Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 153 of 208
Found at i:46614023 original size:58 final size:57
Alignment explanation
Indices: 46613867--46614025 Score: 173
Period size: 58 Copynumber: 2.8 Consensus size: 57
46613857 ATATTATATA
* * * * *
46613867 TTATGATTTTTATT-AATTCACATTTTAATAATAA--TATTAAGAATGTTATTAAATTGT
1 TTATTATTTTTATTAAATT-ATA-TTTAATAATAATTTATTAA-AATATGATTAAATTAT
* * *
46613924 ATATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATGATTAAATTAT
1 TTATTATTTTTATTAAATTATATTTAATAATAATT-TATTAAAATATGATTAAATTAT
46613981 TTATTATTTTTATTAAATTATATTTAATAATAATCTTATTAAAAT
1 TTATTATTTTTATTAAATTATATTTAATAATAAT-TTATTAAAAT
46614026 TTAAAAATAA
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
55 11 0.13
56 8 0.09
57 26 0.31
58 39 0.46
59 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (57 bp):
TTATTATTTTTATTAAATTATATTTAATAATAATTTATTAAAATATGATTAAATTAT
Found at i:46615629 original size:2 final size:2
Alignment explanation
Indices: 46615618--46615654 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
46615608 TTTTATATTT
46615618 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46615655 ACCATCATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:46617168 original size:14 final size:15
Alignment explanation
Indices: 46617138--46617178 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
46617128 TAAATAATGC
46617138 TAAAAATA-ATTTCTA
1 TAAAAATATA-TTCTA
46617153 TAAAAATATATT-TA
1 TAAAAATATATTCTA
*
46617167 TAAAAATTTATT
1 TAAAAATATATT
46617179 AATCAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 13 0.54
15 10 0.42
16 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATATATTCTA
Found at i:46620475 original size:14 final size:14
Alignment explanation
Indices: 46620456--46620496 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
46620446 GCTAGCCGCC
46620456 TATATTAATTTTTT
1 TATATTAATTTTTT
46620470 TATATT-ATTATTTT
1 TATATTAATT-TTTT
46620484 TATA-TAATTTTTT
1 TATATTAATTTTTT
46620497 AAAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTAATTTTTT
Found at i:46625911 original size:2 final size:2
Alignment explanation
Indices: 46625899--46625933 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
46625889 NNNNTAGTAG
*
46625899 TA TA GA 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 TA T
46625934 GTGATGCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:46648153 original size:104 final size:102
Alignment explanation
Indices: 46647974--46648344 Score: 582
Period size: 104 Copynumber: 3.6 Consensus size: 102
46647964 TAACCGTTAT
** *
46647974 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46648039 AATCAGCACATAGCAACCCCCATTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCATTTCAAAGATA
46648077 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
46648142 GAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCC-TTTCATTTCAAAGATA
* **
46648181 TGGTGGATATCACACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCAAGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
46648246 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
* * **
46648286 TGGTGGATCA-CGCACATAGCACCACCCATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46648345 TTTATATACA
Statistics
Matches: 252, Mismatches: 12, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
103 30 0.12
104 183 0.73
105 38 0.15
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
Found at i:46653659 original size:10 final size:10
Alignment explanation
Indices: 46653631--46653674 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
46653621 AGACAAGTAT
46653631 TTTTATTAAG
1 TTTTATTAAG
*
46653641 TTTTAATTATG
1 TTTT-ATTAAG
46653652 TTTTATTAAG
1 TTTTATTAAG
*
46653662 TTCTATTTAAG
1 TTTTA-TTAAG
46653673 TT
1 TT
46653675 AATAAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 13 0.45
11 16 0.55
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (10 bp):
TTTTATTAAG
Found at i:46659483 original size:21 final size:21
Alignment explanation
Indices: 46659454--46659507 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
46659444 AACCACCTAC
46659454 TCTTGAGACTTA-GGATCTAAG
1 TCTTGAGACTTATGG-TCTAAG
*
46659475 TCTTAAGACTTATGGTCTAAG
1 TCTTGAGACTTATGGTCTAAG
*
46659496 TTTTGAGACTTA
1 TCTTGAGACTTA
46659508 CTCCATTGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (21 bp):
TCTTGAGACTTATGGTCTAAG
Found at i:46692503 original size:44 final size:44
Alignment explanation
Indices: 46692440--46692533 Score: 179
Period size: 44 Copynumber: 2.1 Consensus size: 44
46692430 GTCTCGACTT
46692440 TCATTTTCATATACTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATACTTATCAAATATAAGTATTGTATTAACCAAA
*
46692484 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATACTTATCAAATATAAGTATTGTATTAACCAAA
46692528 TCATTT
1 TCATTT
46692534 ATTGAATACA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (44 bp):
TCATTTTCATATACTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:46692527 original size:22 final size:22
Alignment explanation
Indices: 46692458--46692528 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
46692448 ATATACTTAT
46692458 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
** * *
46692480 CAAATCAT-TTTCATATG-CTT-AT
1 CAAAT-ATAAGT-AT-TGTATTAAC
46692502 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
46692524 CAAAT
1 CAAAT
46692529 CATTTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 19 0.54
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:46693161 original size:13 final size:13
Alignment explanation
Indices: 46693143--46693167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46693133 ACACTCAAAT
46693143 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
46693156 TTCTCAAAAGCA
1 TTCTCAAAAGCA
46693168 ATAAAGAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:46701910 original size:25 final size:27
Alignment explanation
Indices: 46701850--46701920 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
46701840 AATACTCTTA
*
46701850 CGAGCACATA-AATAGGAAGCTCTCTCT
1 CGAGC-CATATAACAGGAAGCTCTCTCT
* *
46701877 CGAGTCATATAACAGGAAGCTCT-TGT
1 CGAGCCATATAACAGGAAGCTCTCTCT
*
46701903 -GAGCCATATAACGGGAAG
1 CGAGCCATATAACAGGAAG
46701921 TTTATTCGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 16 0.42
26 6 0.16
27 16 0.42
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CGAGCCATATAACAGGAAGCTCTCTCT
Found at i:46702020 original size:25 final size:25
Alignment explanation
Indices: 46701992--46702132 Score: 114
Period size: 25 Copynumber: 5.6 Consensus size: 25
46701982 CATAACGGGT
*
46701992 AGCTCCGAAGAACCATTAATCGAGA
1 AGCTCCGAAGAGCCATTAATCGAGA
* *
46702017 AGCTCCGGATAGCCA-TATATC-AGGA
1 AGCTCCGAAGAGCCATTA-ATCGA-GA
* *
46702042 AG-TTC-AAGCGAGCCCA-T-ATCGGGA
1 AGCTCCGAA--GAG-CCATTAATCGAGA
* *
46702066 AGCTCTGAAGAGCCATTAATCAAGA
1 AGCTCCGAAGAGCCATTAATCGAGA
*
46702091 AGCTCTCAAAGAGCCATTAATCGAGA
1 AGCTC-CGAAGAGCCATTAATCGAGA
46702117 AGCTCCGAAGAGCCAT
1 AGCTCCGAAGAGCCAT
46702133 ATATCAGGAC
Statistics
Matches: 90, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
23 4 0.04
24 16 0.18
25 42 0.47
26 28 0.31
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATCGAGA
Found at i:46702106 original size:26 final size:26
Alignment explanation
Indices: 46702064--46702132 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
46702054 CCCATATCGG
46702064 GAAGCTCT-GAAGAGCCATTAATCAA
1 GAAGCTCTCGAAGAGCCATTAATCAA
* *
46702089 GAAGCTCTCAAAGAGCCATTAATCGA
1 GAAGCTCTCGAAGAGCCATTAATCAA
46702115 GAAGCTC-CGAAGAGCCAT
1 GAAGCTCTCGAAGAGCCAT
46702133 ATATCAGGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
GAAGCTCTCGAAGAGCCATTAATCAA
Found at i:46702120 original size:51 final size:50
Alignment explanation
Indices: 46701999--46702138 Score: 146
Period size: 51 Copynumber: 2.8 Consensus size: 50
46701989 GGTAGCTCCG
* * * *
46701999 AAGAACCATTAATCGAGAAGCTCCGGATAGCCA-TATATCAGGAAGTTCA
1 AAGAGCCATTAATCGAGAAGCTCCGAAGAGCCATTATATCAAGAAGTTCA
* * *
46702048 AGCGAGCCCA-T-ATCGGGAAGCTCTGAAGAGCCATTA-ATCAAGAAGCTCTCA
1 A-AGAG-CCATTAATCGAGAAGCTCCGAAGAGCCATTATATCAAGAAG-T-TCA
46702099 AAGAGCCATTAATCGAGAAGCTCCGAAGAGCCA-TATATCA
1 AAGAGCCATTAATCGAGAAGCTCCGAAGAGCCATTATATCA
46702139 GGACGCTCAT
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
49 30 0.41
50 12 0.16
51 31 0.42
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (50 bp):
AAGAGCCATTAATCGAGAAGCTCCGAAGAGCCATTATATCAAGAAGTTCA
Found at i:46704554 original size:30 final size:30
Alignment explanation
Indices: 46704520--46704605 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 30
46704510 TTGCAGTGTA
* *
46704520 TAGGCCATAGCTCAATACAGTAACAGAGTG
1 TAGGCCTTAGCCCAATACAGTAACAGAGTG
46704550 TAGGCCTTAGCCCAATACAGTAACAGAGTG
1 TAGGCCTTAGCCCAATACAGTAACAGAGTG
* * *
46704580 TTGGCCTTAGCCCAATAAAATAACAG
1 TAGGCCTTAGCCCAATACAGTAACAG
46704606 TGCAAATGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (30 bp):
TAGGCCTTAGCCCAATACAGTAACAGAGTG
Found at i:46704742 original size:26 final size:26
Alignment explanation
Indices: 46704714--46704841 Score: 150
Period size: 26 Copynumber: 4.9 Consensus size: 26
46704704 CACCAATATC
*
46704714 GCAGCAAAGCTACCAGTAATAGTAAC
1 GCAGCAAAGCTACCAGTAATAGTAAT
* * *
46704740 GCAGTAAAGCTGCCAGTAACAGTAAT
1 GCAGCAAAGCTACCAGTAATAGTAAT
*
46704766 GCAGCAGAGCTACCAGTAATAGTAAT
1 GCAGCAAAGCTACCAGTAATAGTAAT
* *
46704792 GCAGCAGAGCTGCCAGT-ATCAGTAAT
1 GCAGCAAAGCTACCAGTAAT-AGTAAT
** *
46704818 GCAAAAAAGCTACCAATAATAGTA
1 GCAGCAAAGCTACCAGTAATAGTA
46704842 TTTGTGGCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.02
26 82 0.95
27 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTACCAGTAATAGTAAT
Found at i:46704803 original size:52 final size:52
Alignment explanation
Indices: 46704714--46704841 Score: 184
Period size: 52 Copynumber: 2.5 Consensus size: 52
46704704 CACCAATATC
*
46704714 GCAGCAAAGCTACCAGTAATAGTAACGCAGTAAAGCTGCCAGTAACAGTAAT
1 GCAGCAAAGCTACCAGTAATAGTAACGCAGCAAAGCTGCCAGTAACAGTAAT
* * * *
46704766 GCAGCAGAGCTACCAGTAATAGTAATGCAGCAGAGCTGCCAGTATCAGTAAT
1 GCAGCAAAGCTACCAGTAATAGTAACGCAGCAAAGCTGCCAGTAACAGTAAT
** *
46704818 GCAAAAAAGCTACCAATAATAGTA
1 GCAGCAAAGCTACCAGTAATAGTA
46704842 TTTGTGGCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (52 bp):
GCAGCAAAGCTACCAGTAATAGTAACGCAGCAAAGCTGCCAGTAACAGTAAT
Found at i:46705038 original size:27 final size:26
Alignment explanation
Indices: 46705016--46705215 Score: 159
Period size: 27 Copynumber: 7.4 Consensus size: 26
46705006 AAGGGTATAA
46705016 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCT-TGGGGGTATTT
*
46705043 CAGTCCTTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTT-GGGGGTATTT
*
46705070 CAGTCATTTTACCCTTTAGGGGTATTT
1 CAGTCATTTTACCC-TTGGGGGTATTT
** * *
46705097 TGGTCATTTTACCTTTCGAGGGTATTT
1 CAGTCATTTTACCCTT-GGGGGTATTT
* * **
46705124 CAGTCATTTTAACCATCGAAGGTATTT
1 CAGTCATTTT-ACCCTTGGGGGTATTT
* * * *
46705151 -TGATAATTTTACCCATCGAGGGTATTT
1 CAG-TCATTTTACCC-TTGGGGGTATTT
* * *
46705178 TAGTCATTTTACCCATCGAGGGTATTT
1 CAGTCATTTTACCC-TTGGGGGTATTT
*
46705205 CGGTCATTTTA
1 CAGTCATTTTA
46705216 GAGGCCTATT
Statistics
Matches: 145, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
26 7 0.05
27 131 0.90
28 7 0.05
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (26 bp):
CAGTCATTTTACCCTTGGGGGTATTT
Found at i:46705092 original size:54 final size:54
Alignment explanation
