Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 45 of 250
Found at i:14080933 original size:20 final size:20
Alignment explanation
Indices: 14080910--14081005 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
14080900 GTGTTTATAT
14080910 GGATGAATTACTGTTAATAC
1 GGATGAATTACTGTTAATAC
* * *
14080930 GGATGAATTATTTTTATTAC
1 GGATGAATTACTGTTAATAC
* ** * *
14080950 CGATGAACAACTATTTATAC
1 GGATGAATTACTGTTAATAC
* *
14080970 GGATGAACTACTAGTT-ATAT
1 GGATGAATTACT-GTTAATAC
* *
14080990 GAATGAATTACAGTTA
1 GGATGAATTACTGTTA
14081006 TACAAATAGA
Statistics
Matches: 57, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
19 3 0.05
20 52 0.91
21 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (20 bp):
GGATGAATTACTGTTAATAC
Found at i:14082694 original size:18 final size:18
Alignment explanation
Indices: 14082668--14082702 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14082658 ATATATTAAG
14082668 CCAAGTACCCAACCCAAC
1 CCAAGTACCCAACCCAAC
*
14082686 CCAATTACCCAACCCAA
1 CCAAGTACCCAACCCAA
14082703 TCATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.49, G:0.03, T:0.09
Consensus pattern (18 bp):
CCAAGTACCCAACCCAAC
Found at i:14082695 original size:13 final size:13
Alignment explanation
Indices: 14082679--14082703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14082669 CAAGTACCCA
14082679 ACCCAACCCAATT
1 ACCCAACCCAATT
14082692 ACCCAACCCAAT
1 ACCCAACCCAAT
14082704 CATAAAAATT
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:14082739 original size:6 final size:6
Alignment explanation
Indices: 14082728--14082766 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
14082718 ATAATTTAAT
*
14082728 AAATAA AAATAA AAATATA AAACTAA AACTAA AAATAA A
1 AAATAA AAATAA AAATA-A AAA-TAA AAATAA AAATAA A
14082767 TAAAAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 20 0.69
7 7 0.24
8 2 0.07
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:14082775 original size:20 final size:19
Alignment explanation
Indices: 14082724--14082776 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
14082714 ACAAATAATT
14082724 TAATAAATAAAAA-TAAAAA
1 TAATAAA-AAAAACTAAAAA
14082743 T-ATAAAACTAAAACTAAAAA
1 TAATAAAA--AAAACTAAAAA
14082763 TAAATAAAAAAAAC
1 T-AATAAAAAAAAC
14082777 ATATAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 1 0.03
18 5 0.17
19 5 0.17
20 12 0.41
22 6 0.21
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (19 bp):
TAATAAAAAAAACTAAAAA
Found at i:14082808 original size:9 final size:9
Alignment explanation
Indices: 14082794--14082861 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
14082784 TTTATACAAA
14082794 TAATTCGAT
1 TAATTCGAT
14082803 TAATTCGAT
1 TAATTCGAT
*
14082812 TAATTCGGT
1 TAATTCGAT
* *
14082821 CAATTTGAT
1 TAATTCGAT
*
14082830 TAATTCGGT
1 TAATTCGAT
14082839 TAATTC-AGT
1 TAATTCGA-T
*
14082848 TAATTCGGT
1 TAATTCGAT
14082857 TAATT
1 TAATT
14082862 TTATACTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (9 bp):
TAATTCGAT
Found at i:14082817 original size:18 final size:18
Alignment explanation
Indices: 14082794--14082861 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
14082784 TTTATACAAA
*
14082794 TAATTCGATTAATTCGAT
1 TAATTCGGTTAATTCGAT
* *
14082812 TAATTCGGTCAATTTGAT
1 TAATTCGGTTAATTCGAT
14082830 TAATTCGGTTAATTC-AGT
1 TAATTCGGTTAATTCGA-T
14082848 TAATTCGGTTAATT
1 TAATTCGGTTAATT
14082862 TTATACTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
17 1 0.02
18 43 0.98
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAT
Found at i:14082852 original size:27 final size:27
Alignment explanation
Indices: 14082794--14082861 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
14082784 TTTATACAAA
*
14082794 TAATTCGATTAATTCGATTAATTCGGT
1 TAATTCGATTAATTCGATTAATTCAGT
* * *
14082821 CAATTTGATTAATTCGGTTAATTCAGT
1 TAATTCGATTAATTCGATTAATTCAGT
*
14082848 TAATTCGGTTAATT
1 TAATTCGATTAATT
14082862 TTATACTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (27 bp):
TAATTCGATTAATTCGATTAATTCAGT
Found at i:14085944 original size:39 final size:40
Alignment explanation
Indices: 14085830--14086053 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
14085820 GCTACTCGTT
* *
14085830 CAAATGCCTTCGGGACATAGCCCGG-GTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
14085870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
14085910 CTAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
14085949 CCAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * *
14085988 CAAATGCCTTC-GGATCTTAGTCCAG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
14086029 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
14086054 CATCATTCGA
Statistics
Matches: 160, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 71 0.44
40 75 0.47
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:14085998 original size:78 final size:80
Alignment explanation
Indices: 14085830--14086053 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 80
14085820 GCTACTCGTT
*
14085830 CAAATGCCTTCGGGACATAGCCCGGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
14085895 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * * *
14085910 CTAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACCAATGCCTTTGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
14085972 GAATTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* * * * * * *
14085988 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
14086051 GGA
64 GGA
14086054 CATCATTCGA
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
77 2 0.02
78 34 0.28
79 55 0.45
80 32 0.26
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:14086037 original size:118 final size:120
Alignment explanation
Indices: 14085832--14086053 Score: 283
Period size: 118 Copynumber: 1.9 Consensus size: 120
14085822 TACTCGTTCA
* *
14085832 AATGCCTTCGGGACATAGCCCGGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
* * *
14085897 TTAGTAACTCGCACTAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
66 ATAGTAACTAGCACTAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* * **
14085951 AATGCCTTTGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCAG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* *
14086013 ATATGGTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACTAAAGCCTTCGGGACTTAGCCCGGA
14086054 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
117 4 0.05
118 57 0.65
119 27 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
ATAGTAACTAGCACTAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:14093977 original size:40 final size:39
Alignment explanation
Indices: 14093940--14094110 Score: 218
Period size: 39 Copynumber: 4.3 Consensus size: 39
14093930 GCTACTCGTT
* **
14093940 CAAATGCCTTCGGGACATAGCCCG-GGTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGAAAT-TAGTAACTCGCA
* * *
14093980 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCA
* * *
14094020 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTAACTCGCA
*
14094059 CCAATGCCTTCGGGCTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTAACTCGCA
14094098 CAAATGCCTTCGG
1 CAAATGCCTTCGG
14094111 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 71 0.60
40 47 0.39
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGAAATTAGTAACTCGCA
Found at i:14094054 original size:39 final size:40
Alignment explanation
Indices: 14093942--14094163 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
14093932 TACTCGTTCA
* * *
14093942 AATGCCTTCGGGACATAGCCCGG-GTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACC
* *
14093982 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
*
14094022 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACACC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* *
14094061 AATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* * * *
14094100 AATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCACC
*
14094140 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
14094164 CATCATTCGA
Statistics
Matches: 157, Mismatches: 18, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 71 0.45
40 76 0.48
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:14094123 original size:118 final size:120
Alignment explanation
Indices: 14093942--14094163 Score: 292
Period size: 118 Copynumber: 1.9 Consensus size: 120
14093932 TACTCGTTCA
**
14093942 AATGCCTTCGGGACATAGCCCGGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
14094007 TTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACACC
66 ATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACC
* **
14094061 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
14094123 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
14094164 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 58 0.65
119 27 0.30
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACC
Found at i:14098344 original size:92 final size:93
Alignment explanation
Indices: 14098186--14098355 Score: 254
Period size: 92 Copynumber: 1.8 Consensus size: 93
14098176 GGATGGTTGA
* * *
14098186 GCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
14098251 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
14098279 GCATCCGAACTCGTTGA-TTGAGTCCGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTC-GAACTCGTTGAG
*
14098342 TTGAGTTCGAGTTC
65 TTGAGTCCGAGTTC
14098356 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
91 1 0.01
92 52 0.75
93 16 0.23
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:14100776 original size:18 final size:20
Alignment explanation
Indices: 14100749--14100790 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
14100739 TATAGACTCA
14100749 ATATAAAAC-TAAACAT-AT
1 ATATAAAACTTAAACATCAT
* *
14100767 ATATATAACTTAATCATCAT
1 ATATAAAACTTAAACATCAT
14100787 ATAT
1 ATAT
14100791 GCATGCAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAAAACTTAAACATCAT
Found at i:14109990 original size:130 final size:129
Alignment explanation
Indices: 14109717--14110042 Score: 327
Period size: 130 Copynumber: 2.5 Consensus size: 129
14109707 GTGAAATTCC
* * * *
14109717 AAGGAGATATTCGATTATTTTGGGCAAATGAAAAAGTGCAACCCAGCACGATAGGGCTCGATTCT
1 AAGGA-ATATTCAATTGTTTTGGACAAATGAAAAAGTGCAACCCAGCACGATAGGGCACGATTCT
* ** * *
14109782 CAAATCGCCAAACATCGAACATCTCCTTCATTTTGAAAGATTTTAGAAAATGTGAGTGAAGTTCC
65 CAAATCACCAAACATCGAACATCTCCTTCATTTTGAAAGATTTTAGAAAACATGAATGAAG-ACC
*
14109847 G
129 A
* * * *
14109848 AAGGGATCTTCAATTGTTTTGGACCAATAAAAAAGTGCAACCCAGCACGATAGGGCACGATTCTC
1 AAGGAATATTCAATTGTTTTGGACAAATGAAAAAGTGCAACCCAGCACGATAGGGCACGATTCTC
* ** * * *
14109913 AAATCACCAAACATTGAACATCAT-CTTTGTTTT-TAAGGTTTTTGATAAACATGAATGTAA-AC
66 AAATCACCAAACATCGAACATC-TCCTTCATTTTGAAAGATTTTAGA-AAACATGAATG-AAGAC
14109975 CTA
128 C-A
* * * * * *
14109978 AAGGAATATTCAATTGTTTTAGACAAACGAGAAA-TCACAACCCAGCACGATAAGGCATGATTCT
1 AAGGAATATTCAATTGTTTTGGACAAATGAAAAAGT-GCAACCCAGCACGATAGGGCACGATTCT
14110042 C
65 C
14110043 GAATTGTCAA
Statistics
Matches: 160, Mismatches: 30, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
129 12 0.08
130 141 0.88
131 7 0.04
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (129 bp):
AAGGAATATTCAATTGTTTTGGACAAATGAAAAAGTGCAACCCAGCACGATAGGGCACGATTCTC
AAATCACCAAACATCGAACATCTCCTTCATTTTGAAAGATTTTAGAAAACATGAATGAAGACCA
Found at i:14110286 original size:130 final size:131
Alignment explanation
Indices: 14109977--14110317 Score: 379
Period size: 130 Copynumber: 2.6 Consensus size: 131
14109967 ATGTAAACCT
* * * * * * * *
14109977 AAAGGAATATTCAATTGTTTTAGACAAACGAGAAATCACAACCCAGCACGATAAGGCATGATT-C
1 AAAGG-ATATTCGATTATTTTAG-CAAACGCGAAATTACAACCCAACACGTTAGGGCACGATTCC
* * * * * *
14110041 TCGAATTGTCAAACACCGAGTATTACCTTCGTTTTAAAGGATTTTTAGAAGACCTGAGTGAAATT
64 ACGAATTGTCAAATATCGAGTATCACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATT
14110106 TTG
129 TTG
* ** *
14110109 AAAGGATATTTGATTATTTTA--AACAATCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
1 AAAGGATATTCGATTATTTTAGCAA-ACGCGAAATTACAACCCAACACGTTAGGGCACGATTCCA
* * * * *
14110172 CGAATTGCCAAATATCGCGTATCGCCTTCG-TTTAAGGGA-TTTTAAAATACATGAGTGAAATTT
65 CGAATTGTCAAATATCGAGTATCACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATTT
14110235 TG
130 TG
14110237 -AAGTGATATTCGATTATTTTGAGCAAACGCGAAATTACAACCCAACACGTTAGGGCACGATTCC
1 AAAG-GATATTCGATTATTTT-AGCAAACGCGAAATTACAACCCAACACGTTAGGGCACGATTCC
*
14110301 GCGAATTGTCAAATATC
64 ACGAATTGTCAAATATC
14110318 AAATCTCGTC
Statistics
Matches: 174, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
127 3 0.02
128 40 0.23
129 36 0.21
130 75 0.43
131 15 0.09
132 5 0.03
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (131 bp):
AAAGGATATTCGATTATTTTAGCAAACGCGAAATTACAACCCAACACGTTAGGGCACGATTCCAC
GAATTGTCAAATATCGAGTATCACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTT
G
Found at i:14117228 original size:44 final size:46
Alignment explanation
Indices: 14117178--14117299 Score: 142
Period size: 44 Copynumber: 2.7 Consensus size: 46
14117168 ATATGCGTGT
* ** *
14117178 TGATGCATGTCCTAGACATGTCTTACACTAGTACT-ACTCTTA-GTC
1 TGATGCATGTCCTAGACATGTCTTACACTAGCACTCA-TAATATGGC
* * *
14117223 -GATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAATATGGC
1 TGATGCATGTCCTAGACATGTCTTACACTAGCACTCATAATATGGC
*
14117268 TGAAGCATGTCCTAGACATGTCTTACACTAGC
1 TGATGCATGTCCTAGACATGTCTTACACTAGC
14117300 CCTCGTCTGG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
44 33 0.52
45 3 0.05
46 27 0.43
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (46 bp):
TGATGCATGTCCTAGACATGTCTTACACTAGCACTCATAATATGGC
Found at i:14117288 original size:90 final size:93
Alignment explanation
Indices: 14117128--14117346 Score: 261
Period size: 90 Copynumber: 2.4 Consensus size: 93
14117118 GATAAATTGC
* * *
14117128 CGATGCCATGCCCCAGACATGGTCTTATACTGGCTCTCATATATGCGTGTTGATGCATGTCCTAG
1 CGATGCCATGCCCCAGACATGGTCTTATACTGGCACTCATATAT-CGTGCTGAAGCATGTCCTAG
14117193 ACATGTCTTACACTAGTACTACTCTTAGT
65 ACATGTCTTACACTAGTACTACTCTTAGT
*
14117222 CGATG-CATGTCCCAGACAT-GTCTTACT-CTGGCACTCATAATAT-G-GCTGAAGCATGTCCTA
1 CGATGCCATGCCCCAGACATGGTCTTA-TACTGGCACTCAT-ATATCGTGCTGAAGCATGTCCTA
** * *
14117282 GACATGTCTTACACTAGCCCT-CGTCTGGATGC
64 GACATGTCTTACACTAGTACTAC-TCT-TA-GT
*
14117314 CGATGCCATGTCCCAGACATGGTCTTATACTGG
1 CGATGCCATGCCCCAGACATGGTCTTATACTGG
14117347 TGCACAAATC
Statistics
Matches: 109, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
89 1 0.01
90 36 0.33
91 2 0.02
92 22 0.20
93 33 0.30
94 15 0.14
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (93 bp):
CGATGCCATGCCCCAGACATGGTCTTATACTGGCACTCATATATCGTGCTGAAGCATGTCCTAGA
CATGTCTTACACTAGTACTACTCTTAGT
Found at i:14117477 original size:15 final size:17
Alignment explanation
Indices: 14117457--14117488 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14117447 TATAACTTAA
14117457 CAATTC-AT-ACAATAT
1 CAATTCAATGACAATAT
14117472 CAATTCAATGACAATAT
1 CAATTCAATGACAATAT
14117489 GAATACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (17 bp):
CAATTCAATGACAATAT
Found at i:14122021 original size:42 final size:43
Alignment explanation
Indices: 14121920--14122026 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 43
14121910 TGTGTTATCA
* * * *
14121920 TGTAAGACCATGTCTGGGACGTTGGCATCGACTTCTGTTTTACG
1 TGTAAGACCATGTCTGGGACATCGACATCGAC-TCTGATTTACG
14121964 TGTAAGACCATGTCTGGGACATCGACATCGTA-TCTGATTT-CG
1 TGTAAGACCATGTCTGGGACATCGACATCG-ACTCTGATTTACG
*
14122006 TGTAAGACCCTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
14122027 GTGGCATCGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 22 0.39
43 7 0.12
44 27 0.47
45 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGACATCGACTCTGATTTACG
Found at i:14122075 original size:43 final size:43
Alignment explanation
Indices: 14121904--14122076 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 43
14121894 CATAGGATTT
* *
14121904 TCGATATGTG-TTATCATGTAAGACCATGTCTGGGACGTTGGCA
1 TCGATATCTGATTA-CATGTAAGACCACGTCTGGGACGTTGGCA
* * * * * *
14121947 TCGACT-TCTGTTTTACGTGTAAGACCATGTCTGGGACATCGACA
1 TCGA-TATCTG-ATTACATGTAAGACCACGTCTGGGACGTTGGCA
* *
14121991 TCG-TATCTGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGATATCTGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * *
14122033 TCGATATTTGATTACATATAAGACCACGTCTAGGACGTTGGCA
1 TCGATATCTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
14122076 T
1 T
14122077 TGTATATGTT
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 30 0.29
43 42 0.40
44 30 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATCTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:14124261 original size:48 final size:48
Alignment explanation
Indices: 14124186--14124412 Score: 243
Period size: 48 Copynumber: 4.9 Consensus size: 48
14124176 CACATGGTAG
* * *
14124186 GATGCCAATGCCATATTCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * **
14124234 GATGCCAATGCCATGTCCCAAAAATGGTCTTACATGGGATCATAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
14124282 GATGCCAA-GTCATGTCCTAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
14124329 GATGTCGAT---A-G-CCCAG-CTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
*
14124372 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
14124413 GCACATAACC
Statistics
Matches: 143, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 31 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 39 0.27
48 68 0.48
49 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:14126730 original size:28 final size:27
Alignment explanation
Indices: 14126693--14126748 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 27
14126683 GAATATGACT
14126693 GATTCGGATTCTGAATTATGGGTCCAA
1 GATTCGGATTCTGAATTATGGGTCCAA
14126720 GATTCGTGATTCTGAATTATGGGTCCAA
