Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 254 of 335
Found at i:77190634 original size:23 final size:21
Alignment explanation
Indices: 77190616--77190677 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
77190606 AGAGCGGAGT
77190616 AGCAGAGAGGGAGGCAGCGGG
1 AGCAGAGAGGGAGGCAGCGGG
* *
77190637 CAGTAGAGAGGGAGGGCAGAGGCG
1 -AGCAGAGAGGGA-GGCAGCGG-G
*
77190661 AGCAGTGAGGGAGGCAG
1 AGCAGAGAGGGAGGCAG
77190678 AGCATAGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 16 0.47
23 17 0.50
24 1 0.03
ACGTcount: A:0.29, C:0.13, G:0.55, T:0.03
Consensus pattern (21 bp):
AGCAGAGAGGGAGGCAGCGGG
Found at i:77190645 original size:22 final size:22
Alignment explanation
Indices: 77190616--77190679 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
77190606 AGAGCGGAGT
*
77190616 AGCAGAGAGGGAGGCAGCGG-G
1 AGCAGAGAGGGAGGCAGAGGCG
*
77190637 CAGTAGAGAGGGAGGGCAGAGGCG
1 -AGCAGAGAGGGA-GGCAGAGGCG
*
77190661 AGCAGTGAGGGAGGCAGAG
1 AGCAGAGAGGGAGGCAGAG
77190680 CATAGGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 18 0.50
23 17 0.47
24 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.55, T:0.03
Consensus pattern (22 bp):
AGCAGAGAGGGAGGCAGAGGCG
Found at i:77192427 original size:44 final size:45
Alignment explanation
Indices: 77192363--77192449 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 45
77192353 TACAGTACAG
*
77192363 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCC-GTGAGA
1 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGA
77192407 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
1 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
77192450 AATGATATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 37 0.90
45 4 0.10
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (45 bp):
TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGA
Found at i:77192474 original size:44 final size:44
Alignment explanation
Indices: 77192363--77192488 Score: 123
Period size: 44 Copynumber: 2.9 Consensus size: 44
77192353 TACAGTACAG
** * *
77192363 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGTGAGA
1 TACTATTCAGGCCTTAAAACCTAGCAGGCTATAATGCCGTGAAA
** *
77192407 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAAA
1 TACTATTCAGGCCTTAAAACCTAGCAGGCTATAATGCC-GTGAAA
* * *
77192452 TGA-TATTTAGG-TTTAAAACCTAGCATGCTA-AATGCCG
1 T-ACTATTCAGGCCTTAAAACCTAGCAGGCTATAATGCCG
77192489 GTGATTTGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
44 51 0.71
45 13 0.18
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
TACTATTCAGGCCTTAAAACCTAGCAGGCTATAATGCCGTGAAA
Found at i:77194270 original size:31 final size:31
Alignment explanation
Indices: 77194228--77194341 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
77194218 CCTTTTCGTA
77194228 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
77194265 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
77194297 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
77194328 TTTCATGTTTCATA
1 TTTCATATTTCATA
77194342 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:77194270 original size:38 final size:38
Alignment explanation
Indices: 77194205--77194367 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
77194195 TCAATCATGC
* * *
77194205 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATGTTTCATATTTCATAAT
77194244 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
*
77194282 ACTGGGCCGAAG-C----C-T-TTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
77194313 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
77194351 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
77194368 ACTGTAAACG
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 27 0.24
32 2 0.02
33 1 0.01
36 1 0.01
37 2 0.02
38 68 0.61
39 11 0.10
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
Found at i:77194339 original size:69 final size:69
Alignment explanation
Indices: 77194228--77194367 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
77194218 CCTTTTCGTA
77194228 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
77194293 GCCT
66 GCCT
*
77194297 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
77194362 GCCT
66 GCCT
77194366 TT
1 TT
77194368 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:77194605 original size:24 final size:24
Alignment explanation
Indices: 77194559--77194653 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
77194549 GCTTTATCAT
*
77194559 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
77194584 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
77194608 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
77194631 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77194654 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:77194638 original size:47 final size:49
Alignment explanation
Indices: 77194559--77194652 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
77194549 GCTTTATCAT
*
77194559 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
77194608 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
77194653 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:77194729 original size:20 final size:20
Alignment explanation
Indices: 77194704--77194763 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
77194694 TATGATTACC
77194704 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
77194724 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
77194744 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
77194764 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:77194838 original size:25 final size:25
Alignment explanation
Indices: 77194806--77194853 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
77194796 ATACATAAAC
* * *
77194806 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
77194831 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
77194854 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:77202621 original size:31 final size:31
Alignment explanation
Indices: 77202579--77202692 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
77202569 CCTTTTCGTA
77202579 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
77202616 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
77202648 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
77202679 TTTCATGTTTCATA
1 TTTCATATTTCATA
77202693 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:77202621 original size:38 final size:38
Alignment explanation
Indices: 77202556--77202718 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
77202546 TCAATCATGC
* * *
77202556 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATGTTTCATATTTCATAAT
77202595 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
*
77202633 ACTGGGCCGAAG-C----C-T-TTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
77202664 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
77202702 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
77202719 ACTGTAAACG
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 27 0.24
32 2 0.02
33 1 0.01
36 1 0.01
37 2 0.02
38 68 0.61
39 11 0.10
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
Found at i:77202690 original size:69 final size:69
Alignment explanation
Indices: 77202579--77202718 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
77202569 CCTTTTCGTA
77202579 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
77202644 GCCT
66 GCCT
*
77202648 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
77202713 GCCT
66 GCCT
77202717 TT
1 TT
77202719 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:77202956 original size:24 final size:24
Alignment explanation
Indices: 77202910--77203004 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
77202900 GCTTTATCAT
*
77202910 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
77202935 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
77202959 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
77202982 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77203005 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:77202989 original size:47 final size:49
Alignment explanation
Indices: 77202910--77203003 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
77202900 GCTTTATCAT
*
77202910 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
77202959 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
77203004 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:77203080 original size:20 final size:20
Alignment explanation
Indices: 77203055--77203114 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
77203045 TATGATTACC
77203055 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
77203075 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
77203095 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
77203115 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:77203189 original size:25 final size:25
Alignment explanation
Indices: 77203157--77203204 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
77203147 ATACATAAAC
* * *
77203157 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
77203182 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
77203205 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:77207236 original size:64 final size:64
Alignment explanation
Indices: 77207155--77207338 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
77207145 AGACATTATG
* * *
77207155 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
77207219 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGATAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
77207284 AA
63 AA
