Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 137 of 195
Found at i:23008480 original size:20 final size:20
Alignment explanation
Indices: 23008392--23008502 Score: 95
Period size: 20 Copynumber: 5.6 Consensus size: 20
23008382 TCTAGGTTAG
*
23008392 GGTTTAA-GTTTAAGGTTTT
1 GGTTTAAGGTTTAAGGTTTA
* *
23008411 GGATTAAAGGTTTAGGGTTTA
1 GG-TTTAAGGTTTAAGGTTTA
* *
23008432 GGTTTACGGTTT-GGGTTTA
1 GGTTTAAGGTTTAAGGTTTA
* *
23008451 GG-GTATAGGTTTATGGTTT-
1 GGTTTA-AGGTTTAAGGTTTA
23008470 GGATTTAAGGTTTAAGGTTTA
1 GG-TTTAAGGTTTAAGGTTTA
*
23008491 GGTTTAGGGTTT
1 GGTTTAAGGTTT
23008503 GAGATTTGGG
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
18 2 0.03
19 18 0.24
20 38 0.51
21 16 0.22
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.46
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTTA
Found at i:23008514 original size:20 final size:20
Alignment explanation
Indices: 23008391--23008515 Score: 58
Period size: 20 Copynumber: 6.3 Consensus size: 20
23008381 GTCTAGGTTA
*
23008391 GGGTTTAA-GTTTAAGGTTTT
1 GGGTTTAAGGTTTAA-GATTT
* * * *
23008411 GGATTAAAGGTTTAGGGTTT
1 GGGTTTAAGGTTTAAGATTT
* * * *
23008431 AGGTTTACGGTTT-GGGTTT
1 GGGTTTAAGGTTTAAGATTT
* * *
23008450 AGGGTAT-AGGTTTATGGTTT
1 -GGGTTTAAGGTTTAAGATTT
* *
23008470 GGATTTAAGGTTTAAGGTTT
1 GGGTTTAAGGTTTAAGATTT
* * *
23008490 AGGTTTAGGGTTTGAGATTT
1 GGGTTTAAGGTTTAAGATTT
23008510 GGGTTT
1 GGGTTT
23008516 CGATTTTGTA
Statistics
Matches: 80, Mismatches: 21, Indels: 8
0.73 0.19 0.07
Matches are distributed among these distances:
19 15 0.19
20 60 0.75
21 5 0.06
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (20 bp):
GGGTTTAAGGTTTAAGATTT
Found at i:23010072 original size:143 final size:143
Alignment explanation
Indices: 23009857--23010180 Score: 338
Period size: 142 Copynumber: 2.3 Consensus size: 143
23009847 TTATTTTTGT
* *
23009857 AAGCACCAAAAATCCTAAAATAATA-TAAAATTATGATTTGGAGCATTTTGCAAAAAAACTGACG
1 AAGCACCAAAAATCATAAAATAATATTAAAATTATGATTTAGAGCATTTTGCAAAAAAACTGACG
* ** * * * * *
23009921 TAAGAAGGTTAAATTACGAAATTA-CTTTTAAGGGTATTTTAGTAATTTTACACCTTTTAAGATG
66 TAAGAAGGTCAAATTA-GAAAAAATCTTTT-AGGGCATTTTAGTAATATTACACCGTCTAAGATA
23009985 CAATCAAAGTTTCTA
129 CAATCAAAGTTTCTA
* *
23010000 AAGCACCAAAAATCATGAAATAATATTAAAA-TATGATCTTAGAGTATTTTGC-AAAAAA-TGAT
1 AAGCACCAAAAATCATAAAATAATATTAAAATTATGAT-TTAGAGCATTTTGCAAAAAAACTGA-
** * * * *
23010062 C-TTGGAAAGGTCAAATTATAAAAAATCTTTTGGGGCATTTTAGTAATATTACACCGTCTGAGGT
64 CGTAAG-AAGGTCAAATTAGAAAAAATCTTTTAGGGCATTTTAGTAATATTACACCGTCTAAGAT
* *
23010126 ACGATCAAAGTTTTTA
128 ACAATCAAAGTTTCTA
* * * *
23010142 ATGGACCAAAAATCATCAAATAATATT-AAATCATGATTT
1 AAGCACCAAAAATCATAAAATAATATTAAAATTATGATTT
23010181 GAAATTTTTC
Statistics
Matches: 151, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
141 5 0.03
142 77 0.51
143 52 0.34
144 17 0.11
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (143 bp):
AAGCACCAAAAATCATAAAATAATATTAAAATTATGATTTAGAGCATTTTGCAAAAAAACTGACG
TAAGAAGGTCAAATTAGAAAAAATCTTTTAGGGCATTTTAGTAATATTACACCGTCTAAGATACA
ATCAAAGTTTCTA
Found at i:23010240 original size:142 final size:143
Alignment explanation
Indices: 23010094--23010353 Score: 324
Period size: 142 Copynumber: 1.8 Consensus size: 143
23010084 AAATCTTTTG
* * ** *
23010094 GGGCATTTTAGTAATATTACACCGTCTGAGGTACGATCAAAGTTTTTAATGGACCAAAAATCATC
1 GGGCATTTTAGTAATATTACACCGTCTAAGGTACGATCAAAGTCTACAATGCACCAAAAATCATC
* * * *
23010159 AAATAATATTAAATCATGATTTGAAATTTTTCATGAAAAA-CTATCTCAAGAAGGTCAAAAGATG
66 AAATAATATTAAATCATGATCTGAAACTTTTCATAAAAAATCAATCTCAAGAAGGTCAAAAGATG
23010223 AAAATACCCTAAA
131 AAAATACCCTAAA
* * * * ** * * * *
23010236 GGGCATTTTGGTAGTTTTATACTTTTTAAGGTGCGATCAAGGTCTACAATGCACTAAAAATCATC
1 GGGCATTTTAGTAATATTACACCGTCTAAGGTACGATCAAAGTCTACAATGCACCAAAAATCATC
* *
23010301 AAATAATATTAAATCATGATCTGGAGCTTTTCATAAAAAATCAATCTCAAGAA
66 AAATAATATTAAATCATGATCTGAAACTTTTCATAAAAAATCAATCTCAAGAA
23010354 TATCAAATTA
Statistics
Matches: 96, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
142 85 0.89
143 11 0.11
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (143 bp):
GGGCATTTTAGTAATATTACACCGTCTAAGGTACGATCAAAGTCTACAATGCACCAAAAATCATC
AAATAATATTAAATCATGATCTGAAACTTTTCATAAAAAATCAATCTCAAGAAGGTCAAAAGATG
AAAATACCCTAAA
Found at i:23013269 original size:17 final size:16
Alignment explanation
Indices: 23013247--23013299 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
23013237 CACATACATG
23013247 ATTCCATAAAACCCTAA
1 ATTCCAT-AAACCCTAA
*
23013264 ATTCCATGAAACCCAAA
1 ATTCCAT-AAACCCTAA
* *
23013281 ATTCCCTAAATCCTAA
1 ATTCCATAAACCCTAA
23013297 ATT
1 ATT
23013300 TGAAACCCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
16 10 0.32
17 21 0.68
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.26
Consensus pattern (16 bp):
ATTCCATAAACCCTAA
Found at i:23013333 original size:15 final size:15
Alignment explanation
Indices: 23013309--23013343 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
23013299 TTGAAACCCC
* *
23013309 AAAACTCTAAATCTT
1 AAAACCCTAAACCTT
23013324 AAAACCCTAAACCTT
1 AAAACCCTAAACCTT
23013339 AAAAC
1 AAAAC
23013344 ATACCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAACCCTAAACCTT
Found at i:23013335 original size:22 final size:23
Alignment explanation
Indices: 23013284--23013335 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
23013274 ACCCAAAATT
*
23013284 CCCTAAA-TCCTAAATTTGAAAC
1 CCCTAAACTCCTAAATTTGAAAA
*
23013306 CCCAAAACT-CTAAATCTT-AAAA
1 CCCTAAACTCCTAAAT-TTGAAAA
23013328 CCCTAAAC
1 CCCTAAAC
23013336 CTTAAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.23
Consensus pattern (23 bp):
CCCTAAACTCCTAAATTTGAAAA
Found at i:23013341 original size:22 final size:21
Alignment explanation
Indices: 23013284--23013341 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 21
23013274 ACCCAAAATT
*
23013284 CCCTAAATCC-TAAATTTGAAA
1 CCCTAAA-CCTTAAATTTAAAA
* *
23013305 CCCCAAAACTCTAAATCTTAAAA
1 CCCTAAACCT-TAAAT-TTAAAA
23013328 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
23013342 ACATACCCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 1 0.03
21 6 0.21
22 9 0.31
23 13 0.45
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (21 bp):
CCCTAAACCTTAAATTTAAAA
Found at i:23013368 original size:19 final size:18
Alignment explanation
Indices: 23013326--23013368 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
23013316 TAAATCTTAA
* *
23013326 AACCCTAAACCTTAAAAC
1 AACCCCAAACCCTAAAAC
23013344 ATACCCCAAACCCTAAAATC
1 A-ACCCCAAACCCTAAAA-C
23013364 AACCC
1 AACCC
23013369 TTGATCCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 18 0.86
20 2 0.10
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.14
Consensus pattern (18 bp):
AACCCCAAACCCTAAAAC
Found at i:23015951 original size:15 final size:15
Alignment explanation
Indices: 23015908--23015954 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
23015898 AAATTGATTT
*
23015908 TTATATATTTCAAATA
1 TTATAT-TTTAAAATA
23015924 -TAT-TTTATAAAATA
1 TTATATTT-TAAAATA
23015938 TTATATTTTAAAATA
1 TTATATTTTAAAATA
23015953 TT
1 TT
23015955 TTTTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 2 0.07
14 7 0.26
15 15 0.56
16 3 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATATTTTAAAATA
Found at i:23018738 original size:40 final size:40
Alignment explanation
Indices: 23018694--23018773 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
23018684 CTATAATTCT
23018694 TTTTAACTTTTTAAATTAATTCTTCATTTTAGACTAACTC
1 TTTTAACTTTTTAAATTAATTCTTCATTTTAGACTAACTC
*
23018734 TTTTAACTTTTTAAATTATTTCTTCATTTTAGACTAACTC
1 TTTTAACTTTTTAAATTAATTCTTCATTTTAGACTAACTC
23018774 AAACTTCGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.54
Consensus pattern (40 bp):
TTTTAACTTTTTAAATTAATTCTTCATTTTAGACTAACTC
Found at i:23021737 original size:6 final size:6
Alignment explanation
Indices: 23021726--23021754 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23021716 TTTGCAGCTT
23021726 CTTCTG CTTCTG CTTCTG CTTCTG CTTCT
1 CTTCTG CTTCTG CTTCTG CTTCTG CTTCT
23021755 ACATCATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.34, G:0.14, T:0.52
Consensus pattern (6 bp):
CTTCTG
Found at i:23022611 original size:2 final size:2
Alignment explanation
Indices: 23022604--23022637 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
23022594 TAATATTCTT
*
23022604 TA TA TA TA TA TA TA TA TA TA T- TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23022638 CACATAACCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:23030866 original size:16 final size:16
Alignment explanation
Indices: 23030837--23030874 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
23030827 TAATTAATGA
23030837 ATTTAATTTTAAATAT
1 ATTTAATTTTAAATAT
23030853 ATTT-ATTTTAAA-AT
1 ATTTAATTTTAAATAT
*
23030867 AATTAATT
1 ATTTAATT
23030875 ATGACTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 11 0.55
16 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTAATTTTAAATAT
Found at i:23033792 original size:160 final size:161
Alignment explanation
Indices: 23033509--23034301 Score: 681
Period size: 160 Copynumber: 5.0 Consensus size: 161
23033499 ATTATAGTAG
* * * ** * * *
23033509 TAAATTTATATTTTTACCCTTTAATGGCACAAAAAGTCCTAAAAACACATCAAC-GTAACATTTC
1 TAAATTTATATTTTTGCCTTTTGACAGCATAAAAAGTCCTAAAAACACATAAACAGTAACATTTT
* * * ** * ** ** * * * *
23033573 CACACATATCCAGCTTGGTGGCCAAGTTCAACCATTTGGGCATGTTTAACATTATGTATTAGAGG
66 CATACATATCAAGCATGGCAGCCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAGC
* *
23033638 TATATAAACTATTAAAACAGTAATATAACTA
131 TATCTAAACTATTAAAACAGAAATATAACTA
* * ** ** *
23033669 CAAATTTATGTTTTTGTTTTTTGATGGCATAAAAAGTCCTAAAAACACATAAACAGCAAC-TTGT
1 TAAATTTATATTTTTGCCTTTTGACAGCATAAAAAGTCCTAAAAACACATAAACAGTAACATT-T
* * * * * * * *
23033733 TCATACATATCAAGCATGGCAGCCAAGATC-ATTATTCAAACAAATTTAATGTCATGTATTGGAA
65 TCATACATATCAAGCATGGCAGCCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAG
* * * * *
23033797 TTATTTAAACTGTTAAAACATAAA-AT-AGTAA
130 CTATCTAAACTATTAAAACAGAAATATAACT-A
* * * *
23033828 TAAATTTATAATTTTGCCTTTTGACAGCATAAAAGGTCTTAAAAACGCATAAACCA-TAACATTT
1 TAAATTTATATTTTTGCCTTTTGACAGCATAAAAAGTCCTAAAAACACATAAA-CAGTAACATTT
* * * *
23033892 TCATACTTATCAAGCATGGCAGCAAAGTTCAATCATTCAGATAAGTTTAATATTATGTATTGGAG
65 TCATACATATCAAGCATGGCAGCCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAG
* * * *
23033957 CTATCTAAATTGTTAAAATAAAAATATAACTA
130 CTATCTAAACTATTAAAACAGAAATATAACTA
* ** * * * * * * *
23033989 AAAATTTGCATTTTTACCCTTTGACAACATAAAAAGTTCTAAAAACAAAAAAATAGTAACATTTT
1 TAAATTTATATTTTTGCCTTTTGACAGCATAAAAAGTCCTAAAAACACATAAACAGTAACATTTT
* * *
23034054 CACT-CATATCAAGCATGGCAACCAAGTTCAACCATTCAGATAAGTTTAATATCATGTATTAAAG
66 CA-TACATATCAAGCATGGCAGCCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAG
*
23034118 CTATCTATACTATT-AAACAGAAATATAACTA
130 CTATCTAAACTATTAAAACAGAAATATAACTA
* ** * *
23034149 TAAATTTATATTTTTGCCTTTTGACAGTATAAAAAGTCCTAAACGCACATAAACAATAAC-GTTT
1 TAAATTTATATTTTTGCCTTTTGACAGCATAAAAAGTCCTAAAAACACATAAACAGTAACATTTT
* ** * * * * *
23034213 CACACATATCAAGTGTGGCAGCCAAGTTCAACCATT-TGTACAAGTTCAATATTATGTATT-GAA
66 CATACATATCAAGCATGGCAGCCAAGTTCAATCATTCAG-ATAAGTTTAATATCATGTATTAG-A
* * *
23034276 GCTATCTAAATTGTTAAAATAGAAAT
129 GCTATCTAAACTATTAAAACAGAAAT
23034302 GGAGCTATCC
Statistics
Matches: 502, Mismatches: 117, Indels: 28
0.78 0.18 0.04
Matches are distributed among these distances:
158 3 0.01
159 142 0.28
160 208 0.41
161 146 0.29
162 3 0.01
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (161 bp):
TAAATTTATATTTTTGCCTTTTGACAGCATAAAAAGTCCTAAAAACACATAAACAGTAACATTTT
CATACATATCAAGCATGGCAGCCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAGC
TATCTAAACTATTAAAACAGAAATATAACTA
Found at i:23034317 original size:29 final size:29
Alignment explanation
Indices: 23034275--23034331 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
23034265 TATGTATTGA
* *
23034275 AGCTATCTAAATTGTTAAAATAGAAATGG
1 AGCTATCCAAATTGTTAAAACAGAAATGG
23034304 AGCTATCCAAATTGTTAAAACAGAAATG
1 AGCTATCCAAATTGTTAAAACAGAAATG
23034332 CAACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (29 bp):
AGCTATCCAAATTGTTAAAACAGAAATGG
Found at i:23034338 original size:29 final size:29
Alignment explanation
Indices: 23034277--23034338 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
23034267 TGTATTGAAG
* * * *
23034277 CTATCTAAATTGTTAAAATAGAAATGGAG
1 CTATCCAAATTGTTAAAACAGAAATGCAA
23034306 CTATCCAAATTGTTAAAACAGAAATGCAA
1 CTATCCAAATTGTTAAAACAGAAATGCAA
23034335 CTAT
1 CTAT
23034339 AAATTTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (29 bp):
CTATCCAAATTGTTAAAACAGAAATGCAA
Found at i:23039642 original size:16 final size:16
Alignment explanation
Indices: 23039621--23039659 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
23039611 ATTGTGCTTG
23039621 AAGAAAAAAAAAAGAA
1 AAGAAAAAAAAAAGAA
* *
23039637 AAGAAAGAAAGAAGAA
1 AAGAAAAAAAAAAGAA
23039653 AA-AAAAA
1 AAGAAAAA
23039660 GAAGAAAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAAAAAGAA
Found at i:23039648 original size:24 final size:24
Alignment explanation
Indices: 23039621--23039668 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
23039611 ATTGTGCTTG
23039621 AAGAA-AAAAAAAAGAAAAGAAAGA
1 AAGAAGAAAAAAAA-AAAAGAAAGA
*
23039645 AAGAAGAAAAAAAAAGAAGAAAGA
1 AAGAAGAAAAAAAAAAAAGAAAGA
23039669 CCCATAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (24 bp):
AAGAAGAAAAAAAAAAAAGAAAGA
Found at i:23039667 original size:20 final size:20
Alignment explanation
Indices: 23039620--23039668 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
23039610 TATTGTGCTT
23039620 GAAGAAA-AAAAAAAGAAAA
1 GAAGAAAGAAAAAAAGAAAA
23039639 GAAAGAAAGAAGAAAAA-AAAA
1 G-AAGAAAGAA-AAAAAGAAAA
23039660 GAAGAAAGA
1 GAAGAAAGA
23039669 CCCATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.04
20 14 0.52
21 7 0.26
22 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
GAAGAAAGAAAAAAAGAAAA
Found at i:23043823 original size:32 final size:32
Alignment explanation
Indices: 23043787--23043887 Score: 166
Period size: 32 Copynumber: 3.2 Consensus size: 32
23043777 ATAAATATTT
**
23043787 AAGCTACTAAATATTAAGCTCAATTTCAAGGC
1 AAGCTACTAAATGCTAAGCTCAATTTCAAGGC
*
23043819 AAGCTACTAAATGCTAAGCTCAATTTCAAGGT
1 AAGCTACTAAATGCTAAGCTCAATTTCAAGGC
*
23043851 AAGCTATTAAATGCTAAGCTCAATTTCAAGGC
1 AAGCTACTAAATGCTAAGCTCAATTTCAAGGC
23043883 AAGCT
1 AAGCT
23043888 CAAGGAAAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (32 bp):
AAGCTACTAAATGCTAAGCTCAATTTCAAGGC
Found at i:23043855 original size:17 final size:17
Alignment explanation
Indices: 23043833--23043890 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
23043823 TACTAAATGC
23043833 TAAGCTCAATTTCAAGG
1 TAAGCTCAATTTCAAGG
* *
23043850 TAAGCT--A-TTAAATGC
1 TAAGCTCAATTTCAA-GG
23043865 TAAGCTCAATTTCAAGG
1 TAAGCTCAATTTCAAGG
*
23043882 CAAGCTCAA
1 TAAGCTCAA
23043891 GGAAAACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 4 0.12
15 8 0.25
17 16 0.50
18 4 0.12
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (17 bp):
TAAGCTCAATTTCAAGG
Found at i:23051190 original size:13 final size:13
Alignment explanation
Indices: 23051172--23051207 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
23051162 ATAATGTTCT
*
23051172 TTGCATTCATCCA
1 TTGCATGCATCCA
23051185 TTGCATGCATCCA
1 TTGCATGCATCCA
*
23051198 TTGTATGCAT
1 TTGCATGCAT
23051208 ATTGCAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (13 bp):
TTGCATGCATCCA
Found at i:23051490 original size:42 final size:43
Alignment explanation
Indices: 23051387--23051504 Score: 166
Period size: 43 Copynumber: 2.8 Consensus size: 43
23051377 AAAATGGGAT
* * *
23051387 TTTTAAAGTTGTTGAGCCTCTATTTTGAGGAGCTTTTTCAAAA
1 TTTTAAAGTTGTTGAGCCTATGTTTAGAGGAGCTTTTTCAAAA
**
23051430 TTTTAAAGTTGTCAAGCCTATGTTTAGAGGAGCTTTTTC-AAA
1 TTTTAAAGTTGTTGAGCCTATGTTTAGAGGAGCTTTTTCAAAA
* *
23051472 TTTTAAAGTTGTTGAGCCTTTGTTTAAAGGAGC
1 TTTTAAAGTTGTTGAGCCTATGTTTAGAGGAGC
23051505 ATTTCAGGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.42
Consensus pattern (43 bp):
TTTTAAAGTTGTTGAGCCTATGTTTAGAGGAGCTTTTTCAAAA
Found at i:23051539 original size:48 final size:47
Alignment explanation
Indices: 23051486--23051647 Score: 129
Period size: 47 Copynumber: 3.4 Consensus size: 47
23051476 AAAGTTGTTG
23051486 AGCCTTTGTTTAAAGGAGCATTTCAGGATGAAATTTTTAAAGTTTCAA
1 AGCCTTTGTTTAAAGGAGCATTTCA-GATGAAATTTTTAAAGTTTCAA
* *
23051534 AGCC-TTGTTTAAA-AAGGCTTTTCTAGATGAGAA-TTTTAAAGTTTCAA
1 AGCCTTTGTTTAAAGGA-GCATTTC-AGATGA-AATTTTTAAAGTTTCAA
* * * * * **
23051581 AGCTTTTATTT-AAGGA-AATTTTTCATGATAAAATTTTTAATGTCTT-TG
1 AGCCTTTGTTTAAAGGAGCA--TTTCA-GATGAAATTTTTAAAGT-TTCAA
23051629 AGCCTTTGTTTAAAGGAGC
1 AGCCTTTGTTTAAAGGAGC
23051648 TTTAAAGTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
46 1 0.01
47 42 0.48
48 38 0.43
49 7 0.08
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (47 bp):
AGCCTTTGTTTAAAGGAGCATTTCAGATGAAATTTTTAAAGTTTCAA
Found at i:23051676 original size:46 final size:46
Alignment explanation
Indices: 23051626--23051776 Score: 205
Period size: 47 Copynumber: 3.2 Consensus size: 46
23051616 TTTAATGTCT
* *
23051626 TTGAGCCTTTGTTTAAAGGAGCTTTAAAGTTTATTTTCAAAAATTG
1 TTGAGCCTTTGTTTAAAGGAGCTTTAAAATTTATTTTCAAAAGTTG
* * * *
23051672 TTGAGCCTTTGTTTAGAGGAGTTCTTAAAATTTATTTTCAGAAGTTA
1 TTGAGCCTTTGTTTAAAGGAGCT-TTAAAATTTATTTTCAAAAGTTG
*
23051719 TTGAGCTTTTGTTTAAAGGAGCTTTTAAAATTTATTTTCAAAAGTTG
1 TTGAGCCTTTGTTTAAAGGAGC-TTTAAAATTTATTTTCAAAAGTTG
23051766 -TGAAGCCTTTG
1 TTG-AGCCTTTG
23051777 ATAAAATGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
46 23 0.26
47 66 0.73
48 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (46 bp):
TTGAGCCTTTGTTTAAAGGAGCTTTAAAATTTATTTTCAAAAGTTG
Found at i:23051824 original size:22 final size:23
Alignment explanation
Indices: 23051794--23051836 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
23051784 GAGTTTTTTA
*
23051794 AAAACACAAAATAAAAAAAAACC
1 AAAACACAAAAGAAAAAAAAACC
23051817 AAAA-ACAAAAGAAAAAAAAA
1 AAAACACAAAAGAAAAAAAAA
23051837 GAAAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (23 bp):
AAAACACAAAAGAAAAAAAAACC
Found at i:23051842 original size:22 final size:22
Alignment explanation
Indices: 23051793--23051848 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
23051783 TGAGTTTTTT
*
23051793 AAAAACACAAAATAAAAAAAAAC
1 AAAAA-ACAAAAGAAAAAAAAAC
* *
23051816 CAAAAACAAAAGAAAAAAAAAG
1 AAAAAACAAAAGAAAAAAAAAC
*
23051838 AAAAAAGAAAA
1 AAAAAACAAAA
23051849 AAATCTCTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.84, C:0.09, G:0.05, T:0.02
Consensus pattern (22 bp):
AAAAAACAAAAGAAAAAAAAAC
Found at i:23051851 original size:10 final size:10
Alignment explanation
Indices: 23051801--23051843 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
23051791 TTAAAAACAC
*
23051801 AAAATAAAAA
1 AAAAGAAAAA
*
23051811 AAAACCAAAAA
1 AAAA-GAAAAA
23051822 CAAAAGAAAAA
1 -AAAAGAAAAA
23051833 AAAAGAAAAA
1 AAAAGAAAAA
23051843 A
1 A
23051844 GAAAAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 15 0.52
11 10 0.34
12 4 0.14
ACGTcount: A:0.86, C:0.07, G:0.05, T:0.02
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:23052828 original size:25 final size:25
Alignment explanation
Indices: 23052794--23052841 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
23052784 GGTCATTGTT
*
23052794 TTGTTGTTTGAAGCTTAAAGCTTAC
1 TTGTTATTTGAAGCTTAAAGCTTAC
23052819 TTGTTATTTGAAGCTTAAAGCTT
1 TTGTTATTTGAAGCTTAAAGCTT
23052842 CAAAGGTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.46
Consensus pattern (25 bp):
TTGTTATTTGAAGCTTAAAGCTTAC
Found at i:23053966 original size:17 final size:18
Alignment explanation
Indices: 23053944--23053984 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
23053934 TAGTAAAAAC
23053944 AATAAAAAATATA-AT-AT
1 AATAAAAAATA-AGATAAT
23053961 AATAAAAAATAAGATAAT
1 AATAAAAAATAAGATAAT
23053979 AATAAA
1 AATAAA
23053985 TTAAAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 13 0.59
18 8 0.36
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AATAAAAAATAAGATAAT
Found at i:23060774 original size:46 final size:45
Alignment explanation
Indices: 23060706--23060896 Score: 195
Period size: 46 Copynumber: 4.2 Consensus size: 45
23060696 GGCTTGTATC
* * *
23060706 AAGTTGTTGAGCCTTTGGTTAAAGGAGTTTTTAAATTTATTTTATA
1 AAGTTGTTGAGTCTATGTTTAAAGGAGTTTTTAAATTTATTTTA-A
*** **
23060752 AAGTTGTTGAGTCTATGTTTAAAGGAGCCCTTAAATTTACTTTCGA
1 AAGTTGTTGAGTCTATGTTTAAAGGAGTTTTTAAATTTA-TTTTAA
* *
