-TTCGTCG
1 TTGCGACTTAAACCTTTCCC-TCATGTCTTC-GAGGTAC-TGGATTCGTCG
* ** * *
8739993 TTGCAACTTAAACCTTTCCCTTTTGTGTCTTCGTGGTACTGGATTCGCCG
1 TTGCGACTTAAACCTTTCCC--TCATGTCTTCGAGGTACTGGATTCGTCG
* * * ** **
8740043 TTACGACTTAAATCTTTCCCTTCATAT-TTCTGAGGTA-TAAAGTTCACCG
1 TTGCGACTTAAACCTTTCCC-TCATGTCTTC-GAGGTACTGGA-TTCGTCG
* * *
8740092 TTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTATTGGATTCGTCG
1 TTGCGACTTAAACCTTTCCCT-CATGTCTTCGAGGTACTGGATTCGTCG
* * * * * * *
8740141 TTGTGGCTTAAATCTTTCACTTCATGT-ATCTGAGGTACAAGG-TTCGCCG
1 TTGCGACTTAAACCTTTC-CCTCATGTCTTC-GAGGTAC-TGGATTCGTCG
* * ** *
8740190 TTACGACTTAAACCTTTCCCTCCATATCTTCTTGGTACTGGATTCGCCG
1 TTGCGACTTAAACCTTTCCCT-CATGTCTTCGAGGTACTGGATTCGTCG
* * * * **
8740239 TTGCGGCCTAAATCTTTCCCTTAATGTC-TCTGAGGTACAAGATTCGTCG
1 TTGCGACTTAAACCTTTCCC-TCATGTCTTC-GAGGTACTGGATTCGTCG
* * ** *
8740288 TTGCGACTTAAACTTTTCCCTCCATATCTTCTTGGTACTGGATTCGCCG
1 TTGCGACTTAAACCTTTCCCT-CATGTCTTCGAGGTACTGGATTCGTCG
*
8740337 TTGCGACTTAAATCTTTCCCTTCATGT
1 TTGCGACTTAAACCTTTCCC-TCATGT
8740364 TTTGCGGTAC
Statistics
Matches: 619, Mismatches: 149, Indels: 90
0.72 0.17 0.10
Matches are distributed among these distances:
48 37 0.06
49 475 0.77
50 99 0.16
51 8 0.01
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (48 bp):
TTGCGACTTAAACCTTTCCCTCATGTCTTCGAGGTACTGGATTCGTCG
Found at i:8739608 original size:98 final size:98
Alignment explanation
Indices: 8739459--8740363 Score: 1101
Period size: 98 Copynumber: 9.2 Consensus size: 98
8739449 ATCTGTCGTT
* * * * * *
8739459 GCTTAAAT-TTTCCTTTCATGTTTTTGAGGTA-TAGAGTTCGCCATTGCGACTTAAACCTTTCCT
1 GCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAG-GTTCGTCGTTGCGACTTAAACCTTTCCT
* *
8739522 CTCGTGTCTTCGCGGTACTGGATTCACCGTTGCG
65 CTCGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
* **
8739556 ACTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGTCGTTATGACTTAAACCTTTCCAT
1 GCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCC-T
* *
8739621 -TCGTGTCTTCGTGGCATTGGATTCGCCGTTGCG
65 CTCGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
*
8739654 GCTTAAATCTTTCCCTTCATG-CTTCTAAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCT
1 GCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCT
* * * *
8739718 TTCGTGTCTTTGTGGTACTGGATTCGTCGTTGTG
65 CTCGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
8739752 GCTTAAATCTTTCCCTTCATG-CTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCC
1 GCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTT-CC
* * **
8739816 TTTTGTGTCTTCGTGGTACTGGATTCATCGTTGCG
64 TCTCGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
* *
8739851 GCTTAAATCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCC-C
1 GCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCTC
* * * *
8739915 TTTGTGTCTTTGTGGTACTAGATTCGCCATTGCG
66 -TCGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
* *
8739949 GCTTAAATATTTCCCTTCATG-CTTCTGAGGTACAAGGTTCGTCGTTGCAACTTAAACCTTTCCC
1 GCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTT-CC
* * *
8740013 TTTTGTGTCTTCGTGGTACTGGATTCGCCGTTACG
64 TCTCGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
* * * * * **
8740048 ACTTAAATCTTTCCCTTCATATTTCTGAGGTATAAAGTTCACCGTTGCGACTTAAACCTTTCC-C
1 GCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCTC
* * * * *
8740112 TCCATATCTTCGTGGTATTGGATTCGTCGTTGTG
66 T-CGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
* * * *
8740146 GCTTAAATCTTTCACTTCATGTATCTGAGGTACAAGGTTCGCCGTTACGACTTAAACCTTTCC-C
1 GCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCTC
* * *
8740210 TCCATATCTTCTTGGTACTGGATTCGCCGTTGCG
66 T-CGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
* * * *
8740244 GCCTAAATCTTTCCCTTAATGTCTCTGAGGTACAAGATTCGTCGTTGCGACTTAAACTTTTCC-C
1 GCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCTC
* * *
8740308 TCCATATCTTCTTGGTACTGGATTCGCCGTTGCG
66 T-CGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
*
8740342 ACTTAAATCTTTCCCTTCATGT
1 GCTTAAATCTTTCCCTTCATGT
8740364 TTTGCGGTAC
Statistics
Matches: 711, Mismatches: 84, Indels: 25
0.87 0.10 0.03
Matches are distributed among these distances:
97 10 0.01
98 525 0.74
99 176 0.25
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.39
