Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 103 of 433
Found at i:31629390 original size:46 final size:45
Alignment explanation
Indices: 31629223--31629393 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
31629213 CCCGCCCCTA
* * * *
31629223 AGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
* *
31629268 AAGTGAACT-GAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTCAC
1 -AGTGAACTCG-GACTCAACTCAACGAGTTCGGA---C-A-TTCGCATC-CAT
31629319 A---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
*
31629361 AGGTGAACTCGGACTCAACTCAACTAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
31629394 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 9, Indels: 26
0.75 0.07 0.19
Matches are distributed among these distances:
42 5 0.05
43 5 0.05
44 1 0.01
46 55 0.53
47 26 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:31629846 original size:30 final size:30
Alignment explanation
Indices: 31629812--31629871 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
31629802 ATTTAATACG
31629812 AACTTTGGAAAAATTACAATTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
* * * * *
31629842 AACTTTTGCATAATTACACTTTTGCTCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
31629872 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACAATTTTGCCCCTA
Found at i:31631431 original size:31 final size:31
Alignment explanation
Indices: 31631387--31631449 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
31631377 GTGAGAATGA
*
31631387 TGTTTGAGAATTATTTGTGAAATATTTTGAT
1 TGTTTGAGAATTATTTGTGAAATATTTCGAT
* * *
31631418 TGTTTGGGCATTATTTGTGAAATGTTTCGAT
1 TGTTTGAGAATTATTTGTGAAATATTTCGAT
31631449 T
1 T
31631450 TGTCTGGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (31 bp):
TGTTTGAGAATTATTTGTGAAATATTTCGAT
Found at i:31640820 original size:23 final size:24
Alignment explanation
Indices: 31640768--31640820 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 24
31640758 TTTAGCTATG
31640768 TGATATGGCTTAATTATGGTTAAA
1 TGATATGGCTTAATTATGGTTAAA
* * * *
31640792 CG-TATGGCTTGATTTTGG-TACA
1 TGATATGGCTTAATTATGGTTAAA
31640814 TGATATG
1 TGATATG
31640821 TTATGCAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
22 4 0.17
23 18 0.78
24 1 0.04
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.42
Consensus pattern (24 bp):
TGATATGGCTTAATTATGGTTAAA
Found at i:31645028 original size:24 final size:24
Alignment explanation
Indices: 31644996--31645116 Score: 233
Period size: 24 Copynumber: 5.0 Consensus size: 24
31644986 GGGTAGAAAG
31644996 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
31645020 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
31645044 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
31645068 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
31645092 TTTACTATGGCACTATGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
31645116 T
1 T
31645117 CATAATAAGC
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 96 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (24 bp):
TTTACTATGGCACTGTGTGTGCGA
Found at i:31645137 original size:72 final size:72
Alignment explanation
Indices: 31644996--31645137 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
31644986 GGGTAGAAAG
* * * * * *
31644996 TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTGTG
1 TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTATA
31645061 TGTGCGA
66 TGTGCGA
31645068 TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATCATAATA-AGCACTAT
1 TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGAT-ATAATATAGCACTAT
31645132 ATGTGC
65 ATGTGC
31645138 CACATTCGGT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 59 0.94
73 4 0.06
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (72 bp):
TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTATA
TGTGCGA
Found at i:31647434 original size:27 final size:25
Alignment explanation
Indices: 31647376--31647434 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 25
31647366 TCAAACTCTT
*
31647376 TTAAAAGAAAACTAAAGAAAAATTC
1 TTAAAAGAAAACTAAAGAAAAATTA
* *
31647401 TTGAAAAGAAAAAGTTAAAGAAAATTTA
1 TT-AAAAG-AAAA-CTAAAGAAAAATTA
31647429 TTAAAA
1 TTAAAA
31647435 TGAATTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.07
26 5 0.18
27 8 0.29
28 13 0.46
ACGTcount: A:0.63, C:0.03, G:0.10, T:0.24
Consensus pattern (25 bp):
TTAAAAGAAAACTAAAGAAAAATTA
Found at i:31649895 original size:27 final size:26
Alignment explanation
Indices: 31649847--31649906 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
31649837 GCGAAGTTGC
*
31649847 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
31649874 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
31649900 CAGATAT
1 CAGATAT
31649907 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:31649919 original size:33 final size:32
Alignment explanation
Indices: 31649868--31649931 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
31649858 ACAAAGTCAC
* *
31649868 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
31649900 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
31649932 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:31650675 original size:27 final size:27
Alignment explanation
Indices: 31650644--31650842 Score: 247
Period size: 27 Copynumber: 7.4 Consensus size: 27
31650634 GGGGAAAAAT
* * *
31650644 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31650671 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31650698 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31650725 CGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
31650752 GGTAATTCTACCCTGTAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
31650779 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31650806 GGTAATTCTACCTTACAGGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTC
31650832 GGTAATTCTAC
1 GGTAATTCTAC
31650843 AACTTATCCA
Statistics
Matches: 149, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 11 0.07
27 138 0.93
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31656098 original size:27 final size:26
Alignment explanation
Indices: 31656050--31656109 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
31656040 GCGAAGTTGC
*
31656050 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
31656077 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
31656103 CAGATAT
1 CAGATAT
31656110 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:31656170 original size:71 final size:67
Alignment explanation
Indices: 31656077--31656218 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
31656067 TCACCAGATA
* * *
31656077 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
31656142 GGCTGC
62 GGCTGC
* * * *
31656148 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACTAGATTGCAGCGAGGTT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
31656213 GC
66 GC
31656215 CAGA
1 CAGA
31656219 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:31656600 original size:16 final size:16
Alignment explanation
Indices: 31656579--31656610 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31656569 AACATAGTCA
31656579 CATACTTTGCCATATT
1 CATACTTTGCCATATT
31656595 CATACTTTGCCATATT
1 CATACTTTGCCATATT
31656611 TAACATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (16 bp):
CATACTTTGCCATATT
Found at i:31661818 original size:16 final size:16
Alignment explanation
Indices: 31661792--31661891 Score: 121
Period size: 16 Copynumber: 6.2 Consensus size: 16
31661782 TGGTTCACTA
* *
31661792 TAATGGAATAGGGTTG
1 TAATTGAATAGAGTTG
* *
31661808 TAATTGTATAGAGGTG
1 TAATTGAATAGAGTTG
*
31661824 TAATGGAATAGAGTTG
1 TAATTGAATAGAGTTG
*
31661840 TAATTGAATAGAGGTG
1 TAATTGAATAGAGTTG
31661856 TAA-TGTAATAGAGTTG
1 TAATTG-AATAGAGTTG
*
31661872 TAATGGAATAGAGTTG
1 TAATTGAATAGAGTTG
31661888 TAAT
1 TAAT
31661892 CAGTAATTCT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
15 2 0.03
16 68 0.96
17 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (16 bp):
TAATTGAATAGAGTTG
Found at i:31661833 original size:32 final size:32
Alignment explanation
Indices: 31661792--31661891 Score: 155
Period size: 32 Copynumber: 3.1 Consensus size: 32
31661782 TGGTTCACTA
* *
31661792 TAATGGAATAGGGTTGTAATTGTATAGAGGTG
1 TAATGGAATAGAGTTGTAATTGAATAGAGGTG
31661824 TAATGGAATAGAGTTGTAATTGAATAGAGGTG
1 TAATGGAATAGAGTTGTAATTGAATAGAGGTG
* * *
31661856 TAATGTAATAGAGTTGTAATGGAATAGAGTTG
1 TAATGGAATAGAGTTGTAATTGAATAGAGGTG
31661888 TAAT
1 TAAT
31661892 CAGTAATTCT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (32 bp):
TAATGGAATAGAGTTGTAATTGAATAGAGGTG
Found at i:31661868 original size:48 final size:48
Alignment explanation
Indices: 31661792--31661891 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 48
31661782 TGGTTCACTA
31661792 TAATGGAATAGGGTTGTAATTGTATAGAGGTGTAATGGAATAGAGTTG
1 TAATGGAATAGGGTTGTAATTGTATAGAGGTGTAATGGAATAGAGTTG
* *
31661840 TAATTGAATAGAGG-TGTAA-TGTAATAGAGTTGTAATGGAATAGAGTTG
1 TAATGGAATAG-GGTTGTAATTGT-ATAGAGGTGTAATGGAATAGAGTTG
31661888 TAAT
1 TAAT
31661892 CAGTAATTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
47 3 0.06
48 43 0.90
49 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (48 bp):
TAATGGAATAGGGTTGTAATTGTATAGAGGTGTAATGGAATAGAGTTG
Found at i:31664969 original size:42 final size:41
Alignment explanation
