Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 58 of 171
Found at i:22786650 original size:611 final size:612
Alignment explanation
Indices: 22785351--22786663 Score: 1614
Period size: 611 Copynumber: 2.1 Consensus size: 612
22785341 AAATATTCTA
* * * * * *
22785351 TTGGCGAAATTATTTTCGAAGAAGAA-TGAAGCTCGCCTCCAATTCTTGGAAAATAAAAGGTTAA
1 TTGGCGAAATTATTTTCAAAGAA-AAGCGAAGCACACCTTCAATTCTTAGAAAATAAAAGGTTAA
** * *
22785415 TTAACTTCATAGAGTTGTTGTGTGTAACATTACTTGTAGGTCCTATAGGTCCTCTGTAGTGGGTG
65 TCGACTTCATAGA---GTTG-GTGTAACATTACTTGTAAGTCC-ATAGGTCCTCTATAGTGGGTG
* * * * * *
22785480 CGTTGGGCTTGTCGAGTTCTCAACAATTGGTATTAAAGTTAGGTTTTCCAAGTCTGCCACTAGTG
125 CGTTGGGATCGTCGAGTTCTCAACAATTGGTATTAAAGCTAGGTTGTCCAAGACCGCCACTAGTG
** * * *
22785545 GAGGAAGCTTCGATAAGCGTTGGGCGCTTACATTGGTTGGTGTGGCATAAAGGCTCTAACGGGAG
190 GAGGAAGCTTCGATAAGCACTGGGCGCTTAAATTGGTTGATGTGGCATAAAGACTCTAACGGGAG
* * * ** *
22785610 ACTCTGTCGGTGCCCAGTCAATGACTATGAAGCTTATTAGTTGGGGACTAAGTTTACTTGACAAC
255 ACTCTGTCGGAGCACAGTCAAGGACTATGAAGCTTATTAGTTGCAGACTAAATTTACTTGACAAC
* * ** * * *
22785675 GAGTGTCAGTCACCATGGCAGATCTTGCAGGTGCAAGGAGTGGAATCAAGAAGCTAAATAACTAT
320 GAGTGTCAGTCACAATGGCAAATCTTGCAGGCACAAGCAGTGGAATCAAGAAGCTAAATAACCAC
** * *
22785740 AACTATGGCTATTGGCAGACTTGTATAGAATCTTACCTACAAGGTCAGGCTTTGTAAGAAATAGT
385 AACTATGGCTATTAACAGACTTGGATAGAATCTTACCTACAAGGTCAGGATTTGTAAGAAATAGT
* * * *
22785805 AGCTGGCACTGACACAACTCCTTCACGAAAGTAAAATGTTGAAGCCTTGACAAAATGGAACATCA
450 AGCCGGCACTGACACAACTCCTCCACCAAAGGAAAATGTTGAAGCCTTGACAAAATGGAACATCA
** * * *
22785870 AGGCTGAAAAGGTTTTATTTGCATTGAGGACCACAATCAAAGAGGACCTATTGGAGCATATTCGT
515 AGGCTGAAAAGACTTTATTTGCATTGAAGACCACAATCAAAGAAGACCTATTGGAGCATATTCAT
* *
22785935 GACGATAAGACACCAAAGGTAGCTTGGAATATT
580 GACGATAAGACACCAAAGGCAGCTGGGAATATT
* * * * * * *
22785968 TTGGCGAAATTGTTTTCGAAGAAAAGTGAAGCACGCCTTCAATTCTTGGATAATAAAAAGTTAAT
1 TTGGCGAAATTATTTTCAAAGAAAAGCGAAGCACACCTTCAATTCTTAGAAAATAAAAGGTTAAT
22786033 CGACTTCATAGAGTTGGTGTAACATTACTTGTAAGTCC-TAGGTCCTCTATAGTGGGTGCGTTGG
66 CGACTTCATAGAGTTGGTGTAACATTACTTGTAAGTCCATAGGTCCTCTATAGTGGGTGCGTTGG
* * * * * *
22786097 GATCGTCGAGTTCTTAATAATTGGTATTAAAGCTAGGTTGGT-CGAGACCGTCACTGGTGGAGTA
131 GATCGTCGAGTTCTCAACAATTGGTATTAAAGCTAGGTT-GTCCAAGACCGCCACTAGTGGAGGA
* *
22786161 AGCTTCGATAAGCACTGGGCGTTTAAATTGGTTGATGTGGTATAAAGACTCTAA-GGGTAGACTC
195 AGCTTCGATAAGCACTGGGCGCTTAAATTGGTTGATGTGGCATAAAGACTCTAACGGG-AGACTC
* * * * *
22786225 TTTCGGAGCACAGTCAGGGACTGTGAAGCTTATTGGTTGCAGACTAAATTTACTTGACAACGGGT
259 TGTCGGAGCACAGTCAAGGACTATGAAGCTTATTAGTTGCAGACTAAATTTACTTGACAACGAGT
** *
22786290 GTCAGTCACAATGGCAAATCTTGTGGGCACAAGCAGTGGAATCAAGAAGCTCAATAACCACAACT
324 GTCAGTCACAATGGCAAATCTTGCAGGCACAAGCAGTGGAATCAAGAAGCTAAATAACCACAACT
* * * * * * *
22786355 ATGGCTATTAACAGACTTGGATAGAGTCTTACCTATAAGGTTAGGATTTGTGATACATAGTCGCC
389 ATGGCTATTAACAGACTTGGATAGAATCTTACCTACAAGGTCAGGATTTGTAAGAAATAGTAGCC
* *
22786420 GGCACTGACACAACTCCTCCACCAAAGGAAAATGTTGAAGCCTTGAGAAAATGGAACATCAAGGT
454 GGCACTGACACAACTCCTCCACCAAAGGAAAATGTTGAAGCCTTGACAAAATGGAACATCAAGGC
* * * *
22786485 TGGAAAGACTTTATTTGTATTGAAGACCACAATCGAGGAAGACCTATTGGAGCATATTCATGACG
519 TGAAAAGACTTTATTTGCATTGAAGACCACAATCAAAGAAGACCTATTGGAGCATATTCATGACG
* *
22786550 ATAAGATACCGAAGGCAGCCTGGGAA-ATT
584 ATAAGACACCAAAGGCAG-CTGGGAATATT
* * * * * *
22786579 TTGGTGAAATTATTTTTAAAGAAGAA-CGAAGTACACCTTTAGTT-TCTAGAAAATATAAGGTTA
1 TTGGCGAAATTATTTTCAAAGAA-AAGCGAAGCACACCTTCAATTCT-TAGAAAATAAAAGGTTA
* * *
22786642 ACCGACTTCACAAAGTTGGTGT
64 ATCGACTTCATAGAGTTGGTGT
22786664 GAACCCTCCA
Statistics
Matches: 595, Mismatches: 95, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
610 4 0.01
611 488 0.82
612 9 0.02
613 21 0.04
614 4 0.01
616 2 0.00
617 67 0.11
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (612 bp):
TTGGCGAAATTATTTTCAAAGAAAAGCGAAGCACACCTTCAATTCTTAGAAAATAAAAGGTTAAT
CGACTTCATAGAGTTGGTGTAACATTACTTGTAAGTCCATAGGTCCTCTATAGTGGGTGCGTTGG
GATCGTCGAGTTCTCAACAATTGGTATTAAAGCTAGGTTGTCCAAGACCGCCACTAGTGGAGGAA
GCTTCGATAAGCACTGGGCGCTTAAATTGGTTGATGTGGCATAAAGACTCTAACGGGAGACTCTG
TCGGAGCACAGTCAAGGACTATGAAGCTTATTAGTTGCAGACTAAATTTACTTGACAACGAGTGT
CAGTCACAATGGCAAATCTTGCAGGCACAAGCAGTGGAATCAAGAAGCTAAATAACCACAACTAT
GGCTATTAACAGACTTGGATAGAATCTTACCTACAAGGTCAGGATTTGTAAGAAATAGTAGCCGG
CACTGACACAACTCCTCCACCAAAGGAAAATGTTGAAGCCTTGACAAAATGGAACATCAAGGCTG
AAAAGACTTTATTTGCATTGAAGACCACAATCAAAGAAGACCTATTGGAGCATATTCATGACGAT
AAGACACCAAAGGCAGCTGGGAATATT
Found at i:22790857 original size:11 final size:11
Alignment explanation
Indices: 22790841--22790865 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22790831 CAAGTGAGGG
22790841 GAAGGGAGAAA
1 GAAGGGAGAAA
22790852 GAAGGGAGAAA
1 GAAGGGAGAAA
22790863 GAA
1 GAA
22790866 TGGGTGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (11 bp):
GAAGGGAGAAA
Found at i:22794584 original size:90 final size:90
Alignment explanation
Indices: 22794423--22794603 Score: 283
Period size: 90 Copynumber: 2.0 Consensus size: 90
22794413 TGTAGGTCCT
* * *
22794423 TTATAGTGGGTGCGTTGAGCTCGTTGAGTTCCCAATACTTGGTATTAAAGCAAGGTTGTCCGAGA
1 TTATAGTGGGTGCATTGAGCTCGTTGAGTTCCCAATAATTGGTATTAAAGCAAAGTTGTCCGAGA
* *
22794488 CTGTAACTAGTTTAGGAAGCTTCGA
66 CCGTAACTAGTTGAGGAAGCTTCGA
* *
22794513 TTATAGTGGGTGCATTGAGCTTGTTGAGTTCTCAATAATTGGTATTAAAGCAAAGTTGTCC-AGG
1 TTATAGTGGGTGCATTGAGCTCGTTGAGTTCCCAATAATTGGTATTAAAGCAAAGTTGTCCGA-G
22794577 ACCGTAACTAGTTGAGGAAGCTTCGA
65 ACCGTAACTAGTTGAGGAAGCTTCGA
22794603 T
1 T
22794604 AAGCGTTGAG
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 1 0.01
90 82 0.99
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (90 bp):
TTATAGTGGGTGCATTGAGCTCGTTGAGTTCCCAATAATTGGTATTAAAGCAAAGTTGTCCGAGA
CCGTAACTAGTTGAGGAAGCTTCGA
Found at i:22802874 original size:59 final size:57
Alignment explanation
Indices: 22802764--22802937 Score: 215
Period size: 59 Copynumber: 2.9 Consensus size: 57
22802754 CCCTGAAAGT
* * *
22802764 CCCTAAACTATCCAAAAATTATA-TTTGACCCTCGAACTTCTCCAAAATTACATTTTTAA
1 CCCTAAACT-TCCAAAAATTACATTTTTACCCCCGAAC-T-TCCAAAATTACATTTTTAA
* *
22802823 CCTTAAAACTTTCAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTACATTTTTAA
1 CCCT-AAACTTCCAAAAATTACATTTTTACCCCCGAACTTCC-AAAATTACATTTTTAA
* *
22802882 CCCTAAACTTCCAAAAATTACATTTTTAACCCTGACACTTCCAAAATTACCATTTT
1 CCCTAAACTTCCAAAAATTACATTTTTACCCCCGA-ACTTCCAAAATTA-CATTTT
22802938 ATCCCTGGAT
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
58 38 0.38
59 46 0.46
60 17 0.17
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.34
Consensus pattern (57 bp):
CCCTAAACTTCCAAAAATTACATTTTTACCCCCGAACTTCCAAAATTACATTTTTAA
Found at i:22802944 original size:29 final size:29
Alignment explanation
Indices: 22802764--22802937 Score: 183
Period size: 29 Copynumber: 5.9 Consensus size: 29
22802754 CCCTGAAAGT
* * *
22802764 CCCTAAACTATCCAAAAATT--ATATTTGA
1 CCCTGAACT-TCCAAAAATTACATTTTTAA
*
22802792 CCCTCGAACTTCTCCAAAATTACATTTTTAA
1 CCCT-GAACTTC-CAAAAATTACATTTTTAA
* * * *
22802823 CCTTAAAACTTTCAAAAATTACATTTTTAC
1 CCCT-GAACTTCCAAAAATTACATTTTTAA
*
22802853 CCCCGAACTTCCAAAAATTACATTTTTAA
1 CCCTGAACTTCCAAAAATTACATTTTTAA
*
22802882 CCCTAAACTTCCAAAAATTACATTTTTAA
1 CCCTGAACTTCCAAAAATTACATTTTTAA
22802911 CCCTGACACTTCC-AAAATTACCATTTT
1 CCCTGA-ACTTCCAAAAATTA-CATTTT
22802938 ATCCCTGGAT
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
28 6 0.05
29 72 0.59
30 30 0.25
31 14 0.11
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.34
Consensus pattern (29 bp):
CCCTGAACTTCCAAAAATTACATTTTTAA
Found at i:22803101 original size:29 final size:31
Alignment explanation
Indices: 22803037--22803101 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
22803027 CCCAAAGTTT
*
22803037 TCCAAAATTACCATTTTTACCCCCGAGAGTA
1 TCCAAAATTACCAGTTTTACCCCCGAGAGTA
* *
22803068 T--AAAATTACC-GTTTTGCCCCC-CGAGTA
1 TCCAAAATTACCAGTTTTACCCCCGAGAGTA
22803095 TCCAAAA
1 TCCAAAA
22803102 GTCTCGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
27 6 0.21
28 9 0.31
29 13 0.45
31 1 0.03
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.28
Consensus pattern (31 bp):
TCCAAAATTACCAGTTTTACCCCCGAGAGTA
Found at i:22807015 original size:3 final size:3
Alignment explanation
Indices: 22807003--22807067 Score: 100
Period size: 3 Copynumber: 22.3 Consensus size: 3
22806993 TTATCAAAAG
22807003 AGA A-A AGA AGA AGA AGA AGA AGA AGA A-A A-A AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
22807048 AGA AGAA AGA AGA AGA AGA A
1 AGA AG-A AGA AGA AGA AGA A
22807068 AATGGTCAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 6 0.10
3 50 0.85
4 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22807025 original size:22 final size:22
Alignment explanation
Indices: 22807000--22807067 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
22806990 GTGTTATCAA
22807000 AAGAGAAAAGAAGAAGAAGAAG
1 AAGAGAAAAGAAGAAGAAGAAG
22807022 AAGAAGAAAA-AAGAAGAAGAAG
1 AAG-AGAAAAGAAGAAGAAGAAG
*
22807044 AAGA-AGAAGAAAGAAGAAGAAG
1 AAGAGAAAAG-AAGAAGAAGAAG
22807066 AA
1 AA
22807068 AATGGTCAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 3 0.07
21 1 0.02
22 32 0.76
23 6 0.14
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (22 bp):
AAGAGAAAAGAAGAAGAAGAAG
Found at i:22807033 original size:25 final size:25
Alignment explanation
Indices: 22807000--22807067 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
22806990 GTGTTATCAA
*
22807000 AAGAGAAAAGAAGAAGAAGAAGAAG
1 AAGAAAAAAGAAGAAGAAGAAGAAG
22807025 AAGAAAAAAGAAGAAGAAGAAGAAG
1 AAGAAAAAAGAAGAAGAAGAAGAAG
*
22807050 AAGAAAGAAGAAGAAGAA
1 AAGAAAAAAGAAGAAGAA
22807068 AATGGTCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (25 bp):
AAGAAAAAAGAAGAAGAAGAAGAAG
Found at i:22807897 original size:33 final size:33
Alignment explanation
Indices: 22807860--22807930 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
22807850 AAAAGAAAAG
* * *
22807860 AAAAAGGAAGAAGAAAAACAAAAG-CAAAAACAA
1 AAAAAGAAAAAAGAAAAA-AAAAGAAAAAAACAA
* *
22807893 AAAAAGAAAAAATAAAAAAAAAGAAAAAAAGAA
1 AAAAAGAAAAAAGAAAAAAAAAGAAAAAAACAA
22807926 AAAAA
1 AAAAA
22807931 AGGGAGAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 5 0.16
33 27 0.84
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.01
Consensus pattern (33 bp):
AAAAAGAAAAAAGAAAAAAAAAGAAAAAAACAA
Found at i:22807902 original size:8 final size:8
Alignment explanation
Indices: 22807885--22807930 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
22807875 AAACAAAAGC
*
22807885 AAAAACAA
1 AAAAAGAA
22807893 AAAAAGAA
1 AAAAAGAA
*
22807901 AAAATAAAA
1 AAAA-AGAA
22807910 AAAAAGAA
1 AAAAAGAA
22807918 AAAAAGAA
1 AAAAAGAA
22807926 AAAAA
1 AAAAA
22807931 AGGGAGAGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
8 27 0.79
9 7 0.21
ACGTcount: A:0.89, C:0.02, G:0.07, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:22807902 original size:25 final size:24
Alignment explanation
Indices: 22807874--22807932 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
22807864 AGGAAGAAGA
*
22807874 AAAACAAAAGCAAAAACAAAAAAAG
1 AAAA-AAAAGAAAAAACAAAAAAAG
* *
22807899 AAAAAATAAAAAAAAAGAAAAAAAG
1 AAAAAA-AAGAAAAAACAAAAAAAG
22807924 AAAAAAAAG
1 AAAAAAAAG
22807933 GGAGAGGTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.02
Consensus pattern (24 bp):
AAAAAAAAGAAAAAACAAAAAAAG
Found at i:22807903 original size:15 final size:15
Alignment explanation
Indices: 22807879--22807912 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22807869 GAAGAAAAAC
*
22807879 AAAAGCAAAAACAAA
1 AAAAGAAAAAACAAA
*
22807894 AAAAGAAAAAATAAA
1 AAAAGAAAAAACAAA
22807909 AAAA
1 AAAA
22807913 AAGAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.06, G:0.06, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAACAAA
Found at i:22807911 original size:17 final size:17
Alignment explanation
Indices: 22807891--22807932 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
22807881 AAGCAAAAAC
22807891 AAAAAAAGAAAAAATA-A
1 AAAAAAAGAAAAAA-AGA
22807908 AAAAAAAGAAAAAAAGA
1 AAAAAAAGAAAAAAAGA
22807925 AAAAAAAG
1 AAAAAAAG
22807933 GGAGAGGTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAGA
Found at i:22808999 original size:51 final size:48
Alignment explanation
Indices: 22808944--22809123 Score: 172
Period size: 48 Copynumber: 3.7 Consensus size: 48