Consensus pattern (98 bp):
GCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCTC
TCGTGTCTTCGTGGTACTGGATTCGCCGTTGCG
Found at i:8739924 original size:197 final size:197
Alignment explanation
Indices: 8739459--8740363 Score: 1178
Period size: 197 Copynumber: 4.6 Consensus size: 197
8739449 ATCTGTCGTT
* * * *
8739459 GCTTAAAT-TTTCCTTTCATGTTTTTGAGGTAT-AGAGTTCGCCATTGCGACTTAAACCTTT-CC
1 GCTTAAATCTTTCCCTTCATGTTTCTGAGGTATAAG-GTTCGTCGTTGCGACTTAAACCTTTCCC
* * * * *
8739521 TCTCGTGTCTTCGCGGTACTGGATTCACCGTTGCGACTTAAATCTTTCCCTTCATGTCTCTGAGG
65 T-TCGTGTCTTTGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTATCTGAGG
* * * *
8739586 TACAAGGTTCGTCGTTATGACTTAAACCTTT-CCATTCGTGTCTTCGTGGCATTGGATTCGCCGT
129 TACAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTTCGTGTCTTCGTGGTACTGGATTCGCCGT
8739650 TGCG
194 TGCG
* * * *
8739654 GCTTAAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCTT
1 GCTTAAATCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCT
* *
8739719 TCGTGTCTTTGTGGTACTGGATTCGTCGTTGTGGCTTAAATCTTTCCCTTCATGCT-TCTGAGGT
66 TCGTGTCTTTGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG-TATCTGAGGT
* * **
8739783 ACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTTTGTGTCTTCGTGGTACTGGATTCATCGTT
130 ACAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTTCGTGTCTTCGTGGTACTGGATTCGCCGTT
8739848 GCG
195 GCG
8739851 GCTTAAATCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCT
1 GCTTAAATCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCT
* * * *
8739916 TTGTGTCTTTGTGGTACTAGATTCGCCATTGCGGCTTAAATATTTCCCTTCATGCT-TCTGAGGT
66 TCGTGTCTTTGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG-TATCTGAGGT
* * *
8739980 ACAAGGTTCGTCGTTGCAACTTAAACCTTTCCCTTTTGTGTCTTCGTGGTACTGGATTCGCCGTT
130 ACAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTTCGTGTCTTCGTGGTACTGGATTCGCCGTT
*
8740045 ACG
195 GCG
* * * **
8740048 ACTTAAATCTTTCCCTTCATATTTCTGAGGTATAAAGTTCACCGTTGCGACTTAAACCTTTCCCT
1 GCTTAAATCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCT
* * * * * * * *
8740113 CCATATCTTCGTGGTATTGGATTCGTCGTTGTGGCTTAAATCTTTCACTTCATGTATCTGAGGTA
66 TCGTGTCTTTGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTATCTGAGGTA
* * * * *
8740178 CAAGGTTCGCCGTTACGACTTAAACCTTTCCC-TCCATATCTTCTTGGTACTGGATTCGCCGTTG
131 CAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTTCGTGTCTTCGTGGTACTGGATTCGCCGTTG
8740242 CG
196 CG
* * * * * *
8740244 GCCTAAATCTTTCCCTTAATGTCTCTGAGGTACAAGATTCGTCGTTGCGACTTAAACTTTTCCCT
1 GCTTAAATCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCT
* * * *
8740309 CCATATCTTCT-TGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCATGT
66 TCGTGTCTT-TGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGT
8740364 TTTGCGGTAC
Statistics
Matches: 624, Mismatches: 79, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
195 8 0.01
196 257 0.41
197 359 0.58
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.39
Consensus pattern (197 bp):
GCTTAAATCTTTCCCTTCATGTTTCTGAGGTATAAGGTTCGTCGTTGCGACTTAAACCTTTCCCT
TCGTGTCTTTGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTATCTGAGGTA
CAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTTCGTGTCTTCGTGGTACTGGATTCGCCGTTG
CG
Found at i:8740765 original size:29 final size:29
Alignment explanation
Indices: 8740723--8740781 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8740713 ATACAGTGCG
8740723 GGAAAGAATGAGATTGTATTAGAGTCAAA
1 GGAAAGAATGAGATTGTATTAGAGTCAAA
8740752 GGAAAGAATGAGATTGTATTAGAGTCAAA
1 GGAAAGAATGAGATTGTATTAGAGTCAAA
8740781 G
1 G
8740782 CTTGAAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.29, T:0.24
Consensus pattern (29 bp):
GGAAAGAATGAGATTGTATTAGAGTCAAA
Found at i:8752125 original size:29 final size:30
Alignment explanation
Indices: 8752065--8752206 Score: 120
Period size: 29 Copynumber: 4.9 Consensus size: 30
8752055 AGACATCCGA
* *
8752065 GGGT-AAAATGGTAATTTTTAG-AAGATTCG
1 GGGTCAAAATGG-AATTTTTAGAAAGTTTAG
*
8752094 GGGTCAAAAATGGAA-TTTT-GTAAGTTTAG
1 GGGTC-AAAATGGAATTTTTAGAAAGTTTAG
*
8752123 GGGT-AAAATGTAATTTTTAGAAAGTTT-G
1 GGGTCAAAATGGAATTTTTAGAAAGTTTAG
* * * *
8752151 TGATCAAAATGCAATTTTTAGAAAGTTCA-
1 GGGTCAAAATGGAATTTTTAGAAAGTTTAG
*
8752180 GGGTCAAAAATGGAA-TTTTGGAAAGTT
