Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 83 of 167
Found at i:27223472 original size:21 final size:21
Alignment explanation
Indices: 27223448--27223517 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
27223438 TGATCTAAAC
27223448 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * **
27223469 TCA-TGATATATGTGACATCTGAAC
1 TCATTGA-GT-TGTG--GTCTGAGT
27223493 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
27223514 TCAT
1 TCAT
27223518 GATGTATGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 4 0.11
23 4 0.11
24 9 0.25
25 3 0.08
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:27223496 original size:45 final size:45
Alignment explanation
Indices: 27223440--27223526 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
27223430 GAACTATGTG
27223440 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
* *
27223485 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGT
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGT
27223527 ACACATGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:27224724 original size:51 final size:51
Alignment explanation
Indices: 27224643--27224742 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
27224633 ACGGGAATGT
* *
27224643 GTCTTGGCCGTGTGAGACATACAGTTTGCCCCATAAGCGTGTGATCTGGTC
1 GTCTTGGCCGTGTGAGACACACAGTCTGCCCCATAAGCGTGTGATCTGGTC
* **
27224694 GTCTTGGCCGTGTGTGACACACAGTCTGCCCCATGGGCGTGTGATCTGG
1 GTCTTGGCCGTGTGAGACACACAGTCTGCCCCATAAGCGTGTGATCTGG
27224743 CCGTGTGTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.15, C:0.25, G:0.32, T:0.28
Consensus pattern (51 bp):
GTCTTGGCCGTGTGAGACACACAGTCTGCCCCATAAGCGTGTGATCTGGTC
Found at i:27232596 original size:79 final size:81
Alignment explanation
Indices: 27232460--27232642 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
27232450 TCGAATGATG
* *
27232460 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
27232524 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
27232539 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
27232601 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
27232619 ACCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27232643 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:27232651 original size:40 final size:40
Alignment explanation
Indices: 27232460--27232644 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
27232450 TCGAATGATG
* * * *
27232460 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
27232500 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27232540 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27232579 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
27232620 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27232645 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27232666 original size:79 final size:79
Alignment explanation
Indices: 27232513--27232677 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
27232503 GGACTAAGAT
* * **
27232513 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
*
27232578 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
27232592 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
27232655 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
27232671 CCGAAGG
1 CCGAAGG
27232678 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:27236222 original size:43 final size:43
Alignment explanation
Indices: 27236088--27236298 Score: 225
Period size: 43 Copynumber: 5.0 Consensus size: 43
27236078 ATAAACCTCG
* * *
27236088 TACAATGCC-ATATCCCAAATAT-GTCTTACATGTTATCAC-A
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAA
* * * * * ***
27236128 TATCGATGCCACTGTCCCAAACAGGGT-TTACATGTAAT-TGTA
1 TA-CAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAA
* *
27236170 TAACGATGCCAATATCCCAGACATGGTCTTACACGTAATCACAA
1 T-ACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAA
*
27236214 TACAATGCCAATATCCTAGACATGGTCTTACATGTAATCACAA
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAA
* *
27236257 TACAGTGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACA
27236299 TCTCGATAAT
Statistics
Matches: 142, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
40 2 0.01
41 6 0.04
42 41 0.29
43 91 0.64
44 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATATCCCAGACATGGTCTTACATGTAATCACAA
Found at i:27240147 original size:15 final size:15
Alignment explanation
Indices: 27240108--27240187 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
27240098 ATATCTTGGG
*
27240108 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
27240123 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
27240138 TTTCTTTATTATGGG
1 TTTCTTTATTCTGGA
*
27240153 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
27240168 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
27240182 TTTCTT
1 TTTCTT
27240188 GTTATCTTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 42 0.79
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:27240168 original size:30 final size:30
Alignment explanation
Indices: 27240099--27240177 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
27240089 CATAGTATCA
* ** *
27240099 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTATGGATCTCTC
* *
27240129 TAT-TCTGGATTTCTTTATTATGGGTTTCTC
1 TATCT-TGGATTTCTTTATTATGGATCTCTC
27240159 TATCTTGGATTTCTTTATT
1 TATCTTGGATTTCTTTATT
27240178 CGGTTTTCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 1 0.02
30 39 0.95
31 1 0.02
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTATGGATCTCTC
Found at i:27245257 original size:14 final size:15
Alignment explanation
Indices: 27245240--27245272 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
27245230 ATTTAAAAAT
27245240 TATTAAAAT-ATAAA
1 TATTAAAATAATAAA
27245254 TATTAAAATAATAAA
1 TATTAAAATAATAAA
27245269 -ATTA
1 TATTA
27245273 CTGGCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TATTAAAATAATAAA
Found at i:27247811 original size:40 final size:41
Alignment explanation
Indices: 27247753--27247830 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27247743 TACTATGTAA
* * *
27247753 AAAATTTAAAATAATTAAATTTTAAAAAA-ATTTAAAAAAT
1 AAAATTTAAAATAATTAAATATCAAAAAATAATTAAAAAAT
*
27247793 AAAA-TTAAAATATTTTAAATATCAAAAAATAATTAAAA
1 AAAATTTAAAATA-ATTAAATATCAAAAAATAATTAAAA
27247831 TGATAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 8 0.25
40 17 0.53
41 7 0.22
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (41 bp):
AAAATTTAAAATAATTAAATATCAAAAAATAATTAAAAAAT
Found at i:27250440 original size:28 final size:28
Alignment explanation
Indices: 27250374--27250506 Score: 176
Period size: 29 Copynumber: 4.6 Consensus size: 28
27250364 CATGAGATTG
* * **
27250374 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
27250403 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27250431 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
27250460 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27250488 ACACTAAGTGTGCGGAGTT
1 GCACTAAGTGTGC-GAGTT
27250507 ACTATATGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
28 44 0.47
29 49 0.53
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:27250463 original size:57 final size:57
Alignment explanation
Indices: 27250374--27250506 Score: 187
Period size: 57 Copynumber: 2.3 Consensus size: 57
27250364 CATGAGATTG
*
27250374 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
27250431 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
27250488 ACACTAAGTGTGCGGAGTT
1 GCACTAAGTGTGC-GAGTT
27250507 ACTATATGTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
57 60 0.88
58 8 0.12
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:27255523 original size:28 final size:30
Alignment explanation
Indices: 27255482--27255539 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
27255472 TGATTTTAAG
*
27255482 TTAATAGGACTAAATTGCAAAAT-AATAAA
1 TTAATAGGACTAAAATGCAAAATAAATAAA
*
27255511 TTAA-AGGACTAAAATGTAAAATAAATAAA
1 TTAATAGGACTAAAATGCAAAATAAATAAA
27255540 ATATATGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (30 bp):
TTAATAGGACTAAAATGCAAAATAAATAAA
Found at i:27256400 original size:35 final size:34
Alignment explanation
Indices: 27256324--27256455 Score: 95
Period size: 35 Copynumber: 3.8 Consensus size: 34
27256314 ATAGGTAAGT
* * *
27256324 ATATGTAAGCTTATATTGAACTTGAATATTCAATT
1 ATATGTGAG-TTATATTGAATTTGAATATTCAATC
* ** *
27256359 ACATGTGAGTTTATATTGAATTTGTGTATTCAGTC
1 ATATGTGAG-TTATATTGAATTTGAATATTCAATC
* * ** *
27256394 ATATGTGAAGTTATCTTGAATGTCCATATTC-AGC
1 ATATGTG-AGTTATATTGAATTTGAATATTCAATC
*
27256428 TATATGTGATGTTCTATTGAATTTGAAT
1 -ATATGTGA-GTTATATTGAATTTGAAT
27256456 TATAATTTAC
Statistics
Matches: 73, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
34 2 0.03
35 69 0.95
36 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (34 bp):
ATATGTGAGTTATATTGAATTTGAATATTCAATC
Found at i:27266203 original size:22 final size:22
Alignment explanation
Indices: 27266175--27266218 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27266165 GGAAAAACAA
27266175 AGTTTCGGACTAGTCGATCCGT
1 AGTTTCGGACTAGTCGATCCGT
27266197 AGTTTCGGACTAGTCGATCCGT
1 AGTTTCGGACTAGTCGATCCGT
27266219 TCCATCGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (22 bp):
AGTTTCGGACTAGTCGATCCGT
Found at i:27266574 original size:76 final size:77
Alignment explanation
Indices: 27266447--27266629 Score: 287
Period size: 76 Copynumber: 2.4 Consensus size: 77
27266437 GATACGTTGA
* *
27266447 TTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGTATTATACCAATTTGGCTTCAGGCCATG
1 TTTGGCTTCGGGCCATGATATTAGCACTTCAGGTGCATATTATACCAATTTGGCTTCAGGCCATG
27266512 CATATCGGATGG
66 CATATCGGATGG
* * *
27266524 TTTGGCTTCAGG-CATGATATTAGCACTTCAGGTGCATATTATACCGATTTGGCTTCGGGCCATG
1 TTTGGCTTCGGGCCATGATATTAGCACTTCAGGTGCATATTATACCAATTTGGCTTCAGGCCATG
*