* * * *
77207286 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCAGCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
77207339 CAAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 25 0.26
66 21 0.22
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:77208432 original size:2 final size:2
Alignment explanation
Indices: 77208425--77208457 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
77208415 TCATGACATG
77208425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
77208458 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77214511 original size:28 final size:29
Alignment explanation
Indices: 77214424--77214521 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 29
77214414 TCACAAATTG
* *
77214424 GCACTAAGTGTGCGGGTTCAAAT-TGTACA
1 GCACTAAGTGTGCGAGTTCGAATAT-TACA
* * * *
77214453 GCACTAAGTGT-CAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTACA
*
77214480 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTACA
77214508 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
77214522 GGCTTATTAC
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
27 14 0.25
28 30 0.53
29 13 0.23
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTACA
Found at i:77218080 original size:45 final size:45
Alignment explanation
Indices: 77218016--77218177 Score: 231
Period size: 45 Copynumber: 3.6 Consensus size: 45
77218006 TATCGTACGG
* *
77218016 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
77218061 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
77218106 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
77218151 TGA-TA-TC-GGACTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGC
77218178 GAAATGTCGG
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 17 0.16
44 2 0.02
45 87 0.81
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:77222215 original size:24 final size:24
Alignment explanation
Indices: 77222123--77222287 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
77222113 GCTTTATCAT
*
77222123 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
77222148 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
77222171 ATAACTAGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77222194 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77222217 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77222241 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77222265 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77222288 TGCACTTCCT
Statistics
Matches: 132, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 61 0.46
24 64 0.48
25 7 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:77222234 original size:47 final size:48
Alignment explanation
Indices: 77222123--77222287 Score: 257
Period size: 47 Copynumber: 3.5 Consensus size: 48
77222113 GCTTTATCAT
* *
77222123 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
77222171 ATAACTAGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
77222217 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
77222265 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77222288 TGCACTTCCT
Statistics
Matches: 109, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
46 32 0.29
47 43 0.39
48 34 0.31
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:77222366 original size:20 final size:20
Alignment explanation
Indices: 77222343--77222386 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
77222333 GAACATCTCG
77222343 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
77222363 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
77222383 TGTG
1 TGTG
77222387 ACAGCCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:77224163 original size:40 final size:40
Alignment explanation
Indices: 77224055--77224164 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
77224045 ATTGAATGAT
* * * * *
77224055 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
77224095 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
*
77224135 ATCCGAGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
77224165 AAATTGTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:77225737 original size:25 final size:25
Alignment explanation
Indices: 77225691--77225738 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
77225681 ATATATAAAC
* * * *
77225691 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
77225716 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
77225739 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:77226991 original size:27 final size:27
Alignment explanation
Indices: 77226970--77227309 Score: 321
Period size: 27 Copynumber: 12.7 Consensus size: 27
77226960 AAGGGTATTT
*
77226970 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
77226997 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
77227024 CAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* **
77227051 TGGTAATTCTGTAAATTTAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
77227078 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
77227105 -CGATAATTATGTAAATCGTGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * * *
77227132 CAGTAATTATGTAAATTGGGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
77227159 CGGTAATTGTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
77227186 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
* *
77227213 -CGATAATTCTATAAATCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
** * **
77227240 CGGTAATTTTACAAATCG-GGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * * *
77227266 CGGTAATTCTAT-AACCTAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
**
77227292 CGGTAATTCTGTAAATCG
1 TAGTAATTCTGTAAATCG
77227310 GGAGTACTTT
Statistics
Matches: 268, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
25 3 0.01
26 40 0.15
27 222 0.83
28 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:77227017 original size:54 final size:53
Alignment explanation
Indices: 77226970--77227309 Score: 362
Period size: 54 Copynumber: 6.3 Consensus size: 53
77226960 AAGGGTATTT
* *
77226970 TAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAA
* * * **
77227024 CAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTTAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA-CGTAATTCTGTAAATCGAGGGTAAAA
* * *
77227078 TGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGTGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAACG-TAATTCTGTAAATCGAGGGTAAAA
* * * * *
77227132 CAGTAATTATGTAAATTGGGGGTAAAACGGTAATTGTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAA
*
77227186 TAGTAATTCTGTAAA-CTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAACG-TAATTCTGTAAATCGAGGGTAAAA
** * ** * * *
77227240 CGGTAATTTTACAAATCG-GGGTAAAACGGTAATTCTAT-AACCTAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAAC-GTAATTCTGTAAATCGAGGGTAAAA
**
77227292 CGGTAATTCTGTAAATCG
1 TAGTAATTCTGTAAATCG
77227310 GGAGTACTTT
Statistics
Matches: 242, Mismatches: 37, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
52 27 0.11
53 20 0.08
54 193 0.80
55 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (53 bp):
TAGTAATTCTGTAAATCGAGGGTAAAACGTAATTCTGTAAATCGAGGGTAAAA
Found at i:77227057 original size:81 final size:81
Alignment explanation
Indices: 77226972--77227309 Score: 405
Period size: 81 Copynumber: 4.2 Consensus size: 81
77226962 GGGTATTTTA
* * *
77226972 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
77227037 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
** * * *
77227053 GTAATTCTGTAAATTTAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTAT
* *
77227117 AAATCGTGGGTAAAACA
65 AAATCGAGGGTAAAACG
* * * * * *
77227134 GTAATTATGTAAATTGGGGGTAAAACGGTAATTGTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
77227199 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAACG
* * * ** *
77227215 ATAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCG-GGGTAAAACGGTAATTCTAT-
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
* *
77227278 AACCTAGGGTAAAACG
66 AATCGAGGGTAAAACG
77227294 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
77227310 GGAGTACTTT
Statistics
Matches: 219, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
79 27 0.12
80 20 0.09
81 171 0.78
82 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:77230419 original size:23 final size:24
Alignment explanation
Indices: 77230390--77230570 Score: 299
Period size: 23 Copynumber: 7.9 Consensus size: 24
77230380 TAGCCTCTTT
77230390 TAACTGGGGCA-AAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
77230413 TAACTGGGGCA-AAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
77230436 TAACTGGGGCATAAGCCC-TTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
77230459 TAACT-GGGCATAAG-CCTTTT-A
1 TAACTGGGGCATAAGCCCTTTTAA
77230480 -AACTGGGGCATAAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
77230503 TAACTGGGGCATAAG-CCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
77230526 TAACTGGGGCATAAGCCC-TTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
77230549 TAACTGGGGCATAAGCCCTTTT
1 TAACTGGGGCATAAGCCCTTTT
77230571 TGCACTTCCT
Statistics
Matches: 150, Mismatches: 0, Indels: 15
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.03
21 12 0.08
22 18 0.12
23 91 0.61
24 25 0.17
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTAA
Found at i:77230507 original size:90 final size:90
Alignment explanation
Indices: 77230368--77230570 Score: 326
Period size: 90 Copynumber: 2.3 Consensus size: 90
77230358 GCTTTATCAT
77230368 ATAACTGGAGGC-T-AGCCTCTTTTAACTGGGGCAAAGCCCTTTTAATAACTGGGGCA-AAGCCC