1 GGGTC-AAAATGGAATTTTTAGAAAGTT
8752207 CGAAGGTCAA
Statistics
Matches: 93, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
27 8 0.09
28 8 0.09
29 60 0.65
30 10 0.11
31 7 0.08
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (30 bp):
GGGTCAAAATGGAATTTTTAGAAAGTTTAG
Found at i:8752207 original size:29 final size:30
Alignment explanation
Indices: 8752040--8752218 Score: 119
Period size: 29 Copynumber: 6.1 Consensus size: 30
8752030 GTTCGAGATT
* * *
8752040 AAAAATGAAATTTTTAGACA-TCCGAGGGT-
1 AAAAATGGAATTTTTAGAAAGTTC-AGGGTC
*
8752069 -AAAATGGTAATTTTTAG-AAGATTCGGGGTC
1 AAAAATGG-AATTTTTAGAAAG-TTCAGGGTC
* *
8752099 AAAAATGGAA-TTTT-GTAAGTTTAGGGGT-
1 AAAAATGGAATTTTTAGAAAGTTCA-GGGTC
* * *
8752127 -AAAATGTAATTTTTAGAAAGTT-TGTGATC
1 AAAAATGGAATTTTTAGAAAGTTCAG-GGTC
*
8752156 -AAAATGCAATTTTTAGAAAGTTCAGGGTC
1 AAAAATGGAATTTTTAGAAAGTTCAGGGTC
* *
8752185 AAAAATGGAA-TTTTGGAAAGTTCGAAGGTC
1 AAAAATGGAATTTTTAGAAAGTTC-AGGGTC
8752215 AAAA
1 AAAA
8752219 TATAATTTCT
Statistics
Matches: 120, Mismatches: 16, Indels: 27
0.74 0.10 0.17
Matches are distributed among these distances:
27 9 0.08
28 16 0.13
29 66 0.55
30 22 0.18
31 7 0.06
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (30 bp):
AAAAATGGAATTTTTAGAAAGTTCAGGGTC
Found at i:8752225 original size:29 final size:28
Alignment explanation
Indices: 8752156--8752236 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 28
8752146 GTTTGTGATC
* *
8752156 AAAATGCAATTTTTAGAAAGTTCAGGGTCA
1 AAAATG-AA-TTTTGGAAAGTTCAAGGTCA
8752186 AAAATGGAATTTTGGAAAGTTCGAAGGTCA
1 AAAAT-GAATTTTGGAAAGTTC-AAGGTCA
*
8752216 AAATAT-AATTTCTGGACAGTT
1 AAA-ATGAATTT-TGGAAAGTT
8752237 TAGGAACCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
29 17 0.39
30 24 0.55
31 3 0.07
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (28 bp):
AAAATGAATTTTGGAAAGTTCAAGGTCA
Found at i:8753279 original size:19 final size:21
Alignment explanation
Indices: 8753255--8753300 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
8753245 ACTTTTTCTT
8753255 TTATTATTATT-AATAT-TAA
1 TTATTATTATTAAATATATAA
*
8753274 TTATTATTATTAAATATATAT
1 TTATTATTATTAAATATATAA
8753295 TTATTA
1 TTATTA
8753301 CCATATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 5 0.21
21 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTATTATTAAATATATAA
Found at i:8754088 original size:17 final size:17
Alignment explanation
Indices: 8754028--8754107 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
8754018 TAAATAAATT
*
8754028 TAAACTTAATATTTATAA
1 TAAACTTAA-ATTTAAAA
* **
8754046 TAAATTTAAATTCCAAA
1 TAAACTTAAATTTAAAA
** * *
8754063 TGGATTTAAATTTAATA
1 TAAACTTAAATTTAAAA
8754080 TAAACTTAAATTTAAAA
1 TAAACTTAAATTTAAAA
*
8754097 TAAATTTAAAT
1 TAAACTTAAAT
8754108 CTGTTGAGCC
Statistics
Matches: 48, Mismatches: 14, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 40 0.83
18 8 0.17
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAACTTAAATTTAAAA
Found at i:8764079 original size:17 final size:17
Alignment explanation
Indices: 8764054--8764087 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8764044 ACGAAACAGG
* *
8764054 GGAAGAAGAAAAGGGAA
1 GGAAAAAGAAAAAGGAA
8764071 GGAAAAAGAAAAAGGAA
1 GGAAAAAGAAAAAGGAA
8764088 AAACTAGGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
GGAAAAAGAAAAAGGAA
Found at i:8776700 original size:15 final size:16
Alignment explanation
Indices: 8776682--8776711 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8776672 GTTCTTAGAT
8776682 TACT-GGCACATAGCC
1 TACTAGGCACATAGCC
8776697 TACTAGGCACATAGC
1 TACTAGGCACATAGC
8776712 TTGAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (16 bp):
TACTAGGCACATAGCC
Found at i:8776791 original size:37 final size:37
Alignment explanation
Indices: 8776686--8776791 Score: 140
Period size: 37 Copynumber: 2.9 Consensus size: 37
8776676 TTAGATTACT
* * *
8776686 GGCACATAGCCTACTAGGCACATAGCTTGAAAACATC
1 GGCACATAGCCTACTAGGCACATAGCCTGAATACACC
* *
8776723 GACACATAGCCTACTAGACACATAGCCTGAATACACC
1 GGCACATAGCCTACTAGGCACATAGCCTGAATACACC
* * *
8776760 GGCACAAAACCTACAAGGCACATAGCCTGAAT
1 GGCACATAGCCTACTAGGCACATAGCCTGAAT
8776792 TTTATATGCA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.16
Consensus pattern (37 bp):