27266588 CATATCGGGTGG
66 CATATCGGATGG
* *
27266600 TTTGGCTTCGGGCCATGATAATAGTACTTC
1 TTTGGCTTCGGGCCATGATATTAGCACTTC
27266630 GGATAAGTTA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
76 70 0.73
77 26 0.27
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (77 bp):
TTTGGCTTCGGGCCATGATATTAGCACTTCAGGTGCATATTATACCAATTTGGCTTCAGGCCATG
CATATCGGATGG
Found at i:27272890 original size:77 final size:77
Alignment explanation
Indices: 27272757--27272916 Score: 243
Period size: 77 Copynumber: 2.1 Consensus size: 77
27272747 TTGATTGGGA
*
27272757 TTCGGGCCATGATATTAGCACATCAGGTACGTATTATACCGATTTTGCTTCTGGCCATGCATATC
1 TTCGGGCCATGATATTAGCACATCAGGTACGTATTATACCGATTTTGCTTCGGGCCATGCATATC
27272822 GGATGGTTTGGC
66 GGATGGTTTGGC
* * *
27272834 TTCGGGCCATGATATTATCA-ATTCAGGTGCGTATTATACTGA-TTTGTCTTCGGGCCATGCATA
1 TTCGGGCCATGATATTAGCACA-TCAGGTACGTATTATACCGATTTTG-CTTCGGGCCATGCATA
27272897 TCGGATGGTTTGGC
64 TCGGATGGTTTGGC
*
27272911 TCCGGG
1 TTCGGG
27272917 TTAGATAATA
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
76 5 0.07
77 71 0.93
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (77 bp):
TTCGGGCCATGATATTAGCACATCAGGTACGTATTATACCGATTTTGCTTCGGGCCATGCATATC
GGATGGTTTGGC
Found at i:27275519 original size:47 final size:47
Alignment explanation
Indices: 27275450--27275544 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
27275440 CGAGTAAAAG
27275450 GGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGT
1 GGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGT
*
27275497 GGCTTAATCTGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGT
1 GGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGT
27275544 G
1 G
27275545 AGAATTTGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (47 bp):
GGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGTTAGAGT
Found at i:27283767 original size:55 final size:53
Alignment explanation
Indices: 27283642--27283826 Score: 201
Period size: 55 Copynumber: 3.4 Consensus size: 53
27283632 AACTTACCAT
* * * * * *
27283642 TGCCATGTCTTGACATGATCTTACGTGGTATCCTTGCCTTAT-GAGCTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTACCTTATAGAACTCATCAA
* * *
27283695 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTACCTTATAG-AACTCATCAA
* * * *
27283750 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTACCTTATAGAACTCATCAA
*
27283804 TGCCATGCCTTGGCATGGTCTTA
1 TGCCATGCCTTGACATGGTCTTA
27283827 TACGATATCC
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.30
54 31 0.28
55 43 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTACCTTATAGAACTCATCAA
Found at i:27283826 original size:54 final size:54
Alignment explanation
Indices: 27283631--27283844 Score: 207
Period size: 54 Copynumber: 4.0 Consensus size: 54
27283621 TTTCCTTTTT
* * * * * * *
27283631 GAACTTACCATTGCCATGTCTTGACATGATCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
* * ** *
27283684 GAGCTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTACCTTATA
* * *
27283738 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
* * * * * *
27283793 GAACTTATCAATGCCATGCCTTGGCATGGTCTTATACGATATCCTTATCTTA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTA
27283845 GCAAATGCCA
Statistics
Matches: 133, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 41 0.31
54 45 0.34
55 43 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
Found at i:27283872 original size:47 final size:47
Alignment explanation
Indices: 27283817--27283939 Score: 192
Period size: 47 Copynumber: 2.6 Consensus size: 47
27283807 CATGCCTTGG
* * * *
27283817 CATGGTCTTATACGATATCCTTATCTTAGCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTAGCAAATGCCATGTTCCAAA
*
27283864 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTAGCAAATGCCATGTTCCAAA
*
27283911 CATGATCTTACATGGTATCCTTGTCTTAG
1 CATGGTCTTACATGGTATCCTTGTCTTAG
27283940 TGCTAATGCC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTAGCAAATGCCATGTTCCAAA
Found at i:27306323 original size:34 final size:34
Alignment explanation
Indices: 27306280--27306348 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
27306270 GGATCGAGAG
27306280 TGTGTTCCTTAATTAAATGCCCTAATAGGTACCC
1 TGTGTTCCTTAATTAAATGCCCTAATAGGTACCC
*
27306314 TGTGTTCCTTAATTAAATGCCCTAATGGGTACCC
1 TGTGTTCCTTAATTAAATGCCCTAATAGGTACCC
27306348 T
1 T
27306349 TGAATAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (34 bp):
TGTGTTCCTTAATTAAATGCCCTAATAGGTACCC
Found at i:27310056 original size:40 final size:40
Alignment explanation
Indices: 27310012--27310098 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
27310002 TGATGACATA
*
27310012 TCGGCTAAATATGGCACTTAGTGTGCGGTTTG-GTATAGCT
1 TCGGCTAAATATGGCACTTAGTGTGCGATTTGAG-ATAGCT
*
27310052 TCGGCTAAATTTGGCACTTAGTGTGCGATTTGAGATAGCT
1 TCGGCTAAATATGGCACTTAGTGTGCGATTTGAGATAGCT
27310092 TCGGCTA
1 TCGGCTA
27310099 TGTACAACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (40 bp):
TCGGCTAAATATGGCACTTAGTGTGCGATTTGAGATAGCT
Found at i:27310161 original size:28 final size:28
Alignment explanation
Indices: 27310129--27310207 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
27310119 GACATCAAAT
27310129 ATGGCACTTAGTGTGTGAAATATTGAGA
1 ATGGCACTTAGTGTGTGAAATATTGAGA
* *
27310157 ATGGCACATAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTGTGAAATATTGAGA
*
27310185 ATGGCACTTAGTATGTGAAATAT
1 ATGGCACTTAGTGTGTGAAATAT
27310208 CGAATGATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
ATGGCACTTAGTGTGTGAAATATTGAGA
Found at i:27312264 original size:7 final size:7
Alignment explanation
Indices: 27312252--27312284 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
27312242 CCGAATGCTT
27312252 CTAAACC
1 CTAAACC
27312259 CTAAACC
1 CTAAACC
27312266 CTAAACC
1 CTAAACC
27312273 CTAAACC
1 CTAAACC
27312280 CTAAA
1 CTAAA
27312285 AGTCGGAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:27321554 original size:6 final size:6
Alignment explanation
Indices: 27321536--27321587 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
27321526 ATTTTATATT
* * * *
27321536 TTTTTA TTCTTA TTTTTA TTTTTA TTTTTA TTTTTC TTTTGA TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
27321584 TTTT
1 TTTT
27321588 CGTTTCACTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:27321580 original size:18 final size:16
Alignment explanation
Indices: 27321527--27321587 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 16
27321517 AATCTTCCTA
*
27321527 TTTTATATTTTTTTAT
1 TTTTATTTTTTTTTAT
*
27321543 TCTTATTTTTATTTTTAT
1 TTTTA-TTTT-TTTTTAT
27321561 TTTTATTTTTCTTTTGAT
1 TTTTATTTTT-TTTT-AT
*
27321579 TTTTCTTTT
1 TTTTATTTT
27321588 CGTTTCACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
16 5 0.14
17 11 0.30
18 21 0.57
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTATTTTTTTTTAT
Found at i:27324534 original size:13 final size:13
Alignment explanation
Indices: 27324518--27324550 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27324508 TTTAATTAAA
*
27324518 TTAGTTAATTAGT
1 TTAGATAATTAGT
27324531 TTAGATAATTAGT
1 TTAGATAATTAGT
27324544 TTA-ATAA
1 TTAGATAA
27324551 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:27329215 original size:12 final size:12
Alignment explanation
Indices: 27329198--27329222 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27329188 ATGTAAGTGA
27329198 TCTTGATGATTT
1 TCTTGATGATTT
27329210 TCTTGATGATTT
1 TCTTGATGATTT
27329222 T
1 T
27329223 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:27330096 original size:47 final size:46
Alignment explanation
Indices: 27329886--27330149 Score: 184
Period size: 47 Copynumber: 5.7 Consensus size: 46
27329876 TGTGTGTGCT
* * *
27329886 AGTGTAAGA-CATGTCTGGGACATGCATCGA--CAAAATTATGGAAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGA-TAT-G-AGCC
* * * * *
27329932 AGTGTAAGACCATGTTTGGGACATGGCATCGACACTGAGACGA-GTGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACTC-GAGA-TATGAGCC
* * * * * * * *
27329980 GGTGGAAGA-CATGTCTAGGATATGCATTAGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCA-TCGACTCGAGATATGAGCC
* *
27330026 AGTGTTATG--CATGTCTGGGACATGTATCGACTACGAGATGATG-GCC
1 AGTG-TAAGACCATGTCTGGGACATGCATCGACT-CGAGAT-ATGAGCC
* *
27330072 AGTGTAAGACCATGTCTGGGACATGGCATTGACTTGAGATATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACTCGAGATATGAGCC
27330119 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
27330150 GTACCTTGCC
Statistics
Matches: 170, Mismatches: 34, Indels: 27
0.74 0.15 0.12
Matches are distributed among these distances:
45 7 0.04
46 51 0.30
47 83 0.49
48 24 0.14
49 1 0.01
50 1 0.01
51 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATATGAGCC
Found at i:27331410 original size:29 final size:29
Alignment explanation
Indices: 27331368--27331426 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
27331358 CTTTAAGAGA
27331368 TCAGGATTGATTCTGAATTGGTTTCTAAG
1 TCAGGATTGATTCTGAATTGGTTTCTAAG
27331397 TCAGGATTGATTCTGAATTGGTTTCTAAG
1 TCAGGATTGATTCTGAATTGGTTTCTAAG
27331426 T
1 T
27331427 ATATTTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (29 bp):
TCAGGATTGATTCTGAATTGGTTTCTAAG
Found at i:27337589 original size:47 final size:46
Alignment explanation
Indices: 27337518--27337642 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
27337508 ACTTGTGTGT
*
27337518 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCA-AAATTATGGA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACAAA-GAT-GACA
** *
27337564 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGACT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAAAGATGACA
*
27337612 GCTAGTGTAAGACATGTCTGAGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
27337643 AACCTCGAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
46 17 0.24
47 29 0.41
48 23 0.33
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACAAAGATGACA
Found at i:27337730 original size:93 final size:94