1 ATAACTGG-GGCATAAGCC-CTTTTAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAG-CC
77230430 TTTTAATAACTGGGGCATAAGCCCTTTA
63 TTTTAATAACTGGGGCATAAGCCCTTTA
77230458 ATAACT-GGGCATAAG-CCTTTTAAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCT
1 ATAACTGGGGCATAAGCCCTTTT-AACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCT
77230521 TTTAATAACTGGGGCATAAGCCCTTTA
64 TTTAATAACTGGGGCATAAGCCCTTTA
77230548 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77230571 TGCACTTCCT
Statistics
Matches: 106, Mismatches: 0, Indels: 12
0.90 0.00 0.10
Matches are distributed among these distances:
88 8 0.08
89 13 0.12
90 67 0.63
91 12 0.11
92 6 0.06
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (90 bp):
ATAACTGGGGCATAAGCCCTTTTAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCTTT
TAATAACTGGGGCATAAGCCCTTTA
Found at i:77230644 original size:9 final size:9
Alignment explanation
Indices: 77230630--77230686 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
77230620 ATCTCGTGTG
77230630 CATATCATA
1 CATATCATA
*
77230639 CATATCATGTG
1 CATATCA--TA
77230650 CATATCATA
1 CATATCATA
* *
77230659 CATGTCATGTG
1 CATATCA--TA
77230670 CATATCATA
1 CATATCATA
77230679 CATATCAT
1 CATATCAT
77230687 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:77230649 original size:20 final size:20
Alignment explanation
Indices: 77230626--77230688 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
77230616 GAACATCTCG
77230626 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
77230646 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
77230666 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
77230686 TGT
1 TGT
77230689 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:77232029 original size:27 final size:27
Alignment explanation
Indices: 77232009--77232348 Score: 404
Period size: 27 Copynumber: 12.6 Consensus size: 27
77231999 AGGGTATTTT
*
77232009 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
77232036 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
77232063 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
77232090 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
77232117 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
77232144 -GATAATTATGTAAATCG-GGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
77232170 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* *
77232197 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
77232224 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
77232251 -GATAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * **
77232278 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
77232305 GGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
77232332 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
77232349 GGAGTACTTT
Statistics
Matches: 279, Mismatches: 23, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
26 28 0.10
27 245 0.88
28 6 0.02
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:77232095 original size:81 final size:82
Alignment explanation
Indices: 77232010--77232348 Score: 458
Period size: 81 Copynumber: 4.2 Consensus size: 82
77232000 GGGTATTTTA
* * *
77232010 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
77232075 AATC-GAGGGTAAAATG
66 AATCTGAGGGTAAAACG
* * *
77232091 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTAT
77232155 AAATC-G-GGGTAAAACG
65 AAATCTGAGGGTAAAACG
* * * *
77232171 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
77232235 AAA-CTGAGGGTAAAACG
65 AAATCTGAGGGTAAAACG
* * ** *
77232252 ATAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTAT-
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
*
77232316 AACCTGAGGGTAAAACG
66 AATCTGAGGGTAAAACG
77232333 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
77232349 GGAGTACTTT
Statistics
Matches: 229, Mismatches: 22, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
79 2 0.01
80 71 0.31
81 155 0.68
82 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (82 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCTGAGGGTAAAACG
Found at i:77235448 original size:5 final size:6
Alignment explanation
Indices: 77235435--77235481 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
77235425 ATAATTTAAT
*
77235435 AAATAA AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
77235482 ACATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:77235483 original size:20 final size:19
Alignment explanation
Indices: 77235435--77235481 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
77235425 ATAATTTAAT
77235435 AAATAAAAA-TAAAAATAA
1 AAATAAAAACTAAAAATAA
*
77235453 AAATCTAAAACTAAAAATAA
1 AAAT-AAAAACTAAAAATAA
77235473 AAATAAAAA
1 AAATAAAAA
77235482 ACATATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 8 0.32
20 13 0.52
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAAAAACTAAAAATAA
Found at i:77235569 original size:9 final size:9
Alignment explanation
Indices: 77235501--77235568 Score: 100
Period size: 9 Copynumber: 7.6 Consensus size: 9
77235491 TTTATACAAA
77235501 TAATTCGGT
1 TAATTCGGT
77235510 TAATTCGGT
1 TAATTCGGT
*
77235519 TAATTCGGG
1 TAATTCGGT
77235528 TAATTCGGT
1 TAATTCGGT
*
77235537 TAATTCGAT
1 TAATTCGGT
*
77235546 TAATTCAGT
1 TAATTCGGT
*
77235555 TAATTTGGT
1 TAATTCGGT
77235564 TAATT
1 TAATT
77235569 TTATACTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:77247503 original size:47 final size:48
Alignment explanation
Indices: 77247443--77247564 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 48
77247433 CTCAATCGAT
* *
77247443 AAGTATCTATACCATAGCCCATAGCCAAATCAAGTTAACTTATC-CTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGTTAACTTATCTCTA
* * *
77247490 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGTTAACTTCTCTCTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGTTAACTTATCTCTA
* * *
77247538 AAATACCCATACCATGGCCTATAGCCA
1 AAGTACCTATACCATGGCCCATAGCCA
77247565 TCGTAGAGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
47 39 0.61
48 25 0.39
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.25
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGTTAACTTATCTCTA
Found at i:77249123 original size:16 final size:16
Alignment explanation
Indices: 77249095--77249135 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
77249085 ATAGATATGC
77249095 GAATAAA-AAATAAGT
1 GAATAAATAAATAAGT
77249110 GAATAAATAAATAAGT
1 GAATAAATAAATAAGT
*
77249126 GAACAAATAA
1 GAATAAATAA
77249136 GTGAAAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (16 bp):
GAATAAATAAATAAGT
Found at i:77258042 original size:41 final size:41
Alignment explanation
Indices: 77257997--77258114 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
77257987 TGAAAGATAA
77257997 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
77258038 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
77258068 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
77258109 ATGTAG
1 ATGTAG
77258115 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:77258053 original size:71 final size:71
Alignment explanation
Indices: 77257965--77258128 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
77257955 GAGATGTATC
77257965 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
77258030 AGGACA
66 AGGACA
77258036 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
77258101 AGGACA
66 AGGACA
77258107 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
77258129 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:77265150 original size:41 final size:41
Alignment explanation
Indices: 77265105--77265222 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
77265095 TGAAAGATAA
77265105 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
77265146 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
77265176 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
77265217 ATGTAG
1 ATGTAG
77265223 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:77265161 original size:71 final size:71
Alignment explanation
Indices: 77265073--77265236 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
77265063 GAGATGTATC
77265073 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
77265138 AGGACA
66 AGGACA
77265144 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
77265209 AGGACA
66 AGGACA
77265215 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
77265237 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:77267052 original size:40 final size:40
Alignment explanation
Indices: 77266959--77267213 Score: 297
Period size: 40 Copynumber: 6.5 Consensus size: 40
77266949 AAGCCAAGTA
* * *
77266959 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
77266997 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
77267037 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGTAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
77267076 CCTTCAGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
77267116 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
77267156 CCTT-TGGACTTCGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
77267195 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
77267214 TTATCATCCG
Statistics
Matches: 189, Mismatches: 22, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
38 12 0.06
39 82 0.43
40 95 0.50
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:77267091 original size:79 final size:78
Alignment explanation
Indices: 77266959--77267213 Score: 293
Period size: 79 Copynumber: 3.2 Consensus size: 78
77266949 AAGCCAAGTA
* * * *