GGCACATAGCCTACTAGGCACATAGCCTGAATACACC
Found at i:8782079 original size:97 final size:96
Alignment explanation
Indices: 8781894--8782083 Score: 224
Period size: 97 Copynumber: 2.0 Consensus size: 96
8781884 CAATTTGGAG
* ** * **
8781894 AAGGATATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAAATTTTTA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGCGCAAATTTCGA
*
8781959 TAATCGAAGATAAGGAAACATTGCCTCGATT
66 TAATCGAAGATAAAGAAACATTGCCTCGATT
* * *
8781990 AAGGGTATTCGATTATTTCGATTTTGAAGAAAAATTACACCTAGTAAGTTTAGGCGCAAAATTTC
1 AAGGATATTCGATTATCTCGA-TTTGAAGAAAAATTACACCTAGTAAGTTAAGGCGC-AAATTTC
*
8782055 GA-AACTCGAA-ATAAA-AGAATATTGCCTCG
64 GATAA-TCGAAGATAAAGA-AACATTGCCTCG
8782084 TTTTTAAAGT
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
96 19 0.24
97 48 0.61
98 12 0.15
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATTACACCTAGTAAGTTAAGGCGCAAATTTCGA
TAATCGAAGATAAAGAAACATTGCCTCGATT
Found at i:8782514 original size:59 final size:58
Alignment explanation
Indices: 8782408--8782540 Score: 160
Period size: 59 Copynumber: 2.3 Consensus size: 58
8782398 AAAAATCCAA
* *
8782408 GGGTAAAACGGTAATTTTAGAAAAATCGAGATAAAAAACTGAATTTTTGGACATCCGG
1 GGGTAAAAAGGTAATTTTAGAAAAATCGAGATAAAAAACTGAATTTTTAGACATCCGG
* * * **
8782466 GGGTAAAAAGGTAATTTTAAGAAGAATCGGGATCAAAAAC-GAAATTTTTAGACATTTGG
1 GGGTAAAAAGGTAATTTT-AGAAAAATCGAGATAAAAAACTG-AATTTTTAGACATCCGG
* *
8782525 GGGCAAAAATGTAATT
1 GGGTAAAAAGGTAATT
8782541 CTTTGAAGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 18 0.28
59 46 0.72
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.26
Consensus pattern (58 bp):
GGGTAAAAAGGTAATTTTAGAAAAATCGAGATAAAAAACTGAATTTTTAGACATCCGG
Found at i:8782540 original size:29 final size:29
Alignment explanation
Indices: 8782520--8782687 Score: 198
Period size: 29 Copynumber: 5.8 Consensus size: 29
8782510 TTTTTAGACA
8782520 TTTGGGGGCAAAAATGTAATTCTTT-GAAG
1 TTTGGGGGCAAAAATGTAATT-TTTGGAAG
* *
8782549 TTCGGGGGCAAAAATGGAATTTTTGGAAG
1 TTTGGGGGCAAAAATGTAATTTTTGGAAG
*
8782578 TTTGGGGG-AAAAATGGAATTTTTTGGAAG
1 TTTGGGGGCAAAAATGTAA-TTTTTGGAAG
* * *
8782607 TTCGGAGGCAACAATGTAATTTTTGGAAG
1 TTTGGGGGCAAAAATGTAATTTTTGGAAG
* * * *
8782636 TTTTAGGGTCAAAAATGTAATATTTGAAAG
1 -TTTGGGGGCAAAAATGTAATTTTTGGAAG
8782666 TTTGGGGGC-AAAATGTAATTTT
1 TTTGGGGGCAAAAATGTAATTTT
8782688 CAAAAGTATT
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.21
29 63 0.53
30 30 0.25
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (29 bp):
TTTGGGGGCAAAAATGTAATTTTTGGAAG
Found at i:8782693 original size:28 final size:28
Alignment explanation
Indices: 8782520--8782719 Score: 179
Period size: 29 Copynumber: 6.9 Consensus size: 28
8782510 TTTTTAGACA
8782520 TTTGGGGGCAAAAATGTAATTCTTT-GAAG
1 TTTGGGGGC-AAAATGTAATT-TTTGGAAG
* *
8782549 TTCGGGGGCAAAAATGGAATTTTTGGAAG
1 TTTGGGGGC-AAAATGTAATTTTTGGAAG
* *
8782578 TTTGGGGGAAAAATGGAATTTTTTGGAAG
1 TTTGGGGGCAAAATGTAA-TTTTTGGAAG
* *
8782607 TTCGGAGGCAACAATGTAATTTTTGGAAG
1 TTTGGGGGCAA-AATGTAATTTTTGGAAG
* * * *
8782636 TTTTAGGGTCAAAAATGTAATATTTGAAAG
1 -TTTGGGGGC-AAAATGTAATTTTTGGAAG
***
8782666 TTTGGGGGCAAAATGTAATTTTCAAAAG
1 TTTGGGGGCAAAATGTAATTTTTGGAAG
* *
8782694 TATT-GGGTCAAAATATAATTTTTGGA
1 T-TTGGGGGCAAAATGTAATTTTTGGA
8782720 TTGTTTAGGG
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
28 46 0.33
29 67 0.48
30 26 0.18
31 2 0.01
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.34
Consensus pattern (28 bp):
TTTGGGGGCAAAATGTAATTTTTGGAAG
Found at i:8783624 original size:12 final size:12
Alignment explanation
Indices: 8783607--8783638 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
8783597 TTTTAAACCA
8783607 TTTTGTTTCCTT
1 TTTTGTTTCCTT
8783619 TTTTGTTTCCTT
1 TTTTGTTTCCTT
8783631 TTTTGTTT
1 TTTTGTTT
8783639 ATCCCCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.78
Consensus pattern (12 bp):
TTTTGTTTCCTT
Found at i:8783890 original size:22 final size:22
Alignment explanation
Indices: 8783871--8783923 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
8783861 CTTATTAAAG
* *
8783871 CTATTAATGAAATTATTTAATA
1 CTATTAATAAAACTATTTAATA
*
8783893 TTATTAATAAAACTATTTAATA
1 CTATTAATAAAACTATTTAATA
8783915 C-ATTTAATA
1 CTA-TTAATA
8783924 TGTATTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (22 bp):