23060798 AAGTTGTTGAGTATTTGTTTAAAGGAGTTTTTAAATTTATTTTCAA
1 AAGTTGTTGAGTCTATGTTTAAAGGAGTTTTTAAATTTATTTT-AA
** * * *
23060844 AAGTCATTGAGTCTATGCTTAAA-AAATATTTTAAATTTACTTTTAA
1 AAGTTGTTGAGTCTATGTTTAAAGGAGT-TTTTAAATTTA-TTTTAA
23060890 AAGTTGT
1 AAGTTGT
23060897 GAAGCTTTTG
Statistics
Matches: 117, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
45 5 0.04
46 105 0.90
47 7 0.06
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (45 bp):
AAGTTGTTGAGTCTATGTTTAAAGGAGTTTTTAAATTTATTTTAA
Found at i:23060878 original size:92 final size:92
Alignment explanation
Indices: 23060706--23060896 Score: 240
Period size: 92 Copynumber: 2.1 Consensus size: 92
23060696 GGCTTGTATC
* ** *
23060706 AAGTTGTTGAGCCTTTGGTTAAAGGAGTTTTTAAATTTATTTTATAAAGTTGTTGAGTCTATGTT
1 AAGTTGTTGAGCATTTGGTTAAAGGAGTTTTTAAATTTATTTTATAAAGTCATTGAGTCTATGCT
** * *
23060771 TAAAGGAGCCCTTAAATTTACTTTCGA
66 TAAAAAAGACCTTAAATTTACTTTCAA
* *
23060798 AAGTTGTTGAGTATTTGTTTAAAGGAGTTTTTAAATTTATTTTCA-AAAGTCATTGAGTCTATGC
1 AAGTTGTTGAGCATTTGGTTAAAGGAGTTTTTAAATTTATTTT-ATAAAGTCATTGAGTCTATGC
* ** *
23060862 TTAAAAAATATTTTAAATTTACTTTTAA
65 TTAAAAAAGACCTTAAATTTACTTTCAA
23060890 AAGTTGT
1 AAGTTGT
23060897 GAAGCTTTTG
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 83 0.99
93 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (92 bp):
AAGTTGTTGAGCATTTGGTTAAAGGAGTTTTTAAATTTATTTTATAAAGTCATTGAGTCTATGCT
TAAAAAAGACCTTAAATTTACTTTCAA
Found at i:23060914 original size:92 final size:92
Alignment explanation
Indices: 23060726--23060925 Score: 208
Period size: 92 Copynumber: 2.2 Consensus size: 92
23060716 GCCTTTGGTT
** * ** *
23060726 AAAGGAGTTTTTAAATTTATTTTATAAAGTTGTTGAGTCTATGTTTAAAGGAGCCCTTAAATTTA
1 AAAGGAGTTTTTAAATTTATTTTATAAAGTCATTGAGTCTATGCTTAAAAAAGACCTTAAATTTA
* ***
23060791 CTTTCGAAAGTTGTTGAGTATTTGTTT
66 CTTTCAAAAGTTGTTGAGTATTTGACA
* **
23060818 AAAGGAGTTTTTAAATTTATTTTCA-AAAGTCATTGAGTCTATGCTTAAAAAATATTTTAAATTT
1 AAAGGAGTTTTTAAATTTATTTT-ATAAAGTCATTGAGTCTATGCTTAAAAAAGACCTTAAATTT
*
23060882 ACTTTTAAAAGTTG-TGAAGCT-TTTGACA
65 ACTTTCAAAAGTTGTTG-AG-TATTTGACA
* *
23060910 AAAGGAGCTTTCAAAT
1 AAAGGAGTTTTTAAAT
23060926 GGTTAGGTAC
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
91 2 0.02
92 85 0.96
93 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.42
Consensus pattern (92 bp):
AAAGGAGTTTTTAAATTTATTTTATAAAGTCATTGAGTCTATGCTTAAAAAAGACCTTAAATTTA
CTTTCAAAAGTTGTTGAGTATTTGACA
Found at i:23060965 original size:6 final size:6
Alignment explanation
Indices: 23060946--23061011 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
23060936 TTCAAATTTT
* *
23060946 AAATAA AGAT-A AAATAAA AAATAAA AAATAA AAACAAA AAATAAA AAATAA
1 AAATAA AAATAA AAAT-AA AAAT-AA AAATAA AAA-TAA AAAT-AA AAATAA
* *
23060997 AAACAA AAACAA AAA
1 AAATAA AAATAA AAA
23061012 ACAAAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 4 0.08
6 24 0.47
7 23 0.45
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.11
Consensus pattern (6 bp):
AAATAA
Found at i:23060966 original size:7 final size:7
Alignment explanation
Indices: 23060956--23060999 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
23060946 AAATAAAGAT
23060956 AAAATAA
1 AAAATAA
23060963 AAAATAA
1 AAAATAA
23060970 AAAAT-A
1 AAAATAA
*
23060976 AAAACAA
1 AAAATAA
23060983 AAAATAA
1 AAAATAA
23060990 AAAATAA
1 AAAATAA
23060997 AAA
1 AAA
23061000 CAAAAACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAATAA
Found at i:23061019 original size:20 final size:20
Alignment explanation
Indices: 23060956--23061018 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
23060946 AAATAAAGAT
*
23060956 AAAATAAAAAATAAAAAATA
1 AAAACAAAAAATAAAAAATA
23060976 AAAACAAAAAATAAAAAATA
1 AAAACAAAAAATAAAAAATA
* *
23060996 AAAAC-AAAAACAAAAAACA
1 AAAACAAAAAATAAAAAATA
23061015 AAAA
1 AAAA
23061019 AGAAGAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 16 0.40
20 24 0.60
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (20 bp):
AAAACAAAAAATAAAAAATA
Found at i:23061050 original size:20 final size:19
Alignment explanation
Indices: 23060956--23061052 Score: 88
Period size: 20 Copynumber: 4.7 Consensus size: 19
23060946 AAATAAAGAT
*
23060956 AAAATAAAAAATAAAAAATA
1 AAAACAAAAAA-AAAAAATA
23060976 AAAACAAAAAATAAAAAATA
1 AAAACAAAAAA-AAAAAATA
23060996 AAAACAAAAACAAAAAACA-A
1 AAAACAAAAA-AAAAAA-ATA
* *
23061016 AAAAGAAGAAGAAAAAAAAGGA
1 AAAACAA-AA-AAAAAAAA-TA
23061038 AAAACTAAAAAAAAA
1 AAAAC-AAAAAAAAA
23061053 GAAAAAAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 13
0.81 0.04 0.16
Matches are distributed among these distances:
20 42 0.63
21 15 0.22
22 8 0.12
23 2 0.03
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.06
Consensus pattern (19 bp):
AAAACAAAAAAAAAAAATA
Found at i:23061060 original size:13 final size:13
Alignment explanation
Indices: 23060956--23061052 Score: 79
Period size: 13 Copynumber: 7.1 Consensus size: 13
23060946 AAATAAAGAT
23060956 AAAATAAAAAATAA
1 AAAATAAAAAA-AA
*
23060970 AAAATAAAAACAA
1 AAAATAAAAAAAA
*
23060983 AAAATAAAAAATA
1 AAAATAAAAAAAA
* *
23060996 AAAACAAAAACAA
1 AAAATAAAAAAAA
*
23061009 AAAACAAAAAAGAA
1 AAAATAAAAAA-AA
23061023 GAAGAA-AAAAAAGGAA
1 -AA-AATAAAAAA--AA
*
23061039 AAACTAAAAAAAA
1 AAAATAAAAAAAA
23061052 A
1 A
23061053 GAAAAAAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
13 36 0.51
14 13 0.19
15 16 0.23
16 5 0.07
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.06
Consensus pattern (13 bp):
AAAATAAAAAAAA
Found at i:23061072 original size:1 final size:1
Alignment explanation
Indices: 23060956--23061060 Score: 57
Period size: 1 Copynumber: 105.0 Consensus size: 1
23060946 AAATAAAGAT
* * * * * * * * * *
23060956 AAAATAAAAAATAAAAAATAAAAACAAAAAATAAAAAATAAAAACAAAAACAAAAAACAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * ** ** *
23061021 AAGAAGAAAAAAAAGGAAAAACTAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23061061 TTCTCTTAAA
Statistics
Matches: 73, Mismatches: 31, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.84, C:0.05, G:0.06, T:0.06
Consensus pattern (1 bp):
A
Found at i:23062103 original size:25 final size:26
Alignment explanation
Indices: 23062075--23062142 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
23062065 TAGCTAAACC
*
23062075 CAAAAAACAAAAGAAAAAGCT-TTTA
1 CAAAAAACAAAAGAAAAAGCTCTCTA
*
23062100 CAAAAAAGAAAA-AAAAAGCTCTCTA
1 CAAAAAACAAAAGAAAAAGCTCTCTA
*
23062125 -AAAAACCAAAAGAAAAAG
1 CAAAAAACAAAAGAAAAAG
23062143 AAATAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 17 0.46
25 20 0.54
ACGTcount: A:0.68, C:0.13, G:0.09, T:0.10
Consensus pattern (26 bp):
CAAAAAACAAAAGAAAAAGCTCTCTA
Found at i:23063138 original size:14 final size:14
Alignment explanation
Indices: 23063119--23063155 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
23063109 GTATGTAGTA
23063119 AAAAAATAAAT-AT
1 AAAAAATAAATAAT
23063132 AATAAAAT-AATAAT
1 AA-AAAATAAATAAT
23063146 AAAAAATAAA
1 AAAAAATAAA
23063156 AACACTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAAATAAATAAT
Found at i:23069809 original size:21 final size:20
Alignment explanation
Indices: 23069760--23069815 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 20
23069750 CTAAAGCACT
*
23069760 AGAGAAAGCTAGAAAAAACAA
1 AGAGAAAG-TGGAAAAAACAA
*
23069781 AG-GTAAAGTGGAAGAAAACGA
1 AGAG-AAAGTGGAA-AAAACAA
23069802 AGAGAAAGGTGGAA
1 AGAGAAA-GTGGAA
23069816 TGGCTCACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 5 0.17
21 17 0.59
22 7 0.24
ACGTcount: A:0.57, C:0.05, G:0.30, T:0.07
Consensus pattern (20 bp):
AGAGAAAGTGGAAAAAACAA
Found at i:23071027 original size:21 final size:21
Alignment explanation
Indices: 23071003--23071043 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23070993 AAACAAGACT
*
23071003 TAAAGA-TAGAATCGCAAATTA
1 TAAAGATTAAAATC-CAAATTA
23071024 TAAAGATTAAAATCCAAATT
1 TAAAGATTAAAATCCAAATT
23071044 GATTACAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (21 bp):
TAAAGATTAAAATCCAAATTA
Found at i:23072134 original size:10 final size:10
Alignment explanation
Indices: 23072085--23072167 Score: 67
Period size: 10 Copynumber: 8.2 Consensus size: 10
23072075 CTAGTTAATG
*
23072085 ATCAAAAATC
1 ATCAAGAATC
*
23072095 ATCCAAGAGTC
1 AT-CAAGAATC
*
23072106 ATCAAGAAAC
1 ATCAAGAATC
*
23072116 TTCAAGAATC
1 ATCAAGAATC
*
23072126 ATCAAGAATT
1 ATCAAGAATC
* *
23072136 ACCAAGAATT
1 ATCAAGAATC
* *
23072146 TTCAAGAATT
1 ATCAAGAATC
*
23072156 ACCAAGAATC
1 ATCAAGAATC
23072166 AT
1 AT
23072168 TCTTTTCTTC
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
10 49 0.86
11 8 0.14
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (10 bp):
ATCAAGAATC
Found at i:23072141 original size:20 final size:20
Alignment explanation
Indices: 23072097--23072167 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
23072087 CAAAAATCAT
*
23072097 CCAAGAGTCATCAAGAA--A
1 CCAAGAATCATCAAGAATTA
23072115 CTTCAAGAATCATCAAGAATTA
1 C--CAAGAATCATCAAGAATTA
**
23072137 CCAAGAATTTTCAAGAATTA
1 CCAAGAATCATCAAGAATTA
23072157 CCAAGAATCAT
1 CCAAGAATCAT
23072168 TCTTTTCTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.02
20 41 0.93
22 2 0.05
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (20 bp):
CCAAGAATCATCAAGAATTA
Found at i:23072142 original size:30 final size:30
Alignment explanation
Indices: 23072108--23072164 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
23072098 CAAGAGTCAT
*
23072108 CAAGAAACTTCAAGAATCATCAAGAATTAC
1 CAAGAAACTTCAAGAATCACCAAGAATTAC
** *
23072138 CAAGAATTTTCAAGAATTACCAAGAAT
1 CAAGAAACTTCAAGAATCACCAAGAAT
23072165 CATTCTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.23
Consensus pattern (30 bp):
CAAGAAACTTCAAGAATCACCAAGAATTAC
Found at i:23077738 original size:15 final size:15
Alignment explanation
Indices: 23077705--23077744 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
23077695 ATTATTACCC
23077705 TAAAAA-AA-TGAAA
1 TAAAAACAACTGAAA
23077718 TAAAAAACAACTGAAA
1 T-AAAAACAACTGAAA
23077734 TAAAAACAACT
1 TAAAAACAACT
23077745 ACACCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 5 0.21
15 12 0.50
16 6 0.25
ACGTcount: A:0.70, C:0.10, G:0.05, T:0.15
Consensus pattern (15 bp):
TAAAAACAACTGAAA
Found at i:23077960 original size:20 final size:20
Alignment explanation