Indices: 46705007--46705215 Score: 208
Period size: 54 Copynumber: 3.9 Consensus size: 54
46704997 TCAATTTCTA
** * *
46705007 AGGGTATAACAGTCATTTTACCCTATGGGGGTATTTCAGTCCTTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTTCG
* * ** *
46705061 GGGGTATTTCAGTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCTTTCG
1 AGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTTCG
* * * * * *
46705115 AGGGTATTTCAGTCATTTTAACC-ATCGAAGGTATTT-TGATAATTTTACCCATCG
1 AGGGTATTTCAGTCATTTTACCCTATAG-GGGTATTTCAG-TCATTTTACCCTTCG
* * *
46705169 AGGGTATTTTAGTCATTTTACCC-ATCGAGGGTATTTCGGTCATTTTA
1 AGGGTATTTCAGTCATTTTACCCTATAG-GGGTATTTCAGTCATTTTA
46705216 GAGGCCTATT
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
53 3 0.02
54 125 0.97
55 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTTCG
Found at i:46705128 original size:81 final size:81
Alignment explanation
Indices: 46705017--46705215 Score: 224
Period size: 81 Copynumber: 2.5 Consensus size: 81
46705007 AGGGTATAAC
* * * * ** *
46705017 AGTCATTTTACCCTAT-GGGGGTATTTCAGTCCTTTTACCCTTCGGGGGTATTTCAG-TCATTTT
1 AGTCATTTTA-CCTATCGAGGGTATTTCAGTCATTTTAACCATCGAAGGTATTT-AGATAATTTT
*
46705080 ACCCTTTAG-GGGTATTTT
64 ACCC-ATAGAGGGTATTTT
* * *
46705098 GGTCATTTTACCTTTCGAGGGTATTTCAGTCATTTTAACCATCGAAGGTATTTTGATAATTTTAC
1 AGTCATTTTACCTATCGAGGGTATTTCAGTCATTTTAACCATCGAAGGTATTTAGATAATTTTAC
*
46705163 CCATCGAGGGTATTTT
66 CCATAGAGGGTATTTT
* *
46705179 AGTCATTTTACCCATCGAGGGTATTTCGGTCATTTTA
1 AGTCATTTTACCTATCGAGGGTATTTCAGTCATTTTA
46705216 GAGGCCTATT
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 7 0.07
81 92 0.93
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (81 bp):
AGTCATTTTACCTATCGAGGGTATTTCAGTCATTTTAACCATCGAAGGTATTTAGATAATTTTAC
CCATAGAGGGTATTTT
Found at i:46707681 original size:18 final size:18
Alignment explanation
Indices: 46707658--46707719 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
46707648 TGTTGTAATC
46707658 AAAAAGA-AAAAGAGATTG
1 AAAAAGAGAAAAGA-ATTG
*
46707676 AAAAAGAGGAAAAAAATTG
1 AAAAAGA-GAAAAGAATTG
* *
46707695 AAAGAGAGAAAAGAATCG
1 AAAAAGAGAAAAGAATTG
46707713 AAAAAGA
1 AAAAAGA
46707720 TTGTGAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 22 0.59
19 10 0.27
20 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.08
Consensus pattern (18 bp):
AAAAAGAGAAAAGAATTG
Found at i:46707762 original size:12 final size:12
Alignment explanation
Indices: 46707712--46707784 Score: 65
Period size: 12 Copynumber: 5.9 Consensus size: 12
46707702 GAAAAGAATC
**
46707712 GAAAAAGATTGT
1 GAAAAAGAAAGT
**
46707724 GAAAAAGAAAAC
1 GAAAAAGAAAGT
*
46707736 GAAAAAGAAATT
1 GAAAAAGAAAGT
46707748 GAAAAAGAAAGT
1 GAAAAAGAAAGT
**
46707760 GAAAGTGAAAGT
1 GAAAAAGAAAGT
46707772 GAGAAAAAGAAAG
1 --GAAAAAGAAAG
46707785 ACGAAATTGA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
12 39 0.81
14 9 0.19
ACGTcount: A:0.63, C:0.01, G:0.25, T:0.11
Consensus pattern (12 bp):
GAAAAAGAAAGT
Found at i:46708990 original size:14 final size:14
Alignment explanation
Indices: 46708966--46709002 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
46708956 AGAAAAATGT
*
46708966 GAGAGGTGAGAGAA
1 GAGATGTGAGAGAA
*
46708980 GAGTTGTGAGAGAA
1 GAGATGTGAGAGAA
46708994 GAGATGTGA
1 GAGATGTGA
46709003 ATGAGGGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.46, T:0.16
Consensus pattern (14 bp):
GAGATGTGAGAGAA
Found at i:46718056 original size:31 final size:31
Alignment explanation
Indices: 46717989--46718062 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
46717979 AGTTGTTGAT
* * *
46717989 CATATCGCAAAGATGGTTACAGAAATGAGTA
1 CATATTGCAAAGATGGCTACAGAAAGGAGTA
46718020 CATATTGCAAAGATGGCTACAGAAAGGAGTA
1 CATATTGCAAAGATGGCTACAGAAAGGAGTA
46718051 CATATTTGCAAA
1 CATA-TTGCAAA
46718063 TGTTTGAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 32 0.82
32 7 0.18
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.23
Consensus pattern (31 bp):
CATATTGCAAAGATGGCTACAGAAAGGAGTA
Found at i:46718737 original size:22 final size:21
Alignment explanation
Indices: 46718711--46718753 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
46718701 TTTCTTTATT
*
46718711 TTCTATTCTCCTCTGCTTCTCC
1 TTCTATTCTCCTC-CCTTCTCC
*
46718733 TTCTATTTTCCTCCCTTCTCC
1 TTCTATTCTCCTCCCTTCTCC
46718754 ATCTCTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.05, C:0.42, G:0.02, T:0.51
Consensus pattern (21 bp):
TTCTATTCTCCTCCCTTCTCC
Found at i:46718752 original size:21 final size:22
Alignment explanation
Indices: 46718711--46718762 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
46718701 TTTCTTTATT
* *
46718711 TTCTATTCTCCTCTGCTTCTCC
1 TTCTATTTTCCTCTCCTTCTCC
46718733 TTCTATTTTCCTC-CCTTCTCC
1 TTCTATTTTCCTCTCCTTCTCC
* *
46718754 ATCTCTTTT
1 TTCTATTTT
46718763 AACGTAGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.06, C:0.38, G:0.02, T:0.54
Consensus pattern (22 bp):
TTCTATTTTCCTCTCCTTCTCC
Found at i:46720062 original size:12 final size:12
Alignment explanation
Indices: 46720045--46720069 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46720035 ACTCATATTC
46720045 TATTATTATCTA
1 TATTATTATCTA
46720057 TATTATTATCTA
1 TATTATTATCTA
46720069 T
1 T
46720070 TTTAAAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTATCTA
Found at i:46724421 original size:27 final size:27
Alignment explanation
Indices: 46724380--46724433 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
46724370 GTCAAGGTGA
*
46724380 TTAACCATTTGCTCACTAAACTATGAT
1 TTAACCATTTGCTCACTAAACCATGAT
* * *
46724407 TTAACCTTTTTCTCATTAAACCATGAT
1 TTAACCATTTGCTCACTAAACCATGAT
46724434 CATTTTGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
TTAACCATTTGCTCACTAAACCATGAT
Found at i:46737303 original size:23 final size:23
Alignment explanation
Indices: 46737256--46737298 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
46737246 TTAATAAAAT
46737256 TAAAATTATTTTTATTTATTTTA
1 TAAAATTATTTTTATTTATTTTA
46737279 TAAAA-TATTTTT-TTTATTTT
1 TAAAATTATTTTTATTTATTTT
46737299 GTATACATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TAAAATTATTTTTATTTATTTTA
Found at i:46738202 original size:9 final size:9
Alignment explanation
Indices: 46738188--46738249 Score: 81
Period size: 9 Copynumber: 6.8 Consensus size: 9
46738178 TTTGGTTAAA
46738188 AATTACCCG
1 AATTACCCG
46738197 AATTACCCG
1 AATTACCCG
46738206 AATTACCCG
1 AATTACCCG
*
46738215 AATTAACCG
1 AATTACCCG
46738224 AATTA-CCG
1 AATTACCCG
*
46738232 AAAAATACCCG
1 --AATTACCCG
46738243 AATTACC
1 AATTACC
46738250 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
8 3 0.06
9 37 0.79
10 4 0.09
11 3 0.06
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:46739538 original size:21 final size:22
Alignment explanation
Indices: 46739505--46739556 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
46739495 AAACTACGTT
* * *
46739505 AAAAGAGATGGAGAAG-GGAGG
1 AAAATAGAAGGAGAAGCAGAGG
46739526 AAAATAGAAGGAGAAGCAGAGG
1 AAAATAGAAGGAGAAGCAGAGG
*
46739548 AGAATAGAA
1 AAAATAGAA
46739557 AATAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.54, C:0.02, G:0.38, T:0.06
Consensus pattern (22 bp):
AAAATAGAAGGAGAAGCAGAGG
Found at i:46747484 original size:44 final size:44
Alignment explanation
Indices: 46747429--46747528 Score: 103
Period size: 44 Copynumber: 2.3 Consensus size: 44
46747419 CTACTCTGCT
* * * *
46747429 ACTGCAGCTTCA-AAAGTATAGGATTTGTCATTTTAATCTGCTCC
1 ACTGCAACTTCATAAAG-ATAGGATTGGTCACTTCAATCTGCTCC
** ** *
46747473 ACTGCAACTTCATGGAGATAGGATTGGTGGCTTCAATCTGCTTC
1 ACTGCAACTTCATAAAGATAGGATTGGTCACTTCAATCTGCTCC
46747517 ACTGCAACTTCA
1 ACTGCAACTTCA
46747529 GGAAGATAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (44 bp):
ACTGCAACTTCATAAAGATAGGATTGGTCACTTCAATCTGCTCC
Found at i:46747622 original size:51 final size:51
Alignment explanation
Indices: 46747555--46748350 Score: 829
Period size: 51 Copynumber: 15.9 Consensus size: 51
46747545 CATAATTTGT
* * *
46747555 AGCTTTAATCTATTCCACTGCAACGCTAGGGAAAAAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * *
46747606 AGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATCCGCTGTCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
** * * *
46747657 AG------TCTGCTT-CACTGCAACTTCAGAGAGATAAG----GCTG--GT-
1 AGCTTTAATCTG-TTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * ** ** *
46747695 GGCTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAG-TTCCGCTATGATTTGT
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAA-ATAAGATT-CGC--TGCCTT-C
* * * * *
46747749 AGCTTTAATCTGTTCTACTGCAATGCCAGGGAAAAAAGATTCGTTGCATTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
46747800 AGCTTTAATCTGTTCCACTTCAATGTCAGGGAATTAAGATTCGCTACCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* *
46747851 AGCTTTAATCTGTTCCACTGTAACGCCAGGGAAATAAGATTAGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * *
46747902 AGCTTTAGTCTGTTCTACTGTAACGCAAGGGAAATAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* *
46747953 AGCTTTAATCTGTTCCACTACAACGCCAGAGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * *
46748004 AGCTTTAATCTGTTCCACTGCAACGCCACGAAAATAAGATTCGCTGTCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * **
46748055 AGCTTTAATCTGTTCCACTGCAACGCTA-AGAAAAAAAATTTTCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * *
46748105 AACTTTAATCTGTTCCATTGCAACGCCAGGGAAATAAGATTCACTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* *
46748156 AGCTTTAATCTGTTCCACTGTAGCGCCAGGGAAATAAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * * * *
46748207 AACTTCAATTTGTTCCATTGCAACGCCAGAGAAATAAAATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* *
46748258 AGCTTTAGTCTGTTCAACTGCAACGCCA-GGAAA-AAGATTCGCTGCCTTC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
* * * *
46748307 AGCTTTAATCTGTTCCACTGCAACACTAGAGAAAAAAGATTCGC
1 AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGC
46748351 CATAATGACT
Statistics
Matches: 620, Mismatches: 101, Indels: 48
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
41 4 0.01
43 3 0.00
44 22 0.04
45 24 0.04
46 2 0.00
48 2 0.00
49 39 0.06
50 50 0.08
51 434 0.70
52 5 0.01
54 27 0.04
55 6 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTC
Found at i:46747688 original size:45 final size:44
Alignment explanation
Indices: 46747607--46747739 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 44
46747597 GCTGCCTTCA
* * ** *
46747607 GCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATCCGCTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAG-TCCGCTG
* * * * * *
46747652 TCTTCAGTCTGCTTCACTGCAACTTCAGAGAGATAAGGCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGTCCGCTG
46747696 GCTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAGTTCCGCT
1 GCTTCAATCTGCTCCACTGCAACTTCAGAG-AGATAAG-TCCGCT
46747740 ATGATTTGTA
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
43 1 0.01
44 36 0.52
45 32 0.46
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGTCCGCTG
Found at i:46747803 original size:194 final size:194
Alignment explanation
Indices: 46747465--46747818 Score: 568
Period size: 194 Copynumber: 1.8 Consensus size: 194
46747455 GTCATTTTAA
* *
46747465 TCTGCTCCACTGCAACTTCATGGAGATAGGATTGGTGGCTTCAATCTGCTTCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCATGGAGATAGGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
*
46747530 GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGGGAAAAAAGAT
66 GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAAAAAGAT
*
46747595 TCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATCCGCTGTCTTCAG
131 TCGCTGCATTCAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATCCGCTGTCTTCAG
*
46747659 TCTGCTTCACTGCAACTTCA-GAGAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCATG-GAGAT-AGGACTGGTGGCTTCAATCTGCTCCACTGCAACTTC
* * * * * *
46747722 AGGAAGATAAGTTCCGCTATGATTTGTAGCTTTAATCTGTTCTACTGCAATGCCAGGGAAAAAAG
64 AGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAAAAAG
*
46747787 ATTCGTTGCATTCAGCTTTAATCTGTTCCACT
129 ATTCGCTGCATTCAGCTTTAATCTGTTCCACT
46747819 TCAATGTCAG
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
193 1 0.01
194 142 0.97
195 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (194 bp):
TCTGCTCCACTGCAACTTCATGGAGATAGGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
GAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAAAAAGAT
TCGCTGCATTCAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATCCGCTGTCTTCAG
Found at i:46749573 original size:43 final size:43
Alignment explanation
Indices: 46749477--46749732 Score: 260
Period size: 43 Copynumber: 6.0 Consensus size: 43
46749467 GTTTGTGAAA
* * **
46749477 TAAGAGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTTT-TGAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTATTTC
* * * * *
46749519 CAAGCGCCGCTACAGAATATTA-CTTTTAGCGACGTTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTATTTC
46749562 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTATTT-C
* * *
46749605 TTAGCGCTGCTAAAGAACATGATCTTTAGCGGTG-TTT-TTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTATTTC
* *
46749646 ATAAGCGCCGCTAAAGAATAAGATCTTTAGCGGCG-TTTATTTCC
1 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTATTT-C
*
46749690 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTATTTC
46749732 T
1 T
46749733 GTAAGTGCCG
Statistics
Matches: 182, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.01
42 74 0.41
43 101 0.55
44 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTATTTC
Found at i:46749590 original size:85 final size:85
Alignment explanation
Indices: 46749476--46749729 Score: 270
Period size: 85 Copynumber: 3.0 Consensus size: 85
46749466 CGTTTGTGAA
* * *
46749476 ATAAGAGCCGCTAAAGAACACT-A-CTTTTAGCGGCATTT-TTGACC-AAGCGCCGCTACAGAAT
1 ATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCATTTATT-ACCTAAGCGCCGCTAAAGAAC
*
46749537 ATTA-CTTTTAGCGACGT-TTTATTTC
63 ATGATC-TTTAGCG--GTGTTT-TTTC
* * * *
46749562 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGCTAAAGAACATG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTACCTAAGCGCCGCTAAAGAACATG
46749626 ATCTTTAGCGGTGTTTTTTC
66 ATCTTTAGCGGTGTTTTTTC
* * * * *
46749646 ATAAGCGCCGCTAAAGAATAAGATCTTTAGCGGCGTTTATTTCCTTAGCGCCGCTAAAGAACATG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTACCTAAGCGCCGCTAAAGAACATG
*
46749711 ATCTTTAGCGGCGTTTTTT
66 ATCTTTAGCGGTGTTTTTT
46749730 TCTGTAAGTG
Statistics
Matches: 149, Mismatches: 12, Indels: 15
0.85 0.07 0.09
Matches are distributed among these distances:
84 7 0.05
85 115 0.77
86 26 0.17
87 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (85 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTACCTAAGCGCCGCTAAAGAACATG
ATCTTTAGCGGTGTTTTTTC
Found at i:46750253 original size:30 final size:30
Alignment explanation
Indices: 46750219--46750281 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
46750209 ACTTATTTTA
*
46750219 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTCAAAGGCAT
*
46750249 TTGTTAATTTTGTTATTATTTCAGAGGCAT
1 TTGTTAATTTTGTTATTATTTCAAAGGCAT
46750279 TTG
1 TTG
46750282 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTCAAAGGCAT
Found at i:46754715 original size:13 final size:14
Alignment explanation
Indices: 46754686--46754715 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46754676 TACTTCTACA
46754686 TTTTGATGCCACTT
1 TTTTGATGCCACTT
*
46754700 TTTTTATGCCACTT
1 TTTTGATGCCACTT
46754714 TT
1 TT
46754716 GATTTATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.10, T:0.57
Consensus pattern (14 bp):
TTTTGATGCCACTT
Found at i:46754753 original size:75 final size:75
Alignment explanation
Indices: 46754625--46754768 Score: 270
Period size: 75 Copynumber: 1.9 Consensus size: 75
46754615 TACTTCTACA
46754625 TTTTGATGCCACTTTTGATTTATTTGCATCTGCATTATTGAACAAAATCGATACTTCTACATTTT
1 TTTTGATGCCACTTTTGATTTATTTGCATCTGCATTATTGAACAAAATCGATACTTCTACATTTT
46754690 GATGCCACTT
66 GATGCCACTT
* *
46754700 TTTTTATGCCACTTTTGATTTATTTGCATCTGCATTATTGAACAGAATCGATACTTCTACATTTT
1 TTTTGATGCCACTTTTGATTTATTTGCATCTGCATTATTGAACAAAATCGATACTTCTACATTTT
46754765 GATG
66 GATG
46754769 TTCTTTCAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (75 bp):
TTTTGATGCCACTTTTGATTTATTTGCATCTGCATTATTGAACAAAATCGATACTTCTACATTTT
GATGCCACTT
Found at i:46755721 original size:23 final size:23
Alignment explanation
Indices: 46755694--46755740 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
46755684 GAACTCCTTC
46755694 AATGTTATTGTATGATTTAAATA
1 AATGTTATTGTATGATTTAAATA
*
46755717 AATGTTATTGTATGATTTAGATA
1 AATGTTATTGTATGATTTAAATA
46755740 A
1 A
46755741 TATTGATGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (23 bp):
AATGTTATTGTATGATTTAAATA
Found at i:46755798 original size:21 final size:22
Alignment explanation
Indices: 46755774--46755817 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
46755764 TAAATATAAG
*
46755774 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
46755795 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
46755817 T
1 T
46755818 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:46756167 original size:20 final size:19
Alignment explanation
Indices: 46756121--46756167 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
46756111 ACAAATATTT
46756121 AATTTT-TATATTTAAATA
1 AATTTTATATATTTAAATA
* * *
46756139 TAGTTTATATATTCTAATTA
1 AATTTTATATATT-TAAATA
46756159 AATTTTATA
1 AATTTTATA
46756168 AATAATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
AATTTTATATATTTAAATA
Found at i:46756215 original size:24 final size:23
Alignment explanation
Indices: 46756154--46756215 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
46756144 TATATATTCT
46756154 AATTAA-ATTTTATAAATAATTAA
1 AATTAATA-TTTATAAATAATTAA
* * *
46756177 TATTAATTACTTATAAATATTTAA
1 AATTAA-TATTTATAAATAATTAA
46756201 AATTAATATTATATA
1 AATTAATATT-TATA
46756216 TTAAAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 8 0.26
24 22 0.71
25 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTAATATTTATAAATAATTAA
Found at i:46756415 original size:13 final size:13
Alignment explanation
Indices: 46756393--46756430 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
46756383 GCACTCAAAT
46756393 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
46756406 TTCTCCAAAGCAC
1 TTCTCAAAAGCAC
46756419 TTCTCAAAAGCA
1 TTCTCAAAAGCA
46756431 ATAAAGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.32, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:46757329 original size:124 final size:123
Alignment explanation
Indices: 46756955--46757337 Score: 540
Period size: 126 Copynumber: 3.1 Consensus size: 123
46756945 TAGTTTCGAT
*
46756955 TACAGTAGGTCCTGGAAAAATAATTTCGATTTGACGTTTCTGAGCAAATAGTTTATAAAACGCTT
1 TACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAG--TATAAAACGCTT
* * * *
46757020 CAAGCAGGATGCTCTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTTC
64 CAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCATGTGGACGCGCTTTTGC
* *
46757080 TATAGTAGGTCCT-GAACAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGC
1 TACAGTAGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT--AA-AACGC
46757144 TGT-AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCC-TCGTGGACGCGCTTTTGC
62 T-TCAAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCAT-GTGGACGCGCTTTTGC
* * * *
46757206 TACAGTAGATCCTGGAAAAATACTTTCGACTTGACGTTTTTGAGCAAATAGTATAAAATTGCTTC
1 TACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-CGCTTC
*
46757271 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCATGTGGACGCGCTTTTGC
65 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCATGTGGACGCGCTTTTGC
46757330 TACAGTAG
1 TACAGTAG
46757338 CATGTTTGGG
Statistics
Matches: 233, Mismatches: 13, Indels: 25
0.86 0.05 0.09
Matches are distributed among these distances:
123 8 0.03
124 69 0.30
125 48 0.21
126 103 0.44
127 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (123 bp):
TACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAACGCTTCA
AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCATGTGGACGCGCTTTTGC
Found at i:46760591 original size:22 final size:22
Alignment explanation
Indices: 46760505--46761120 Score: 718
Period size: 22 Copynumber: 28.9 Consensus size: 22
46760495 CCAAATTATA
46760505 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46760526 TTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
46760547 TTTTATTTAAGGG-TTACGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46760568 TTTAAGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
46760590 TTTAATTTAAAGG-TTA--CTT
1 TTTAAGTTAAGGGTTTAGGGTT
46760609 TTTAAAGTTAAGGG-TTAGGGTT
1 TTT-AAGTTAAGGGTTTAGGGTT
*
46760631 TTTAAGTTAAGCGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46760653 TTTAATTTAAAGGTTTA--G-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
46760672 GTT---TT-AGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
46760690 TTAAAGTTAAGGGTTTAGTTTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46760712 TTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
46760733 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46760755 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46760777 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
46760799 TTTAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46760820 TTTAATTTTAAGGG-TTACGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
*
46760842 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46760864 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46760885 TTTAAGCTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46760906 TTTAATTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46760928 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46760950 TTTAAGTTGAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46760972 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46760994 TTTATGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
46761016 TTTAAGTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46761037 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
46761059 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
46761081 TTTAATTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
46761102 TTTAAGTTAAGGG-TTAGGG
1 TTTAAGTTAAGGGTTTAGGG
46761121 CTAGGGTTTT
Statistics
Matches: 507, Mismatches: 70, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
15 7 0.01
16 2 0.00
17 1 0.00
18 2 0.00
19 8 0.02
20 12 0.02
21 176 0.35
22 299 0.59
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:46760605 original size:43 final size:43
Alignment explanation
Indices: 46760505--46761120 Score: 702
Period size: 43 Copynumber: 14.4 Consensus size: 43
46760495 CCAAATTATA
*
46760505 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * *
46760547 TTTTATTTAAGGGTTACGATTTTTAAGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
46760590 TTTAATTTAAAGGTTA--CTTTTTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTT-AAGTTAAGGGTTTAGGGTT
* * * *
46760631 TTTAAGTTAAGCGTTTAGGGTTTTTAATTTAAAGGTTTAGTG-T
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * **
46760674 TTT-AG----GGTTTAGGGTTTTAAAGTTAAGGGTTTAGTTTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
46760712 TTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
46760755 TTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
46760799 TTTAAGTTAAGGGTTTAGGG-TTTTAATTTTAAGGG-TTACGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAA-GTTAAGGGTTTAGGGTT
* *
46760842 TTTAAGTTAAGGGTTTAAGGTTTTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
46760885 TTTAAGCTAAGGGTTAGTGTTTTTAATTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
46760928 TTTAATTTAAGGGTTTAGGGTTTTTAAGTTGAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
46760972 TTTAATTTAAGGGTTTAGGGTTTTTATGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
46761016 TTTAAGTTAAGGGTTAGGATTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
46761059 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
46761102 TTTAAGTTAAGGGTTAGGG
1 TTTAAGTTAAGGGTTAGGG
46761121 CTAGGGTTTT
Statistics
Matches: 494, Mismatches: 62, Indels: 36
0.83 0.10 0.06
Matches are distributed among these distances:
37 26 0.05
38 5 0.01
39 2 0.00
41 21 0.04
42 68 0.14
43 207 0.42
44 165 0.33
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:46760684 original size:37 final size:37
Alignment explanation
Indices: 46760643--46760713 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
46760633 TAAGTTAAGC
* *
46760643 GTTTAGGGTTTTTAATTTAAAGGTTTAGTGTTTTAGG
1 GTTTAGGGTTTTAAAGTTAAAGGTTTAGTGTTTTAGG
* *
46760680 GTTTAGGGTTTTAAAGTTAAGGGTTTAGTTTTTT
1 GTTTAGGGTTTTAAAGTTAAAGGTTTAGTGTTTT
46760714 TAAGTTAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (37 bp):
GTTTAGGGTTTTAAAGTTAAAGGTTTAGTGTTTTAGG
Found at i:46761720 original size:18 final size:18
Alignment explanation
Indices: 46761694--46761736 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
46761684 GACTCGGAAA
* *
46761694 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
46761712 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
46761730 AGGAAAC
1 AGGAAAC
46761737 GCACCTGGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:46762608 original size:20 final size:20
Alignment explanation
Indices: 46762571--46762608 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46762561 TTTATTTTTA
*
46762571 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
46762591 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
46762609 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:46763556 original size:11 final size:11
Alignment explanation
Indices: 46763542--46763618 Score: 59
Period size: 11 Copynumber: 6.9 Consensus size: 11
46763532 AAAAATAGTG
*
46763542 ATTTAAGAGAA
1 ATTTGAGAGAA
* *
46763553 ATTTAAGAGGA
1 ATTTGAGAGAA
*
46763564 ACTTGAGAGCAA
1 ATTTGAGAG-AA
46763576 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
46763587 ATTT-AGAGGA
1 ATTTGAGAGAA
*
46763597 ACTTGAGAGGAA
1 ATTTGAGA-GAA
46763609 ATTTGAGAGA
1 ATTTGAGAGA
46763619 GGATTAGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
10 5 0.09
11 34 0.64
12 14 0.26
ACGTcount: A:0.44, C:0.04, G:0.29, T:0.23
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:46763583 original size:22 final size:22
Alignment explanation
Indices: 46763558--46763617 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
46763548 GAGAAATTTA
*
46763558 AGAGGAACTTGAGAGCAAATTG
1 AGAGGAAATTGAGAGCAAATTG
* * *
46763580 AGAGGAAATTTAGAGGAACTTG
1 AGAGGAAATTGAGAGCAAATTG
46763602 AGAGGAAATTTGAGAG
1 AGAGGAAA-TTGAGAG
46763618 AGGATTAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.42, C:0.05, G:0.33, T:0.20
Consensus pattern (22 bp):
AGAGGAAATTGAGAGCAAATTG
Found at i:46763598 original size:33 final size:35
Alignment explanation
Indices: 46763542--46763617 Score: 113
Period size: 33 Copynumber: 2.3 Consensus size: 35
46763532 AAAAATAGTG
*
46763542 ATTTAAGA-GAAATTTAAGAGGAACTTGAGAGCAA
1 ATTTGAGAGGAAATTTAAGAGGAACTTGAGAGCAA
*
46763576 A-TTGAGAGGAAATTT-AGAGGAACTTGAGAGGAA
1 ATTTGAGAGGAAATTTAAGAGGAACTTGAGAGCAA
46763609 ATTTGAGAG
1 ATTTGAGAG
46763618 AGGATTAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
33 23 0.61
34 15 0.39
ACGTcount: A:0.43, C:0.04, G:0.29, T:0.24
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAAGAGGAACTTGAGAGCAA
Found at i:46763858 original size:40 final size:40
Alignment explanation
Indices: 46763797--46763873 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
46763787 GACGTGGACA
* * * *
46763797 CAAACCGCGCTTACGTGGACACGATTTGCTGCCACGTAAG
1 CAAACCGCGCTGACATAGACACGATTTGCTGACACGTAAG
46763837 CAAACCGCGCTGACATAGACACGATTTGCTGACACGT
1 CAAACCGCGCTGACATAGACACGATTTGCTGACACGT
46763874 GCCCTGATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.19
Consensus pattern (40 bp):
CAAACCGCGCTGACATAGACACGATTTGCTGACACGTAAG
Found at i:46764875 original size:93 final size:93
Alignment explanation
Indices: 46764749--46765040 Score: 408
Period size: 93 Copynumber: 3.1 Consensus size: 93
46764739 TCTATCCTGT
* * * * * *
46764749 TTGGACAGC-TCTTATACATCAGAAATTGAGCAGCATGTATATACCAATTTGGACAGCACTTATA
1 TTGGACAGCAT-TTATTCACCA-AAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATA
* *
46764813 CACAAAATTTTACAACATTTATATACAAAA
64 CACAAAATTTGACAGCATTTATATACAAAA
*
46764843 TTGGACAGCATTTATTCACCAAAATTTGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
*
46764908 CAAAATTTGACAGCATGTATATACAAAA
66 CAAAATTTGACAGCATTTATATACAAAA
* *
46764936 TTGGACAACATTTATTCCCCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
*
46765001 CAAAATTGGACAGCATTTAT-TCACCAAAA
66 CAAAATTTGACAGCATTTATAT-A-CAAAA
*
46765030 TTGGGCAGCAT
1 TTGGACAGCAT
46765041 ATATGTAGCA
Statistics
Matches: 178, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 145 0.81
94 31 0.17
95 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (93 bp):
TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
CAAAATTTGACAGCATTTATATACAAAA
Found at i:46764914 original size:70 final size:69
Alignment explanation
Indices: 46764794--46765601 Score: 408
Period size: 70 Copynumber: 11.6 Consensus size: 69
46764784 TGTATATACC
* ** *
46764794 AATTTGGACAGCACT-TATACACAAAATTTTACAACATTTATATACAAAATTGGACAGCATTTAT
1 AATTTGGACAGCA-TATATATACAAAATTGGACAGCA-TTATATACAAAATTGGACAGCATTTAT
46764858 TCACCAA
64 TCA-CAA
* * * * *
46764865 AATTTGG-CAGCATATATGTAGC-AATTTGGACAGCACTTATACACAAAATTTGACAGCATGTAT
1 AATTTGGACAGCATATATATA-CAAAATTGGACAGCA-TTATATACAAAATTGGACAGCATTTAT
46764928 AT-ACAA
64 -TCACAA
* * * * * * *
46764934 AA-TTGGACAACATTTAT-TCCCCAAAATTGGGCAGCATATATGTAGC-AATTTGGACAGCACTT
1 AATTTGGACAGCATATATAT--ACAAAATTGGACAGCAT-TATATA-CAAAATTGGACAGCATTT
*
46764996 ATACACAA
62 ATTCACAA
* * * * *
46765004 AA-TTGGACAGCATTTAT-TCACCAAAATTGGGCAGCATATATGTAGC-AATTTGGACAGCACTT
1 AATTTGGACAGCATATATAT-A-CAAAATTGGACAGCAT-TATATA-CAAAATTGGACAGCATTT
*
46765066 ATACACAA
62 ATTCACAA
* * * *
46765074 AA-TTGGACAACATGTATATACAAAATTGGACAGCATT-TATTCACCAAAATTGGGCAGCATATA
1 AATTTGGACAGCATATATATACAAAATTGGACAGCATTATA-T-A-CAAAATTGGACAGCATTTA
46765137 TGT-AGC--
63 T-TCA-CAA
* *
46765143 AATTTGGACAGCACT-TATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTAT
1 AATTTGGACAGCA-TATATATACAAAATTGGACAGCAT-TATATACAAAATTGGACAGCATTTAT
46765207 TCACCAA
64 TCA-CAA
** * * * * * * *
46765214 AA-TTGGGTAGCATATATGTAGC-AATTTGGAAAGTACTTATACACAAAATTTGACAGCATGTAT
1 AATTTGGACAGCATATATATA-CAAAATTGGACAGCA-TTATATACAAAATTGGACAGCATTTAT
46765277 AT-ACAA
64 -TCACAA
* * * * * *
46765283 AA-TT-GACAACATTTAT-TCACCAAAATTGGGCAGCATATATGTAGC-AATTTGGACAGCACTT
1 AATTTGGACAGCATATATAT-A-CAAAATTGGACAGCAT-TATATA-CAAAATTGGACAGCATTT
**
46765344 ATAAACAA
62 ATTCACAA
* * * ** *
46765352 AATTT-GACAGCATGTATATACAAAATTGGACAACATT-TATTCATGAAAATTGGGTAGCATATA
1 AATTTGGACAGCATATATATACAAAATTGGACAGCATTATA-T-A-CAAAATTGGACAGCATTTA
46765415 TGT-AGC--
63 T-TCA-CAA
* * * *
46765421 AATTTGGACAGCACT-TATACACAAAATTGGACTGCATGTTTATACAAAATTGGACAACATTTAT
1 AATTTGGACAGCA-TATATATACAAAATTGGACAGCAT-TATATACAAAATTGGACAGCATTTAT
46765485 TCACCAA
64 TCA-CAA
* * * * * * *
46765492 AA-TTGGGCAACATATATGTAGC-AATTTGGATAGCACTTATACACAAAATTGGACAGCATGTAT
1 AATTTGGACAGCATATATATA-CAAAATTGGACAGCA-TTATATACAAAATTGGACAGCATTTAT
46765555 AT-ACAA
64 -TCACAA
* *
46765561 AA-TTGGACAGCATTTAT-TCACCAAAATTGGGCAGCA-TATAT
1 AATTTGGACAGCATATATAT-A-CAAAATTGGACAGCATTATAT
46765602 GTAGCAATTT
Statistics
Matches: 576, Mismatches: 108, Indels: 109
0.73 0.14 0.14
Matches are distributed among these distances:
67 3 0.01
68 27 0.05
69 154 0.27
70 358 0.62
71 30 0.05
72 4 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (69 bp):
AATTTGGACAGCATATATATACAAAATTGGACAGCATTATATACAAAATTGGACAGCATTTATTC
ACAA
Found at i:46765062 original size:93 final size:93
Alignment explanation
Indices: 46764980--46765611 Score: 1022
Period size: 93 Copynumber: 6.8 Consensus size: 93
46764970 TATATGTAGC
*
46764980 AATTTGGACAGCACT-TATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
1 AATTTGGACAGCA-TGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
46765044 TGTAGCAATTTGGACAGCACTTATACACA
65 TGTAGCAATTTGGACAGCACTTATACACA
* *
46765073 AAATTGGACAACATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
1 AATTTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
46765138 GTAGCAATTTGGACAGCACTTATACACAA
66 GTAGCAATTTGGACAGCACTTATACAC-A
*
46765167 AATTT-GACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGTAGCATATAT
1 AATTTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
* *
46765231 GTAGCAATTTGGAAAGTACTTATACACAA
66 GTAGCAATTTGGACAGCACTTATACAC-A
*
46765260 AATTT-GACAGCATGTATATACAAAATT-GACAACATTTATTCACCAAAATTGGGCAGCATATAT
1 AATTTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
*
46765323 GTAGCAATTTGGACAGCACTTATAAACAA
66 GTAGCAATTTGGACAGCACTTATACAC-A
* ** *
46765352 AATTT-GACAGCATGTATATACAAAATTGGACAACATTTATTCATGAAAATTGGGTAGCATATAT
1 AATTTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
46765416 GTAGCAATTTGGACAGCACTTATACACA
66 GTAGCAATTTGGACAGCACTTATACACA
* * * * *
46765444 AAATTGGACTGCATGTTTATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAACATATAT
1 AATTTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
*
46765509 GTAGCAATTTGGATAGCACTTATACACA
66 GTAGCAATTTGGACAGCACTTATACACA
*
46765537 AAATTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
1 AATTTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
46765602 GTAGCAATTT
66 GTAGCAATTT
46765612 TTTACCATTA
Statistics
Matches: 506, Mismatches: 29, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
92 93 0.18
93 408 0.81
94 5 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (93 bp):
AATTTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
GTAGCAATTTGGACAGCACTTATACACA
Found at i:46765113 original size:163 final size:163
Alignment explanation
Indices: 46764831--46765202 Score: 640
Period size: 163 Copynumber: 2.3 Consensus size: 163
46764821 TTTACAACAT
* *
46764831 TTATATACAAAATTGGACAGCATTTATTCACCAAAATTTGGCAGCATATATGTAGCAATTTGGAC
1 TTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGAC
* * *
46764896 AGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAACATTTATTCCCCAAAAT
66 AGCACTTATACACAAAATTGGACAACATGTATATACAAAATTGGACAACATTTATTCACCAAAAT
46764961 TGGGCAGCATATATGTAGCAATTTGGACAGCAC
131 TGGGCAGCATATATGTAGCAATTTGGACAGCAC
46764994 TTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGAC
1 TTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGAC
*
46765059 AGCACTTATACACAAAATTGGACAACATGTATATACAAAATTGGACAGCATTTATTCACCAAAAT
66 AGCACTTATACACAAAATTGGACAACATGTATATACAAAATTGGACAACATTTATTCACCAAAAT
46765124 TGGGCAGCATATATGTAGCAATTTGGACAGCAC
131 TGGGCAGCATATATGTAGCAATTTGGACAGCAC
* * *
46765157 TTATACACAAAATTTGACAGCATGTATAT-A-CAAAATTGGACAGCAT
1 TTATACACAAAATTGGACAGCATTTAT-TCACCAAAATTGGGCAGCAT
46765203 TTATTCACCA
Statistics
Matches: 199, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
162 15 0.08
163 183 0.92
164 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (163 bp):
TTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGAC
AGCACTTATACACAAAATTGGACAACATGTATATACAAAATTGGACAACATTTATTCACCAAAAT
TGGGCAGCATATATGTAGCAATTTGGACAGCAC
Found at i:46765242 original size:256 final size:258
Alignment explanation
Indices: 46764749--46765281 Score: 883
Period size: 256 Copynumber: 2.1 Consensus size: 258
46764739 TCTATCCTGT
* *
46764749 TTGGACAGC-TCTTATACATCAGAAATTGAGCAGCATGTATATACCAATTTGGACAGCACTTATA
1 TTGGACAGCATCTTATACACCAGAAATTGAGCAGCATATATATACCAATTTGGACAGCACTTATA
** * *
46764813 CACAAAATTTTACAACATTTATATACAAAATTGGACAGCATTTATTCACCAAAATTTGGCAGCAT
66 CACAAAATTGGACAACATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCAT
46764878 ATATGTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACA
131 ATATGTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACA
* *
46764943 ACATTTATTCCCCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACACAAAA
196 ACATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGAAAGCACTTATACACAAAA
* * * *
46765006 TTGGACAGCAT-TTATTCACCA-AAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATA
1 TTGGACAGCATCTTATACACCAGAAATTGAGCAGCATATATATACCAATTTGGACAGCACTTATA
46765069 CACAAAATTGGACAACATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCAT
66 CACAAAATTGGACAACATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCAT
46765134 ATATGTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACA
131 ATATGTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACA
* * *
46765199 GCATTTATTCACCAAAATTGGGTAGCATATATGTAGCAATTTGGAAAGTACTTATACACAAAA
196 ACATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGAAAGCACTTATACACAAAA
* *
46765262 TTTGACAGCATGTATATACA
1 TTGGACAGCATCT-TATACA
46765282 AAATTGACAA
Statistics
Matches: 256, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
256 232 0.91
257 18 0.07
258 6 0.02
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (258 bp):
TTGGACAGCATCTTATACACCAGAAATTGAGCAGCATATATATACCAATTTGGACAGCACTTATA
CACAAAATTGGACAACATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCAT
ATATGTAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACA
ACATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGAAAGCACTTATACACAAAA
Found at i:46765345 original size:278 final size:279
Alignment explanation
Indices: 46764980--46765611 Score: 1070
Period size: 278 Copynumber: 2.3 Consensus size: 279
46764970 TATATGTAGC
*
46764980 AATTTGGACAGCACT-TATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
1 AATTT-GACAGCA-TGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
* *
46765044 TGTAGCAATTTGGACAGCACTTATACACAAAATTGGACAACATGTATATACAAAATTGGACAGCA
64 TGTAGCAATTTGGACAGCACTTATAAACAAAATTGGACAACATGTATATACAAAATTGGACAACA
*
46765109 TTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACACAAAATTTGA
129 TTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACACAAAATTGGA
* * *
46765174 CAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGTAGCATATATGTAGCAAT
194 CAGCATGTATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAACATATATGTAGCAAT
*
46765239 TTGGAAAGTACTTATACACAA
259 TTGGAAAGCACTTATACACAA
*
46765260 AATTTGACAGCATGTATATACAAAATT-GACAACATTTATTCACCAAAATTGGGCAGCATATATG
1 AATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
* *
46765324 TAGCAATTTGGACAGCACTTATAAACAAAATTTGACAGCATGTATATACAAAATTGGACAACATT
66 TAGCAATTTGGACAGCACTTATAAACAAAATTGGACAACATGTATATACAAAATTGGACAACATT
** * *
46765389 TATTCATGAAAATTGGGTAGCATATATGTAGCAATTTGGACAGCACTTATACACAAAATTGGACT
131 TATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACACAAAATTGGACA
*
46765454 GCATGTTTATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAACATATATGTAGCAATTT
196 GCATGTATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAACATATATGTAGCAATTT
*
46765519 GGATAGCACTTATACACAA
261 GGAAAGCACTTATACACAA
*
46765538 AATTGGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
1 AATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
46765603 TAGCAATTT
66 TAGCAATTT
46765612 TTTACCATTA
Statistics
Matches: 331, Mismatches: 19, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
278 262 0.79
279 64 0.19
280 5 0.02
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (279 bp):
AATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
TAGCAATTTGGACAGCACTTATAAACAAAATTGGACAACATGTATATACAAAATTGGACAACATT
TATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACACAAAATTGGACA
GCATGTATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAACATATATGTAGCAATTT
GGAAAGCACTTATACACAA
Found at i:46766351 original size:28 final size:28
Alignment explanation
Indices: 46766311--46766437 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
46766301 ATTTAATAAG
* *
46766311 TTCGCACACTTAGTG-TTCAACAATCAAA
1 TTCGCACACTTAGTGCTT-TACAATTAAA
* * *
46766339 TTCGTACACTTAGTGCTTTGCCATTAAA
1 TTCGCACACTTAGTGCTTTACAATTAAA
*
46766367 CTCGCACACTTAGTGCTTTACAATTAAA
1 TTCGCACACTTAGTGCTTTACAATTAAA
*
46766395 CTCGCACACTTAGTGCTTTACAATTAAA
1 TTCGCACACTTAGTGCTTTACAATTAAA
46766423 TTCGCACACTTAGTG
1 TTCGCACACTTAGTG
46766438 TCGAAAGTCA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 86 0.98
29 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (28 bp):
TTCGCACACTTAGTGCTTTACAATTAAA
Found at i:46772703 original size:93 final size:93
Alignment explanation
Indices: 46772576--46772867 Score: 417
Period size: 93 Copynumber: 3.1 Consensus size: 93
46772566 TCTACCCAGT
* * * * * *
46772576 TTGGACAGC-TCTTATACATCAGAAATTGAGCAGCATGTATATACCAATTTGGACAGCACTTATA
1 TTGGACAGCAT-TTATTCACCA-AAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATA
*
46772640 CACAAAATTTGACAACATTTATATACAAAA
64 CACAAAATTTGACAGCATTTATATACAAAA
*
46772670 TTGGACAGCATTTATTCACCAAAATTTGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
*
46772735 CAAAATTTGACAGCATGTATATACAAAA
66 CAAAATTTGACAGCATTTATATACAAAA
* *
46772763 TTGGACAACATTTATTCCCCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
1 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
*
46772828 CAAAATTGGACAGCATTTAT-TCACCAAAA
66 CAAAATTTGACAGCATTTATAT-A-CAAAA
*
46772857 TTGGGCAGCAT
1 TTGGACAGCAT
46772868 ATATGTAGCA
Statistics
Matches: 179, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 146 0.82
94 31 0.17
95 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (93 bp):
TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAATTTGGACAGCACTTATACA
CAAAATTTGACAGCATTTATATACAAAA
Found at i:46772910 original size:70 final size:70
Alignment explanation
Indices: 46772738--46772929 Score: 293
Period size: 70 Copynumber: 2.8 Consensus size: 70
46772728 TTATACACAA
* * *
46772738 AATTT-GACAGCA-TGTATATACAAAATTGGACAACATTTATTCCCCAAAATTGGGCAGCATATA
1 AATTTGGACAGCACT-TATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATA
46772801 TGTAGC
65 TGTAGC
46772807 AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
1 AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
46772872 GTAGC
66 GTAGC
* *
46772877 AATTTGGATAGCACTTATACACAAAATTGGACAGCATGTATAT-A-CAAAATTGG
1 AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTAT-TCACCAAAATTGG
46772930 ATAGCATTTA
Statistics
Matches: 115, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
69 14 0.12
70 99 0.86
71 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (70 bp):
AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
GTAGC
Found at i:46772912 original size:46 final size:46
Alignment explanation
Indices: 46772833--46772974 Score: 178
Period size: 46 Copynumber: 3.0 Consensus size: 46
46772823 ATACACAAAA
*
46772833 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATGTAGCAAT
1 TTGGATAGCATTTATTCACCAAAATTGGGCAGCATATATGTA-CAAT
* * * * * *
46772880 TTGGATAGCACTTATACA-CAAAATTGGACAGCATGTATATACAAAA
1 TTGGATAGCATTTATTCACCAAAATTGGGCAGCATATATGTAC-AAT
*
46772926 TTGGATAGCATTTATTCACCAAAATTGGGCAACATATATGTATCAAT
1 TTGGATAGCATTTATTCACCAAAATTGGGCAGCATATATGTA-CAAT
46772973 TT
1 TT
46772975 TTGACCATTA
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 38 0.49
47 38 0.49
48 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (46 bp):
TTGGATAGCATTTATTCACCAAAATTGGGCAGCATATATGTACAAT
Found at i:46772940 original size:163 final size:162
Alignment explanation
Indices: 46772645--46772974 Score: 552
Period size: 163 Copynumber: 2.0 Consensus size: 162
46772635 TTATACACAA
* * *
46772645 AATTTGACAACATTTATATACAAAATTGGACAGCATTTATTCACCAAAATTTGGCAGCATATATG
1 AATTTGACAACACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
*
46772710 TAGCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAACATT
66 TAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGGACAACATT
* *
46772775 TATTCCCCAAAATTGGGCAGCATATATGTAGC
131 TATTCACCAAAATTGGGCAACATATATGTAGC
*
46772807 AATTTGGACAGCACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
1 AATTT-GACAACACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATAT
* * *
46772872 GTAGCAATTTGGATAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGGATAGCAT
65 GTAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGGACAACAT
*
46772937 TTATTCACCAAAATTGGGCAACATATATGTATC
130 TTATTCACCAAAATTGGGCAACATATATGTAGC
46772970 AATTT
1 AATTT
46772975 TTGACCATTA
Statistics
Matches: 156, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
162 5 0.03
163 151 0.97
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (162 bp):
AATTTGACAACACTTATACACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATG
TAGCAATTTGGACAGCACTTATACACAAAATTGGACAGCATGTATATACAAAATTGGACAACATT
TATTCACCAAAATTGGGCAACATATATGTAGC
Found at i:46773728 original size:28 final size:28
Alignment explanation
Indices: 46773697--46773794 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
46773687 ATAATCAAAG
* *
46773697 TCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
46773725 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
46773753 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
46773781 TCGCACACTTAGTG
1 TCGCACACTTAGTG
46773795 TCGAAAGTCA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:46773736 original size:56 final size:55
Alignment explanation
Indices: 46773669--46773795 Score: 164
Period size: 56 Copynumber: 2.3 Consensus size: 55
46773659 TTTAATAAGT
* * * * *
46773669 TCGCAAACTTAGTGTTCAATAATCAAAGTCGCACACTTAGTGCTTTGCCATTAAAC
1 TCGCACACTTAGTGTT-AACAATCAAACTCGCACACTTAGTGCTTTACAATTAAAC
* * *
46773725 TCGCACACTTAGTGCTTTACAATTAAACTCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTG-TTAACAATCAAACTCGCACACTTAGTGCTTTACAATTAAAC
46773781 TCGCACACTTAGTGT
1 TCGCACACTTAGTGT
46773796 CGAAAGTCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
55 1 0.02
56 59 0.95