CTATTAATAAAACTATTTAATA
Found at i:8784547 original size:157 final size:157
Alignment explanation
Indices: 8784261--8784578 Score: 636
Period size: 157 Copynumber: 2.0 Consensus size: 157
8784251 TCAAAGAAAG
8784261 TTTTGTATTTGTTTTGTATTACAGAAAGTCGGTGATTGTATTGATGTCCAGAAAGGGTTTTTTTT
1 TTTTGTATTTGTTTTGTATTACAGAAAGTCGGTGATTGTATTGATGTCCAGAAAGGGTTTTTTTT
8784326 TCATTACATATGGTTTGAATCTGGTTTTATAACCAGATATTACAATCATGCTATTTTGTTTTACA
66 TCATTACATATGGTTTGAATCTGGTTTTATAACCAGATATTACAATCATGCTATTTTGTTTTACA
8784391 TCACTTAAATGCCTTTCTTTTCTTCCA
131 TCACTTAAATGCCTTTCTTTTCTTCCA
8784418 TTTTGTATTTGTTTTGTATTACAGAAAGTCGGTGATTGTATTGATGTCCAGAAAGGGTTTTTTTT
1 TTTTGTATTTGTTTTGTATTACAGAAAGTCGGTGATTGTATTGATGTCCAGAAAGGGTTTTTTTT
8784483 TCATTACATATGGTTTGAATCTGGTTTTATAACCAGATATTACAATCATGCTATTTTGTTTTACA
66 TCATTACATATGGTTTGAATCTGGTTTTATAACCAGATATTACAATCATGCTATTTTGTTTTACA
8784548 TCACTTAAATGCCTTTCTTTTCTTCCA
131 TCACTTAAATGCCTTTCTTTTCTTCCA
8784575 TTTT
1 TTTT
8784579 TTGCAGGTTC
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 161 1.00
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (157 bp):
TTTTGTATTTGTTTTGTATTACAGAAAGTCGGTGATTGTATTGATGTCCAGAAAGGGTTTTTTTT
TCATTACATATGGTTTGAATCTGGTTTTATAACCAGATATTACAATCATGCTATTTTGTTTTACA
TCACTTAAATGCCTTTCTTTTCTTCCA
Found at i:8784915 original size:6 final size:6
Alignment explanation
Indices: 8784906--8784953 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
8784896 TACAATAATA
* *
8784906 TTAAAT TTAAA- TTAAAT TCAAAC TTAAA- TTAAAT TTAAA- -TAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
8784950 TTAA
1 TTAA
8784954 TTTCAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
4 4 0.11
5 10 0.29
6 21 0.60
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:8784920 original size:28 final size:27
Alignment explanation
Indices: 8784889--8784953 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
8784879 TAATGGACAT
8784889 TTAAATTTACAA-TAATATTAAATTTAAA
1 TTAAATTTA-AACTAA-ATTAAATTTAAA
*
8784917 TTAAATTCAAACTTAAATTAAATTTAAA
1 TTAAATTTAAAC-TAAATTAAATTTAAA
8784945 -TAAATTTAA
1 TTAAATTTAA
8784954 TTTCAAAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 10 0.30
28 20 0.61
29 3 0.09
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.42
Consensus pattern (27 bp):
TTAAATTTAAACTAAATTAAATTTAAA
Found at i:8784921 original size:11 final size:11
Alignment explanation
Indices: 8784906--8784953 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
8784896 TACAATAATA
8784906 TTAAATTTAAA-
1 TTAAA-TTAAAT
*
8784917 TTAAATTCAAAC
1 TTAAATT-AAAT
8784929 TTAAATTAAAT
1 TTAAATTAAAT
8784940 TTAAA-TAAAT
1 TTAAATTAAAT
8784950 TTAA
1 TTAA
8784954 TTTCAAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
10 11 0.32
11 16 0.47
12 7 0.21
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:8784922 original size:5 final size:5
Alignment explanation
Indices: 8784905--8784955 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
8784895 TTACAATAAT
*
8784905 ATTAA ATTTAA ATTAA ATTCAA ACTTAA ATTAA ATTTAA A-TAA ATTTA
1 ATTAA A-TTAA ATTAA ATT-AA A-TTAA ATTAA A-TTAA ATTAA ATTAA
8784953 ATT
1 ATT
8784956 TCAAAGTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
4 4 0.10
5 18 0.45
6 16 0.40
7 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:8786711 original size:14 final size:13
Alignment explanation
Indices: 8786687--8786734 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
8786677 CAAAATGTAC
8786687 AATATAATTAAAT
1 AATATAATTAAAT
8786700 AATATAAATTAAAT
1 AATAT-AATTAAAT
8786714 --TA-AATTAAAT
1 AATATAATTAAAT
*
8786724 AATTTAATTAA
1 AATATAATTAA
8786735 CTATTTACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 8 0.27
12 3 0.10
13 11 0.37
14 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATAATTAAAT
Found at i:8786725 original size:19 final size:18
Alignment explanation
Indices: 8786692--8786734 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
8786682 TGTACAATAT
8786692 AATTAAATAATATAAATTA
1 AATTAAATAATAT-AATTA
*
8786711 AATTAAATTAA-ATAATTT
1 AATTAAA-TAATATAATTA
8786729 AATTAA
1 AATTAA
8786735 CTATTTACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTAAATAATATAATTA
Found at i:8792193 original size:20 final size:20