Indices: 23077923--23077961 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23077913 AAATAAGACT
*
23077923 TAAAGATAGAATCACAAATA
1 TAAAGATAAAATCACAAATA
23077943 TAAAGATTAAAATC-CAAAT
1 TAAAGA-TAAAATCACAAAT
23077962 CGATTGCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.23
Consensus pattern (20 bp):
TAAAGATAAAATCACAAATA
Found at i:23078106 original size:31 final size:30
Alignment explanation
Indices: 23078071--23078128 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
23078061 AATAATGTGC
*
23078071 ATAAATAGAAT-TGAAAAAGCATAAAACTAAA
1 ATAAAAAGAATCTGAAAAA-C-TAAAACTAAA
*
23078102 ATAAAAAGAATCTTAAAAACTAAAACT
1 ATAAAAAGAATCTGAAAAACTAAAACT
23078129 TTAAAAGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.29
31 11 0.46
32 6 0.25
ACGTcount: A:0.64, C:0.09, G:0.07, T:0.21
Consensus pattern (30 bp):
ATAAAAAGAATCTGAAAAACTAAAACTAAA
Found at i:23079066 original size:10 final size:10
Alignment explanation
Indices: 23079019--23079079 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
23079009 AGAATATGAA
23079019 CAAGAATCAT
1 CAAGAATCAT
*
23079029 CAAAGAATGAT
1 C-AAGAATCAT
*
23079040 CAAGAAAT-TT
1 CAAG-AATCAT
*
23079050 CAAGAATCTT
1 CAAGAATCAT
* *
23079060 CAAGAATTAC
1 CAAGAATCAT
23079070 CAAGAATCAT
1 CAAGAATCAT
23079080 TCTTTTCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 3 0.07
10 26 0.63
11 12 0.29
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.23
Consensus pattern (10 bp):
CAAGAATCAT
Found at i:23082447 original size:15 final size:15
Alignment explanation
Indices: 23082427--23082457 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23082417 ACTAATTAAG
23082427 CAGTTTAAGGAAGTT
1 CAGTTTAAGGAAGTT
*
23082442 CAGTTTCAGGAAGTT
1 CAGTTTAAGGAAGTT
23082457 C
1 C
23082458 CTGGGGAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (15 bp):
CAGTTTAAGGAAGTT
Found at i:23083186 original size:18 final size:19
Alignment explanation
Indices: 23083163--23083201 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
23083153 CATATTTAAC
23083163 TATTATTTTATAAT-TTTT
1 TATTATTTTATAATATTTT
*
23083181 TATTATTTTATTATATTTT
1 TATTATTTTATAATATTTT
23083200 TA
1 TA
23083202 AAATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TATTATTTTATAATATTTT
Found at i:23084836 original size:15 final size:15
Alignment explanation
Indices: 23084795--23084837 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
23084785 GTGAAGAAAT
*
23084795 TACAACACATGACT-
1 TACAACACATGATTA
*
23084809 TAC-ACATATGATTA
1 TACAACACATGATTA
23084823 TACAACACATGATTA
1 TACAACACATGATTA
23084838 GCCATATACG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 8 0.33
14 6 0.25
15 10 0.42
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (15 bp):
TACAACACATGATTA
Found at i:23086460 original size:59 final size:59
Alignment explanation
Indices: 23086397--23086540 Score: 182
Period size: 59 Copynumber: 2.4 Consensus size: 59
23086387 TACATATAAT
* * * * *
23086397 CAAAACCCACACAAATTTTAACAACTATAAAAAC-AACAAAAACACAACATATTGGTAAC
1 CAAAACCCAAACAAATTTCAACAAATA-AAAAACTAACAAAAACACAAAACATTGGTAAC
* **
23086456 CAAAACCCAAATAAATTTCAACAAATAAAAAACTAACAAAAACTTAAAACATTGGTAAC
1 CAAAACCCAAACAAATTTCAACAAATAAAAAACTAACAAAAACACAAAACATTGGTAAC
* *
23086515 CAAAATCGAAACAAATTTCAACAAAT
1 CAAAACCCAAACAAATTTCAACAAAT
23086541 TTATAACAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
58 6 0.08
59 67 0.92
ACGTcount: A:0.58, C:0.21, G:0.03, T:0.18
Consensus pattern (59 bp):
CAAAACCCAAACAAATTTCAACAAATAAAAAACTAACAAAAACACAAAACATTGGTAAC
Found at i:23087103 original size:22 final size:22
Alignment explanation
Indices: 23087078--23087123 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
23087068 ATTTTGTCGA
* *
23087078 TATTCCATCGATAATCCATTAG
1 TATTCCATAGATAATCCATCAG
*
23087100 TATTCCATAGATAATTCATCAG
1 TATTCCATAGATAATCCATCAG
23087122 TA
1 TA
23087124 ATTAGCTACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.37
Consensus pattern (22 bp):
TATTCCATAGATAATCCATCAG
Found at i:23088440 original size:321 final size:321
Alignment explanation
Indices: 23087799--23088445 Score: 1242
Period size: 321 Copynumber: 2.0 Consensus size: 321
23087789 AGTAACCTCG
*
23087799 TTTTCACTGGTATACAGGATGTAAGCTGTGCTATCTATTGGGTGGAAATTCCTTCACTAATAGTT
1 TTTTCACTGGTATACAGGATGTAAGCTGTGCTATCTATTAGGTGGAAATTCCTTCACTAATAGTT
23087864 TTTATGGAAGTAAAATTGGAAAAAGCAAAATAGGTTTGTAATCACTTTGAATAGTTAAACTCATT
66 TTTATGGAAGTAAAATTGGAAAAAGCAAAATAGGTTTGTAATCACTTTGAATAGTTAAACTCATT
23087929 GAGGAGAAAATATTTGCAGCACTTTCATACAGTCAAATTTATCAAAGAAAAATGATATAGGTGCA
131 GAGGAGAAAATATTTGCAGCACTTTCATACAGTCAAATTTATCAAAGAAAAATGATATAGGTGCA
23087994 TACAAAAAGATGTAACCTAGGCACTTTTCATGAGGTGAACTAGTCCTAAAAAGAATTTGCCCAGC
196 TACAAAAAGATGTAACCTAGGCACTTTTCATGAGGTGAACTAGTCCTAAAAAGAATTTGCCCAGC
23088059 CAACATGATAATAAAGGAAAATGGACACCCAATTGGGACAGTTCATACATGGTAAAAAAAA
261 CAACATGATAATAAAGGAAAATGGACACCCAATTGGGACAGTTCATACATGGTAAAAAAAA
23088120 TTTTCACTGGTATACAGGATGTAAGCTGTGCTATCTATTAGGTGGAAATTCCTTCACTAATAGTT
1 TTTTCACTGGTATACAGGATGTAAGCTGTGCTATCTATTAGGTGGAAATTCCTTCACTAATAGTT
* *
23088185 TTTATGGAAGTAAAATTGGAAGAAGCAAAATAGGTTTGTAATCGCTTTGAATAGTTAAACTCATT
66 TTTATGGAAGTAAAATTGGAAAAAGCAAAATAGGTTTGTAATCACTTTGAATAGTTAAACTCATT
*
23088250 GAGGAGAAAATATTTGCAGCACTTTTATACAGTCAAATTTATCAAAGAAAAATGATATAGGTGCA
131 GAGGAGAAAATATTTGCAGCACTTTCATACAGTCAAATTTATCAAAGAAAAATGATATAGGTGCA
23088315 TACAAAAAGATGTAACCTAGGCACTTTTCATGAGGTGAACTAGTCCTAAAAAGAATTCTGCCCAG
196 TACAAAAAGATGTAACCTAGGCACTTTTCATGAGGTGAACTAGTCCTAAAAAGAATT-TGCCCAG
23088380 CCAACATGATAATAAAGGAAAATGGACACCCAATTGGGACAGTTCATACATGGT-AAAAAAA
260 CCAACATGATAATAAAGGAAAATGGACACCCAATTGGGACAGTTCATACATGGTAAAAAAAA
23088441 TTTTC
1 TTTTC
23088446 TCAGGTGGAG
Statistics
Matches: 321, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
321 260 0.81
322 61 0.19
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (321 bp):
TTTTCACTGGTATACAGGATGTAAGCTGTGCTATCTATTAGGTGGAAATTCCTTCACTAATAGTT
TTTATGGAAGTAAAATTGGAAAAAGCAAAATAGGTTTGTAATCACTTTGAATAGTTAAACTCATT
GAGGAGAAAATATTTGCAGCACTTTCATACAGTCAAATTTATCAAAGAAAAATGATATAGGTGCA
TACAAAAAGATGTAACCTAGGCACTTTTCATGAGGTGAACTAGTCCTAAAAAGAATTTGCCCAGC
CAACATGATAATAAAGGAAAATGGACACCCAATTGGGACAGTTCATACATGGTAAAAAAAA
Found at i:23088574 original size:30 final size:29
Alignment explanation
Indices: 23088536--23088601 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
23088526 TATTATGCTT
* *
23088536 GAAGAAAAAGAA-AGAAAAAAATAATGAAA
1 GAAGAAAAA-AATAAAAAAAAATAATAAAA
*
23088565 GAAGAAAAAAATTAAAAAGAAATAATAAAA
1 GAAGAAAAAAA-TAAAAAAAAATAATAAAA
23088595 GAAGAAA
1 GAAGAAA
23088602 GACCAAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 9 0.28
30 21 0.66
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (29 bp):
GAAGAAAAAAATAAAAAAAAATAATAAAA
Found at i:23088599 original size:15 final size:15
Alignment explanation
Indices: 23088554--23088601 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
23088544 AGAAAGAAAA
*
23088554 AAATAATGAAAGAAG
1 AAATAATAAAAGAAG
* *
23088569 AAAAAAATTAAA-AAG
1 -AAATAATAAAAGAAG
23088584 AAATAATAAAAGAAG
1 AAATAATAAAAGAAG
23088599 AAA
1 AAA
23088602 GACCAAACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 9 0.33
15 9 0.33
16 9 0.33
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAATAATAAAAGAAG
Found at i:23088614 original size:33 final size:29
Alignment explanation
Indices: 23088550--23088615 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 29
23088540 AAAAAGAAAG
* *
23088550 AAAAAAATAATGAAAGAAGAAAAAAATTA
1 AAAAAAATAATAAAAGAAGAAAAAAACTA
23088579 AAAAGAAATAATAAAAGAAGAAAGACCAAACTA
1 AAAA-AAATAATAAAAGAAGAAA-A--AAACTA
23088612 AAAA
1 AAAA
23088616 TTTGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 4 0.13
30 17 0.55
31 1 0.03
33 9 0.29
ACGTcount: A:0.74, C:0.05, G:0.11, T:0.11
Consensus pattern (29 bp):
AAAAAAATAATAAAAGAAGAAAAAAACTA
Found at i:23089869 original size:43 final size:41
Alignment explanation
Indices: 23089789--23089909 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 41
23089779 AGATGAGATT
* * *
23089789 TTTAAAGGTTGTTGAGTGTCTATTTAAAGAAGCTTTTCCAAAA
1 TTTAAA-GTTGTTGAGCGTCTGTTTAAAG-AGCTTTTTCAAAA
* *
23089832 TTTAAAGTTGTGGAGCGTCTGTTTAGAAGAGCTTTTTCAAAT
1 TTTAAAGTTGTTGAGCGTCTGTTTA-AAGAGCTTTTTCAAAA
* * * *
23089874 TTTAAAGTTATTAAGCCTTTGTTTAAAAGAGCTTTT
1 TTTAAAGTTGTTGAGCGTCTGTTT-AAAGAGCTTTT
23089910 AAAGATGAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
42 56 0.85
43 10 0.15
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (41 bp):
TTTAAAGTTGTTGAGCGTCTGTTTAAAGAGCTTTTTCAAAA
Found at i:23089943 original size:47 final size:47
Alignment explanation
Indices: 23089870--23090098 Score: 186
Period size: 47 Copynumber: 4.9 Consensus size: 47
23089860 GAGCTTTTTC
*
23089870 AAATTTTAAAGTTATTAAGCCTTTGTTTAAAAGAGCTTTTAAAGATG
1 AAATTTTAAAGTTATAAAGCCTTTGTTTAAAAGAGCTTTTAAAGATG
* * *
23089917 AAATTTTAAAGTT-TCAAAGCCATTGTTTAAAAGAGCTTTTTAGGATG
1 AAATTTTAAAGTTAT-AAAGCCTTTGTTTAAAAGAGCTTTTAAAGATG
* * *
23089964 AATTTTTAAAGTTATTGAA-CCTTTGTTTAAAGGAGC-TTTAAA-AT-
1 AAATTTTAAAGTTA-TAAAGCCTTTGTTTAAAAGAGCTTTTAAAGATG
** ** ** *
23090008 TTATTTTCAAAAGTTATTGAGCCTTTGTTTAATGGAGCTTTT-AA-ATT
1 AAATTTT--AAAGTTATAAAGCCTTTGTTTAAAAGAGCTTTTAAAGATG
** * *
23090055 TTATTTTCAAAAGTTATTAAG-CTTTTTTTAAAAGAGCTTTTAAA
1 AAATTTT--AAAGTTATAAAGCCTTTGTTTAAAAGAGCTTTTAAA
23090099 TTTATTTTCA
Statistics
Matches: 153, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
44 4 0.03
45 4 0.03
46 49 0.32
47 93 0.61
48 2 0.01
49 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (47 bp):
AAATTTTAAAGTTATAAAGCCTTTGTTTAAAAGAGCTTTTAAAGATG
Found at i:23090033 original size:46 final size:46
Alignment explanation
Indices: 23089877--23090341 Score: 406
Period size: 46 Copynumber: 10.0 Consensus size: 46
23089867 TTCAAATTTT
* **
23089877 AAAGTTATTAAGCCTTTGTTTAAAAGAGCTTTTAAAGATGAAATTTT--
1 AAAGTTATTAAGCCTTTGTTTAAAGGAGCTTTT-AA-AT-TTATTTTCA
* * * * ** *
23089924 AAAGTT-TCAAAGCCATTGTTTAAAAGAGCTTTTTAGGATGAATTTT-T
1 AAAGTTAT-TAAGCCTTTGTTTAAAGGAGC-TTTTA-AATTTATTTTCA
*
23089971 AAAGTTATTGAA-CCTTTGTTTAAAGGAGCTTTAAAATTTATTTTCA
1 AAAGTTATT-AAGCCTTTGTTTAAAGGAGCTTTTAAATTTATTTTCA
* *
23090017 AAAGTTATTGAGCCTTTGTTTAATGGAGCTTTTAAATTTTATTTTCA
1 AAAGTTATTAAGCCTTTGTTTAAAGGAGCTTTTAAA-TTTATTTTCA
