Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 64 of 259
Found at i:20530617 original size:31 final size:32
Alignment explanation
Indices: 20530570--20530631 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
20530560 CTCGCTGCAA
* *
20530570 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACGATATATATATCTGT
* *
20530601 TCTGGTGGCCTAGCCACGATATCTGTATCTG
1 TCTGGTGGCCTAGCCACGATATATATATCTG
20530632 GTGACTTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACGATATATATATCTGT
Found at i:20534097 original size:42 final size:42
Alignment explanation
Indices: 20534038--20534139 Score: 204
Period size: 42 Copynumber: 2.4 Consensus size: 42
20534028 TGTTGGTTTC
20534038 GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
1 GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
20534080 GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
1 GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
20534122 GGCACTAAGTGTGCGGGT
1 GGCACTAAGTGTGCGGGT
20534140 TCAAATTGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.29
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
Found at i:20534188 original size:28 final size:28
Alignment explanation
Indices: 20534123--20534221 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
20534113 CATGAGATTG
* * *
20534123 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
20534152 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
20534180 GCACTAAGTGTGCGAGTTCGACTACTA-A
1 GCACTAAGTGTGCGAGTTAGATTA-TATA
20534208 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
20534222 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 44 0.70
29 19 0.30
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:20535816 original size:80 final size:80
Alignment explanation
Indices: 20535705--20535862 Score: 298
Period size: 80 Copynumber: 2.0 Consensus size: 80
20535695 AGAGCTATGG
* *
20535705 TTTAGTCGGTTCTATGACTACCATAGCACGTATGAGTCTAGCTATACATGCCTTAATGTTAATGT
1 TTTAGTCGGTTCTAGGACTACCATAGCACGTATCAGTCTAGCTATACATGCCTTAATGTTAATGT
20535770 TTAAATGTGTGATAA
66 TTAAATGTGTGATAA
20535785 TTTAGTCGGTTCTAGGACTACCATAGCACGTATCAGTCTAGCTATACATGCCTTAATGTTAATGT
1 TTTAGTCGGTTCTAGGACTACCATAGCACGTATCAGTCTAGCTATACATGCCTTAATGTTAATGT
20535850 TTAAATGTGTGAT
66 TTAAATGTGTGAT
20535863 GACTTCTGAC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (80 bp):
TTTAGTCGGTTCTAGGACTACCATAGCACGTATCAGTCTAGCTATACATGCCTTAATGTTAATGT
TTAAATGTGTGATAA
Found at i:20542184 original size:28 final size:28
Alignment explanation
Indices: 20542119--20542215 Score: 106
Period size: 28 Copynumber: 3.4 Consensus size: 28
20542109 CATGAGATTG
* * *
20542119 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
20542148 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* * *
20542176 GCACTAAGTGTGCGAGCTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
20542204 GCACTAAGTGTG
1 GCACTAAGTGTG
20542216 TGGGCTTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.70
29 17 0.28
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:20550891 original size:46 final size:46
Alignment explanation
Indices: 20550824--20550949 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
20550814 AACCCGCCCC
* * *
20550824 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
20550870 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
20550916 TAAGTGAACTCGGACTCAACTCCACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
20550950 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:20550968 original size:46 final size:45
Alignment explanation
Indices: 20550826--20550968 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
20550816 CCCGCCCCTA
* ** * *
20550826 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** *
20550871 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*
20550917 AAGTGAACTCGGACTCAACTCCACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
20550964 AGTGA
1 AGTGA
20550969 CATGTCACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 81 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:20555384 original size:16 final size:17
Alignment explanation
Indices: 20555363--20555394 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20555353 AATTTGGCTG
20555363 AGAAAA-TTATTTAATT
1 AGAAAATTTATTTAATT
20555379 AGAAAATTTATTTAAT
1 AGAAAATTTATTTAAT
20555395 AAATAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AGAAAATTTATTTAATT
Found at i:20561596 original size:71 final size:71
Alignment explanation
Indices: 20561512--20561654 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
20561502 CTTGTGCTAC
20561512 TCGGTAAAAATACCTAATAGTCACAAGTATATGTTAGAGTAAGAATTTGATGTTGCCATAGAAGG
1 TCGGTAAAAATACCTAATAGTCACAAGTATATGTTAGAGTAAGAATTTGATGTTGCCATAGAAGG
20561577 GAAAAA
66 GAAAAA
*
20561583 TCGGTAAAAATACCTAATAGTCACAAGTGTATGTTAGAGTAAGAATTTGATGTTGCCATAGAAGG
1 TCGGTAAAAATACCTAATAGTCACAAGTATATGTTAGAGTAAGAATTTGATGTTGCCATAGAAGG
20561648 GAAAAA
66 GAAAAA
20561654 T
1 T
20561655 GATCAGCATG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (71 bp):
TCGGTAAAAATACCTAATAGTCACAAGTATATGTTAGAGTAAGAATTTGATGTTGCCATAGAAGG
GAAAAA
Found at i:20573614 original size:34 final size:34
Alignment explanation
Indices: 20573571--20573640 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
20573561 TTGTGAGATT
*
20573571 GAGCCAGTATGCTCGGGAATGTGTATCAAATGAA
1 GAGCCAGTATGCTCGGGAATGTGTATCAAATAAA
*
20573605 GAGCCAGTATGCTCTGGAATGTGTATCAAATAAA
1 GAGCCAGTATGCTCGGGAATGTGTATCAAATAAA
20573639 GA
1 GA
20573641 ATAATGTGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.24
Consensus pattern (34 bp):
GAGCCAGTATGCTCGGGAATGTGTATCAAATAAA
Found at i:20578929 original size:43 final size:43
Alignment explanation
Indices: 20578785--20578935 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
20578775 GGTTACTGAA
* * *
20578785 ATGTGATTACATATAAGACCATGTCTAGAACATTGGCAT-TAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGAT
* * *
20578827 ATTGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGAT
* * * * * *
20578871 AAT-CGATTTCGTGTAAGACCCTATCTAGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGAT
*
20578914 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
20578936 ATTTGGGATA
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 3 0.03
43 80 0.93
44 2 0.02
45 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGAT
Found at i:20586545 original size:43 final size:43
Alignment explanation
Indices: 20586448--20586618 Score: 134
Period size: 43 Copynumber: 4.0 Consensus size: 43
20586438 ACTGAGATGT
* * *
20586448 GATTACATGTAAGACCATGTCAGGGACATTGGCATTGTATTGA
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
* *
20586491 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAAT-C
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTG-TAATGA
* * * * * ** *
20586534 GATTTCCTGTAAGACCCTATCTGGAACAGTGGCACCG-ATATGT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTA-ATGA
* * * * *
20586577 GATAACATGTAAGACCATATTTGGGATA-TGGCATTGT-ATGA
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
20586618 G
1 G
20586619 CCGTGGGTGG
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
41 5 0.05
42 8 0.08
43 85 0.84
44 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
Found at i:20591029 original size:47 final size:49
Alignment explanation
Indices: 20590952--20591314 Score: 192
Period size: 46 Copynumber: 7.7 Consensus size: 49
20590942 AAGGTATAAT
* *
20590952 GTCGATGCCATGTCCCAGCCATGGTCTTACACTGGCTCATC-CATC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * *
20590999 GTCGATGCCATGTCCCAGACAAGGTATTACACTGACT-ATCGAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-AAATCGAA
* * * *
20591048 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATC--C
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-A-ATCGAA
* * * *
20591096 GTGCTGATGCCATGTCCCAGACATGGTCGTACACTGACACATC---TCGTA
1 GT-C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * * ** *
20591144 GTTGATG-CATGTCCCTGACAT-GTCTTACATTGGCTTA-CATCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * * ***
20591190 GTTGATG-CATGTCCCAGACAT-GTCCTATACTAGCTC-TCGTCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * * **
20591235 TGCCAATGCCATGTCCCAGAAAGGGTCTTACAAC-GGCTC-TCATAAT-GTG
1 -GTCGATGCCATGTCCCAGACATGGTCTTAC-ACTGGCTCATCA-AATCGAA
*
20591284 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT
20591315 AGTGCACAAC
Statistics
Matches: 241, Mismatches: 53, Indels: 45
0.71 0.16 0.13
Matches are distributed among these distances:
43 1 0.00
44 11 0.05
45 16 0.07
46 58 0.24
47 57 0.24
48 24 0.10
49 39 0.16
50 33 0.14
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
Found at i:20591117 original size:50 final size:47
Alignment explanation
Indices: 20590954--20591131 Score: 159
Period size: 49 Copynumber: 3.7 Consensus size: 47
20590944 GGTATAATGT
* *
20590954 CGATGCCATGTCCCAGCCATGGTCTTACACTGGCTCATC-C-ATCAAGT-
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTC-TCACAATC-CGTG
* * * *
20591001 CGATGCCATGTCCCAGACAAGGTATTACACTGACTATCGA-AAT-CGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTC-ACAATCCG-TG
*
20591049 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTG
1 -CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCACA-ATCCGTG
*
20591099 CTGATGCCATGTCCCAGACATGGTCGTACACTG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTG
20591132 ACACATCTCG
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
46 4 0.04
47 30 0.28
48 3 0.03
49 35 0.33
50 32 0.30
51 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCACAATCCGTG
Found at i:20591132 original size:99 final size:96
Alignment explanation
Indices: 20590958--20591133 Score: 239
Period size: 96 Copynumber: 1.8 Consensus size: 96
20590948 TAATGTCGAT
* *
20590958 GCCATGTCCCAGCCATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACAAGG
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACAAGG
*