Indices: 31664854--31664994 Score: 133
Period size: 44 Copynumber: 3.3 Consensus size: 41
31664844 ATATGTGTTC
* *
31664854 TCGTGTAAGACCATGTCTGGGACTTTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCCTGTCTGGGAC-GTGGCATCGTA-TT-TGATT
* *
31664897 TACGTGCAAGACCAC-GTCTGGGACGTTGGCATCGTATTTTATT
1 T-CGTGTAAGACC-CTGTCTGGGACG-TGGCATCGTATTTGATT
*
31664940 TCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCCTGTCTGGGAC-GTGGCATCG-TATTTGATT
* *
31664983 ACATGTAAGACC
1 TCGTGTAAGACC
31664995 ACATCTAGGA
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 26 0.32
43 25 0.30
44 29 0.35
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (41 bp):
TCGTGTAAGACCCTGTCTGGGACGTGGCATCGTATTTGATT
Found at i:31665012 original size:43 final size:43
Alignment explanation
Indices: 31664855--31665013 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
31664845 TATGTGTTCT
* * *
31664855 CGTGTAAGACCATGTCTGGGACTTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * *
31664899 CGTGCAAGACCACGTCTGGGACGTTGGCATCG-TATTTTATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
*
31664941 CGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
* * *
31664984 CATGTAAGACCACATCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
31665014 TGTACATGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 34 0.36
44 30 0.32
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:31670467 original size:48 final size:48
Alignment explanation
Indices: 31670366--31670633 Score: 194
Period size: 49 Copynumber: 5.6 Consensus size: 48
31670356 ATTGTGCGCT
* * *
31670366 AGTGTAAGA-CATGTCTCGGACAT-GCATCTG--C-TATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTAT-AGAGGTGTC
* ** *
31670410 AGTGCAAGACCATGTCTACGACATGGCATCGGCACATATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTATAGAGGTGTC
* * * * * * *
31670458 AGTGTAAGACCATGTTTGGGACATGGCATTGTCACGGTATGTGAGATCT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TTAT-AGAGGTGTC
* *** *
31670507 AGTGTAAGACCATGTCTGGGACATGCCATCGGC-CTTGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTT-ATAGAGGT-GTC
* * * *
31670556 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTAATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTT-ATAGAGGTGTC
* *
31670603 AGTGTAAGACCATGTCTAGGACGTGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
31670634 ATATTAAACC
Statistics
Matches: 178, Mismatches: 34, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
44 8 0.04
45 12 0.07
46 6 0.03
47 35 0.20
48 48 0.27
49 64 0.36
50 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTATAGAGGTGTC
Found at i:31670923 original size:34 final size:34
Alignment explanation
Indices: 31670885--31670954 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
31670875 GCTATTGTTA
31670885 TATTTATTGCATGCAACTTACTGAGGTTTATGCT
1 TATTTATTGCATGCAACTTACTGAGGTTTATGCT
31670919 TATTTATTGCATGCAACTTACTGAGGTTTATGCT
1 TATTTATTGCATGCAACTTACTGAGGTTTATGCT
31670953 TA
1 TA
31670955 CCCTATTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.44
Consensus pattern (34 bp):
TATTTATTGCATGCAACTTACTGAGGTTTATGCT
Found at i:31671694 original size:28 final size:28
Alignment explanation
Indices: 31671654--31671765 Score: 179
Period size: 28 Copynumber: 4.0 Consensus size: 28
31671644 ACACGGGCTA
*
31671654 GGACACGGGCGTGTCATGGCCGTATGAG
1 GGACACGGGCGTGTCATGGCCGTGTGAG
*
31671682 GGACACGGGCGTGTCATGGCCGTGTAAG
1 GGACACGGGCGTGTCATGGCCGTGTGAG
31671710 GGACACGGGCGTGTCATGGCCGTGTGAG
1 GGACACGGGCGTGTCATGGCCGTGTGAG
**
31671738 GGACACGGGCGTGTGTTAGGCCGTGTGA
1 GGACACGGGCGTGTCAT-GGCCGTGTGA
31671766 AAACCCTTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 68 0.87
29 10 0.13
ACGTcount: A:0.16, C:0.21, G:0.45, T:0.19
Consensus pattern (28 bp):
GGACACGGGCGTGTCATGGCCGTGTGAG
Found at i:31675882 original size:48 final size:48
Alignment explanation
Indices: 31675778--31676000 Score: 194
Period size: 48 Copynumber: 4.7 Consensus size: 48
31675768 ATTGTGCGCT
*
31675778 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG--C-TATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGAAGTGTC
* * *
31675822 AGTGTAATACCATGTTTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAAGTGTC
* * * *
31675870 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATGGATATGTAAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-G-AAGTGTC
* * * * *
31675919 TAGTGTAAGACCATGTCTGGGACATGGCAT-TG-ACTTA-ATGCATGAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-G-AAGTGTC
* *
31675967 AGTGTAAGACCATGTCTAGGACGTGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
31676001 TTACACCTTA
Statistics
Matches: 150, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
44 8 0.05
45 13 0.09
46 7 0.05
47 34 0.23
48 50 0.33
49 7 0.05
50 31 0.21
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAAGTGTC
Found at i:31676868 original size:30 final size:30
Alignment explanation
Indices: 31676828--31676893 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
31676818 CACGGGCAGA
*
31676828 GACACAGCCGTGTGTCTCAGCCATGTGGAG
1 GACACGGCCGTGTGTCTCAGCCATGTGGAG
* *
31676858 GACACGGCCGTGTGTCTTAGCCGTGTGGAG
1 GACACGGCCGTGTGTCTCAGCCATGTGGAG
31676888 GACACG
1 GACACG
31676894 ACCTCTGGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.18, C:0.26, G:0.36, T:0.20
Consensus pattern (30 bp):
GACACGGCCGTGTGTCTCAGCCATGTGGAG
Found at i:31680913 original size:43 final size:43
Alignment explanation
Indices: 31680789--31680940 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
31680779 ATATGTGTTC
* * * *
31680789 TCGTGTAAGACCATGTTTGGGACATTGTCATCGACT-TATGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGATT
* *
31680832 TACGTGTAAGACCACATCTGGGACATTAGCATCG-TATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATT
* * *
31680875 TTGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATT
* *
31680918 ACATGTAAGACCACGTCTGGGAC
1 TCGTGTAAGACCACGTCTGGGAC
31680941 GTTTGCATTG
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 35 0.39
44 28 0.31
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATT
Found at i:31680949 original size:43 final size:42
Alignment explanation
Indices: 31680831--31680953 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
31680821 GACTTATGAT
* * *
31680831 TTACGTGTAAGACCACATCTGGGACATTAGCATCGTATTTGA
1 TTACGTGTAAGACCACGTCTGGGACGTTAGCATTGTATTTGA
** *
31680873 TTTTGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGA
1 TTACGTGTAAGACCAC-GTCTGGGAC-GTTAGCATTG-TATTTGA
* *
31680916 TTACATGTAAGACCACGTCTGGGACGTTTGCATTGTAT
1 TTACGTGTAAGACCACGTCTGGGACGTTAGCATTGTAT
31680954 GAGTTTTTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.45
43 34 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTGGGACGTTAGCATTGTATTTGA
Found at i:31683393 original size:3 final size:3
Alignment explanation
Indices: 31683385--31683410 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31683375 ATATTTATTT
31683385 TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TC
31683411 TCCATTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:31696159 original size:55 final size:55
Alignment explanation
Indices: 31696053--31696160 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 55
31696043 GACAGTTTTG
* * ** * *
31696053 ACCACGGGTGGTGGGCACGAGAGTGTCGTACGCTCGTGTTAATTGGACAGGATCA
1 ACCACAGGTGGTGGGCACAAGAGTGTCACACGCCCGTATTAATTGGACAGGATCA
* *
31696108 ACCACAGGTGGTGGGCACAAGCGTGTCACACGCCCGTATTGATTTGG-CAGGAT
1 ACCACAGGTGGTGGGCACAAGAGTGTCACACGCCCGTATT-AATTGGACAGGAT
31696161 TGCCCACGGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 39 0.89
56 5 0.11
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.21
Consensus pattern (55 bp):
ACCACAGGTGGTGGGCACAAGAGTGTCACACGCCCGTATTAATTGGACAGGATCA
Found at i:31698888 original size:37 final size:37
Alignment explanation
Indices: 31698839--31698943 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
31698829 TTGCAGCAAT
* *
31698839 AGTAGG-TCTAACTATACTCGATTCAGTTCCTGTTCA
1 AGTAGGTTCTAACTATACTCGATTCAGCTCCTATTCA
31698875 AGTAGGTTCTAACTATACTCGATTCAGCTCCTATTCA
1 AGTAGGTTCTAACTATACTCGATTCAGCTCCTATTCA
*
31698912 AGTAGGTTCTAACTATACTCGATTCATCTCCT
1 AGTAGGTTCTAACTATACTCGATTCAGCTCCT
31698944 GCAAAACTAG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
36 6 0.09
37 59 0.91
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (37 bp):
AGTAGGTTCTAACTATACTCGATTCAGCTCCTATTCA
Found at i:31701618 original size:40 final size:40
Alignment explanation
Indices: 31701563--31701782 Score: 361
Period size: 40 Copynumber: 5.5 Consensus size: 40
31701553 TATTCGGATG
31701563 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT
*
31701603 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT
*
31701643 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT
31701683 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT
* * * *
31701723 ATCCGAGCTAAGTCTCGAAGGCATTTGTGCGAGTTGCTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT
* *
31701763 ATCC-GGCCAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
31701783 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 12 0.07
40 158 0.93
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAT
Found at i:31704348 original size:20 final size:20
Alignment explanation
Indices: 31704323--31704374 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