Alignment explanation
Indices: 27337569--27337788 Score: 252
Period size: 93 Copynumber: 2.4 Consensus size: 94
27337559 TGGAAGCTAG
* * *
27337569 TGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGACTGCTAGTGTAAGACATGTCTGAG
1 TGTAAGACCATGTTTGGGACATGACATCGGCACTGAGATGACTGCTAGTGTAAGACATATCTGAG
* *
27337634 ACAT-GCATCAACCTCGAGATGTTAGCCAA
66 ACATGGCATCAA-CTCGAGATATGAGCCAA
* * *
27337663 TGTAAGA-CATGTTTGGGACAT-ACATTGGCTAC-GAGATGA-TGGTCAGTGTAAGACCATATTT
1 TGTAAGACCATGTTTGGGACATGACATCGGC-ACTGAGATGACTGCT-AGTGTAAGA-CATATCT
* * * *
27337724 GGGACATGGCATCGACTTGAGATATGAGCCAG
63 GAGACATGGCATCAACTCGAGATATGAGCCAA
*
27337756 TGTAAGACCATGTTTGGGACATGGCATCGGCAC
1 TGTAAGACCATGTTTGGGACATGACATCGGCAC
27337789 CTTACCCATA
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
91 3 0.03
92 22 0.21
93 46 0.43
94 29 0.27
95 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
TGTAAGACCATGTTTGGGACATGACATCGGCACTGAGATGACTGCTAGTGTAAGACATATCTGAG
ACATGGCATCAACTCGAGATATGAGCCAA
Found at i:27337746 original size:47 final size:47
Alignment explanation
Indices: 27337567--27337784 Score: 207
Period size: 47 Copynumber: 4.7 Consensus size: 47
27337557 TATGGAAGCT
* *
27337567 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GAGATGACT-GCT
1 AGTGTAAGACCATGTTTGGGACATGGCATC-G-ACTCGAGATGA-TGGCC
* * * * *
27337615 AGTGTAAGA-CATGTCTGAGACAT-GCATCAACCTCGAGATGTTAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGA-CTCGAGATGATGGCC
* * * * *
27337661 AATGTAAGA-CATGTTTGGGACAT-ACATTGGCTACGAGATGATGGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACT-CGAGATGATGGCC
* *
27337707 AGTGTAAGACCATATTTGGGACATGGCATCGACTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGACTCGAGATGATG-GCC
27337754 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTTTGGGACATGGCATCG
27337785 GCACCTTACC
Statistics
Matches: 141, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
44 1 0.01
45 5 0.04
46 57 0.40
47 63 0.45
48 15 0.11
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGACTCGAGATGATGGCC
Found at i:27340802 original size:29 final size:29
Alignment explanation
Indices: 27340763--27340841 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
27340753 CTTAATAATC
*
27340763 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
27340793 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
27340822 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27340842 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:27354468 original size:15 final size:14
Alignment explanation
Indices: 27354448--27354495 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 14
27354438 ATCAAAAATG
27354448 TTTTTTTCAGTTTCT
1 TTTTTTTCA-TTTCT
27354463 TTTTTTTCATTTCT
1 TTTTTTTCATTTCT
27354477 CATTTTTTTC-TTTCT
1 --TTTTTTTCATTTCT
27354492 TTTT
1 TTTT
27354496 AAATTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.13
14 5 0.16
15 14 0.45
16 8 0.26
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTTTTCATTTCT
Found at i:27357243 original size:34 final size:34
Alignment explanation
Indices: 27357184--27357249 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
27357174 ACAACTTGAT
**
27357184 GAAGAATCTTTATATGAAGTGTGGGAGCGGTTAC
1 GAAGAATCTTTATATGAAGCATGGGAGCGGTTAC
* *
27357218 GAAGAATCTTTATATGAGGCATGGGAGTGGTT
1 GAAGAATCTTTATATGAAGCATGGGAGCGGTT
27357250 CAAGGAGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.30
Consensus pattern (34 bp):
GAAGAATCTTTATATGAAGCATGGGAGCGGTTAC
Found at i:27359596 original size:18 final size:18
Alignment explanation
Indices: 27359563--27359597 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27359553 TTCAACTATA
*
27359563 GCTTATTTTAAGTCATAT
1 GCTTATTTAAAGTCATAT
*
27359581 GCTTATTTAAATTCATA
1 GCTTATTTAAAGTCATA
27359598 CATTTCATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (18 bp):
GCTTATTTAAAGTCATAT
Found at i:27372955 original size:21 final size:21
Alignment explanation
Indices: 27372931--27372973 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
27372921 CGGTGAAAGT
27372931 AAAATTTTCGGAGTTGATTTG
1 AAAATTTTCGGAGTTGATTTG
27372952 AAAATTTTCGGAGTTGATTTG
1 AAAATTTTCGGAGTTGATTTG
27372973 A
1 A
27372974 TTAAAGATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (21 bp):
AAAATTTTCGGAGTTGATTTG
Found at i:27374918 original size:40 final size:40
Alignment explanation
Indices: 27374808--27375024 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
27374798 CGGATGATAA
* *
27374808 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
27374848 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27374887 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27374927 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27374967 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
27375007 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27375025 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
39 51 0.31
40 113 0.69
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27375022 original size:119 final size:119
Alignment explanation
Indices: 27374804--27375024 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
27374794 TATTCGGATG
* *
27374804 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
27374869 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
66 TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTACGAGTTACT
*
27374923 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
27374987 ATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
27375025 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 2 0.02
119 64 0.70
120 26 0.28
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTACGAGTTACT
Found at i:27382578 original size:27 final size:27
Alignment explanation
Indices: 27382506--27382591 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
27382496 TTAGTTTACC
* * *
27382506 AAATTACAAAAATA-CCCTCGATTAGAA
1 AAATTACCAAAATACCCCT-GATTTGTA
27382533 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
27382560 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
27382587 AAATT
1 AAATT
27382592 TTCGAAATGC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
26 1 0.02
27 47 0.89
28 5 0.09
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:27382618 original size:27 final size:27
Alignment explanation
Indices: 27382594--27382684 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
27382584 GTAAAATTTT
* *
27382594 CGAAATGCCCTTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
27382621 CGAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
** *
27382648 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAAGGTAGAATTAC
*
27382675 CGAGATACCC
1 CGAAATACCC
27382685 TCGTGGGTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAAGGTAGAATTAC
Found at i:27382692 original size:26 final size:27
Alignment explanation
Indices: 27382594--27382700 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
27382584 GTAAAATTTT
* * *
27382594 CGAAATGCCCTTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
27382621 CGAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
27382648 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
27382675 CGAGATA-CCCTCGT-GGGTAAAATTAC
1 CGAAATACCCCT-GTAGGGTAGAATTAC
27382701 TATTTTGCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.21
27 55 0.79
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:27383416 original size:67 final size:67
Alignment explanation
Indices: 27383308--27383461 Score: 299
Period size: 67 Copynumber: 2.3 Consensus size: 67
27383298 GAGGAAGCGT
*
27383308 TCTGGCAGCCTCGCTGCAATCTGTTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCCCAA
1 TCTGGCAGCCTCGCTGCAATCTGTTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
27383373 TA
66 TA
27383375 TCTGGCAGCCTCGCTGCAATCTGTTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGTTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
27383440 TA
66 TA
27383442 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
27383462 TTCTGTGGTG
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 86 1.00
ACGTcount: A:0.18, C:0.31, G:0.20, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGTTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
TA
Found at i:27383603 original size:6 final size:6
Alignment explanation
Indices: 27383564--27383694 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
27383554 TTGCATTCAC
* * *
27383564 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
27383612 ATCACCTA ATTCTG ATTCTG ATTCTG ATTTTG ATTCT- ATCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * *
27383663 ATTCTG ATCCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
27383695 AATGTTTCTT
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 7 0.07
6 76 0.79
7 8 0.08
8 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:27383627 original size:37 final size:37
Alignment explanation
Indices: 27383586--27383670 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
27383576 ATTCTGTTAC
*
27383586 CTGATACTGATTCTGATTCTAATTCTATCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTATCACCTAATT
* * *
27383623 CTGATTCTGATTCTGATTTTGATTCTATCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTATCACCTAATT
27383660 CTGATTCTGAT
1 CTGATTCTGAT
27383671 CCTCATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTATCACCTAATT
Found at i:27383658 original size:31 final size:31
Alignment explanation
Indices: 27383564--27383670 Score: 115
Period size: 31 Copynumber: 3.3 Consensus size: 31
27383554 TTGCATTCAC
* * *
27383564 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTATCACCTGATTCTG
* *
27383595 ATTCTGATTCTAATTCTATCACCTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTATCA-C-----CTGATTCTG
27383632 ATTCTGATTTTGATTCTATCACCTGATTCTG
1 ATTCTGATTTTGATTCTATCACCTGATTCTG
27383663 ATTCTGAT