Alignment explanation
Indices: 8792168--8792217 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8792158 GTAGACAGAT
8792168 GTTGATCGATGTTCACCAAC
1 GTTGATCGATGTTCACCAAC
**
8792188 GTTGATC-AGTGTTGGCCAAC
1 GTTGATCGA-TGTTCACCAAC
*
8792208 TTTGATCGAT
1 GTTGATCGAT
8792218 ATATCATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (20 bp):
GTTGATCGATGTTCACCAAC
Found at i:8801634 original size:33 final size:33
Alignment explanation
Indices: 8801594--8801661 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
8801584 TTATTTCTTA
* *
8801594 AAATATA-TTATAAAAATTATATATAAATTAAAT
1 AAATATATTTAT-AAAATGACATATAAATTAAAT
8801627 AAATATATTTATAAAATGACATATAAATTAAAT
1 AAATATATTTATAAAATGACATATAAATTAAAT
8801660 AA
1 AA
8801662 GTCCTAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (33 bp):
AAATATATTTATAAAATGACATATAAATTAAAT
Found at i:8803231 original size:16 final size:15
Alignment explanation
Indices: 8803207--8803242 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
8803197 ATCTTCCATA
8803207 AAATATTAATAAAAT
1 AAATATTAATAAAAT
8803222 AAATATTTAATAAAAT
1 AAATA-TTAATAAAAT
8803238 AAATA
1 AAATA
8803243 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATTAATAAAAT
Found at i:8803247 original size:23 final size:24
Alignment explanation
Indices: 8803219--8803273 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
8803209 ATATTAATAA
8803219 AATAAATATTTAATAAAATA-AAT
1 AATAAATATTTAATAAAATACAAT
* * *
8803242 AATAAATTTTTAATGAATTACAAT
1 AATAAATATTTAATAAAATACAAT
8803266 AATAAATA
1 AATAAATA
8803274 AAACTCGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AATAAATATTTAATAAAATACAAT
Found at i:8803954 original size:8 final size:8
Alignment explanation
Indices: 8803941--8803965 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8803931 TACTTCCAAC
8803941 TTTTCTTT
1 TTTTCTTT
8803949 TTTTCTTT
1 TTTTCTTT
8803957 TTTTCTTT
1 TTTTCTTT
8803965 T
1 T
8803966 CTCACTCCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTCTTT
Found at i:8805240 original size:49 final size:51
Alignment explanation
Indices: 8805166--8805266 Score: 163
Period size: 49 Copynumber: 2.0 Consensus size: 51
8805156 TATATCTATT
*
8805166 TAAAGGTTGAAAAAACTTTATTCTAATTAATGTCAAATA-AATGAAGTGTAG
1 TAAAGGTTGAAAAAACCTTATTCTAATTAATGTCAAATAGAA-GAAGTGTAG
8805217 TAAA-GTTG-AAAAACCTTATTCTAATTAATGTCAAATAGAAGAAGTGTAG
1 TAAAGGTTGAAAAAACCTTATTCTAATTAATGTCAAATAGAAGAAGTGTAG
8805266 T
1 T
8805267 TCTATACGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
49 38 0.79
50 6 0.12
51 4 0.08
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (51 bp):
TAAAGGTTGAAAAAACCTTATTCTAATTAATGTCAAATAGAAGAAGTGTAG
Found at i:8809496 original size:34 final size:34
Alignment explanation
Indices: 8809453--8809521 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
8809443 TCATAGTAAG
8809453 TTAACCATTACATATTCCTCATGAAAAAGTCAAT
1 TTAACCATTACATATTCCTCATGAAAAAGTCAAT
8809487 TTAACCATTACATATTCCTCATGAAAAAGTCAAT
1 TTAACCATTACATATTCCTCATGAAAAAGTCAAT
8809521 T
1 T
8809522 ACTAACAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (34 bp):
TTAACCATTACATATTCCTCATGAAAAAGTCAAT
Found at i:8820573 original size:9 final size:9
Alignment explanation
Indices: 8820554--8820619 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
8820544 ATGATTTTTG
8820554 TTATAAAAAA
1 TTAT-AAAAA
*
8820564 TTTTAAAAA
1 TTATAAAAA
*
8820573 TTATCAAAA
1 TTATAAAAA
* **
8820582 TTGTAAATG
1 TTATAAAAA
8820591 TTATAAAAA
1 TTATAAAAA
*
8820600 TTATCAAAA
1 TTATAAAAA
*
8820609 TGATAAGAAA
1 TTATAA-AAA
8820619 T
1 T
8820620 AAAAAAAGTA
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
9 35 0.83
10 7 0.17
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:8828232 original size:33 final size:34
Alignment explanation
Indices: 8828179--8828243 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
8828169 TTAAAGCTAG
8828179 TTAAAGGTTAAAAAAAGAAGTTTAGGGAACAATTA
1 TTAAAGGTT-AAAAAAGAAGTTTAGGGAACAATTA
8828214 TTAAAGGTT-AAAAAGAAGTTTAGGGAACAA
1 TTAAAGGTTAAAAAAGAAGTTTAGGGAACAA
8828244 AATTGTTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 21 0.70
35 9 0.30
ACGTcount: A:0.51, C:0.03, G:0.22, T:0.25
Consensus pattern (34 bp):
TTAAAGGTTAAAAAAGAAGTTTAGGGAACAATTA
Found at i:8834173 original size:6 final size:6