20591023 TATTACACTGACTATCGAAATCGAGGCCGAC
66 TAGTACACTGACTATCGAAATCGAGGCCGAC
*
20591054 GCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCCGTGCTGATGCCATGTCCCAGA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCA--AGT-C-GATGCCATGTCCCAGA
* *
20591117 CATGGTCGTACACTGAC
61 CAAGGTAGTACACTGAC
20591134 ACATCTCGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
95 3 0.04
96 33 0.48
97 2 0.03
98 1 0.01
99 30 0.43
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACAAGG
TAGTACACTGACTATCGAAATCGAGGCCGAC
Found at i:20597188 original size:30 final size:30
Alignment explanation
Indices: 20597154--20597219 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
20597144 GTTGTCCCAA
*
20597154 CCCTTTTCATAGCTCAACAGTTGAAGCTAT
1 CCCTTTTCATAGCTCAACAGCTGAAGCTAT
* *
20597184 CCCTTTTCATAGCTCAATAGCTGGAGCTAT
1 CCCTTTTCATAGCTCAACAGCTGAAGCTAT
20597214 CCCTTT
1 CCCTTT
20597220 CCATTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.35
Consensus pattern (30 bp):
CCCTTTTCATAGCTCAACAGCTGAAGCTAT
Found at i:20597271 original size:29 final size:30
Alignment explanation
Indices: 20597212--20597272 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
20597202 AGCTGGAGCT
* * *
20597212 ATCCCTTTCCATTATTTTATGGTTGTAACC
1 ATCCCTTTCCATTAGTTGATGGTCGTAACC
* *
20597242 ATCCCTTTTCATT-GTTGATGGTCGTCACC
1 ATCCCTTTCCATTAGTTGATGGTCGTAACC
20597271 AT
1 AT
20597273 TGTGATAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (30 bp):
ATCCCTTTCCATTAGTTGATGGTCGTAACC
Found at i:20598601 original size:46 final size:46
Alignment explanation
Indices: 20598548--20598670 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 46
20598538 ACCATCCGAC
*
20598548 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAA
* * *
20598594 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAA
* *
20598640 CTCGTTGAGTTGAGTACGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20598671 GTGGGTTACA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAA
Found at i:20600013 original size:30 final size:30
Alignment explanation
Indices: 20599975--20600050 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
20599965 GGGACATTAC
*
20599975 AACC-ATCCCTTTTCATAATTTGATAGCCG
1 AACCTATCCCTTTTCATAATTTGAGAGCCG
* *
20600004 AACCTATCCCTTTTCACAATTTGAGAGTCG
1 AACCTATCCCTTTTCATAATTTGAGAGCCG
*
20600034 AAGCTATCCCTTTTCAT
1 AACCTATCCCTTTTCAT
20600051 TGTTGAATAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 4 0.10
30 37 0.90
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (30 bp):
AACCTATCCCTTTTCATAATTTGAGAGCCG
Found at i:20601721 original size:42 final size:42
Alignment explanation
Indices: 20601605--20601731 Score: 159
Period size: 41 Copynumber: 3.1 Consensus size: 42
20601595 TAGAGCCTAG
* * *
20601605 TATAATACACCGGCA-CAGAGCTTGCTAAGCAATAAACCTGA
1 TATAATACACCGGCATCAAAGCCTGCTAAGCAATAAGCCTGA
* * *
20601646 TTTAATACACCAGCAT-AAAGCCTGCTATGCAATAAGCCTGA
1 TATAATACACCGGCATCAAAGCCTGCTAAGCAATAAGCCTGA
* * *
20601687 TATCATACACTGGCATCAAAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGCATCAAAGCCTGCTAAGCAATAAGCCTGA
20601729 TAT
1 TAT
20601732 TATATCACTG
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 46 0.63
42 27 0.37
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (42 bp):
TATAATACACCGGCATCAAAGCCTGCTAAGCAATAAGCCTGA
Found at i:20602986 original size:31 final size:30
Alignment explanation
Indices: 20602948--20603023 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 30
20602938 TACGGTTACC
20602948 ATCCCTTTT-TTATAATTTGATAGCC-AAGGCT
1 ATCCCTTTTATTAT--TTTGATAGCCGAA-GCT
20602979 ATCCCTTTTCATTATTTTGATAGCCGAAGCT
1 ATCCCTTTT-ATTATTTTGATAGCCGAAGCT
20603010 ATCCCTTTTCATTA
1 ATCCCTTTT-ATTA
20603024 GCCGATAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
31 36 0.86
32 2 0.05
33 4 0.10
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTATTATTTTGATAGCCGAAGCT
Found at i:20604738 original size:20 final size:20
Alignment explanation
Indices: 20604710--20604748 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20604700 CAACATACAT
* *
20604710 TTCACATACAATTTAATCAA
1 TTCAAATACAATTCAATCAA
20604730 TTCAAATACAATTCAATCA
1 TTCAAATACAATTCAATCA
20604749 CAACCAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
TTCAAATACAATTCAATCAA
Found at i:20606266 original size:39 final size:40
Alignment explanation
Indices: 20606210--20606290 Score: 146
Period size: 39 Copynumber: 2.0 Consensus size: 40
20606200 AGCATCATAT
20606210 ATATATACGTATACACTTTCATTGTAAACCAAACCATAATG
1 ATATATAC-TATACACTTTCATTGTAAACCAAACCATAATG
20606251 ATATATA-TATACACTTTCATTGTAAACCAAACCATAATG
1 ATATATACTATACACTTTCATTGTAAACCAAACCATAATG
20606290 A
1 A
20606291 CAAGCGTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 33 0.82
41 7 0.17
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (40 bp):
ATATATACTATACACTTTCATTGTAAACCAAACCATAATG
Found at i:20607703 original size:41 final size:41
Alignment explanation
Indices: 20607640--20607717 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
20607630 TCTGATATTT
* *
20607640 ATTCACCGGCACTAAGCCTGCTAGGCACAAAGCCCGATCAA
1 ATTCACCAGCACAAAGCCTGCTAGGCACAAAGCCCGATCAA
* *
20607681 ATTCACCAGCACAAAGCTTGCTAGGCTCAAAGCCCGA
1 ATTCACCAGCACAAAGCCTGCTAGGCACAAAGCCCGA
20607718 ATATCACAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.32, C:0.33, G:0.19, T:0.15
Consensus pattern (41 bp):
ATTCACCAGCACAAAGCCTGCTAGGCACAAAGCCCGATCAA
Found at i:20609263 original size:27 final size:27
Alignment explanation
Indices: 20609230--20609669 Score: 248
Period size: 27 Copynumber: 16.3 Consensus size: 27
20609220 CCTCAAATTG
*
20609230 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ****
20609257 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * ****
20609284 CAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * **** *
20609311 CAGAATTATCGTTTTACCCTCAATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *** * *
20609338 TAGAATTACTATTTTACCATTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *****
20609365 TAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
20609392 CAAAATTACTAAAATACCCT-TAGTTTA
1 TAAAATTACCAAAATACCCTCGA-TTTA
* *
20609419 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
20609445 GTAAAATTACCAAAATACCCTAG-TTTG
1 -TAAAATTACCAAAATACCCTCGATTTA
* * * *
20609472 TAAAATTGCTAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAATACCCTC-GATTTA
* * *
20609499 TAAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* *
20609526 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTA
* *
20609553 TAAAATTACCAAAATACCACT-GGTTTG
1 TAAAATTACCAAAATACC-CTCGATTTA
* *
20609580 TGAAATTACCAAAATACCCTCAATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
*
20609607 TAAAATTACCAAAATACCC-CTGGTTTA
1 TAAAATTACCAAAATACCCTC-GATTTA
* *
20609634 TAAAGTTA-CAGAAATACCCTCGACTTTC
1 TAAAATTACCA-AAATACCCTCGA-TTTA
20609662 TAAAATTA
1 TAAAATTA
20609670 TGGAAATACC
Statistics
Matches: 343, Mismatches: 55, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
26 28 0.08
27 301 0.88
28 14 0.04
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:20609437 original size:54 final size:54
Alignment explanation
Indices: 20609379--20609736 Score: 287
Period size: 54 Copynumber: 6.6 Consensus size: 54
20609369 ATTACTGTTT
* * *
20609379 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * *
20609433 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTTTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * * * *
20609486 TACCC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * * *
20609540 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAATACC-CTTAGTTTATAAAATTACCAAAA
* * * *
20609594 TACCCTCAATTTATAAAATTACCAAAATACCCCTGGTTTATAAAGTTA-CAGAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCA-AAA
* *** * * * **
20609648 TACCCTCGACTTTCTAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
* * * * * *
20609703 TACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTT
20609737 GTAGGATGAA
Statistics
Matches: 245, Mismatches: 48, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
52 1 0.00
53 46 0.19
54 154 0.63
55 44 0.18
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAA
Found at i:20609586 original size:81 final size:81
Alignment explanation
Indices: 20609393--20609651 Score: 335
Period size: 81 Copynumber: 3.2 Consensus size: 81
20609383 CTCGATTTAC
* * ** * **
20609393 AAAATTACTAAAATACC-CTTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACCAAAATACCAC-TGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
20609457 AAATA-CCCTAGTTTGT
65 AAATACCCCTAGTTTGT
* * * *
20609473 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
20609538 AATACCCCTAGTTTGT
66 AATACCCCTAGTTTGT
* *
20609554 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTCAATTTATAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
* *
20609619 AATACCCCTGGTTTAT
66 AATACCCCTAGTTTGT
*
20609635 AAAGTTA-CAGAAATACC
1 AAAATTACCA-AAATACC
20609652 CTCGACTTTC
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 61 0.38
81 98 0.62
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTTTGT
Found at i:20609686 original size:55 final size:53
Alignment explanation
Indices: 20609325--20609708 Score: 185
Period size: 54 Copynumber: 7.1 Consensus size: 53
20609315 ATTATCGTTT
* * *** * * * ***
20609325 TACCCTCAATTTATAGAATTACTATTTTACCATTGATTTATAGAATTACTGTTT
1 TACCCTCAATTTATAAAATTACCAAAATACCACTGGTTTATA-AATTACAGAAA
* * * * *
20609379 TACCCTCGATTTACAAAATTACTAAAATACC-CTTAGTTTACAAAATTACCA-AAA
1 TACCCTCAATTTATAAAATTACCAAAATACCAC-TGGTTTA-TAAATTA-CAGAAA
* * * * *
20609433 TACCCTCGA-TCAGTAAAATTACCAAAATACC-CTAGTTTGTAAAATTGCTA-AAA
1 TACCCTCAATTTA-TAAAATTACCAAAATACCACTGGTTTAT-AAATTAC-AGAAA
** * * ** *
20609486 TACCC-CTGGTTTGTAAAATTACCGAAATACC-CTCAATTTGTAAAATTACCA-AAA
1 TACCCTC-AATTTATAAAATTACCAAAATACCACT-GGTTTAT-AAATTA-CAGAAA
* * *
20609540 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCA-AAA