31704313 ATAAGGTCAT
31704323 ACGCCCGTGTGGCTTGGGAC
1 ACGCCCGTGTGGCTTGGGAC
31704343 ACGCCCGTGTGGCTTGGGAC
1 ACGCCCGTGTGGCTTGGGAC
*
31704363 AAGCCCGTGTGG
1 ACGCCCGTGTGG
31704375 GTAGGCCGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.29, G:0.40, T:0.19
Consensus pattern (20 bp):
ACGCCCGTGTGGCTTGGGAC
Found at i:31708086 original size:24 final size:25
Alignment explanation
Indices: 31708030--31708134 Score: 162
Period size: 25 Copynumber: 4.2 Consensus size: 25
31708020 TGATACAAAT
31708030 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
31708056 TGATAAT-GGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
31708080 TGATAATGGGTTAGGTAAAT-TTCA
1 TGATAATAGGTTAGGTAAATGTTCA
31708104 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
31708129 TGATAA
1 TGATAA
31708135 GAATTTCATG
Statistics
Matches: 76, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
23 12 0.16
24 20 0.26
25 37 0.49
26 7 0.09
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:31708120 original size:48 final size:51
Alignment explanation
Indices: 31708030--31708134 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 51
31708020 TGATACAAAT
31708030 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
*
31708080 TGATAATGGGTTAGGTAAAT-TT-CATGATAATGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
31708129 TGATAA
1 TGATAA
31708135 GAATTTCATG
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
48 22 0.42
49 12 0.23
50 19 0.36
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
Found at i:31709605 original size:27 final size:25
Alignment explanation
Indices: 31709564--31709635 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
31709554 AAAAGTAGCT
* * *
31709564 AAATTACTATAATACCCTATGTATGGA
1 AAATTACTGTTATACCCTA-G-ATGCA
*
31709591 AAATTACTGTTATACCCTAGGTGCA
1 AAATTACTGTTATACCCTAGATGCA
*
31709616 AAATTACCGTTATACCCTAG
1 AAATTACTGTTATACCCTAG
31709636 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 22 0.55
26 1 0.03
27 17 0.43
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (25 bp):
AAATTACTGTTATACCCTAGATGCA
Found at i:31709780 original size:27 final size:27
Alignment explanation
Indices: 31709739--31709877 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
31709729 GAGGAAGCGT
*
31709739 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
31709766 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
31709793 TCTGGTGGCT-TGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
31709819 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
31709847 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
31709873 TCTGG
1 TCTGG
31709878 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
26 29 0.29
27 56 0.56
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:31709823 original size:53 final size:55
Alignment explanation
Indices: 31709739--31709877 Score: 194
Period size: 53 Copynumber: 2.6 Consensus size: 55
31709729 GAGGAAGCGT
* *
31709739 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
31709793 TCTGGTGGCT-TGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
31709847 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTATGCCACATATATCTGTTCTGG
31709878 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
53 38 0.49
54 32 0.42
55 7 0.09
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:31709898 original size:80 final size:80
Alignment explanation
Indices: 31709737--31709886 Score: 176
Period size: 80 Copynumber: 1.9 Consensus size: 80
31709727 TGGAGGAAGC
* * *
31709737 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGC
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCTGATCTGGAGCC
* *
31709802 TTGCCACATATATCT
66 ATGCCACAAATATCT
* * * * * *
31709817 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCAC-ATTATCTGTTCTGGCAG
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACAAATATCTGATCTGG-AG
31709881 CCATGC
64 CCATGC
31709887 TGCAAATTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
80 37 0.64
81 21 0.36
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (80 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCTGATCTGGAGCC
ATGCCACAAATATCT
Found at i:31713842 original size:26 final size:26
Alignment explanation
Indices: 31713805--31713888 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
31713795 TGATACAAAT
* *
31713805 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
31713831 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
31713857 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
31713883 TGATAA
1 TGATAA
31713889 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:31715365 original size:28 final size:26
Alignment explanation
Indices: 31715323--31715397 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
31715313 AAAAGTAGCT
*
31715323 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-ATGGA
* *
31715351 AAATTACTATTATACCCCTAGGTGTA
1 AAATTACTATTATACCCCTAGATGGA
**
31715377 AAATTACCGTTATACCCCTAG
1 AAATTACTATTATACCCCTAG
31715398 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 22 0.52
27 1 0.02
28 19 0.45
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGATGGA
Found at i:31715542 original size:27 final size:27
Alignment explanation
Indices: 31715501--31715627 Score: 164
Period size: 27 Copynumber: 4.7 Consensus size: 27
31715491 GAGGAAGCGT
*
31715501 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
31715528 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
31715555 TCTGGTGGCTTTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
31715582 TCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* *
31715610 TCTGGTGACTCTGTCACA
1 TCTGGTGGCTCTGCCACA
31715628 TTATCTGTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 71 0.84
28 14 0.16
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:31719363 original size:16 final size:16
Alignment explanation
Indices: 31719339--31719438 Score: 146
Period size: 16 Copynumber: 6.2 Consensus size: 16
31719329 TGGTTCACTA
*
31719339 TAATGGAATAGGGTTG
1 TAATGGAATAGAGTTG
* *
31719355 TAATTGAATAGAGGTG
1 TAATGGAATAGAGTTG
31719371 TAATGGAATAGAGTTG
1 TAATGGAATAGAGTTG
* *
31719387 TAATTGAATAGAGGTG
1 TAATGGAATAGAGTTG
*
31719403 TAATGTAATAGAGTTG
1 TAATGGAATAGAGTTG
31719419 TAATGGAATAGAGTTG
1 TAATGGAATAGAGTTG
31719435 TAAT
1 TAAT
31719439 CAGTAATTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 73 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (16 bp):
TAATGGAATAGAGTTG
Found at i:31719380 original size:32 final size:32
Alignment explanation
Indices: 31719339--31719438 Score: 164
Period size: 32 Copynumber: 3.1 Consensus size: 32
31719329 TGGTTCACTA
*
31719339 TAATGGAATAGGGTTGTAATTGAATAGAGGTG
1 TAATGGAATAGAGTTGTAATTGAATAGAGGTG
31719371 TAATGGAATAGAGTTGTAATTGAATAGAGGTG
1 TAATGGAATAGAGTTGTAATTGAATAGAGGTG
* * *
31719403 TAATGTAATAGAGTTGTAATGGAATAGAGTTG
1 TAATGGAATAGAGTTGTAATTGAATAGAGGTG
31719435 TAAT
1 TAAT
31719439 CAGTAATTCT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (32 bp):
TAATGGAATAGAGTTGTAATTGAATAGAGGTG
Found at i:31719509 original size:44 final size:46
Alignment explanation
Indices: 31719420--31719512 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
31719410 ATAGAGTTGT
* * *
31719420 AATGGAATAGAGTTGTAATCAGTAATTCTATTGTTTGGTTTAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCTATTGTTTCGTTGAATGG
31719466 AATGGAATAGAGCTGTAAT-AGT-ATTCT-TGTGTTTCGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCTAT-TGTTTCGTTGAATGG
31719510 AAT
1 AAT
31719513 AGATGTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 3 0.07
46 18 0.42
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCTATTGTTTCGTTGAATGG
Found at i:31719709 original size:60 final size:56
Alignment explanation
Indices: 31719602--31719742 Score: 158
Period size: 60 Copynumber: 2.4 Consensus size: 56
31719592 TTATTGTTAT
* * * *
31719602 TTTATTAAATTTTAATAAAATTATTTTAAATATATTTTAATAAAAATAAAAATAAATAA
1 TTTAATAAATTTTAATATAATTATTTTAAATACAATTTAATAAAAAT---AATAAATAA
* *
31719661 TTTAATCAAATTTTAATATAATTCTTATTAAATACAATTTAAT-AAAATAATATATAA
1 TTTAAT-AAATTTTAATATAATTATT-TTAAATACAATTTAATAAAAATAATAAATAA
31719718 TTTAATAACATTCTTAATATAATTA
1 TTTAATAA-ATT-TTAATATAATTA
31719743 CTGTATGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
56 2 0.03
57 17 0.24
58 11 0.15
59 5 0.07
60 22 0.31
61 14 0.20
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (56 bp):
TTTAATAAATTTTAATATAATTATTTTAAATACAATTTAATAAAAATAATAAATAA
Found at i:31722437 original size:44 final size:41
Alignment explanation
Indices: 31722381--31722540 Score: 149
Period size: 43 Copynumber: 3.8 Consensus size: 41
31722371 ATATGTGTTC
* *
31722381 TCGTGTAAGACCATGTCTAGGACTTTGGCATCGACTTATGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGATT
* * *
31722424 TACGTGCAAGACCACGTCTGGGACGTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATT
* *
31722467 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCG--ATTTGATT
* * ** * *
31722510 ACATGTAAGACCACATTTGGGACGTTGGCAT
1 TCGTGTAAGACCATGTCTGGGACATTGGCAT
31722541 TGTACATGTT
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.28
43 39 0.40
44 30 0.31
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGATT
Found at i:31727991 original size:48 final size:50
Alignment explanation