Alignment explanation
Indices: 8834162--8834196 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
8834152 ACTTGGGAGA
8834162 GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT GAGTG
1 GAGTGT GAGTGT GAGTGT GAGTGT GAGTGT GAGTG
8834197 AGAGAGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.31
Consensus pattern (6 bp):
GAGTGT
Found at i:8834242 original size:6 final size:6
Alignment explanation
Indices: 8834231--8834255 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8834221 AAGTTTGAAA
8834231 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
8834256 GAGAGGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:8836117 original size:44 final size:45
Alignment explanation
Indices: 8836069--8836158 Score: 173
Period size: 44 Copynumber: 2.0 Consensus size: 45
8836059 TTATGCTAAA
8836069 ATTCTATTCAAATTAAAACTCAA-TTTATGTGATTTTTTAAAATT
1 ATTCTATTCAAATTAAAACTCAATTTTATGTGATTTTTTAAAATT
8836113 ATTCTATTCAAATTAAAACTCAATTTTATGTGATTTTTTAAAATT
1 ATTCTATTCAAATTAAAACTCAATTTTATGTGATTTTTTAAAATT
8836158 A
1 A
8836159 AGCTATCATA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 23 0.51
45 22 0.49
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (45 bp):
ATTCTATTCAAATTAAAACTCAATTTTATGTGATTTTTTAAAATT
Found at i:8837813 original size:30 final size:28
Alignment explanation
Indices: 8837766--8838251 Score: 193
Period size: 29 Copynumber: 16.7 Consensus size: 28
8837756 GGATACTCGG
*
8837766 GGGGCAAAATGGTAATTTTTGGTGAAATT
1 GGGGTAAAATGGTAA-TTTTGGTGAAATT
* *
8837795 GGGGTCGAAAATGG-AATTTTAG-AAAATTT
1 GGGGT--AAAATGGTAATTTTGGTGAAA-TT
8837824 AGGGGTAAAATGGTAATTTTGGTGAAATT
1 -GGGGTAAAATGGTAATTTTGGTGAAATT
*
8837853 GGGGTTAAAAATGG-AAATTT-G-GAAAGTT
1 GGGG-T-AAAATGGTAATTTTGGTGAAA-TT
* * *
8837881 CGGGGGTGAAATGGTAATTTCGGTGAAATCA
1 --GGGGTAAAATGGTAATTTTGGTGAAAT-T
* ** * *
8837912 AGATTAAAAATGG-AATTTTGGAG-AGTT
1 GGGGT-AAAATGGTAATTTTGGTGAAATT
* * * *
8837939 CAGGGGTGAAATGGTAATTTCGATGAAATCA
1 --GGGGTAAAATGGTAATTTTGGTGAAAT-T
** *
8837970 GGATTAAAAATAG-AATTTT-G-GAAAGTT
1 GGGGT-AAAATGGTAATTTTGGTGAAA-TT
* *
8837997 CGGGGGTAAAATGGTCATTTTTGGTGAAATC
1 --GGGGTAAAATGGT-AATTTTGGTGAAATT
* *
8838028 GAGGTCAAAAATGG-AATTTTGG-GAAGTTT
1 GGGGT--AAAATGGTAATTTTGGTGAA-ATT
* *
8838057 AGGGGTAAAATGGTAATTTTTGGTAAAATA
1 -GGGGTAAAATGGTAA-TTTTGGTGAAATT
*
8838087 GGGGTTAAAATAG-AATTTT-G-GAAAGTT
1 GGGG-TAAAATGGTAATTTTGGTGAAA-TT
* *
8838114 CGAGGGTAAAATGGTAATTTTTGGTAAAATC
1 -G-GGGTAAAATGGTAA-TTTTGGTGAAATT
*
8838145 GGGGTTAAAATAG-AATTTT-G-GAAAGTT
1 GGGG-TAAAATGGTAATTTTGGTGAAA-TT
* *
8838172 CGGGGGTAAAATGGTTATTTTTGGTGAAATC
1 --GGGGTAAAATGG-TAATTTTGGTGAAATT
*
8838203 GGGGTCAATAATGG-AATTTTGG-GAAGTTT
1 GGGGT-AA-AATGGTAATTTTGGTGAA-ATT
8838232 GGGGTAAAATAGGTAATTTT
1 GGGGTAAAAT-GGTAATTTT
8838252 TGGAAGTTTA
Statistics
Matches: 338, Mismatches: 62, Indels: 114
0.66 0.12 0.22
Matches are distributed among these distances:
26 6 0.02
27 15 0.04
28 78 0.23
29 119 0.35
30 78 0.23
31 31 0.09
32 11 0.03
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGGTAAAATGGTAATTTTGGTGAAATT
Found at i:8837853 original size:58 final size:58
Alignment explanation
Indices: 8837766--8838251 Score: 512
Period size: 58 Copynumber: 8.3 Consensus size: 58
8837756 GGATACTCGG
* * * * * *
8837766 GGGGCAAAATGGTAATTTTTGGTGAAATTGGGGTCGAAAATGGAATTTTAGAAAATTTA
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * *
8837825 GGGGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAAATTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * ** * * *
8837883 GGGGTGAAATGGTAATTTCGGTGAAATCAAGATTAAAAATGGAATTTTGGAGAGTTCA
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * * * * * *
8837941 GGGGTGAAATGGTAATTTCGATGAAATCAGGATTAAAAATAGAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * *
8837999 GGGGTAAAATGGTCATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGGAAGTTTA
1 GGGGTAAAATGGT-AATTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * *
8838058 GGGGTAAAATGGTAATTTTTGGTAAAATAGGGGT-TAAAATAGAATTTTGGAAAGTTC-
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * *
8838115 GAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGT-TAAAATAGAATTTTGGAAAGTTCG
1 G-GGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