1 ATTCTGAT
27383671 CCTCATTTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
31 34 0.54
32 1 0.02
36 1 0.02
37 27 0.43
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATCACCTGATTCTG
Found at i:27383679 original size:37 final size:37
Alignment explanation
Indices: 27383607--27383686 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 37
27383597 TCTGATTCTA
* *
27383607 ATTCTATCACCTAATTCTGATTCTGATTCTGATTTTG
1 ATTCTATCACCTAATTCTGATTCTGATCCTCATTTTG
*
27383644 ATTCTATCACCTGATTCTGATTCTGATCCTCATTTTG
1 ATTCTATCACCTAATTCTGATTCTGATCCTCATTTTG
27383681 ATTCTA
1 ATTCTA
27383687 GTTCTGATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.47
Consensus pattern (37 bp):
ATTCTATCACCTAATTCTGATTCTGATCCTCATTTTG
Found at i:27386604 original size:26 final size:27
Alignment explanation
Indices: 27386575--27386634 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
27386565 CCACATATAT
*
27386575 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
27386601 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
27386628 ATATCTG
1 ATATCTG
27386635 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:27386788 original size:31 final size:31
Alignment explanation
Indices: 27386753--27386862 Score: 105
Period size: 31 Copynumber: 3.4 Consensus size: 31
27386743 TTGCATTCAC
* * *
27386753 ATTCTGATTTTGATTCTGTTACCTGATAT-TG
1 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
*
27386784 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
27386815 ATTCTGATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTC------TGATTCTGTCACCTAATTCTG
*
27386852 ATTTTGATTCT
1 ATTCTGATTCT
27386863 CATTTTGTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
30 1 0.02
31 36 0.55
37 29 0.44
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:27386791 original size:6 final size:6
Alignment explanation
Indices: 27386753--27386838 Score: 61
Period size: 6 Copynumber: 14.0 Consensus size: 6
27386743 TTGCATTCAC
* *
27386753 ATTCTG ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* * *
27386802 -TCACCTA ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
27386839 TCACCTAATT
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 50 0.81
7 5 0.08
8 2 0.03
9 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:27386834 original size:12 final size:12
Alignment explanation
Indices: 27386809--27386874 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
27386799 CTGTCACCTA
*
27386809 ATTCTGATTCTG
1 ATTCTGATTTTG
27386821 ATTCTGATTTTG
1 ATTCTGATTTTG
** *
27386833 ATTCTG-TCACCTA
1 ATTCTGAT--TTTG
27386846 ATTCTGATTTTG
1 ATTCTGATTTTG
*
27386858 ATTCTCATTTTG
1 ATTCTGATTTTG
*
27386870 TTTCT
1 ATTCT
27386875 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
11 1 0.02
12 33 0.79
13 7 0.17
14 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.55
Consensus pattern (12 bp):
ATTCTGATTTTG
Found at i:27386868 original size:37 final size:37
Alignment explanation
Indices: 27386775--27386874 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 37
27386765 ATTCTGTTAC
* * *
27386775 CTGATATTGATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTTTGATTCTGATTTTGATTCTGTCACCTAATT
*
27386812 CTGATTCTGATTCTGATTTTGATTCTGTCACCTAATT
1 CTGATTTTGATTCTGATTTTGATTCTGTCACCTAATT
* *
27386849 CTGATTTTGATTCTCATTTTGTTTCT
1 CTGATTTTGATTCTGATTTTGATTCT
27386875 AGTTCTGATA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.51
Consensus pattern (37 bp):
CTGATTTTGATTCTGATTTTGATTCTGTCACCTAATT
Found at i:27386904 original size:17 final size:18
Alignment explanation
Indices: 27386868--27386904 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
27386858 ATTCTCATTT
27386868 TGTTTCTAGTTCTGATAA
1 TGTTTCTAGTTCTGATAA
27386886 TGTTTCTTA-TTCT-ATAA
1 TGTTTC-TAGTTCTGATAA
27386903 TG
1 TG
27386905 GGCTAAGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 10 0.56
19 2 0.11
ACGTcount: A:0.22, C:0.11, G:0.14, T:0.54
Consensus pattern (18 bp):
TGTTTCTAGTTCTGATAA
Found at i:27388013 original size:18 final size:18
Alignment explanation
Indices: 27387990--27388024 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27387980 ACGAATATAC
27387990 ATTACCAAAAGATACTTA
1 ATTACCAAAAGATACTTA
27388008 ATTACCAAAAGATACTT
1 ATTACCAAAAGATACTT
27388025 GGTCAGCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.29
Consensus pattern (18 bp):
ATTACCAAAAGATACTTA
Found at i:27399449 original size:75 final size:75
Alignment explanation
Indices: 27399326--27399475 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
27399316 ATACATACAT
*
27399326 ATGCACATTCCATTCCTTATATATGAAACTTCAATCTAAAAGTGGGTTCGCTTAAGTGTACGAAA
1 ATGCACATTCCATTCCTTATATATGAAACTTCAATCTAAAAGTGGGTTCGCTTAAATGTACGAAA
27399391 TGCGTACCTG
66 TGCGTACCTG
27399401 ATGCACATTCCATTCCTTATATATGAAACTTCAATCTAAAAGTGGGTTCGCTTAAATGTACGAAA
1 ATGCACATTCCATTCCTTATATATGAAACTTCAATCTAAAAGTGGGTTCGCTTAAATGTACGAAA
27399466 TGCGTACCTG
66 TGCGTACCTG
27399476 TTTTTCATAC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (75 bp):
ATGCACATTCCATTCCTTATATATGAAACTTCAATCTAAAAGTGGGTTCGCTTAAATGTACGAAA
TGCGTACCTG
Found at i:27399637 original size:39 final size:39
Alignment explanation
Indices: 27399611--27399807 Score: 322
Period size: 39 Copynumber: 5.1 Consensus size: 39
27399601 GTCCAACACG
*
27399611 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
27399650 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
27399689 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
27399728 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* * * * *
27399767 CAGCCCGCGGACCTAAAGTCCGGATAAAATTCTTGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
27399806 TA
1 TA
27399808 TATATTCACA
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 147 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:27408130 original size:31 final size:31
Alignment explanation
Indices: 27408088--27408173 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
27408078 TGAATCTCAG
27408088 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
27408118 CATATCACTGGGCCGAAGCTTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
27408149 CATATCACTGGGTCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
27408174 TGTAACAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:27408436 original size:26 final size:25
Alignment explanation
Indices: 27408391--27408461 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
27408381 CTCTTTTAAT
* *
27408391 AACTAGGGCAAAGCCTTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
27408416 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTAGGGC-AAAGCCCTTTTCGATA
27408442 AACTAGGGCAAAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
27408462 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.47
26 21 0.52
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:27412591 original size:48 final size:48
Alignment explanation
Indices: 27412530--27413003 Score: 529
Period size: 48 Copynumber: 9.6 Consensus size: 48
27412520 AAATGTGCTT
* * *
27412530 GTGTAAGACCATGTCAGGGACATGGCATCGGCGATGATATGTGTACTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* * *
27412578 GTGTAAGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* * * *
27412626 GTGTAAGACCATGCCTGGGAAATGGCATCGGCGATGATATGTGTACTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* * *
27412674 GTGTAAGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* * *
27412722 GTGTAAGACCATGTCTGGGACATGGCATCTGTGATGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* *
27412770 GTGTGAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* * *
27412818 GTATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCA
1 GTGTA--AG-ACCA-TGT-----C---T--GGGACATGGCATCGGCGATGATATGTGTGCCA
* * *
27412880 ATGTAAGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* * * *
27412928 GTGTAAGACCATGTCTAGGACATGGCATTGACGATGATATGTG-GATTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTG--CCA
*
27412977 -TGTAAGACCATGTCGGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
27413004 TGGTACTTTT
Statistics
Matches: 363, Mismatches: 47, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.00
48 308 0.85
49 2 0.01
50 2 0.01
51 3 0.01
52 3 0.01
53 1 0.00
57 1 0.00
58 3 0.01
59 3 0.01
60 2 0.01
62 34 0.09
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
Found at i:27412825 original size:14 final size:14
Alignment explanation
Indices: 27412806--27412833 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27412796 ATCGGTGATG
27412806 ATATGTGTGCCAGT
1 ATATGTGTGCCAGT
27412820 ATATGTGTGCCAGT
1 ATATGTGTGCCAGT
27412834 GTAAGACCAT
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:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (14 bp):
ATATGTGTGCCAGT
Found at i:27412855 original size:62 final size:62
Alignment explanation
Indices: 27412758--27412879 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 62
27412748 ATCTGTGATG
* * * *
27412758 ATATGTGTGCTAGTGTGAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCAGT
1 ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCAGT
27412820 ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCA
1 ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCA
27412880 ATGTAAGACC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (62 bp):
ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCAGT
Found at i:27412903 original size:110 final size:110
Alignment explanation
Indices: 27412710--27412929 Score: 377
Period size: 110 Copynumber: 2.0 Consensus size: 110
27412700 ATCAGCGATG
* * * * * *
27412710 ATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCTGTGATGATATGTGTGCTAGTGTG
1 ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCAATGTA
*
27412775 AGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCAGT
66 AGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCAGT
27412820 ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCAATGTA
1 ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCAATGTA
27412885 AGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCAGT
66 AGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCAGT
27412930 GTAAGACCAT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 103 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.28
Consensus pattern (110 bp):
ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCAATGTA
AGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCAGT
Found at i:27412950 original size:158 final size:158
Alignment explanation
Indices: 27412662--27412970 Score: 492
Period size: 158 Copynumber: 2.0 Consensus size: 158
27412652 ATCGGCGATG
* *
27412662 ATATGTGTACTAGTGTAAGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCAGTGTA
1 ATATGTGTACCAGTGTAAGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCAATGTA
* * * * *
27412727 AGACCATGTCTGGGACATGGCATCTGTGATGATATGTGTGCTAGTGTGAGACCATGTCTGGGACA
66 AGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACA
**
27412792 TGGCATCGGTGATGATATGTGTGCCAGT
131 TGGCATCGACGATGATATGTGTGCCAGT
* * * *
27412820 ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCAATGTA
1 ATATGTGTACCAGTGTAAGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCAATGTA
27412885 AGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACA
66 AGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACA
*
27412950 TGGCATTGACGATGATATGTG
131 TGGCATCGACGATGATATGTG
27412971 GATTCATGTA
Statistics
Matches: 137, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
158 137 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (158 bp):
ATATGTGTACCAGTGTAAGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCAATGTA
AGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACA
TGGCATCGACGATGATATGTGTGCCAGT
Found at i:27412968 original size:206 final size:206
Alignment explanation
Indices: 27412614--27413003 Score: 606
Period size: 206 Copynumber: 1.9 Consensus size: 206
27412604 ATCAGCGATG
* * *
27412614 ATATGTGTGCCAGTGTAAGACCATGCCTGGGAAATGGCATCGGCGATGATATGTGTACTAGTGTA
1 ATATGTGTGCCAGTGTAAGACCATGCCGGGGAAATGGCATCGGCGATGATATGTGTACCAATGTA
*
27412679 AGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACA
66 AGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACA
* * *
27412744 TGGCATCTGTGATGATATGTGTG-CT-AGTGTGAGACCATGTCTGGGACATGGCATCGGTGATGA
131 TGGCATCTGCGATGATATGTG-GACTCA-TGTAAGACCATGTCGGGGACATGGCATCGGTGATGA
27412807 TATGTGTGCCAGT
194 TATGTGTGCCAGT
* * *
27412820 ATATGTGTGCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCGATGATATGTGTGCCAATGTA
1 ATATGTGTGCCAGTGTAAGACCATGCCGGGGAAATGGCATCGGCGATGATATGTGTACCAATGTA
* * *
27412885 AGACCATGTCTGAGACATGGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACA
66 AGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACA
*
27412950 TGGCAT-TGACGATGATATGTGGATTCATGTAAGACCATGTCGGGGACATGGCAT
131 TGGCATCTG-CGATGATATGTGGACTCATGTAAGACCATGTCGGGGACATGGCAT
27413004 TGGTACTTTT
Statistics
Matches: 167, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
205 3 0.02
206 163 0.98
207 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (206 bp):
ATATGTGTGCCAGTGTAAGACCATGCCGGGGAAATGGCATCGGCGATGATATGTGTACCAATGTA
AGACCATGTCCGAGACATGGCATCAGCGATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACA
TGGCATCTGCGATGATATGTGGACTCATGTAAGACCATGTCGGGGACATGGCATCGGTGATGATA
TGTGTGCCAGT
Found at i:27415492 original size:29 final size:29
Alignment explanation
Indices: 27415460--27415517 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
27415450 GTTAATGGTT
27415460 TTATTACTGATAAGCACGATTAAAATCCA
1 TTATTACTGATAAGCACGATTAAAATCCA
27415489 TTATTACTGATAAGCACGATTAAAATCCA
1 TTATTACTGATAAGCACGATTAAAATCCA
27415518 GTTTTCTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (29 bp):
TTATTACTGATAAGCACGATTAAAATCCA
Found at i:27419429 original size:23 final size:23
Alignment explanation
Indices: 27419402--27419448 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
27419392 CCATTCCATT
27419402 ACTGAAGGTGCTGTGGCAGAATC
1 ACTGAAGGTGCTGTGGCAGAATC
27419425 ACTGAAGGTGCTGTGGCAGAATC
1 ACTGAAGGTGCTGTGGCAGAATC
27419448 A
1 A
27419449 TAGCACTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.34, T:0.21
Consensus pattern (23 bp):
ACTGAAGGTGCTGTGGCAGAATC
Found at i:27423810 original size:18 final size:19
Alignment explanation
Indices: 27423779--27423816 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
27423769 AATGCTCGTT
*
27423779 AAAAATAAATAGAAAAAAG
1 AAAAATAAAGAGAAAAAAG
27423798 AAAAA-AAAGAGAAAAAAG
1 AAAAATAAAGAGAAAAAAG
27423816 A
1 A
27423817 GAGAGCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (19 bp):
AAAAATAAAGAGAAAAAAG
Found at i:27423817 original size:9 final size:9
Alignment explanation
Indices: 27423789--27423818 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27423779 AAAAATAAAT
27423789 AGAAAAAAG
1 AGAAAAAAG
*
27423798 AAAAAAAAG
1 AGAAAAAAG
27423807 AGAAAAAAG
1 AGAAAAAAG
27423816 AGA
1 AGA
27423819 GAGCATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AGAAAAAAG
Found at i:27424123 original size:34 final size:34
Alignment explanation
Indices: 27424085--27424152 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
27424075 ACTTGATGAT
27424085 TGTAGCTTAATCTTAAATAAGGGAATAAAATCAA
1 TGTAGCTTAATCTTAAATAAGGGAATAAAATCAA
27424119 TGTAGCTTAATCTTAAATAAGGGAATAAAATCAA
1 TGTAGCTTAATCTTAAATAAGGGAATAAAATCAA
27424153 ATTGGTAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (34 bp):
TGTAGCTTAATCTTAAATAAGGGAATAAAATCAA
Found at i:27430800 original size:49 final size:49
Alignment explanation
Indices: 27430737--27430861 Score: 153
Period size: 49 Copynumber: 2.6 Consensus size: 49
27430727 ATGTCGATGG
* * * *
27430737 CATGTCCCAAACAGGTCTTACACTGACTTTCATCTATTGAG-GCCGATAC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATCTATCG-GTGCCAATAC
* * * *
27430786 CGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCAATAC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATCTATCGGTGCCAATAC
*
27430835 CATGTCCCAGACAGGACTTACACTGAC
1 CATGTCCCAGACAGGTCTTACACTGAC
27430862 ACACAATAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
48 1 0.02
49 62 0.98
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGACTCTCATCTATCGGTGCCAATAC
Found at i:27437546 original size:48 final size:48
Alignment explanation
Indices: 27437502--27437725 Score: 259
Period size: 48 Copynumber: 4.6 Consensus size: 48
27437492 TCATATCGGT
* * * *
27437502 GCCGATGCCATGTCCCAGACATGGTATTACATTAGCACATATATCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCACACATATCAAC
* * * *
27437550 GCCGATGACATGTACTAGACATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCACACATATCAAC
**
27437598 GCTAATGCCATGTCCCAGACATGGTCTTACATTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCACACATATCAAC
* * * * * ***
27437646 GCCGATGCCATGTCCCAAACATGGTCTTGCATTGGCTCTCATCTCGGTT
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCACACATATC-AAC
* *
27437695 GCCGATACCATGACCCAGACATGGTCTTACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACA
27437726 CGGGATCTCA
Statistics
Matches: 147, Mismatches: 28, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
48 120 0.82
49 27 0.18
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCACACATATCAAC
Found at i:27444077 original size:49 final size:49
Alignment explanation
Indices: 27443903--27444951 Score: 1961
Period size: 49 Copynumber: 21.6 Consensus size: 49
27443893 CCCTTCGGGA
* * * * * *
27443903 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGGCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27443950 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27443997 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444044 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444093 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444142 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444191 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444240 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444289 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444338 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444387 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444436 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444485 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444534 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444583 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444632 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444681 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444730 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444779 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444828 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444877 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27444926 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
27444952 CACAATTATC
Statistics
Matches: 986, Mismatches: 12, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 94 0.10
49 891 0.90
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27447459 original size:48 final size:48
Alignment explanation
Indices: 27447385--27447576 Score: 261
Period size: 48 Copynumber: 4.1 Consensus size: 48
27447375 GGGTGTCACA
*
27447385 TACACTGGCACACATATCAACACCGATGCCATGTCCCAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCT
** *
27447433 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCT
*
27447481 TACACTGGCACACATATCAACGCCGATGCCATGTCCCAGATATGGTCT
1 TACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCT
* * *
27447529 TACACTGG--CTC-TGATC-TCG--GATGCCATGTCCCAAACATGGTCT
1 TACACTGGCACACAT-ATCAACGCCGATGCCATGTCCCAGACATGGTCT
27447572 TACAC
1 TACAC
27447577 GGGATCTCGT
Statistics