1 GATTCG-GATTCTGAATTATGGGTCCAA
14126748 G
1 G
14126749 GCTGGCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (27 bp):
GATTCGGATTCTGAATTATGGGTCCAA
Found at i:14126867 original size:19 final size:19
Alignment explanation
Indices: 14126843--14126880 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14126833 GTGCGTTTGT
14126843 GCTATATTTAAATTAGCAA
1 GCTATATTTAAATTAGCAA
*
14126862 GCTATATTTAAATTGGCAA
1 GCTATATTTAAATTAGCAA
14126881 AGTGTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
GCTATATTTAAATTAGCAA
Found at i:14126944 original size:26 final size:26
Alignment explanation
Indices: 14126908--14126960 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14126898 ACTATAGATG
14126908 GCATTATTGATGTATTGTGTTTGTAT
1 GCATTATTGATGTATTGTGTTTGTAT
14126934 GCATTATTGATGTATTGTGTTTGTAT
1 GCATTATTGATGTATTGTGTTTGTAT
14126960 G
1 G
14126961 ACAGAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.53
Consensus pattern (26 bp):
GCATTATTGATGTATTGTGTTTGTAT
Found at i:14131769 original size:46 final size:46
Alignment explanation
Indices: 14131716--14131891 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
14131706 TATTTGGGCA
14131716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
14131762 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA-T--G
* * * *
14131807 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
14131855 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14131892 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
45 1 0.01
46 63 0.56
47 27 0.24
48 1 0.01
49 1 0.01
50 5 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:14131871 original size:93 final size:93
Alignment explanation
Indices: 14131712--14131883 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
14131702 AGGATATTTG
* * *
14131712 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
14131777 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
14131805 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
14131870 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
14131884 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:14139041 original size:4 final size:4
Alignment explanation
Indices: 14139034--14139076 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
14139024 AAACATATAT
14139034 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
14139077 AAGAAACCGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:14144006 original size:53 final size:53
Alignment explanation
Indices: 14143946--14144052 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
14143936 GAAAAAACTG
*
14143946 ACGTATTATTAATACCATAAATTGGAAAAATATCAAATTAATAATTATGTGCT
1 ACGTATTATTAATACCATAAATTAGAAAAATATCAAATTAATAATTATGTGCT
14143999 ACGTATTATTAATACCATAAATTAGAAAAATATCAAATTAATAATTATGTGCT
1 ACGTATTATTAATACCATAAATTAGAAAAATATCAAATTAATAATTATGTGCT
14144052 A
1 A
14144053 TATACCATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (53 bp):
ACGTATTATTAATACCATAAATTAGAAAAATATCAAATTAATAATTATGTGCT
Found at i:14148274 original size:46 final size:46
Alignment explanation
Indices: 14148185--14148278 Score: 109
Period size: 46 Copynumber: 2.0 Consensus size: 46
14148175 AGTATATTAC
* * *
14148185 TAATACATAAAATAATATTATAATATATAACTTTTATTAAAAATAT
1 TAATACATAAAATAATATTATAATATATAAATTATAATAAAAATAT
* *
14148231 TAATACAT-ATATAACTATTGTAATAATATAAATTATAATAAAATATAT
1 TAATACATAAAATAA-TATTATAAT-ATATAAATTATAATAAAA-ATAT
14148279 GGTGTCACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 5 0.12
46 16 0.40
47 15 0.38
48 4 0.10
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (46 bp):
TAATACATAAAATAATATTATAATATATAAATTATAATAAAAATAT
Found at i:14148485 original size:16 final size:17
Alignment explanation
Indices: 14148461--14148493 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14148451 TATAATATGT
14148461 ACTACTATTAT-ATATA
1 ACTACTATTATGATATA
*
14148477 ACTATTATTATGATATA
1 ACTACTATTATGATATA
14148494 GATTATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (17 bp):
ACTACTATTATGATATA
Found at i:14148669 original size:17 final size:17
Alignment explanation
Indices: 14148647--14148682 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14148637 CAACTAGTAT
14148647 ATTAATAAATAATAATA
1 ATTAATAAATAATAATA
* *
14148664 ATTAATAATTAATATTA
1 ATTAATAAATAATAATA
14148681 AT
1 AT
14148683 GTACTACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAATAAATAATAATA
Found at i:14161622 original size:25 final size:26
Alignment explanation
Indices: 14161586--14161634 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
14161576 AATACTTATC
14161586 TTAATAGTATTATATTAAT-TTAATA
1 TTAATAGTATTATATTAATATTAATA
*
14161611 TTAA-AGTGATTATCTTAATATTAA
1 TTAATAGT-ATTATATTAATATTAA
14161635 ATTTAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (26 bp):
TTAATAGTATTATATTAATATTAATA
Found at i:14161634 original size:68 final size:68
Alignment explanation
Indices: 14161554--14161691 Score: 206
Period size: 69 Copynumber: 2.0 Consensus size: 68
14161544 TATTTTAATA
* * *
14161554 TATCTAATATTAAATTAAATTTAATACTTATCTTAAT-AGTATTATATTAATTTAATATTAAAGT
1 TATCTAATATTAAATTAAATCTAATACTTATCTTAATCAGTATTATATTAATTTAATAGTAAACT
14161618 GAT
66 GAT
* * *
14161621 TATCTTAATATTAAATTTAATCTAATATTTATCTTTATCAGTATTATATTAATTTAATAGTAAAC
1 TATC-TAATATTAAATTAAATCTAATACTTATCTTAATCAGTATTATATTAATTTAATAGTAAAC
14161686 TGAT
65 TGAT
14161690 TA
1 TA
14161692 AGTTTAATCA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 4 0.06
68 29 0.46
69 30 0.48
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (68 bp):
TATCTAATATTAAATTAAATCTAATACTTATCTTAATCAGTATTATATTAATTTAATAGTAAACT
GAT
Found at i:14162942 original size:14 final size:14
Alignment explanation
Indices: 14162923--14162950 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14162913 TGTTTTTCCC
14162923 TTAAAAGAAAAACT
1 TTAAAAGAAAAACT
14162937 TTAAAAGAAAAACT
1 TTAAAAGAAAAACT
14162951 GTGGAGAATC
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:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
TTAAAAGAAAAACT
Found at i:14166268 original size:48 final size:48
Alignment explanation
Indices: 14166215--14166387 Score: 188
Period size: 48 Copynumber: 3.6 Consensus size: 48
14166205 CTAAGTACTC
** *
14166215 ATATCATGGCCCGAAGCCATCTCAATGTATCTCGCACCCGAAGTGATA
1 ATATCATGGCCCGAAGCCAAATCAATGTATCTCGCACCCAAAGTGATA
* * * * * **
14166263 ATATCATGGCCC-AAACCAAATCAATGAAGCTCACACCCTAAGT-ACCG
1 ATATCATGGCCCGAAGCCAAATCAATGTATCTCGCACCCAAAGTGA-TA
* * * *
14166310 ATATCATGGCCTGAAGCCAAATCAATATAACTCGCACCCAAAGTGCTA
1 ATATCATGGCCCGAAGCCAAATCAATGTATCTCGCACCCAAAGTGATA
*
14166358 ATATCATGTCCCGAAGCCAAATCAATGTAT
1 ATATCATGGCCCGAAGCCAAATCAATGTAT
14166388 TCCCTAATGA
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 1 0.01
47 35 0.35
48 63 0.64
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.21
Consensus pattern (48 bp):
ATATCATGGCCCGAAGCCAAATCAATGTATCTCGCACCCAAAGTGATA
Found at i:14166318 original size:95 final size:96
Alignment explanation
Indices: 14166205--14166384 Score: 256
Period size: 95 Copynumber: 1.9 Consensus size: 96
14166195 GTCTCGCACA
** * * *
14166205 CTAAGTACTCATATCATGGCCCGAAGCCATCTCAATGTATCTCGCACCCGAAGTGATAATATCAT
1 CTAAGTACTCATATCATGGCCCGAAGCCAAATCAATATAACTCGCACCCAAAGTGATAATATCAT
14166270 GGCCC-AAACCAAATCAATGAAGCTCACACC
66 GGCCCGAAACCAAATCAATGAAGCTCACACC
* *
14166300 CTAAGTAC-CGATATCATGGCCTGAAGCCAAATCAATATAACTCGCACCCAAAGTGCTAATATCA
1 CTAAGTACTC-ATATCATGGCCCGAAGCCAAATCAATATAACTCGCACCCAAAGTGATAATATCA
* *
14166364 TGTCCCGAAGCCAAATCAATG
65 TGGCCCGAAACCAAATCAATG
14166385 TATTCCCTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
94 1 0.01
95 60 0.81
96 13 0.18
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (96 bp):
CTAAGTACTCATATCATGGCCCGAAGCCAAATCAATATAACTCGCACCCAAAGTGATAATATCAT
GGCCCGAAACCAAATCAATGAAGCTCACACC
Found at i:14172814 original size:12 final size:12
Alignment explanation
Indices: 14172797--14172823 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14172787 ATTCCGAAGT
14172797 ATATATATATAC
1 ATATATATATAC
14172809 ATATATATATAC
1 ATATATATATAC
14172821 ATA
1 ATA
14172824 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:14173354 original size:27 final size:28
Alignment explanation
Indices: 14173270--14173367 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
14173260 CATGAGATTG
* * * *
14173270 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
14173299 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
14173327 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14173354 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
14173368 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14173378 original size:27 final size:27
Alignment explanation
Indices: 14173298--14173380 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
14173288 TAAATTGTAC
* *