57 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (55 bp):
TCGCACACTTAGTGTTAACAATCAAACTCGCACACTTAGTGCTTTACAATTAAAC
Found at i:46775353 original size:43 final size:43
Alignment explanation
Indices: 46775275--46775484 Score: 234
Period size: 43 Copynumber: 4.9 Consensus size: 43
46775265 GGAGAGGGAA
* * *
46775275 AGAAGAAGAAAGAAAGA-AAGAAAAGGAAAGAAAAGGAAAGGAG
1 AGAA-AAGAAAGAAAAAGAAGGAAAGGAAAGGAAAGGAAAGGAG
*
46775318 AGGAAAGAAAGAAAAAGAAGGAAAGGAAAGGAAAGGAAAGGAG
1 AGAAAAGAAAGAAAAAGAAGGAAAGGAAAGGAAAGGAAAGGAG
* * *
46775361 AGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAG
1 AGAAAAGAAAGAAAAAGAAGGAAAGGAAAGGAAAGGA-AAGGAG
* * *
46775405 AAAAAAGAAAGAAAAAGCAGGAAA-GATAGGAAAGGAGAA-GAG
1 AGAAAAGAAAGAAAAAGAAGGAAAGGAAAGGAAAGGA-AAGGAG
*
46775447 A-AAAAGAAAGAAAGAAGAA-GAAGAGGGAAGG-AAGGAAA
1 AGAAAAGAAAGAAA-AAGAAGGAA-AGGAAAGGAAAGGAAA
46775485 AAGAAAGAAA
Statistics
Matches: 147, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
41 17 0.12
42 24 0.16
43 80 0.54
44 26 0.18
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.00
Consensus pattern (43 bp):
AGAAAAGAAAGAAAAAGAAGGAAAGGAAAGGAAAGGAAAGGAG
Found at i:46775468 original size:81 final size:81
Alignment explanation
Indices: 46775271--46775500 Score: 233
Period size: 81 Copynumber: 2.8 Consensus size: 81
46775261 AGAAGGAGAG
* * * * **
46775271 GGAAAGAAGAAGAAAGAAAGAAAGAA-AAGGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAG
1 GGAAAGGAGAA-AAAGAAAGAAAGAAGAAGAAAAGGAAAGGAAAGAAGAAAAAAGAAAGAAAAAG
46775335 AAGGAAAGGAAAGGAAA
65 AAGGAAAGGAAAGGAAA
*
46775352 GGAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAAAAAGAAAGA
1 GGAAAGGAGA-AAAAGAAAG--AAAGAA-G-AAGAAAAGGAAAGGA-AAGAAGAAAAAAGAAAGA
* *
46775417 AAAAGCAGGAAA-GATAGGAAA
60 AAAAGAAGGAAAGGAAAGGAAA
* *
46775438 GGAGAA-GAGAAAAAGAAAGAAAGAAGAAGAAGAGGGAAGG-AAG--G-AAAAAGAAAGAAAAA-
1 GGA-AAGGAGAAAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAAAGAAGAAAAAAGAAAGAAAAAG
46775497 AAGG
65 AAGG
46775501 TAATTTTTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
75 3 0.02
76 15 0.12
77 1 0.01
79 3 0.02
81 29 0.23
82 1 0.01
83 12 0.09
85 8 0.06
86 28 0.22
87 28 0.22
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.00
Consensus pattern (81 bp):
GGAAAGGAGAAAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAAAGAAGAAAAAAGAAAGAAAAAGA
AGGAAAGGAAAGGAAA
Found at i:46775494 original size:10 final size:10
Alignment explanation
Indices: 46775272--46775496 Score: 79
Period size: 10 Copynumber: 22.0 Consensus size: 10
46775262 GAAGGAGAGG
*
46775272 GAAAGAAGAA
1 GAAAGAAAAA
46775282 GAAAG--AAA
1 GAAAGAAAAA
*
46775290 GAAAGAAAAG
1 GAAAGAAAAA
*
46775300 GAAAGAAAAG
1 GAAAGAAAAA
46775310 GAAAGGAGAGGAAA
1 GAAA-GA-A--AAA
46775324 GAAAGAAAAA
1 GAAAGAAAAA
* *
46775334 G-AAGGAAAG
1 GAAAGAAAAA
* *
46775343 GAAAGGAAAG
1 GAAAGAAAAA
* * *
46775353 GAAAGGAGAG
1 GAAAGAAAAA
46775363 GAAAG--AAA
1 GAAAGAAAAA
*
46775371 GAAA-AAGAAG
1 GAAAGAA-AAA
*
46775381 GAAAGAAAAG
1 GAAAGAAAAA
* *
46775391 GAAAGGAGAA
1 GAAAGAAAAA
46775401 G-AAGAAAAAA
1 GAAAG-AAAAA
46775411 GAAAGAAAAA
1 GAAAGAAAAA
* *
46775421 GCAGGAAAGATA
1 GAAAGAAA-A-A
*
46775433 GGAAAGGAGAAGA
1 -GAAA-GA-AAAA
46775446 GAAA-AAGAAA
1 GAAAGAA-AAA
*
46775456 GAAAGAAGAA
1 GAAAGAAAAA
** *
46775466 GAAGAGGGAAG
1 GAA-AGAAAAA
*
46775477 GAAGGAAAAA
1 GAAAGAAAAA
46775487 GAAAGAAAAA
1 GAAAGAAAAA
46775497 AAGGTAATTT
Statistics
Matches: 164, Mismatches: 30, Indels: 42
0.69 0.13 0.18
Matches are distributed among these distances:
8 12 0.07
9 11 0.07
10 103 0.63
11 16 0.10
12 7 0.04
13 5 0.03
14 8 0.05
15 2 0.01
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:46776333 original size:159 final size:157
Alignment explanation
Indices: 46775818--46776550 Score: 651
Period size: 159 Copynumber: 4.7 Consensus size: 157
46775808 AATGGTATAT
* * * *
46775818 TTAATAA-ATTTCAAACATAAGGCACTGAAATAATTTAAAACT-ATAAAATTAGAAATTATGATA
1 TTAATAATATTTCAAACAAAATGCACTGAAATAATATAAAA-TAATAAAATTAGAAATAAT-ATA
* * *
46775881 -TTTT-TT-AAAATAATAAAATGCGGAGAAAAAAATACGAATAAATGGC-CGAAGTAAGAG-TGT
64 TTTTTATTGAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCACGAA-TAAGAGCT-T
* *
46775941 TTT-ACTAAATT-TTTT-AAAAA-TAATTAA
127 TTTAACTAAATTATTTTAAAAAACAAAATAA
*
46775968 -TACA-AATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATAATAT
1 TTA-ATAATATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTA-G-AAATAATAT
* * * *
46776030 ATTTTTATTGAAAGTAATAAAATTCGG-GAAAAATAATACGAGCAAAGGGCAGGAATAAGGGCTT
63 ATTTTTATTGAAAGTAATAAAATGCGGAGAAAAA-AATACGAACAAAGGGCACGAATAAGAGC-T
* * *
46776094 TTTTACACTAAATTAATTTAAAAAACACACTAAA
126 TTTTA-ACTAAATTATTTTAAAAAACAAAAT-AA
* * * *
46776128 TTAATAA-ATTTCAAACATAATGCACTGAAATAA-AGTAGAATTATAAAATTAGAAATTATGATA
1 TTAATAATATTTCAAACAAAATGCACTGAAATAATA-TAAAATAATAAAATTAGAAATAAT-ATA
* * *
46776191 TTTTT-TT-AAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGC-CGAAGTAAGAGCGTT
64 TTTTTATTGAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCACGAA-TAAGAGCTTT
* *
46776253 TT-ACT-AATTTTTTTAAAAATTCAGAAATAA
128 TTAACTAAATTATTTTAAAAA-ACA-AAATAA
* * *
46776283 TTAATACAAATATTTCAAATAAAATGTATTGAAATAATATAAAATAATAAAATACTA-AAATAAT
1 TTAAT---AATATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAAT--TAGAAATAAT
* * * * *
46776347 ATATTTTTATTGAAAGTAATAAAATTC-GAGAAAATAATACGAGCAAAGGGCAGGAATAAGGGTT
61 ATATTTTTATTGAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCACGAATAAGAG--
* **
46776411 TTTTTTACACTAAATTAATTTTAAAAAACACTA-AA
124 CTTTTTA-ACTAAATT-ATTTTAAAAAACAAAATAA
* * * *
46776446 TTAATAAT-TTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATA-
1 TTAATAATATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAGAAATAAT-ATAT
*
46776509 TTTT-TT-AAAGTAATAAAATGCGGAGAAAAAAATACAAACAAA
65 TTTTATTGAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAA
46776551 TAGTCGAAAT
Statistics
Matches: 473, Mismatches: 64, Indels: 85
0.76 0.10 0.14
Matches are distributed among these distances:
149 7 0.01
150 40 0.08
151 10 0.02
152 8 0.02
153 33 0.07
154 19 0.04
155 13 0.03
156 24 0.05
157 31 0.07
158 52 0.11
159 97 0.21
160 85 0.18
161 24 0.05
162 4 0.01
163 7 0.01
164 4 0.01
165 6 0.01
166 9 0.02
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (157 bp):
TTAATAATATTTCAAACAAAATGCACTGAAATAATATAAAATAATAAAATTAGAAATAATATATT
TTTATTGAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCACGAATAAGAGCTTTTTA
ACTAAATTATTTTAAAAAACAAAATAA
Found at i:46776343 original size:16 final size:15
Alignment explanation
Indices: 46776318--46776347 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46776308 GTATTGAAAT
46776318 AATATAAAATAATAA
1 AATATAAAATAATAA
46776333 AATACTAAAATAATA
1 AATA-TAAAATAATA
46776348 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:46776417 original size:319 final size:309
Alignment explanation
Indices: 46775818--46776584 Score: 1230
Period size: 319 Copynumber: 2.4 Consensus size: 309
46775808 AATGGTATAT
* * *
46775818 TTAATAAATTTCAAACATAAGGCACTGAAATAATTTAAAACTATAAAATTAGAAATTATGATATT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
*
46775883 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAATAAATGGCCGAAGTAAGAGTGTTTTACTA
66 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
*
46775948 AATTTTTTAAAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATA
131 ATTTTTTTAAAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATA
*
46776013 AAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAATAATACGAGCAAAGG
196 AAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGAAAAATAATACGAGCAAAGG
46776078 GCAGGAATAAGGGCTTTTTTACACTAAATTAATTTAAAAAACACACTAAA
261 GCAGGAATAAGGGCTTTTTTACACTAAATTAATTTAAAAAA-ACACTAAA
* *
46776128 TTAATAAATTTCAAACATAATGCACTGAAATAAAGTAGAATTATAAAATTAGAAATTATGATATT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATA-T
*
46776193 TTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGCGTTTTACT
65 TTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACT
* *
46776258 AATTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAATAAAATGTATTGAAATAATAT
130 AATTTTTTT----A---A-AAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATAT
*
46776323 AAAATAATAAAATACTAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAG-AAAATAATAC
187 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGAAAAATAATAC
* *
46776387 GAGCAAAGGGCAGGAATAAGGGTTTTTTTTACACTAAATTAATTTTAAAAAACACTAAA
252 GAGCAAAGGGCAGGAATAAGGG-CTTTTTTACACTAAATTAATTTAAAAAAACACTAAA
*
46776446 TTAATAATTTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
1 TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
* * * * * *
46776511 TTTTAAAGTAATAAAATGCGGAGAAAAAAATACAAACAAATAGTCGAAATAAGAGTTTTTTACTA
66 TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
46776576 ACTTTTTTT
131 A-TTTTTTT
46776585 CAACTTGCAG
Statistics
Matches: 422, Mismatches: 24, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
310 58 0.14
311 72 0.17
315 1 0.00
317 61 0.14
318 108 0.26
319 122 0.29
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (309 bp):
TTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
TTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTACTA
ATTTTTTTAAAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATA
AAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAGAAAAATAATACGAGCAAAGG
GCAGGAATAAGGGCTTTTTTACACTAAATTAATTTAAAAAAACACTAAA
Found at i:46778263 original size:12 final size:12
Alignment explanation
Indices: 46778237--46778275 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46778227 AGCCCGAGTA
* *
46778237 AGAGCCCCAGTC
1 AGAGCCACAGCC
46778249 AGAGCCACAGCC
1 AGAGCCACAGCC
*
46778261 AGAGCCTCAGCC
1 AGAGCCACAGCC
46778273 AGA
1 AGA
46778276 TCCGGAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.31, C:0.38, G:0.26, T:0.05
Consensus pattern (12 bp):
AGAGCCACAGCC
Found at i:46782680 original size:16 final size:17
Alignment explanation
Indices: 46782650--46782681 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46782640 ATGTGGCTTT
46782650 TTTCTTTTAAATATTTG
1 TTTCTTTTAAATATTTG
46782667 TTTCTTTT-AATATTT
1 TTTCTTTTAAATATTT
46782682 TAGCATACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTCTTTTAAATATTTG
Found at i:46783439 original size:2 final size:2
Alignment explanation
Indices: 46783426--46783490 Score: 121
Period size: 2 Copynumber: 32.0 Consensus size: 2
46783416 ATCATTCTGA
46783426 AT AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46783469 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
46783491 GTTTTAGTTA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 60 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46791832 original size:3 final size:3
Alignment explanation
Indices: 46791824--46791850 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46791814 GCGTATGTAA
46791824 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
46791851 AAAATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:46796607 original size:46 final size:46
Alignment explanation
Indices: 46796537--46796713 Score: 273
Period size: 46 Copynumber: 3.8 Consensus size: 46
46796527 ACAATGCTAT
*
46796537 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* ** *
46796583 AACTCAGTATGGTTTTCGTTACTGAAATGTCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
46796629 AACTCAGTATAGTTTTCTTTACTGAAATACCATACTTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