Matches: 131, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
43 27 0.21
45 3 0.02
46 5 0.04
48 96 0.73
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (48 bp):
TACACTGGCACACATATCAACGCCGATGCCATGTCCCAGACATGGTCT
Found at i:27451679 original size:49 final size:49
Alignment explanation
Indices: 27451612--27451768 Score: 185
Period size: 49 Copynumber: 3.2 Consensus size: 49
27451602 CATCAAAGTT
27451612 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAGGCC
* * * * * *
27451661 GATGTCGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAG-GCC
* * *
27451710 GATGCCATGTCCCAGATAGGTCTTACACTAGCTTGT-ATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTT-TCATATATCGAGGCC
*
27451759 AATG-CATGTC
1 GATGCCATGTC
27451769 TGAAACATGT
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
48 7 0.08
49 80 0.90
50 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAGGCC
Found at i:27451755 original size:98 final size:95
Alignment explanation
Indices: 27451612--27451835 Score: 256
Period size: 98 Copynumber: 2.3 Consensus size: 95
27451602 CATCAAAGTT
* * * *
27451612 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAGGCCGATGTCGTGTCCT-AG
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCCAATG-CATGT-CTGAA
* ** *
27451676 ACAGGTCTTACACTGGCTCTCATCTATCGGTGTC
64 ACAGGTCTTACACTAGCTCTCATC--TCAATGCC
* *
27451710 GATGCCATGTCCCAGATAGGTCTTACACTAGCTTGT-ATATCTCGAGGCCAATGCATGTCTGAAA
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTT-TCATATATCGAGGCCAATGCATGTCTGAAA
* * *
27451774 CATGTCTTGCACTAGCTCTCGTCTCAATGCC
65 CAGGTCTTACACTAGCTCTCATCTCAATGCC
*
27451805 GATG-CATGTCCCAGACATGTCTTACACTAGC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGC
27451836 ACATATATCA
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
94 25 0.23
95 9 0.08
96 2 0.02
97 25 0.23
98 47 0.43
99 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (95 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCCAATGCATGTCTGAAAC
AGGTCTTACACTAGCTCTCATCTCAATGCC
Found at i:27459176 original size:48 final size:48
Alignment explanation
Indices: 27459102--27460091 Score: 1944
Period size: 48 Copynumber: 20.6 Consensus size: 48
27459092 GGGTGTCACA
* ** *
27459102 TACACTGGCACACATATCAACACCGATGCCATGTCCCAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459150 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459198 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459246 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459294 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459342 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459390 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459438 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459486 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459534 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459582 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459630 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459678 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459726 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459774 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459822 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459870 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459918 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27459966 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27460014 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
1 TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
27460062 TACACTGGCACACATATCAACGCCGATGTT
1 TACACTGGCACACATATCAACGCCGATGTT
27460092 TCATAACTAT
Statistics
Matches: 938, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 938 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
TACACTGGCACACATATCAACGCCGATGTTATGTCCTAGACATGGTCT
Found at i:27463474 original size:49 final size:49
Alignment explanation
Indices: 27463407--27463563 Score: 185
Period size: 49 Copynumber: 3.2 Consensus size: 49
27463397 CATCAAAGTT
27463407 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAGGCC
* * * * * *
27463456 GATGTCGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAG-GCC
* * *
27463505 GATGCCATGTCCCAGATAGGTCTTACACTAGCTTGT-ATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTT-TCATATATCGAGGCC
*
27463554 AATG-CATGTC
1 GATGCCATGTC
27463564 TGAAACATGT
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
48 7 0.08
49 80 0.90
50 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAGGCC
Found at i:27463550 original size:98 final size:95
Alignment explanation
Indices: 27463407--27463630 Score: 256
Period size: 98 Copynumber: 2.3 Consensus size: 95
27463397 CATCAAAGTT
* * * *
27463407 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCGAGGCCGATGTCGTGTCCT-AG
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCCAATG-CATGT-CTGAA
* ** *
27463471 ACAGGTCTTACACTGGCTCTCATCTATCGGTGTC
64 ACAGGTCTTACACTAGCTCTCATC--TCAATGCC
* *
27463505 GATGCCATGTCCCAGATAGGTCTTACACTAGCTTGT-ATATCTCGAGGCCAATGCATGTCTGAAA
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTT-TCATATATCGAGGCCAATGCATGTCTGAAA
* * *
27463569 CATGTCTTGCACTAGCTCTCGTCTCAATGCC
65 CAGGTCTTACACTAGCTCTCATCTCAATGCC
*
27463600 GATG-CATGTCCCAGACATGTCTTACACTAGC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGC
27463631 ACATATATCA
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
94 25 0.23
95 9 0.08
96 2 0.02
97 25 0.23
98 47 0.43
99 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (95 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCCAATGCATGTCTGAAAC
AGGTCTTACACTAGCTCTCATCTCAATGCC
Found at i:27470725 original size:46 final size:45
Alignment explanation
Indices: 27470632--27470717 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
27470622 TACATCTCTC
* * *
27470632 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
27470678 GAACTCAGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
27470718 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:27476194 original size:93 final size:93
Alignment explanation
Indices: 27476066--27476236 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
27476056 GCCCATAAGT
* * *
27476066 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27476131 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
27476159 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27476224 CGAGTTCGGATGC
66 CGAGCTCGGATGC
27476237 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:27476233 original size:46 final size:46
Alignment explanation
Indices: 27476058--27476233 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
27476048 TGTAACCCGC
* * * *
27476058 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
27476104 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
27476150 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
27476197 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27476234 TGCTCAACCA
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
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:27476252 original size:46 final size:45
Alignment explanation
Indices: 27476109--27476252 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
27476099 CGCATCCATA
* *
27476109 AGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
27476158 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
27476201 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
27476248 AGTGA
1 AGTGA
27476253 CATGTCACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 34 0.43
47 28 0.35
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:27479764 original size:22 final size:23
Alignment explanation
Indices: 27479736--27479778 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
27479726 GCAATCTCAT
27479736 ATATGA-TATGTAATCTTAGAAG
1 ATATGATTATGTAATCTTAGAAG
*
27479758 ATATGATTTTGTAATCTTAGA
1 ATATGATTATGTAATCTTAGA
27479779 GATTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
ATATGATTATGTAATCTTAGAAG
Found at i:27479788 original size:22 final size:23
Alignment explanation
Indices: 27479744--27479788 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27479734 ATATATGATA
*
27479744 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
27479767 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
27479789 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:27486449 original size:53 final size:54
Alignment explanation
Indices: 27486271--27486473 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 54
27486261 GGGTTTAAGA
* * * * * *
27486271 ATACCAAGTAAGACCATGCCAAGGCATGACATTTGTAAGTTCTACAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGG
* * * * * * * * *
27486325 AAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGTAAAG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGCAAGG
* *
27486380 AT-CGCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGG
1 ATAC-CATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGG
* * *
27486433 ATACCACGTAAGACCATGTCAAGACATGGCAATGGCAAGTT
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
27486474 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 29, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
53 43 0.37
54 32 0.27
55 42 0.36
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (54 bp):
ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGG
Found at i:27490616 original size:6 final size:6
Alignment explanation
Indices: 27490607--27490672 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
27490597 AAATAAATTT
* * *
27490607 AAAAA- AAAAAC AAAAAC AAAAGC AAAAAGC AAAATC AAAATAG AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA-C AAAAAC AAAA-AC AAAAAC
* *
27490656 AAGAAC AAAAAT AAAAA
1 AAAAAC AAAAAC AAAAA
27490673 ATTAAAATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
5 5 0.10
6 35 0.71