Indices: 31727921--31728108 Score: 172
Period size: 49 Copynumber: 3.8 Consensus size: 50
31727911 ATACATCCGC
* * * **
31727921 TATGAGATGTGTCAGTGCAAGACCATGTCTACGACATGGCATCGGCAC-G
1 TATGAGAGGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGG
* *
31727970 TAT-AGAGGTGTCAGTGTAAGACCATGTTTGGGACATAGCATTGGCACGG
1 TATGAGAGGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGG
* * * * * *
31728019 TATGTGAGATCT-AGTGTAAGACCATGTTTGGGACATGCCATCGGCCTCGAT
1 TATGAGAGGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CACG-G
* * *
31728070 TTTGATA-GT-T-AGTGTAAGACCATGTCTGGGACATGGCAT
1 TATGAGAGGTGTCAGTGTAAGACCATGTTTGGGACATGGCAT
31728109 TGACTTAATG
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
48 37 0.32
49 64 0.56
50 9 0.08
51 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (50 bp):
TATGAGAGGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGG
Found at i:31729176 original size:28 final size:28
Alignment explanation
Indices: 31729144--31729213 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
31729134 ACAGGGGCTA
31729144 GGACACAGGTGTGTCATGGCCGTATGAG
1 GGACACAGGTGTGTCATGGCCGTATGAG
* ** *
31729172 GGACACGGGCATGTCATGGCCGTGTGAG
1 GGACACAGGTGTGTCATGGCCGTATGAG
31729200 GGACACAGGTGTGT
1 GGACACAGGTGTGT
31729214 GTTAGTTCGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.20, C:0.19, G:0.41, T:0.20
Consensus pattern (28 bp):
GGACACAGGTGTGTCATGGCCGTATGAG
Found at i:31744858 original size:58 final size:58
Alignment explanation
Indices: 31744769--31744890 Score: 219
Period size: 58 Copynumber: 2.1 Consensus size: 58
31744759 AAAATTTTAT
**
31744769 AAAGA-GAGAATGATATTTTTATTTTCTCTTATCTTCTTCCCACCGTTCATACCAACA
1 AAAGAGGAGAATGATATTTTTATTTTCTCTTATCTTCTTCCCACAATTCATACCAACA
31744826 AAAGAGGAGAATGATATTTTTATTTTCTCTTATCTTCTTCCCACAATTCATACCAACA
1 AAAGAGGAGAATGATATTTTTATTTTCTCTTATCTTCTTCCCACAATTCATACCAACA
31744884 AAAGAGG
1 AAAGAGG
31744891 TGTTTTTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 5 0.08
58 57 0.92
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (58 bp):
AAAGAGGAGAATGATATTTTTATTTTCTCTTATCTTCTTCCCACAATTCATACCAACA
Found at i:31745780 original size:48 final size:48
Alignment explanation
Indices: 31745676--31745846 Score: 183
Period size: 48 Copynumber: 3.6 Consensus size: 48
31745666 ATTGTGCGCT
*
31745676 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG--C-TATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGAAGTGTC
* * *
31745720 AGTGTAATACCATGTTTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAAGTGTC
* * * * *
31745768 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATGGATATGTAAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-G-AAGTGTC
31745817 TAGTGTAAGACCATGTCTGGGACATGGCAT
1 -AGTGTAAGACCATGTCTGGGACATGGCAT
31745847 TGACTTAATG
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
44 8 0.07
45 13 0.12
46 7 0.06
48 45 0.41
49 5 0.05
50 31 0.28
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAAGTGTC
Found at i:31746762 original size:30 final size:30
Alignment explanation
Indices: 31746726--31746793 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
31746716 CACGGGCAGA
*
31746726 GACACGGCCGTGTATCTCAGCCTTGTGGAG
1 GACACGGCCGTGTATCTCAGCCGTGTGGAG
* *
31746756 GACACGGTCGTGTGTCTCAGCCGTGTGGAG
1 GACACGGCCGTGTATCTCAGCCGTGTGGAG
31746786 GACACGGC
1 GACACGGC
31746794 TCTGGCCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (30 bp):
GACACGGCCGTGTATCTCAGCCGTGTGGAG
Found at i:31750831 original size:43 final size:42
Alignment explanation
Indices: 31750737--31750846 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
31750727 GACTTATGAT
* * * *
31750737 TTACGTGTAAGACTACGTCTGGGACATTAGCATCGTATTTGA
1 TTACATGTAAAACCACGTCTGGGACAATAGCATCGTATTTGA
*** * *
31750779 TTTTGTGTAAAACC-CTGTCTGGGACAATGGCATTGATATTTGA
1 TTACATGTAAAACCAC-GTCTGGGACAATAGCATCG-TATTTGA
*
31750822 TTACATGTAAGACCACGTCTGGGAC
1 TTACATGTAAAACCACGTCTGGGAC
31750847 GTTTGCATTG
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.02
42 26 0.48
43 26 0.48
44 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACATGTAAAACCACGTCTGGGACAATAGCATCGTATTTGA
Found at i:31750856 original size:43 final size:43
Alignment explanation
Indices: 31750696--31750846 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
31750686 TATGTGTTCT
* * * *
31750696 CGTGTAAGACCATGTTTGGGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA-TTA
* * *
31750740 CGTGTAAGACTACGTCTGGGACATTAGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
* * * *
31750782 TGTGTAAAACC-CTGTCTGGGACAATGGCATTGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTA
*
31750825 CATGTAAGACCACGTCTGGGAC
1 CGTGTAAGACCACGTCTGGGAC
31750847 GTTTGCATTG
Statistics
Matches: 86, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.31
43 30 0.35
44 28 0.33
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:31761866 original size:31 final size:31
Alignment explanation
Indices: 31761828--31761894 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
31761818 TGCATGATTG
31761828 ATTAAGACTGTATTTTACATGATATACATTT
1 ATTAAGACTGTATTTTACATGATATACATTT
31761859 ATTAAGACTGTATTTTACATGATATACATTT
1 ATTAAGACTGTATTTTACATGATATACATTT
31761890 ATTAA
1 ATTAA
31761895 TATCTGTTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (31 bp):
ATTAAGACTGTATTTTACATGATATACATTT
Found at i:31775558 original size:22 final size:22
Alignment explanation
Indices: 31775523--31775568 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
31775513 TATGGCCTTT
* * *
31775523 AGCCATTCTGTCTACAGCGTTG
1 AGCCATCCTATCTACAGCATTG
*
31775545 AGCCATCCTATCTACGGCATTG
1 AGCCATCCTATCTACAGCATTG
31775567 AG
1 AG
31775569 TCGTTCTGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (22 bp):
AGCCATCCTATCTACAGCATTG
Found at i:31777248 original size:20 final size:20
Alignment explanation
Indices: 31777209--31777248 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31777199 TATGAATGTA
* *
31777209 AAATTTTTCTAAGTGTTCAG
1 AAATTTTTATAAGTGATCAG
*
31777229 AAATTTTTATATGTGATCAG
1 AAATTTTTATAAGTGATCAG
31777249 TTTAGTCTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (20 bp):
AAATTTTTATAAGTGATCAG
Found at i:31778129 original size:29 final size:29
Alignment explanation
Indices: 31778087--31778144 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
31778077 TACTCTTATC
31778087 TCCATTGGATTTACCTTTAATTCCATCAT
1 TCCATTGGATTTACCTTTAATTCCATCAT
31778116 TCCATTGGATTTACCTTTAATTCCATCAT
1 TCCATTGGATTTACCTTTAATTCCATCAT
31778145 ACTTCTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (29 bp):
TCCATTGGATTTACCTTTAATTCCATCAT
Found at i:31782718 original size:18 final size:18
Alignment explanation
Indices: 31782670--31782706 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31782660 GGCCAACCGG
31782670 GCCAGAATGGGCTAAGTT
1 GCCAGAATGGGCTAAGTT
31782688 GCCAGAATGGGCTAAGTT
1 GCCAGAATGGGCTAAGTT
31782706 G
1 G
31782707 GCCCGATGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.35, T:0.22
Consensus pattern (18 bp):
GCCAGAATGGGCTAAGTT
Found at i:31782828 original size:29 final size:29
Alignment explanation
Indices: 31782786--31782955 Score: 261
Period size: 29 Copynumber: 5.9 Consensus size: 29
31782776 AAAGAATATA
31782786 TATGAATGTGATTTGGGCCTAATGGGTCG
1 TATGAATGTGATTTGGGCCTAATGGGTCG
31782815 TATGAATGTGATTTGGGCCTAATGGGTCG
1 TATGAATGTGATTTGGGCCTAATGGGTCG
31782844 TATGAATGTGATTTGGGCCTAATGGGTCG
1 TATGAATGTGATTTGGGCCTAATGGGTCG
* *
31782873 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGTCG
* * * *
31782902 TACGAATATGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGTCG
* *
31782931 TATGAATGAGA-TTGGGCCTAGTGGG
1 TATGAATGTGATTTGGGCCTAATGGG
31782956 CCATATGCAT
Statistics
Matches: 133, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
28 13 0.10
29 120 0.90
ACGTcount: A:0.23, C:0.12, G:0.34, T:0.32
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGTCG
Found at i:31787857 original size:45 final size:45
Alignment explanation
Indices: 31787746--31787899 Score: 159
Period size: 45 Copynumber: 3.4 Consensus size: 45
31787736 CGATGTTGAT
* * * * *
31787746 GTCCTAGACATAGTCTTGCACATAACCACATAGACCGATGCCAAT
1 GTCCCAGACATAGTCTTACACGTAACCACATAGATCGATGCCAAC
* *
31787791 GTCCCAGACGTAGCCTTACACGTAACCACATAGATCGATGCCAAC
1 GTCCCAGACATAGTCTTACACGTAACCACATAGATCGATGCCAAC
* * *
31787836 GTCCCAGACATGGTCTTACACGAAAACA-ATTATG-TCGATGCCAAC
1 GTCCCAGACATAGTCTTACACGTAACCACA-TA-GATCGATGCCAAC
* * *
31787881 ATCCCAGACGTGGTCTTAC
1 GTCCCAGACATAGTCTTAC
31787900 TCGGAAACAC
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
44 1 0.01
45 91 0.98
46 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (45 bp):
GTCCCAGACATAGTCTTACACGTAACCACATAGATCGATGCCAAC
Found at i:31790762 original size:43 final size:42
Alignment explanation
Indices: 31790710--31790850 Score: 117
Period size: 42 Copynumber: 3.3 Consensus size: 42
31790700 TCCCGGACGT
*
31790710 GGTCTTACATGTAATTCAG-TATCGATGCCTCTATCCCAGACAG
1 GGTCTTACATGTAA-TCAGATA-CGATGCCTATATCCCAGACAG
* * *
31790753 GGTTTTACATG-AGATCAGATACGATGCCTATGTCCCAGACAT
1 GGTCTTACATGTA-ATCAGATACGATGCCTATATCCCAGACAG
* * * * *
31790795 GGTCTTACACGTAAATCTCAAAT-CGAGGCCTATGTCCCAGACAC
1 GGTCTTACATGT-AA--TCAGATACGATGCCTATATCCCAGACAG
*
31790839 GATCTTACATGT
1 GGTCTTACATGT
31790851 TATCTCAGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
42 32 0.40