14173298 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
14173326 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
14173353 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
14173380 A
1 A
14173381 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:14176279 original size:26 final size:26
Alignment explanation
Indices: 14176244--14176295 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14176234 AATGTGAAAG
*
14176244 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
14176270 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
14176296 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:14176306 original size:103 final size:101
Alignment explanation
Indices: 14176166--14176427 Score: 420
Period size: 101 Copynumber: 2.6 Consensus size: 101
14176156 TGTATATAAA
** * * *
14176166 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
14176231 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAA--TAAAAGGGGGTTGCTATGTGCTGATTCCCCG
14176269 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
14176333 TTGAAATAAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATAAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
14176370 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCG-GATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
14176428 ATAACGGTTA
Statistics
Matches: 150, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
100 8 0.05
101 78 0.52
103 63 0.42
104 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:14176380 original size:26 final size:26
Alignment explanation
Indices: 14176345--14176396 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14176335 GAAATAAAAG
*
14176345 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
14176371 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
14176397 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:14191735 original size:27 final size:28
Alignment explanation
Indices: 14191651--14191748 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
14191641 CATGAGATTG
* * * *
14191651 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
14191680 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
14191708 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14191735 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
14191749 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14191759 original size:27 final size:27
Alignment explanation
Indices: 14191679--14191761 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
14191669 TAAATTGTAC
* *
14191679 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
14191707 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
14191734 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
14191761 A
1 A
14191762 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:14193732 original size:31 final size:30
Alignment explanation
Indices: 14193697--14193757 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
14193687 GAAACAGAAT
*
14193697 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
14193728 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
14193758 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:14206987 original size:44 final size:44
Alignment explanation
Indices: 14206920--14207012 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
14206910 AGCACTGAAC
* * * *
14206920 TGCATCATTGAATAAACTAAAGTAGGGTAAACTGGTACGTAAAG
1 TGCATCATCGAATAAACCAAAGTAGGATAAACTGGCACGTAAAG
* * * *
14206964 TGCATCATCGAATAGACCGAAGTAGGATAACCTGGCATGTAAAG
1 TGCATCATCGAATAAACCAAAGTAGGATAAACTGGCACGTAAAG
14207008 TGCAT
1 TGCAT
14207013 ACTGGAGCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (44 bp):
TGCATCATCGAATAAACCAAAGTAGGATAAACTGGCACGTAAAG
Found at i:14209807 original size:6 final size:6
Alignment explanation
Indices: 14209796--14209828 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
14209786 GTAATATTAT
14209796 TATAAA TATAAA TATAAA TATAAA TATAAA TAT
1 TATAAA TATAAA TATAAA TATAAA TATAAA TAT
14209829 TATTTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:14209917 original size:5 final size:5
Alignment explanation
Indices: 14209907--14209932 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14209897 ATTACCATTA
14209907 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
14209933 TGAATTGTTT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:14214748 original size:29 final size:29
Alignment explanation
Indices: 14214715--14214778 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
14214705 AAATAAGTTG
* *
14214715 ATCTTTATCCAACCAATTTCAAATATTTA
1 ATCTTTATCCAACCAACTTCAAATATTCA
* *
14214744 ATCTTTATCCAGCCAACTTCAAATCTTCA
1 ATCTTTATCCAACCAACTTCAAATATTCA
14214773 ATCTTT
1 ATCTTT
14214779 CAATCTACCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.41
Consensus pattern (29 bp):
ATCTTTATCCAACCAACTTCAAATATTCA
Found at i:14218235 original size:16 final size:17
Alignment explanation
Indices: 14218216--14218248 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14218206 TTTAATATAA
14218216 TTAAT-ATTTTGAAAAT
1 TTAATGATTTTGAAAAT
*
14218232 TTAATGATTTTGCAAAT
1 TTAATGATTTTGAAAAT
14218249 GAAGTATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (17 bp):
TTAATGATTTTGAAAAT
Found at i:14223425 original size:23 final size:23
Alignment explanation
Indices: 14223388--14223432 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14223378 AGTTGGGTTC
* * *
14223388 AAACTTGATCGAGTATTATTATT
1 AAACTTAATCAAGTACTATTATT
14223411 AAACTTAATCAAGTACTATTAT
1 AAACTTAATCAAGTACTATTAT
14223433 CCAAGATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
AAACTTAATCAAGTACTATTATT
Found at i:14225001 original size:68 final size:68
Alignment explanation
Indices: 14224892--14225027 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
14224882 TCCAATGAGT
14224892 ACATCTATGTCTCTACTTGTGGAGTCAACTGCTCCTATAGCCAAAACTAACTATTTCCTCAATTA
1 ACATCTATGTCTCTACTTGTGGAGTCAACTGCTCCTATAGCCAAAACTAACTATTTCCTCAATTA
14224957 GAA
66 GAA
14224960 ACATCTATGTCTCTACTTGTGGAGTCAACTGCTCCTATAGCCAAAACTAACTATTTCCTCAATTA
1 ACATCTATGTCTCTACTTGTGGAGTCAACTGCTCCTATAGCCAAAACTAACTATTTCCTCAATTA
14225025 GAA
66 GAA
14225028 TTGTAGATGA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (68 bp):
ACATCTATGTCTCTACTTGTGGAGTCAACTGCTCCTATAGCCAAAACTAACTATTTCCTCAATTA
GAA
Found at i:14237617 original size:12 final size:12
Alignment explanation
Indices: 14237602--14237631 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14237592 ATTAACACCT
*
14237602 CACTAAACTAAC
1 CACTAAACCAAC
14237614 CACTAAACCAAC
1 CACTAAACCAAC
14237626 CACTAA
1 CACTAA
14237632 CTCCATCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (12 bp):
CACTAAACCAAC
Found at i:14237800 original size:24 final size:26
Alignment explanation
Indices: 14237749--14237801 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
14237739 TTTTTGGAGA
*
14237749 AAAAAGGAGAGAGTCTCGAATACAAG
1 AAAAAGGAGAGACTCTCGAATACAAG
*
14237775 AAAAA-GAGAGACTTTCG-ATACAAG
1 AAAAAGGAGAGACTCTCGAATACAAG
14237799 AAA
1 AAA
14237802 TACACGAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.40
25 10 0.40
26 5 0.20
ACGTcount: A:0.53, C:0.11, G:0.23, T:0.13
Consensus pattern (26 bp):
AAAAAGGAGAGACTCTCGAATACAAG
Found at i:14238106 original size:3 final size:3
Alignment explanation
Indices: 14238083--14238520 Score: 90
Period size: 3 Copynumber: 144.0 Consensus size: 3
14238073 GGGAAGAGTG
* * *
14238083 TTA TTT TTA ATA TTG TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA CTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * * *
14238130 TTA CTA TTA TT- CTA TATA CTA TTA CTGA TTTA TTA TCA TTA TTA ATA
1 TTA TTA TTA TTA TTA T-TA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA
* * * * * * * *
14238177 GTAA CGTA ATA GTA TTT TTA TTA TT- TTA TTA TTT TTT TTA CCTTT TTA
1 -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA
* * * * * *
14238225 TTA CTA TTA TTA TTAA CTTA CTA TTA TTA TTT TTA TCA ATA -TA ATA
1 TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * ** *
14238271 TTA TTT TTT TTA -TA TTA TTA TTG TTA TTA GCA CGTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
14238315 TTA TTA GTGTA TCA TTG TTA TTT TCTA TT- TTA TTA TTA CTT- TTA -TA
1 TTA TTA -T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA
* * * *
14238361 CTA TTG TT- TCTA TTT TTA TTA TT- TTCA TT- TTT TTA TT- TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
* * *
14238404 TTA CTT- TTA -TA CTA TTG TT- TCTA TTA TTA TTA TT- TTCA TTA CTTCCG
1 TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA -TT--A
* * * * *
14238451 TTA TTA TTA TCA TTA TTT TCTA TTA TCA TTA ATA TGTCG TT- TGT- TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A TTA T-TA TTA
14238498 TTA TTA TT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
14238521 ACACTATTAT
Statistics