77266959 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCT-CAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCG-TACAATGCCTTCAGGACTTAGCCCGGATATAG
*
77267022 TAACTCGCACCAATG
64 TAACTCGCACAAATG
* *
77267037 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGTACAATGCCTTCAGGACTTAGCCCGGATGTAAT
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGTACAATGCCTTCAGGACTTAGCCCGGATATAGT
77267102 AACTCGCACAAATG
65 AACTCGCACAAATG
* * * * *
77267116 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTT-TGGACTTCGCCCGGA-ACTA
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGTAC-AATGCCTTCAGGACTTAGCCCGGATA-TA
* * *
77267179 GTCACTAGCGCAAATG
63 GTAACTCGCACAAATG
77267195 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
77267214 TTATCATCCG
Statistics
Matches: 154, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
78 15 0.10
79 130 0.84
80 9 0.06
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGTACAATGCCTTCAGGACTTAGCCCGGATATAGTA
ACTCGCACAAATG
Found at i:77270765 original size:48 final size:48
Alignment explanation
Indices: 77270713--77270930 Score: 175
Period size: 48 Copynumber: 4.5 Consensus size: 48
77270703 AGATCCCATG
* * * *
77270713 TAAGACCATATCTGGGATATGGCATCGGCATTGATAAGAGATCCTGCA
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAGAGCCAGCA
* * ** * * **
77270761 TAAGACCCTGTTTGGGACATGGCATCGGTGTTGATATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAGAGCCAGCA
* **** * **
77270809 TAAGACCATGTCTGGGACATGGCATCGACATTGATATTTTAGCCCGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAGAGCCAGCA
* * * * * * * * *
77270857 TAAGACCATGCCTGGGACATGGAATTGGCTTTGATATGTGTGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAGAGCCAGCA
77270905 TAAGACCATGTCTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
77270931 AGCACTGACA
Statistics
Matches: 136, Mismatches: 34, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 136 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAGAGCCAGCA
Found at i:77270835 original size:96 final size:96
Alignment explanation
Indices: 77270711--77270930 Score: 253
Period size: 96 Copynumber: 2.3 Consensus size: 96
77270701 TGAGATCCCA
* * * * * * **
77270711 TGTAAGACCATATCTGGGATATGGCATCGGCATTGATAAGAGATCCTGCATAAGACCCTGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGATAAGAGAGCCCGCATAAGACCATGCCTGG
*
77270776 GACATGGCATCGG-TGTTGATATGTGAGCCAG
66 GACATGGAATCGGCT-TTGATATGTGAGCCAG
**** **
77270807 TGTAAGACCATGTCTGGGACATGGCATCGACATTGATATTTTAGCCCGTGTAAGACCATGCCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGATAAGAGAGCCCGCATAAGACCATGCCTGG
* * *
77270872 GACATGGAATTGGCTTTGATATGTGTGCTAG
66 GACATGGAATCGGCTTTGATATGTGAGCCAG
*
77270903 TATAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
77270931 AGCACTGACA
Statistics
Matches: 104, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 103 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACATTGATAAGAGAGCCCGCATAAGACCATGCCTGG
GACATGGAATCGGCTTTGATATGTGAGCCAG
Found at i:77270957 original size:96 final size:95
Alignment explanation
Indices: 77270773--77270961 Score: 213
Period size: 96 Copynumber: 2.0 Consensus size: 95
77270763 AGACCCTGTT
* *
77270773 TGGGACATGGCATCGGTGTTGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 TGGGACATGGAATCGGTGTTGATATGTGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGAC
* * * * *
77270838 ATTGATATTTTAGCCCGTGTAAGACCATGCC
66 ACTGACA-TTGAGCCCATATAAGACCATGCC
* * *
77270869 TGGGACATGGAATTGGCT-TTGATATGTGTGCTAGTATAAGACCATGTCTGGGACATGGCATC-A
1 TGGGACATGGAATCGG-TGTTGATATGTGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGA
*
77270932 GCACTGACA-TGAGACTTCATATAAGACCAT
65 -CACTGACATTGAG-C-CCATATAAGACCAT
77270962 ATCCGGGATA
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
94 3 0.04
95 2 0.03
96 72 0.92
97 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (95 bp):
TGGGACATGGAATCGGTGTTGATATGTGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGAC
ACTGACATTGAGCCCATATAAGACCATGCC
Found at i:77283468 original size:17 final size:18
Alignment explanation
Indices: 77283446--77283479 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
77283436 GCCATTTTCA
77283446 GACGTGTGGG-CCACACG
1 GACGTGTGGGTCCACACG
77283463 GACGTGTGGGTCCACAC
1 GACGTGTGGGTCCACAC
77283480 AGGCCGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.29, G:0.38, T:0.15
Consensus pattern (18 bp):
GACGTGTGGGTCCACACG
Found at i:77284882 original size:31 final size:31
Alignment explanation
Indices: 77284840--77284903 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
77284830 CCTTTTCATA
* * *
77284840 TTTCATTTTTCATAACATTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
**
77284871 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
77284902 TT
1 TT
77284904 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCAAAGCCT
Found at i:77285188 original size:24 final size:24
Alignment explanation
Indices: 77285096--77285284 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
77285086 GCTTTATCAT
*
77285096 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
77285121 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
77285144 ATAACTAGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77285167 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77285190 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77285214 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77285238 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
77285262 ATAACTTGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77285285 TGCACTTCCT
Statistics
Matches: 155, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 61 0.39
24 87 0.56
25 7 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:77285357 original size:9 final size:9
Alignment explanation
Indices: 77285343--77285419 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
77285333 ATCTCGTGTG
77285343 CATATCATA
1 CATATCATA
*
77285352 CATATCATGTG
1 CATATCA--TA
77285363 CATATCATA
1 CATATCATA
* *
77285372 CATGTCATGTG
1 CATATCA--TA
77285383 CATATCATA
1 CATATCATA
*
77285392 CATATCATGTG
1 CATATCA--TA
77285403 CATATCATA
1 CATATCATA
77285412 CATATCAT
1 CATATCAT
77285420 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:77285362 original size:20 final size:20
Alignment explanation
Indices: 77285339--77285421 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
77285329 GAACATCTCG
77285339 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
77285359 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
77285379 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
77285399 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
77285419 TGT
1 TGT
77285422 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:77285368 original size:11 final size:11
Alignment explanation
Indices: 77285339--77285410 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
77285329 GAACATCTCG
77285339 TGTGCATATCA
1 TGTGCATATCA
*
77285350 --TACATATCA
1 TGTGCATATCA
77285359 TGTGCATATCA
1 TGTGCATATCA
* *
77285370 --TACATGTCA
1 TGTGCATATCA
77285379 TGTGCATATCA
1 TGTGCATATCA
*
77285390 --TACATATCA
1 TGTGCATATCA
77285399 TGTGCATATCA
1 TGTGCATATCA
77285410 T
1 T
77285411 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:77285486 original size:25 final size:25
Alignment explanation
Indices: 77285458--77285505 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
77285448 ATATATAAAC
* *
77285458 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
77285483 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
77285506 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:77286730 original size:27 final size:27
Alignment explanation
Indices: 77286657--77286724 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
77286647 GGGCATATTC
* * *
77286657 GTCATTTTACCTTAC-AGGGGTATTACG
1 GTCACTTTACCCTACAAGGGCT-TTACG
*
77286684 GTTACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
77286711 GTCACTTTACCCTA
1 GTCACTTTACCCTA
77286725 ATAGGGGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 30 0.86
28 5 0.14
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCACTTTACCCTACAAGGGCTTTACG
Found at i:77286806 original size:27 final size:27
Alignment explanation
Indices: 77286776--77286827 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
77286766 GTAAATCAAC
77286776 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
77286803 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
77286828 TAGAAAGTCA
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:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:77287005 original size:80 final size:80
Alignment explanation
Indices: 77286864--77287017 Score: 202
Period size: 80 Copynumber: 1.9 Consensus size: 80
77286854 TTTGTAAATC
* *
77286864 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTACGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTACGGTAATTTCACAAACAAGTGGTATTTT
*
77286929 GGTAATTTTACAACT
66 AGTAATTTTACAACT
** ** ***
77286944 AGGGGTATTTTGGTAATTTTACTCATCGAGGGTATTTTGGTAATTTTGTAAACTAAG-GGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTACGGTAATTTCACAAAC-AAGTGGTATTT
77287008 TAGTAATTTT
65 TAGTAATTTT
77287018 GTAAATCGAG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 61 0.97
81 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTACGGTAATTTCACAAACAAGTGGTATTTT
AGTAATTTTACAACT
Found at i:77287026 original size:54 final size:53
Alignment explanation
Indices: 77286784--77287031 Score: 166
Period size: 54 Copynumber: 4.6 Consensus size: 53
77286774 ACAAACCAAA
* * * * * *
77286784 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTCAAG
1 GGTATTTTAGTAATTTTGTAAATCGAGGGTATTT-TGGTAATTTTT--AAACT-AAG