* *
23090064 AAAGTTATTAAG-CTTTTTTTAAAAGAGCTTTTAAATTTATTTTCA
1 AAAGTTATTAAGCCTTTGTTTAAAGGAGCTTTTAAATTTATTTTCA
* * * * **
23090109 AAAGTTATTGAGCCTTTGTTTAAA-CATCTTATAAAATTTATTTTTG
1 AAAGTTATTAAGCCTTTGTTTAAAGGAGCTT-TTAAATTTATTTTCA
* * * * *
23090155 AAAGTTTTTAAGCCTTTATTTAAAAGAGTTTTTAAATTTACTTTCA
1 AAAGTTATTAAGCCTTTGTTTAAAGGAGCTTTTAAATTTATTTTCA
* * **
23090201 AAAGTGATTGAA-CCTTTGTTTAAAGAAATTTTTAAATTTATTTTCAA
1 AAAGTTATT-AAGCCTTTGTTTAAAGGAGCTTTTAAATTTATTTTC-A
* ** *
23090248 AAAGTTATTAAGCCTATACTTAAAGGAGCTTTTAAATTTAGTTTCA
1 AAAGTTATTAAGCCTTTGTTTAAAGGAGCTTTTAAATTTATTTTCA
* * * * * * *
23090294 AAAGTTGTAAAGCGTTTGATAAAATGAGTTTTTAAATTTATTTTCA
1 AAAGTTATTAAGCCTTTGTTTAAAGGAGCTTTTAAATTTATTTTCA
23090340 AA
1 AA
23090342 TGGTCAAGCC
Statistics
Matches: 342, Mismatches: 61, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
45 33 0.10
46 192 0.56
47 110 0.32
48 7 0.02
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (46 bp):
AAAGTTATTAAGCCTTTGTTTAAAGGAGCTTTTAAATTTATTTTCA
Found at i:23090419 original size:11 final size:11
Alignment explanation
Indices: 23090393--23090430 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
23090383 AAACAAAATG
*
23090393 ACAAAATAAAA
1 ACAAAAGAAAA
23090404 A-AAAAGAAAA
1 ACAAAAGAAAA
23090414 ACAAAAGAAAA
1 ACAAAAGAAAA
23090425 ACAAAA
1 ACAAAA
23090431 ATGGAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.84, C:0.08, G:0.05, T:0.03
Consensus pattern (11 bp):
ACAAAAGAAAA
Found at i:23090419 original size:13 final size:13
Alignment explanation
Indices: 23090403--23090476 Score: 57
Period size: 13 Copynumber: 5.9 Consensus size: 13
23090393 ACAAAATAAA
23090403 AAAAAAGAAAAAC
1 AAAAAAGAAAAAC
23090416 --AAAAGAAAAAC
1 AAAAAAGAAAAAC
* *
23090427 AAAAATGGAAAAC
1 AAAAAAGAAAAAC
**
23090440 AAAACAA-AGGAA-
1 AAAA-AAGAAAAAC
**
23090452 AAAAAAGAAAATT
1 AAAAAAGAAAAAC
23090465 AAAAAAGAAAAA
1 AAAAAAGAAAAA
23090477 AATCTCTAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
11 13 0.28
12 6 0.13
13 26 0.57
14 1 0.02
ACGTcount: A:0.80, C:0.05, G:0.11, T:0.04
Consensus pattern (13 bp):
AAAAAAGAAAAAC
Found at i:23090430 original size:24 final size:23
Alignment explanation
Indices: 23090400--23090478 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 23
23090390 ATGACAAAAT
23090400 AAAAAAAAAGAAAAACAAAAGAA
1 AAAAAAAAAGAAAAACAAAAGAA
* * *
23090423 AAACAAAAATGGAAAACAAAACAA
1 AAA-AAAAAAGAAAAACAAAAGAA
*
23090447 AGGAAAAAAAAGAAAATTAAAAAAGAA
1 A--AAAAAAAAGAAAA--ACAAAAGAA
23090474 AAAAA
1 AAAAA
23090479 TCTCTAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
23 3 0.07
24 18 0.41
25 13 0.30
26 2 0.05
27 8 0.18
ACGTcount: A:0.81, C:0.05, G:0.10, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAGAAAAACAAAAGAA
Found at i:23092195 original size:6 final size:6
Alignment explanation
Indices: 23092163--23092195 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
23092153 TCAATTATTT
*
23092163 AAAATT AAAAT- AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
23092196 GAGATGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:23093731 original size:34 final size:36
Alignment explanation
Indices: 23093684--23093764 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
23093674 CATGTATGAT
* *
23093684 AATCTTTGATTCTT-TTTTTT-ACACATATATAGTA
1 AATCTTTGGTTCTTCTTTTTTCACACATATATAATA
*
23093718 AATCTTAGGTTCTTCTTTTTTCACACATATATAATA
1 AATCTTTGGTTCTTCTTTTTTCACACATATATAATA
*
23093754 AAACTTTGGTT
1 AATCTTTGGTT
23093765 TAGTGCATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 12 0.30
35 6 0.15
36 22 0.55
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (36 bp):
AATCTTTGGTTCTTCTTTTTTCACACATATATAATA
Found at i:23095220 original size:135 final size:134
Alignment explanation
Indices: 23095042--23095311 Score: 468
Period size: 134 Copynumber: 2.0 Consensus size: 134
23095032 AGACCAACGG
* *
23095042 ATTGTTATGAGATATTCGAGGTCGTAAATCCTCAAATCACGGATGACATGAACAATTTCCTCTTA
1 ATTGTTATGAGATATTAGAGGTAGTAAATCCTCAAATCACGGATGACATGAACAATTTCCTCTTA
* * *
23095107 TCAAAGTTTAAAGCTGAGGAGATCTTTGAAGTCTTAGAGCAGATACACCCAACAAAAGCACTAGA
66 T-AAAGTTTAAAGCTGAGGAGATCTTAGAAGCCTTAAAGCAGATACACCCAACAAAAGCACTAGA
23095172 CCTTA
130 CCTTA
*
23095177 ATTGTTATGAGATATTAGAGGTAGTAAATCCTCAAATCGCGGATGACATGAACAATTTCCTCTTA
1 ATTGTTATGAGATATTAGAGGTAGTAAATCCTCAAATCACGGATGACATGAACAATTTCCTCTTA
*
23095242 TAAAGTTTAAAGCTGAGGAGATCTTAGAAGCCTTAAAGCAGATACACTCAACAAAAGCACTAGAC
66 TAAAGTTTAAAGCTGAGGAGATCTTAGAAGCCTTAAAGCAGATACACCCAACAAAAGCACTAGAC
23095307 CTTA
131 CTTA
23095311 A
1 A
23095312 GGTATGCCTG
Statistics
Matches: 128, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
134 65 0.51
135 63 0.49
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (134 bp):
ATTGTTATGAGATATTAGAGGTAGTAAATCCTCAAATCACGGATGACATGAACAATTTCCTCTTA
TAAAGTTTAAAGCTGAGGAGATCTTAGAAGCCTTAAAGCAGATACACCCAACAAAAGCACTAGAC
CTTA
Found at i:23097032 original size:17 final size:17
Alignment explanation
Indices: 23097012--23097045 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23097002 GGTTGGCGAT
23097012 AATTCAATTTTAGAAGA
1 AATTCAATTTTAGAAGA
*
23097029 AATTTAATTTTAGAAGA
1 AATTCAATTTTAGAAGA
23097046 GTTGAAATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AATTCAATTTTAGAAGA
Found at i:23097585 original size:16 final size:15
Alignment explanation
Indices: 23097559--23097589 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
23097549 AGCTCTCGGG
23097559 GAGAGAGAAAAAAGA
1 GAGAGAGAAAAAAGA
23097574 GAGAGAAGAAAAAAGA
1 GAGAG-AGAAAAAAGA
23097590 TTCTTTAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GAGAGAGAAAAAAGA
Found at i:23097908 original size:18 final size:18
Alignment explanation
Indices: 23097885--23097919 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23097875 AATTAATTTG
23097885 TTTA-TTTATTTATTTTTA
1 TTTATTTTA-TTATTTTTA
23097903 TTTATTTTATTATTTTT
1 TTTATTTTATTATTTTT
23097920 TCAGTGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTATTTTATTATTTTTA
Found at i:23101755 original size:26 final size:26
Alignment explanation
Indices: 23101725--23101774 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
23101715 CTAACTTTGA
*
23101725 CTAAGACCAAGTTATTTTATTTTCAG
1 CTAAGACCAAGTTATTTCATTTTCAG
23101751 CTAAGACCAAGTTATTTCATTTTC
1 CTAAGACCAAGTTATTTCATTTTC
23101775 GAACTACGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (26 bp):
CTAAGACCAAGTTATTTCATTTTCAG
Found at i:23102203 original size:28 final size:28
Alignment explanation
Indices: 23102163--23102216 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
23102153 TTATTCAGTA
*
23102163 TTCATTATCTTTAATT-TTTTTATTTTAC
1 TTCATTATCTTT-ATTATTATTATTTTAC
23102191 TTCATTTAT-TTTATTATTATTATTTT
1 TTCA-TTATCTTTATTATTATTATTTT
23102217 TCTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 3 0.13
28 16 0.70
29 4 0.17
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (28 bp):
TTCATTATCTTTATTATTATTATTTTAC
Found at i:23105370 original size:78 final size:78
Alignment explanation
Indices: 23105241--23105396 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
23105231 TTTCACCAAA
*
23105241 GGCAATCTGATTGGAGGGATAAACCTGAGATTGAAATACTTCAAAGAGTCAGTCTGCACTCATAT
1 GGCAATCTGATTGGAGGGATAAAACTGAGATTGAAATACTTCAAAGAGTCAGTCTGCACTCATAT
23105306 AAGAAATGTTAAT
66 AAGAAATGTTAAT
*
23105319 GGCAATCTGATTGGAGGGATAAAACTGAGATTGAAATGCTTCAAAGAGTCAGTCTGCACTCATAT
1 GGCAATCTGATTGGAGGGATAAAACTGAGATTGAAATACTTCAAAGAGTCAGTCTGCACTCATAT
23105384 AAGAAATGTTAAT
66 AAGAAATGTTAAT
23105397 ATGGCTGCCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (78 bp):
GGCAATCTGATTGGAGGGATAAAACTGAGATTGAAATACTTCAAAGAGTCAGTCTGCACTCATAT
AAGAAATGTTAAT
Found at i:23113438 original size:23 final size:23
Alignment explanation
Indices: 23113412--23113461 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
23113402 TTCTATCACA
*
23113412 ATTTGTAGATAATTAGTGAAAGC
1 ATTTGCAGATAATTAGTGAAAGC
*
23113435 ATTTGCAGATAATTAGTGAAGGC
1 ATTTGCAGATAATTAGTGAAAGC
23113458 ATTT
1 ATTT
23113462 TCTACGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (23 bp):
ATTTGCAGATAATTAGTGAAAGC
Found at i:23114105 original size:357 final size:357
Alignment explanation
Indices: 23113475--23114261 Score: 1082
Period size: 357 Copynumber: 2.2 Consensus size: 357
23113465 ACGTTAACGA
* * *
23113475 CTTTAATAATTTGCTTAACAAAAGTTTTTTGGATTATTAAAGGCGTCTTTTATTATGAAATGCCT
1 CTTTAATAATTTTCCTAA-AAAATTTTTTTGGATTATTAAAGGCGTCTTTTATTATGAAATGCCT
* **
23113540 TCAATATACCATGATGGCTATGGAAGGTGTTTATTCGAAAAAGCACCTACAATATACCGTTTAAA
65 TCAATATACCATGATAGCTATGGAAGGCATTTATTCGAAAAAGCACCTACAATATACCGTTTAAA
* * * *
23113605 CTTAGTAATCCATTACTGAAGGTGTTTGTTAATAACAAACACCTTTAAAATTTTTCCATTAAAAA
130 CTTAGTAATCCATTACTAAAGGCGTTTGTTAATAACAAACACCTTCAAAATTTTTCCACTAAAAA
* *
23113670 TTTTAAAAATCATTAAAAGCATCTTCTACTGTAAAATACATTCTATATACCGTCACACAAATTTT
195 TTTTAAAAATCATTAAAAGCATCTTCTACTATAAAATACATTCTATATACCGCCACACAAATTTT
* * * * *
23113735 AACACGATTATTGAAGACGTATATCCAAGAAAGACACCTTTAATAATTCCTATCATAGTTTGTAT
260 AACACGATTATTGAAGACATATATCCAAGAAAAACACCTTTAATAATTCCTATCACAATTTGTAA
* *
23113800 ATAATTAGTGAAGGTGGTTACAGATAACAATGT
325 ATAATTAGTGAAGGCGGTTACAGATAACAATGC
*
23113833 CTTTAATAATTTTCCTAAAAGAATTTTTTTGGATTATTAAAGGCGTCTTTTATTATGACATGCCT
1 CTTTAATAATTTTCCTAAAA-AATTTTTTTGGATTATTAAAGGCGTCTTTTATTATGAAATGCCT
* * *
23113898 TCAATATACCATGATAGTTATGGAAGGCATTTATTCG-AAAAGACACCTTCAATATA-CTTTTAA
65 TCAATATACCATGATAGCTATGGAAGGCATTTATTCGAAAAAG-CACCTACAATATACCGTTTAA
*
23113961 ACTTAGTAATCCATTACTAAAGGCGTTTGTTAATAACAAACGCCTTCAAAATTTTTCCACTAAAA
129 ACTTAGTAATCCATTACTAAAGGCGTTTGTTAATAACAAACACCTTCAAAATTTTTCCACTAAAA
* * * * * * * *
23114026 ATTTTGAGAATTATTAAAGACGTAT-TT-TACTATAAAATGCCTTTTATATACCGCCACATAAAT
194 ATTTTAAAAATCATTAAA-A-GCATCTTCTACTATAAAATACATTCTATATACCGCCACACAAAT
* ** *
23114089 TTTAACAC-AGTTATTGAAGGCATATATCCAAGAAAAATGCCTTTAATAATTCCTGTCACAATTT
257 TTTAACACGA-TTATTGAAGACATATATCCAAGAAAAACACCTTTAATAATTCCTATCACAATTT
*
23114153 GTAAATAATTAGTGAAGGCGGTTGCAGATAACAATGC
321 GTAAATAATTAGTGAAGGCGGTTACAGATAACAATGC
* * * *
23114190 CTTCAATAATTTTTC-AAAAAATTTTTTTTTGGATTATTAAAGGTGTCTTTTTATTATAAAATGC
1 CTTTAATAATTTTCCTAAAAAA--TTTTTTTGGATTATTAAAGGCGTC-TTTTATTATGAAATGC
23114254 CTTCAATA
63 CTTCAATA
23114262 ATTTATTATA
Statistics