Matches: 317, Mismatches: 73, Indels: 90
0.66 0.15 0.19
Matches are distributed among these distances:
2 37 0.12
3 237 0.75
4 34 0.11
5 9 0.03
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14238406 original size:54 final size:54
Alignment explanation
Indices: 14238335--14238443 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
14238325 ATCATTGTTA
*
14238335 TTTTCTATTTTATTATTACTTTTATACTATTGTTTCTATTTTTATTATTTTCAT
1 TTTTCTATTTTATTATTACTTTTATACTATTGTTTCTATTATTATTATTTTCAT
*
14238389 TTTTTTATTTTATTATTACTTTTATACTATTGTTTCTATTATTATTATTTTCAT
1 TTTTCTATTTTATTATTACTTTTATACTATTGTTTCTATTATTATTATTTTCAT
14238443 T
1 T
14238444 ACTTCCGTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (54 bp):
TTTTCTATTTTATTATTACTTTTATACTATTGTTTCTATTATTATTATTTTCAT
Found at i:14238517 original size:17 final size:17
Alignment explanation
Indices: 14238189--14238520 Score: 73
Period size: 17 Copynumber: 18.6 Consensus size: 17
14238179 AACGTAATAG
*
14238189 TATTTTTATTATTTTAT
1 TATTATTATTATTTTAT
* *
14238206 TATTTTTTTTACCTTTTTAT
1 TATTATTATTA---TTTTAT
* *
14238226 TACTATTATTA-TTAACT
1 TATTATTATTATTTTA-T
*
14238243 TACTATTATTATTTTTAT
1 TATTATTATTA-TTTTAT
* *
14238261 CAATATAATATTATTTT-T
1 -TAT-TATTATTATTTTAT
14238279 T-TTA-TATTA--TTAT
1 TATTATTATTATTTTAT
* ** * *
14238292 TGTTATTAGCACGTATAT
1 TATTATTATTA-TTTTAT
* *
14238310 TATTATTATTAGTGTAT
1 TATTATTATTATTTTAT
* * *
14238327 CATTGTTATT-TTCTAT
1 TATTATTATTATTTTAT
14238343 T-TTATTATTACTTTTAT
1 TATTATTATTA-TTTTAT
*
14238360 ACTATTGTT-TCTATTTTTAT
1 --TATTATTAT-TA-TTTTAT
*
14238380 TATT-TTCATTTTTTTAT
1 TATTATT-ATTATTTTAT
14238397 T-TTATTATTACTTTTAT
1 TATTATTATTA-TTTTAT
*
14238414 ACTATTGTT-TCTATTATTAT
1 --TATTATTAT-TATT-TTAT
14238434 TATT-TTCATTACTTCCGTTAT
1 TATTATT-ATTA-TT---TTAT
*
14238455 TATTATCATTATTTTCTAT
1 TATTATTATTA-TTT-TAT
* *
14238474 TATCATTAATATGTCGTT-T
1 TATTATTATTAT-T--TTAT
14238493 GT-TTATTATTATTTTAT
1 -TATTATTATTATTTTAT
14238510 TATTATTATTA
1 TATTATTATTA
14238521 ACACTATTAT
Statistics
Matches: 236, Mismatches: 37, Indels: 84
0.66 0.10 0.24
Matches are distributed among these distances:
12 2 0.01
13 2 0.01
14 8 0.03
15 12 0.05
16 16 0.07
17 69 0.29
18 27 0.11
19 39 0.17
20 45 0.19
21 15 0.06
22 1 0.00
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (17 bp):
TATTATTATTATTTTAT
Found at i:14238947 original size:125 final size:127
Alignment explanation
Indices: 14238765--14239026 Score: 323
Period size: 125 Copynumber: 2.1 Consensus size: 127
14238755 ATTTTTCAAG
** * ** *
14238765 TAAAGGCAATATTCAATACTTGGAAATTCGAGAAATCGTGTCCTAATGTACTAGGTTTCGGTTTT
1 TAAAGGCAATATTCAATACTTAAAAATTCGAGAAATCGTGCCCTAACATACTAGGTTTCGATTTT
* * *
14238830 TCGTTTGATCTAAGTAACCGATTATCC-TTTTAAAA-TAAAATACATGAGTTTTAAAT-AACA
66 CCGTTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATGAA-A
** * * * *
14238890 TAAAGGCAATATTCCGTATTTAAAAATTCGAGTAGTCGTGCCCTAACATACTGGGTTTCGATTTT
1 TAAAGGCAATATTCAATACTTAAAAATTCGAGAAATCGTGCCCTAACATACTAGGTTTCGATTTT
* * *
14238955 CCGTTTGATCTAAATATCCGAATATCCTTTTTAAAATTTAAATACATGTGTTTTAAATGAAA
66 CCGTTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATGAAA
14239017 TAGAAGGCAA
1 TA-AAGGCAA
14239027 GCTCATAATC
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
125 76 0.66
126 8 0.07
127 22 0.19
128 9 0.08
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (127 bp):
TAAAGGCAATATTCAATACTTAAAAATTCGAGAAATCGTGCCCTAACATACTAGGTTTCGATTTT
CCGTTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATGAAA
Found at i:14239911 original size:3 final size:3
Alignment explanation
Indices: 14239903--14239927 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14239893 TCAACGGTAC
14239903 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
14239928 GATTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14246797 original size:16 final size:16
Alignment explanation
Indices: 14246776--14246809 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
14246766 GTTTGATATC
14246776 TCCATTCTGTATGTAT
1 TCCATTCTGTATGTAT
14246792 TCCATTCTGTATGTAT
1 TCCATTCTGTATGTAT
14246808 TC
1 TC
14246810 ATCCCTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.50
Consensus pattern (16 bp):
TCCATTCTGTATGTAT
Found at i:14246941 original size:14 final size:14
Alignment explanation
Indices: 14246922--14246949 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14246912 AGATGCAGAC
14246922 AAACATGACCTAAT
1 AAACATGACCTAAT
14246936 AAACATGACCTAAT
1 AAACATGACCTAAT
14246950 GAAAGCTAGA
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:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AAACATGACCTAAT
Found at i:14247267 original size:60 final size:60
Alignment explanation
Indices: 14247177--14247290 Score: 219
Period size: 60 Copynumber: 1.9 Consensus size: 60
14247167 CATGACACAT
14247177 ATATAGGTAATGAAAAAGGAAATTACCATCATGGCCTAGATGAATTCATAGCGATGGCAC
1 ATATAGGTAATGAAAAAGGAAATTACCATCATGGCCTAGATGAATTCATAGCGATGGCAC
*
14247237 ATATAGGTAATGAAAAAGGAAATTACCATCATGGCCTAGATGGATTCATAGCGA
1 ATATAGGTAATGAAAAAGGAAATTACCATCATGGCCTAGATGAATTCATAGCGA
14247291 GAAGCATGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (60 bp):
ATATAGGTAATGAAAAAGGAAATTACCATCATGGCCTAGATGAATTCATAGCGATGGCAC
Found at i:14252404 original size:27 final size:27
Alignment explanation
Indices: 14252347--14252417 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
14252337 ATCCTGTCAG
* *
14252347 CCTTTGTGGCATACTCTAAATGAATCG
1 CCTTTGTGGCATACTCTAAACGAATCA
* ** *
14252374 CCTTTGTGGCATACTTTGTACGGATCA
1 CCTTTGTGGCATACTCTAAACGAATCA
*
14252401 CCTTTGTGGCGTACTCT
1 CCTTTGTGGCATACTCT
14252418 GATTAATTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
CCTTTGTGGCATACTCTAAACGAATCA
Found at i:14257277 original size:39 final size:39
Alignment explanation
Indices: 14257232--14257318 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
14257222 CCGGCAATTA
*
14257232 GCCTGCTAGGTATAAACCTAAACTTATCATCGGCACAAG
1 GCCTGCTAGGTATAAACCTAAACTTATCACCGGCACAAG
* * *
14257271 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTAAACTTATCACCGGCACAAG
14257310 GCCTGCTAG
1 GCCTGCTAG
14257319 ACATTAAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTAAACTTATCACCGGCACAAG
Found at i:14260907 original size:43 final size:43
Alignment explanation
Indices: 14260860--14260958 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
14260850 CCCAGCGAGG
*
14260860 GTCTTACACG-AAAT-CATATAACGATGCCAATGTCCCAGACATA
1 GTCTTACACGTAAATGCA-AT-ACAATGCCAATGTCCCAGACATA
* *
14260903 GTCTTACACGTAATTGCAATACAATGCCAATGTCCCAGACATG
1 GTCTTACACGTAAATGCAATACAATGCCAATGTCCCAGACATA
*
14260946 GTCTTACATGTAA
1 GTCTTACACGTAA
14260959 TCACATCTCG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 43 0.86
44 5 0.10
45 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
GTCTTACACGTAAATGCAATACAATGCCAATGTCCCAGACATA
Found at i:14267476 original size:21 final size:21
Alignment explanation
Indices: 14267452--14267498 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
14267442 AGTTAGGGTT
14267452 TGAAATCAACAGAACAATGTA
1 TGAAATCAACAGAACAATGTA
*
14267473 TGAAATCAACATAACAATGTA
1 TGAAATCAACAGAACAATGTA
14267494 TGAAA
1 TGAAA
14267499 AGTAAGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (21 bp):
TGAAATCAACAGAACAATGTA
Found at i:14269044 original size:6 final size:6
Alignment explanation
Indices: 14269035--14269064 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
14269025 TGACGAGATT
14269035 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
14269065 TCTTCTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CCCTTC
Found at i:14279713 original size:15 final size:15
Alignment explanation
Indices: 14279693--14279722 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14279683 TTCACTGTTA
*
14279693 TGTCTTTAGTATTTT
1 TGTCTTTAATATTTT
14279708 TGTCTTTAATATTTT
1 TGTCTTTAATATTTT
14279723 GCATGCGTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.67
Consensus pattern (15 bp):
TGTCTTTAATATTTT
Found at i:14280903 original size:25 final size:26
Alignment explanation
Indices: 14280853--14280905 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14280843 AACTGTAGAG
14280853 AGAAAATTATCTAAAGAAATTATTTT
1 AGAAAATTATCTAAAGAAATTATTTT
* *
14280879 AGAAAATT-TCTAGAGATAATTTTTTT
1 AGAAAATTATCTAAAGA-AATTATTTT
14280905 A
1 A
14280906 TATACAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (26 bp):
AGAAAATTATCTAAAGAAATTATTTT
Found at i:14289675 original size:21 final size:21
Alignment explanation
Indices: 14289651--14289693 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14289641 CCTCATTGGC
*
14289651 AAGGTTTTAGTTCTCATGGTT
1 AAGGCTTTAGTTCTCATGGTT
* *
14289672 AAGGCTTTCGTTCTCGTGGTT
1 AAGGCTTTAGTTCTCATGGTT
14289693 A
1 A
14289694 TGTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.14, G:0.26, T:0.44
Consensus pattern (21 bp):
AAGGCTTTAGTTCTCATGGTT