22808934 ACACGACGGG
* *
22808944 AAAGATCTAAGATCGCAACGGCGGATCCAGTACTGTAAAAAGACAGAAGCA
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACT-T-AGAAGACAGAAG-A
* * * *
22808995 AAAGATCTAAGACAGCAACGG-TGATCCAGTAC-CACGAAGACATCGAAGG
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACTTA-GAAGACA--GAAGA
* * *
22809044 AAAGATCTAAG-CCGTAACGACGGATCTAGTACCTT-GAAGACA-AAGA
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTA-CTTAGAAGACAGAAGA
22809090 GAAAGATCTAAGACCGCAACGGCGGATCCAGTAC
1 -AAAGATCTAAGACCGCAACGGCGGATCCAGTAC
22809124 CACAAAAAGA
Statistics
Matches: 105, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
46 3 0.03
47 13 0.12
48 29 0.28
49 26 0.25
50 15 0.14
51 19 0.18
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.14
Consensus pattern (48 bp):
AAAGATCTAAGACCGCAACGGCGGATCCAGTACTTAGAAGACAGAAGA
Found at i:22809027 original size:101 final size:99
Alignment explanation
Indices: 22808837--22809162 Score: 281
Period size: 101 Copynumber: 3.3 Consensus size: 99
22808827 CATGAAACAT
* * * *
22808837 GACGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGTAAGGATATA-AAAGGGAAAGGTC
1 GACGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACTGTAA-GA-AGACAAA-GAAAAGATC
** ** *
22808901 TAAGTTA-CAACGGCAGATCGTGTACCTCAAAAGACAC
62 TAAGACAGCAACGGCAGATCCAGTACCACAAAAGACAC
* *
22808938 GACGGGAAAGATCTAAGATCGCAACGGCGGATCCAGTACTGTAAAAAGACAGAAGCAAAAGATCT
1 GACGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACTGTAAGAAGACA-AAG-AAAAGATCT
* *
22809003 AAGACAGCAACGG-TGATCCAGTACCAC-GAAGACATC
63 AAGACAGCAACGGCAGATCCAGTACCACAAAAGACA-C
* * * *
22809039 GA-AGGAAAGATCTAAGCCGTAACGACGGATCTAGTACCT-T--GAAGACAAAGAGAAAGATCTA
1 GACGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTA-CTGTAAGAAGACAAAGA-AAAGATCTA
* * *
22809100 AGACCGCAACGGCGGATCCAGTACCACAAAAAGACAA
64 AGACAGCAACGGCAGATCCAGTACCAC-AAAAGACAC
* * * *
22809137 AAGGGGAAAGGTCTAAGTCGCAACGG
1 GACGGGAAAGATCTAAGCCGCAACGG
22809163 TAGACCGTGT
Statistics
Matches: 185, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
95 1 0.01
96 23 0.12
97 19 0.10
98 1 0.01
99 43 0.23
100 24 0.13
101 68 0.37
102 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.13
Consensus pattern (99 bp):
GACGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACTGTAAGAAGACAAAGAAAAGATCTAAG
ACAGCAACGGCAGATCCAGTACCACAAAAGACAC
Found at i:22809344 original size:148 final size:148
Alignment explanation
Indices: 22808943--22809374 Score: 421
Period size: 148 Copynumber: 2.9 Consensus size: 148
22808933 GACACGACGG
* * *** * **
22808943 GAAAGATCTAAGATCGCAACGGCGGATCCAGTACTGTAAAAAGACAGAAGCAAAAGATCTAAGAC
1 GAAAGATCTAAGACCGCAACGACGGATCCAGTACCACAAAAAGACAAAAGGGAAAGATCTAAG-C
* * * * *
22809008 AGCAACGG-TGATCCA-GTACCAC-GAAGACATCGAAGGAAAGATCTAAG-CCGTAACGACGGAT
65 CGCAACGGCAGA-CCATGTACCTCAGAAGACA-AGAAGGAAAGATCTAAGACCGCAACGACGGAT
** *
22809069 CTAGTACCTTGAAGACAAAGA
128 CTAGTACCGCGAAAACAAAGA
* * *
22809090 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAAGACAAAAGGGGAAAGGTCTAAGT
1 GAAAGATCTAAGACCGCAACGACGGATCCAGTACCACAAAAAGACAAAA-GGGAAAGATCTAAGC
* * * * *
22809155 CGCAACGGTAGACCGTGTACCTCAGAAGACACGACGGGAAAGATCTAAGACCACAACGACGGATC
65 CGCAACGGCAGACCATGTACCTCAGAAGACAAGA-AGGAAAGATCTAAGACCGCAACGACGGATC
*
22809220 TAGTACCGCGAAAACATAAGG
129 TAGTACCGCGAAAACA-AAGA
* * * * * **
22809241 GAAAGATCTAAG-CTGTAACGACGGATCCAAG-ACCACGAAGATATTAAA-GGAAAGATCTAAGC
1 GAAAGATCTAAGACCGCAACGACGGATCC-AGTACCACAAAAAGACAAAAGGGAAAGATCTAAGC
*
22809303 CGCAACGGCAGACCATGTACCTC-GAAAGATAAGAAGAGAAAGATCTAAGACCGCAACGACGGAT
65 CGCAACGGCAGACCATGTACCTCAG-AAGACAAGAAG-GAAAGATCTAAGACCGCAACGACGGAT
*
22809367 CCAGTACC
128 CTAGTACC
22809375 ACAAAGATAC
Statistics
Matches: 238, Mismatches: 37, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
147 55 0.23
148 95 0.40
149 20 0.08
150 51 0.21
151 17 0.07
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.13
Consensus pattern (148 bp):
GAAAGATCTAAGACCGCAACGACGGATCCAGTACCACAAAAAGACAAAAGGGAAAGATCTAAGCC
GCAACGGCAGACCATGTACCTCAGAAGACAAGAAGGAAAGATCTAAGACCGCAACGACGGATCTA
GTACCGCGAAAACAAAGA
Found at i:22809395 original size:51 final size:51
Alignment explanation
Indices: 22808840--22809395 Score: 324
Period size: 51 Copynumber: 11.1 Consensus size: 51
22808830 GAAACATGAC
** * *
22808840 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGTAAGGATATAAAA
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAA
* *** * ** * * * *
22808891 GGGAAAGGTCTAAG-TTACAACGGCAGATCGTGTACCTCAAA-AGACACGAC
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACA-AAA
* *** * * *
22808941 GGGAAAGATCTAAGATCGCAACGGCGGATCCAGTACTGTAAAAAGACAGAA
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAA
** * * * * *
22808992 GCAAAAGATCTAAGACAGCAACGG-TGATCCAGTACCACGAAGACATC-GAA
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATA-CAAAA
* * * ***
22809042 -GGAAAGATCTAAG-CCGTAACGACGGATCTAGTACCTTGAAG--AC-AAA
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAA
* * *
22809088 GAGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAAGACAAAA
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAA
* * ** * * * * *
22809139 GGGGAAAGGTCTAAG-TCGCAACGGTAGA-CCGTGTACCTCAGAAGACAC-GAC
1 -GGGAAAGATCTAAGACCGCAACGGCGGATCC-AGTACCACA-AAGATACAAAA
* * * * * *
22809190 GGGAAAGATCTAAGACCACAACGACGGATCTAGTACCGCGAA-A-ACATAA
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAA
* * * * **
22809239 GGGAAAGATCTAAG-CTGTAACGACGGATCCAAG-ACCACGAAGATATTAAA
1 GGGAAAGATCTAAGACCGCAACGGCGGATCC-AGTACCACAAAGATACAAAA
* * *
22809289 -GGAAAGATCTAAG-CCGCAACGGCAGA-CCATGTACCTCGAAAGATA-AGAA
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCA-GTACCAC-AAAGATACAAAA
* *
22809338 GAGAAAGATCTAAGACCGCAACGACGGATCCAGTACCACAAAGATACAAAA
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAA
22809389 GGGAAAG
1 GGGAAAG
22809396 GTTTAAGTCG
Statistics
Matches: 381, Mismatches: 98, Indels: 52
0.72 0.18 0.10
Matches are distributed among these distances:
46 3 0.01
47 14 0.04
48 51 0.13
49 75 0.20
50 96 0.25
51 116 0.30
52 26 0.07
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (51 bp):
GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAA
Found at i:22809395 original size:249 final size:248
Alignment explanation
Indices: 22808842--22809408 Score: 714
Period size: 249 Copynumber: 2.3 Consensus size: 248
22808832 AACATGACGG
** * * *
22808842 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGTAAGGATATAAAAGGGAAAGGTCTAAGTT
1 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTAAGTC
* * * * *
22808907 ACAACGGCAGATCGTGTACCTCAAAAGACACGACGGGAAAGATCTAAGATCGCAACGGCGGATCC
66 GCAACGGCAGACCGTGTACCTCAAAAGACACGACGGGAAAGATCTAAGACCACAACGACGGATCC
*
22808972 AGTACTGTAAAAAGACAGAAGCAAAAGATCTAAGACAGCAACGGTGATCCAGTACCACGAAGACA
131 AGTACCGTAAAAAGACAGAAGCAAAAGATCTAAGACAGCAACGGTGATCCAGTACCACGAAGACA
* * * * * *
22809037 TCGAAGGAAAGATCTAAGCCGTAACGACGGATCTAGTACCTTGAAGACAAAGA
196 TCAAAGGAAAGATCTAAGCCGCAACGACAGACCTAGTACCTCGAAGAAAAAGA
* *
22809090 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAAGACAAAAGGGGAAAGGTCTAAGT
1 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAA-GGGAAAGGTCTAAGT
* *
22809155 CGCAACGGTAGACCGTGTACCTCAGAAGACACGACGGGAAAGATCTAAGACCACAACGACGGATC
65 CGCAACGGCAGACCGTGTACCTCAAAAGACACGACGGGAAAGATCTAAGACCACAACGACGGATC
* ** * ** * *
22809220 TAGTACCG-CGAAA-ACATAAGGGAAAGATCTAAG-CTGTAACGACG-GATCCAAG-ACCACGAA
130 CAGTACCGTAAAAAGACAGAAGCAAAAGATCTAAGACAGCAACG--GTGATCC-AGTACCACGAA
* * *
22809280 GATATTAAAGGAAAGATCTAAGCCGCAACGGCAGACC-ATGTACCTCGAAAGATAAGAAGA
192 GACATCAAAGGAAAGATCTAAGCCGCAACGACAGACCTA-GTACCTCG-AAGA-AA-AAGA
* *
22809340 GAAAGATCTAAGACCGCAACGACGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTTTAAGTC
1 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTAAGTC
22809405 GCAA
66 GCAA
22809409 TGGCGAACCC
Statistics
Matches: 275, Mismatches: 36, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
246 7 0.03
247 67 0.24
248 53 0.19
249 98 0.36
250 50 0.18
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (248 bp):
GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTAAGTC
GCAACGGCAGACCGTGTACCTCAAAAGACACGACGGGAAAGATCTAAGACCACAACGACGGATCC
AGTACCGTAAAAAGACAGAAGCAAAAGATCTAAGACAGCAACGGTGATCCAGTACCACGAAGACA
TCAAAGGAAAGATCTAAGCCGCAACGACAGACCTAGTACCTCGAAGAAAAAGA
Found at i:22810318 original size:205 final size:204
Alignment explanation
Indices: 22809879--22811012 Score: 1411
Period size: 205 Copynumber: 5.5 Consensus size: 204
22809869 CCCAACTTTC
** * * * ** *
22809879 TGATGAGACACAAATAAGTGGACCAAATTCGTCTTCCTAATGAGATATAGAGAAGCGAATTGAAA
1 TGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGA-CCAGAGAAGCGAATTAAAA
* * * * * *
22809944 CAAGTGAGGCGGTCATCTTCCTGATGAGATACGGAGAAGTATACCAACTC-AA--CA--CTCAAT
65 CAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAAT
* * * * *
22810004 ACGAGTAAATCTTTGAACCCCAGCTTCCTGATGATACACTGAGAAGCAGGTCGAAGCAATAAAAT
130 GCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAAT-AAAT
22810069 GGTTAGCTT-T
194 GGTTAGCTTCT
** * * *
22810079 CTGATGAGGTACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGACACAGAGAAGCGAATTGAA
1 -TGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGAC-CAGAGAAGCGAATTAAA
* * * *
22810144 ATAAGTGATGCGGTCATCTTCTTGATTAGACACTGAGAAGAAGACCAAATGAAACCCAGGCTCAA
64 ACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAA
* * ** * *
22810209 TGCGAGCAAATCTTCGAATCCCAACTTATTGATGAGATACTGAAAAGCAGATCGAAGCAATAAAT
129 TGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAT
22810274 GGTTAGCTTCT
194 GGTTAGCTTCT
* **
22810285 TGATAAGACACTGAGAAGTGGACCAAATTCGTCTTATTGAGGAGATCCAGAGAAGCGAATTAAAA
1 TGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGA-CCAGAGAAGCGAATTAAAA
*
22810350 CAAGTGATGCGGTCATCTTCCTAATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAAT
65 CAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAAT
* * * * *
22810415 GCGAGCAAATCTTCGAACCCTAGCTTTCTGATGAGATACTGAGAAGCAGGGCAAAGTAATAAATG
130 GCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAATG
* *
22810480 GTTAACTTCC
195 GTTAGCTTCT
* * *
22810490 TGATGAGACACTGAGAAGTGGACCAAATTCATCTTCTTGAGGAGATTCAGAGAAGCGAATTAAAA
1 TGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGA-CCAGAGAAGCGAATTAAAA
22810555 CAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAAT
65 CAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAAT
*
22810620 GCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAATG
130 GCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAATG
* *
22810685 ATTAGCTTCC
195 GTTAGCTTCT
* *
22810695 TGATGAGACATTGAGAAGTGGACCAAATGT-ATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAA
1 TGATGAGACACTGAGAAGTGGACCAAAT-TCGTCTTCCTGAGGAGA-CCAGAGAAGCGAATTAAA
* *
22810759 ATAAGTGATGCGGTTATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAA
64 ACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAA
* * * **
22810824 TGTGAGTAAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAATCGAAGCAATAAAG
129 TGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA-
22810889 TGGTTAGCTT-T
193 TGGTTAGCTTCT
* * * * * * * * *
22810900 CTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGTGGAAATCCAGAGAAGTGGATCAAA
1 -TGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGA-CCAGAGAAGCGAATTAAA
** * * * * * * *
22810965 ACAAACGACGCGATCATCTTCCTAATCAAATACTGAGAAGAAGGCCAA
64 ACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAA
22811013 GTTAATGAAA
Statistics
Matches: 820, Mismatches: 101, Indels: 19
0.87 0.11 0.02
Matches are distributed among these distances:
201 97 0.12
202 2 0.00
204 2 0.00
205 563 0.69
206 156 0.19
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (204 bp):
TGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGACCAGAGAAGCGAATTAAAAC
AAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCAAACCCAGGCTCAATG
CGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAATGG
TTAGCTTCT
Found at i:22811415 original size:34 final size:34
Alignment explanation
Indices: 22811375--22811441 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
22811365 TTTTTAAATA
*
22811375 AGTTTGAATTTA-TTTTAAATTGAAATTCATTTTG
1 AGTTTGAATTTACTTTAAAATT-AAATTCATTTTG
*