* * * *
77286840 GGTATTTCT-GTAACTTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTT-TAGTAATTTTGTAAATCGA-GGGTATTTTGGTAATTTT-TAAACTAAG
*** *** * *
77286894 GGTATTACGGTAATTTCACAAA-CCAGTGGTATTTTGGTAA-TTTTACAACTAGG
1 GGTATTTTAGTAATTTTGTAAATCGAG-GGTATTTTGGTAATTTTTA-AACTAAG
* * *
77286947 GGTATTTTGGTAATTTTACT-CATCGAGGGTATTTTGGTAATTTTGTAAACTAAG
1 GGTATTTTAGTAATTTT-GTAAATCGAGGGTATTTTGGTAATTTT-TAAACTAAG
77287001 GGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGTATTTTAGTAATTTTGTAAATCGAGGGTA
77287032 AAACAGTAAT
Statistics
Matches: 150, Mismatches: 29, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
52 1 0.01
53 38 0.25
54 69 0.46
55 8 0.05
56 34 0.23
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (53 bp):
GGTATTTTAGTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTTAAACTAAG
Found at i:77287030 original size:27 final size:27
Alignment explanation
Indices: 77286838--77287031 Score: 139
Period size: 27 Copynumber: 7.2 Consensus size: 27
77286828 TAGAAAGTCA
*
77286838 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTGTAAATCG
** *
77286864 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTGTAAATCG
** *** *
77286892 AGGGTATTACGGTAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTGTAAATCG
** * *
77286918 AGTGGTATTTTGGTAATTTTACAACTAG
1 AG-GGTATTTTGGTAATTTTGTAAATCG
* *
77286946 -GGGTATTTTGGTAATTTTACT-CATCG
1 AGGGTATTTTGGTAATTTT-GTAAATCG
*
77286972 AGGGTATTTTGGTAATTTTGTAAA-CTA
1 AGGGTATTTTGGTAATTTTGTAAATC-G
*
77286999 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
77287026 AGGGTA
1 AGGGTA
77287032 AAACAGTAAT
Statistics
Matches: 133, Mismatches: 25, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
26 25 0.19
27 106 0.80
28 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAATCG
Found at i:77287039 original size:27 final size:27
Alignment explanation
Indices: 77287009--77287142 Score: 171
Period size: 27 Copynumber: 5.0 Consensus size: 27
77286999 AGGGTATTTT
*
77287009 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* **
77287036 AGTAATTTTGTAAATTAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
77287063 AGTAATTCTATAAATCGACGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
77287090 -GATAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
77287117 GGTAATTCTATAAGTCGAGGGTAAAA
1 AGTAATTCTGTAAATCGAGGGTAAAA
77287143 TGGGGGTAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:77287041 original size:54 final size:53
Alignment explanation
Indices: 77286983--77287142 Score: 169
Period size: 54 Copynumber: 3.0 Consensus size: 53
77286973 GGGTATTTTG
**** * * *
77286983 GTAATTTTGTAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GTAATTTTGTAAACTAAGGGTAAAACAGTAATTCTATAAATCGACGGTAAAAC
*
77287036 AGTAATTTTGTAAATTAAGGGTAAAACAGTAATTCTATAAATCGACGGTAAAAC
1 -GTAATTTTGTAAACTAAGGGTAAAACAGTAATTCTATAAATCGACGGTAAAAC
* * * * *
77287090 GATAATTCTGTAAA-TCGAGGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAA
1 G-TAATTTTGTAAACT-AAGGGTAAAACAGTAATTCTATAAATCGACGGTAAAA
77287143 TGGGGGTAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.02
54 89 0.98
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (53 bp):
GTAATTTTGTAAACTAAGGGTAAAACAGTAATTCTATAAATCGACGGTAAAAC
Found at i:77287150 original size:38 final size:38
Alignment explanation
Indices: 77287108--77287183 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
77287098 TGTAAATCGA
* *
77287108 GGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAATGG
1 GGGTAAAACGGTAATTATATAAATCGAGGGTAAAATGG
* * *
77287146 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGG
1 GGGTAAAACGGTAATTATATAAATCGAGGGTAAAATGG
77287184 TAATTCTGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.33, T:0.25
Consensus pattern (38 bp):
GGGTAAAACGGTAATTATATAAATCGAGGGTAAAATGG
Found at i:77287167 original size:27 final size:28
Alignment explanation
Indices: 77287137--77287204 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
77287127 TAAGTCGAGG
77287137 GTAAAAT-GGGGGTAAAATGGTAATTAT
1 GTAAAATCGGGGGTAAAATGGTAATTAT
*
77287164 GT-AAATCGGGGGTAAAATGGTAATTCT
1 GTAAAATCGGGGGTAAAATGGTAATTAT
*
77287191 GT-AAATCAGGGGTA
1 GTAAAATCGGGGGTA
77287205 CTTTGGTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.28
Consensus pattern (28 bp):
GTAAAATCGGGGGTAAAATGGTAATTAT
Found at i:77287213 original size:92 final size:92
Alignment explanation
Indices: 77287054--77287231 Score: 205
Period size: 92 Copynumber: 1.9 Consensus size: 92
77287044 TGTAAATTAA
*
77287054 GGGTAAAACAGTAATTCTATAAATCGACGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGG
1 GGGTAAAACAGTAATTATATAAATCGACGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGG
* *
77287119 TAATTCTATAAGTCGAGGGTAAAATGG
66 TAATTCTACAAGTCGAAGGTAAAATGG
** * ** * * ****
77287146 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATC-AGGGGTACTTTG
1 GGGTAAAACAGTAATTATATAAATCGACGGTAAAACGATAATTCTGTAAATCGA-GGGTAAAACG
*
77287210 GTAATTTTACAAGTCGAAGGTA
65 GTAATTCTACAAGTCGAAGGTA
77287232 TTTCAGTAAT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
91 1 0.01
92 69 0.99
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (92 bp):
GGGTAAAACAGTAATTATATAAATCGACGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGG
TAATTCTACAAGTCGAAGGTAAAATGG
Found at i:77287215 original size:27 final size:27
Alignment explanation
Indices: 77287145--77287204 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
77287135 GGGTAAAATG
*
77287145 GGGGTAAAATGGTAATTATGTAAATCG
1 GGGGTAAAATGGTAATTATGTAAATCA
*
77287172 GGGGTAAAATGGTAATTCTGTAAATCA
1 GGGGTAAAATGGTAATTATGTAAATCA
77287199 GGGGTA
1 GGGGTA
77287205 CTTTGGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.28
Consensus pattern (27 bp):
GGGGTAAAATGGTAATTATGTAAATCA
Found at i:77287231 original size:27 final size:27
Alignment explanation
Indices: 77287210--77287299 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
77287200 GGGTACTTTG
*
77287210 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
77287237 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
77287264 GTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
77287291 GTAATTTTA
1 GTAATTTTA
77287300 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:77287313 original size:27 final size:27
Alignment explanation
Indices: 77287210--77287314 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
77287200 GGGTACTTTG
* *
77287210 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
77287237 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
77287264 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
77287291 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
77287315 CTAAACAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.84
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:77290047 original size:31 final size:31
Alignment explanation
Indices: 77290005--77290068 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
77289995 CCTTTTCATA
* *
77290005 TTTCATTTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
**
77290036 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
77290067 TT
1 TT
77290069 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCAAAGCCT
Found at i:77290353 original size:24 final size:24
Alignment explanation
Indices: 77290261--77290401 Score: 218
Period size: 23 Copynumber: 6.0 Consensus size: 24
77290251 GCTTTATCAT
*
77290261 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
77290286 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77290309 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77290332 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77290355 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77290379 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77290402 TGCACTTCCT
Statistics
Matches: 110, Mismatches: 3, Indels: 7
0.92 0.03 0.06
Matches are distributed among these distances:
23 63 0.57
24 40 0.36
25 7 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:77290372 original size:47 final size:47
Alignment explanation
Indices: 77290261--77290400 Score: 214
Period size: 47 Copynumber: 3.0 Consensus size: 47
77290251 GCTTTATCAT
* *
77290261 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCC-TTTA
77290309 ATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
77290355 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
77290401 TTGCACTTCC
Statistics
Matches: 87, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
46 33 0.38
47 46 0.53
48 8 0.09
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:77290474 original size:9 final size:9
Alignment explanation
Indices: 77290460--77290536 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
77290450 ATCTCGTGTG
77290460 CATATCATA
1 CATATCATA
*
77290469 CATATCATGTG
1 CATATCA--TA
77290480 CATATCATA
1 CATATCATA
* *
77290489 CATGTCATGTG
1 CATATCA--TA
77290500 CATATCATA
1 CATATCATA
*
77290509 CATATCATGTG
1 CATATCA--TA
77290520 CATATCATA
1 CATATCATA
77290529 CATATCAT
1 CATATCAT
77290537 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:77290479 original size:20 final size:20
Alignment explanation
Indices: 77290456--77290538 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
77290446 GAACATCTCG
77290456 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
77290476 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
77290496 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
77290516 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
77290536 TGT
1 TGT
77290539 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:77290485 original size:11 final size:11