Matches: 379, Mismatches: 42, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
355 2 0.01
356 5 0.01
357 241 0.64
358 128 0.34
359 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (357 bp):
CTTTAATAATTTTCCTAAAAAATTTTTTTGGATTATTAAAGGCGTCTTTTATTATGAAATGCCTT
CAATATACCATGATAGCTATGGAAGGCATTTATTCGAAAAAGCACCTACAATATACCGTTTAAAC
TTAGTAATCCATTACTAAAGGCGTTTGTTAATAACAAACACCTTCAAAATTTTTCCACTAAAAAT
TTTAAAAATCATTAAAAGCATCTTCTACTATAAAATACATTCTATATACCGCCACACAAATTTTA
ACACGATTATTGAAGACATATATCCAAGAAAAACACCTTTAATAATTCCTATCACAATTTGTAAA
TAATTAGTGAAGGCGGTTACAGATAACAATGC
Found at i:23114925 original size:18 final size:18
Alignment explanation
Indices: 23114902--23114938 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23114892 TTGCTGAACC
*
23114902 TTGTTGATTGATATTGTA
1 TTGTTGAATGATATTGTA
*
23114920 TTGTTGAATGGTATTGTA
1 TTGTTGAATGATATTGTA
23114938 T
1 T
23114939 GATATTGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (18 bp):
TTGTTGAATGATATTGTA
Found at i:23116517 original size:214 final size:212
Alignment explanation
Indices: 23116131--23116556 Score: 735
Period size: 214 Copynumber: 2.0 Consensus size: 212
23116121 AAAACCCCAT
*
23116131 GAATGAGATGCACAATATGAAGCAATAATTGAGTAACAACAGCAACAAATTAATAACCAGGAGCA
1 GAATGAGATGCACAATATGAAGCAATAATTGAGCAACAACAGCAACAAATTAATAACCAGGAGCA
* *
23116196 ATGCCTTAATGACCAACAGCAAAAACTCGCTGTTTTGGAGTCTATGTTGGCTACAATGCAGTAGG
66 ATGCCTTAATGACCAACAGCAAAAACTCGCTGTTTTGGAGTCTATGTTGGCAACAATGCAGCAGG
* * *
23116261 TTATGCTAGTAGCCTAGCCTGATAACATCGTCCCCATACGAGAAGCTTCCATTGCAAATAAAGAA
131 TTATGCCAGTAGCCTAGCCTAATAACATCATCCCCATACGAGAAGCTTCCATTGCAAATAAAGAA
23116326 GTGATCCCATCATCCAC
196 GTGATCCCATCATCCAC
*
23116343 GAATGAGAAATGCACAATATGAAGCAATAATTGAGCAACAACAGCAACAAATTAATGACCAGGAG
1 GAATGAG--ATGCACAATATGAAGCAATAATTGAGCAACAACAGCAACAAATTAATAACCAGGAG
*
23116408 CAATGCCTTAATGACCAACAGCAAAAACTCGCTGTTTTGGAGTCTATGTTGGCAATAATGCAGCA
64 CAATGCCTTAATGACCAACAGCAAAAACTCGCTGTTTTGGAGTCTATGTTGGCAACAATGCAGCA
* * *
23116473 GGTTATGCCAGTAGCCTAGCCTAATAGCATCATCCCCGTACGAGAAGCTTCCATTGCAAATAAGG
129 GGTTATGCCAGTAGCCTAGCCTAATAACATCATCCCCATACGAGAAGCTTCCATTGCAAATAAAG
23116538 AAGTGATCCCATCATCCAC
194 AAGTGATCCCATCATCCAC
23116557 TACCACCCAA
Statistics
Matches: 201, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
212 7 0.03
214 194 0.97
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (212 bp):
GAATGAGATGCACAATATGAAGCAATAATTGAGCAACAACAGCAACAAATTAATAACCAGGAGCA
ATGCCTTAATGACCAACAGCAAAAACTCGCTGTTTTGGAGTCTATGTTGGCAACAATGCAGCAGG
TTATGCCAGTAGCCTAGCCTAATAACATCATCCCCATACGAGAAGCTTCCATTGCAAATAAAGAA
GTGATCCCATCATCCAC
Found at i:23132543 original size:27 final size:27
Alignment explanation
Indices: 23132487--23132543 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
23132477 TATGGTACTG
** *
23132487 ATTTCATGCATTACATTTATCGCATGC
1 ATTTCATGCATTACATGCATCACATGC
* *
23132514 ATTTCATGCATTATATGCATCACATTC
1 ATTTCATGCATTACATGCATCACATGC
23132541 ATT
1 ATT
23132544 ACGTGTATTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
ATTTCATGCATTACATGCATCACATGC
Found at i:23132838 original size:22 final size:23
Alignment explanation
Indices: 23132804--23132849 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
23132794 TTTTAAACTT
**
23132804 TTTTCAAAATCCTCTGGGCACAA
1 TTTTCAAAATCCTCCAGGCACAA
*
23132827 TTTT-AAAGTCCTCCAGGCACAA
1 TTTTCAAAATCCTCCAGGCACAA
23132849 T
1 T
23132850 CTATAAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (23 bp):
TTTTCAAAATCCTCCAGGCACAA
Found at i:23133263 original size:22 final size:21
Alignment explanation
Indices: 23133233--23133289 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
23133223 TTTGTATTAG
*
23133233 TTTCGAAAACCTTTAA-TATCAT
1 TTTCTAAAACCTTTAAGTA--AT
*
23133255 TTTCTAAAACCTCTAAGTAAT
1 TTTCTAAAACCTTTAAGTAAT
23133276 TTTCTTAAAACCTT
1 TTTC-TAAAACCTT
23133290 CGATGACATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 22 0.73
23 2 0.07
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (21 bp):
TTTCTAAAACCTTTAAGTAAT
Found at i:23137414 original size:54 final size:54
Alignment explanation
Indices: 23137337--23137619 Score: 272
Period size: 54 Copynumber: 5.2 Consensus size: 54
23137327 TAAAAAAAAT
** *
23137337 AAAATAATTTCAAAAAAAAAGGAAAAAGTTGAATTATCAATTTTTTC-TTAAACA
1 AAAATAATTTCAAAAAATGAGGAAAAAGTTGAAATATCAA-TTTTTCATTAAACA
* * *
23137391 AAAATAATTTCAAAAAATGAGGAAAAAGTTGAAATATCAAATTTTCTTTAAATA
1 AAAATAATTTCAAAAAATGAGGAAAAAGTTGAAATATCAATTTTTCATTAAACA
* * * *
23137445 AAAATAATTT-TAAAATTGAGGAAAAAGCTCAAATATCAATTTTTCATTGAAAC-
1 AAAATAATTTCAAAAAATGAGGAAAAAGTTGAAATATCAATTTTTCATT-AAACA
** * * * *
23137498 AAAATAATTTCATGAAATGAGGAAAAAGTTAAAACATTAATTTTTTTTCATTCAACA
1 AAAATAATTTCAAAAAATGAGGAAAAAGTTGAAATATCAA---TTTTTCATTAAACA
* * * * *
23137555 AAAATTAATTTC-AAAAAT--TGAAAAAGCTGAAATATCAAATTTTCCTTACACA
1 AAAA-TAATTTCAAAAAATGAGGAAAAAGTTGAAATATCAATTTTTCATTAAACA
*
23137607 AAAACAATTTCAA
1 AAAATAATTTCAA
23137620 GATTTTAGGA
Statistics
Matches: 187, Mismatches: 33, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
51 6 0.03
52 15 0.08
53 47 0.25
54 77 0.41
55 15 0.08
56 3 0.02
57 17 0.09
58 7 0.04
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (54 bp):
AAAATAATTTCAAAAAATGAGGAAAAAGTTGAAATATCAATTTTTCATTAAACA
Found at i:23138292 original size:3 final size:3
Alignment explanation
Indices: 23138284--23138371 Score: 94
Period size: 3 Copynumber: 30.3 Consensus size: 3
23138274 TATGGTATAC
* * * *
23138284 TAT TAT TAT TAG TAT CAT TGT TAT TAT CAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
23138331 TA- TATT TAT TAT TA- TAT TAT TAT TAT TAT CAT TA- TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23138372 TTTTTTATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
2 8 0.11
3 60 0.86
4 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:23138320 original size:32 final size:31
Alignment explanation
Indices: 23138284--23138368 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 31
23138274 TATGGTATAC
*
23138284 TATTATTATTAGTATCATTGT-TATTATCATTA
1 TATTATTATTA-TATCATTATAT-TTATCATTA
*
23138316 TATTATTATTAT-T-ATTATATTTATTATTA
1 TATTATTATTATATCATTATATTTATCATTA
23138345 TATTATTATTATTATCATTATATT
1 TATTATTATTA-TATCATTATATT
23138369 ATTTTTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
29 23 0.49
30 3 0.06
31 2 0.04
32 19 0.40
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (31 bp):
TATTATTATTATATCATTATATTTATCATTA
Found at i:23138408 original size:8 final size:8
Alignment explanation
Indices: 23138371--23138409 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
23138361 ATTATATTAT
23138371 TTTTTTTA
1 TTTTTTTA
23138379 TTTTTTTTA
1 -TTTTTTTA
23138388 TTTTTTTTA
1 -TTTTTTTA
*
23138397 TTTTTTTC
1 TTTTTTTA
23138405 TTTTT
1 TTTTT
23138410 GCTCCAATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 12 0.41
9 17 0.59
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:23138409 original size:9 final size:9
Alignment explanation
Indices: 23138367--23138403 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
23138357 TATCATTATA
23138367 TTATTTTTT
1 TTATTTTTT
23138376 TTATTTTTT
1 TTATTTTTT
23138385 TTATTTTTT
1 TTATTTTTT
23138394 TTATTTTTT
1 TTATTTTTT
23138403 T
1 T
23138404 CTTTTTGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTATTTTTT
Found at i:23139468 original size:14 final size:15
Alignment explanation
Indices: 23139441--23139498 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
23139431 AATGAAAACA
23139441 AAAAAAAATCCTTTC
1 AAAAAAAATCCTTTC
*
23139456 AAAAAAAATCTTTTTTTC
1 AAAAAAAATC---CTTTC
*
23139474 AAATAAAAATCCTTAC
1 AAA-AAAAATCCTTTC
*
23139490 AAAATAAAT
1 AAAAAAAAT
23139499 TCATGAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 15 0.43
16 6 0.17
18 7 0.20
19 7 0.20
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAAAAATCCTTTC
Found at i:23142871 original size:5 final size:5
Alignment explanation
Indices: 23142861--23142885 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23142851 GGGGCAAATA
23142861 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
23142886 CATGCATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:23146792 original size:153 final size:153
Alignment explanation
Indices: 23146512--23146816 Score: 513
Period size: 153 Copynumber: 2.0 Consensus size: 153
23146502 GAATGTGAAG
23146512 GTAATCATGACAATGATTCAAGGTTGAATTTTAGAAATTCTATTAATACCAGTGAACTTGATATT
1 GTAATCATGACAATGATTCAAGGTTGAATTTTAGAAATTCTATTAATACCAGTGAACTTGATATT
* * *
23146577 GAAGAAGATTCTAAAGAATTGACTTTATCTCTAAATTTAATGAGGCTAATTGAATAGGAAGATAA
66 GAAGAAGATTCTAAAGAATTCACTTTATCTCTAAATTTAATGAGGCTAATTGAACAGAAAGATAA
23146642 ATCCATTGAACCACATCAAGAAA
131 ATCCATTGAACCACATCAAGAAA
* * *
23146665 GTAATCATGACAATGATTCAGGGTTTAATTTTAGAAATT-TGATTAATACCGGTGAACTTGATAT
1 GTAATCATGACAATGATTCAAGGTTGAATTTTAGAAATTCT-ATTAATACCAGTGAACTTGATAT
* *
23146729 TGAAGAAGATTCTAAAGAATTCACTTTATTTTTAAATTTAATGAGGCTAATTGAACAGAAAGATA
65 TGAAGAAGATTCTAAAGAATTCACTTTATCTCTAAATTTAATGAGGCTAATTGAACAGAAAGATA
*
23146794 AATCCATTGAACCTCATCAAGAA
130 AATCCATTGAACCACATCAAGAA
23146817 GTTGTTGAAT
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
152 1 0.01
153 141 0.99
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.32
Consensus pattern (153 bp):
GTAATCATGACAATGATTCAAGGTTGAATTTTAGAAATTCTATTAATACCAGTGAACTTGATATT
GAAGAAGATTCTAAAGAATTCACTTTATCTCTAAATTTAATGAGGCTAATTGAACAGAAAGATAA
ATCCATTGAACCACATCAAGAAA
Found at i:23150243 original size:46 final size:46
Alignment explanation
Indices: 23150118--23150244 Score: 173
Period size: 46 Copynumber: 2.8 Consensus size: 46
23150108 AAGAAAGAGG
* * * * *
23150118 AAAGTTCAAGTTAAAAACCCAAAAAGGTGGCTTGGGCCCCAAAAGA
1 AAAGTTTAAGTTGAAAACCCGAAAGGGTGGCTTGAGCCCCAAAAGA
**
23150164 AAAGTTTAAGTTGAAAACCCGAAAGGACGGCTTGAGCCCCAAAAGA
1 AAAGTTTAAGTTGAAAACCCGAAAGGGTGGCTTGAGCCCCAAAAGA
* *
23150210 AAAGTTTAAGTTGAAAACTCGAAAGGGTAGCTTGA
1 AAAGTTTAAGTTGAAAACCCGAAAGGGTGGCTTGA
23150245 ACCAAAATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.18
Consensus pattern (46 bp):
AAAGTTTAAGTTGAAAACCCGAAAGGGTGGCTTGAGCCCCAAAAGA
Found at i:23150259 original size:46 final size:45
Alignment explanation
Indices: 23150156--23150263 Score: 137
Period size: 46 Copynumber: 2.4 Consensus size: 45