43 14 0.17
44 30 0.37
45 5 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAGATACGATGCCTATATCCCAGACAG
Found at i:31797981 original size:9 final size:10
Alignment explanation
Indices: 31797957--31797981 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31797947 CGAAACATAC
31797957 TAAAAATAAT
1 TAAAAATAAT
31797967 TAAAAATAAT
1 TAAAAATAAT
31797977 TAAAA
1 TAAAA
31797982 CGGCCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:31815595 original size:31 final size:32
Alignment explanation
Indices: 31815547--31815608 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
31815537 CAAAAATGTC
*
31815547 ATTGAACTATTCGAAAG-TTTTCATTTAAGTT
1 ATTGAACTATTCAAAAGTTTTTCATTTAAGTT
*
31815578 ATTGAACTATAT-AAAAGTTTTTTATTTAAGT
1 ATTGAACTAT-TCAAAAGTTTTTCATTTAAGT
31815609 CACTGGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.47
Consensus pattern (32 bp):
ATTGAACTATTCAAAAGTTTTTCATTTAAGTT
Found at i:31816771 original size:27 final size:27
Alignment explanation
Indices: 31816741--31816945 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
31816731 AGTACTCCCA
31816741 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* *
31816768 ATTTACAGAATTATCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
** * * *
31816795 ATTTTTAAAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
*
31816821 AGTTTATAGAATTACCATTTTACCCTCG
1 A-TTTACAGAATTACCATTTTACCCTCG
31816849 ATTTACAGAATTACCATTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
* *
31816875 AGTTTACAGAATTACTATTTTACCCTCA
1 A-TTTACAGAATTACCATTTTACCCTCG
* * *
31816903 ATTTATAGAATTATCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
*
31816930 ATTTACAAAATTACCA
1 ATTTACAGAATTACCA
31816946 AAATACCCCT
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 150 0.97
28 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
ATTTACAGAATTACCATTTTACCCTCG
Found at i:31816832 original size:81 final size:81
Alignment explanation
Indices: 31816739--31816945 Score: 285
Period size: 81 Copynumber: 2.6 Consensus size: 81
31816729 AAAGTACTCC
* * * *
31816739 CAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTTTA-A
1 CAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTC-A-GTTTACA
*
31816803 -AATTA-TCGTTTTACCCT
64 GAATTACT-ATTTTACCCT
*
31816820 CAGTTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGA
1 CAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGA
31816885 ATTACTATTTTACCCT
66 ATTACTATTTTACCCT
* * *
31816901 CAATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACCA
1 CAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCA
31816946 AAATACCCCT
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
79 4 0.04
80 2 0.02
81 106 0.94
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (81 bp):
CAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGA
ATTACTATTTTACCCT
Found at i:31816952 original size:27 final size:27
Alignment explanation
Indices: 31816922--31817115 Score: 182
Period size: 27 Copynumber: 7.2 Consensus size: 27
31816912 ATTATCGTTT
* *
31816922 TACCCTCGATTTACAAAATTACCAAAA
1 TACCCTCGGTTTGCAAAATTACCAAAA
* * *
31816949 TACCC-CTGGGTTGTAAAACTACCAAAA
1 TACCCTC-GGTTTGCAAAATTACCAAAA
*
31816976 TACCCTTGGTTTGCAAAATTACCAAAA
1 TACCCTCGGTTTGCAAAATTACCAAAA
*
31817003 TATCCCT-AGTTTGCAAAATTACCAAAA
1 TA-CCCTCGGTTTGCAAAATTACCAAAA
*
31817030 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GGTTTGCAAAATTACCAAAA
* *
31817057 TA-CCTATGGTTTGCAAAATTACTAAAA
1 TACCCT-CGGTTTGCAAAATTACCAAAA
** * *
31817084 TACCC-CGGTAGGGTAAAATTACCGAAA
1 TACCCTCGGT-TTGCAAAATTACCAAAA
31817111 TACCC
1 TACCC
31817116 CTGTAGGGTA
Statistics
Matches: 137, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
26 9 0.07
27 122 0.89
28 6 0.04
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (27 bp):
TACCCTCGGTTTGCAAAATTACCAAAA
Found at i:31816980 original size:54 final size:54
Alignment explanation
Indices: 31816922--31817118 Score: 218
Period size: 54 Copynumber: 3.6 Consensus size: 54
31816912 ATTATCGTTT
* * * * *
31816922 TACCCTCGATTTACAAAATTACCAAAATACCCCTGGGTTGTAAAACTACCAAAA
1 TACCCTCGGTTTGCAAAATTACCAAAATACCCCTGGTTTGCAAAATTACCAAAA
* * *
31816976 TACCCTTGGTTTGCAAAATTACCAAAATATCCCTAGTTTGCAAAATTACCAAAA
1 TACCCTCGGTTTGCAAAATTACCAAAATACCCCTGGTTTGCAAAATTACCAAAA
* ** *
31817030 TACCC-CTGGTTTGTAAAATTACCAAAATACCTATGGTTTGCAAAATTACTAAAA
1 TACCCTC-GGTTTGCAAAATTACCAAAATACCCCTGGTTTGCAAAATTACCAAAA
** * *
31817084 TACCC-CGGTAGGGTAAAATTACCGAAATACCCCTG
1 TACCCTCGGT-TTGCAAAATTACCAAAATACCCCTG
31817119 TAGGGTAGAA
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.02
54 118 0.98
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (54 bp):
TACCCTCGGTTTGCAAAATTACCAAAATACCCCTGGTTTGCAAAATTACCAAAA
Found at i:31816980 original size:81 final size:81
Alignment explanation
Indices: 31816716--31817060 Score: 232
Period size: 81 Copynumber: 4.3 Consensus size: 81
31816706 TGCCCTCGAC
* * * *
31816716 TTGTAAAATTACCAAAGTACTCC-CAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATT
1 TTGTAAAATTACCAAAATAC-CCTCAGTTTATAGAATTACCATTTTACCCTCGATTTACAAAATT
* **** **
31816780 ATCGTTTTA-CCCTCGAT
65 ACCAAAATACCCCT-GGG
* * **** *
31816797 TTTTAAAATTATCGTTTTACCCTCAGTTTATAGAATTACCATTTTACCCTCGATTTACAGAATTA
1 TTGTAAAATTACCAAAATACCCTCAGTTTATAGAATTACCATTTTACCCTCGATTTACAAAATTA
*** **
31816862 CCATTTTA-CCCTCAG
66 CCAAAATACCCCTGGG
* *** * * *
31816877 TT-TACAGAATTACTATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATTTACAAAAT
1 TTGTA-A-AATTACCAAAATACCCTCAGTTTATAGAATTACCATTTTACCCTCGATTTACAAAAT
31816941 TACCAAAATACCCCTGGG
64 TACCAAAATACCCCTGGG
* ** ** * *** * *
31816959 TTGTAAAACTACCAAAATACCCTTGGTTTGCAAAATTACCAAAATATCCCTAG-TTTGCAAAATT
1 TTGTAAAATTACCAAAATACCCTCAGTTTATAGAATTACCATTTTA-CCCTCGATTTACAAAATT
*
31817023 ACCAAAATACCCCTGGT
65 ACCAAAATACCCCTGGG
31817040 TTGTAAAATTACCAAAATACC
1 TTGTAAAATTACCAAAATACC
31817061 TATGGTTTGC
Statistics
Matches: 214, Mismatches: 44, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
79 2 0.01
80 6 0.03
81 191 0.89
82 13 0.06
83 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCTCAGTTTATAGAATTACCATTTTACCCTCGATTTACAAAATTA
CCAAAATACCCCTGGG
Found at i:31817067 original size:81 final size:81
Alignment explanation
Indices: 31816935--31817085 Score: 259
Period size: 81 Copynumber: 1.9 Consensus size: 81
31816925 CCTCGATTTA
31816935 CAAAATTACCAAAATACCCCTGGGTTGTAAAACTACCAAAATACCCTTGGTTTGCAAAATTACCA
1 CAAAATTACCAAAATACCCCTGGGTTGTAAAACTACCAAAATACCCTTGGTTTGCAAAATTACCA
31817000 AAATATCCCTAGTTTG
66 AAATATCCCTAGTTTG
* * *
31817016 CAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCTATGGTTTGCAAAATTACT
1 CAAAATTACCAAAATACCCCTGGGTTGTAAAACTACCAAAATACCCT-TGGTTTGCAAAATTACC
31817080 AAAATA
65 AAAATA
31817086 CCCCGGTAGG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
80 3 0.05
81 63 0.95
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (81 bp):
CAAAATTACCAAAATACCCCTGGGTTGTAAAACTACCAAAATACCCTTGGTTTGCAAAATTACCA
AAATATCCCTAGTTTG
Found at i:31817102 original size:81 final size:80
Alignment explanation
Indices: 31816935--31817118 Score: 255
Period size: 81 Copynumber: 2.3 Consensus size: 80
31816925 CCTCGATTTA
31816935 CAAAATTACCAAAATACCCCTGGGTTGTAAAACTACCAAAATACCCTTGGTTTGCAAAATTACCA
1 CAAAATTACCAAAATACCCCTGGGTTGTAAAACTACCAAAATACCCTTGGTTTGCAAAATTACCA
* *
31817000 AAATATCCCTAGTTTG
66 AAATACCCCTAG-TGG
* * *
31817016 CAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCTATGGTTTGCAAAATTACT
1 CAAAATTACCAAAATACCCCTGGGTTGTAAAACTACCAAAATACCCT-TGGTTTGCAAAATTACC
31817080 AAAATACCCCGGTAG-GG
65 AAAATACCCC--TAGTGG
* *
31817097 TAAAATTACCGAAATACCCCTG
1 CAAAATTACCAAAATACCCCTG
31817119 TAGGGTAGAA
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
80 3 0.03
81 87 0.94
83 3 0.03
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (80 bp):
CAAAATTACCAAAATACCCCTGGGTTGTAAAACTACCAAAATACCCTTGGTTTGCAAAATTACCA
AAATACCCCTAGTGG
Found at i:31819824 original size:5 final size:5
Alignment explanation
Indices: 31819807--31819837 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
31819797 ATAGAGTGAC
31819807 TTCTT TT-TT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
31819838 TCTATCTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTCTT
Found at i:31821071 original size:18 final size:19
Alignment explanation
Indices: 31821048--31821088 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
31821038 ATTTTACTTG
31821048 AATTTTTAGATT-TTTA-TT
1 AATTTTTA-ATTATTTATTT
31821066 AATTTTTAATTATTTATTT
1 AATTTTTAATTATTTATTT
31821085 AATT
1 AATT
31821089 ATTGTTGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 12 0.57
19 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
AATTTTTAATTATTTATTT
Found at i:31824174 original size:23 final size:24
Alignment explanation
Indices: 31824148--31824196 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
31824138 AATAGTGATC
* *
31824148 AAGAAATAAG-AGAAAATTGGGAA
1 AAGAAAGAAGAAGAAAATTGAGAA
*
31824171 AAGAAAGAAGAAGAAAGTTGAGAA
1 AAGAAAGAAGAAGAAAATTGAGAA
31824195 AA
1 AA
31824197 ATTTTACTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.63, C:0.00, G:0.27, T:0.10
Consensus pattern (24 bp):
AAGAAAGAAGAAGAAAATTGAGAA
Found at i:31827195 original size:21 final size:21
Alignment explanation
Indices: 31827171--31827211 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