1 TACCCTC-AATTTATAAAATTACCAAAATACCACTGGTTTAT-AAATTA-CAGAAA
*
20609594 TACCCTCAATTTATAAAATTACCAAAATACCCCTGGTTTATAAAGTTACAGAAA
1 TACCCTCAATTTATAAAATTACCAAAATACCACTGGTTTATAAA-TTACAGAAA
* * *** * * *
20609648 TACCCTCGACTTTCTAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTC-AATTTATAAAATTACCAAAATACCACTGGTTTA-TAAATTACAGAAA
20609703 TACCCT
1 TACCCT
20609709 TGGTTTGTAG
Statistics
Matches: 270, Mismatches: 44, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.01
53 47 0.17
54 172 0.64
55 46 0.17
56 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTTATAAAATTACCAAAATACCACTGGTTTATAAATTACAGAAA
Found at i:20609702 original size:27 final size:27
Alignment explanation
Indices: 20609663--20609714 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
20609653 TCGACTTTCT
20609663 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
20609690 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
20609715 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:20609798 original size:27 final size:27
Alignment explanation
Indices: 20609768--20609855 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
20609758 ACCCCTATTA
20609768 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
*
20609795 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** * *
20609822 GGTAAAGTGACCATAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
20609849 GGTAAAA
1 GGTAAAA
20609856 TGACGAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:20610689 original size:26 final size:26
Alignment explanation
Indices: 20610660--20610834 Score: 228
Period size: 26 Copynumber: 6.8 Consensus size: 26
20610650 GAGGAAGTGC
**
20610660 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20610686 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * ***
20610712 AAAAGGGCTTATGCCCTAATTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
20610738 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
20610764 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
20610790 AAAAAGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
20610815 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
20610835 ATTAAAGAGG
Statistics
Matches: 129, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 31 0.24
26 98 0.76
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:20610742 original size:52 final size:52
Alignment explanation
Indices: 20610660--20610840 Score: 264
Period size: 52 Copynumber: 3.5 Consensus size: 52
20610650 GAGGAAGTGC
* *
20610660 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTAAAAAGGGCTTATGCCCCAGTTTACCG
* *
20610712 AAAAGGGCTTATGCCCTAATTTATTAAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTAAAAAGGGCTTATGCCCCAGTTTACCG
20610764 AAAAGGGCTTATG-CCTCAGTTTATTGAAAAA-GGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCT-AGTTTATT-AAAAAGGGCTTATGCCCCAGTTTACCG
*
20610815 AAAAGGGCTT-TGCCCCAG-TTATTAAA
1 AAAAGGGCTTATGCCCTAGTTTATTAAA
20610841 GAGGCTAGGC
Statistics
Matches: 119, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
48 3 0.03
49 5 0.04
50 4 0.03
51 29 0.24
52 73 0.61
53 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCTAGTTTATTAAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:20611038 original size:42 final size:42
Alignment explanation
Indices: 20610979--20611070 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
20610969 TAGTCTCCCC
* ** *
20610979 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20611021 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20611063 AAATGGGC
1 AAATGGGC
20611071 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:20611171 original size:31 final size:31
Alignment explanation
Indices: 20611094--20611172 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
20611084 CGTTTACAGT
*
20611094 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
20611125 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
20611156 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
20611173 AACTATTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:20617396 original size:38 final size:37
Alignment explanation
Indices: 20617323--20617396 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
20617313 TTCAGCTAAG
* *
20617323 GTTTTGTATAGGTAAATATATATGAATTGGCTGTTAT
1 GTTTTGTATAGGTAAATATATATAAAATGGCTGTTAT
20617360 GTTTTGATATAGGT-AATAATATATAAACATGG-TGTTA
1 GTTTTG-TATAGGTAAAT-ATATATAAA-ATGGCTGTTA
20617397 AATGATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 9 0.28
38 20 0.62
39 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (37 bp):
GTTTTGTATAGGTAAATATATATAAAATGGCTGTTAT
Found at i:20620810 original size:22 final size:22
Alignment explanation
Indices: 20620782--20620823 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
20620772 TCACTACAAA
20620782 TGTAGCTTGCGTCTTTGAACTT
1 TGTAGCTTGCGTCTTTGAACTT
*
20620804 TGTAGCTTGCTTCTTTGAAC
1 TGTAGCTTGCGTCTTTGAAC
20620824 CTGCATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.45
Consensus pattern (22 bp):
TGTAGCTTGCGTCTTTGAACTT
Found at i:20622991 original size:27 final size:27
Alignment explanation
Indices: 20622961--20623424 Score: 587
Period size: 27 Copynumber: 17.2 Consensus size: 27
20622951 AAAGTACTCC
*
20622961 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
20622988 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
20623015 CGATTTTTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
20623042 CAATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
20623069 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
20623096 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
20623123 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
20623150 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
20623177 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
20623204 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
20623231 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
20623258 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
20623285 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
20623312 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
20623339 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
20623366 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
20623393 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
20623420 TGATT
1 CGATT
20623425 GTGAAATTAC
Statistics
Matches: 383, Mismatches: 44, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.01
27 373 0.97
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:20623459 original size:27 final size:27
Alignment explanation
Indices: 20623429--20623596 Score: 194
Period size: 27 Copynumber: 6.2 Consensus size: 27
20623419 TTGATTGTGA
20623429 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
20623456 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
20623483 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
20623510 AATTA-TCAAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
20623537 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
20623564 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
20623591 AATTAC
1 AATTAC
20623597 CATTTTGCCC
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 121 0.99
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:20623595 original size:81 final size:81
Alignment explanation
Indices: 20623437--20623595 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
20623427 GAAATTACTG
* * * *
20623437 AAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTA
*
20623502 TAGGATAGAATTATCA
66 TAGGATAAAATTATCA
* * * *
20623518 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTG
1 AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTA
* *
20623583 TGGGGTAAAATTA
66 TAGGATAAAATTA
20623596 CCATTTTGCC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTA
TAGGATAAAATTATCA
Found at i:20623857 original size:27 final size:26
Alignment explanation
Indices: 20623796--20623878 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
20623786 CGGAGGAAGC
* *
20623796 GTTCTAGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
20623823 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * * *
20623849 TTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
20623876 GTT
1 GTT
20623879 GACCGATCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:20623998 original size:22 final size:22
Alignment explanation
Indices: 20623966--20624024 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
20623956 CCCGTTATTA
*
20623966 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
20623988 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
20624010 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
20624025 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:20624235 original size:27 final size:26
Alignment explanation
Indices: 20624189--20624262 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
20624179 TAGGTGGGTT
* * *
20624189 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATAGCTG-TTCTGGTGACTC
20624216 TGCCACAATAGCTGTATCTGGTGACTC
1 TGCCACAATAGCTGT-TCTGGTGACTC
* * *
20624243 TGTCACGATATCTGTTCTGG
1 TGCCACAATAGCTGTTCTGG
20624263 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
TGCCACAATAGCTGTTCTGGTGACTC
Found at i:20624389 original size:6 final size:6
Alignment explanation
Indices: 20624380--20624571 Score: 175
Period size: 6 Copynumber: 31.8 Consensus size: 6
20624370 TTGCATTCAC
* *
20624380 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG A-TCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
20624428 -TTACTA ATTCTG ATTATG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
20624476 ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
20624525 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
20624572 CATTTTGGTT
Statistics
Matches: 153, Mismatches: 16, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
5 16 0.10
6 123 0.80