23150146 GGCTTGGGCC
* *
23150156 CCAAAAGAAAAGTTTAAGTTGAAAACCCGAAAGGACGGCTTGAGCC
1 CCAAAAGAAAAGTTTAAGTTGAAAACCCGAAAGGACAGCTTGA-CA
* **
23150202 CCAAAAGAAAAGTTTAAGTTGAAAACTCGAAAGGGTAGCTTGA-A
1 CCAAAAGAAAAGTTTAAGTTGAAAACCCGAAAGGACAGCTTGACA
23150246 CCAAAATGAAAAAGTTTA
1 CCAAAA-G-AAAAGTTTA
23150264 GAAAGGCGGC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 6 0.11
45 1 0.02
46 48 0.87
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (45 bp):
CCAAAAGAAAAGTTTAAGTTGAAAACCCGAAAGGACAGCTTGACA
Found at i:23151066 original size:119 final size:118
Alignment explanation
Indices: 23150912--23151531 Score: 403
Period size: 119 Copynumber: 5.2 Consensus size: 118
23150902 ATCACAGGTT
** * ** * **
23150912 TTGATCTTGGCTTGGTCTAGATCATTTCTTATGATTTGTGGTTTCATCCCAGTCGTTTATTTTTT
1 TTGATCTTGGCTCAGTCTAGATCATTTCATATGATTCATGGTTTCATCCCAGTCGTTTATCTTCG
* * * *
23150977 ACTTTGACTCGATCTTAATCACTTCATTTTAACTCATGGTTTCATCTCGATCAC
66 ACCTCGACTCGATCTTAGTCACTTCATTTTAACTCGTGGTTTCATC-CGATCAC
* * ** * * *
23151031 TTGTTCTTGGCTCATTCTAGATCATTTCATATGATTCATGGTTTTGTCTC-GATTGTTTATCTTT
1 TTGATCTTGGCTCAGTCTAGATCATTTCATATGATTCATGGTTTCATCCCAG-TCGTTTATCTTC
* * * * * * **
23151095 GACTTCAACTCGATCTTGGCCACTTCATTTTGACTCGTAGTTTTGTCTCGATCAC
65 GACCTCGACTCGATCTTAGTCACTTCATTTTAACTCGTGGTTTCATC-CGATCAC
* * * ** * * ** *
23151150 TTGACCTTGGCTCAGTCCAAATCACCTC--ATGACTT-GTGGTTTCATCCTAGTTATTTACCTTC
1 TTGATCTTGGCTCAGTCTAGATCATTTCATATGA-TTCATGGTTTCATCCCAGTCGTTTATCTTC
* * * * ** *
23151212 GACCTCGACTCGGTCCTAGTCGCTTCATTTTGACTCGTGGTTTTGTCCTGGTCAC
65 GACCTCGACTCGATCTTAGTCACTTCATTTTAACTCGTGGTTTCATCC-GATCAC
* * * * *
23151267 TTGATCTTGGCTCAGTCCAGATCATTTCATACGATTCATGGTTTCATCCTAATCAG-TTATTTTC
1 TTGATCTTGGCTCAGTCTAGATCATTTCATATGATTCATGGTTTCATCCCAGTC-GTTTATCTTC
* * * * *
23151331 GACCTTGACTTGACCTTGGTCACTTCATTTTAACTCGTGGTTTCATCCCAGTCAC
65 GACCTCGACTCGATCTTAGTCACTTCATTTTAACTCGTGGTTTCATCCGA-TCAC
* * * * * * * * *
23151386 TTGATATTGGCTCAGTCTAGTTCATCTCCTA--ACTT-GTGGTTTCGTCCCAATCATTCATCTTC
1 TTGATCTTGGCTCAGTCTAGATCATTTCATATGA-TTCATGGTTTCATCCCAGTCGTTTATCTTC
* * * * * * *
23151448 TACCTAGACTCGGT-TCTGGTTACTTCACTTTTTAACTTGTGGTTTCATCCAAGTCAC
65 GACCTCGACTCGATCT-TAGTCACTTCA--TTTTAACTCGTGGTTTCATCCGA-TCAC
** * *
23151505 CCGATCTTGACTCAGCCTAGATCATTT
1 TTGATCTTGGCTCAGTCTAGATCATTT
23151532 TTTTTAGATT
Statistics
Matches: 391, Mismatches: 96, Indels: 28
0.76 0.19 0.05
Matches are distributed among these distances:
116 2 0.01
117 129 0.33
118 8 0.02
119 252 0.64
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (118 bp):
TTGATCTTGGCTCAGTCTAGATCATTTCATATGATTCATGGTTTCATCCCAGTCGTTTATCTTCG
ACCTCGACTCGATCTTAGTCACTTCATTTTAACTCGTGGTTTCATCCGATCAC
Found at i:23151460 original size:236 final size:236
Alignment explanation
Indices: 23151027--23151461 Score: 493
Period size: 236 Copynumber: 1.8 Consensus size: 236
23151017 TTCATCTCGA
* * * * ** * *
23151027 TCACTTGTTCTTGGCTCATTCTAGATCATTTCATATGATTCATGGTTTTGTCTCGATTGTTTATC
1 TCACTTGATCTTGGCTCAGTCCAGATCATTTCATACGATTCATGGTTTCATCTCAATAGTTTATC
* * ** * *
23151092 TTTGACTTCAACTCGATCTTGGCCACTTCATTTTGACTCGTAGTTTTGTCTCGATCACTTGACCT
66 TTTGACTTCAACTCGACCTTGGCCACTTCATTTTAACTCGTAGTTTCATCCCGATCACTTGACAT
* * * * * *
23151157 TGGCTCAGTCCAAATCACCTCATGACTTGTGGTTTCATCCTAGTTATTTACCTTCGACCTCGACT
131 TGGCTCAGTCCAAATCACCTCATAACTTGTGGTTTCATCCCAATCATTCACCTTCGACCTAGACT
23151222 CGGTCCTAGTCGCTTCATTTTGACTCGTGGTTTTGTCCTGG
196 CGGTCCTAGTCGCTTCATTTTGACTCGTGGTTTTGTCCTGG
23151263 TCACTTGATCTTGGCTCAGTCCAGATCATTTCATACGATTCATGGTTTCATC-CTAATCAG-TTA
1 TCACTTGATCTTGGCTCAGTCCAGATCATTTCATACGATTCATGGTTTCATCTC-AAT-AGTTTA
* * * *
23151326 T-TTTCGACCTT-GACTTGACCTTGGTCACTTCATTTTAACTCGTGGTTTCATCCC-AGTCACTT
64 TCTTT-GA-CTTCAACTCGACCTTGGCCACTTCATTTTAACTCGTAGTTTCATCCCGA-TCACTT
* * ** * * * * *
23151388 GATATTGGCTCAGTCTAGTTCATCTCCTAACTTGTGGTTTCGTCCCAATCATTCATCTTCTACCT
126 GACATTGGCTCAGTCCAAATCACCTCATAACTTGTGGTTTCATCCCAATCATTCACCTTCGACCT
23151453 AGACTCGGT
191 AGACTCGGT
23151462 TCTGGTTACT
Statistics
Matches: 161, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
235 5 0.03
236 152 0.94
237 4 0.02
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (236 bp):
TCACTTGATCTTGGCTCAGTCCAGATCATTTCATACGATTCATGGTTTCATCTCAATAGTTTATC
TTTGACTTCAACTCGACCTTGGCCACTTCATTTTAACTCGTAGTTTCATCCCGATCACTTGACAT
TGGCTCAGTCCAAATCACCTCATAACTTGTGGTTTCATCCCAATCATTCACCTTCGACCTAGACT
CGGTCCTAGTCGCTTCATTTTGACTCGTGGTTTTGTCCTGG
Found at i:23152677 original size:19 final size:18
Alignment explanation
Indices: 23152655--23152690 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
23152645 TCCTTTTTCC
23152655 ATTTTATTTTTATTTTTTG
1 ATTTTA-TTTTATTTTTTG
23152674 ATTTTATTTTATTTTTT
1 ATTTTATTTTATTTTTT
23152691 AGCTCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (18 bp):
ATTTTATTTTATTTTTTG
Found at i:23152804 original size:24 final size:24
Alignment explanation
Indices: 23152775--23152821 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
23152765 AAATAATTGT
23152775 AAAAAAA-CTATTTCAAATAAGTAA
1 AAAAAAAGCT-TTTCAAATAAGTAA
23152799 AAAAAAAGTCTTTTCAAATAAGT
1 AAAAAAAG-CTTTTCAAATAAGT
23152822 TTTCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.33
25 12 0.57
26 2 0.10
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (24 bp):
AAAAAAAGCTTTTCAAATAAGTAA
Found at i:23152920 original size:18 final size:15
Alignment explanation
Indices: 23152884--23152913 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23152874 AAAACAAAAA
23152884 CAAAAAAAATCTTTT
1 CAAAAAAAATCTTTT
23152899 CAAAAAAAATCTTTT
1 CAAAAAAAATCTTTT
23152914 TTTCAAATAA
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:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (15 bp):
CAAAAAAAATCTTTT
Found at i:23157073 original size:27 final size:26
Alignment explanation
Indices: 23157022--23157084 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
23157012 ACAATATAAG
23157022 ATAATATTATTTAATCTAATCCTATT
1 ATAATATTATTTAATCTAATCCTATT
* *
23157048 CATAATATTATTTTATC-ATATGCTATT
1 -ATAATATTATTTAATCTA-ATCCTATT
*
23157075 ATAATCTTAT
1 ATAATATTAT
23157085 ATACTAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.51
Consensus pattern (26 bp):
ATAATATTATTTAATCTAATCCTATT
Found at i:23158727 original size:19 final size:19
Alignment explanation
Indices: 23158703--23158750 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
23158693 TTTAAATAAC
*
23158703 TAGATAAATTTAAAAAAAT
1 TAGATAAATATAAAAAAAT
**
23158722 TAGATAAATATAAGGAAAT
1 TAGATAAATATAAAAAAAT
*
23158741 TAAATAAATA
1 TAGATAAATA
23158751 CAATTAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (19 bp):
TAGATAAATATAAAAAAAT
Found at i:23159476 original size:115 final size:114
Alignment explanation
Indices: 23159353--23159577 Score: 283
Period size: 114 Copynumber: 2.0 Consensus size: 114
23159343 CAAAAATTTG
* *
23159353 ATTATCAAGAACTCAGAT-TCACAACAATTTTTTTAG-ATTCACAAGCTTTTATATTCTTAAGAA
1 ATTATCAAGAACTCAGATCT-ACAA-AATTTTTTTAGAATTCACAAGCTTTTAGATTCATAA-AA
23159416 TTTTTGTTTCACAAGAATTTAATTCTCAAAATTACAGTTTCGCAAGAAGTTA
63 TTTTTGTTTCACAAGAATTTAATTCTCAAAATTACAGTTTCGCAAGAAGTTA
* ** * * *
23159468 ATTATCAAGAACTCATATCTGTAAATTTTTTTTTGAATTCACAAGCTTTTAGATTCATAATATTT
1 ATTATCAAGAACTCAGATCTACAAAATTTTTTTAGAATTCACAAGCTTTTAGATTCATAAAATTT
** * ** *
23159533 TTGTTTTGCCAGAATTTAATTCTCAAAATTTTAGTTTTGCAAGAA
66 TTGTTTCACAAGAATTTAATTCTCAAAATTACAGTTTCGCAAGAA
23159578 TTCAAGAACT
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
114 52 0.55
115 41 0.44
116 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (114 bp):
ATTATCAAGAACTCAGATCTACAAAATTTTTTTAGAATTCACAAGCTTTTAGATTCATAAAATTT
TTGTTTCACAAGAATTTAATTCTCAAAATTACAGTTTCGCAAGAAGTTA
Found at i:23165624 original size:5 final size:6
Alignment explanation
Indices: 23165609--23165633 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23165599 AATAATGCAA
23165609 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
23165634 GGAAAGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:23169718 original size:19 final size:20
Alignment explanation
Indices: 23169673--23169719 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
23169663 TTTTTATTAT
23169673 ATTA-AAAAT-AGTTAAACA
1 ATTATAAAATAAGTTAAACA
*
23169691 ATAAT-AAATAAGTTAAA-A
1 ATTATAAAATAAGTTAAACA
23169709 ATTATAAAATA
1 ATTATAAAATA
23169720 TATTTCACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
ATTATAAAATAAGTTAAACA
Found at i:23170096 original size:25 final size:26
Alignment explanation
Indices: 23170059--23170114 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
23170049 CCTAACTTTA
23170059 TTTTTTTCA-TTTTCTCAA-TTTAAAT
1 TTTTTTTCATTTTTC-CAATTTTAAAT
* *
23170084 TTTTTTTCTTTTTTCCAATTTTATAT
1 TTTTTTTCATTTTTCCAATTTTAAAT
23170110 TTTTT
1 TTTTT
23170115 AAATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTTTCATTTTTCCAATTTTAAAT
Found at i:23173869 original size:15 final size:16
Alignment explanation
Indices: 23173849--23173879 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23173839 TAGTTATTTT
23173849 TGAG-AATTTTTTAAA
1 TGAGAAATTTTTTAAA
23173864 TGAGAAATTTTTTAAA
1 TGAGAAATTTTTTAAA
23173880 AAAATTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (16 bp):
TGAGAAATTTTTTAAA
Found at i:23178527 original size:15 final size:15
Alignment explanation
Indices: 23178509--23178544 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
23178499 TTTCAAAAAC
*
23178509 AAAAGTAAAAAGTAA
1 AAAAATAAAAAGTAA
23178524 AAAAATAAAAAGTAA
1 AAAAATAAAAAGTAA
23178539 AGAAAA
1 A-AAAA
23178545 AAAGACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAAGTAA
Found at i:23179999 original size:18 final size:16
Alignment explanation
Indices: 23179948--23180001 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
23179938 TGTAAATATT
*
23179948 AAAAAAAAAAAGAAAGG
1 AAAAAAAAAAAG-AATG
*
23179965 AAAAATAAAAAAAAATG
1 AAAAA-AAAAAAGAATG
23179982 ACCAAAAAAAAAAGAATG
1 A--AAAAAAAAAAGAATG
23180000 AA
1 AA
23180002 GTCTATCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 1 0.03
17 9 0.29
18 17 0.55
19 4 0.13
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAAAGAATG
Found at i:23180433 original size:32 final size:31
Alignment explanation
Indices: 23180387--23180472 Score: 129