31827161 AGGGTAGAAA
31827171 TCGGTAGATCATGCTATAATC
1 TCGGTAGATCATGCTATAATC
31827192 TCGGTAGATCATGCTATAAT
1 TCGGTAGATCATGCTATAAT
31827212 GACTTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (21 bp):
TCGGTAGATCATGCTATAATC
Found at i:31831552 original size:15 final size:15
Alignment explanation
Indices: 31831523--31831562 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
31831513 AAAGATGACA
* *
31831523 AGAAAACCAAGATAG
1 AGAAATCCAAAATAG
*
31831538 AGGAATCCAAAATAG
1 AGAAATCCAAAATAG
31831553 AGAAATCCAA
1 AGAAATCCAA
31831563 GATACGATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.10
Consensus pattern (15 bp):
AGAAATCCAAAATAG
Found at i:31836178 original size:48 final size:49
Alignment explanation
Indices: 31836084--31836352 Score: 208
Period size: 48 Copynumber: 5.7 Consensus size: 49
31836074 TTTATAAGCT
* * *
31836084 AGTGTAAGA-CATGCCTGGGACAT-GCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGCC
* * * *
31836130 AATGTAAGACCATGTCTGGGACATGGCATCGGCCTTGGGACGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* * * **
31836178 AGTATAAGA-CATGTTTGGGACAT-GCATCAG-CTACGAGATGT---GTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGAGCC
* * *
31836222 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CAC-AGTTATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG--ATGT-AGAGCC
* * *
31836272 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-AGATGTAGAGCC
*
31836321 AGTGT-AGACCATGTCTGGGATATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
31836353 ACTTACCCAT
Statistics
Matches: 179, Mismatches: 28, Indels: 30
0.76 0.12 0.13
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 31 0.17
47 26 0.15
48 47 0.26
49 9 0.05
50 32 0.18
51 5 0.03
53 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
Found at i:31837261 original size:30 final size:31
Alignment explanation
Indices: 31837182--31837264 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
31837172 TCAGTCTCGA
31837182 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
31837212 CATATCATTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
31837243 CATATCACT-GGTCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
31837265 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 17 0.35
31 32 0.65
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:31837521 original size:25 final size:25
Alignment explanation
Indices: 31837484--31837578 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
31837474 CTCTTTTAAT
* * *
31837484 AACTAGGGTAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
31837509 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
31837534 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
31837559 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
31837579 AGCACTTCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:31838438 original size:27 final size:27
Alignment explanation
Indices: 31838379--31838463 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
31838369 CATATTCGTT
*
31838379 ATTTTACCATACAGGGGTATTACGGTC
1 ATTTTACCATACAGGGGTATTACAGTC
* *
31838406 ACTTTACCCTACAGGGGCT-TTACAGTC
1 ATTTTACCATACAGGGG-TATTACAGTC
* * **
31838433 TTTTTACC-TATTAGGGGTATTTTAGTC
1 ATTTTACCATA-CAGGGGTATTACAGTC
31838460 ATTT
1 ATTT
31838464 CATCCTACAA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
26 3 0.07
27 42 0.91
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACAGTC
Found at i:31838532 original size:27 final size:27
Alignment explanation
Indices: 31838493--31838544 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
31838483 GGTAAATCTA
*
31838493 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGAGTATTTCTA-TAATTTTGT
*
31838520 AAACCAATAGTATTTCTATAATTTT
1 AAACCAAGAGTATTTCTATAATTTT
31838545 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAGAGTATTTCTATAATTTTGT
Found at i:31838606 original size:27 final size:27
Alignment explanation
Indices: 31838557--31838697 Score: 124
Period size: 27 Copynumber: 5.3 Consensus size: 27
31838547 GAAAGTCAAT
* ** *
31838557 GGTATTTTTGTAATTTTGTAAATTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
* *
31838584 GGTATTTTGATAATTTTACAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAACTAG-G
** * * *
31838611 GGTATTCCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAGG
*
31838638 GGTATTTTGGTAATTTTACAAACTAAG
1 GGTATTTTGGTAATTTTACAAACTAGG
* **
31838665 GGTATTTTGGTAATTCTACCTA-TAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
31838691 GGTATTT
1 GGTATTT
31838698 CAATAATTTC
Statistics
Matches: 90, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
26 12 0.13
27 77 0.86
28 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGG
Found at i:31838749 original size:27 final size:27
Alignment explanation
Indices: 31838717--31838801 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
31838707 CACAATAGAA
31838717 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
* * *
31838744 GGTAAAAGAGTAATTTTGTAAATCAAA
1 GGTAAAACAGTAATTTTGTAAATCGAG
* * *
31838771 GGTAAAACAATAATTCTATAAATCGAG
1 GGTAAAACAGTAATTTTGTAAATCGAG
31838798 GGTA
1 GGTA
31838802 CTTTGGTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (27 bp):
GGTAAAACAGTAATTTTGTAAATCGAG
Found at i:31849463 original size:93 final size:93
Alignment explanation
Indices: 31849356--31849526 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
31849346 GCCCCTAAGT
* *
31849356 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31849421 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31849449 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31849514 TGAGTTCGGATGC
66 CGAGTTCGGATGC
31849527 TTAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31849542 original size:46 final size:47
Alignment explanation
Indices: 31849351--31849523 Score: 214
Period size: 46 Copynumber: 3.7 Consensus size: 47
31849341 AACCCGCCCC
* *
31849351 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
*
31849397 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCA
* *
31849445 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
*
31849490 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31849524 TGCTTAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.55
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
Found at i:31849977 original size:30 final size:30
Alignment explanation
Indices: 31849943--31850002 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31849933 ATTTAATACG
31849943 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
31849973 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
31850003 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:31852080 original size:57 final size:58
Alignment explanation
Indices: 31851942--31852087 Score: 163
Period size: 57 Copynumber: 2.5 Consensus size: 58
31851932 CATTACAGAA
* * *
31851942 AGGATTTAGCCTGGACTGGTAATCCTGATATAAGCCTCTCTTGAGCATAAGTTATAGAT
1 AGGATTTAGCCTGGACAGGTAATCCTGAT-TAAGCCTCTCTTGAGCATAAGTTAGAAAT
** * * *
31852001 AGGATTTAGCCTGGATGGGTAATCCTGATTAAG-CT-TTTATGAGCATATGTTGGAAAT
1 AGGATTTAGCCTGGACAGGTAATCCTGATTAAGCCTCTCT-TGAGCATAAGTTAGAAAT
* *
31852058 AGGATTTAGCTTGGACAAGTAATCCT-ATTA
1 AGGATTTAGCCTGGACAGGTAATCCTGATTA
31852088 TATGATATGT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
56 6 0.08
57 38 0.51
58 4 0.05
59 27 0.36
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (58 bp):
AGGATTTAGCCTGGACAGGTAATCCTGATTAAGCCTCTCTTGAGCATAAGTTAGAAAT
Found at i:31854439 original size:20 final size:20
Alignment explanation
Indices: 31854414--31854458 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31854404 CCTTAAATTG
* *
31854414 TTTTATGTATAAGATTATTA
1 TTTTATGTATAAAAATATTA
*
31854434 TTTTATTTATAAAAATATTA
1 TTTTATGTATAAAAATATTA
31854454 TTTTA
1 TTTTA
31854459 ATTAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTATGTATAAAAATATTA
Found at i:31854545 original size:20 final size:20
Alignment explanation
Indices: 31854506--31854547 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
31854496 TATTTATAAA
*
31854506 TATTTTTATAATTTTGTATG
1 TATTTTTATAAATTTGTATG
31854526 TATTTTTATAAAATTT-TATG
1 TATTTTTAT-AAATTTGTATG
31854546 TA
1 TA
31854548 AATTTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TATTTTTATAAATTTGTATG
Found at i:31854591 original size:11 final size:12
Alignment explanation
Indices: 31854569--31854599 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
31854559 AAAAATAAAC
31854569 TTTTAAATTTTT
1 TTTTAAATTTTT
31854581 TTTTAAATTTTT
1 TTTTAAATTTTT
31854593 TTTTAAA
1 TTTTAAA
31854600 AATTTAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTAAATTTTT
Found at i:31857123 original size:27 final size:27
Alignment explanation
Indices: 31857093--31857150 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
31857083 ATTTAAAATA
31857093 ATTTATTCAAATTATAAATACATTTAT
1 ATTTATTCAAATTATAAATACATTTAT
31857120 ATTTATTCAAATTATAAATACATTTAT
1 ATTTATTCAAATTATAAATACATTTAT
31857147 ATTT
1 ATTT
31857151 GTTACATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTATTCAAATTATAAATACATTTAT
Found at i:31866068 original size:18 final size:18
Alignment explanation
Indices: 31866018--31866073 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
31866008 ATTACAAAAA
*
31866018 AAATTCAAATAATTTTTA-
1 AAATTCAAA-AATTTATAT