Found at i:14292495 original size:83 final size:84
Alignment explanation
Indices: 14292343--14292525 Score: 269
Period size: 83 Copynumber: 2.2 Consensus size: 84
14292333 TCTTTGCTTG
* * *
14292343 GAAACAAAACAATATCGAATAAAATCTTGTTAAACGGCGCAAATAAATCCCAAAATAGATTTTAT
1 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGCAAATAAATCCCAAAATAGATTTTAT
14292408 TTAATTCTATTCTAATTTA
66 TTAATTCTATTCTAATTTA
* * ** * *
14292427 GAAACAAAATAAAATCAAATAAAGTCTTGTTAAATGG-GGGAATAAATTCCGAAATAGATTTTAT
1 GAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGCAAATAAATCCCAAAATAGATTTTAT
*
14292491 TTAATTCTATTCTAATTTT
66 TTAATTCTATTCTAATTTA
14292510 GAAACAAAATAAAATC
1 GAAACAAAATAAAATC
14292526 CTGTTAAACA
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 57 0.64
84 32 0.36
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.32
Consensus pattern (84 bp):
GAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGCAAATAAATCCCAAAATAGATTTTAT
TTAATTCTATTCTAATTTA
Found at i:14292763 original size:63 final size:61
Alignment explanation
Indices: 14292642--14292766 Score: 196
Period size: 63 Copynumber: 2.0 Consensus size: 61
14292632 TCTTGAAACG
*
14292642 GATTTTATTTTACTCGTTTTTTGAAATAAAACAAAATTTGAAATAAAATCGTTGAACGGCA
1 GATTTTATTTTACTCGTTTTTTGAAATAAAACAAAATTTGAAATAAAATCGTTAAACGGCA
* **
14292703 GATTTTATTTTACTCGTTTTTTTTGAAATAAAACAAAATTTGTAATAAAATTTTTAAACGGCA
1 GATTTTATTTTACTCG--TTTTTTGAAATAAAACAAAATTTGAAATAAAATCGTTAAACGGCA
14292766 G
1 G
14292767 GAATCAATCC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 16 0.28
63 42 0.72
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (61 bp):
GATTTTATTTTACTCGTTTTTTGAAATAAAACAAAATTTGAAATAAAATCGTTAAACGGCA
Found at i:14312494 original size:27 final size:27
Alignment explanation
Indices: 14312464--14312518 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
14312454 GAGTCATTTG
14312464 TCTTTATCATAAATGACTTGATTACCA
1 TCTTTATCATAAATGACTTGATTACCA
* **
14312491 TCTTTGTGGTAAATGACTTGATTACCA
1 TCTTTATCATAAATGACTTGATTACCA
14312518 T
1 T
14312519 TTGATTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (27 bp):
TCTTTATCATAAATGACTTGATTACCA
Found at i:14318958 original size:14 final size:14
Alignment explanation
Indices: 14318941--14318974 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14318931 AAGATTTTTG
*
14318941 AATTATAATTTATT
1 AATTATAATTAATT
14318955 AATTATAATTAATT
1 AATTATAATTAATT
*
14318969 AGTTAT
1 AATTAT
14318975 TAGCTCAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
AATTATAATTAATT
Found at i:14321020 original size:6 final size:6
Alignment explanation
Indices: 14321009--14321039 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
14320999 AATATATGCC
*
14321009 TCTTTT TCTTTT TTTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
14321040 TGCTTTGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TCTTTT
Found at i:14321028 original size:12 final size:13
Alignment explanation
Indices: 14321011--14321045 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
14321001 TATATGCCTC
14321011 TTTTTCTTTTT-T
1 TTTTTCTTTTTCT
14321023 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
14321036 TTTTTGCTTT
1 TTTTT-CTTT
14321046 GCTATCTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.52
13 6 0.29
14 4 0.19
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:14321360 original size:11 final size:11
Alignment explanation
Indices: 14321344--14321368 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14321334 CTCGTACAAC
14321344 TATAAAAAAAT
1 TATAAAAAAAT
14321355 TATAAAAAAAT
1 TATAAAAAAAT
14321366 TAT
1 TAT
14321369 TTAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TATAAAAAAAT
Found at i:14322512 original size:20 final size:20
Alignment explanation
Indices: 14322487--14322525 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14322477 CTTACTTCAG
14322487 ATAAAAGCATT-ATTATTAAT
1 ATAAAA-CATTAATTATTAAT
*
14322507 ATAAAACTTTAATTATTAA
1 ATAAAACATTAATTATTAA
14322526 CAAATGTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
ATAAAACATTAATTATTAAT
Found at i:14332693 original size:71 final size:69
Alignment explanation
Indices: 14332569--14332713 Score: 254
Period size: 71 Copynumber: 2.1 Consensus size: 69
14332559 TGTACCACGT
*
14332569 CATCACCTGAAAATTTATATAATTTTTTTTTTAATTTTCAGGTGATGGTGTAGCACAATCACAAA
1 CATCACCTGAAAATTTATATAATTTTTTTTTTAATTTTCAAGTGATGGTGTAGCACAATCACAAA
14332634 GTGC
66 GTGC
*
14332638 CATCACCTGAAAATTTATATAATATATTTTTTTTAATTTTCAAGTGATGGTGTAGCTCAATCACA
1 CATCACCTGAAAATTTATATAAT-T-TTTTTTTTAATTTTCAAGTGATGGTGTAGCACAATCACA
14332703 AAGTGC
64 AAGTGC
14332709 CATCA
1 CATCA
14332714 TCAAACTTTC
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
69 23 0.32
70 1 0.01
71 48 0.67
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (69 bp):
CATCACCTGAAAATTTATATAATTTTTTTTTTAATTTTCAAGTGATGGTGTAGCACAATCACAAA
GTGC
Found at i:14333805 original size:17 final size:17
Alignment explanation
Indices: 14333783--14333815 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14333773 GCAAACAAAA
14333783 AAGTCA-AACAGAAAACC
1 AAGTCAGAA-AGAAAACC
14333800 AAGTCAGAAAGAAAAC
1 AAGTCAGAAAGAAAAC
14333816 ATACCTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.61, C:0.18, G:0.15, T:0.06
Consensus pattern (17 bp):
AAGTCAGAAAGAAAACC
Found at i:14337485 original size:15 final size:15
Alignment explanation
Indices: 14337465--14337494 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14337455 CCGTCAACAA
14337465 AGGCTATGTTCATCT
1 AGGCTATGTTCATCT
14337480 AGGCTATGTTCATCT
1 AGGCTATGTTCATCT
14337495 CTAACCTTGA
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:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
AGGCTATGTTCATCT
Found at i:14337952 original size:28 final size:29
Alignment explanation
Indices: 14337921--14337998 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
14337911 TATTATTATT
*
14337921 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
14337949 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
14337977 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
14337999 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:14337998 original size:31 final size:28
Alignment explanation
Indices: 14337932--14337999 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
14337922 ATATAAATAT
**
14337932 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
14337960 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
14337991 ATAAATTAA
1 ATAAATTAA
14338000 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:14338889 original size:3 final size:3
Alignment explanation
Indices: 14338875--14338925 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
14338865 GTGAGGTAAG
*
14338875 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14338923 TAT
1 TAT
14338926 GAGTGGGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14339340 original size:37 final size:39
Alignment explanation
Indices: 14339281--14339376 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
14339271 CGGATAGATT
* * * *
14339281 CGATGAGGTACTGGGTACCAACT-TT-CTTTG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTTGAACTAT-C
* *
14339318 CGATGAGACACTGGGTGTCAACTATTGCTTTGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTTGAACTATC
14339357 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
14339377 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTTGAACTATC
Found at i:14345417 original size:28 final size:29
Alignment explanation
Indices: 14345386--14345463 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
14345376 TATTATTATT
*
14345386 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
14345414 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
14345442 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
14345464 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:14345463 original size:31 final size:28
Alignment explanation
Indices: 14345397--14345464 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
14345387 ATATAAATAT
**
14345397 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
14345425 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
14345456 ATAAATTAA
1 ATAAATTAA
14345465 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:14346354 original size:3 final size:3
Alignment explanation
Indices: 14346340--14346378 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
14346330 GTGAGGTAAG
*
14346340 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14346379 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:14346793 original size:37 final size:39
Alignment explanation
Indices: 14346734--14346829 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
14346724 CGGATAGATT
* * * *
14346734 CGATGAGGTACTGGGTACCAACT-TT-CTTTG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTTGAACTAT-C
* *