Alignment explanation
Indices: 77290456--77290527 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
77290446 GAACATCTCG
77290456 TGTGCATATCA
1 TGTGCATATCA
*
77290467 --TACATATCA
1 TGTGCATATCA
77290476 TGTGCATATCA
1 TGTGCATATCA
* *
77290487 --TACATGTCA
1 TGTGCATATCA
77290496 TGTGCATATCA
1 TGTGCATATCA
*
77290507 --TACATATCA
1 TGTGCATATCA
77290516 TGTGCATATCA
1 TGTGCATATCA
77290527 T
1 T
77290528 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:77291850 original size:27 final size:27
Alignment explanation
Indices: 77291777--77291844 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
77291767 GGGCATATTC
* * *
77291777 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCACTTTACCCTACAAGGGCT-TTACG
*
77291804 GTTACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
77291831 GTCACTTTACCCTA
1 GTCACTTTACCCTA
77291845 ATAGGGGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 30 0.86
28 5 0.14
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCCTACAAGGGCTTTACG
Found at i:77291927 original size:27 final size:27
Alignment explanation
Indices: 77291897--77291948 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
77291887 GTAAATCAAC
77291897 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
77291924 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
77291949 TAGAAAGTCA
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:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:77292148 original size:54 final size:54
Alignment explanation
Indices: 77291895--77292153 Score: 177
Period size: 54 Copynumber: 4.8 Consensus size: 54
77291885 TCGTAAATCA
* * * * * *
77291895 ACAAACCAAAGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTT
1 ACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTATTT-TGGTAA-TTTT
* * *
77291950 AGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAATC-AGGGGTATTTTGGTAATTTT
1 ACAAA-CCAAGGGTATTT-TAGTAATTTTGTAAATCGA-GGGTATTTTGGTAATTTT
*** *** *** *
77292005 ACAAATTGAGGGTATTACGGTAATTTCACAAA-CCAGTGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAG-GGTATTTTGGTAATTTT
* * * * * *
77292059 ACCAACTAGGGGTATTTTGGTAATTTTACT-CATCGAGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTTAGTAATTTT-GTAAATCGAGGGTATTTTGGTAATTTT
**
77292113 GTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 ACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
77292154 AAACAGTAAT
Statistics
Matches: 158, Mismatches: 36, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
53 3 0.02
54 105 0.66
55 17 0.11
56 33 0.21
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
ACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTATTTTGGTAATTTT
Found at i:77292152 original size:27 final size:27
Alignment explanation
Indices: 77291905--77292153 Score: 141
Period size: 27 Copynumber: 9.1 Consensus size: 27
77291895 ACAAACCAAA
** * *
77291905 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTGGTAATTTTGTAAATCAAG
*
77291932 GGTATTTCT-ATAATTTT-TAGAAAGTCAAG
1 GGTATTT-TGGTAATTTTGT--AAA-TCAAG
* *
77291961 GGTATTTCT-GTAACTTTGTAAATCAGG
1 GGTATTT-TGGTAATTTTGTAAATCAAG
** **
77291988 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTGTAAATCAAG
** *** *
77292015 GGTATTACGGTAATTTCACAAA-CCAG
1 GGTATTTTGGTAATTTTGTAAATCAAG
*** *
77292041 TGGTATTTTGGTAATTTTACCAA-CTAGG
1 -GGTATTTTGGTAATTTTGTAAATC-AAG
* * *
77292069 GGTATTTTGGTAATTTTACT-CATCGAG
1 GGTATTTTGGTAATTTT-GTAAATCAAG
*
77292096 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTGTAAATCAAG
* *
77292123 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTGGTAATTTTGTAAATCAAG
77292150 GGTA
1 GGTA
77292154 AAACAGTAAT
Statistics
Matches: 175, Mismatches: 36, Indels: 22
0.75 0.15 0.09
Matches are distributed among these distances:
26 5 0.03
27 143 0.82
28 8 0.05
29 18 0.10
30 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTGTAAATCAAG
Found at i:77292153 original size:81 final size:80
Alignment explanation
Indices: 77291957--77292151 Score: 214
Period size: 81 Copynumber: 2.4 Consensus size: 80
77291947 TTTAGAAAGT
* *
77291957 CAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTA
1 CAAGGGTATTT-TGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTA
77292022 CGGTAATTTCACAAAC
65 CGGTAATTTCACAAAC
*** **
77292038 C-AGTGGTATTTTGGTAATTTTACCAA-CTAGGGGTATTTTGGTAATTTTACTCATCGAGGGTAT
1 CAAG-GGTATTTT-GTAATTTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAATCGAGGGTAT
** ***
77292101 TTTGGTAATTTTGTAAAC
63 TACGGTAATTTCACAAAC
77292119 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGG
1 CAAGGGTATTTT-GTAATTTTGTAAATC-AGGG
77292152 TAAAACAGTA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
80 4 0.04
81 81 0.88
82 7 0.08
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTAC
GGTAATTTCACAAAC
Found at i:77292266 original size:27 final size:27
Alignment explanation
Indices: 77292132--77292267 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
77292122 GGGTATTTTA
* *
77292132 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** * *
77292159 GTAATTTTGTAAATTAAGGGTGAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
77292186 GTAATTCTATAAATCGACGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
77292213 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
77292240 GTAATTCTGTAAGTCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
77292267 G
1 G
77292268 GGGTAAAATG
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:77292299 original size:38 final size:38
Alignment explanation
Indices: 77292221--77292302 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
77292211 CGATAATTCT
* * *
77292221 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCAAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCAAGG
* * **
77292259 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCAAGG
77292297 GTAAAA
1 GTAAAA
77292303 TGGTAATTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.07, G:0.30, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCAAGG
Found at i:77292337 original size:27 final size:27
Alignment explanation
Indices: 77292259--77292326 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
77292249 TAAGTCAAGG
*
77292259 GTAAAACGGGGGTAAAATGGTAATTAT
1 GTAAATCGGGGGTAAAATGGTAATTAT
*
77292286 GTAAATCGGGGGTAAAATGGTAATTCT
1 GTAAATCGGGGGTAAAATGGTAATTAT
77292313 GTAAATCGGGGGTA
1 GTAAATCGGGGGTA
77292327 CTTTGGTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (27 bp):
GTAAATCGGGGGTAAAATGGTAATTAT
Found at i:77292361 original size:26 final size:27
Alignment explanation
Indices: 77292332--77292420 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
77292322 GGGTACTTTG
*
77292332 GTAATTTT-CAAGTTGAAGGTATTTCA
1 GTAATTTTACAAATTGAAGGTATTTCA
* *
77292358 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATTGAAGGTATTTCA
* * *
77292385 GTATTTTTACAAACT-AAGCGTATTTCG
1 GTAATTTTACAAATTGAAG-GTATTTCA
77292412 GTAATTTTA
1 GTAATTTTA
77292421 GTAAACTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAATTGAAGGTATTTCA
Found at i:77292383 original size:27 final size:27
Alignment explanation
Indices: 77292315--77292420 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 27
77292305 GTAATTCTGT
* *
77292315 AAATCGGGGGTACTTT-GGTAATTTT-C
1 AAATCGAGGGTA-TTTCAGTAATTTTAC
* * *
77292341 AAGTTGAAGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
*
77292368 AAATCGAGGGTATTTCAGTATTTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTAC
* * *
77292395 AAA-CTAAGCGTATTTCGGTAATTTTA
1 AAATC-GAGGGTATTTCAGTAATTTTA
77292421 GTAAACTAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
25 3 0.05
26 17 0.27
27 44 0.69
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATCGAGGGTATTTCAGTAATTTTAC
Found at i:77292427 original size:28 final size:27
Alignment explanation
Indices: 77292350--77292429 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
77292340 CAAGTTGAAG
* *
77292350 GTATTTCAGTAATTTTACAAA-TCGAGG
1 GTATTTCAGTAATTTTACAAACT-AAGC
*
77292377 GTATTTCAGTATTTTTACAAACTAAGC
1 GTATTTCAGTAATTTTACAAACTAAGC
* *
77292404 GTATTTCGGTAATTTTAGTAAACTAA
1 GTATTTCAGTAATTTTA-CAAACTAA
77292430 AGTATTCTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 37 0.82
28 8 0.18
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGC
Found at i:77294493 original size:25 final size:25
Alignment explanation
Indices: 77294465--77294540 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
77294455 GTCTTACACA
77294465 TTTCATATCATGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGGTATC
* *
77294490 TTTCA-ACCATG--GTC-T--TATAC
1 TTTCATATCATGTTGCCATGGTAT-C
77294510 ATTTCATATCATGTTGCCATGGTATC
1 -TTTCATATCATGTTGCCATGGTATC
77294536 TTTCA
1 TTTCA
77294541 ACCATGGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 6 0.15
22 7 0.18
24 7 0.18
25 11 0.28
26 1 0.03
27 3 0.08
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.43
Consensus pattern (25 bp):
TTTCATATCATGTTGCCATGGTATC
Found at i:77294606 original size:46 final size:46
Alignment explanation
Indices: 77294202--77294608 Score: 582
Period size: 46 Copynumber: 8.8 Consensus size: 46
77294192 TTTGACGTGA
* * * * * *
77294202 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGT
** * *
77294248 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
** * * *
77294294 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
** * * *
77294340 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* *
77294386 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
77294432 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
77294478 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