22811409 AGTTTGAATTTACTTTAAAATTAAATTTATTTT
1 AGTTTGAATTTACTTTAAAATTAAATTCATTTT
22811442 TAAATAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (34 bp):
AGTTTGAATTTACTTTAAAATTAAATTCATTTTG
Found at i:22811896 original size:31 final size:31
Alignment explanation
Indices: 22811861--22811919 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
22811851 AAAGTCAATA
*
22811861 TACGAAC-CCTTTCTGAGAAATTAATACACAG
1 TACGAACTCCTTTCTGAG-AATCAATACACAG
*
22811892 TACGAACTCTTTTCTGAGAATCAATACA
1 TACGAACTCCTTTCTGAGAATCAATACA
22811920 AAAATCAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (31 bp):
TACGAACTCCTTTCTGAGAATCAATACACAG
Found at i:22819091 original size:29 final size:29
Alignment explanation
Indices: 22818964--22819105 Score: 117
Period size: 30 Copynumber: 4.8 Consensus size: 29
22818954 AGAACTCCTT
* * *
22818964 AAACTATCCAAAAATTATATTTTGACCCTC
1 AAACT-TCCAAAAATTACATTTTTAACCTC
* * *
22818994 AAACTTCTCCAAAATTATATTTTTGACC-C
1 AAACTTC-CAAAAATTACATTTTTAACCTC
* *
22819023 AAAAACTTCCAAAAATTACATTTTT-GCCCC
1 --AAACTTCCAAAAATTACATTTTTAACCTC
*
22819053 GAACAATTCCAAAAATTACATTTTTAACCTC
1 -AA-ACTTCCAAAAATTACATTTTTAACCTC
* *
22819084 GAACTTCCAAAAATTCCATTTT
1 AAACTTCCAAAAATTACATTTT
22819106 GGACCCTGAC
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
29 25 0.27
30 57 0.62
31 10 0.11
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTAACCTC
Found at i:22821780 original size:13 final size:13
Alignment explanation
Indices: 22821762--22821788 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22821752 ATCCACACAC
22821762 CTCTCTTCTTCTT
1 CTCTCTTCTTCTT
22821775 CTCTCTTCTTCTT
1 CTCTCTTCTTCTT
22821788 C
1 C
22821789 ATATTCTCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (13 bp):
CTCTCTTCTTCTT
Found at i:22822930 original size:15 final size:15
Alignment explanation
Indices: 22822910--22822955 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
22822900 ACAAAATACT
22822910 AACATAAATGACTAA
1 AACATAAATGACTAA
* *
22822925 AACATAACAT--TTTA
1 AACATAA-ATGACTAA
22822939 AACATAAATGACTAA
1 AACATAAATGACTAA
22822954 AA
1 AA
22822956 TGTAAACTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 2 0.08
14 9 0.38
15 11 0.46
16 2 0.08
ACGTcount: A:0.59, C:0.13, G:0.04, T:0.24
Consensus pattern (15 bp):
AACATAAATGACTAA
Found at i:22827435 original size:20 final size:19
Alignment explanation
Indices: 22827397--22827436 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22827387 TCTCCCCGTG
* *
22827397 AAGGGAATTTTTGTTAAAA
1 AAGGGAATTTTTCTGAAAA
22827416 AAGGGAATGTTTTCTGAAAA
1 AAGGGAAT-TTTTCTGAAAA
22827436 A
1 A
22827437 GTAACATCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (19 bp):
AAGGGAATTTTTCTGAAAA
Found at i:22833595 original size:20 final size:21
Alignment explanation
Indices: 22833548--22833601 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
22833538 CTCATACTAT
22833548 TATT-TTCATATAATTTTTTTA
1 TATTCTTCATAT-ATTTTTTTA
*
22833569 TATTTCTTCATAT-TTTTTTTG
1 TA-TTCTTCATATATTTTTTTA
22833590 TATTCTCTCATA
1 TATTCT-TCATA
22833602 GTTTGTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 4 0.14
21 16 0.55
22 2 0.07
23 7 0.24
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTCTTCATATATTTTTTTA
Found at i:22833698 original size:20 final size:17
Alignment explanation
Indices: 22833643--22833722 Score: 63
Period size: 20 Copynumber: 4.2 Consensus size: 17
22833633 TTCTTTAGAA
22833643 TTTTGTATTTCCTCATAACT
1 TTTTGTA-TT-CTCATAA-T
22833663 TTTTGTATTC-CATAAT
1 TTTTGTATTCTCATAAT
22833679 TATTTGTAATCTCTCATAAT
1 T-TTTGT-AT-TCTCATAAT
*
22833699 TTTTAATATTCTCTTATAAT
1 TTTT-GTATTCTC--ATAAT
22833719 TTTT
1 TTTT
22833723 ATGTATGCCC
Statistics
Matches: 52, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
16 2 0.04
17 10 0.19
18 7 0.13
19 9 0.17
20 24 0.46
ACGTcount: A:0.25, C:0.14, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTTGTATTCTCATAAT
Found at i:22833941 original size:19 final size:20
Alignment explanation
Indices: 22833892--22833944 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
22833882 GAAACAATAA
*
22833892 TTAGTATTTCCTTATAAATT
1 TTAGTATTTCCTCATAAATT
* * *
22833912 TTGGTACTTCCTCAT-ATTT
1 TTAGTATTTCCTCATAAATT
22833931 TTAGTATTTCCTCA
1 TTAGTATTTCCTCA
22833945 GAATTTTTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.53
Consensus pattern (20 bp):
TTAGTATTTCCTCATAAATT
Found at i:22833951 original size:19 final size:19
Alignment explanation
Indices: 22833892--22833951 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
22833882 GAAACAATAA
*
22833892 TTAGTATTTCCTTATAAATT
1 TTAGTATTTCCTCA-AAATT
* * * *
22833912 TTGGTACTTCCTCATATTT
1 TTAGTATTTCCTCAAAATT
*
22833931 TTAGTATTTCCTCAGAATT
1 TTAGTATTTCCTCAAAATT
22833950 TT
1 TT
22833952 TGATGTACTT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.53
Consensus pattern (19 bp):
TTAGTATTTCCTCAAAATT
Found at i:22833952 original size:20 final size:19
Alignment explanation
Indices: 22833892--22833952 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
22833882 GAAACAATAA
* *
22833892 TTAGTATTTCCTTATAAATT
1 TTAGTATTTCCTCA-AATTT
* * *
22833912 TTGGTACTTCCTCATATTT
1 TTAGTATTTCCTCAAATTT
22833931 TTAGTATTTCCTCAGAATTT
1 TTAGTATTTCCTCA-AATTT
22833951 TT
1 TT
22833953 GATGTACTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (19 bp):
TTAGTATTTCCTCAAATTT
Found at i:22838626 original size:17 final size:16
Alignment explanation
Indices: 22838599--22838675 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 16
22838589 CCCAAACCAT
22838599 TTTAGAATTTACTTTGAAA
1 TTTA-AATTTA-TTT-AAA
22838618 -TTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
*
22838634 TTTTAATTTAATTTAAA
1 TTTAAATTT-ATTTAAA
22838651 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
22838667 TTT-AATTTA
1 TTTAAATTTA
22838676 AGTTTGAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
15 6 0.11
16 13 0.25
17 30 0.57
18 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:22838634 original size:11 final size:11
Alignment explanation
Indices: 22838618--22838713 Score: 90
Period size: 11 Copynumber: 8.5 Consensus size: 11
22838608 TACTTTGAAA
*
22838618 TTAAATTTATT
1 TTAAATTTAAT
22838629 TTAAATTTTAAT
1 TTAAA-TTTAAT
22838641 TT-AATTTAAAT
1 TTAAATTT-AAT
22838652 TTAAATTT-AT
1 TTAAATTTAAT
22838662 TTAAATTTAAT
1 TTAAATTTAAT
*
22838673 TTAAGTTTGAAT
1 TTAAATTT-AAT
22838685 TT-AATTTAAAT
1 TTAAATTT-AAT
*
22838696 TTAATTTGTAAGT
1 TTAAATT-TAA-T
22838709 TTAAA
1 TTAAA
22838714 ATAAACAAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
10 13 0.18
11 30 0.42
12 22 0.31
13 6 0.08
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:22838652 original size:6 final size:6
Alignment explanation
Indices: 22838618--22838713 Score: 87
Period size: 6 Copynumber: 16.8 Consensus size: 6
22838608 TACTTTGAAA
* *
22838618 TTAAAT TT-ATT TTAAAT TTTAAT TT-AAT TTAAAT TTAAAT TT--AT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * * *
22838662 TTAAAT TT-AAT TTAAGT TTGAAT TT-AAT TTAAAT TTAATT TGTAAGT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T-TAAAT
22838709 TTAAA
1 TTAAA
22838714 ATAAACAAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
4 4 0.05
5 19 0.26
6 46 0.62
7 5 0.07
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (6 bp):
TTAAAT
Found at i:22839130 original size:25 final size:25
Alignment explanation
Indices: 22839102--22839153 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
22839092 TGTAAAGGGT
*
22839102 TACAAACCC-AGTTCTAAAAAATCAA
1 TACAAACCCTA-TACTAAAAAATCAA
*
22839127 TACAAACCCTATACTCAAAAATCAA
1 TACAAACCCTATACTAAAAAATCAA
22839152 TA
1 TA
22839154 TACAAGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.21
Consensus pattern (25 bp):
TACAAACCCTATACTAAAAAATCAA
Found at i:22840401 original size:161 final size:162
Alignment explanation
Indices: 22840216--22840562 Score: 525
Period size: 162 Copynumber: 2.1 Consensus size: 162
22840206 TTTTTAATTA
* * * * *
22840216 GTTTTCAATTTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGGCACGTGTC-TTTTTTGGCTT
1 GTTTACAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACCTGTCACTTTTTGGCTT
** * *
22840280 ATTTATGCATTTAATCCCTGACATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTGTT
66 ATTTATGCATTTAATCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTCTTATT
* *
22840345 TAATTATGAAATTGGCCCAAAAATTTTGCAAG
131 TAATTATAAAATTGGCCCAAAAATTTTGCAAC
*
22840377 GTTTATAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACCTGTCACTTTTTGGCTT
1 GTTTACAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACCTGTCACTTTTTGGCTT
*
22840442 ATTTATGCATTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTCTTATT
66 ATTTATGCATTTAATCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTCTTATT
* * *
22840507 TAATTATAAAATTGGTCCAAGAATTTTTCAAC
131 TAATTATAAAATTGGCCCAAAAATTTTGCAAC
* *
22840539 GTTTACAAATTAATCCCTTGACTG
1 GTTTACAAATTAGTCCTTTGACTG
22840563 CTGGATGCCT
Statistics
Matches: 166, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
161 48 0.29
162 118 0.71
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.43
Consensus pattern (162 bp):
GTTTACAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACCTGTCACTTTTTGGCTT
ATTTATGCATTTAATCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTCTTATT
TAATTATAAAATTGGCCCAAAAATTTTGCAAC
Found at i:22840716 original size:28 final size:28
Alignment explanation
Indices: 22840666--22840791 Score: 84
Period size: 29 Copynumber: 4.5 Consensus size: 28
22840656 AAATTTTAGG
* *
22840666 AAATTA-CATTTTGACCTCGAAACTTCCA
1 AAATTACCATTTTAACC-CCAAACTTCCA
*
22840694 AAATTACCATTTT-ACCCCAAAACCTTCTA
1 AAATTACCATTTTAACCCC-AAA-CTTCCA
* *
22840723 AAATT-CCATTTTAACCCC-GATTTCACCAA
1 AAATTACCATTTTAACCCCAAACTT--CC-A
* *
22840752 AAATTACCATTTT-ACCCCGAACTTTCTA
1 AAATTACCATTTTAACCCCAAAC-TTCCA
22840780 AAA-TACCATTTT
1 AAATTACCATTTT
22840792 TAATCCCGAT
Statistics
Matches: 80, Mismatches: 8, Indels: 21
0.73 0.07 0.19
Matches are distributed among these distances:
26 2 0.03
27 11 0.14
28 24 0.30
29 33 0.41
30 8 0.10
31 2 0.03
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (28 bp):
AAATTACCATTTTAACCCCAAACTTCCA
Found at i:22840761 original size:58 final size:58
Alignment explanation
Indices: 22840693--22840885 Score: 248
Period size: 58 Copynumber: 3.3 Consensus size: 58
22840683 CGAAACTTCC
* *
22840693 AAAATTACCATTTTACCCCAAAACCTTCTAAAATTCCA-TTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCC-GAACCTTCTAAAATTCCATTTTTAATCCCGATTTCACCA
* *
22840751 AAAATTACCATTTTACCCCGAACTTTCTAAAATACCATTTTTAATCCCGATTTCACCA
1 AAAATTACCATTTTACCCCGAACCTTCTAAAATTCCATTTTTAATCCCGATTTCACCA
* * * * *
22840809 AAAATTACCGTTTTACCCTCGAA-CTCTCAAAAATTCTATTTTTAATCTCGACTTCACC-
1 AAAATTACCATTTTACCC-CGAACCT-TCTAAAATTCCATTTTTAATCCCGATTTCACCA
*
22840867 AAAATTACTATTTTACCCC
1 AAAATTACCATTTTACCCC
22840886 CGGGTGTCCA
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
57 16 0.13
58 72 0.61
59 31 0.26
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCGAACCTTCTAAAATTCCATTTTTAATCCCGATTTCACCA
Found at i:22840811 original size:29 final size:28
Alignment explanation
Indices: 22840722--22840811 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 28
22840712 AAAACCTTCT
*
22840722 AAAATTCCATTTTAACCCCGATTTCACC
1 AAAATACCATTTTAACCCCGATTTCACC
*
22840750 AAAAATTACCATTTT-ACCCCGAACTTT--CT
1 -AAAA-TACCATTTTAACCCCG-A-TTTCACC
*
22840779 AAAATACCATTTTTAATCCCGATTTCACC
1 AAAATACCA-TTTTAACCCCGATTTCACC
22840808 AAAA
1 AAAA
22840812 ATTACCGTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
27 8 0.16
28 9 0.18
29 21 0.42
30 9 0.18
31 3 0.06
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATACCATTTTAACCCCGATTTCACC
Found at i:22840881 original size:29 final size:29
Alignment explanation
Indices: 22840789--22840881 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
22840779 AAAATACCAT
* * **
22840789 TTTTAATCCCGATTTCACCAAAAATTACCG
1 TTTTAATCTCGACTTCACC-AAAATTACTA
**
22840819 TTTTACCCTCGAACTCTCA--AAAATT-CTA
1 TTTTAATCTCG-ACT-TCACCAAAATTACTA
22840847 TTTTTAATCTCGACTTCACCAAAATTACTA
1 -TTTTAATCTCGACTTCACCAAAATTACTA
22840877 TTTTA
1 TTTTA
22840882 CCCCCGGGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