7 11 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:20624592 original size:30 final size:30
Alignment explanation
Indices: 20624380--20624571 Score: 289
Period size: 30 Copynumber: 6.4 Consensus size: 30
20624370 TTGCATTCAC
*
20624380 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
20624411 A-TCTGATTCTGATTCTGTTACTAATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
20624440 ATTATGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
20624470 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
20624501 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
20624531 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
20624561 ATTCTGATTCT
1 ATTCTGATTCT
20624572 CATTTTGGTT
Statistics
Matches: 148, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
29 10 0.07
30 109 0.74
31 29 0.20
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:20626624 original size:30 final size:30
Alignment explanation
Indices: 20626590--20626659 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
20626580 GCTGTCCCAA
* * *
20626590 CCCTTTTCATAGCTCGATAGTCGAAGCTAT
1 CCCTTTTCATAGCTCAATAGCCGAAGCTAG
*
20626620 CCCTTTTCACAGCTCAATAGCCGAAGCTAG
1 CCCTTTTCATAGCTCAATAGCCGAAGCTAG
*
20626650 GCCTTTTCAT
1 CCCTTTTCAT
20626660 TATTTGATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (30 bp):
CCCTTTTCATAGCTCAATAGCCGAAGCTAG
Found at i:20626687 original size:30 final size:31
Alignment explanation
Indices: 20626653--20626726 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
20626643 AAGCTAGGCC
* *
20626653 TTTTCATTATTTGATGTTCGTCACCAT-CCT
1 TTTTCATTATTTGATGGTCATCACCATCCCT
*
20626683 TTTTCATT-GTTGATGGTCATCACCATCCCT
1 TTTTCATTATTTGATGGTCATCACCATCCCT
*
20626713 TTTT-ATAATTTGAT
1 TTTTCATTATTTGAT
20626727 AACCAAAGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTTCATTATTTGATGGTCATCACCATCCCT
Found at i:20626695 original size:29 final size:31
Alignment explanation
Indices: 20626653--20626716 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
20626643 AAGCTAGGCC
* * *
20626653 TTTTCATTATTTGATGTTCGTCACCAT-CCT
1 TTTTCATTAGTTGATGGTCATCACCATCCCT
20626683 TTTTCATT-GTTGATGGTCATCACCATCCCT
1 TTTTCATTAGTTGATGGTCATCACCATCCCT
20626713 TTTT
1 TTTT
20626717 ATAATTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTTCATTAGTTGATGGTCATCACCATCCCT
Found at i:20639647 original size:3 final size:3
Alignment explanation
Indices: 20639639--20639668 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
20639629 GAAGTTCCAA
20639639 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
20639669 TAGCTGTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:20639647 original size:24 final size:24
Alignment explanation
Indices: 20639613--20639849 Score: 158
Period size: 24 Copynumber: 9.5 Consensus size: 24
20639603 GTGGTGACGA
20639613 AGCTGCTGCTGCCGCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* * * *
20639637 AACTGCTGCTGCTGCT---GCTGC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* ** *
20639658 TGCTGCTGCTGTAGCTGTAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* * *
20639682 AACTGCTGCTGCCGCTGTAACTCTAGC
1 AGCTGCTGCTGCCGCTG-AAGT-T-CC
* * *
20639709 TGCTGCTGCTGCCGCTGTAA-CTCT
1 AGCTGCTGCTGCCGCTG-AAGTTCC
*
20639733 AGCTGCTGCTGCTGTCGCTGTAGTTCC
1 AGCTGCTGCTGC---CGCTGAAGTTCC
*
20639760 AGTTGCTGCTGTTGCCGCTGAAGTTCC
1 A---GCTGCTGCTGCCGCTGAAGTTCC
*
20639787 AGCTGCTGCTGCCTCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
20639811 AGCTGCTGCTGCTGTCGCTGAAGTTCC
1 AGCTGCTGCTGC---CGCTGAAGTTCC
* *
20639838 AACTGCCGCTGC
1 AGCTGCTGCTGC
20639850 TGTTGAAACT
Statistics
Matches: 164, Mismatches: 33, Indels: 29
0.73 0.15 0.13
Matches are distributed among these distances:
21 15 0.09
24 74 0.45
25 3 0.02
26 2 0.01
27 60 0.37
30 10 0.06
ACGTcount: A:0.11, C:0.31, G:0.27, T:0.30
Consensus pattern (24 bp):
AGCTGCTGCTGCCGCTGAAGTTCC
Found at i:20639650 original size:27 final size:27
Alignment explanation
Indices: 20639614--20639851 Score: 168
Period size: 27 Copynumber: 9.4 Consensus size: 27
20639604 TGGTGACGAA
20639614 GCTGCTGCTGCCGCTGAAGTTCCAACT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
20639641 GCTGCTGCTGCTGCT---G------CT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
** *
20639659 GCTGCTGCTGTAGCTGTAGTTCCAA--
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
* * *
20639684 -CTGCTGCTGCCGCTGTAA-CTCTAGCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAACT
* * *
20639710 GCTGCTGCTGCCGCTGTAA-CTCTAGCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAACT
* * **
20639737 GCTGCTGCTGTCGCTGTAGTTCCAGTT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
20639764 GCTGCTGTTGCCGCTGAAGTTCC-A--
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
* *
20639788 GCTGCTGCTGCCTCTGAAGTTCCAGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
20639815 GCTGCTGCTGTCGCTGAAGTTCCAACT
1 GCTGCTGCTGCCGCTGAAGTTCCAACT
*
20639842 GCCGCTGCTG
1 GCTGCTGCTG
20639852 TTGAAACTGA
Statistics
Matches: 169, Mismatches: 25, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
18 15 0.09
21 1 0.01
24 38 0.22
25 1 0.01
26 1 0.01
27 113 0.67
ACGTcount: A:0.11, C:0.31, G:0.28, T:0.30
Consensus pattern (27 bp):
GCTGCTGCTGCCGCTGAAGTTCCAACT
Found at i:20639726 original size:51 final size:50
Alignment explanation
Indices: 20639614--20639849 Score: 214
Period size: 51 Copynumber: 4.7 Consensus size: 50
20639604 TGGTGACGAA
* *
20639614 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCTGCTG-----CTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTGAATTCCAGCT
** * * *
20639659 GCTGCTGCTGTAGCTGTAGTTCCAACTGCTGCTGCCGCTGTAACTCTAGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTG-AATTCCAGCT
* * * * *
20639710 GCTGCTGCTGCCGCTGTAA-CTCTAGCTGCTGCTGCTGTCGCTGTAGTTCCAGTT
1 GCTGCTGCTGCCGCTG-AAGTTCCAACTGCTGCTGC---CGCTG-AATTCCAGCT
* * *
20639764 GCTGCTGTTGCCGCTGAAGTTCCAGCTGCTGCTGCCTCTGAAGTTCCAGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTGAA-TTCCAGCT
* *
20639815 GCTGCTGCTGTCGCTGAAGTTCCAACTGCCGCTGC
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGC
20639850 TGTTGAAACT
Statistics
Matches: 153, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
45 36 0.24
50 1 0.01
51 72 0.47
52 1 0.01
53 2 0.01
54 41 0.27
ACGTcount: A:0.11, C:0.31, G:0.28, T:0.30
Consensus pattern (50 bp):
GCTGCTGCTGCCGCTGAAGTTCCAACTGCTGCTGCCGCTGAATTCCAGCT
Found at i:20639767 original size:78 final size:76
Alignment explanation
Indices: 20639615--20639843 Score: 224
Period size: 78 Copynumber: 3.1 Consensus size: 76
20639605 GGTGACGAAG
* * * *
20639615 CTGCTGC-TGCCGCTGAAGTTCCAACTGCTGCTGCTGCT---GCT---GCTGCTGCTGCTGTAGC
1 CTGCTGCTTGCCGCTGAACTTCCAGCTGCTGCTGCCGCTGAAGCTCCAGCTGCTGCTGCTGTCGC
20639673 TGTAGTTCCAA
66 TGTAGTTCCAA
* * *
20639684 CTGCTGC-TGCCGCTGTAACTCTAGCTGCTGCTGCTGCCGCTGTAA-CTCTAGCTGCTGCTGCTG
1 CTGCTGCTTGCCGCTG-AACT-T-CCAGCTGCTGCTGCCGCTG-AAGCTCCAGCTGCTGCTGCTG
*
20639747 TCGCTGTAGTTCCAG
62 TCGCTGTAGTTCCAA
* * * *
20639762 TTGCTGCTGTTGCCGCTGAAGTTCCAGCTGCTGCTGCCTCTGAAGTTCCAGCTGCTGCTGCTGTC
1 CTGCTGC--TTGCCGCTGAACTTCCAGCTGCTGCTGCCGCTGAAGCTCCAGCTGCTGCTGCTGTC
*
20639827 GCTGAAGTTCCAA
64 GCTGTAGTTCCAA
20639840 CTGC
1 CTGC
20639844 CGCTGCTGTT
Statistics
Matches: 129, Mismatches: 17, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
69 15 0.12
70 3 0.02
71 1 0.01
72 14 0.11
75 2 0.02
77 2 0.02
78 80 0.62
79 1 0.01
80 3 0.02
81 8 0.06
ACGTcount: A:0.11, C:0.31, G:0.27, T:0.31
Consensus pattern (76 bp):
CTGCTGCTTGCCGCTGAACTTCCAGCTGCTGCTGCCGCTGAAGCTCCAGCTGCTGCTGCTGTCGC
TGTAGTTCCAA
Found at i:20655434 original size:19 final size:19
Alignment explanation
Indices: 20655410--20655449 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
20655400 TTCCAGGGAG
20655410 ATACTTTCAAGAATACTCT
1 ATACTTTCAAGAATACTCT
20655429 ATACTTTCAAGAATACTCT
1 ATACTTTCAAGAATACTCT
20655448 AT
1 AT
20655450 CTCCAACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (19 bp):
ATACTTTCAAGAATACTCT
Found at i:20657344 original size:19 final size:19
Alignment explanation
Indices: 20657320--20657357 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
20657310 TATCAAAATG
20657320 TCGTCAATAAACACAACGA
1 TCGTCAATAAACACAACGA
20657339 TCGTCAATAAACACAACGA
1 TCGTCAATAAACACAACGA
20657358 CAAACTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.11, T:0.16
Consensus pattern (19 bp):
TCGTCAATAAACACAACGA
Found at i:20670174 original size:49 final size:49
Alignment explanation
Indices: 20670102--20670199 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
20670092 AGGTGAATGG
*
20670102 AAATGTCGCCCAAGTATTGATATCCCAACCTACTTTAATCAAGAAATAA
1 AAATGTCGCCCAAGTACTGATATCCCAACCTACTTTAATCAAGAAATAA
*
20670151 AAATGTCGCCCAAGTACTGATATCCCAACCTCCTTTAATCAAGAAATAA
1 AAATGTCGCCCAAGTACTGATATCCCAACCTACTTTAATCAAGAAATAA
20670200 TGTTTCCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (49 bp):
AAATGTCGCCCAAGTACTGATATCCCAACCTACTTTAATCAAGAAATAA
Found at i:20682162 original size:20 final size:20
Alignment explanation
Indices: 20682120--20682175 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
20682110 AAACCAGCTA
* *
20682120 AAAAACCGGTTGAATTGGGT
1 AAAAACCGGTTGAACTCGGT
* *
20682140 AAAAACCTGTTGAACTCGTT
1 AAAAACCGGTTGAACTCGGT
* *
20682160 AAAAATCGGTTAAACT
1 AAAAACCGGTTGAACT
20682176 GGGGTTTTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (20 bp):
AAAAACCGGTTGAACTCGGT
Found at i:20685755 original size:27 final size:27
Alignment explanation
Indices: 20685725--20685902 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
20685715 ATATTGAGTC
* *
20685725 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
20685752 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
20685779 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
20685807 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
20685834 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
20685861 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