77294524 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
77294570 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
77294609 TTTAGAGAGC
Statistics
Matches: 341, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.01
46 337 0.99
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
Found at i:77302058 original size:27 final size:27
Alignment explanation
Indices: 77302028--77302123 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
77302018 ACATAGGGGA
*
77302028 AAAACAGTCATCTTACCATATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGC
* *
77302055 AAAATAGTCATTTTACC-TCATAACGGC
1 AAAACAGTCATTTTACCAT-ATAAGGGC
* *
77302082 AAAACAATCATTTTACCACT-TAAGGGA
1 AAAACAGTCATTTTACCA-TATAAGGGC
* *
77302109 AAAATAATCATTTTA
1 AAAACAGTCATTTTA
77302124 TTAACTAGGG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
29 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATATAAGGGC
Found at i:77304675 original size:56 final size:57
Alignment explanation
Indices: 77304606--77304732 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 57
77304596 GAATTCCTTG
* **
77304606 TTCATTTCTAAATGAATTCATTTAT-CATTTCCATTTCCATTTTGGAGAAAACCACA
1 TTCATTTCCAAATGAATTCATTTATCCATTTCCATTTCCATTTTCAAGAAAACCACA
** * * * * **
77304662 TTCATTTCCAAATGGTTTTATTTCTCCATTTTCATTTTCATTTTCAAGAAAACCTTA
1 TTCATTTCCAAATGAATTCATTTATCCATTTCCATTTCCATTTTCAAGAAAACCACA
*
77304719 ATCATTTCCAAATG
1 TTCATTTCCAAATG
77304733 TTTCCTATTT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
56 20 0.34
57 38 0.66
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (57 bp):
TTCATTTCCAAATGAATTCATTTATCCATTTCCATTTCCATTTTCAAGAAAACCACA
Found at i:77304712 original size:57 final size:57
Alignment explanation
Indices: 77304631--77304751 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 57
77304621 ATTCATTTAT
** *
77304631 CATTTCCATTTCCATTTTGGAGAAAACCACATTCATTTCCAAATGGTTT-TATTTCTC
1 CATTTCCATTTCCATTTTCAAGAAAACCACAATCATTTCCAAAT-GTTTCTATTTCTC
* * **
77304688 CATTTTCATTTTCATTTTCAAGAAAACCTTAATCATTTCCAAATGTTTCCTATTTCTC
1 CATTTCCATTTCCATTTTCAAGAAAACCACAATCATTTCCAAATGTTT-CTATTTCTC
77304746 CATTTC
1 CATTTC
77304752 GCCATTTCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 4 0.07
57 37 0.69
58 13 0.24
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (57 bp):
CATTTCCATTTCCATTTTCAAGAAAACCACAATCATTTCCAAATGTTTCTATTTCTC
Found at i:77315276 original size:46 final size:45
Alignment explanation
Indices: 77315175--77315268 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 45
77315165 TTCATCAAAT
* *
77315175 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG-ACATGCGCAA
* *
77315221 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG-GATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGACATGCGCAA
77315265 CCAT
1 CCAT
77315269 CCTAGTGACA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 9 0.20
46 35 0.80
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGACATGCGCAA
Found at i:77315848 original size:20 final size:18
Alignment explanation
Indices: 77315814--77315850 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
77315804 GCAACTCATA
77315814 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
77315832 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
77315851 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:77320418 original size:79 final size:82
Alignment explanation
Indices: 77320307--77320491 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
77320297 GCTACTCGTT
* * * *
77320307 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCGCACAAATGCCTTC-GGATCTTAACCC
* *
77320370 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
**
77320387 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAAATCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCGCACAAATGCCTTCGGATCTTAACCCG
*
77320450 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
77320467 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77320492 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:77320491 original size:40 final size:40
Alignment explanation
Indices: 77320288--77320491 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
77320278 CGGAATTTAA
** *
77320288 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
77320328 CCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
77320368 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
77320407 CCGGA-ATTAGTAAATCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
77320447 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
77320487 CCGGA
1 CCGGA
77320492 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:77323039 original size:43 final size:42
Alignment explanation
Indices: 77322978--77323123 Score: 181
Period size: 43 Copynumber: 3.5 Consensus size: 42
77322968 ACGAACTCGT
* *
77322978 ACACTTAGTGCCAATTAATGAGCTGAAGCTAGAATTGTATCGC
1 ACACTTAGTGCCAATTAATTAGC-GAAGCTATAATTGTATCGC
* *
77323021 ACACTTAGTGCCAATTAATTAGCCAAGGCTATAATTGTATCGT
1 ACACTTAGTGCCAATTAATTAGCGAA-GCTATAATTGTATCGC
* *
77323064 ACACTTAGCGCCAATTAATTAGCCGAGGCTATAA---TATCGC
1 ACACTTAGTGCCAATTAATTAG-CGAAGCTATAATTGTATCGC
*
77323104 ACACTTAGTGCCAATCAATT
1 ACACTTAGTGCCAATTAATT
77323124 CAAACGAACT
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
40 23 0.25
42 2 0.02
43 64 0.70
44 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (42 bp):
ACACTTAGTGCCAATTAATTAGCGAAGCTATAATTGTATCGC
Found at i:77329590 original size:43 final size:43
Alignment explanation
Indices: 77329529--77329675 Score: 222
Period size: 43 Copynumber: 3.4 Consensus size: 43
77329519 ATGAACTCGC
** *
77329529 ACACTTAGTGCCAATTAATTAGCTGAAACTATAATTGTTTCGT
1 ACACTTAGTGCCAATTAATTAGCTGAGGCTATAATTGTATCGT
* **
77329572 ACACTTAGTGCTAATTAATTAGCTGAGGCTATAATTGTATCAC
1 ACACTTAGTGCCAATTAATTAGCTGAGGCTATAATTGTATCGT
* *
77329615 ACACTTAGCGCCAATTAATTAGATGAGGCTATAATTGTATCGT
1 ACACTTAGTGCCAATTAATTAGCTGAGGCTATAATTGTATCGT
77329658 ACACTTAGTGCCAATTAA
1 ACACTTAGTGCCAATTAA
77329676 CTCAACCGAA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (43 bp):
ACACTTAGTGCCAATTAATTAGCTGAGGCTATAATTGTATCGT
Found at i:77330918 original size:6 final size:6
Alignment explanation
Indices: 77330900--77330987 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
77330890 AAGAAACATT
* *
77330900 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
77330949 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
77330988 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 5 0.08
6 52 0.79
7 6 0.09
8 3 0.05
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:77330947 original size:31 final size:31
Alignment explanation
Indices: 77330909--77330987 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
77330899 TATCAGAACT
* *
77330909 AGAATCAGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
77330940 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
77330971 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
77330988 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:77330974 original size:25 final size:23
Alignment explanation
Indices: 77330914--77330984 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 23
77330904 GAACTAGAAT
77330914 CAGAATTAGAATCAGAATCAGGTGA
1 CAGAA-TAGAATCAGAATCA-GTGA
77330939 CAGAATCAGAATCAGAATCAGT-A
1 CAGAAT-AGAATCAGAATCAGTGA
*
77330962 TCAGGTAATAGAATCAAAATCAG
1 -CA-G-AATAGAATCAGAATCAG
77330985 AATGTGAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
23 1 0.02
24 5 0.12
25 32 0.78
26 3 0.07
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (23 bp):
CAGAATAGAATCAGAATCAGTGA
Found at i:77331142 original size:27 final size:26
Alignment explanation
Indices: 77331105--77331212 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
77331095 AGCATGGCTG
* *
77331105 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
77331131 CCAGATACAGATATTTTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
77331158 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
77331185 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
77331212 C
1 C
77331213 TTAACAGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 12 0.17
27 53 0.75
28 6 0.08
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:77331196 original size:54 final size:53
Alignment explanation
Indices: 77331105--77331212 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 53
77331095 AGCATGGCTG
* * * * *
77331105 CCAGAACAGATATTGTGATAGAGTCACCAGATACAGATATTTTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATAATGTGGCAAAGCCA
* *
77331158 CCAGAACAGATATTTGTGGCATAGCCACCAGA-ATCAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGATA-CAGATAATGTGGCAAAGCCA
77331212 C
1 C
77331213 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
53 13 0.28
54 33 0.72
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATAATGTGGCAAAGCCA
Found at i:77332905 original size:40 final size:39
Alignment explanation
Indices: 77332860--77333067 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
77332850 CGGAATACGA
*
77332860 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
77332900 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
77332940 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
77332980 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * * *
77333020 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCA-CTGCACAAATGCCTTCGGGTCTTAGC
77333060 CCGGATAT
1 CCGGATAT
77333068 CATTCAATTG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:77333000 original size:80 final size:81
Alignment explanation
Indices: 77332860--77333065 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 81