27 3 0.06
28 4 0.08
29 26 0.53
30 11 0.22
31 2 0.04
32 3 0.06
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTTAATCTCGACTTCACCAAAATTACTA
Found at i:22853192 original size:31 final size:31
Alignment explanation
Indices: 22853154--22853259 Score: 101
Period size: 31 Copynumber: 3.4 Consensus size: 31
22853144 TCTTTATCTC
22853154 TGAAATTGAAGTAAGAGCAATATCATCCTTT
1 TGAAATTGAAGTAAGAGCAATATCATCCTTT
** *
22853185 TGAAATTGAAGT-AGAGTGGATAACAAGT-C-TT
1 TGAAATTGAAGTAAGAG-CAATATC-A-TCCTTT
* ** *
22853216 TGAAATTGAAGTAAGAGTAACGTCATCCTCT
1 TGAAATTGAAGTAAGAGCAATATCATCCTTT
22853247 TGAAATTGAAGTA
1 TGAAATTGAAGTA
22853260 GAGTGGATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
29 1 0.02
30 6 0.10
31 46 0.77
32 6 0.10
33 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAATATCATCCTTT
Found at i:22853230 original size:62 final size:62
Alignment explanation
Indices: 22853116--22853278 Score: 218
Period size: 62 Copynumber: 2.5 Consensus size: 62
22853106 TTCCTATCCG
*
22853116 TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATATCATC
1 TGAAATTGAAGTAGAG-TGGATAACACGTC----T-T-TGAAATTGAAGTAAGAGCAACATCATC
*
22853181 CTTT
59 CTCT
* * *
22853185 TGAAATTGAAGTAGAGTGGATAACAAGTCTTTGAAATTGAAGTAAGAGTAACGTCATCCTCT
1 TGAAATTGAAGTAGAGTGGATAACACGTCTTTGAAATTGAAGTAAGAGCAACATCATCCTCT
22853247 TGAAATTGAAGTAGAGTGGATAACACGTCTTT
1 TGAAATTGAAGTAGAGTGGATAACACGTCTTT
22853279 ATCTCTGAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
62 58 0.66
63 1 0.01
64 1 0.01
68 12 0.14
69 16 0.18
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (62 bp):
TGAAATTGAAGTAGAGTGGATAACACGTCTTTGAAATTGAAGTAAGAGCAACATCATCCTCT
Found at i:22853297 original size:62 final size:64
Alignment explanation
Indices: 22853116--22853599 Score: 278
Period size: 76 Copynumber: 6.8 Consensus size: 64
22853106 TTCCTATCCG
22853116 TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATATCATC
1 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGT-A-AGC-A-ATCATC
*
22853181 CTTT
61 CTCT
* *
22853185 TGAAATTGAAGTAGAGTGGATAACAAGTC----T-T-TGAAATTGAAGTAAGAGTAACGTCATCC
1 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGT-A-AGCAA--TCATCC
22853244 TCT
62 TCT
22853247 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTT
1 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGT-A-AGC---A--A--T
22853312 CCTATCCTCT
57 -C-ATCCTCT
* * * * *
22853322 TGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTCTAAAATTGAAGTAAGAGCAAGATCTTT
1 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGT-A-AGC-A-A-----
22853387 TCCTATCCTCT
56 T-C-ATCCTCT
* * *
22853398 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTT
1 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGT-A-AGC-A-A-----
22853463 TCCTATCCTCT
56 T-C-ATCCTCT
* * *
22853474 TGAAATTGAAGTAAAGCTGGATATCACGTCTTTATTTCTGAAATTGAAGTAAGAGCAAGATCTTT
1 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGT-A-AGC-A-A-----
22853539 CTCATCCTCT
56 -TCATCCTCT
* *
22853549 TGAAATTAAAGTAGAGTTGGATAACATGTCTTTATCTCTGAAATTGAAGTA
1 TGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTA
22853600 TGAGCAAGAT
Statistics
Matches: 368, Mismatches: 27, Indels: 35
0.86 0.06 0.08
Matches are distributed among these distances:
60 1 0.00
61 1 0.00
62 53 0.14
63 1 0.00
64 1 0.00
66 1 0.00
67 1 0.00
68 29 0.08
69 16 0.04
71 1 0.00
73 3 0.01
74 3 0.01
75 73 0.20
76 181 0.49
77 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (64 bp):
TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGCAATCATCCTCT
Found at i:22853335 original size:38 final size:38
Alignment explanation
Indices: 22853284--22853638 Score: 252
Period size: 38 Copynumber: 9.4 Consensus size: 38
22853274 TCTTTATCTC
22853284 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
* ** *
22853322 TGAAATTGAAGTAA-AGCTAGATATCAAGTCTTTAT-CTC-
1 TGAAATTGAAGTAAGAGC-A-AGATCATTTC-CTATCCTCT
* *
22853360 TAAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
* * ** *
22853398 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC-
1 TGAAATTGAAGTAAGAGC--AAGATCATTTC-CTATCCTCT
*
22853436 TGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
* * ** * *
22853474 TGAAATTGAAGTAA-AGCTGGATATCACGTCTTTAT-TTC-
1 TGAAATTGAAGTAAGAGC--AAGATCATTTC-CTATCCTCT
22853512 TGAAATTGAAGTAAGAGCAAGATC-TTT-CTCATCCTCT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCT-ATCCTCT
* *** * *
22853549 TGAAATTAAAGT-AGAGTTGGATAACATGTCTTTAT-CTC-
1 TGAAATTGAAGTAAGAGCAAGAT--CATTTC-CTATCCTCT
* * *
22853587 TGAAATTGAAGTATGAGCAAGATCGTTTCCTATCCTTT
1 TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
22853625 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
22853639 AGTTGGATAG
Statistics
Matches: 238, Mismatches: 52, Indels: 54
0.69 0.15 0.16
Matches are distributed among these distances:
34 1 0.00
35 2 0.01
36 19 0.08
37 48 0.20
38 109 0.46
39 47 0.20
40 11 0.05
41 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (38 bp):
TGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCT
Found at i:22853369 original size:76 final size:76
Alignment explanation
Indices: 22853240--22853663 Score: 656
Period size: 76 Copynumber: 5.6 Consensus size: 76
22853230 GAGTAACGTC
* * *
22853240 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
22853304 GATCATTTCCT
66 GATCTTTTCCT
* *
22853315 ATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTCTAAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
22853380 GATCTTTTCCT
66 GATCTTTTCCT
22853391 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
22853456 GATCTTTTCCT
66 GATCTTTTCCT
* *
22853467 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATTTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
22853532 GATC-TTT-CT
66 GATCTTTTCCT
* * * * * *
22853541 CATCCTCTTGAAATTAAAGTAGAGTTGGATAACATGTCTTTATCTCTGAAATTGAAGTATGAGCA
1 -ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCA
*
22853606 AGATCGTTTCCT
65 AGATCTTTTCCT
* * *
22853618 ATCCTTTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCT
1 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCT
22853664 CTAAAGAGCA
Statistics
Matches: 323, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
74 2 0.01
75 87 0.27
76 232 0.72
77 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (76 bp):
ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
GATCTTTTCCT
Found at i:22853628 original size:151 final size:152
Alignment explanation
Indices: 22853021--22853668 Score: 830
Period size: 151 Copynumber: 4.4 Consensus size: 152
22853011 CAGACCGCAC
*
22853021 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCACA-TCTTT-TTCTCTAAA
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCA-AGTCTTTATT-TCTAAA
*
22853084 ATTGAAGTAAGAGCAAGATCTTTTCCTAT-C-CGTGAAATTGAAGTAGAGTTGGATAACACGTCT
64 ATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCT
22853147 TTATCTCTGAAATTGAAGTAAGAG
129 TTATCTCTGAAATTGAAGTAAGAG
* * * * *
22853171 C-A-A---TAT-C-ATCCTTTTGAAATTGAAGTAGAG-TGGATAACAAGTC-----TT-TGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATTTCTAAAAT
* *
22853222 TGAAGTAAGAG-TA-A-C--GT-C-ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTT
66 TGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTT
22853279 ATCTCTGAAATTGAAGTAAGAG
131 ATCTCTGAAATTGAAGTAAGAG
* * *
22853301 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTCTAAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATTTCTAAAAT
* * * *
22853366 TGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
66 TGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTT
22853431 ATCTCTGAAATTGAAGTAAGAG
131 ATCTCTGAAATTGAAGTAAGAG
* *
22853453 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATTTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATTTCTAAAAT
* *
22853518 TGAAGTAAGAGCAAGATC-TTT-CTCATCCTCTTGAAATTAAAGTAGAGTTGGATAACATGTCTT
66 TGAAGTAAGAGCAAGATCTTTTCCT-ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTT
*
22853581 TATCTCTGAAATTGAAGTATGAG
130 TATCTCTGAAATTGAAGTAAGAG
* * * *
22853604 CAAGATCGTTTCCTATCCTTTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAA
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTAT-T-TCTAAA
22853669 GAGCAAGATA
Statistics
Matches: 433, Mismatches: 37, Indels: 53
0.83 0.07 0.10
Matches are distributed among these distances:
129 2 0.00
130 41 0.09
131 19 0.04
132 1 0.00
133 1 0.00
134 1 0.00
135 3 0.01
136 17 0.04
137 22 0.05
138 12 0.03
141 1 0.00
142 10 0.02
143 22 0.05
144 17 0.04
145 3 0.01
146 1 0.00
147 1 0.00
148 1 0.00
149 2 0.00
150 4 0.01
151 132 0.30
152 115 0.27
153 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (152 bp):
CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATTTCTAAAAT
TGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTT
ATCTCTGAAATTGAAGTAAGAG
Found at i:22853635 original size:227 final size:225
Alignment explanation
Indices: 22853021--22853663 Score: 832
Period size: 227 Copynumber: 2.9 Consensus size: 225
22853011 CAGACCGCAC
* *
22853021 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCACATCTTT-TTCTCTAAAA
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATATCACGTCTTTATT-TCTGAAA
* *
22853085 TTGAAGTAAGAGCAAGATCTTT-TCCTAT-C-CGTGAAATTGAAGTAGAGTTGGATAACACGTCT
64 TTGAAGTAAGAGCAAGATCTTTCT-CTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCT
* *
22853147 TTATCTCTGAAATTGAAGTAAGAGC-A-A--TAT-C-ATCCTTTTGAAATTGAAGTAGAGTGGAT
128 TTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTCCTATCCTTTTGAAATTGAAGTAAAGTGGAT
22853206 AACAAGTC----T-T-TGAAATTGAAGTAAGAG
193 AACAAGTCTTTATCTCTGAAATTGAAGTAAGAG
* * * * *
22853233 -TA-A-C--GT-C-ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATATCACGTCTTTATTTCTGAAATT
* * * *
22853291 GAAGTAAGAGCAAGATCATTTC-CTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTT
66 GAAGTAAGAGCAAGATC-TTTCTCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTT
* *
22853355 ATCTCTAAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGAT
130 ATCTCTGAAATTGAAGTAAGAGCAAGATC-TTTCCTATCCTTTTGAAATTGAAGTAAAG-TGGAT
*
22853420 ATCAAGTCTTTATCTCTGAAATTGAAGTAAGAG
193 AACAAGTCTTTATCTCTGAAATTGAAGTAAGAG
22853453 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCACGTCTTTATTTCTGAAAT
1 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATATCACGTCTTTATTTCTGAAAT
* *
22853518 TGAAGTAAGAGCAAGATCTTTCTC-ATCCTCTTGAAATTAAAGTAGAGTTGGATAACATGTCTTT
65 TGAAGTAAGAGCAAGATCTTTCTCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTT
*
22853582 ATCTCTGAAATTGAAGTATGAGCAAGATCGTTTCCTATCCTTTTGAAATTGAAGTAAAGTTGGAT
130 ATCTCTGAAATTGAAGTAAGAGCAAGATC-TTTCCTATCCTTTTGAAATTGAAGTAAAG-TGGAT
*
22853647 AGCAAGTCTTTATCTCT
193 AACAAGTCTTTATCTCT
22853664 CTAAAGAGCA
Statistics
Matches: 368, Mismatches: 35, Indels: 41
0.83 0.08 0.09
Matches are distributed among these distances:
204 43 0.12
205 27 0.07
206 52 0.14
207 2 0.01
208 1 0.00
209 1 0.00
210 1 0.00
211 3 0.01
212 1 0.00
213 21 0.06
214 12 0.03
218 1 0.00
219 1 0.00
220 17 0.05
221 1 0.00
222 1 0.00
223 1 0.00
225 1 0.00
226 1 0.00
227 136 0.37
228 44 0.12
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (225 bp):
CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATATCACGTCTTTATTTCTGAAATT
GAAGTAAGAGCAAGATCTTTCTCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
TCTCTGAAATTGAAGTAAGAGCAAGATCTTTCCTATCCTTTTGAAATTGAAGTAAAGTGGATAAC
AAGTCTTTATCTCTGAAATTGAAGTAAGAG
Found at i:22853969 original size:6 final size:6
Alignment explanation
Indices: 22853953--22854025 Score: 66
Period size: 6 Copynumber: 12.8 Consensus size: 6
22853943 TACTTTGAAA
* *
22853953 TTAAA- TTAAAT TTAAAT TT--AT TTAAAT TT-AAT TTAAGT TTGAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
22853997 TT-AAT TTAAAT TTAATT TGTAAGT TTAAA
1 TTAAAT TTAAAT TTAAAT T-TAAAT TTAAA
22854026 ATAAACAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.07
5 15 0.27
6 32 0.57
7 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:22853987 original size:5 final size:5
Alignment explanation
Indices: 22853951--22854014 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
22853941 TTTACTTTGA
* *
22853951 AATTA AATTA AATTT AAATTT -ATTT AAATTT AATTT AAGTTT GAATTT