46796675 AACTCAGTATGGTTCTCTTTACTAAAATACCATACCTAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTAC
46796714 GTTCCACACT
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
Found at i:46804578 original size:43 final size:42
Alignment explanation
Indices: 46804517--46804654 Score: 168
Period size: 43 Copynumber: 3.2 Consensus size: 42
46804507 GTTTTTAGAA
* * *
46804517 ATAAACGCCACTATAGATCATGACCTTTAGTGGCGCTTTTCCC
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CC
*
46804560 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCCTCTTCC
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCG-CTTTTCC
* *** *
46804603 ACAAACGCCGCTATAGATTGGGACCTTTAGCGGCGCTTTTGC
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCC
*
46804645 ACAAACGCCG
1 ATAAACGCCG
46804655 ATCGGTGGGA
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
42 15 0.18
43 65 0.77
44 4 0.05
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (42 bp):
ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCC
Found at i:46814080 original size:16 final size:16
Alignment explanation
Indices: 46814055--46814085 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46814045 AACCCCCTAG
*
46814055 CCCCTTACCCCTAAAT
1 CCCCTAACCCCTAAAT
46814071 CCCCTAACCCCTAAA
1 CCCCTAACCCCTAAA
46814086 GCATAACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Found at i:46815020 original size:41 final size:41
Alignment explanation
Indices: 46814893--46815296 Score: 414
Period size: 41 Copynumber: 9.8 Consensus size: 41
46814883 TTTTGTTACT
* * *** *
46814893 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGA-TTAATAC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCCGA-GC
* * * * * * ** *
46814934 ATTCGCGGCGCTTAGATACAAACGCCACTGAATACAGGAGA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCCGAGC
* * *
46814975 ATTAGCGGCGCATATATAAAAACGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCCGAGC
* * * * *
46815016 ATTAGCGGCGCATAGGCGAAAACGCCGCTATAGACACAGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAC-CCGAGC
* ** * *
46815058 ATTATCAACGCTTAGACGAAAACGCCGCTAAAGACTCGGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAC-CCGAGC
* * * *
46815100 ATTAGCGGCGCTGAGACGAAAGCGCCGCTAAAGACTCGGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAC-CCGAGC
* * * *
46815142 ATTAGCGGCGCTTATACGAAAATGCCGCTATAGACCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCCGAGC
* *
46815183 ATTAGCGGTGCTTAGACAAAAACGCCGCTATAGACCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCCGAGC
*
46815224 ATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCCGAGC
46815265 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAA
46815297 TGTTTAAAAA
Statistics
Matches: 307, Mismatches: 54, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
41 200 0.65
42 107 0.35
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACCCGAGC
Found at i:46815239 original size:23 final size:24
Alignment explanation
Indices: 46815208--46815281 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 24
46815198 ACAAAAACGC
46815208 CGCTATAGACCCGAGCATTAGCGG
1 CGCTATAGACCCGAGCATTAGCGG
* * *
46815232 CGCT-TAGA--C-A--A-AAACGC
1 CGCTATAGACCCGAGCATTAGCGG
46815249 CGCTATAGACCCGAGCATTAGCGG
1 CGCTATAGACCCGAGCATTAGCGG
46815273 CGCT-TAGAC
1 CGCTATAGAC
46815282 AAAAACGCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 15
0.64 0.10 0.26
Matches are distributed among these distances:
17 7 0.19
18 5 0.14
20 2 0.05
21 2 0.05
23 10 0.27
24 11 0.30
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (24 bp):
CGCTATAGACCCGAGCATTAGCGG
Found at i:46815468 original size:40 final size:39
Alignment explanation
Indices: 46815345--46815471 Score: 112
Period size: 40 Copynumber: 3.2 Consensus size: 39
46815335 GGTTTTTTGT
* * *
46815345 GGCGCTTTATATAAAACGCCGTTAATTC-CTATTTTTAGC
1 GGCGCTTTA-GTAAAACGCCGCTAATGCTCTATTTTTAGC
** * **
46815384 GGCGCTTCCGTATAAACGCCGCTGATGCTCTACCTTTAGC
1 GGCGCTTTAGTA-AAACGCCGCTAATGCTCTATTTTTAGC
* * * *
46815424 GGCGCTTTGGCTAAATCGCCGCTAATGCTCTATTTTTTGT
1 GGCGCTTTAG-TAAAACGCCGCTAATGCTCTATTTTTAGC
46815464 GGCGCTTT
1 GGCGCTTT
46815472 TGTTCCAAAC
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
38 2 0.03
39 19 0.28
40 46 0.67
41 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.35
Consensus pattern (39 bp):
GGCGCTTTAGTAAAACGCCGCTAATGCTCTATTTTTAGC
Found at i:46816689 original size:2 final size:2
Alignment explanation
Indices: 46816682--46816706 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46816672 AATAAGTGGT
46816682 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 T
46816707 TTCTCCCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46821052 original size:25 final size:25
Alignment explanation
Indices: 46821018--46821066 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
46821008 AGGCTACTAA
46821018 TGTAAATCGGACTTATAAATATTTT
1 TGTAAATCGGACTTATAAATATTTT
46821043 TGTAAATCGGACTTATAAATATTT
1 TGTAAATCGGACTTATAAATATTT
46821067 AATTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (25 bp):
TGTAAATCGGACTTATAAATATTTT
Found at i:46821073 original size:25 final size:26
Alignment explanation
Indices: 46821015--46821074 Score: 97
Period size: 25 Copynumber: 2.4 Consensus size: 26
46821005 TCAAGGCTAC
46821015 TAATGTAAATCGGACTTATAAATATT
1 TAATGTAAATCGGACTTATAAATATT
*
46821041 T-TTGTAAATCGGACTTATAAATATT
1 TAATGTAAATCGGACTTATAAATATT
46821066 TAAT-TAAAT
1 TAATGTAAAT
46821075 ATTTACGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 29 0.94
26 2 0.06
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (26 bp):
TAATGTAAATCGGACTTATAAATATT
Found at i:46822142 original size:25 final size:25
Alignment explanation
Indices: 46822094--46822142 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
46822084 CATAATTGAA
* * *
46822094 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
46822119 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
46822143 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:46822602 original size:43 final size:43
Alignment explanation
Indices: 46822538--46822623 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
46822528 TGTATGATTG
* *
46822538 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
* *
46822581 ATATTAAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
46822624 TGAAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.52, C:0.01, G:0.23, T:0.23
Consensus pattern (43 bp):
ATATTAAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:46825734 original size:19 final size:18
Alignment explanation
Indices: 46825690--46825735 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
46825680 GAGTTAAACG
* * *
46825690 AATCGAGTTATTCGAGTT
1 AATCGAATTATTCGAATC
46825708 AATCGAATTATTCGAATC
1 AATCGAATTATTCGAATC
46825726 AACTCGAATT
1 AA-TCGAATT
46825736 TTTTTTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (18 bp):
AATCGAATTATTCGAATC
Found at i:46825793 original size:9 final size:9
Alignment explanation
Indices: 46825776--46825812 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
46825766 TGAGATTTCG
46825776 AATTCGAAT
1 AATTCGAAT
*
46825785 AACTCGAAT
1 AATTCGAAT
46825794 AATTCGAAT
1 AATTCGAAT
46825803 AATTCGAAT
1 AATTCGAAT
46825812 A
1 A
46825813 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:46826851 original size:5 final size:5
Alignment explanation
Indices: 46826841--46826866 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46826831 CTCGAAAATT
46826841 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
46826867 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:46830974 original size:13 final size:13
Alignment explanation
Indices: 46830956--46830981 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46830946 AGTTTAGCAA
46830956 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
46830969 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
46830982 GTTGGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:46833981 original size:95 final size:95
Alignment explanation
Indices: 46833803--46834214 Score: 407
Period size: 95 Copynumber: 4.3 Consensus size: 95
46833793 GGTGGTTTGG
* * * * * * ** *
46833803 AAATTAGCTAACTCGGATAGGATTGTTGATGATAATAAACCAAATGAATTTAGGCTATGATATTA
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATAATAAATCAAATGAACTTAGGCTGCGATCTTA
* *
46833868 GATCAGCGA-ACATATTAGAGCAGCGATATT
66 AATCAGCGAGTCAT-TTAGAGCAGCGATATT
* * * * *
46833898 AAATCACCTAACTCGGATAGGATTGTTCATGATAGTAAATCAAACGAACTTAGGCTGCGATCTTA
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATAATAAATCAAATGAACTTAGGCTGCGATCTTA
** * *
46833963 AATCAGCGACCCGTTTAGAGCAACGATATT
66 AATCAGCGAGTCATTTAGAGCAGCGATATT
* * * * *
46833993 AAGTCAGCTAACTCAGACAAGATTGTTCATGATAATAAATCAAATGAACTTA-GCTTGCAAACCT
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATAATAAATCAAATGAACTTAGGC-TGCGATCTT
*
46834057 AAA-CTAGCGAGTCATTTGGAGCAGCGATATT
65 AAATC-AGCGAGTCATTTAGAGCAGCGATATT
* * * * * * * *
46834088 AAATCAGCTAACTCAGAGAAAATCGTTCATGATAGTAAATTAAATGAGCTTAGGTTGTGATCTTA
1 AAATCAGCTAACTCAGATAAGATTGTTCATGATAATAAATCAAATGAACTTAGGCTGCGATCTTA
* * *
46834153 AATCAGGGAGTCATTTGGAGTAGCGATATT
66 AATCAGCGAGTCATTTAGAGCAGCGATATT
* * * *
46834183 AAATCATCTAACTCAAAGAAGATTTTTCATGA
1 AAATCAGCTAACTCAGATAAGATTGTTCATGA
46834215 CAAATAAACT
Statistics
Matches: 264, Mismatches: 48, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
94 3 0.01
95 257 0.97
96 4 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (95 bp):
AAATCAGCTAACTCAGATAAGATTGTTCATGATAATAAATCAAATGAACTTAGGCTGCGATCTTA
AATCAGCGAGTCATTTAGAGCAGCGATATT
Found at i:46836058 original size:14 final size:14
Alignment explanation
Indices: 46836039--46836066 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46836029 AAAAGTTATA
46836039 TTTAATAATTCATT
1 TTTAATAATTCATT
46836053 TTTAATAATTCATT
1 TTTAATAATTCATT
46836067 AATAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:46845763 original size:19 final size:19
Alignment explanation
Indices: 46845741--46845778 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
46845731 TCAATCATCC
46845741 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
46845760 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
46845779 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:46847248 original size:18 final size:18
Alignment explanation
Indices: 46847225--46847259 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46847215 CCTTTGATAG
46847225 GTTGCATATGCATTCTTT
1 GTTGCATATGCATTCTTT
46847243 GTTGCATATGCATTCTT
1 GTTGCATATGCATTCTT
46847260 CAACCTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (18 bp):
GTTGCATATGCATTCTTT
Found at i:46851673 original size:15 final size:17
Alignment explanation
Indices: 46851634--46851674 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
46851624 AATTTTTTCA
*
46851634 ATAAAAAAAGAAATTAT
1 ATAACAAAAGAAATTAT
46851651 ATAACAAAAGAAATTA-
1 ATAACAAAAGAAATTAT
46851667 A-AACAAAA
1 ATAACAAAA
46851675 AAACAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 1 0.04
17 15 0.65
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (17 bp):
ATAACAAAAGAAATTAT
Found at i:46855669 original size:21 final size:20
Alignment explanation
Indices: 46855643--46855697 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
46855633 ATATATATAT
*
46855643 TATAATAATAATAAACTAATG
1 TATAATAATAATAAAATAA-G
46855664 TATAATAA-AATAAAATAAG