20685888 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
20685903 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:20685864 original size:82 final size:81
Alignment explanation
Indices: 20685746--20685901 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
20685736 TGCTATATAA
* * *
20685746 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCACA
20685811 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
20685828 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCACA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACA
20685892 CACTTAGTGC
65 CACTTAGTGC
20685902 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACAC
ACTTAGTGCCGCATGG
Found at i:20689679 original size:30 final size:29
Alignment explanation
Indices: 20689611--20689685 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
20689601 GGCTACCTCA
* *
20689611 GTTAAAAGAGAGTCTTTGTGGTGATCTCT
1 GTTAAAAGAAAGTCTTTGTGGCGATCTCT
*
20689640 GTTAAAAGAAAGTCTTTGTGGCGATCTTT
1 GTTAAAAGAAAGTCTTTGTGGCGATCTCT
20689669 GTTAAAAAGAAAGTCTT
1 GTT-AAAAGAAAGTCTT
20689686 CATGGTTATC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 29 0.69
30 13 0.31
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (29 bp):
GTTAAAAGAAAGTCTTTGTGGCGATCTCT
Found at i:20689759 original size:29 final size:29
Alignment explanation
Indices: 20689601--20689801 Score: 99
Period size: 29 Copynumber: 6.9 Consensus size: 29
20689591 ACGCCTTTAT
* * *
20689601 GGCTACCTCAGTTAAAAGAGA-GTCTTTGT
1 GGCTATCTCTGTTAAAAG-GATGTCTTTGA
* * *
20689630 GG-TGATCTCTGTTAAAAGAAAGTCTTTGT
1 GGCT-ATCTCTGTTAAAAGGATGTCTTTGA
* * * * *
20689659 GGCGATCTTTGTTAAAAAGAAAGTC-TTCA
1 GGCTATCTCTGTT-AAAAGGATGTCTTTGA
* * ** * *
20689688 TGGTTATCTCTATTTTAAGGATGACTTTGT
1 -GGCTATCTCTGTTAAAAGGATGTCTTTGA
* *
20689718 GGCTATTTATGTTAAAAGGATGTCTTTGA
1 GGCTATCTCTGTTAAAAGGATGTCTTTGA
* *
20689747 GGCTATCTCTGTT-TAGGGAATGTCTTT-A
1 GGCTATCTCTGTTAAAAGG-ATGTCTTTGA
*
20689775 TGGATATCTCTGTT-AAAGGAATGTCTT
1 -GGCTATCTCTGTTAAAAGG-ATGTCTT
20689802 GTAGCAAATT
Statistics
Matches: 131, Mismatches: 33, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
28 6 0.05
29 103 0.79
30 22 0.17
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (29 bp):
GGCTATCTCTGTTAAAAGGATGTCTTTGA
Found at i:20691074 original size:18 final size:18
Alignment explanation
Indices: 20691053--20691089 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20691043 TTGAGACAAA
20691053 ATTAATTAAATTAAAACT
1 ATTAATTAAATTAAAACT
20691071 ATTAATTAAATTAAAACT
1 ATTAATTAAATTAAAACT
20691089 A
1 A
20691090 CACCTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAATTAAATTAAAACT
Found at i:20693857 original size:17 final size:20
Alignment explanation
Indices: 20693816--20693857 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
20693806 TTTTTTGGTC
*
20693816 TTTATTGTTCTTATCTTTGA
1 TTTATTATTCTTATCTTTGA
20693836 TTTATTATTC-TAT-TTT-A
1 TTTATTATTCTTATCTTTGA
20693853 TTTAT
1 TTTAT
20693858 CTTAGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 3 0.14
19 3 0.14
20 9 0.43
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTATTATTCTTATCTTTGA
Found at i:20693866 original size:13 final size:13
Alignment explanation
Indices: 20693850--20693903 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
20693840 TTATTCTATT
*
20693850 TTATTTATCTTAG
1 TTATTTATCTTAA
*
20693863 TTATTTATTTTAA
1 TTATTTATCTTAA
* *
20693876 TTAATTATATTAA
1 TTATTTATCTTAA
*
20693889 TTTTTTATCTTAA
1 TTATTTATCTTAA
20693902 TT
1 TT
20693904 GGATTTGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (13 bp):
TTATTTATCTTAA
Found at i:20699178 original size:20 final size:20
Alignment explanation
Indices: 20699141--20699180 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20699131 CATTAAATAC
* *
20699141 TTCAAACTCTTTTTGTCAGT
1 TTCAAACTCTTGTGGTCAGT
20699161 TTCAAACTCTTGTGGTCAGT
1 TTCAAACTCTTGTGGTCAGT
20699181 AAAGATATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (20 bp):
TTCAAACTCTTGTGGTCAGT
Found at i:20700957 original size:11 final size:11
Alignment explanation
Indices: 20700941--20700968 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
20700931 CACAGCAGAG
20700941 TCCTTTTTCAT
1 TCCTTTTTCAT
20700952 TCCTTTTTCAT
1 TCCTTTTTCAT
20700963 TCCTTT
1 TCCTTT
20700969 ACTAGTGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (11 bp):
TCCTTTTTCAT
Found at i:20707905 original size:42 final size:42
Alignment explanation
Indices: 20707853--20708006 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
20707843 TGAGATTAGC
* * *
20707853 TGTAAAACCATATCTGGGATATGGCATCTATATGAGACTCCG
1 TGTAAGACCATATCTGGGATATGGCATCGATAAGAGACTCCG
* **
20707895 TGTAAGACCATATCTGGGATATGGAATCGATAAGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATAAGAGACTCCG
* * * * *
20707937 TGTAAGACCATAGT-TAGGCTATTGGGATCGATACGAGA-TCCCA
1 TGTAAGACCATA-TCTGGGATA-TGGCATCGATAAGAGACT-CCG
20707980 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
20708007 TGGTATGGTA
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 60 0.65
43 32 0.35
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATAAGAGACTCCG
Found at i:20714408 original size:21 final size:20
Alignment explanation
Indices: 20714361--20714408 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
20714351 ATGATAGCTT
* * *
20714361 TTTTTGTTTTATTAATTTAC
1 TTTTTATTTTACTAAATTAC
*
20714381 TTATTATTTTACTAAATTACC
1 TTTTTATTTTACTAAATTA-C
20714402 TTTTTAT
1 TTTTTAT
20714409 CCTTATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTATTTTACTAAATTAC
Found at i:20718210 original size:17 final size:17
Alignment explanation
Indices: 20718190--20718223 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20718180 AAATTGATAG
20718190 TTTTTCTTAATTTGGTA
1 TTTTTCTTAATTTGGTA
*
20718207 TTTTTTTTAATTTGGTA
1 TTTTTCTTAATTTGGTA
20718224 CCTGAGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.68
Consensus pattern (17 bp):
TTTTTCTTAATTTGGTA
Found at i:20719206 original size:27 final size:27
Alignment explanation
Indices: 20719170--20719233 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
20719160 GCCTTTGAAT
20719170 TTTGATGAAATGAGCTATTTG-GGG-CTAA
1 TTTG-TGAAATGAG-T-TTTGAGGGACTAA
20719198 TTTGTGAAAATGAGTTTTGAGGGACTAA
1 TTTGTG-AAATGAGTTTTGAGGGACTAA
*
20719226 ATTGTGAA
1 TTTGTGAA
20719234 TTAAATATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.12
27 8 0.25
28 20 0.62
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (27 bp):
TTTGTGAAATGAGTTTTGAGGGACTAA
Found at i:20719208 original size:28 final size:28
Alignment explanation
Indices: 20719177--20719233 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
20719167 AATTTTGATG
*
20719177 AAATGAGCTATTTG-GGG-CTAATTTGTGA
1 AAATGAG-T-TTTGAGGGACTAAATTGTGA
20719205 AAATGAGTTTTGAGGGACTAAATTGTGA
1 AAATGAGTTTTGAGGGACTAAATTGTGA
20719233 A
1 A
20719234 TTAAATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 18 0.69
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
AAATGAGTTTTGAGGGACTAAATTGTGA
Found at i:20724497 original size:27 final size:27
Alignment explanation
Indices: 20724366--20724496 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
20724356 ATTACCAAAG
* *
20724366 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
20724393 TACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
20724420 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
20724447 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
20724474 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
20724497 AAAATACCCT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:20724504 original size:27 final size:27
Alignment explanation
Indices: 20724420--20724802 Score: 190
Period size: 27 Copynumber: 14.1 Consensus size: 27
20724410 ATTACCGTTT
* ****
20724420 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * * ***
20724447 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
20724474 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
20724501 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
20724528 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAA
* * * *
20724555 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
20724581 TACCC-CTAGTTTGTAAAATTAC-AGAAA
1 TACCCTCGA-TTTATAAAATTACTA-AAA
* * *
20724608 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
20724635 TA-CCTCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * *
20724662 TACCACT-GGTTTGTAAAATTA-TCGAAA
1 TACC-CTCGATTTATAAAATTACT-AAAA
* * *
20724689 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
20724716 TACCCTTGATTTACAAAGTTAC-AGAAA
1 TACCCTCGATTTATAAAATTACTA-AAA
* * *
20724743 TACCCTTGACTTTCTAAAAATTA-TGGAAA
1 TACCCTCGA-TTTAT-AAAATTACT-AAAA
* * * * *
20724772 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
20724799 TACC
1 TACC
20724803 ATTGGTTTGT
Statistics
Matches: 289, Mismatches: 48, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
26 28 0.10
27 232 0.80
28 11 0.04
29 18 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:20724505 original size:54 final size:54
Alignment explanation
Indices: 20724400--20724560 Score: 162
Period size: 54 Copynumber: 3.0 Consensus size: 54
20724390 TTTTACCATC
* * * ****
20724400 GATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
*
20724454 GATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
1 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
* * *** * * *
20724508 GGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAATACCCT
1 GATTTACAGAATTACCATTTTACCCTCGATTTA-CAAAATTACTAAAATACCCT
20724561 AGTCTGTAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 2 0.02
54 87 0.98
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (54 bp):
GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTT
Found at i:20724521 original size:81 final size:81
Alignment explanation
Indices: 20724374--20724522 Score: 181
Period size: 81 Copynumber: 1.8 Consensus size: 81