31866036 AAATTCAAAATATTTATAT
1 AAATTCAAAA-ATTTATAT
*
31866055 AAATTCTAAAATTTATAT
1 AAATTCAAAAATTTATAT
31866073 A
1 A
31866074 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 24 0.71
19 9 0.26
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATTCAAAAATTTATAT
Found at i:31866084 original size:26 final size:23
Alignment explanation
Indices: 31866055--31866108 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 23
31866045 ATATTTATAT
*
31866055 AAATTCTAAAATTTATATATTTTAAA
1 AAATTCT-AAATTTAT-T-TTTAAAA
31866081 AAATTCTAAATTTATTTTTAAAA
1 AAATTCTAAATTTATTTTTAAAA
31866104 AAATT
1 AAATT
31866109 AGAGAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 11 0.41
24 1 0.04
25 8 0.30
26 7 0.26
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATTCTAAATTTATTTTTAAAA
Found at i:31866108 original size:23 final size:26
Alignment explanation
Indices: 31866045--31866108 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
31866035 AAAATTCAAA
* *
31866045 ATATTTATATAAATTCTAAAATTTAT
1 ATATTTAAAAAAATTCTAAAATTTAT
*
31866071 ATATTTTAAAAAATTCT-AAATTTAT
1 ATATTTAAAAAAATTCTAAAATTTAT
31866096 -T-TTTAAAAAAATT
1 ATATTTAAAAAAATT
31866109 AGAGAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.32
24 1 0.03
25 8 0.24
26 14 0.41
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATTTAAAAAAATTCTAAAATTTAT
Found at i:31866122 original size:20 final size:20
Alignment explanation
Indices: 31866099--31866139 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
31866089 AATTTATTTT
31866099 TAAA-AAAATTAGAGAATATA
1 TAAATAAAATTA-AGAATATA
*
31866119 TAAATAAAGTTAAGAATATA
1 TAAATAAAATTAAGAATATA
31866139 T
1 T
31866140 TTTATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (20 bp):
TAAATAAAATTAAGAATATA
Found at i:31868762 original size:14 final size:14
Alignment explanation
Indices: 31868743--31868775 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
31868733 CACCTCACCA
*
31868743 CCACCTCCGCCGAT
1 CCACCTCCACCGAT
31868757 CCACCTCCACCGAT
1 CCACCTCCACCGAT
31868771 CCACC
1 CCACC
31868776 CAAATCTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.61, G:0.09, T:0.12
Consensus pattern (14 bp):
CCACCTCCACCGAT
Found at i:31868930 original size:3 final size:3
Alignment explanation
Indices: 31868884--31868910 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31868874 TTATAGTAAG
31868884 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
31868911 ATTTACTGCT
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:31870267 original size:11 final size:11
Alignment explanation
Indices: 31870223--31870270 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
31870213 GCTTTCTCCC
*
31870223 TATTTTGCTAC
1 TATTTTGCTAT
*
31870234 TATTTTTCTAT
1 TATTTTGCTAT
*
31870245 TATGTTGCTAT
1 TATTTTGCTAT
*
31870256 TATTTTGTTAT
1 TATTTTGCTAT
31870267 TATT
1 TATT
31870271 CTTTGCATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:31870335 original size:30 final size:30
Alignment explanation
Indices: 31870299--31870360 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
31870289 ACTTATTTTA
31870299 TTGTTAATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
* * *
31870329 TTGTTAATTTTGTTATTATTTTAGAGGTAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
31870359 TT
1 TT
31870361 ACTTGTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:31870482 original size:20 final size:18
Alignment explanation
Indices: 31870444--31870483 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
31870434 GAAATATTTA
*
31870444 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTTAAATAT
31870462 TTTTGATGTATTATAAATAT
1 TTTTGATGT-TT-TAAATAT
31870482 TT
1 TT
31870484 AAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 2 0.11
20 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (18 bp):
TTTTGATGTTTTAAATAT
Found at i:31871254 original size:20 final size:20
Alignment explanation
Indices: 31871217--31871255 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31871207 AAAAATTATA
*
31871217 AAAAAATCAAAATTTTTTTC
1 AAAAAATCAAAATATTTTTC
* *
31871237 AAAAATTCAAAGTATTTTT
1 AAAAAATCAAAATATTTTT
31871256 TATTATTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAAAATCAAAATATTTTTC
Found at i:31871649 original size:22 final size:21
Alignment explanation
Indices: 31871610--31871651 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31871600 AAAAAAAATT
* *
31871610 AATATCTGTTTTTCTTTTTTA
1 AATATCTATTTTTATTTTTTA
*
31871631 AATATCTATTTTTAATTTTTA
1 AATATCTATTTTTATTTTTTA
31871652 TTATATCCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (21 bp):
AATATCTATTTTTATTTTTTA
Found at i:31872017 original size:19 final size:19
Alignment explanation
Indices: 31871995--31872033 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
31871985 GAAAAAACTC
**
31871995 AAAATTATTTAAAAATAAA
1 AAAATTATAGAAAAATAAA
*
31872014 AAAATTCTAGAAAAATAAA
1 AAAATTATAGAAAAATAAA
31872033 A
1 A
31872034 TCCTGAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAATTATAGAAAAATAAA
Found at i:31876965 original size:15 final size:15
Alignment explanation
Indices: 31876945--31876974 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31876935 CATGTGTAAG
31876945 ACCATAGTTGGACTA
1 ACCATAGTTGGACTA
31876960 ACCATAGTTGGACTA
1 ACCATAGTTGGACTA
31876975 TGACATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
ACCATAGTTGGACTA
Found at i:31877112 original size:45 final size:45
Alignment explanation
Indices: 31876993--31877114 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
31876983 AACCAGAAAC
** * *
31876993 GAGTAAGACCATAGCTGAAAGACGCTATGACATCGCGATTCAGAT
1 GAGTAAGACCATAGCTGAAAGACAATATGGCATCACGATTCAGAT
* * *
31877038 GAGTAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTGAT
1 GAGTAAGACCATAGCTGAAAGACAATATGGCATCACGATTCAGAT
* *
31877083 -ATGTAAGACCATAGTTGAAAGATAATATGGCA
1 GA-GTAAGACCATAGCTGAAAGACAATATGGCA
31877115 ATATGACGAG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
44 1 0.01
45 66 0.99
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACAATATGGCATCACGATTCAGAT
Found at i:31877146 original size:46 final size:46
Alignment explanation
Indices: 31877086--31877320 Score: 258
Period size: 46 Copynumber: 5.1 Consensus size: 46
31877076 TTCTGATATG
* ** *
31877086 TAAGACCATAGTTGAAAGATAATATGGCAATATGAC-GAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA-AAATGAA
31877132 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * * *
31877178 TAGGAACATGGTTGAAAGATACCCTGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * * * *
31877224 TAAGATCATGGTTTAAAGTTACCCTGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
** * * * * * *
31877270 TAAGACCATAATTGAAAGACACTATGGCATCATGTC-GAAGATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
31877315 TAAGAC
1 TAAGAC
31877321 TGTGGATGGG
Statistics
Matches: 161, Mismatches: 27, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
45 12 0.07
46 147 0.91
47 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:31877165 original size:24 final size:24
Alignment explanation
Indices: 31877138--31877211 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
31877128 TGAATAAGAC
31877138 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
***
31877162 CATGACAGAAA-ATGA--ATAGG-AA
1 CATGGTTGAAAGAT-ACCAT-GGCAA
*
31877184 CATGGTTGAAAGATACCCTGGCAA
1 CATGGTTGAAAGATACCATGGCAA
31877208 CATG
1 CATG
31877212 ACAGGAAATG
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
22 13 0.35
23 8 0.22
24 16 0.43
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:31877298 original size:92 final size:92
Alignment explanation
Indices: 31877085--31877320 Score: 287
Period size: 92 Copynumber: 2.6 Consensus size: 92
31877075 ATTCTGATAT
* *
31877085 GTAAGACCATAGTTGAAAGATAATATGGCAATATGACGAGAAATGAATAAGACCATGGTTGAAAG
1 GTAAGACCATAGTTGAAAGATACTATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAG
31877150 ATACCATGGCAACATGACAGAAAATGA
66 ATACCATGGCAACATGACAGAAAATGA
* * * * ** * *
31877177 ATAGGAACATGGTTGAAAGATACCCTGGCAACATGAC-AGGAAATGAATAAGATCATGGTTTAAA
1 GTAAGACCATAGTTGAAAGATACTATGGCAACATGACGA-GAAATGAATAAGACCATGGTTGAAA
* *
31877241 GTTACCCTGGCAACATGACAGAAAATGA
65 GATACCATGGCAACATGACAGAAAATGA
* * * * * *
31877269 GTAAGACCATAATTGAAAGACACTATGGCATCATGTCGA-AGATAAATAAGAC
1 GTAAGACCATAGTTGAAAGATACTATGGCAACATGACGAGAAATGAATAAGAC
31877321 TGTGGATGGG
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
91 11 0.09
92 105 0.90
93 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (92 bp):
GTAAGACCATAGTTGAAAGATACTATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAG
ATACCATGGCAACATGACAGAAAATGA
Found at i:31879977 original size:15 final size:15
Alignment explanation
Indices: 31879957--31879990 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
31879947 CGAGACTTGA
*
31879957 AGAATTCTTGTCATT
1 AGAATTCTTGTCAAT
31879972 AGAATTCTTGTCAAT
1 AGAATTCTTGTCAAT
31879987 AGAA
1 AGAA
31879991 ATCAATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (15 bp):
AGAATTCTTGTCAAT
Found at i:31884616 original size:107 final size:102
Alignment explanation
Indices: 31884433--31884632 Score: 249
Period size: 107 Copynumber: 1.9 Consensus size: 102
31884423 ATTGACGGAC
* * * * *
31884433 AAGACCATGGTTAGACCGTGACAAAGTGTTAAATGTAAGACCATAGCTGGGCTATGACATTTCAG