1 AATTT AATTT AATTT -AATTT AATTT -AATTT AATTT AA-TTT -AATTT
22853999 AATTT AAATTT AATTT
1 AATTT -AATTT AATTT
22854015 GTAAGTTTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
4 4 0.08
5 26 0.50
6 20 0.38
7 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:22853999 original size:17 final size:16
Alignment explanation
Indices: 22853953--22854011 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
22853943 TACTTTGAAA
*
22853953 TTAAATTAAATTTAAAT
1 TTAATTTAAATTT-AAT
22853970 TT-ATTTAAATTTAAT
1 TTAATTTAAATTTAAT
*
22853985 TTAAGTTTGAATTTAAT
1 TTAA-TTTAAATTTAAT
22854002 TTAAATTTAA
1 TT-AATTTAA
22854012 TTTGTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 5 0.14
16 10 0.28
17 19 0.53
18 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAATTTAAATTTAAT
Found at i:22854012 original size:11 final size:11
Alignment explanation
Indices: 22853953--22854025 Score: 69
Period size: 11 Copynumber: 6.5 Consensus size: 11
22853943 TACTTTGAAA
*
22853953 TTAAATTAAAT
1 TTAAATTTAAT
22853964 TTAAATTT-AT
1 TTAAATTTAAT
22853974 TTAAATTTAAT
1 TTAAATTTAAT
*
22853985 TTAAGTTTGAAT
1 TTAAATTT-AAT
22853997 TT-AATTTAAAT
1 TTAAATTT-AAT
*
22854008 TTAATTTGTAAGT
1 TTAAATT-TAA-T
22854021 TTAAA
1 TTAAA
22854026 ATAAACAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
10 10 0.20
11 25 0.49
12 10 0.20
13 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:22855801 original size:159 final size:159
Alignment explanation
Indices: 22855561--22855892 Score: 481
Period size: 159 Copynumber: 2.1 Consensus size: 159
22855551 AGTTTTCAAT
* *
22855561 TTAGTCCTTTGACTGTTTGATTGCACCAGAGGCTGCCACGTGTCTTTTTGGCTTATTTATGCATT
1 TTAGTCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCTTTTTGGCTTATTTATGCATT
* * *** *
22855626 TAGTCCCTGACATTTTAATTTGATTTAATTTAATCCTTAAATCAAGTTTTGTTTAATTACAAAAT
66 TAGTCCCTAACATTTTAATTTGATTTAATTTAATCCCTAAATCAACACTTATTTAATTACAAAAT
*
22855691 TGGCCTAAGAATTTTGCAAAGTTTATAAA
131 TGGCCCAAGAATTTTGCAAAGTTTATAAA
22855720 TTAGTCCTTTGACTGTTTGACTACACCAGAGGCTG-CACGTGTCACTTTTTGGCTTA-TT-TGCA
1 TTAGTCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGT--CTTTTTGGCTTATTTATGCA
* *
22855782 TTTAGTCCCTAACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACACTTATTTAATTATAA
64 TTTAGTCCCTAACA-TTTTAATTTGATTTAATTTAATCCCTAAATCAACACTTATTTAATTACAA
* *
22855847 AATTGGCCCAAGAATTTTTCAAGGTTTATAAA
128 AATTGGCCCAAGAATTTTGCAAAGTTTATAAA
* *
22855879 TTAATCCCTTGACT
1 TTAGTCCTTTGACT
22855893 ATTGGATGCC
Statistics
Matches: 155, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
158 24 0.15
159 119 0.77
160 12 0.08
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (159 bp):
TTAGTCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCTTTTTGGCTTATTTATGCATT
TAGTCCCTAACATTTTAATTTGATTTAATTTAATCCCTAAATCAACACTTATTTAATTACAAAAT
TGGCCCAAGAATTTTGCAAAGTTTATAAA
Found at i:22856031 original size:28 final size:27
Alignment explanation
Indices: 22855964--22856064 Score: 78
Period size: 29 Copynumber: 3.5 Consensus size: 27
22855954 CCAAACAGTC
* *
22855964 CAAAAATTGCATTGTGA-CCCGAAATTT
1 CAAAAATTACATT-TGACCCCGAAACTT
22855991 CAGAAGAAATTACATTCTGACCCCGAAACTT
1 C--AA-AAATTACATT-TGACCCCGAAACTT
* *
22856022 CAAAAATTACCATTTTACCCCAGAACCTT
1 CAAAAATTA-CATTTGACCCC-GAAACTT
* *
22856051 CTAAAATTCCATTT
1 CAAAAATTACATTT
22856065 TTAACCTCGA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
27 1 0.02
28 17 0.28
29 21 0.34
30 12 0.20
31 10 0.16
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.29
Consensus pattern (27 bp):
CAAAAATTACATTTGACCCCGAAACTT
Found at i:22856136 original size:58 final size:58
Alignment explanation
Indices: 22856022--22856390 Score: 478
Period size: 59 Copynumber: 6.3 Consensus size: 58
22856012 CCCGAAACTT
* *
22856022 CAAAAATTACCATTTTACCCCAGAACCTT-CTAAAATTCCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCC-GAA-CTTCCCAAAATTCCATTTTTAACCCCGATTTCAC
*
22856081 CAAAAATTACCATTTTACCCCGAACTTCCCAAAATTCCATTTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTACCCCGAACTTCCCAAAATTCCATTTTTAACCCCGATTTCAC
*
22856139 CAAAAATTACCATTTTACCTCC-AAGCTTCCCAAAATTCCATTTTTAACTCCGATTTCAC
1 CAAAAATTACCATTTTACC-CCGAA-CTTCCCAAAATTCCATTTTTAACCCCGATTTCAC
* *
22856198 CAAAAATTACCATTTTACCCCCGAAATTTCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTA-CCCCGAACTTCCCAAAATTCCATTTTTAACCCCGATTTCAC
* ** * *
22856257 CAAAAATTACCATTTTACCCCAAACTT-TAAAAATACCATTTTTAATCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCGAACTTCCCAAAATTCCATTTTTAACCCCGATTTCAC
* * * ** *
22856314 CAAAAATTACCGTTTTACCCCTGAAC-TCTCAAAAATTCCATTTTTAATCTTGACTTCAC
1 CAAAAATTACCATTTTACCCC-GAACTTC-CCAAAATTCCATTTTTAACCCCGATTTCAC
*
22856373 C-AAAATTACTATTTTACC
1 CAAAAATTACCATTTTACC
22856391 TCCGGTTATC
Statistics
Matches: 279, Mismatches: 23, Indels: 17
0.87 0.07 0.05
Matches are distributed among these distances:
57 50 0.18
58 77 0.28
59 148 0.53
60 4 0.01
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCGAACTTCCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:22856358 original size:29 final size:30
Alignment explanation
Indices: 22855997--22856359 Score: 157
Period size: 29 Copynumber: 12.5 Consensus size: 30
22855987 ATTTCAGAAG
* *
22855997 AAATTA-CATTCTGACCCCGAAACT--TCAA
1 AAATTACCATTTTTACCCCG-AACTCATCAA
* *
22856025 AAATTACCA-TTTTACCCCAGAAC-CTTCTA
1 AAATTACCATTTTTACCCC-GAACTCATCAA
* ** *
22856054 AAATT-CCATTTTTAACCTCGATTTCACCAA
1 AAATTACCATTTTT-ACCCCGAACTCATCAA
*
22856084 AAATTACCA-TTTTACCCCGAACT--TCCCA
1 AAATTACCATTTTTACCCCGAACTCAT-CAA
* *
22856112 AAATT-CCATTTTTAACCCC-AATTTCACCAA
1 AAATTACCATTTTT-ACCCCGAA-CTCATCAA
*
22856142 AAATTACCA-TTTTACCTCC-AAGCT--TCCCA
1 AAATTACCATTTTTACC-CCGAA-CTCAT-CAA
* ** *
22856171 AAATT-CCATTTTTAACTCCGATTTCACCAA
1 AAATTACCATTTTT-ACCCCGAACTCATCAA
* * *
22856201 AAATTACCA-TTTTACCCCCGAAAT-TTCCA
1 AAATTACCATTTTTA-CCCCGAACTCATCAA
** *
22856230 AAATT-CCATTTTTAACCCCGATTTCACCAA
1 AAATTACCATTTTT-ACCCCGAACTCATCAA
* *
22856260 AAATTACCA-TTTTACCCCAAACT--TTAA
1 AAATTACCATTTTTACCCCGAACTCATCAA
* ** *
22856287 AAA-TACCATTTTTAATCCCGATTTCACCAA
1 AAATTACCATTTTT-ACCCCGAACTCATCAA
*
22856317 AAATTACC-GTTTTACCCCTGAACTC-TCAA
1 AAATTACCATTTTTACCCC-GAACTCATCAA
22856346 AAATT-CCATTTTTA
1 AAATTACCATTTTTA
22856360 ATCTTGACTT
Statistics
Matches: 246, Mismatches: 54, Indels: 69
0.67 0.15 0.19
Matches are distributed among these distances:
26 5 0.02
27 12 0.05
28 46 0.19
29 90 0.37
30 77 0.31
31 16 0.07
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (30 bp):
AAATTACCATTTTTACCCCGAACTCATCAA
Found at i:22861962 original size:33 final size:33
Alignment explanation
Indices: 22861916--22861988 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 33
22861906 CTATTTACTT
* ** *
22861916 AAAATAA-ATAATTTTAGTCAAAATGAAATTAGG
1 AAAATAACATAA-TTTAATCAAAACAAAATTAAG
*
22861949 AAAATAACA-AATTTAATCAAAACAAAATTAAT
1 AAAATAACATAATTTAATCAAAACAAAATTAAG
22861981 AAAATAAC
1 AAAATAAC
22861989 CAACTTTGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 24 0.71
33 9 0.26
34 1 0.03
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (33 bp):
AAAATAACATAATTTAATCAAAACAAAATTAAG
Found at i:22876938 original size:16 final size:16
Alignment explanation
Indices: 22876919--22876970 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
22876909 TGGACCTAAT
22876919 TTTAAATTTTAAATTA
1 TTTAAATTTTAAATTA
* *
22876935 TTTAAATTTGAATTTA
1 TTTAAATTTTAAATTA
22876951 CTTTAAA-TTTAAACTTA
1 -TTTAAATTTTAAA-TTA
22876968 TTT
1 TTT
22876971 GAGATTGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTAAATTTTAAATTA
Found at i:22876956 original size:33 final size:33
Alignment explanation
Indices: 22876919--22876989 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
22876909 TGGACCTAAT
22876919 TTTAAATTTTAAA-TTATTT-AAATTTGAATTTAC
1 TTTAAA-TTTAAACTTATTTGAAA-TTGAATTTAC
* *
22876952 TTTAAATTTAAACTTATTTGAGATTGAATTTAT
1 TTTAAATTTAAACTTATTTGAAATTGAATTTAC
22876985 TTTAA
1 TTTAA
22876990 TTAAATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 6 0.18
33 26 0.76
34 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (33 bp):
TTTAAATTTAAACTTATTTGAAATTGAATTTAC
Found at i:22877672 original size:13 final size:13
Alignment explanation
Indices: 22877654--22877700 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
22877644 ATTTATTGTA
22877654 TATTAAATATAAT
1 TATTAAATATAAT
22877667 TATTAAATAT-AT
1 TATTAAATATAAT
*
22877679 TA-AAAATATTAAT
1 TATTAAATA-TAAT
*
22877692 TAATAAATA
1 TATTAAATA
22877701 AATAAAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 14 0.48
14 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTAAATATAAT
Found at i:22877677 original size:22 final size:24
Alignment explanation
Indices: 22877652--22877700 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
22877642 GCATTTATTG
*
22877652 TATATT-AAATA-TAATTATTAAA
1 TATATTAAAATATTAATTAATAAA
22877674 TATATTAAAAATATTAATTAATAAA
1 TATATT-AAAATATTAATTAATAAA
22877699 TA
1 TA
22877701 AATAAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
24 5 0.22
25 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TATATTAAAATATTAATTAATAAA
Found at i:22878942 original size:29 final size:29
Alignment explanation
Indices: 22878836--22879134 Score: 246
Period size: 29 Copynumber: 10.2 Consensus size: 29
22878826 CCCTGAATTG
* * *
22878836 TCCAAAAATCACATTTTGACCC-CTAAAGTT
1 TCCAAAAATTACATTTTTACCCTC-AAA-CT
* *
22878866 TCTAAAAATTACATTTTGACCCTCAAACT
1 TCCAAAAATTACATTTTTACCCTCAAACT
* * **
22878895 CCTCAATAATTACATTTTTTTCCTCAAACT
1 TC-CAAAAATTACATTTTTACCCTCAAACT
*
22878925 TCCAAAAATTACATTTTTACCCTCGAACT
1 TCCAAAAATTACATTTTTACCCTCAAACT
* *
22878954 TCCAAAAATCACATTTTTACCC-CATACT
1 TCCAAAAATTACATTTTTACCCTCAAACT
* * **
22878982 TCCAAAAATCACATTTTTATCCTCGTACT
1 TCCAAAAATTACATTTTTACCCTCAAACT
* *
22879011 TCCAAAAATCACATTTTTGCCCTCAAACT
1 TCCAAAAATTACATTTTTACCCTCAAACT
* *
22879040 TCTCAAAAATTACATTTGTACCCTTAAACT
1 TC-CAAAAATTACATTTTTACCCTCAAACT
** * * * * *
22879070 TATAAAAATCACCA-TTTTACCCCCGAGCA
1 TCCAAAAATTA-CATTTTTACCCTCAAACT
* * *
22879099 TCCAAAAGTTACCA-TTTTACCCCCAATCT
1 TCCAAAAATTA-CATTTTTACCCTCAAACT
22879128 TCCAAAA
1 TCCAAAA
22879135 GTTCAACTTC
Statistics
Matches: 221, Mismatches: 43, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
28 25 0.11
29 123 0.56
30 72 0.33
31 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.33
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTACCCTCAAACT
Found at i:22879012 original size:86 final size:89
Alignment explanation
Indices: 22878836--22879087 Score: 273
Period size: 86 Copynumber: 2.9 Consensus size: 89
22878826 CCCTGAATTG
* * *
22878836 TCCAAAAATCACATTTTGACCC-CTAAAGTT-TCTAAAAATTACATTTTGACCCTCAAACTCCTC
1 TCCAAAAATCACATTTTTACCCTC-AAACTTCTC-AAAAATTACATTTTTACCCTCAAACTCCTC
* * *
22878899 AATAATTACATTTTTTTCCTCAAACT
64 AAAAATCACATTTTTATCCTCAAACT
* * * * *
22878925 TCCAAAAATTACATTTTTACCCTCGAACTTC-CAAAAATCACATTTTTACCC-CATACTTC-CAA
1 TCCAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTCCTCAA
**
22878987 AAATCACATTTTTATCCTCGTACT
66 AAATCACATTTTTATCCTCAAACT
* * * **
22879011 TCCAAAAATCACATTTTTGCCCTCAAACTTCTCAAAAATTACATTTGTACCCTTAAACTTAT-AA
1 TCCAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTCCTCAA
22879075 AAATCACCATTTT
66 AAATCA-CATTTT
22879088 ACCCCCGAGC
Statistics
Matches: 136, Mismatches: 21, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
86 50 0.37
87 24 0.18
88 30 0.22
89 31 0.23
90 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (89 bp):
TCCAAAAATCACATTTTTACCCTCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTCCTCAA
AAATCACATTTTTATCCTCAAACT
Found at i:22879078 original size:59 final size:57
Alignment explanation
Indices: 22878836--22879134 Score: 260
Period size: 59 Copynumber: 5.1 Consensus size: 57
22878826 CCCTGAATTG
* * *
22878836 TCCAAAAATCACA-TTTTGACCCCTAAAGTTTCTAAAAATTACATTTTGACCCTCAAACT
1 TCCAAAAATCACATTTTTG-CCCC-AAA-CTTCCAAAAATTACATTTTTACCCTCAAACT
* * * * * *
22878895 CCTCAATAATTACATTTTTTTCCTCAAACTTCCAAAAATTACATTTTTACCCTCGAACT
1 TC-CAAAAATCACA-TTTTTGCCCCAAACTTCCAAAAATTACATTTTTACCCTCAAACT
* * * * **
22878954 TCCAAAAATCACATTTTTACCCCATACTTCCAAAAATCACATTTTTATCCTCGTACT
1 TCCAAAAATCACATTTTTGCCCCAAACTTCCAAAAATTACATTTTTACCCTCAAACT