14346771 CGATGAGACACTGGGTGTCAACTATTGCTTTGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTTGAACTATC
14346810 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
14346830 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTTGAACTATC
Found at i:14356057 original size:18 final size:17
Alignment explanation
Indices: 14356034--14356067 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14356024 ATTACATCCA
14356034 AATAAAACTCTCAATTAT
1 AATAAAACTCT-AATTAT
*
14356052 AATAAAATTCTAATTA
1 AATAAAACTCTAATTA
14356068 ATCCAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAAAACTCTAATTAT
Found at i:14362439 original size:40 final size:40
Alignment explanation
Indices: 14362382--14362599 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
14362372 CAGACGATAA
* * *
14362382 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAATTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
14362422 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
14362462 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
14362502 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
14362542 CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
14362582 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
14362600 TACTTGGCTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 148 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:14368762 original size:38 final size:38
Alignment explanation
Indices: 14368714--14368792 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
14368704 TTTCCCAAAC
* **
14368714 ATATAAGGGTTCACATAAATATAAGGTTTTGCATACAT
1 ATATAAGGGTTCACATAAATATAAGGGTTCACATACAT
* ** *
14368752 ATATAGGGGTTTGCATACATATAAGGGTTCACATACAT
1 ATATAAGGGTTCACATAAATATAAGGGTTCACATACAT
14368790 ATA
1 ATA
14368793 AGAGTTTGCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (38 bp):
ATATAAGGGTTCACATAAATATAAGGGTTCACATACAT
Found at i:14368776 original size:56 final size:55
Alignment explanation
Indices: 14368712--14368865 Score: 184
Period size: 56 Copynumber: 2.7 Consensus size: 55
14368702 TATTTCCCAA
**
14368712 ACATATAAGGGTTCACATAAATATAAGGTTTTGCATACATATATAGGGGTTTGCAT
1 ACATATAAGGGTTCACATAAATATAAGG-TTTGCATACATATATAGGGGTTCACAT
* *
14368768 ACATATAAGGGTTCACATACATATAAGAGTTTGCTTACATATATAGGGGTTCACAT
1 ACATATAAGGGTTCACATAAATATAAG-GTTTGCATACATATATAGGGGTTCACAT
* * *
14368824 ACATATGAGGATTTC-CATACATATATAGGGGTTTGCATACAT
1 ACATATAAGG-GTTCACATA-A-ATATA-AGGTTTGCATACAT
14368866 TGCATACATA
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
56 63 0.75
57 4 0.05
58 16 0.19
59 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (55 bp):
ACATATAAGGGTTCACATAAATATAAGGTTTGCATACATATATAGGGGTTCACAT
Found at i:14368806 original size:18 final size:18
Alignment explanation
Indices: 14368712--14368865 Score: 137
Period size: 18 Copynumber: 8.2 Consensus size: 18
14368702 TATTTCCCAA
**
14368712 ACATATAAGGGTTCACAT
1 ACATATAAGGGTTTGCAT
* *
14368730 AAATATAAGGTTTTGCAT
1 ACATATAAGGGTTTGCAT
14368748 ACATATATAGGGGTTTGCAT
1 ACATATA-A-GGGTTTGCAT
**
14368768 ACATATAAGGGTTCACAT
1 ACATATAAGGGTTTGCAT
* *
14368786 ACATATAAGAGTTTGCTT
1 ACATATAAGGGTTTGCAT
**
14368804 ACATATATAGGGGTTCACAT
1 ACATATA-A-GGGTTTGCAT
* * *
14368824 ACATATGAGGATTTCCAT
1 ACATATAAGGGTTTGCAT
14368842 ACATATATAGGGGTTTGCAT
1 ACATATA-A-GGGTTTGCAT
14368862 ACAT
1 ACAT
14368866 TGCATACATA
Statistics
Matches: 107, Mismatches: 23, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
18 62 0.58
19 5 0.05
20 40 0.37
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (18 bp):
ACATATAAGGGTTTGCAT
Found at i:14368812 original size:38 final size:37
Alignment explanation
Indices: 14368745--14368865 Score: 138
Period size: 38 Copynumber: 3.2 Consensus size: 37
14368735 TAAGGTTTTG
14368745 CATACATATATAGGGGTTTGCATACATATA-A-GGGTTCA
1 CATACATATA-A--GGTTTGCATACATATATAGGGGTTCA
*
14368783 CATACATATAAGAGTTTGCTTACATATATAGGGGTTCA
1 CATACATATAAG-GTTTGCATACATATATAGGGGTTCA
* * **
14368821 CATACATATGAGGATTTCCATACATATATAGGGGTTTG
1 CATACATATAAGG-TTTGCATACATATATAGGGGTTCA
14368859 CATACAT
1 CATACAT
14368866 TGCATACATA
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
35 1 0.01
36 14 0.19
37 3 0.04
38 55 0.75
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (37 bp):
CATACATATAAGGTTTGCATACATATATAGGGGTTCA
Found at i:14370260 original size:39 final size:39
Alignment explanation
Indices: 14370215--14370315 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
14370205 GCTCTGATGA
* *
14370215 GCTTCAGTTAGCCTTCAGGCTTCTGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
*
14370254 GTTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
* *
14370293 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
14370316 AAATCACGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
Found at i:14373247 original size:46 final size:45
Alignment explanation
Indices: 14373197--14373372 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
14373187 TGGTTGAGCA
14373197 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
14373243 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
14373290 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
14373336 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14373373 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:14373353 original size:93 final size:93
Alignment explanation
Indices: 14373194--14373364 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
14373184 GGATGGTTGA
* *
14373194 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
14373259 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
14373287 GCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
14373352 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
14373365 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:14376654 original size:16 final size:16
Alignment explanation
Indices: 14376633--14376666 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
14376623 TCTTTGTTGG
14376633 TCCTAAATCTTTCATC
1 TCCTAAATCTTTCATC
14376649 TCCTAAATCTTTCATC
1 TCCTAAATCTTTCATC
14376665 TC
1 TC
14376667 AAATTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (16 bp):
TCCTAAATCTTTCATC
Found at i:14380713 original size:23 final size:24
Alignment explanation
Indices: 14380669--14380713 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
14380659 AAGTAATAAC
*
14380669 TAGTAATTTTTCTTTTCTTGGAAA
1 TAGTAATTTTTCTTTTCATGGAAA
* *
14380693 TAGT-ATTTTTGTTTTGATGGA
1 TAGTAATTTTTCTTTTCATGGA
14380714 TCTAGGGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.22, C:0.04, G:0.18, T:0.56
Consensus pattern (24 bp):
TAGTAATTTTTCTTTTCATGGAAA
Found at i:14384363 original size:46 final size:49
Alignment explanation
Indices: 14384287--14384426 Score: 135
Period size: 53 Copynumber: 2.8 Consensus size: 49
14384277 ATTGTCACAT
** * * *
14384287 ATCACACACCGAACCCATAGT-CCTGCTATGGTCTTACACGG-ATC-A-C
1 ATCACACACCGATGCCATA-TCCCAGATATGGTCTTATACGGAATCAATC
*
14384333 ATCACACACCGATGCCATATCCCAGATATGGTCTTATACGGAATCATATT
1 ATCACACACCGATGCCATATCCCAGATATGGTCTTATACGGAATCA-ATC
* *
14384383 ATCATGTCACACCGATGCCATAGCCCAGTTATGGTCTTATACGG
1 ATCA---CACACCGATGCCATATCCCAGATATGGTCTTATACGG
14384427 GAACACATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
45 1 0.01
46 34 0.44
47 3 0.04
49 1 0.01
50 4 0.05
53 35 0.45
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (49 bp):
ATCACACACCGATGCCATATCCCAGATATGGTCTTATACGGAATCAATC
Found at i:14384416 original size:53 final size:53
Alignment explanation
Indices: 14384328--14384493 Score: 167
Period size: 52 Copynumber: 3.1 Consensus size: 53
14384318 TCTTACACGG
* * *
14384328 ATCACATCACACACCGATGCCATATCCCAGATATGGTCTTATAC-GGAA-TCAT
1 ATCACAT-TCACACCGATGCCATAGCCCAGATATGGTCTTATACGGGAACACAT
* *
14384380 ATTATCATGTCACACCGATGCCATAGCCCAGTTATGGTCTTATACGGGAACACAT
1 ATCA-CAT-TCACACCGATGCCATAGCCCAGATATGGTCTTATACGGGAACACAT
* * * * * * **
14384435 ATCACATT-GCACCAATGCCATAGCCTAGCTATGGTCTTAAATGGGCGCACAT
1 ATCACATTCACACCGATGCCATAGCCCAGATATGGTCTTATACGGGAACACAT
14384487 ATCACAT
1 ATCACAT
14384494 CTTTTCCGTT
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
52 46 0.48
53 37 0.39
54 7 0.07
55 6 0.06
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (53 bp):
ATCACATTCACACCGATGCCATAGCCCAGATATGGTCTTATACGGGAACACAT
Found at i:14384468 original size:52 final size:50
Alignment explanation
Indices: 14384282--14384473 Score: 164
Period size: 46 Copynumber: 3.9 Consensus size: 50
14384272 TGCACATTGT
** * * * *
14384282 CACATATCACA--CACCGAACCCATAGTCCTGCTATGGTCTTACACGGAT
1 CACATATCACATTCACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA
* *
14384330 CAC--ATCACA--CACCGATGCCATATCCCAGATATGGTCTTATACGGAA
1 CACATATCACATTCACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA
* * *
14384376 -TCATATTATCATGTCACACCGATGCCATAGCCCAGTTATGGTCTTATACGGGAA