7 9 0.18
ACGTcount: A:0.79, C:0.11, G:0.06, T:0.05
Consensus pattern (6 bp):
AAAAAC
Found at i:27490672 original size:19 final size:18
Alignment explanation
Indices: 27490607--27490673 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
27490597 AAATAAATTT
27490607 AAAA-AAAAAACAAAAACA
1 AAAATAAAAAAC-AAAACA
** *
27490625 AAAGCAAAAAGCAAAATC-
1 AAAATAAAAAACAAAA-CA
27490643 AAAATAGAAAAACAAGAACA
1 AAAATA-AAAAACAA-AACA
27490663 AAAATAAAAAA
1 AAAATAAAAAA
27490674 TTAAAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 11 0.28
19 20 0.51
20 8 0.21
ACGTcount: A:0.79, C:0.10, G:0.06, T:0.04
Consensus pattern (18 bp):
AAAATAAAAAACAAAACA
Found at i:27493660 original size:19 final size:18
Alignment explanation
Indices: 27493634--27493669 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27493624 ATTAGAATTT
*
27493634 AAAAATTAAATTAAAAAC
1 AAAAATTAAAATAAAAAC
27493652 AAAATATTAAAATAAAAA
1 AAAA-ATTAAAATAAAAA
27493670 TTAAAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATTAAAATAAAAAC
Found at i:27503814 original size:40 final size:40
Alignment explanation
Indices: 27503759--27504030 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
27503749 ATTTGAATAC
27503759 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
27503799 ATCCGGGCTCAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
27503839 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG--ATAT
*
27503881 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
27503921 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
27503961 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
27504001 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
27504031 TTGTGGTTAT
Statistics
Matches: 217, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
40 177 0.82
42 40 0.18
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:27503976 original size:122 final size:122
Alignment explanation
Indices: 27503751--27504030 Score: 467
Period size: 122 Copynumber: 2.3 Consensus size: 122
27503741 GCATGAGCAT
* *
27503751 TTGA-ATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTCAGACCC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
* *
27503815 GAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
*
27503872 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
27503937 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* * *
27503994 TTG-C-TATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
27504031 TTGTGGTTAT
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 30 0.20
121 5 0.03
122 115 0.77
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (122 bp):
TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
Found at i:27505703 original size:46 final size:46
Alignment explanation
Indices: 27505653--27506517 Score: 1694
Period size: 46 Copynumber: 18.8 Consensus size: 46
27505643 TGGTTGAGCA
27505653 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27505699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27505745 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27505791 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27505837 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27505883 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27505929 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27505975 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27506021 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27506067 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27506113 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27506159 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27506205 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27506251 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27506297 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27506343 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
27506389 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
27506435 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27506481 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27506518 GCGGGTTACA
Statistics
Matches: 815, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 815 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27507975 original size:90 final size:89
Alignment explanation
Indices: 27507822--27508002 Score: 263
Period size: 90 Copynumber: 2.0 Consensus size: 89
27507812 GGGCGTTACA
* * * * * *
27507822 AGTGTTGTAGATTAATACATTGCCAGATGGTTGTGAATGTAGAACGTATTTGCATATAAGAGCTG
1 AGTGTTATAGATTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
*
27507887 CCAAAAAATGGGTTGATGAACCACC
66 CC-AAAAATGGGTGGATGAACCACC
*
27507912 AGTGTTATAGGTTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
1 AGTGTTATAGATTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
**
27507977 CCAAAAATTTGTGGATGAACCACC
66 CCAAAAATGGGTGGATGAACCACC
27508001 AG
1 AG
27508003 AGTTGCAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 21 0.26
90 60 0.74
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (89 bp):
AGTGTTATAGATTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
CCAAAAATGGGTGGATGAACCACC
Found at i:27508024 original size:90 final size:90
Alignment explanation
Indices: 27507833--27508028 Score: 234
Period size: 90 Copynumber: 2.2 Consensus size: 90
27507823 GTGTTGTAGA
* * * * * *
27507833 TTAATACATTGCCAGATGGTTGTGAATGTAGAACGTATTTGCATATAAGAGCTGCCAAAAAATGG
1 TTAATAAACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCCAAAAAATGG
* * *
27507898 GTTGATGAACCACCAGTGTTATAGG
66 GTGGATGAACCACCAGAGTTATAAG
* **
27507923 TTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCC-AAAAATTT
1 TTAATAAACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCCAAAAAATGG
*
27507987 GTGGATGAACCACCAGAGTTGCA-AAT
66 GTGGATGAACCACCAGAGTT--ATAAG
*
27508013 TTATTAAACTGCCAGA
1 TTAATAAACTGCCAGA
27508029 ACTTCTTCCT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 24 0.26
90 66 0.73
91 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (90 bp):
TTAATAAACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCCAAAAAATGG
GTGGATGAACCACCAGAGTTATAAG
Found at i:27508314 original size:15 final size:15
Alignment explanation
Indices: 27508294--27508323 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27508284 GTAATAAATC
27508294 AGACAATCAGATCAT
1 AGACAATCAGATCAT
27508309 AGACAATCAGATCAT
1 AGACAATCAGATCAT
27508324 GCATTCCAAT
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:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
AGACAATCAGATCAT
Found at i:27510894 original size:30 final size:30
Alignment explanation
Indices: 27510860--27510916 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
27510850 AATTGTTTTT
27510860 AAAATATT-C-ATTTAGTTCACCTAAATTATG
1 AAAATATTGCAATTTAG-TCA-CTAAATTATG
*
27510890 AAAATTTTGCAATTTAGTCACTAAATT
1 AAAATATTGCAATTTAGTCACTAAATT
27510917 TTATAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 14 0.58
31 4 0.17
32 6 0.25
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (30 bp):
AAAATATTGCAATTTAGTCACTAAATTATG
Found at i:27513021 original size:26 final size:26
Alignment explanation
Indices: 27513003--27513056 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
27512993 TTTATTTTTC
27513003 TTGAAATTTAATTTAATTTTTTATTA
1 TTGAAATTTAATTTAATTTTTTATTA
* **
27513029 TTTATTTTTAATTTAATTTTTTATTA
1 TTGAAATTTAATTTAATTTTTTATTA
27513055 TT
1 TT
27513057 TATTAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TTGAAATTTAATTTAATTTTTTATTA
Found at i:27513057 original size:26 final size:26
Alignment explanation
Indices: 27513009--27513060 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
27512999 TTTCTTGAAA
27513009 TTTAATTTAATTTTTTATTATTTATT
1 TTTAATTTAATTTTTTATTATTTATT
27513035 TTTAATTTAATTTTTTATTATTTATT
1 TTTAATTTAATTTTTTATTATTTATT
27513061 AATTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTAATTTAATTTTTTATTATTTATT
Found at i:27519216 original size:53 final size:53
Alignment explanation
Indices: 27519136--27519240 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
27519126 GGAATCCCGA
* * *
27519136 AAGCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATTTGGG
1 AAGCTCAAGTAAGCATATGCTAGCAATAATTCAACCTAGGGTTTATATTTGGG
27519189 AAGCTCAAGTAAGCATATGCTAGCAATAATTCAACCTAGGGTTTATATTTGG
1 AAGCTCAAGTAAGCATATGCTAGCAATAATTCAACCTAGGGTTTATATTTGG
27519241 AAAAATACCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (53 bp):
AAGCTCAAGTAAGCATATGCTAGCAATAATTCAACCTAGGGTTTATATTTGGG
Found at i:27526623 original size:51 final size:51
Alignment explanation
Indices: 27526563--27526665 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
27526553 ATCAAGATAA
27526563 ACGAGATTCAAGTCGTGATCGAGGAAAAGAAAAGATTATGGACAAAATTAC
1 ACGAGATTCAAGTCGTGATCGAGGAAAAGAAAAGATTATGGACAAAATTAC
27526614 ACGAGATTCAAGTCGTGATCGAGGAAAAGAAAAGATTATGGACAAAATTAC
1 ACGAGATTCAAGTCGTGATCGAGGAAAAGAAAAGATTATGGACAAAATTAC
27526665 A
1 A
27526666 AAATCTTTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.46, C:0.12, G:0.23, T:0.19
Consensus pattern (51 bp):
ACGAGATTCAAGTCGTGATCGAGGAAAAGAAAAGATTATGGACAAAATTAC
Found at i:27527020 original size:46 final size:46
Alignment explanation
Indices: 27526970--27527640 Score: 1342
Period size: 46 Copynumber: 14.6 Consensus size: 46
27526960 TTGAGCATCC
27526970 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527016 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527062 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527108 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527154 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527200 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527246 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527292 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527338 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527384 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527430 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527476 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527522 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527568 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