* * * *
8838174 GGGGTAAAATGGTTATTTTTGGTGAAATCGGGGTCAATAATGGAATTTTGGGAAGTT-T
1 GGGGTAAAATGG-TAATTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
8838232 GGGGTAAAATAGGTAATTTT
1 GGGGTAAAAT-GGTAATTTT
8838252 TGGAAGTTTA
Statistics
Matches: 369, Mismatches: 51, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
57 1 0.00
58 269 0.73
59 99 0.27
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
Found at i:8838074 original size:117 final size:117
Alignment explanation
Indices: 8837765--8838254 Score: 567
Period size: 116 Copynumber: 4.2 Consensus size: 117
8837755 TGGATACTCG
* * * * * * *
8837765 GGGGGCAAAATGGTAATTTTTGGTGAAATTGGGGTCGAAAATGGAATTTTAGAAAATTTAGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTCAGGGGT
** * *
8837830 AAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAAATTTGGAAAGTTC
66 AAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATAGAATTTTGGAAAGTTC
* * * * * *
8837882 GGGGGTGAAATGGTAA-TTTCGGTGAAATCAAGATTAAAAATGGAATTTTGGAGAGTTCAGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTCAGGGGT
* * * *
8837946 GAAATGGTAATTTCGATGAAATCAGGATTAAAAATAGAATTTTGGAAAGTTC
66 AAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATAGAATTTTGGAAAGTTC
* * *
8837998 GGGGGTAAAATGGTCATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGGAAGTTTAGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTCAGGGGT
*
8838063 AAAATGGTAATTTTTGGTAAAAT-AGGGGTT-AAAATAGAATTTTGGAAAGTTC
66 AAAATGGTAA-TTTTGGTGAAATCA-GGGTTAAAAATAGAATTTTGGAAAGTTC
* * * * * *
8838115 GAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGT-TAAAATAGAATTTTGGAAAGTTCGGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTCAGGGGT
* * * * * *
8838179 AAAATGGTTATTTTTGGTGAAATCGGGGTCAATAATGGAATTTTGGGAAGTT-
66 AAAATGG-TAATTTTGGTGAAATCAGGGTTAAAAATAGAATTTTGGAAAGTTC
*
8838231 TGGGGTAAAATAGGTAATTTTTGG
1 GGGGGTAAAAT-GGTAATTTTTGG
8838255 AAGTTTAAGG
Statistics
Matches: 313, Mismatches: 53, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
116 150 0.48
117 150 0.48
118 13 0.04
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.32
Consensus pattern (117 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTCAGGGGT
AAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATAGAATTTTGGAAAGTTC
Found at i:8838251 original size:175 final size:175
Alignment explanation
Indices: 8837766--8838254 Score: 603
Period size: 175 Copynumber: 2.8 Consensus size: 175
8837756 GGATACTCGG
* * * * * * **
8837766 GGGGCAAAATGGTAATTTTTGGTGAAATTGGGGTCGAAAATGGAATTTTAGAAAATTTAGGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGT-TAAAATAGAATTTTGGAAAGTTCGGGGGTA
* * * * * * *
8837831 AAATGG-TAATTTTGGTGAAATTGGGGTTAAAAATGGAAATTTGGAAAGTTCGGGGGTGAAATGG
65 AAATGGTTATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGGAAGTT-TGGGGTAAAATGG
* * * *
8837895 TAA-TTTCGGTGAAATCAAGATTAAAAATGGAATTTTGGAGAGTTCA
129 TAATTTTTGGTAAAATCAAGATTAAAAATAGAATTTTGGAAAGTTCA
* * * * *
8837941 GGGGTGAAATGGTAA-TTTCGATGAAATCAGGATTAAAAATAGAATTTTGGAAAGTTCGGGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATAGAATTTTGGAAAGTTCGGGGGTA
* *
8838005 AAATGGTCATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGGAAGTTTAGGGGTAAAATGG
65 AAATGGTTATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGGAAGTTT-GGGGTAAAATGG
* *
8838070 TAATTTTTGGTAAAAT-AGGGGTT-AAAATAGAATTTTGGAAAGTTC-
129 TAATTTTTGGTAAAATCA-AGATTAAAAATAGAATTTTGGAAAGTTCA
*
8838115 GAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAATAGAATTTTGGAAAGTTCGGGGGTA
1 G-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATAGAATTTTGGAAAGTTCGGGGGTA
*
8838180 AAATGGTTATTTTTGGTGAAATCGGGGTCAATAATGGAATTTTGGGAAGTTTGGGGTAAAATAGG
65 AAATGGTTATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGGAAGTTTGGGGTAAAAT-GG
8838245 TAATTTTTGG
129 TAATTTTTGG
8838255 AAGTTTAAGG
Statistics
Matches: 269, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
174 54 0.20
175 188 0.70
176 27 0.10
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.32
Consensus pattern (175 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATAGAATTTTGGAAAGTTCGGGGGTAA
AATGGTTATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGGAAGTTTGGGGTAAAATGGTA
ATTTTTGGTAAAATCAAGATTAAAAATAGAATTTTGGAAAGTTCA
Done.