20724364 AGTACCCTCA
* * * **** * *
20724374 ATTTATAGAATTACTGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAAT
20724439 TACTGTTTTACCCTTG
66 TACTGTTTTACCCTTG
* * * *
20724455 ATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAAT
1 ATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAAT
20724520 TAC
66 TAC
20724523 CAAAATACCC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 55 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (81 bp):
ATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAAT
TACTGTTTTACCCTTG
Found at i:20724559 original size:81 final size:80
Alignment explanation
Indices: 20724474--20724750 Score: 301
Period size: 81 Copynumber: 3.4 Consensus size: 80
20724464 ATTACTATTT
** * *
20724474 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCTCAATT
*
20724539 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** * * *
20724555 TACCCTAG-TCTGTAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACAGAAATACCCTCAATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACA-AAATACCCTCAATT
20724619 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * *
20724635 TA-CCTCTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTAAAATTATCGAAATACCCTCAA
1 TACCCTCGA-TTTACAAAATTACTAAAATACC-CTTGGTTTGTAAAATTA-CAAAATACCCTCAA
20724698 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
* *
20724716 TACCCTTGATTTACAAAGTTAC-AGAAATACCCTTG
1 TACCCTCGATTTACAAAATTACTA-AAATACCCTTG
20724751 ACTTTCTAAA
Statistics
Matches: 164, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
79 5 0.03
80 62 0.38
81 91 0.55
82 6 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:20724644 original size:54 final size:52
Alignment explanation
Indices: 20724488--20724721 Score: 254
Period size: 54 Copynumber: 4.4 Consensus size: 52
20724478 CTCGATTTAC
* * ** * **
20724488 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCTAG-TTTGT
* * *
20724542 AAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATA-CCCTAGTTTGT
*
20724595 AAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCTCTAGTTTGT
1 AAAATTACCA-AAATACCCT-AGTTTGTAAAATTACCAAAATACC-CTAGTTTGT
* * * *
20724649 AAAATTACCAAAATACCACTGGTTTGTAAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCT-AGTTTGT
20724703 AAAATTACCAAAATACCCT
1 AAAATTACCAAAATACCCT
20724722 TGATTTACAA
Statistics
Matches: 154, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
52 2 0.01
53 42 0.27
54 106 0.69
55 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (52 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTAGTTTGT
Found at i:20724743 original size:54 final size:54
Alignment explanation
Indices: 20724447--20724802 Score: 238
Period size: 54 Copynumber: 6.6 Consensus size: 54
20724437 ATTACTGTTT
* * *** * ** *
20724447 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * **
20724501 TACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * ** * * *
20724555 TACCCTAG-TCTGTAAAATTGCTAAAATACCC-CTAGTTTGTAAAATTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCA-AAA
** ** *
20724608 TACCCTCAATTTGTAAAATTACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAA
* ** * *
20724662 TACCAC-TGGTTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * * * ***
20724716 TACCCTTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCTAAAAATTATGGAAA
1 TACCCTTGATTTACAAAATTACCA-AAATACCC-TCAATTTGT-AAAATTACCAAAA
* * **
20724772 TACCATTGGTTTACAAAATTACTGAAATACC
1 TACCCTTGATTTACAAAATTACCAAAATACC
20724803 ATTGGTTTGT
Statistics
Matches: 242, Mismatches: 48, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
52 3 0.01
53 41 0.17
54 150 0.62
55 13 0.05
56 35 0.14
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
Found at i:20724894 original size:27 final size:27
Alignment explanation
Indices: 20724864--20724951 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
20724854 ACCCCTATTA
20724864 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
* *
20724891 GGTAAAGAGACCGTAAAGCCCTTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** *
20724918 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
20724945 GGTAAAA
1 GGTAAAA
20724952 TGATGAATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:20725826 original size:25 final size:26
Alignment explanation
Indices: 20725755--20725851 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
20725745 GAGGAAGTGC
20725755 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
20725781 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
20725807 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
20725832 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
20725852 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 33 0.49
26 35 0.51
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:20725835 original size:51 final size:51
Alignment explanation
Indices: 20725755--20725851 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
20725745 GAGGAAGTGC
*
20725755 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTATTG
20725807 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
20725852 ATTAAAGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 10 0.23
51 24 0.55
52 10 0.23
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:20726055 original size:42 final size:42
Alignment explanation
Indices: 20725996--20726087 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
20725986 TAGTCTCCCC
** ** * *
20725996 AAATGGGCTTGCATACATTTATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
20726038 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
20726080 AAATGGGC
1 AAATGGGC
20726088 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
Found at i:20726146 original size:31 final size:31
Alignment explanation
Indices: 20726111--20726210 Score: 109
Period size: 31 Copynumber: 3.3 Consensus size: 31
20726101 CATTTACAGT
*
20726111 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
** * *
20726142 AAAGGCTTCAACCCAGT-A-ACTG-TTAAACG-
1 AAAGGCTTCGGCCCAGTGATA-TGATT-TATGA
20726171 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
20726202 AAAGGCTTC
1 AAAGGCTTC
20726211 AACCCAGTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
29 18 0.33
30 10 0.19
31 26 0.48
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:20726184 original size:60 final size:60
Alignment explanation
Indices: 20726111--20726242 Score: 246
Period size: 60 Copynumber: 2.2 Consensus size: 60
20726101 CATTTACAGT
*
20726111 AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACG
1 AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACA
*
20726171 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACA
1 AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACA
20726231 AAAGGCTTCGGC
1 AAAGGCTTCGGC
20726243 TCAGTATATG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 70 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (60 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCAACCCAGTAACTGTTAAACA
Found at i:20726248 original size:29 final size:29
Alignment explanation
Indices: 20726141--20726239 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 29
20726131 ATGATTTATG
20726141 AAAAGGCTTCAACCCAGTAACTGTTAAAC
1 AAAAGGCTTCAACCCAGTAACTGTTAAAC
* ** * **
20726170 GAAAGGCTTCGGCCCAGTGATA-TGATTTATG
1 AAAAGGCTTCAACCCAGT-A-ACTG-TTAAAC
20726201 AAAAGGCTTCAACCCAGTAACTGTTAAAC
1 AAAAGGCTTCAACCCAGTAACTGTTAAAC
20726230 AAAAGGCTTC
1 AAAAGGCTTC
20726240 GGCTCAGTAT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
29 29 0.54
30 6 0.11
31 19 0.35
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (29 bp):
AAAAGGCTTCAACCCAGTAACTGTTAAAC
Found at i:20728868 original size:79 final size:78
Alignment explanation
Indices: 20728768--20728984 Score: 249
Period size: 79 Copynumber: 2.7 Consensus size: 78
20728758 GCTACTCGTT
* **
20728768 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
*
20728833 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * * *
20728848 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
20728912 ATTAGTAACTCGCA
65 ATTAGTAACTCGCA
* * * * *
20728926 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
20728985 GCCCGGACAT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 34 0.29
79 57 0.49
80 25 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAA
TTAGTAACTCGCA
Found at i:20728888 original size:39 final size:40
Alignment explanation
Indices: 20728770--20728991 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
20728760 TACTCGTTCA
* * *
20728770 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACC
* * *
20728810 AATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
20728850 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* *
20728889 AATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* * * *
20728928 AATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCACC
*
20728968 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
20728992 CATCATTCGA
Statistics
Matches: 158, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.46
40 75 0.47
41 9 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:20731143 original size:43 final size:43
Alignment explanation
Indices: 20731036--20731216 Score: 129
Period size: 43 Copynumber: 4.2 Consensus size: 43
20731026 TTCTAAAGGA
* ** *
20731036 ACATTGACATC-TATCTGAGATATCGTGTAAGACCATGTCTAGG
1 ACATTGGCATCATATCTGATTTA-CGTGTAAGACCATGTCTGGG
* * ** *
20731079 ACATAGGCCTCGAT-TGAGATTTACGTATAAGACCATGTCTGGG
1 ACATTGGCATC-ATATCTGATTTACGTGTAAGACCATGTCTGGG
* *
20731122 ACATTGGCATCATATCTGATTT-CGTGTAAGACCCTGTCTGAG
1 ACATTGGCATCATATCTGATTTACGTGTAAGACCATGTCTGGG
** * * * * *
20731164 ACAGAGGCATCGATAT-TAAATTACATGTAAGACCACGTCCGGG
1 ACATTGGCATC-ATATCTGATTTACGTGTAAGACCATGTCTGGG
20731207 AC-TTCGGCAT
1 ACATT-GGCAT
20731217 TGTACTCGTG
Statistics
Matches: 105, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
42 32 0.30
43 67 0.64
44 5 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