27527614 GAACTCGTTGAGTTGAGTCCGAGTTCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCA
27527641 TGAGATGTAA
Statistics
Matches: 625, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 625 1.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCT
Found at i:27531815 original size:19 final size:17
Alignment explanation
Indices: 27531768--27531815 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
27531758 ATGCCATTTT
27531768 GGGTCATGTGGGCCACAC
1 GGGT-ATGTGGGCCACAC
*
27531786 GGGTGTGTGGGCCACAC
1 GGGTATGTGGGCCACAC
27531803 GGGCATATGTGGG
1 GGG--TATGTGGG
27531816 TCATGTGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 15 0.58
18 4 0.15
19 7 0.27
ACGTcount: A:0.15, C:0.21, G:0.46, T:0.19
Consensus pattern (17 bp):
GGGTATGTGGGCCACAC
Found at i:27533285 original size:17 final size:17
Alignment explanation
Indices: 27533263--27533295 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27533253 TCCAGGGACT
27533263 AAAATTGAAGGCAAAAG
1 AAAATTGAAGGCAAAAG
*
27533280 AAAATTTAAGGCAAAA
1 AAAATTGAAGGCAAAA
27533296 AGCTCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (17 bp):
AAAATTGAAGGCAAAAG
Found at i:27533476 original size:10 final size:10
Alignment explanation
Indices: 27533461--27533500 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
27533451 ATTTATTATC
27533461 ATTTATCTTT
1 ATTTATCTTT
*
27533471 AATTATCTTT
1 ATTTATCTTT
27533481 ATTTAT-TTGT
1 ATTTATCTT-T
27533491 ATTTATCTTT
1 ATTTATCTTT
27533501 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:27535382 original size:3 final size:3
Alignment explanation
Indices: 27535374--27535405 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
27535364 GGACTTGTAA
27535374 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27535406 ATATTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27536964 original size:2 final size:2
Alignment explanation
Indices: 27536957--27537000 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
27536947 ACTTTTTCAT
*
27536957 TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27536999 TC
1 TC
27537001 GCCGTGCCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27538788 original size:3 final size:3
Alignment explanation
Indices: 27538780--27538811 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
27538770 TCTCCAACAA
27538780 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27538812 CATTTTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27538941 original size:17 final size:17
Alignment explanation
Indices: 27538915--27538949 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27538905 CAATAATTTT
* *
27538915 ATTTTTTAAAATTATAA
1 ATTTTATAAAAATATAA
27538932 ATTTTATAAAAATATAA
1 ATTTTATAAAAATATAA
27538949 A
1 A
27538950 ACATATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTATAAAAATATAA
Found at i:27544189 original size:59 final size:60
Alignment explanation
Indices: 27544126--27544249 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 60
27544116 CGGCGGAATT
* * *
27544126 AAAATTC-TGAAACAAAATCAAAATCAATTTTGTTAAACGGCAGGACTAAATCCCGAAAC
1 AAAATTCATGAAACAAAATCAAAATAAATTCTGTTAAACGGCAGGAATAAATCCCGAAAC
* ** * *
27544185 AAAA-TCATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATCTCGAAAC
1 AAAATTCATGAAACAAAATCAAAATAAATTCTGTTAAACGGCAGGAATAAATCCCGAAAC
*
27544244 AGAATT
1 AAAATT
27544250 ATTTGATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
58 2 0.04
59 51 0.94
60 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (60 bp):
AAAATTCATGAAACAAAATCAAAATAAATTCTGTTAAACGGCAGGAATAAATCCCGAAAC
Found at i:27544313 original size:83 final size:85
Alignment explanation
Indices: 27544217--27544393 Score: 216
Period size: 85 Copynumber: 2.1 Consensus size: 85
27544207 ATAAATTCTG
* * * *
27544217 TTAAACGGCGGGAATAAATCTCGAAACAGA-ATTATTT-GATTAAGTCTTCATTTGGAAA-CAAA
1 TTAAACGGCGGGAATAAATCCCGAAACAGATATTATTTAAATTAAGTC-TAATTTGGAAATAAAA
* *
27544279 TTAATATTGAATAAAATCTTC
65 TTAAAATCGAATAAAATCTTC
* * * *
27544300 TTAAACGGTGGGAATAAATCCCGAAACATATTTTATTTAAATTAATTCTAATTTGGAAATAAAAT
1 TTAAACGGCGGGAATAAATCCCGAAACAGATATTATTTAAATTAAGTCTAATTTGGAAATAAAAT
*
27544365 TAAAATCGAATAAAATCTTG
66 TAAAATCGAATAAAATCTTC
*
27544385 TTAATCGGC
1 TTAAACGGC
27544394 CGAAATAGAT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
83 27 0.35
84 16 0.21
85 35 0.45
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (85 bp):
TTAAACGGCGGGAATAAATCCCGAAACAGATATTATTTAAATTAAGTCTAATTTGGAAATAAAAT
TAAAATCGAATAAAATCTTC
Found at i:27544764 original size:14 final size:14
Alignment explanation
Indices: 27544745--27544791 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
27544735 GTTAGCGGAC
*
27544745 AAATAAATAAATAT
1 AAATAAATATATAT
27544759 AAATAAACT-TATAT
1 AAATAAA-TATATAT
27544773 AAAATAAA-ATATAT
1 -AAATAAATATATAT
27544787 AAATA
1 AAATA
27544792 GAATGATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAATATATAT
Found at i:27547707 original size:40 final size:40
Alignment explanation
Indices: 27547658--27547843 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
27547648 GATATATTAA
* *
27547658 ATATTCGGGTTAAATCCTGCAGGCTTCATGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
* *
27547698 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
* * * *
27547738 ATATCTGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATTT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
* *
27547778 ATATCTGGGTTAAATCCCGCAGGCTT-AGTGCTGGT-A-CT
1 ATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAATGT
*
27547816 ATATCCGGGCTTAAAGTTCCGCAGGCTT
1 ATATCCGGG-TTAAA-TCCCGCAGGCTT
27547844 TCAGCTAGTA
Statistics
Matches: 130, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 9 0.07
39 6 0.05
40 115 0.88
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (40 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
Found at i:27549224 original size:18 final size:18
Alignment explanation
Indices: 27549201--27549240 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
27549191 CTGTGCATCC
27549201 TTAGTTTAGTTAATTAGT
1 TTAGTTTAGTTAATTAGT
27549219 TTAGTTTAGTTAATTAGT
1 TTAGTTTAGTTAATTAGT
27549237 TTAG
1 TTAG
27549241 ATAAACAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (18 bp):
TTAGTTTAGTTAATTAGT
Found at i:27552144 original size:45 final size:45
Alignment explanation
Indices: 27552078--27552209 Score: 167
Period size: 45 Copynumber: 2.9 Consensus size: 45
27552068 AGCTATTCGC
* *
27552078 CTAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCAGGA
1 CTAAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCAGGA
* *
27552123 -TAAAAATGAGTAAGATTATAGCTGAAAGACGCTATGGCATCATGA
1 CT-AAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCAGGA
** * * *
27552168 CTGGAATTAGTAAGATCATAACTGAAAGACACTATGGCATCA
1 CTAAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCA
27552210 TATGGAAGCA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
44 1 0.01
45 73 0.97
46 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (45 bp):
CTAAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCAGGA
Found at i:27552444 original size:27 final size:27
Alignment explanation
Indices: 27552363--27552514 Score: 97
Period size: 27 Copynumber: 5.6 Consensus size: 27
27552353 AGTCCACAGG
* ** *
27552363 GACACTAGACAAAGGAAGGTATGTCAG
1 GACACTAGACAAAGGGAGGTCCGTCAA
* ** * **
27552390 GACACTAAACATGGGGAAGTCCACCAA
1 GACACTAGACAAAGGGAGGTCCGTCAA
**
27552417 GACACTAGACAAAGGGAGGTTTGTCAA
1 GACACTAGACAAAGGGAGGTCCGTCAA
* **
27552444 GACACTAGATAAAATGAGGTCCGTCAA
1 GACACTAGACAAAGGGAGGTCCGTCAA
* ** * ***
27552471 GACACTAAACATGGGGATGTCCGTTGG
1 GACACTAGACAAAGGGAGGTCCGTCAA
*
27552498 GACACTAGACAAGGGGA
1 GACACTAGACAAAGGGA
27552515 AGCCAAGGTT
Statistics
Matches: 90, Mismatches: 35, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.38, C:0.18, G:0.28, T:0.16
Consensus pattern (27 bp):
GACACTAGACAAAGGGAGGTCCGTCAA
Found at i:27555696 original size:43 final size:43
Alignment explanation
Indices: 27555597--27555719 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 43
27555587 ATCGAGATGT
* * * * * *
27555597 GATTACATGTAAGACCATCTCTGGGACATTGGCATTGTATTGA
1 GATTACGTATAAGACCATGTCTGGGACATTAGCATCGTAATGA
* * *
27555640 GATTACGTGTAAGACCATGTCTGGGACATTTGCATCGTTAAT-C
1 GATTACGTATAAGACCATGTCTGGGACATTAGCATCG-TAATGA
* *
27555683 GATTTCGTATAAGACTC-TGTCTGGGACAGTAGCATCG
1 GATTACGTATAAGAC-CATGTCTGGGACATTAGCATCG
27555720 ATATGTGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 64 0.94
44 4 0.06
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACGTATAAGACCATGTCTGGGACATTAGCATCGTAATGA
Found at i:27556429 original size:25 final size:25
Alignment explanation
Indices: 27556399--27556448 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
27556389 ATTAGTTGAT
27556399 ATATTAATGCTTGAGAAATGGTATA
1 ATATTAATGCTTGAGAAATGGTATA
*
27556424 ATATTAATGCTTGATAAATGGTATA
1 ATATTAATGCTTGAGAAATGGTATA
27556449 TTTTGATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (25 bp):
ATATTAATGCTTGAGAAATGGTATA
Found at i:27564394 original size:24 final size:26
Alignment explanation
Indices: 27564367--27564414 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
27564357 AGCTCCAATG
27564367 AGCTGA-A-AACAATAAGCTCTTACA
1 AGCTGATATAACAATAAGCTCTTACA
* *
27564391 AGCTGATATATCAGTAAGCTCTTA
1 AGCTGATATAACAATAAGCTCTTA
27564415 TGAGCTGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 1 0.05
26 13 0.65
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (26 bp):
AGCTGATATAACAATAAGCTCTTACA
Done.