* *
22879011 TCCAAAAATCACATTTTTGCCCTCAAACTTCTCAAAAATTACATTTGTACCCTTAAACT
1 TCCAAAAATCACATTTTTGCCC-CAAACTTC-CAAAAATTACATTTTTACCCTCAAACT
** ** * * * * * *
22879070 TATAAAAATCACCATTTTACCCCCGAGCATCCAAAAGTTACCA-TTTTACCCCCAATCT
1 TCCAAAAATCA-CATTTTTGCCCCAAACTTCCAAAAATTA-CATTTTTACCCTCAAACT
22879128 TCCAAAA
1 TCCAAAA
22879135 GTTCAACTTC
Statistics
Matches: 193, Mismatches: 40, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
57 59 0.31
58 40 0.21
59 66 0.34
60 21 0.11
61 3 0.02
62 4 0.02
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.33
Consensus pattern (57 bp):
TCCAAAAATCACATTTTTGCCCCAAACTTCCAAAAATTACATTTTTACCCTCAAACT
Found at i:22879117 original size:145 final size:146
Alignment explanation
Indices: 22878869--22879134 Score: 326
Period size: 145 Copynumber: 1.8 Consensus size: 146
22878859 TAAAGTTTCT
* * * ** *
22878869 AAAAATTACATTTTGACCCTCAAACTCCTCAATAATTACATTTTTTTCCTCAAACTTCCAAAAAT
1 AAAAATCACATTTTGACCCTCAAACTCCTCAAAAATTACATTTGTACCCTCAAACTTACAAAAAT
* * *
22878934 TACATTTTTACCCTCGAACTTCCAAAAATCACATTTTTA-CCCC-ATACTTCCAAAAATCACATT
66 CACATTTTTACCCCCGAACATCCAAAAATCACATTTTTACCCCCAAT-CTTCCAAAAATCACATT
22878997 TTTATCCTCGTACTTCC
130 TTTATCCTCGTACTTCC
* * *
22879014 AAAAATCACATTTTTG-CCCTCAAACTTCTCAAAAATTACATTTGTACCCTTAAACTTATAAAAA
1 AAAAATCACA-TTTTGACCCTCAAACTCCTCAAAAATTACATTTGTACCCTCAAACTTACAAAAA
* * *
22879078 TCACCA-TTTTACCCCCGAGCATCCAAAAGTTACCA-TTTTACCCCCAATCTTCCAAAA
65 TCA-CATTTTTACCCCCGAACATCCAAAAATCA-CATTTTTACCCCCAATCTTCCAAAA
22879135 GTTCAACTTC
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
145 77 0.76
146 22 0.22
147 2 0.02
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (146 bp):
AAAAATCACATTTTGACCCTCAAACTCCTCAAAAATTACATTTGTACCCTCAAACTTACAAAAAT
CACATTTTTACCCCCGAACATCCAAAAATCACATTTTTACCCCCAATCTTCCAAAAATCACATTT
TTATCCTCGTACTTCC
Found at i:22882276 original size:146 final size:145
Alignment explanation
Indices: 22881957--22882276 Score: 391
Period size: 147 Copynumber: 2.2 Consensus size: 145
22881947 AATAGGACCT
* * *
22881957 TTGGATACCCA-GGGGCAAAATAGTAATTTTGGACTTTCGGGAAAAAATGGTAATTTTGGGAAAA
1 TTGGATA-CCAGGGGGTAAAATGGTAATTTTGGACTTTCAGGAAAAAATGGTAATTTTGGGAAAA
* **
22882021 TTTGGGGTTAAAAATGAAATTTTAGAAATTCGAGGATAAAACGATAATTTTTGAAAACATCAGGA
65 TTTGGGATTAAAAATGAAATTTTAGAAATTCGAGGATAAAACGATAATTTAAGAAAACATCAGGA
22882086 TCAAAAACGAGACTTC
130 TCAAAAACGAGACTTC
* *
22882102 TTGGATACCCGGGGGTAAAATGGTAATTTTGGA-TTTCTAAGGACAAAATGGTAATTTTGGGAAA
1 TTGGATACCAGGGGGTAAAATGGTAATTTTGGACTTTC--AGGAAAAAATGGTAATTTTGGG-AA
* * *
22882166 AATTTGGGATTAAAAATGATATTTTGGACAA-TCGAGGGA-AAAACGGTAACTTTAAGAAAA-AT
63 AATTTGGGATTAAAAATGAAATTTTAGA-AATTCGA-GGATAAAACGATAA-TTTAAGAAAACAT
* * * *
22882228 CGGGATCAAAAATGGGA-TTT
125 CAGGATCAAAAACGAGACTTC
*
22882248 TTGGATATCAGGGGGTAAAATGGTAATTT
1 TTGGATACCAGGGGGTAAAATGGTAATTT
22882277 CAAGAATTAC
Statistics
Matches: 151, Mismatches: 17, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
144 6 0.04
145 27 0.18
146 49 0.32
147 56 0.37
148 13 0.09
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (145 bp):
TTGGATACCAGGGGGTAAAATGGTAATTTTGGACTTTCAGGAAAAAATGGTAATTTTGGGAAAAT
TTGGGATTAAAAATGAAATTTTAGAAATTCGAGGATAAAACGATAATTTAAGAAAACATCAGGAT
CAAAAACGAGACTTC
Found at i:22882338 original size:29 final size:29
Alignment explanation
Indices: 22882306--22882789 Score: 322
Period size: 29 Copynumber: 16.5 Consensus size: 29
22882296 AATAAAAAAA
* *
22882306 TTTGAAAGTTAAGGGGCAAAAATGTAATT
1 TTTGGAAGTTTAGGGGCAAAAATGTAATT
* *
22882335 TTTGGAAGTTTCA-GGTCAAAAATGGAATT
1 TTTGGAAGTTT-AGGGGCAAAAATGTAATT
* * * ** **
22882364 TTTAGAAGTTCAAGGATAAAAACATAATT
1 TTTGGAAGTTTAGGGGCAAAAATGTAATT
* * *
22882393 TTGGGAAGTTTCAGGGTCAAAAAAAG-AATT
1 TTTGGAAGTTT-AGGGGC-AAAAATGTAATT
* * *
22882423 TTTGAAAG-TTCGAGGGTAAAAATGTAATT
1 TTTGGAAGTTTAG-GGGCAAAAATGTAATT
* * *
22882452 TATGGAAGTTTTAGGGTC-AAAATGT-TTT
1 TTTGGAAG-TTTAGGGGCAAAAATGTAATT
* * *
22882480 TTTGGGAAGTTTCGAGGTCAAAAATAG-AATC
1 TTT-GGAAGTTTAG-GGGCAAAAAT-GTAATT
** *
22882511 TTTGGAAGTTCGGGGGCAATAATGTAA-T
1 TTTGGAAGTTTAGGGGCAAAAATGTAATT
* *
22882539 TTTGGAAGTTTTGGGGTCAAAAATGGAATT
1 TTTGGAAGTTTAGGGG-CAAAAATGTAATT
* ** * *
22882569 TTTGGAAGATCGGGGGTAAAAATG-CATT
1 TTTGGAAGTTTAGGGGCAAAAATGTAATT
* *
22882597 TTTGGGAAGTTTCAAGGGTAAAAATGTAATT
1 TTT-GGAAGTTT-AGGGGCAAAAATGTAATT
*
22882628 TTTGGAAGTTTTGGGGCAAAAATGTAATT
1 TTTGGAAGTTTAGGGGCAAAAATGTAATT
*
22882657 TTTGGAAGTTTTGGGGCAAAAATGTAATT
1 TTTGGAAGTTTAGGGGCAAAAATGTAATT
* *
22882686 TTTGAAAGTTTAAGGGCAAAAATGTAATT
1 TTTGGAAGTTTAGGGGCAAAAATGTAATT
* * ** *
22882715 TTCGAAAGTTTTA-GGGTTAAAATGCAATT
1 TTTGGAAG-TTTAGGGGCAAAAATGTAATT
* * * **
22882744 TTGGAGAAGTTTCAGTGTC-AAAATACAATT
1 TTTG-GAAGTTT-AGGGGCAAAAATGTAATT
22882774 TTTGGATAGTTTAGGG
1 TTTGGA-AGTTTAGGG
22882790 ACCCTCAGAG
Statistics
Matches: 359, Mismatches: 72, Indels: 48
0.75 0.15 0.10
Matches are distributed among these distances:
28 37 0.10
29 214 0.60
30 88 0.25
31 20 0.06
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.34
Consensus pattern (29 bp):
TTTGGAAGTTTAGGGGCAAAAATGTAATT
Found at i:22882414 original size:88 final size:88
Alignment explanation
Indices: 22882317--22882785 Score: 359
Period size: 88 Copynumber: 5.3 Consensus size: 88
22882307 TTGAAAGTTA
* * * ** *
22882317 AGGGGCAAAAATGTAATTTTTGGAAGTTTC-AGGTCAAAAATGGAATTTTTAGAAGTTCAAGGAT
1 AGGGTCAAAAATG-AATTTTTGGAAGTTTCGAGGTCAAAAATGTAATTTTTGGAAGTTTTAGGGT
*
22882381 AAAAACATAATTTTGGGAAGTTTC
65 AAAAATATAATTTTGGGAAGTTTC
* * *
22882405 AGGGTCAAAAAAAGAATTTTTGAAAG-TTCGAGGGT-AAAAATGTAATTTATGGAAGTTTTAGGG
1 AGGGTC-AAAAATGAATTTTTGGAAGTTTCGA-GGTCAAAAATGTAATTTTTGGAAGTTTTAGGG
* * **
22882468 TCAAAATGTTTTTTTGGGAAGTTTC
64 TAAAAATATAATTTTGGGAAGTTTC
* * * * *
22882493 -GAGGTCAAAAATAGAATCTTTGGAAG-TTCGGGGGCAATAATGTAA-TTTTGGAAGTTTTGGGG
1 AG-GGTCAAAAAT-GAATTTTTGGAAGTTTCGAGGTCAAAAATGTAATTTTTGGAAGTTTTAGGG
** * *
22882555 TCAAAAATGGAATTTTTGGAAG-ATC
64 T-AAAAATATAATTTTGGGAAGTTTC
* * * *
22882580 GGGGGT-AAAAATGCATTTTTGGGAAGTTTCAAGGGT-AAAAATGTAATTTTTGGAAGTTTTGGG
1 -AGGGTCAAAAATGAATTTTT-GGAAGTTTCGA-GGTCAAAAATGTAATTTTTGGAAGTTTTAGG
* * *
22882643 GCAAAAATGTAATTTTTGGAAGTTT-
63 GTAAAAATATAATTTTGGGAAGTTTC
* * * * * * *
22882668 TGGGGCAAAAATGTAATTTTTGAAAGTTT-AAGGGCAAAAATGTAATTTTCGAAAGTTTTAGGGT
1 AGGGTCAAAAATG-AATTTTTGGAAGTTTCGAGGTCAAAAATGTAATTTTTGGAAGTTTTAGGGT
* **
22882732 TAAAATGCAATTTTGGAGAAGTTTC
65 AAAAATATAATTTTGG-GAAGTTTC
* *
22882757 AGTGTC-AAAATACAATTTTTGGATAGTTT
1 AGGGTCAAAAAT-GAATTTTTGGA-AGTTT
22882786 AGGGACCCTC
Statistics
Matches: 306, Mismatches: 54, Indels: 41
0.76 0.13 0.10
Matches are distributed among these distances:
86 8 0.03
87 83 0.27
88 171 0.56
89 44 0.14
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (88 bp):
AGGGTCAAAAATGAATTTTTGGAAGTTTCGAGGTCAAAAATGTAATTTTTGGAAGTTTTAGGGTA
AAAATATAATTTTGGGAAGTTTC
Found at i:22882724 original size:117 final size:117
Alignment explanation
Indices: 22882318--22882755 Score: 383
Period size: 117 Copynumber: 3.7 Consensus size: 117
22882308 TGAAAGTTAA
* * * * *
22882318 GGGGCAAAAATGTAATTTTTGGAAGTTTCAGGTCAAAAATGGAATTTT-TAGAAG-TTCAAGGAT
1 GGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGCAAAAATGTAATTTTGGA-AAGTTTCAAGGGT
** * * * *
22882381 AAAAACATAATTTTGGGAAGTTTCAGGGTCAAAAAAAG-AATTTTTGAAAG-TTC
65 AAAAATGTAATTTTGGGAAGTTT-AGGGGC-AAAAATGTAATTTTTGGAAGTTTT
* * * ** * *
22882434 GAGGGTAAAAATGTAATTTATGGAAGTTTTAGGGTC-AAAATGTTTTTTTGGGAAGTTTCGA-GG
1 G-GGGCAAAAATGTAATTTTTGGAAGTTTAAGGG-CAAAAATGTAATTTTGGAAAGTTTCAAGGG
** *
22882497 TCAAAAATAG-AATCTTT-GGAAGTTCGGGGGCAATAATGTAA-TTTTGGAAGTTTT
64 T-AAAAAT-GTAAT-TTTGGGAAGTTTAGGGGCAAAAATGTAATTTTTGGAAGTTTT
* * *** * * * *
22882551 GGGGTCAAAAATGGAATTTTTGGAAGATCGGGGGTAAAAATGCATTTTTGGGAAGTTTCAAGGGT
1 GGGG-CAAAAATGTAATTTTTGGAAGTTTAAGGGCAAAAATGTAATTTTGGAAAGTTTCAAGGGT
* *
22882616 AAAAATGTAATTTTTGGAAGTTTTGGGGCAAAAATGTAATTTTTGGAAGTTTT
65 AAAAATGTAATTTTGGGAAGTTTAGGGGCAAAAATGTAATTTTTGGAAGTTTT
* * * *
22882669 GGGGCAAAAATGTAATTTTTGAAAGTTTAAGGGCAAAAATGTAATTTTCGAAAGTTT-TAGGGTT
1 GGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGCAAAAATGTAATTTTGGAAAGTTTCAAGGGTA
*
22882733 AAAATGCAATTTTGGAGAAGTTT
66 AAAATGTAATTTTGG-GAAGTTT
22882756 CAGTGTCAAA
Statistics
Matches: 257, Mismatches: 49, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
116 39 0.15
117 175 0.68
118 40 0.16
119 3 0.01
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (117 bp):
GGGGCAAAAATGTAATTTTTGGAAGTTTAAGGGCAAAAATGTAATTTTGGAAAGTTTCAAGGGTA
AAAATGTAATTTTGGGAAGTTTAGGGGCAAAAATGTAATTTTTGGAAGTTTT
Found at i:22883839 original size:15 final size:16
Alignment explanation
Indices: 22883813--22883846 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
22883803 TTATTAAATG
22883813 ATATTCATTATTACTA
1 ATATTCATTATTACTA
*
22883829 ATATT-ATTATTATTA
1 ATATTCATTATTACTA
22883844 ATA
1 ATA
22883847 ACATCAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTCATTATTACTA
Found at i:22884257 original size:17 final size:17
Alignment explanation
Indices: 22884235--22884271 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
22884225 TTCAAATATC
*
22884235 TTTTTTTTT-GTACTAG
1 TTTTTTTTTAGAACTAG
22884251 TTTTTTTTTAGAACTAG
1 TTTTTTTTTAGAACTAG
22884268 TTTT
1 TTTT
22884272 GTATATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (17 bp):
TTTTTTTTTAGAACTAG
Found at i:22890358 original size:14 final size:14
Alignment explanation
Indices: 22890335--22890371 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
22890325 TACAATATCC
*
22890335 AAATAATAACAACA
1 AAATAGTAACAACA
22890349 AAATAGTAACAACA
1 AAATAGTAACAACA
*
22890363 TAATAGTAA
1 AAATAGTAA
22890372 AATTTTAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:22897291 original size:22 final size:22
Alignment explanation
Indices: 22897266--22897307 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
22897256 AAGAACCATG
22897266 TTTTGTTT-TCTTCTTTTTCTCC
1 TTTT-TTTCTCTTCTTTTTCTCC
*
22897288 TTTTTTTCTCTTTTTTTTCT
1 TTTTTTTCTCTTCTTTTTCT
22897308 TTTCGAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTTTCTCTTCTTTTTCTCC
Found at i:22906746 original size:231 final size:233
Alignment explanation
Indices: 22906343--22906798 Score: 898
Period size: 231 Copynumber: 2.0 Consensus size: 233
22906333 ACCCAACGAA
22906343 ACTAAAGAACCCCAACTCTCTGCAATTCTCTTAAATGTGATATAATCCCACATGTGAATGGGTAC
1 ACTAAAGAACCCCAACTCTCTGCAATTCTCTTAAATGTGATATAATCCCACATGTGAATGGGTAC
22906408 TCCAAGTACCTCAACCCAAGTGATTCTGTTTGAAGCACAAAAGAACTTGGACCACGGAATGCTCT
66 TCCAAGTACCTCAACCCAAGTGATTCTGTTTGAAGCACAAAAGAACTTGGACCACGGAATGCTCT
22906473 CCACAAGGATTTCAAGTAAGCAAGACCGCTCTAGTTCAACCAATCTCTTTCTCTCTCCATTCCTC
131 CCACAAGGATTTCAAGTAAGCAAGACCGCTCTAGTTCAACCAATCTCTTTCTCTCTCCATTCCTC
22906538 ATCTT-AAAATACAAC-AAAATTGGTTTCCCCAACTCT
196 ATCTTAAAAATACAACAAAAATTGGTTTCCCCAACTCT
22906574 ACTAAAGAACCCCAACTCTCTGCAATTCTCTTAAATGTGATATAATCCCACATGTGAATGGGTAC
1 ACTAAAGAACCCCAACTCTCTGCAATTCTCTTAAATGTGATATAATCCCACATGTGAATGGGTAC
22906639 TCCAAGTACCTCAACCCAAGTGATTCTGTTTGAAGCACAAAAGAACTTGGACCACGGAATGCTCT
66 TCCAAGTACCTCAACCCAAGTGATTCTGTTTGAAGCACAAAAGAACTTGGACCACGGAATGCTCT
22906704 CCACAAGGATTTCAAGTAAGCAAGACCGCTCTAGTTCAACCAATCTCTTTCTCTCTCCATTCCTC
131 CCACAAGGATTTCAAGTAAGCAAGACCGCTCTAGTTCAACCAATCTCTTTCTCTCTCCATTCCTC
22906769 ATCTTAAAAATACAACAAAAATTGGTTTCC
196 ATCTTAAAAATACAACAAAAATTGGTTTCC
22906799 TGAAAGTCTT
Statistics
Matches: 223, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
231 200 0.90
232 10 0.04
233 13 0.06
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (233 bp):
ACTAAAGAACCCCAACTCTCTGCAATTCTCTTAAATGTGATATAATCCCACATGTGAATGGGTAC
TCCAAGTACCTCAACCCAAGTGATTCTGTTTGAAGCACAAAAGAACTTGGACCACGGAATGCTCT
CCACAAGGATTTCAAGTAAGCAAGACCGCTCTAGTTCAACCAATCTCTTTCTCTCTCCATTCCTC
ATCTTAAAAATACAACAAAAATTGGTTTCCCCAACTCT
Found at i:22923795 original size:27 final size:26
Alignment explanation
Indices: 22923722--22923795 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
22923712 AGCAAAACAT
**
22923722 AATAAATAAATAAGTAAACAATATAAA
1 AATAAATAAATAA-TAATGAATATAAA
* *
22923749 AAT-AATAAATAAAAATTGAATATTAA
1 AATAAATAAATAATAA-TGAATATAAA
22923775 AATAAATAAAATAATAATGAA
1 AATAAAT-AAATAATAATGAA
22923796 AACAATGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 19 0.49