ACATTGGCATCATATCTGATTTACGTGTAAGACCATGTCTGGG
Found at i:20731208 original size:85 final size:85
Alignment explanation
Indices: 20731036--20731216 Score: 190
Period size: 85 Copynumber: 2.1 Consensus size: 85
20731026 TTCTAAAGGA
* * * *
20731036 ACATTGACATCTATCTGAGATATCGTGTAAGACCATGTCTAGGACATAGGCCTCGATTGAGATTT
1 ACATTGGCATCTATCT-AGATATCGTGTAAGACCATGTCTAGGACAGAGGCATCGATTGAGAATT
* * *
20731101 ACGTATAAGACCATGTCTGGG
65 ACATATAAGACCACGTCCGGG
* * *
20731122 ACATTGGCATCATATCT-GATTTCGTGTAAGACCCTGTCT-GAGACAGAGGCATCGATATTA-AA
1 ACATTGGCATC-TATCTAGATATCGTGTAAGACCATGTCTAG-GACAGAGGCATCGAT-TGAGAA
*
20731184 TTACATGTAAGACCACGTCCGGG
63 TTACATATAAGACCACGTCCGGG
20731207 AC-TTCGGCAT
1 ACATT-GGCAT
20731217 TGTACTCGTG
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
84 3 0.04
85 60 0.75
86 12 0.15
87 5 0.06
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (85 bp):
ACATTGGCATCTATCTAGATATCGTGTAAGACCATGTCTAGGACAGAGGCATCGATTGAGAATTA
CATATAAGACCACGTCCGGG
Found at i:20733730 original size:30 final size:29
Alignment explanation
Indices: 20733675--20733737 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
20733665 ATATTTAAAA
*
20733675 TATAAAATTTTAATAATGTTATTTTATATT
1 TATAAAATTTTAATAA-GTTATTTTATAAT
*
20733705 TATAAATATTTTAATTAA-TTGTTTTATAAT
1 TATAAA-ATTTTAA-TAAGTTATTTTATAAT
20733735 TAT
1 TAT
20733738 TTAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 19 0.66
31 7 0.24
32 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (29 bp):
TATAAAATTTTAATAAGTTATTTTATAAT
Found at i:20737318 original size:18 final size:18
Alignment explanation
Indices: 20737297--20737348 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
20737287 AAAATGTGAG
*
20737297 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
20737315 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
20737333 AAATGATGTTCACATT
1 AAATGATGTTCACATT
20737349 GATAGAAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:20737868 original size:72 final size:72
Alignment explanation
Indices: 20737773--20738036 Score: 372
Period size: 72 Copynumber: 3.7 Consensus size: 72
20737763 CAATGCTAAA
* *
20737773 CTAGTTTTATCAATTGTTATTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
20737838 GTGTAAT
66 GTGTAAT
* * * * *
20737845 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTTTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
20737910 GTGTAAT
66 GTGTAAT
* *
20737917 CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
* *
20737982 ACT-AAAT
66 -GTGTAAT
* * *
20737989 -TAGTTTTATCAATAGTTGTTTATATAT-GATTTTGGATATAAAATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTAT
20738037 TCACAGGTGA
Statistics
Matches: 173, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
70 18 0.10
71 25 0.14
72 129 0.75
73 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:20739410 original size:3 final size:3
Alignment explanation
Indices: 20739402--20739442 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
20739392 GTCTAGAAAG
* * *
20739402 TGA TGA TGA TGA TGA CGA CGA TGA TGA TGG TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
20739443 GTGAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.05, G:0.37, T:0.29
Consensus pattern (3 bp):
TGA
Found at i:20739824 original size:19 final size:19
Alignment explanation
Indices: 20739796--20739839 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
20739786 TAATGATTAT
20739796 ATTTAAATATT-TAAATATA
1 ATTTAAATATTCTAAATA-A
* *
20739815 ATTTATATATTCTAATTAA
1 ATTTAAATATTCTAAATAA
20739834 ATTTAA
1 ATTTAA
20739840 TAAATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAAATATTCTAAATAA
Found at i:20740941 original size:42 final size:42
Alignment explanation
Indices: 20740877--20740997 Score: 197
Period size: 42 Copynumber: 2.8 Consensus size: 42
20740867 TTTTCTCAAA
*
20740877 TCACTGGCATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGT
1 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGT
20740919 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGT
1 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGT
* *
20740961 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
1 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGA
20740998 ATAATCAAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
42 52 0.70
43 14 0.19
44 8 0.11
ACGTcount: A:0.19, C:0.32, G:0.26, T:0.23
Consensus pattern (42 bp):
TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCCGATATCAGT
Found at i:20741441 original size:43 final size:43
Alignment explanation
Indices: 20741331--20741441 Score: 188
Period size: 42 Copynumber: 2.6 Consensus size: 43
20741321 CTGGCATTAC
*
20741331 GCCTGCTAGGCACGAAGGCCCGAATACAGATCACCGGAACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGAACGAA
* *
20741374 GCCTGC-AGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGAACGAA
20741416 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
20741442 TAATACCAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
42 39 0.61
43 25 0.39
ACGTcount: A:0.31, C:0.32, G:0.27, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGAACGAA
Found at i:20741477 original size:38 final size:38
Alignment explanation
Indices: 20741434--20741517 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
20741424 GGCACGAAGG
* * *
20741434 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
*
20741472 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
*
20741510 CCTGAATA
1 CCCGAATA
20741518 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:20748542 original size:41 final size:40
Alignment explanation
Indices: 20748488--20748574 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 40
20748478 CGAAGGAGAA
*
20748488 AAAAAATTACAACAAAACTCTATTCTAAAGAAAATAAAAG
1 AAAAAATTACAACAAAAATCTATTCTAAAGAAAATAAAAG
*
20748528 AAAAAATCTACAACAAAAATCTATTCTAACGAAAATAAAAG
1 AAAAAAT-TACAACAAAAATCTATTCTAAAGAAAATAAAAG
20748569 AAAAAA
1 AAAAAA
20748575 AAAACCTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 7 0.16
41 37 0.84
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (40 bp):
AAAAAATTACAACAAAAATCTATTCTAAAGAAAATAAAAG
Found at i:20751381 original size:110 final size:109
Alignment explanation
Indices: 20751233--20751522 Score: 411
Period size: 109 Copynumber: 2.7 Consensus size: 109
20751223 CCAGCTTACA
* * * * * * *
20751233 ATGCTGCTCACACAAGCTGTAGAGAATCCGCAATAGATGTACGATCTCAAGCCATCGTTACAGTC
1 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTC-AGCCATTGTTACGGTC
*
20751298 TGTATCACCGGTATAT-GATACCTACTAAATAATCATCGGGTCACG
65 TGTATCACCGGTATATAG-TACCTACTAAATAATCATCAGGTCACG
* * * * *
20751343 ATGCTGCCCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTTAGCCATTTTTATGGTTT
1 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGTTACGGTCT
* *
20751408 ATATCACGGGTATATAGTACCTACTAAATAATCATCAGGTCACG
66 GTATCACCGGTATATAGTACCTACTAAATAATCATCAGGTCACG
*
20751452 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGCTACGGTCT
1 ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGTTACGGTCT
20751517 GTATCA
66 GTATCA
20751523 TTGGCTCAGA
Statistics
Matches: 157, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
109 115 0.73
110 42 0.27
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (109 bp):
ATGCTGCTCACACAAGTTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATTGTTACGGTCT
GTATCACCGGTATATAGTACCTACTAAATAATCATCAGGTCACG
Found at i:20751597 original size:40 final size:40
Alignment explanation
Indices: 20751545--20751629 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
20751535 CTGGTAGACA
*
20751545 ACACTAGCAAAAAGCTTGCTAGGCACAATGCCCGATAAAC
1 ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAC
*
20751585 ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAT
1 ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAC
20751625 ACACT
1 ACACT
20751630 GATCACGTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.15
Consensus pattern (40 bp):
ACACTAGCAAAAAGCTTGCTAGGCACAAAGCCCGATAAAC
Found at i:20754868 original size:13 final size:13
Alignment explanation
Indices: 20754850--20754876 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20754840 TTTACCCTGT
20754850 TATCGCACGGTCG
1 TATCGCACGGTCG
20754863 TATCGCACGGTCG
1 TATCGCACGGTCG
20754876 T
1 T
20754877 GTTTCCCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (13 bp):
TATCGCACGGTCG
Found at i:20768061 original size:20 final size:20
Alignment explanation
Indices: 20768023--20768129 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
20768013 CGAATGTGTG
*
20768023 ATCAGGGGAACCA-AAGTGCA
1 ATCAGGGGTA-CAGAAGTGCA
* *
20768043 AACAGGGGTACAGACGTGCA
1 ATCAGGGGTACAGAAGTGCA
* * * *
20768063 TTTAGGGGTACCGAAGTACA
1 ATCAGGGGTACAGAAGTGCA
* * *
20768083 ACCAGGGGCACATAAGTGCA
1 ATCAGGGGTACAGAAGTGCA
* *
20768103 ATCAGGGGTACCGAAGTACA
1 ATCAGGGGTACAGAAGTGCA
*
20768123 AGCAGGG
1 ATCAGGG
20768130 ACATGTAAGT
Statistics
Matches: 64, Mismatches: 22, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
19 2 0.03
20 62 0.97
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.13
Consensus pattern (20 bp):
ATCAGGGGTACAGAAGTGCA
Found at i:20768102 original size:40 final size:40
Alignment explanation
Indices: 20768023--20768129 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
20768013 CGAATGTGTG
* * * * *
20768023 ATCAGGGGAACCAAAGTGCAAACAGGGGTACAGACGTGCA
1 ATCAGGGGTACCGAAGTACAAACAGGGGCACAGAAGTGCA
* * * *
20768063 TTTAGGGGTACCGAAGTACAACCAGGGGCACATAAGTGCA
1 ATCAGGGGTACCGAAGTACAAACAGGGGCACAGAAGTGCA
*
20768103 ATCAGGGGTACCGAAGTACAAGCAGGG
1 ATCAGGGGTACCGAAGTACAAACAGGG
20768130 ACATGTAAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.13
Consensus pattern (40 bp):
ATCAGGGGTACCGAAGTACAAACAGGGGCACAGAAGTGCA
Found at i:20768139 original size:40 final size:40
Alignment explanation
Indices: 20768066--20768144 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
20768056 ACGTGCATTT
*