77332850 CGGAATACGA
* *
77332860 CCGGATATAACCA-CATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAA
1 CCGGATATAACAACCA-GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
77332923 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* *
77332940 CCGGATTTAACAACTC-GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAA
1 CCGGATATAACAAC-CAGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAA
* *
77333002 TTGCCTTCGGGTCTTAAC
64 ATGCCTTCGGGTATTAAC
** ** * *
77333020 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGAT
77333066 ATCATTCAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
79 1 0.01
80 101 0.94
81 1 0.01
82 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:77340906 original size:40 final size:39
Alignment explanation
Indices: 77340861--77341068 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
77340851 CGGAATACAA
*
77340861 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
77340901 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
77340941 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
77340981 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
77341021 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
77341061 CCGGATAT
1 CCGGATAT
77341069 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:77341001 original size:80 final size:81
Alignment explanation
Indices: 77340861--77341066 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
77340851 CGGAATACAA
* * *
77340861 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
77340925 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
77340941 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
77341004 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
77341021 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
77341067 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:77349877 original size:28 final size:28
Alignment explanation
Indices: 77349808--77349908 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
77349798 GACAAGATTG
* * * *
77349808 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
77349838 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
77349866 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
77349895 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
77349909 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:77355177 original size:28 final size:28
Alignment explanation
Indices: 77355108--77355208 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
77355098 GACAAGATTG
* * * *
77355108 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
77355138 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
77355166 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
77355195 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
77355209 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:77361617 original size:29 final size:29
Alignment explanation
Indices: 77361555--77361657 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
77361545 GTGACGAGAT
* * *
77361555 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
77361584 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
77361613 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
77361642 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
77361658 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:77364739 original size:6 final size:6
Alignment explanation
Indices: 77364721--77364826 Score: 108
Period size: 6 Copynumber: 17.3 Consensus size: 6
77364711 AAGAAACATT
*
77364721 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
77364769 ATCAG- GTGACAGA ATCAGA ATCAAA ATCAGT ATCAGA TAACAGA ATCAAA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA -ATCAGA ATCAGA
77364819 ATCAGA AT
1 ATCAGA AT
77364827 GTGAATGCAA
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
5 2 0.02
6 70 0.85
7 9 0.11
8 1 0.01
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:77364785 original size:31 final size:31
Alignment explanation
Indices: 77364721--77364826 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 31
77364711 AAGAAACATT
* *
77364721 ATCAGAA-CTAGAATCAGAATTAGA-ATCAGA
1 ATCAGAATC-AGAATCAGAATCAGATAACAGA
* *
77364751 ATCAGAATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGATAACAGA
* *
77364782 ATCAGAATCAAAATCAGTATCAGATAACAGA
1 ATCAGAATCAGAATCAGAATCAGATAACAGA
*
77364813 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
77364827 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
30 20 0.31
31 44 0.69
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGATAACAGA
Found at i:77364981 original size:27 final size:26
Alignment explanation
Indices: 77364944--77365041 Score: 97
Period size: 27 Copynumber: 3.7 Consensus size: 26
77364934 AGCATGGCTG
* *
77364944 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
77364970 CCAGATACAGATATTTTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
77364997 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
*
77365024 CCAGAATCAGATAATGTG
1 CCAGAA-CAGATATTGTG
77365042 GAAAAGCCAC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 11 0.18
27 44 0.73
28 5 0.08
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:77365204 original size:27 final size:27
Alignment explanation
Indices: 77365174--77365225 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
77365164 AGTCGTCAAA
77365174 AAATATGTTAGGCAC-ATAGCCATAGGT
1 AAATATGTTAGGCACGA-AGCCATAGGT
*
77365201 AAATATGTTTGGCACGAAGCCATAG
1 AAATATGTTAGGCACGAAGCCATAG
77365226 TCAAGATGGC
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:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (27 bp):
AAATATGTTAGGCACGAAGCCATAGGT
Found at i:77365675 original size:54 final size:54
Alignment explanation
Indices: 77365616--77365783 Score: 203
Period size: 54 Copynumber: 3.1 Consensus size: 54
77365606 GGGCAAAATG
* * * * * *
77365616 GTAATTTTACCCCAC-GAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAG-GGGTATTTCGGTAATTCTACCCTATAGGGTTATTTCA
* * * *
77365670 GTAATTCTACCATACAGGGGTATTTTGGCAATTCTACCCTATAGGGTTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGTTATTTCA
* * *
77365724 GTAATTCTGCCCTACAGGGGTATTTCGGTATTTCTACCCTATAGGGTTCTTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGTTATTTCA
77365778 GTAATT
1 GTAATT
77365784 TTGTAAATCG
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 95 0.99
55 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGTTATTTCA
Found at i:77365763 original size:27 final size:27
Alignment explanation
Indices: 77365615--77365783 Score: 178
Period size: 27 Copynumber: 6.3 Consensus size: 27
77365605 GGGGCAAAAT
* * *
77365615 GGTAATTTTACCCCAC-GAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
*
77365642 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
77365669 AGTAATTCTACCATACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
77365696 GGCAATTCTACCCTATAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
77365723 GGTAATTCTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
77365750 GGTATTTCTACCCTATAGGGTTCTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
77365777 AGTAATT
1 GGTAATT
77365784 TTGTAAATCG
Statistics
Matches: 118, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
27 117 0.99
28 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:77367681 original size:6 final size:6
Alignment explanation
Indices: 77367663--77367768 Score: 101
Period size: 6 Copynumber: 17.3 Consensus size: 6
77367653 AAGAAACATT
*
77367663 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
77367711 ATCAG- GTGACAGA ATCAGA ATCAAA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
77367761 ATCAGA AT
1 ATCAGA AT
77367769 GTGAATGCAA
Statistics
Matches: 82, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
5 4 0.05
6 69 0.84
7 7 0.09
8 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:77367727 original size:31 final size:31
Alignment explanation
Indices: 77367663--77367768 Score: 128
Period size: 31 Copynumber: 3.5 Consensus size: 31
77367653 AAGAAACATT
*
77367663 ATCAGAA-CTAGAATCAGAATTA-G-AATCAGA
1 ATCAGAATC-AGAATCAGAATCAGGTAA-CAGA
*
77367693 ATCAGAATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
* *
77367724 ATCAGAATCAAAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
77367755 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
77367769 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
30 19 0.29
31 46 0.70
32 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:77367923 original size:27 final size:26
Alignment explanation
Indices: 77367886--77367983 Score: 97
Period size: 27 Copynumber: 3.7 Consensus size: 26
77367876 AGCATGGCTG
* *
77367886 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
77367912 CCAGATACAGATATTTTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
77367939 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
*
77367966 CCAGAATCAGATAATGTG
1 CCAGAA-CAGATATTGTG
77367984 GAAAAGCCAC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 11 0.18
27 44 0.73
28 5 0.08
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:77368146 original size:27 final size:27
Alignment explanation
Indices: 77368116--77368167 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
77368106 AGTCGTCAAA
77368116 AAATATGTTAGGCAC-ATAGCCATAGGT
1 AAATATGTTAGGCACGA-AGCCATAGGT
*
77368143 AAATATGTTTGGCACGAAGCCATAG
1 AAATATGTTAGGCACGAAGCCATAG
77368168 TCAAGATGGC
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:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (27 bp):
AAATATGTTAGGCACGAAGCCATAGGT
Done.