27 10 0.26
28 8 0.21
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (26 bp):
AATAAATAAATAATAATGAATATAAA
Found at i:22930283 original size:21 final size:21
Alignment explanation
Indices: 22930254--22930303 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
22930244 CTACAACTTA
* *
22930254 AAGCGGAGGTAGCAGTGAGGC
1 AAGCAGAGGCAGCAGTGAGGC
22930275 AAGCAGAGGCAGCAGTGAGGC
1 AAGCAGAGGCAGCAGTGAGGC
22930296 AAG-AGAGG
1 AAGCAGAGG
22930304 GAAGCAGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.34, C:0.14, G:0.46, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGTGAGGC
Found at i:22930309 original size:21 final size:21
Alignment explanation
Indices: 22930254--22930310 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
22930244 CTACAACTTA
* *
22930254 AAGCGGAGGTAGCAGTGAGGC
1 AAGCAGAGGAAGCAGTGAGGC
*
22930275 AAGCAGAGGCAGCAGTGAGGC
1 AAGCAGAGGAAGCAGTGAGGC
22930296 AAG-AGAGGGAAGCAG
1 AAGCAGA-GGAAGCAG
22930311 AGGCTACAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 3 0.09
21 29 0.91
ACGTcount: A:0.35, C:0.14, G:0.46, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGAAGCAGTGAGGC
Found at i:22930640 original size:43 final size:43
Alignment explanation
Indices: 22930593--22930773 Score: 200
Period size: 43 Copynumber: 4.2 Consensus size: 43
22930583 AATTTGTTAG
* * * * *
22930593 TTTAGCGGCGTTTTTGATAAAAGCGCTGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGGTC
* * * * * *
22930636 TTTAGTGGCGTTTGTGGGGAAAGCGCCACTAAAAAACTTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGGTC
* * *
22930679 TTTAGTGGCGTTTGTGGGAAAAGCACCGCTAAAGAACATGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGGTC
* * *
22930722 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGGTC
*
22930765 TATAGCGGC
1 TTTAGCGGC
22930774 ATTTTTTCAC
Statistics
Matches: 115, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 115 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGGTC
Found at i:22937603 original size:21 final size:22
Alignment explanation
Indices: 22937577--22937627 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 22
22937567 TATACTCTAG
22937577 ATTCTA-GCTCGCAAGAGCGAT
1 ATTCTATGCTCGCAAGAGCGAT
22937598 ATTCTATTTGGCTCGCAAGAGCGAT
1 ATTCTA--T-GCTCGCAAGAGCGAT
22937623 ATTCT
1 ATTCT
22937628 GTGTGGCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.23
25 20 0.77
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (22 bp):
ATTCTATGCTCGCAAGAGCGAT
Found at i:22937611 original size:25 final size:25
Alignment explanation
Indices: 22937583--22937654 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
22937573 CTAGATTCTA
*
22937583 GCTCGCAAGAGCGATATTCTATTTG
1 GCTCGCAAGAGCGATATTCTATGTG
*
22937608 GCTCGCAAGAGCGATATTCTGTGTG
1 GCTCGCAAGAGCGATATTCTATGTG
** * *
22937633 GCTCTTAAGAGTGTTATTCTAT
1 GCTCGCAAGAGCGATATTCTAT
22937655 CTAGCTCATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (25 bp):
GCTCGCAAGAGCGATATTCTATGTG
Found at i:22940842 original size:11 final size:11
Alignment explanation
Indices: 22940826--22940850 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22940816 CAGTTACTCC
22940826 TTGTTGTGAAT
1 TTGTTGTGAAT
22940837 TTGTTGTGAAT
1 TTGTTGTGAAT
22940848 TTG
1 TTG
22940851 AAATGGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (11 bp):
TTGTTGTGAAT
Found at i:22943549 original size:78 final size:78
Alignment explanation
Indices: 22943408--22943636 Score: 219
Period size: 78 Copynumber: 2.9 Consensus size: 78
22943398 GCATAGCTAC
* * * * * **
22943408 GCAGTGTTTACAGTGTCACTGCCAGCTC-AGTACATTATCACAATGTTTATAGCATCACCGTCAG
1 GCAGTGTTTACAGTGTCACTGCTAGCTCGA-TACAATATTACAGTGTTTACAGTGTCACCGTCAG
*
22943472 TTCAATGTTGGTTT
65 TTCAATATTGGTTT
* * * * *
22943486 GCAGTGTTTACCGTGTCACCGCTAGCTCGATACACTATTACAGTATTTACAGTGTCACTGTCAGT
1 GCAGTGTTTACAGTGTCACTGCTAGCTCGATACAATATTACAGTGTTTACAGTGTCACCGTCAGT
**
22943551 TCGGTATTGGTTT
66 TCAATATTGGTTT
* * * * * * *
22943564 GCAGTGCTTATAGTGTCACTACTGGTTCGATACAATAGTAC-GATGTTTACAATGTCACCGTCAG
1 GCAGTGTTTACAGTGTCACTGCTAGCTCGATACAATATTACAG-TGTTTACAGTGTCACCGTCAG
*
22943628 TTCAGTATT
65 TTCAATATT
22943637 ACACTTCAAA
Statistics
Matches: 122, Mismatches: 27, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
77 1 0.01
78 120 0.98
79 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (78 bp):
GCAGTGTTTACAGTGTCACTGCTAGCTCGATACAATATTACAGTGTTTACAGTGTCACCGTCAGT
TCAATATTGGTTT
Found at i:22947950 original size:23 final size:23
Alignment explanation
Indices: 22947880--22948073 Score: 180
Period size: 23 Copynumber: 8.3 Consensus size: 23
22947870 ACGGAACAAG
* *
22947880 CAGAGAGTAC-CAAAGTACT-AA
1 CAGAGAGCACACAAAGTGCTAAA
* *
22947901 CAGAGAGCACA-TAAGTGCTGGGCAA
1 CAGAGAGCACACAAAGTGCT---AAA
*
22947926 CAGAGAGCACACACAGTGCTAAA
1 CAGAGAGCACACAAAGTGCTAAA
* * *
22947949 CAGAGAGTACACAAAGTACTAAT
1 CAGAGAGCACACAAAGTGCTAAA
* *
22947972 CGGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAA
*
22947995 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACAAAGTGCTAAA
*
22948018 CAGAGAGCACACACAGTGCTAATAA
1 CAGAGAGCACACAAAGTGCT-A-AA
* *
22948043 CAGAGAGCACGA-GACGTGCTAAA
1 CAGAGAGCAC-ACAAAGTGCTAAA
22948066 CAGAGAGC
1 CAGAGAGC
22948074 GCGCTAGTGT
Statistics
Matches: 145, Mismatches: 19, Indels: 16
0.81 0.11 0.09
Matches are distributed among these distances:
21 15 0.10
23 92 0.63
24 2 0.01
25 29 0.20
26 7 0.05
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (23 bp):
CAGAGAGCACACAAAGTGCTAAA
Found at i:22947999 original size:69 final size:68
Alignment explanation
Indices: 22947880--22948073 Score: 205
Period size: 69 Copynumber: 2.8 Consensus size: 68
22947870 ACGGAACAAG
* *
22947880 CAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACACAGT
1 CAGAGAGTACACAAAGTACTAATCAGAGAGCACAAAAGTGCT--G-AACAGAGAGCACACAAAGT
22947943 GCTAAA
63 GCTAAA
*
22947949 CAGAGAGTACACAAAGTACTAATCGGAGAGCACACAAAGTGCT-AATCAGAGAGCACACAAAGTG
1 CAGAGAGTACACAAAGTACTAATCAGAGAGCACA-AAAGTGCTGAA-CAGAGAGCACACAAAGTG
*
22948013 CTAAT
64 CTAAA
* * * * * *
22948018 CAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGAGAGC
1 CAGAGAGTACACAAAGTACTAAT--CAGAGAGCAC-AAAAGTGCTGAACAGAGAGC
22948074 GCGCTAGTGT
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
68 2 0.02
69 51 0.48
70 11 0.10
71 33 0.31
72 10 0.09
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (68 bp):
CAGAGAGTACACAAAGTACTAATCAGAGAGCACAAAAGTGCTGAACAGAGAGCACACAAAGTGCT
AAA
Found at i:22951507 original size:78 final size:78
Alignment explanation
Indices: 22951406--22951590 Score: 183
Period size: 78 Copynumber: 2.4 Consensus size: 78
22951396 TAGCAATAGT
* * * *
22951406 AGTGTTTACGGTATCACCGTCAGTTCAG-CATAGCTACATAGTATTTACAGTGTCACTGCCAACT
1 AGTGTTTACAGTGTCACCATCAGTTCAGTCATAGCTACA-AGTATTTACAGTGTCACTACCAACT
22951470 CAATACAGTATCAC
65 CAATACAGTATCAC
* * * ** * ** * * * *
22951484 GGTGTTTATAGTGTCACCATCAGTACAGTGTTAGTTTGAAGTGTTTACATTGTCACTACTAGCTC
1 AGTGTTTACAGTGTCACCATCAGTTCAGTCATAGCTACAAGTATTTACAGTGTCACTACCAACTC
* *
22951549 GATACAGTATTAC
66 AATACAGTATCAC
*
22951562 AGTGTTTACAGTGTCACCATCAATTCAGT
1 AGTGTTTACAGTGTCACCATCAGTTCAGT
22951591 ATTGGTTTGC
Statistics
Matches: 84, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
78 79 0.94
79 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (78 bp):
AGTGTTTACAGTGTCACCATCAGTTCAGTCATAGCTACAAGTATTTACAGTGTCACTACCAACTC
AATACAGTATCAC
Found at i:22951599 original size:78 final size:77
Alignment explanation
Indices: 22951449--22951656 Score: 238
Period size: 78 Copynumber: 2.7 Consensus size: 77
22951439 CTACATAGTA
* * * * * * * *
22951449 TTTACAGTGTCACTGCCAACTCAATACAGTATCACGGTGTTTATAGTGTCACCATCAGTACAGTG
1 TTTACAGTGTCACTACTAGCTCGATACAGTATTAC-GTGTTTACAGTGTCACCATCAATACAGTA
22951514 TTAGTTTGAAGTG
65 TTAGTTTGAAGTG
* *
22951527 TTTACATTGTCACTACTAGCTCGATACAGTATTACAGTGTTTACAGTGTCACCATCAATTCAGTA
1 TTTACAGTGTCACTACTAGCTCGATACAGTATTAC-GTGTTTACAGTGTCACCATCAATACAGTA
* *
22951592 TTGGTTTGCAGTG
65 TTAGTTTGAAGTG
* * *
22951605 TTTACAGTGTCATTACTGGTTCGATACAGT-TGTACGATGTTTACAGTGTCAC
1 TTTACAGTGTCACTACTAGCTCGATACAGTAT-TACG-TGTTTACAGTGTCAC
22951657 GTCAGTTTAG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
77 2 0.02
78 109 0.98
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (77 bp):
TTTACAGTGTCACTACTAGCTCGATACAGTATTACGTGTTTACAGTGTCACCATCAATACAGTAT
TAGTTTGAAGTG
Found at i:22951981 original size:64 final size:63
Alignment explanation
Indices: 22951844--22952023 Score: 175
Period size: 64 Copynumber: 2.8 Consensus size: 63
22951834 CGTGTGTCTG
* * * *
22951844 GACCGTATAACTCACTATTTTTCATTTATAGGACACACGGCCTAGGCACACGCCCGTGTTCACA
1 GACCGTGTAACTCACTGTTTTT-ATTTATAGGACACACGGCCTAGACACACGCCCGTGTCCACA
*** * * * * * *
22951908 GATTATGTAACTCACTGTTTATTATTTGTAGTACACACGGCCTCGACACACGCCCTTGTCCTCC
1 GACCGTGTAACTCACTGTTT-TTATTTATAGGACACACGGCCTAGACACACGCCCGTGTCCACA
*
22951972 GACCGTGTAACTCATTGTTTGTTATTTATATGG-CACACGGTCC-AGACACACG
1 GACCGTGTAACTCACTGTTT-TTATTTATA-GGACACACGG-CCTAGACACACG
22952024 ATGGTGTGTC
Statistics
Matches: 92, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
64 87 0.95
65 5 0.05
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (63 bp):
GACCGTGTAACTCACTGTTTTTATTTATAGGACACACGGCCTAGACACACGCCCGTGTCCACA
Found at i:22954267 original size:11 final size:11
Alignment explanation
Indices: 22954251--22954275 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22954241 AAGTTACTCC
22954251 TTGTTGTGAAT
1 TTGTTGTGAAT
22954262 TTGTTGTGAAT
1 TTGTTGTGAAT
22954273 TTG
1 TTG
22954276 AAACGGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (11 bp):
TTGTTGTGAAT
Found at i:22958030 original size:29 final size:29
Alignment explanation
Indices: 22957961--22958122 Score: 102
Period size: 29 Copynumber: 5.5 Consensus size: 29
22957951 TCGAGGGCAG
* ** *
22957961 AAATGTAATTTTTGGAAAATTCGGGGTTAA
1 AAATGGAATTTTTGGAAGGTTCGGGG-TCA
*
22957991 AAATGGGA-TTTTGGAAGGTTCGGGAGT-A
1 AAATGGAATTTTTGGAAGGTTCGGG-GTCA
* *
22958019 AAATGGTAATTTTTGGTGAA--ATCGAGGTCAA
1 AAATGG-AATTTTT-G-GAAGGTTCGGGGTC-A
*
22958050 AAATGGAA-TTTTGGAAGGTTTGGGGGT-A
1 AAATGGAATTTTTGGAAGG-TTCGGGGTCA
* *
22958078 AAATGATAATTTTTGGAAGTTTCGGGGTCA
1 AAATG-GAATTTTTGGAAGGTTCGGGGTCA
**
22958108 AAATACAATTTTTGG
1 AAATGGAATTTTTGG
22958123 GAAGTTTAAG
Statistics
Matches: 104, Mismatches: 15, Indels: 27
0.71 0.10 0.18
Matches are distributed among these distances:
27 3 0.03
28 14 0.13
29 40 0.38
30 36 0.35
31 8 0.08
32 3 0.03
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (29 bp):
AAATGGAATTTTTGGAAGGTTCGGGGTCA
Found at i:22958031 original size:59 final size:59
Alignment explanation
Indices: 22957961--22958110 Score: 196
Period size: 59 Copynumber: 2.6 Consensus size: 59
22957951 TCGAGGGCAG
* *
22957961 AAAT-GTAATTTTTGGAAAATTCGGGGTTAAAAATGGGATTTTGGAAGGTTCGGGAGTA
1 AAATGGTAATTTTTGGAAAATTCGGGGTCAAAAATGGAATTTTGGAAGGTTCGGGAGTA
* * * *
22958019 AAATGGTAATTTTTGGTGAAA-TCGAGGTCAAAAATGGAATTTTGGAAGGTTTGGGGGTA
1 AAATGGTAATTTTTGG-AAAATTCGGGGTCAAAAATGGAATTTTGGAAGGTTCGGGAGTA
* **
22958078 AAATGATAATTTTTGGAAGTTTCGGGGTCAAAA
1 AAATGGTAATTTTTGGAAAATTCGGGGTCAAAA
22958111 TACAATTTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
58 5 0.06
59 70 0.90
60 3 0.04
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (59 bp):
AAATGGTAATTTTTGGAAAATTCGGGGTCAAAAATGGAATTTTGGAAGGTTCGGGAGTA
Found at i:22958094 original size:30 final size:29
Alignment explanation
Indices: 22958058--22958129 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
22958048 AAAAATGGAA
* *
22958058 TTTTGGAAGGTTTGGGGGT-AAAATGATAAT
1 TTTTGGAA-GTTTCGGGGTCAAAAT-ACAAT
22958088 TTTTGGAAGTTTCGGGGTCAAAATACAAT
1 TTTTGGAAGTTTCGGGGTCAAAATACAAT
22958117 TTTTGGGAAGTTT
1 TTTT-GGAAGTTT
22958130 AAGGACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.28, C:0.04, G:0.29, T:0.39
Consensus pattern (29 bp):
TTTTGGAAGTTTCGGGGTCAAAATACAAT
Found at i:22960039 original size:18 final size:18
Alignment explanation
Indices: 22960016--22960063 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
22960006 GTATTTGGAC
* *
22960016 ATTTAATTTTTATTTTAA
1 ATTTAAATTTTATATTAA
22960034 ATTTAAATTTTATATTAA
1 ATTTAAATTTTATATTAA
*
22960052 GTTTAAATTTTA
1 ATTTAAATTTTA