1 CACATATCA-CAT-T--CACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAA
* *
14384430 CACATATCACATTGCACCAATGCCATAGCCTAGCTATGGTCTTA
1 CACATATCACATT-CACCGATGCCATAGCCCAGCTATGGTCTTA
14384474 AATGGGCGCA
Statistics
Matches: 116, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 35 0.30
47 3 0.03
48 5 0.04
52 27 0.23
53 32 0.28
54 7 0.06
55 6 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (50 bp):
CACATATCACATTCACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA
Found at i:14394014 original size:111 final size:111
Alignment explanation
Indices: 14393874--14394082 Score: 373
Period size: 111 Copynumber: 1.9 Consensus size: 111
14393864 TCTTTTATCA
* * *
14393874 AATTAAGCATTCAAACGATAAATTTTCTTAACGAAAATTTCAAACAAACATATTATCATGCTTTA
1 AATTAAGCATTCAAACGATAAAATTTCTTAACGAAAATTTCAAACAAACATATTATCATGATGTA
14393939 GACATTAAAATAATAAAATAATTATTATAACCTCAGATTTGTGGTC
66 GACATTAAAATAATAAAATAATTATTATAACCTCAGATTTGTGGTC
*
14393985 AATTAAGGATTCAAACGATAAAATTTCTTAACGAAAATTTCAAACAAACATATTATCATGATGTA
1 AATTAAGCATTCAAACGATAAAATTTCTTAACGAAAATTTCAAACAAACATATTATCATGATGTA
*
14394050 GACATTAAAATAATAAAATAATTATTATGACCT
66 GACATTAAAATAATAAAATAATTATTATAACCT
14394083 TGGATTTATG
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 93 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.33
Consensus pattern (111 bp):
AATTAAGCATTCAAACGATAAAATTTCTTAACGAAAATTTCAAACAAACATATTATCATGATGTA
GACATTAAAATAATAAAATAATTATTATAACCTCAGATTTGTGGTC
Found at i:14395407 original size:27 final size:27
Alignment explanation
Indices: 14395369--14395425 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
14395359 TCTGCCAGGG
14395369 AAGTTGCAGATGCAATTTTAAATTTGT
1 AAGTTGCAGATGCAATTTTAAATTTGT
*
14395396 AAGTTGCAGATGCAATTTTTAATTTGT
1 AAGTTGCAGATGCAATTTTAAATTTGT
14395423 AAG
1 AAG
14395426 GCGATAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (27 bp):
AAGTTGCAGATGCAATTTTAAATTTGT
Found at i:14399141 original size:96 final size:96
Alignment explanation
Indices: 14398964--14399141 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 96
14398954 TATTCTCTTG
* * * *
14398964 TTGGATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACATTGCACA
1 TTGGATATTTAATTGGACATCGAAAACCCTCATGATCTTTTAAACTACACCAATAACATTGCACA
* *
14399029 AAAGGTGATAGCTCAATATTTTTCTCTCTAT
66 AAAGGTGAGAGATCAATATTTTTCTCTCTAT
*
14399060 TTGGATATTTAATTGGACATCGAAAACCCTCATGATCTTTTAAACTACACCAATAACATTTCACA
1 TTGGATATTTAATTGGACATCGAAAACCCTCATGATCTTTTAAACTACACCAATAACATTGCACA
14399125 ACAA-GTGAGAGATCAAT
66 A-AAGGTGAGAGATCAAT
14399142 CGAACTGGTC
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
96 72 0.97
97 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (96 bp):
TTGGATATTTAATTGGACATCGAAAACCCTCATGATCTTTTAAACTACACCAATAACATTGCACA
AAAGGTGAGAGATCAATATTTTTCTCTCTAT
Found at i:14403602 original size:22 final size:24
Alignment explanation
Indices: 14403575--14403620 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
14403565 TTTTCTAATT
14403575 AAATCAAATATAA-AT-ATTAAAA
1 AAATCAAATATAACATAATTAAAA
*
14403597 AAATCAAATTTAACATAATTAAAA
1 AAATCAAATATAACATAATTAAAA
14403621 TTTATGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 2 0.10
24 7 0.33
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATCAAATATAACATAATTAAAA
Found at i:14427679 original size:86 final size:86
Alignment explanation
Indices: 14427534--14427702 Score: 338
Period size: 86 Copynumber: 2.0 Consensus size: 86
14427524 CCTTGTACAA
14427534 GAAAGCGTGGAAAGCAAAGAAAAAGCTAGTTGCACGATTATTAAATGTCATAACAATCTGCATAG
1 GAAAGCGTGGAAAGCAAAGAAAAAGCTAGTTGCACGATTATTAAATGTCATAACAATCTGCATAG
14427599 GTGGTTATTTATGGTCAAGGT
66 GTGGTTATTTATGGTCAAGGT
14427620 GAAAGCGTGGAAAGCAAAGAAAAAGCTAGTTGCACGATTATTAAATGTCATAACAATCTGCATAG
1 GAAAGCGTGGAAAGCAAAGAAAAAGCTAGTTGCACGATTATTAAATGTCATAACAATCTGCATAG
14427685 GTGGTTATTTATGGTCAA
66 GTGGTTATTTATGGTCAA
14427703 ACAACTCATT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.27
Consensus pattern (86 bp):
GAAAGCGTGGAAAGCAAAGAAAAAGCTAGTTGCACGATTATTAAATGTCATAACAATCTGCATAG
GTGGTTATTTATGGTCAAGGT
Found at i:14436714 original size:19 final size:19
Alignment explanation
Indices: 14436690--14436729 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14436680 AGCTCCCATA
14436690 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
14436709 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
14436728 TA
1 TA
14436730 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:14437990 original size:14 final size:14
Alignment explanation
Indices: 14437968--14438015 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14437958 ACCTAAACCG
*
14437968 ACCAATTTGTTCAT
1 ACCATTTTGTTCAT
*
14437982 ACCATTTTGTTCTT
1 ACCATTTTGTTCAT
* * *
14437996 ACCCTTTCGTTCCT
1 ACCATTTTGTTCAT
14438010 ACCATT
1 ACCATT
14438016 CCGTTCGTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.46
Consensus pattern (14 bp):
ACCATTTTGTTCAT
Found at i:14439116 original size:31 final size:32
Alignment explanation
Indices: 14439081--14439142 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
14439071 TAATTTAATT
* *
14439081 TTTTTTATTTTTCAT-ATTTTTTAAAATTTTA
1 TTTTTTATTTTTAATAATTATTTAAAATTTTA
*
14439112 TTTTTTATTTTTAATAATTATTTAAACTTTT
1 TTTTTTATTTTTAATAATTATTTAAAATTTT
14439143 TAGATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (32 bp):
TTTTTTATTTTTAATAATTATTTAAAATTTTA
Found at i:14439116 original size:32 final size:33
Alignment explanation
Indices: 14439066--14439142 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 33
14439056 TATTTTCATC
* * *
14439066 TTTTATAATTTAATTTTTTTTATTTTTCAT-ATT
1 TTTTAAAATTTTA-TTTTTTTATTTTTAATAATT
14439099 TTTTAAAATTTTA-TTTTTTATTTTTAATAATT
1 TTTTAAAATTTTATTTTTTTATTTTTAATAATT
* *
14439131 ATTTAAACTTTT
1 TTTTAAAATTTT
14439143 TAGATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 14 0.37
32 13 0.34
33 11 0.29
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (33 bp):
TTTTAAAATTTTATTTTTTTATTTTTAATAATT
Found at i:14439224 original size:10 final size:10
Alignment explanation
Indices: 14439209--14439233 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14439199 TATAAATTTC
14439209 AAAATATTGA
1 AAAATATTGA
14439219 AAAATATTGA
1 AAAATATTGA
14439229 AAAAT
1 AAAAT
14439234 CTGAAATTAT
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:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (10 bp):
AAAATATTGA
Found at i:14439907 original size:37 final size:37
Alignment explanation
Indices: 14439864--14439938 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
14439854 TCGTGCCTGT
14439864 CAGATAAGCGCAAATGGTCGCGCTTGACAGGTAGGCG
1 CAGATAAGCGCAAATGGTCGCGCTTGACAGGTAGGCG
*
14439901 CAGATAAGCGCAACTGGTCGCGCTTGACAGGTAGGCG
1 CAGATAAGCGCAAATGGTCGCGCTTGACAGGTAGGCG
14439938 C
1 C
14439939 CACTGCCTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.35, T:0.16
Consensus pattern (37 bp):
CAGATAAGCGCAAATGGTCGCGCTTGACAGGTAGGCG
Found at i:14440125 original size:3 final size:3
Alignment explanation
Indices: 14440112--14440159 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
14440102 GAAGGAAAGG
* *
14440112 AGA AGA A-A AGA AGA GGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
14440159 A
1 A
14440160 AAGGTAATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:14440398 original size:59 final size:59
Alignment explanation
Indices: 14440318--14440445 Score: 204
Period size: 59 Copynumber: 2.2 Consensus size: 59
14440308 AAATTTTTTT
* *
14440318 TTGTTT-TTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATAATGTTATAAA
1 TTGTTTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATAATATTATAAA
* *
14440376 TTGTTTGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATATTATAAA
1 TTGTTTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATAATATTATAAA
14440435 TTGTTGTGTTT
1 TTGTT-TGTTT
14440446 CGTTTAGTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 6 0.09
59 53 0.83
60 5 0.08
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (59 bp):
TTGTTTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATAATATTATAAA
Found at i:14442839 original size:33 final size:33
Alignment explanation
Indices: 14442802--14442947 Score: 143
Period size: 33 Copynumber: 4.4 Consensus size: 33
14442792 TCCACCTTAG
* *
14442802 TACTCTACTCATTTCTG-CCTGTATCCACCGCCA
1 TACTCTACTC-CTCCTGACCTGTATCCACCGCCA
* *
14442835 TACTCCACTCCTCCTGACCTGTATCCACTGCCA
1 TACTCTACTCCTCCTGACCTGTATCCACCGCCA
* **
14442868 TACTCTACTCCTCCTGACTTGTATCCACCGCTG
1 TACTCTACTCCTCCTGACCTGTATCCACCGCCA
* * * * *
14442901 TACTCTATTCCTCCCGGCCCGTATCCACTGCTC-
1 TACTCTACTCCTCCTGACCTGTATCCACCGC-CA
*
14442934 TACTCCACTCCTCC
1 TACTCTACTCCTCC
14442948 CGGCTCAAGT
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
32 4 0.04
33 89 0.96
ACGTcount: A:0.16, C:0.44, G:0.10, T:0.31
Consensus pattern (33 bp):
TACTCTACTCCTCCTGACCTGTATCCACCGCCA
Done.