Period size: 32 Copynumber: 2.7 Consensus size: 31
23180377 TTAGCGGCAC
*
23180387 ACTAAGCCTGGTCTAGCTGGCATTCAAATCAA
1 ACTAAGCCTAGTCTAGCTGGCATT-AAATCAA
*
23180419 ACTAAACCTAGTCTAGCTGGCACTTAAATCAA
1 ACTAAGCCTAGTCTAGCTGGCA-TTAAATCAA
23180451 ACTAAGCCTAGTCTA-CTGGCAT
1 ACTAAGCCTAGTCTAGCTGGCAT
23180473 CTAAGATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
30 1 0.02
31 6 0.12
32 41 0.82
33 2 0.04
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (31 bp):
ACTAAGCCTAGTCTAGCTGGCATTAAATCAA
Found at i:23180694 original size:77 final size:78
Alignment explanation
Indices: 23180564--23180722 Score: 198
Period size: 77 Copynumber: 2.1 Consensus size: 78
23180554 AAGATGTCAA
* * * ** **
23180564 GATTTGTATGACCTCCGGACATAATCTCTAAGACTTCTGGGTAAAATGATTTAAATTTTTAAA-T
1 GATTTATATGACCTCCGAACATAATCTCTAAGACATCTAAGTAAAAACATTTAAATTTTTAAAGT
*
23180628 TTTCAAT-GCCTCT
66 TTT-AATACCCTCT
*
23180641 GATTTATATGACCTCTGAACATAATCTCTAAGACATCTAAG-AAAAACATTTTAAATTTTTAAAG
1 GATTTATATGACCTCCGAACATAATCTCTAAGACATCTAAGTAAAAACA-TTTAAATTTTTAAAG
23180705 TTTTAATACCCTCT
65 TTTTAATACCCTCT
23180719 GATT
1 GATT
23180723 AGATGAGCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
76 5 0.07
77 52 0.74
78 13 0.19
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (78 bp):
GATTTATATGACCTCCGAACATAATCTCTAAGACATCTAAGTAAAAACATTTAAATTTTTAAAGT
TTTAATACCCTCT
Found at i:23180801 original size:182 final size:183
Alignment explanation
Indices: 23180478--23180826 Score: 420
Period size: 182 Copynumber: 1.9 Consensus size: 183
23180468 GGCATCTAAG
* * * * *
23180478 ATAATCTCTAAGACCTTCGAGTAAAATCATTTTAAATTTTCAAAATTTCAATGCGTCTGATTGAG
1 ATAATCTCTAAGACATTCAAGTAAAAACATTTTAAATTTTCAAAATTTCAATCCCTCTGATTGAG
* * *** *
23180543 AGAAGCATTCAAAGATGTCAAGATTTGTATGACCTCCGGACATAATCTCTAAGACTTCTGGGTAA
66 AGAAGCATTCAAAGATGTCAAGATTTGTAAGACCTCCGGACATAATCTCTAAGACCTCCAAGCAA
* * *
23180608 AATGATTTAAATTTTTAAATTTTCAATGCCTCTGATTTATATGACCTCTGAAC
131 AATCATTTAAATTTTCAAAGTTTCAATGCCTCTGATTTATATGACCTCTGAAC
* * *
23180661 ATAATCTCTAAGACA-TCTAAG-AAAAACATTTTAAATTTTTAAAGTTTTAATACCCTCTGATT-
1 ATAATCTCTAAGACATTC-AAGTAAAAACATTTTAAATTTTCAAAATTTCAAT-CCCTCTGATTG
* * * **
23180723 AGATG-AGCATTCAAAGATGTTAAGATTTGTAAGACTTTCGGGTATAATCTCTAAGACCTCCAAG
64 AGA-GAAGCATTCAAAGATGTCAAGATTTGTAAGACCTCCGGACATAATCTCTAAGACCTCCAAG
*
23180787 CAAAA-CATTTTAAATTTTCAAAGTTTCAATGCCTTTGATT
128 CAAAATCA-TTTAAATTTTCAAAGTTTCAATGCCTCTGATT
23180827 AGGATGAGCA
Statistics
Matches: 139, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
181 1 0.01
182 113 0.81
183 25 0.18
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (183 bp):
ATAATCTCTAAGACATTCAAGTAAAAACATTTTAAATTTTCAAAATTTCAATCCCTCTGATTGAG
AGAAGCATTCAAAGATGTCAAGATTTGTAAGACCTCCGGACATAATCTCTAAGACCTCCAAGCAA
AATCATTTAAATTTTCAAAGTTTCAATGCCTCTGATTTATATGACCTCTGAAC
Found at i:23180833 original size:105 final size:105
Alignment explanation
Indices: 23180661--23180859 Score: 292
Period size: 105 Copynumber: 1.9 Consensus size: 105
23180651 ACCTCTGAAC
* * *
23180661 ATAATCTCTAAGACATCTAAGAAAAACATTTTAAATTTTTAAAGTTTTAATACCCTCTGATTAGA
1 ATAATCTCTAAGACATCCAAGAAAAACATTTTAAATTTTCAAAGTTTCAATACCCTCTGATTAGA
* *
23180726 TGAGCATTCAAAGATGTTAAGATTTGTAAGACTTTCGGGT
66 TGAGCATTCAAAAATATTAAGATTTGTAAGACTTTCGGGT
* * * *
23180766 ATAATCTCTAAGACCTCCAAGCAAAACATTTTAAATTTTCAAAGTTTCAAT-GCCTTTGATTAGG
1 ATAATCTCTAAGACATCCAAGAAAAACATTTTAAATTTTCAAAGTTTCAATACCCTCTGATTA-G
*
23180830 ATGAGCATTCAAAAATATTGAGATTTGTAA
65 ATGAGCATTCAAAAATATTAAGATTTGTAA
23180860 AGCCTCCAAG
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
104 9 0.11
105 74 0.89
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (105 bp):
ATAATCTCTAAGACATCCAAGAAAAACATTTTAAATTTTCAAAGTTTCAATACCCTCTGATTAGA
TGAGCATTCAAAAATATTAAGATTTGTAAGACTTTCGGGT
Found at i:23181019 original size:82 final size:82
Alignment explanation
Indices: 23180778--23181031 Score: 275
Period size: 83 Copynumber: 3.1 Consensus size: 82
23180768 AATCTCTAAG
* *
23180778 ACCTCCAAGCAAAACATTTT-AAATTTTCAAAGTTTCAATGCCTTTGATTAGGA-TGAGCATTCA
1 ACCTTCAAGCAAAAC-TTTTAAAATTTTCAAAGTTTCAATGCCTTTAATTAGGAGT-AGCATTCA
* *
23180841 AAAATATTGAGATTTGTAA
64 AAGATGTTGAGATTTGTAA
* * * * * *
23180860 AGCCTCCAAGCAAAATATTTTAAAA-TTTCAAAGGTTCAATGTCTTTAATT-GGTTGGAGCATTC
1 A-CCTTCAAGCAAAA-CTTTTAAAATTTTCAAAGTTTCAATGCCTTTAATTAGG-AGTAGCATTC
23180923 AAAGATGTTGAGATTTGTAA
63 AAAGATGTTGAGATTTGTAA
*** * *
23180943 GACCTTTGGGCAAAACTTTTAAAATTTTCAAAGTTTCAATACCTTTAATTAAGAGTAG-ATTCAA
1 -ACCTTCAAGCAAAACTTTTAAAATTTTCAAAGTTTCAATGCCTTTAATTAGGAGTAGCATTCAA
23181007 AGATGTTGAGATTTGTTAA
65 AGATGTTGAGATTTG-TAA
23181026 ACCTTC
1 ACCTTC
23181032 GAGCTTAATC
Statistics
Matches: 143, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
82 37 0.26
83 101 0.71
84 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (82 bp):
ACCTTCAAGCAAAACTTTTAAAATTTTCAAAGTTTCAATGCCTTTAATTAGGAGTAGCATTCAAA
GATGTTGAGATTTGTAA
Found at i:23181164 original size:105 final size:105
Alignment explanation
Indices: 23181001--23181348 Score: 305
Period size: 105 Copynumber: 3.3 Consensus size: 105
23180991 TTAAGAGTAG
* * * * * *
23181001 ATTCAAAGATGTTGAGATTTGTTAA-ACCTTC-GAGC-TTAATCTCCAAAACCTCTAGGTAAAAT
1 ATTCAAAGATGTCGAGATTTG-TAAGACCTCCAG-GCACT-ATCTCCAAGACTTCCAGGTAAAAT
*
23181063 ATTTTAAAATTTCAAAGTTTTAATGCCTCTGATTGGGAGGAAA
63 ATTTTAAAATTTCAAAGTTTGAATGCCTCTGATTGGGAGGAAA
* * * * *
23181106 ATTCAAAGATGTCGAGATTTGTAAGATCTCTAGGCA-TAATTTTCAAGACCTT-CGGGTAAAATA
1 ATTCAAAGATGTCGAGATTTGTAAGACCTCCAGGCACT-ATCTCCAAGA-CTTCCAGGTAAAATA
* * * **
23181169 TTTTAAATTTTCAAAGTTAGAATGCCTCTGACTGGGAGGAGC
64 TTTTAAAATTTCAAAGTTTGAATGCCTCTGATTGGGAGGAAA
* * * * * * * * *
23181211 ATTTAAATATATTGAGAATTGTAAGACCTCCGGGTACTATCTCCAAGACTTCCAGGCAAAACATT
1 ATTCAAAGATGTCGAGATTTGTAAGACCTCCAGGCACTATCTCCAAGACTTCCAGGTAAAATATT
* *
23181276 TTAAAATTTCAAAGTTTGAATGCCTCTTATT-AGA-GAAA
66 TTAAAATTTCAAAGTTTGAATGCCTCTGATTGGGAGGAAA
* * * *
23181314 CATCCAAAGGTGTCGAGATTTGTAAAACCTTCAGG
1 -ATTCAAAGATGTCGAGATTTGTAAGACCTCCAGG
23181349 TGTAATCCTA
Statistics
Matches: 189, Mismatches: 47, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
103 2 0.01
104 32 0.17
105 151 0.80
106 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (105 bp):
ATTCAAAGATGTCGAGATTTGTAAGACCTCCAGGCACTATCTCCAAGACTTCCAGGTAAAATATT
TTAAAATTTCAAAGTTTGAATGCCTCTGATTGGGAGGAAA
Found at i:23182097 original size:17 final size:18
Alignment explanation
Indices: 23182066--23182108 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
23182056 CAAAATCCAA
23182066 TTCTT-TTTTTATTGTTG
1 TTCTTATTTTTATTGTTG
*
23182083 TT-TTATTTTTGTTGTTG
1 TTCTTATTTTTATTGTTG
23182100 TTCTTATTT
1 TTCTTATTT
23182109 ATTAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 15 0.65
18 6 0.26
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.77
Consensus pattern (18 bp):
TTCTTATTTTTATTGTTG
Found at i:23182303 original size:28 final size:28
Alignment explanation
Indices: 23182271--23182327 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
23182261 AAATTTTGAA
23182271 TTGTTATTACAAAGGGCCAGATAAAAAC
1 TTGTTATTACAAAGGGCCAGATAAAAAC
23182299 TTGTTATTACAAAGGGCCAGATAAAAAC
1 TTGTTATTACAAAGGGCCAGATAAAAAC
23182327 T
1 T
23182328 AAGGATGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (28 bp):
TTGTTATTACAAAGGGCCAGATAAAAAC
Found at i:23187397 original size:6 final size:6
Alignment explanation
Indices: 23187386--23187450 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
23187376 TTTAACTTAA
* * * * *
23187386 AATAAC AATAAC AATAAC AACAAC AACAAC AACAAC AACAAC AACAAC
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
* *
23187434 AATAAT AATAAT AATAA
1 AATAAC AATAAC AATAA
23187451 TAATGGTTGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.68, C:0.20, G:0.00, T:0.12
Consensus pattern (6 bp):
AATAAC
Found at i:23187409 original size:3 final size:3
Alignment explanation
Indices: 23187389--23187435 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
23187379 AACTTAAAAT
* *
23187389 AAC AAT AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
23187436 TAATAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.68, C:0.28, G:0.00, T:0.04
Consensus pattern (3 bp):
AAC
Found at i:23187532 original size:82 final size:82
Alignment explanation
Indices: 23187434--23187598 Score: 242
Period size: 82 Copynumber: 2.0 Consensus size: 82
23187424 CAACAACAAC
*
23187434 AATAATAATAATAATAATAATGGTTGGACCAAAGCCTAT-ATCCGATCAACAAATACCAAGTTCA
1 AATAATAATAACAATAATAATGGTTGGACCAAAGCCTATGAT-CGATCAACAAATACCAAGTTCA
23187498 AAGCCCAAACCAAATAAT
65 AAGCCCAAACCAAATAAT
* * * * * *
23187516 AATAATAATAACAATAATATTGGTTGGACCAAAGCCTATGATTGATCAACAAATGCTAGGTTTAA
1 AATAATAATAACAATAATAATGGTTGGACCAAAGCCTATGATCGATCAACAAATACCAAGTTCAA
*
23187581 ATCCCAAACCAAATAAT
66 AGCCCAAACCAAATAAT
23187598 A
1 A
23187599 CAAAATGTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 72 0.97
83 2 0.03
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (82 bp):
AATAATAATAACAATAATAATGGTTGGACCAAAGCCTATGATCGATCAACAAATACCAAGTTCAA
AGCCCAAACCAAATAAT
Found at i:23193845 original size:14 final size:15
Alignment explanation
Indices: 23193826--23193854 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23193816 TCAAATTTAG
23193826 GCATAA-TTCTTCTT
1 GCATAATTTCTTCTT
23193840 GCATAATTTCTTCTT
1 GCATAATTTCTTCTT
23193855 ATCCTTAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (15 bp):
GCATAATTTCTTCTT
Found at i:23198539 original size:13 final size:13
Alignment explanation
Indices: 23198504--23198550 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
23198494 ATATATATAT
*
23198504 ATATATAATGAAC
1 ATATATAAAGAAC
*
23198517 TATATATAAAGAGC
1 -ATATATAAAGAAC
*
23198531 ATATCTAAAGAAC
1 ATATATAAAGAAC
23198544 ATATATA
1 ATATATA
23198551 GACATTGAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.30
Consensus pattern (13 bp):
ATATATAAAGAAC
Found at i:23216473 original size:10 final size:11
Alignment explanation
Indices: 23216458--23216491 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
23216448 AGTTGATACC
23216458 ATAATTA-AAA
1 ATAATTATAAA
23216468 ATAATTATAAA
1 ATAATTATAAA
*
23216479 AAAATTATAAA
1 ATAATTATAAA
23216490 AT
1 AT
23216492 TAATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAATTATAAA
Done.