1 TATAATAATAATAAAATAAG
46855683 TA-AATGAATAA-AAAA
1 TATAAT-AATAATAAAA
46855698 AAGAATAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 3 0.10
19 9 0.29
20 11 0.35
21 8 0.26
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
TATAATAATAATAAAATAAG
Found at i:46856454 original size:15 final size:15
Alignment explanation
Indices: 46856434--46856484 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
46856424 GATTGAATTG
46856434 ATATATATATTATGA
1 ATATATATATTATGA
46856449 ATATAT-TGATTATGA
1 ATATATAT-ATTATGA
46856464 AT-TGATATA-TATTGA
1 ATAT-ATATATTA-TGA
46856479 ATATAT
1 ATATAT
46856485 TGATTATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.13
15 25 0.81
16 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
ATATATATATTATGA
Found at i:46856480 original size:30 final size:33
Alignment explanation
Indices: 46856425--46856500 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 33
46856415 GATTGAATGG
46856425 ATTGAATTGATATATATATTATGAATATATTGATT
1 ATTGAATTG--ATATATATTATGAATATATTGATT
46856460 A-TGAATTGATATATA-T-TGAATATATTGATT
1 ATTGAATTGATATATATTATGAATATATTGATT
46856490 ATTTGAATTGA
1 A-TTGAATTGA
46856501 AATGAATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
30 15 0.38
31 1 0.03
32 15 0.38
34 7 0.18
35 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
ATTGAATTGATATATATTATGAATATATTGATT
Found at i:46856484 original size:9 final size:9
Alignment explanation
Indices: 46856446--46856497 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
46856436 ATATATATTA
46856446 TGAATATAT
1 TGAATATAT
*
46856455 TGATTATGAAT
1 TGAATAT--AT
46856466 TGATATATAT
1 TGA-ATATAT
46856476 TGAATATAT
1 TGAATATAT
*
46856485 TGATTAT-T
1 TGAATATAT
46856493 TGAAT
1 TGAAT
46856498 TGAAATGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
8 5 0.14
9 18 0.50
10 5 0.14
11 5 0.14
12 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (9 bp):
TGAATATAT
Found at i:46859223 original size:5 final size:5
Alignment explanation
Indices: 46859209--46859261 Score: 99
Period size: 5 Copynumber: 10.8 Consensus size: 5
46859199 AATTATTAAG
46859209 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
46859258 TATA
1 TATA
46859262 ATAAAAACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.08
5 44 0.92
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:46862181 original size:13 final size:12
Alignment explanation
Indices: 46862154--46862214 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
46862144 AAATAGATAT
46862154 TTATT-ATTATAA
1 TTATTAATTAT-A
46862166 TTATTAATTACTA
1 TTATTAATTA-TA
**
46862179 TTATTGTTTATA
1 TTATTAATTATA
* *
46862191 TTATTAGTTTTA
1 TTATTAATTATA
46862203 TTATTATATTAT
1 TTATTA-ATTAT
46862215 GGAATAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
12 22 0.56
13 16 0.41
14 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (12 bp):
TTATTAATTATA
Found at i:46865083 original size:43 final size:43
Alignment explanation
Indices: 46864934--46865086 Score: 159
Period size: 43 Copynumber: 3.5 Consensus size: 43
46864924 ATGAGACTTT
* * *
46864934 GTGTAAAACCATATCTAGGATA-TGTCATCGATATATGTGATTAC
1 GTGTAAGACCATATCTGGGATATTGGCATCG--ATATGTGATTAC
* * * **
46864978 GTGTAAGACCATGTATGGGACATTGGCATC-ATTATGTGATTTT
1 GTGTAAGACCATATCTGGGATATTGGCATCGA-TATGTGATTAC
*
46865021 GTGTAAGACCATAGT-TGGGATATTGGCATCGATATGTGATAAC
1 GTGTAAGACCATA-TCTGGGATATTGGCATCGATATGTGATTAC
*
46865064 ATGTAAGACCATATCTGGGATAT
1 GTGTAAGACCATATCTGGGATAT
46865087 GGAATTGTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
42 2 0.02
43 63 0.70
44 19 0.21
45 6 0.07
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGATATTGGCATCGATATGTGATTAC
Found at i:46867577 original size:3 final size:3
Alignment explanation
Indices: 46867569--46867616 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
46867559 ATTATATTCC
46867569 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46867617 TGAATTATGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:46869223 original size:41 final size:41
Alignment explanation
Indices: 46869178--46869259 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
46869168 ATGACAGGTA
*
46869178 TATTCTTATTGCATTCTAAGCCTGTTTATGCTTTAGTTGAT
1 TATTCTTATTGCATTCTAAGCCTGTTTATGCTTTAATTGAT
*
46869219 TATTCTTATTGCATTCTGAGCCTGTTTATGCTTTAATTGAT
1 TATTCTTATTGCATTCTAAGCCTGTTTATGCTTTAATTGAT
46869260 CCAGGGTCGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (41 bp):
TATTCTTATTGCATTCTAAGCCTGTTTATGCTTTAATTGAT
Found at i:46870948 original size:25 final size:23
Alignment explanation
Indices: 46870897--46870942 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
46870887 CACCGATCAT
46870897 AAAAGTTTGAAATATCTTCTCTC
1 AAAAGTTTGAAATATCTTCTCTC
46870920 AAAAGTTTGAAATATCTTCTCTC
1 AAAAGTTTGAAATATCTTCTCTC
46870943 TCAAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (23 bp):
AAAAGTTTGAAATATCTTCTCTC
Found at i:46871886 original size:28 final size:28
Alignment explanation
Indices: 46871846--46871904 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
46871836 TAATTAAGAT
46871846 ATTAGAAGACATGCTTCGAGCTTGCATC
1 ATTAGAAGACATGCTTCGAGCTTGCATC
46871874 ATTAGAAGACATGCTTCGAGCTTGCATC
1 ATTAGAAGACATGCTTCGAGCTTGCATC
46871902 ATT
1 ATT
46871905 GATTTTGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (28 bp):
ATTAGAAGACATGCTTCGAGCTTGCATC
Found at i:46873128 original size:12 final size:12
Alignment explanation
Indices: 46873094--46873143 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
46873084 ATATTTATTG
*
46873094 TTATAATTATTAA
1 TTAT-ATTATTAT
*
46873107 TTACTATTATTGT
1 TTA-TATTATTAT
46873120 TTATATTATTAT
1 TTATATTATTAT
*
46873132 TTTTATTATTAT
1 TTATATTATTAT
46873144 ATTCTAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 19 0.59
13 12 0.38
14 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:46873131 original size:15 final size:15
Alignment explanation
Indices: 46873087--46873143 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
46873077 GAAATAGATA
* *
46873087 TTTATTGTTATAATT
1 TTTATTATTATTATT
* *
46873102 ATTAATTACTATTATT
1 -TTTATTATTATTATT
46873118 GTTTA-TATTATTATT
1 -TTTATTATTATTATT
46873133 TTTATTATTAT
1 TTTATTATTAT
46873144 ATTCTAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 4 0.12
15 15 0.45
16 14 0.42
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:46874389 original size:23 final size:23
Alignment explanation
Indices: 46874335--46874403 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
46874325 GGCTTTGCCG
*
46874335 ATCAGGCACTTTATGTGTCGCAT
1 ATCAGGCACTTTATGTGTCGTAT
*
46874358 ATCAAGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* **
46874381 -TGCAGGCACCTCGTGTGTCGTAT
1 AT-CAGGCACTTTATGTGTCGTAT
46874404 CAAGCACCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 1 0.03
23 38 0.97
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:46874410 original size:21 final size:21
Alignment explanation
Indices: 46874347--46874444 Score: 81
Period size: 21 Copynumber: 4.5 Consensus size: 21
46874337 CAGGCACTTT
* *
46874347 ATGTGTCGCATATCAAGCACTTT
1 ATGTGTCG--TATCAAGCACCTC
*
46874370 ATGTGTCGTATTGCAGGCACCTC
1 ATGTGTCGTA-T-CAAGCACCTC
*
46874393 GTGTGTCGTATCAAGCACCTC
1 ATGTGTCGTATCAAGCACCTC
* * * *
46874414 GTGTGTCGTTTTAAGCA-CTT
1 ATGTGTCGTATCAAGCACCTC
46874434 ATGTGTCGTAT
1 ATGTGTCGTAT
46874445 ATTGATCAGA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
20 11 0.17
21 26 0.41
22 2 0.03
23 24 0.38
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (21 bp):
ATGTGTCGTATCAAGCACCTC
Found at i:46879710 original size:26 final size:25
Alignment explanation
Indices: 46879554--46879716 Score: 115
Period size: 24 Copynumber: 6.6 Consensus size: 25
46879544 ATCCAGACAA
46879554 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTCACAAAGAGCC
* *
46879579 TATAACGGGTAGCTC-CGAAGAGCAC
1 TATAACGGGAAGCTCACAAAGAGC-C
* * *
46879604 T-TAACGGGTAG--CACTGAATA-CC
1 TATAACGGGAAGCTCAC-AAAGAGCC
* **
46879626 ATATAACGGGAAGTTCA-AGCGAG-C
1 -TATAACGGGAAGCTCACAAAGAGCC
* * *
46879650 AATAACGGGAAGCTCACAAAAATCC
1 TATAACGGGAAGCTCACAAAGAGCC
*
46879675 TTTAATCGGGAAGCTCACAAAGAGCC
1 TATAA-CGGGAAGCTCACAAAGAGCC
*
46879701 GTATAACGGGACGCTC
1 -TATAACGGGAAGCTC
46879717 TTAAGAGCTA
Statistics
Matches: 106, Mismatches: 20, Indels: 23
0.71 0.13 0.15
Matches are distributed among these distances:
22 2 0.02
23 17 0.16
24 34 0.32
25 20 0.19
26 29 0.27
27 4 0.04
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (25 bp):
TATAACGGGAAGCTCACAAAGAGCC
Found at i:46882107 original size:15 final size:15
Alignment explanation
Indices: 46882087--46882139 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
46882077 GATTGAATTG
46882087 ATATATATATTATGA
1 ATATATATATTATGA
46882102 ATATAT-TGATTATGA
1 ATATATAT-ATTATGA
*
46882117 ATTGATATATATAATGA
1 A-T-ATATATATTATGA
46882134 ATATAT
1 ATATAT
46882140 TGATTATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 1 0.03
15 18 0.55
16 2 0.06
17 11 0.33
18 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (15 bp):
ATATATATATTATGA
Found at i:46882134 original size:32 final size:34
Alignment explanation
Indices: 46882078--46882169 Score: 125
Period size: 34 Copynumber: 2.6 Consensus size: 34
46882068 GATTGAATGG
46882078 ATTGAATTGATATATATATTATGAATATATTGATT
1 ATTGAATTGATATATATA-TATGAATATATTGATT
46882113 A-TGAATTGATATATATA-ATGAATATATTGATT
1 ATTGAATTGATATATATATATGAATATATTGATT
*
46882145 ATTTGAATTGAAATGAATATATATG
1 A-TTGAATTGATAT--ATATATATG
46882170 TGCAAATATG
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
32 16 0.31
34 26 0.51
35 1 0.02
36 5 0.10
37 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (34 bp):
ATTGAATTGATATATATATATGAATATATTGATT
Found at i:46884720 original size:25 final size:26
Alignment explanation
Indices: 46884649--46884720 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
46884639 AATTTTCTTG
* * *
46884649 AAATTTTAGCGGGGGTAAAATCATCA
1 AAATTTTACCGAGAGTAAAATCATCA
* *
46884675 AAATTTTACCGAGAGTAAAATCGTGA
1 AAATTTTACCGAGAGTAAAATCATCA
*
46884701 AAATTTTA-CTAGAGTAAAAT
1 AAATTTTACCGAGAGTAAAAT
46884721 TGAGATAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 11 0.28
26 29 0.73
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (26 bp):
AAATTTTACCGAGAGTAAAATCATCA
Found at i:46891592 original size:24 final size:26
Alignment explanation
Indices: 46891547--46891594 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
46891537 ATAAGAAAAC
* *
46891547 ATATCTATTCTTTTATACAATAAAGG
1 ATATCTAATCTTTTATAAAATAAAGG
46891573 ATATCTAAT-TTTTA-AAAATAAA
1 ATATCTAATCTTTTATAAAATAAA
46891595 TTCAATATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 5 0.25
26 8 0.40
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (26 bp):
ATATCTAATCTTTTATAAAATAAAGG
Found at i:46893428 original size:22 final size:22
Alignment explanation
Indices: 46893401--46893499 Score: 126
Period size: 22 Copynumber: 4.5 Consensus size: 22
46893391 TCTTATTAAT
* *
46893401 CTCTCATGTTTAACGAACTAAA
1 CTCTCATGTTTAACGTACTAAG
* **
46893423 CCCTCATGGCTAACGTACTAAG
1 CTCTCATGTTTAACGTACTAAG
**
46893445 CTCTCATGGCTAACGTACTAAG
1 CTCTCATGTTTAACGTACTAAG
*
46893467 CTCTCATGTTTCACGTACTAAG
1 CTCTCATGTTTAACGTACTAAG
46893489 CTCTCATGTTT
1 CTCTCATGTTT
46893500 GAACAATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 68 1.00
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (22 bp):
CTCTCATGTTTAACGTACTAAG
Done.