1 AAGACCATGGTTAGACCATGACAAAGTGATAAATGTAAGACCATAGCAGGGCTATGACATCTCAA
* *
31884498 TGAAAATACCATAACTGGGTTATTGCACCGTGAACGT
66 TGAAAAGACCATAACTGGGTTATGGCACCGTGAACGT
* *
31884535 AAGACCATGGTTAGACCATGACAGTATATGTGAATACATGTAAGACCATAGCAGGGCTATGGCAT
1 AAGACCATGGTTAGACCATGACA--A-A-GTG-ATAAATGTAAGACCATAGCAGGGCTATGACAT
*
31884600 C-CTAATGATAAGACCATAACTGGGTTATGGCAC
61 CTC-AATGAAAAGACCATAACTGGGTTATGGCAC
31884633 TAAAAATGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
102 22 0.27
104 1 0.01
105 1 0.01
106 4 0.05
107 54 0.66
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.24
Consensus pattern (102 bp):
AAGACCATGGTTAGACCATGACAAAGTGATAAATGTAAGACCATAGCAGGGCTATGACATCTCAA
TGAAAAGACCATAACTGGGTTATGGCACCGTGAACGT
Found at i:31884645 original size:33 final size:32
Alignment explanation
Indices: 31884572--31884649 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
31884562 ATGTGAATAC
* ***
31884572 ATGTAAGACCATAGCAGGGCTATGGCATCCTA
1 ATGTAAGACCATAACAGGGCTATGGCATAAAA
* *
31884604 ATGATAAGACCATAACTGGGTTATGGCACTAAAA
1 ATG-TAAGACCATAACAGGGCTATGGCA-TAAAA
31884638 ATGTAAGACCAT
1 ATGTAAGACCAT
31884650 GGCAAGGCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 30 0.79
34 5 0.13
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (32 bp):
ATGTAAGACCATAACAGGGCTATGGCATAAAA
Found at i:31884661 original size:107 final size:107
Alignment explanation
Indices: 31884465--31884661 Score: 243
Period size: 107 Copynumber: 1.8 Consensus size: 107
31884455 AAAGTGTTAA
* * * * * ***
31884465 ATGTAAGACCATAGCTGGGCTATGACATTTCAGTGAAAATACCATAACTGGGTTATTGCACCGTG
1 ATGTAAGACCATAGCAGGGCTATGACATCTCAATGAAAAGACCATAACTGGGTTATGGCACCAAA
**
31884530 AACGTAAGACCATGGTTAGACCATGACAGTATATGTGAATAC
66 AACGTAAGACCATGGCAAGACCATGACAGTATATGTGAATAC
* * *
31884572 ATGTAAGACCATAGCAGGGCTATGGCATC-CTAATGATAAGACCATAACTGGGTTATGGCACTAA
1 ATGTAAGACCATAGCAGGGCTATGACATCTC-AATGAAAAGACCATAACTGGGTTATGGCACCAA
* *
31884636 AAATGTAAGACCATGGCAAGGCCATG
65 AAACGTAAGACCATGGCAAGACCATG
31884662 GCAATGCATG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
106 1 0.01
107 73 0.99
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (107 bp):
ATGTAAGACCATAGCAGGGCTATGACATCTCAATGAAAAGACCATAACTGGGTTATGGCACCAAA
AACGTAAGACCATGGCAAGACCATGACAGTATATGTGAATAC
Found at i:31892036 original size:43 final size:43
Alignment explanation
Indices: 31891988--31892158 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
31891978 GTTACTGAAA
31891988 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
* ** *
31892031 TGTGATTACGTGTAAGACCATGAAT-AGGATATTGGCATTGTTAT
1 TGTGATTACATGTAAGACCATGTCTGA-GACATTGGCATTG-TAT
* * * * * * *
31892075 T-TTATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
* * * *
31892116 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
31892159 GAGTTATATG
Statistics
Matches: 101, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 86 0.85
44 4 0.04
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
Found at i:31892147 original size:86 final size:85
Alignment explanation
Indices: 31891998--31892156 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 85
31891988 TGTGATTACA
* * * *
31891998 TGTAAGACCATGTCTGAGACATTGGCATTGTATTGTGATTACGTGTAAGACCATGAATAGGATAT
1 TGTAAGACCATGTCTGAGACAGTGGCATCGTATTGTGATAACATGTAAGACCATGAATAGGATA-
31892063 TGGCATTGTTATTTTATTTCG
65 TGGCATTGTTATTTTATTTCG
* * * *
31892084 TGTAAGACCTTGTCTGGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCAT-ATCTGGGAT
1 TGTAAGACCATGTCTGAGACAGTGGCATCGTAT-TGTGATAACATGTAAGACCATGA-ATAGGAT
31892147 ATGGCATTGT
64 ATGGCATTGT
31892157 ATGAGTTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 12 0.19
86 51 0.81
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (85 bp):
TGTAAGACCATGTCTGAGACAGTGGCATCGTATTGTGATAACATGTAAGACCATGAATAGGATAT
GGCATTGTTATTTTATTTCG
Found at i:31898648 original size:43 final size:43
Alignment explanation
Indices: 31898599--31898760 Score: 166
Period size: 43 Copynumber: 3.8 Consensus size: 43
31898589 GGTTACTAAG
*
31898599 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACA-CTG-T
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGACATC-GAT
* * * *
31898641 ACTGTGATCACGTGTAAGACCATGTCTAGGATATTGACATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGATATTGACATCGAT
* * * * * *
31898685 ATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGACATCGAT
* * *
31898728 ATGTGATAACATGTAAAACCATATCTGGGATAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATAT
31898761 GGCATTGTAC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 93 0.96
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGATATTGACATCGAT
Found at i:31900296 original size:12 final size:12
Alignment explanation
Indices: 31900279--31900303 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31900269 TTGTAAGGCC
31900279 TTGTAACCCTAT
1 TTGTAACCCTAT
31900291 TTGTAACCCTAT
1 TTGTAACCCTAT
31900303 T
1 T
31900304 CTGGCGACGG
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:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (12 bp):
TTGTAACCCTAT
Found at i:31900729 original size:21 final size:21
Alignment explanation
Indices: 31900705--31900746 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
31900695 AATTGAACTT
31900705 AGTGAGTTTTTGCATAATGAC
1 AGTGAGTTTTTGCATAATGAC
31900726 AGTGAGTTTTTGCATAATGAC
1 AGTGAGTTTTTGCATAATGAC
31900747 CCTATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (21 bp):
AGTGAGTTTTTGCATAATGAC
Found at i:31905510 original size:19 final size:19
Alignment explanation
Indices: 31905485--31905610 Score: 156
Period size: 19 Copynumber: 6.9 Consensus size: 19
31905475 ATAATCTTCA
*
31905485 ATGATATGAAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
31905504 GTGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
31905523 CTGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
31905540 ATGAT-TGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
31905558 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
31905575 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
31905593 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
31905611 AGATATGATT
Statistics
Matches: 93, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
17 29 0.31
18 31 0.33
19 33 0.35
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:31905555 original size:18 final size:18
Alignment explanation
Indices: 31905494--31905610 Score: 139
Period size: 18 Copynumber: 6.5 Consensus size: 18
31905484 AATGATATGA
* *
31905494 AATCTTAGATGTGATATGT
1 AATCTTAGATATGAT-TGC
* *
31905513 AATCTTAGATCTGA-TAC
1 AATCTTAGATATGATTGC
31905530 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTGC
* *
31905548 AATATTAGATATGA-TAC
1 AATCTTAGATATGATTGC
31905565 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTGC
*
31905583 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TGC
31905602 AATCTTAGA
1 AATCTTAGA
31905611 AGATATGATT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
17 29 0.34
18 32 0.38
19 24 0.28
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (18 bp):
AATCTTAGATATGATTGC
Found at i:31905563 original size:35 final size:35
Alignment explanation
Indices: 31905494--31905610 Score: 171
Period size: 35 Copynumber: 3.3 Consensus size: 35
31905484 AATGATATGA
* * *
31905494 AATCTTAGATGTGATATGTAATCTTAGATCTGATAC
1 AATCTTAGATATGAT-TGCAATCTTAGATATGATAC
*
31905530 AATCTTAGATATGATTGCAATATTAGATATGATAC
1 AATCTTAGATATGATTGCAATCTTAGATATGATAC
31905565 AATCTTAGATATGATTGCAATCTTAGATATGATATAC
1 AATCTTAGATATGATTGCAATCTTAGATATG--ATAC
31905602 AATCTTAGA
1 AATCTTAGA
31905611 AGATATGATT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 47 0.64
36 14 0.19
37 13 0.18
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (35 bp):
AATCTTAGATATGATTGCAATCTTAGATATGATAC
Found at i:31905991 original size:30 final size:32
Alignment explanation
Indices: 31905927--31905992 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
31905917 TTATATTTTA
31905927 TTTTTTAATAATTTTAGTATTATATCAAATTAT
1 TTTTTTAATAATTTTAGTATTATATC-AATTAT
*
31905960 TTTTTTATTAAATTTTA-TATTAT-TC-ATTAT
1 TTTTTTAAT-AATTTTAGTATTATATCAATTAT
31905990 TTT
1 TTT
31905993 AAAAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 8 0.26
32 2 0.06
33 14 0.45
34 7 0.23
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (32 bp):
TTTTTTAATAATTTTAGTATTATATCAATTAT
Found at i:31911395 original size:13 final size:13
Alignment explanation
Indices: 31911372--31911416 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
31911362 AAAAAAGGCA
*
31911372 AAAAAGTAAAAGAG
1 AAAAAG-AAAAAAG
* *
31911386 AAAGAGAAAAAAA
1 AAAAAGAAAAAAG
31911399 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
31911412 AAAAA
1 AAAAA
31911417 ATGGAGAGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 21 0.81
14 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:31911417 original size:7 final size:7
Alignment explanation
Indices: 31911379--31911417 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
31911369 GCAAAAAAGT
31911379 AAAAGAGA
1 AAAAGA-A
*
31911387 AAGAGAA
1 AAAAGAA
31911394 AAAA-AA
1 AAAAGAA
31911400 AAAAGAA
1 AAAAGAA
31911407 AAAAGAA
1 AAAAGAA
31911414 AAAA
1 AAAA
31911418 TGGAGAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.21
7 17 0.61
8 5 0.18
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Done.