20768066 AGGGGTACCGAAGTACAACCAGGGGCACATAAGTGCAATC
1 AGGGGTACCGAAGTACAACCAGGGACACATAAGTGCAATC
* **
20768106 AGGGGTACCGAAGTACAAGCAGGGACATGTAAGTGCAAT
1 AGGGGTACCGAAGTACAACCAGGGACACATAAGTGCAAT
20768145 AATTTAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.14
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAACCAGGGACACATAAGTGCAATC
Found at i:20768908 original size:20 final size:20
Alignment explanation
Indices: 20768880--20768917 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20768870 AACTATCATG
*
20768880 TTTTCTTTATGTTATTAACC
1 TTTTATTTATGTTATTAACC
*
20768900 TTTTATTTATTTTATTAA
1 TTTTATTTATGTTATTAA
20768918 TAAAATAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATTTATGTTATTAACC
Found at i:20771046 original size:21 final size:21
Alignment explanation
Indices: 20771020--20771087 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
20771010 AAAGTGTAAA
20771020 CAGGGGCACATATGTGCAATT
1 CAGGGGCACATATGTGCAATT
** * * *
20771041 CAGGGGCACCGAAGTACAA-A
1 CAGGGGCACATATGTGCAATT
* *
20771061 CAGGGGCACGTATGTGCTATT
1 CAGGGGCACATATGTGCAATT
20771082 CAGGGG
1 CAGGGG
20771088 TATCGAAGCA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.28, C:0.21, G:0.34, T:0.18
Consensus pattern (21 bp):
CAGGGGCACATATGTGCAATT
Found at i:20771062 original size:41 final size:41
Alignment explanation
Indices: 20771017--20771122 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 41
20771007 ACCAAAGTGT
* *
20771017 AAACAGGGGCACATATGTGCAATTCAGGGGCACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
* * *
20771058 AAACAGGGGCACGTATGTGCTATTCAGGGGTATCGAAGCAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
*
20771099 AAATA-GGGCACGTATGTGCAATTC
1 AAACAGGGGCACGTATGTGCAATTC
20771123 GTAGAATAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 18 0.31
41 40 0.69
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGCACCGAAGCAC
Found at i:20777535 original size:19 final size:17
Alignment explanation
Indices: 20777513--20777555 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
20777503 TTTAATTAAA
20777513 TAAATATAATTATTATATG
1 TAAATATAATT-TTAT-TG
*
20777532 TAAATATAATTTTATTT
1 TAAATATAATTTTATTG
20777549 TAAATAT
1 TAAATAT
20777556 GATAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 4 0.17
19 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TAAATATAATTTTATTG
Found at i:20777909 original size:6 final size:6
Alignment explanation
Indices: 20777888--20777930 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
20777878 AATTTAAATA
* *
20777888 TATAA- TATAA- TATAGT TATAGT TATAAT TATAAT TATAAT TAT
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TAT
20777931 TTTATTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (6 bp):
TATAAT
Found at i:20778563 original size:25 final size:25
Alignment explanation
Indices: 20778535--20778589 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
20778525 TTTAATTAGT
*
20778535 AAATATATTTTTTAAAAAATTTGAA
1 AAATATATTATTTAAAAAATTTGAA
* *
20778560 AAATATATTATTTAATAAATTTTAA
1 AAATATATTATTTAAAAAATTTGAA
20778585 AAATA
1 AAATA
20778590 AACACATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
AAATATATTATTTAAAAAATTTGAA
Found at i:20779899 original size:25 final size:24
Alignment explanation
Indices: 20779870--20779930 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
20779860 TTTAATTAGT
**
20779870 AAATATATATTTTTAAAAATTATAA
1 AAATATATATTTAAAAAAATTA-AA
20779895 AAATATATTATTTAAAAAAATTAAA
1 AAATATA-TATTTAAAAAAATTAAA
*
20779920 AAATAAATATT
1 AAATATATATT
20779931 ACATCTTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.12
25 15 0.47
26 13 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATATATATTTAAAAAAATTAAA
Found at i:20779900 original size:23 final size:25
Alignment explanation
Indices: 20779863--20779912 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
20779853 ATTCTTATTT
*
20779863 AATTAGTAAATATATATT-TTTAAA
1 AATTAGTAAAAATATATTATTTAAA
20779887 AATTA-TAAAAATATATTATTTAAA
1 AATTAGTAAAAATATATTATTTAAA
20779911 AA
1 AA
20779913 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AATTAGTAAAAATATATTATTTAAA
Found at i:20779920 original size:23 final size:23
Alignment explanation
Indices: 20779869--20779920 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
20779859 ATTTAATTAG
*
20779869 TAAATATATATTTTTAAAAATTAT
1 TAAA-ATATATTTTTAAAAATAAT
*
20779893 AAAAATATATTATTTAAAAA-AAT
1 TAAAATATATT-TTTAAAAATAAT
20779916 TAAAA
1 TAAAA
20779921 AATAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAATATATTTTTAAAAATAAT
Found at i:20789324 original size:21 final size:21
Alignment explanation
Indices: 20789277--20789324 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
20789267 TCCTAGGGTG
*
20789277 TAAATTGAATTCAATTGAATAT
1 TAAA-TGAATTAAATTGAATAT
*
20789299 GAAATGAATTAAATTG-ATGAT
1 TAAATGAATTAAATTGAAT-AT
20789320 TAAAT
1 TAAAT
20789325 TCATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 17 0.77
22 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
TAAATGAATTAAATTGAATAT
Found at i:20793753 original size:24 final size:23
Alignment explanation
Indices: 20793712--20793822 Score: 136
Period size: 23 Copynumber: 4.7 Consensus size: 23
20793702 AAGCTCCTCC
20793712 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTCTAT
20793737 TGAGCTGAAAACAGTAAGCTCTAT
1 TGAGCTG-AAACAGTAAGCTCTAT
20793761 TGAGCTG-AACAGTAAGCTCT-T
1 TGAGCTGAAACAGTAAGCTCTAT
* * *
20793782 TCGAGCTGAATCAGTAAGCTCCAA
1 T-GAGCTGAAACAGTAAGCTCTAT
*
20793806 TGAGTTGAAACAGTAAG
1 TGAGCTGAAACAGTAAG
20793823 TTTTTACGAG
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
21 2 0.03
22 19 0.25
23 25 0.32
24 23 0.30
25 7 0.09
26 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:20793774 original size:22 final size:22
Alignment explanation
Indices: 20793720--20793822 Score: 127
Period size: 24 Copynumber: 4.5 Consensus size: 22
20793710 CCTGAGCTGA
20793720 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
20793742 TGAAAACAGTAAGCTCTATTGAGC
1 TG--AACAGTAAGCTCTATTGAGC
20793766 TGAACAGTAAGCTCT-TTCGAGC
1 TGAACAGTAAGCTCTATT-GAGC
* * *
20793788 TGAATCAGTAAGCTCCAATGAGT
1 TGAA-CAGTAAGCTCTATTGAGC
20793811 TGAAACAGTAAG
1 TG-AACAGTAAG
20793823 TTTTTACGAG
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.03
22 23 0.32
23 22 0.31
24 25 0.35
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:20795387 original size:48 final size:48
Alignment explanation
Indices: 20795302--20795563 Score: 193
Period size: 48 Copynumber: 5.5 Consensus size: 48
20795292 AGATGCCAAC
* *
20795302 GCCATGTCCTAGACATGGTCTTACACT-GACTTTCATATACAAGGCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTAG-CTCTCATATACAAGGCCGAT
* * *
20795351 GCCATGTCCCAGACAGGACTTACACTAGCTCTCATATATC-GGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATA-CAAG-GCCGAT
** * * * * * *
20795400 GCCACATTCCAGACAGGTCTTACACTA--ACACACA-ACAA-GCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATACAAGGCCGAT
* * * *
20795444 ACCATATCCCAGACAGGTCTTACACTAGCTCGT-ATATCGCGAGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTC-TCATAT-ACAAGGCCGAT
* * * *
20795493 G-CATGTCCCGGACATGTCTTACACTAGCTCTCATCT-CAATGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATACAAGGCCGAT
* *
20795539 G-CATGTCTCAGACATGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
20795564 GACTCTGATA
Statistics
Matches: 167, Mismatches: 35, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
44 27 0.16
45 1 0.01
46 35 0.21
47 5 0.03
48 51 0.31
49 48 0.29
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATACAAGGCCGAT
Found at i:20795554 original size:46 final size:48
Alignment explanation
Indices: 20795450--20795563 Score: 151
Period size: 46 Copynumber: 2.4 Consensus size: 48
20795440 TGACACCATA
* * *
20795450 TCCCAGACAGGTCTTACACTAGCTCGTATATCGCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCGTACATCGCAAGGCCGATGCATG
* * *
20795498 TCCCGGACATGTCTTACACTAGCTC-T-CATCTCAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCGTACATCGCAAGGCCGATGCATG
*
20795544 TCTCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
20795564 GACTCTGATA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 34 0.59
47 1 0.02
48 23 0.40
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
TCCCAGACATGTCTTACACTAGCTCGTACATCGCAAGGCCGATGCATG
Found at i:20801268 original size:6 final size:6
Alignment explanation
Indices: 20801242--20801281 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
20801232 TAAAGAAGAT
* *
20801242 AAATAA AGATAA AAGTAA AAATAA AAATAA TAAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAA
20801282 GTTCTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:20801268 original size:13 final size:14
Alignment explanation
Indices: 20801252--20801283 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
20801242 AAATAAAGAT
20801252 AAAAGTAA-AAATA
1 AAAAGTAATAAATA
20801265 AAAA-TAATAAATA
1 AAAAGTAATAAATA
20801278 AAAAGT
1 AAAAGT
20801284 TCTTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAGTAATAAATA
Found at i:20812549 original size:48 final size:47
Alignment explanation
Indices: 20812483--20812697 Score: 220
Period size: 46 Copynumber: 4.6 Consensus size: 47
20812473 AAGCTGACAC
* * * *
20812483 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCGCAAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCAAGGCCGATG
* * ** *
20812531 CATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCAAGGCCGATG
* * * * *
20812577 CATGTCCCAAACATGTATTACACTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCAAGGCCGATG
* * * *
20812625 CATGTCCCAGACATGTCTTACACTGGCTCTCATA-CT-ATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCAAGGCCGATG
20812671 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
20812698 ACACATATCA
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
46 70 0.50
47 3 0.02
48 66 0.47
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCAAGGCCGATG
Done.