22960064 GAAAAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTAAATTTTATATTAA
Found at i:22960807 original size:200 final size:200
Alignment explanation
Indices: 22960450--22961564 Score: 1545
Period size: 200 Copynumber: 5.5 Consensus size: 200
22960440 CTTTGACTTT
* * * * * * *
22960450 GACCTGCTTCTCAATGTCTCATTAGGAAGCTGGGTTCGAAGATTTGTTCTCTTTGAGTGTTGGTT
1 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGA--G--CG-T
* * * * ** *
22960515 TGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCCTTACTTGTTTTAATTTGCTTC
61 TGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
*
22960580 TCTGGATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGCTAACCATT
126 TCTGGATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATT
22960645 TTATTGCTTC
191 TTATTGCTTC
*
22960655 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCGTTGAGT
1 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCGTTGAGT
*
22960720 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGTCTCGCTTGTTTTAATTCGCTTCTCTGG
66 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGG
* * * *
22960785 ATCTCCTCAGTAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAATCTTTTTATT
131 ATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
22960850 GCTTC
196 GCTTC
* * * **
22960855 AACCTACTTCTCAGTGTCTCATCAGGAAGGTGGGTTCGAAGATTGGCTCTAG-TGAGCGTTGAGG
1 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCGTTGA-G
*
22960919 TGAGTGGTATTCTTCTCTGTATCTCATCAGGAAGATTACCGCCTCGCTTGTTTTAATTCGCTTCT
65 T---TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCT
** * * * *
22960984 CTGGATCTCCTCAACAAAACGAATTTGGTCTACTTCTCTGTATCTCATCCGGAAGCTAACCA-TT
127 CTGGATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTT
22961048 TATTGCTTC
192 TATTGCTTC
* * **
22961057 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTTGTATTTGAGCGTTGA
1 GACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGGTTCGAAGATTGGCTCG-CGTTGAGCGTTGA
* * * *
22961122 GTTAGTATACTTTTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAACTCGCTTCTCT
64 GTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCT
* * * *
22961187 AGATCTCCTCAGAAAGATGAATATGGTCCACTTCTCTATATCTCATCAGGAAGCTAA-CAGTTTT
129 GGATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCA-TTTT
22961251 ATTGCTTC
193 ATTGCTTC
* * *
22961259 AACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCATTAAGCGTTGAGT
1 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCGTTGAGT
*
22961324 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTTGCTTGTTTTAATTCGCTTCTCTGG
66 TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGG
* * *
22961389 ATCTCCTCAGGAAAATGAATTTGGTCCGCTTCTCTGTATCTCATTAGGAAGCTAACCA-TTTATT
131 ATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
22961453 GCTTC
196 GCTTC
* * * *
22961458 GAACTTCTTCTCAATGTCTCATCAGGAAGCTAGGGTTCGAAGATTGGCTTGCGTTGAGCGTTGAG
1 GACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGGTTCGAAGATTGGCTCGCGTTGAGCGTTGAG
* ** *
22961523 TTAGTAGACTTCTCTGTATCTCATCAGGAAGATAACCGCCTC
65 TTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
22961565 ACTGTTTATG
Statistics
Matches: 812, Mismatches: 87, Indels: 27
0.88 0.09 0.03
Matches are distributed among these distances:
199 48 0.06
200 365 0.45
201 126 0.16
202 80 0.10
203 131 0.16
204 3 0.00
205 59 0.07
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (200 bp):
GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCGTTGAGT
TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGG
ATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
GCTTC
Found at i:22961273 original size:404 final size:401
Alignment explanation
Indices: 22960451--22961564 Score: 1664
Period size: 404 Copynumber: 2.8 Consensus size: 401
22960441 TTTGACTTTG
* * * *
22960451 ACCTGCTTCTCAATGTCTCATTAGGAAGCTGGGTTCGAAGATTTGTTCTCT-TTGAGTGTTG-GT
1 ACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGA-TTG-GCTCTATTGAGCGTTGAG-
* * * * * *
22960514 TTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCCTTACTTGTTTTAATTTGCTT
63 GTGA--TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTTGCTTGTTTTAATTCGCTT
*
22960579 CTCTGGATCTCCTCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGCTAACCAT
126 CTCTGGATCTCCTCAGGAAAATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGCTAACCA-
* *
22960644 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTT
190 TTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTTGCGTT
* * * *
22960709 GAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGTCTCGCTTGTTTTAATT
255 GAGCGTTGAGTTAGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAACT
* * * *
22960774 CGCTTCTCTGGATCTCCTCAGTAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTA
320 CGCTTCTCTAGATCTCCTCAGAAAGACGAATATGGTCCACTTCTCTATATCTCATCAGGAAGCTA
*
22960839 ATCTTTTTATTGCTTCA
385 ATCGTTTTATTGCTTCA
* * *
22960856 ACCTACTTCTCAGTGTCTCATCAGGAAGGTGGGTTCGAAGATTGGCTCTAGTGAGCGTTGAGGTG
1 ACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCTATTGAGCGTTGAGGTG
* *
22960921 AGTGGTATTCTTCTCTGTATCTCATCAGGAAGATTACCGCCTCGCTTGTTTTAATTCGCTTCTCT
66 A-TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTTGCTTGTTTTAATTCGCTTCTCT
** * * **
22960986 GGATCTCCTCAACAAAACGAATTTGGTCTACTTCTCTGTATCTCATCCGGAAGCTAACCATTTAT
130 GGATCTCCTCAGGAAAATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGCTAACCATTTAT
* **
22961051 TGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTTGTATTTGAG
195 TGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGGTTCGAAGATTGGCTTG-CGTTGAG
*
22961116 CGTTGAGTTAGTATACTTTTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAACTCGC
258 CGTTGAGTTAGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAACTCGC
*
22961181 TTCTCTAGATCTCCTCAGAAAGATGAATATGGTCCACTTCTCTATATCTCATCAGGAAGCTAA-C
323 TTCTCTAGATCTCCTCAGAAAGACGAATATGGTCCACTTCTCTATATCTCATCAGGAAGCTAATC
22961245 AGTTTTATTGCTTCA
388 -GTTTTATTGCTTCA
* *
22961260 ACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCATTAAGCGTTGA-GT
1 ACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTC-TATTGAGCGTTGAGGT
22961324 --TGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTTGCTTGTTTTAATTCGCTTCTCT
65 GATGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTTGCTTGTTTTAATTCGCTTCTCT
*
22961387 GGATCTCCTCAGGAAAATGAATTTGGTCCGCTTCTCTGTATCTCATTAGGAAGCTAACCATTTAT
130 GGATCTCCTCAGGAAAATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGCTAACCATTTAT
* * *
22961452 TGCTTCGAACTTCTTCTCAATGTCTCATCAGGAAGCTAGGGTTCGAAGATTGGCTTGCGTTGAGC
195 TGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGGTTCGAAGATTGGCTTGCGTTGAGC
* *
22961517 GTTGAGTTAGTAGACTTCTCTGTATCTCATCAGGAAGATAACCGCCTC
259 GTTGAGTTAGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
22961565 ACTGTTTATG
Statistics
Matches: 640, Mismatches: 63, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
400 51 0.08
401 171 0.27
402 41 0.06
403 131 0.20
404 198 0.31
405 48 0.08
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (401 bp):
ACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCTATTGAGCGTTGAGGTG
ATGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTTGCTTGTTTTAATTCGCTTCTCTG
GATCTCCTCAGGAAAATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGCTAACCATTTATT
GCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTTGCGTTGAGCGT
TGAGTTAGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAACTCGCTTC
TCTAGATCTCCTCAGAAAGACGAATATGGTCCACTTCTCTATATCTCATCAGGAAGCTAATCGTT
TTATTGCTTCA
Found at i:22962074 original size:49 final size:49
Alignment explanation
Indices: 22961995--22962297 Score: 318
Period size: 49 Copynumber: 6.2 Consensus size: 49
22961985 CGACTTAAAC
** * ** *
22961995 CTTTCCCTTCAAATCTTCGTGGTACGGGATCCGCTATCGCAGCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
* * * * *
22962044 CTTTCTCTTCATGTCTTCGTAGTATTGGATCCACCGTCGTGGCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
*
22962093 CTTTCCCTTCATGTCTTCGGGGTACTGGATCCGCCGTCGCGGCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
* * * *
22962142 CTTTCCTTTCATGTCTTCGTGGTACTAGATCCGCCATCGCAGCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
* * * * * * * *
22962191 CTTTCCCTTTATGTCTTCATGATACTGAATTCGCCGTTGTGGCTTAAAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
* * * * * * *
22962240 CTTTCTCTTCTTGTCTTCGTGGTATTGGATCTGCCATTGCGGTCTTTGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGG-CTTAGAT
22962290 CTTTCCCT
1 CTTTCCCT
22962298 GTCAAACCTA
Statistics
Matches: 205, Mismatches: 48, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
49 193 0.94
50 12 0.06
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (49 bp):
CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTCGCGGCTTAGAT
Found at i:22962233 original size:147 final size:148
Alignment explanation
Indices: 22962008--22962295 Score: 373
Period size: 147 Copynumber: 2.0 Consensus size: 148
22961998 TCCCTTCAAA
* * * * * *
22962008 TCTTCGTGGTACGGGATCCGCTATCGCAGCTTAGATCTTTCTCTTCATGTCTTCGTAGTATTGGA
1 TCTTCGTGGTACGAGATCCGCCATCGCAGCTTAGATCTTTCCCTTCATGTCTTCATAGTACTGAA
* *
22962073 TCCACCGTCGTGGCTTAGATCTTTCCCTTCATGTCTTCGGGGTACTGGATCCGCCGTCGCGG-CT
66 TCCACCGTCGTGGCTTAAATCTTTCCCTTCATGTCTTCGGGGTACTGGATCCGCCATCGCGGTCT
22962137 TAGATCTTTCCTTTCATG
131 TAGATCTTTCCTTTCATG
* *
22962155 TCTTCGTGGTACTAGATCCGCCATCGCAGCTTAGATCTTTCCCTTTATGTCTTCAT-GATACTGA
1 TCTTCGTGGTACGAGATCCGCCATCGCAGCTTAGATCTTTCCCTTCATGTCTTCATAG-TACTGA
* * * * * * * * *
22962219 ATTCGCCGTTGTGGCTTAAATCTTTCTCTTCTTGTCTTCGTGGTATTGGATCTGCCATTGCGGTC
65 ATCCACCGTCGTGGCTTAAATCTTTCCCTTCATGTCTTCGGGGTACTGGATCCGCCATCGCGGTC
*
22962284 TTTGATCTTTCC
130 TTAGATCTTTCC
22962296 CTGTCAAACC
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
146 1 0.01
147 106 0.89
148 12 0.10
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.39
Consensus pattern (148 bp):
TCTTCGTGGTACGAGATCCGCCATCGCAGCTTAGATCTTTCCCTTCATGTCTTCATAGTACTGAA
TCCACCGTCGTGGCTTAAATCTTTCCCTTCATGTCTTCGGGGTACTGGATCCGCCATCGCGGTCT
TAGATCTTTCCTTTCATG
Found at i:22968566 original size:13 final size:13
Alignment explanation
Indices: 22968548--22968586 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
22968538 AGTTTAACAT
*
22968548 TGCTTTTAAAAAG
1 TGCTTTTAAAAAA
22968561 TGCTTTTAAAAAA
1 TGCTTTTAAAAAA
*
22968574 TGATTTTAAAAAA
1 TGCTTTTAAAAAA
22968587 ATATTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (13 bp):
TGCTTTTAAAAAA
Found at i:22969431 original size:34 final size:30
Alignment explanation
Indices: 22969372--22969428 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
22969362 TAAAAAATAA
*
22969372 ATGCCTCTAAAATAGTAACAAAATTAACAG
1 ATGCCTCTAAAATAATAACAAAATTAACAG
22969402 ATGCCTCTAAAATAATAACAAAATTAA
1 ATGCCTCTAAAATAATAACAAAATTAA
22969429 TTAAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.25
Consensus pattern (30 bp):
ATGCCTCTAAAATAATAACAAAATTAACAG
Found at i:22970274 original size:151 final size:151
Alignment explanation
Indices: 22970083--22970387 Score: 594
Period size: 151 Copynumber: 2.0 Consensus size: 151
22970073 CAGTTTGATT
22970083 ATAATTTTAAATAATTTTACAAATTAATAATCAACATTTATAAATTATGTCTCATCCTCAAATAC
1 ATAATTTTAAATAATTTTACAAATTAATAATCAACATTTATAAATTATGTCTCATCCTCAAATAC
22970148 ATCTTTTTCGTAAATCTAAATTAAAAATTGTATTTTAAATATTTGATTATATATTTTTTAAATAA
66 ATCTTTTTCGTAAATCTAAATTAAAAATTGTATTTTAAATATTTGATTATATATTTTTTAAATAA
22970213 ATTTAATTATTTTGTATCAAA
131 ATTTAATTATTTTGTATCAAA
22970234 ATAATTTTAAATAATTTTACAAATTTAATAATCAA-ATTTATAAATTATGTCTCATCCTCAAATA
1 ATAATTTTAAATAATTTTACAAA-TTAATAATCAACATTTATAAATTATGTCTCATCCTCAAATA
22970298 CATCTTTTTCGTAAATCTAAATTAAAAATTGTATTTTAAATATTTGATTATATATTTTTTAAATA
65 CATCTTTTTCGTAAATCTAAATTAAAAATTGTATTTTAAATATTTGATTATATATTTTTTAAATA
22970363 AATTTAATTATTTTGTATCAAA
130 AATTTAATTATTTTGTATCAAA
22970385 ATA
1 ATA
22970388 TATAAATAAT
Statistics
Matches: 153, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
151 142 0.93
152 11 0.07
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (151 bp):
ATAATTTTAAATAATTTTACAAATTAATAATCAACATTTATAAATTATGTCTCATCCTCAAATAC
ATCTTTTTCGTAAATCTAAATTAAAAATTGTATTTTAAATATTTGATTATATATTTTTTAAATAA
ATTTAATTATTTTGTATCAAA
Found at i:22973210 original size:27 final size:28
Alignment explanation
Indices: 22973180--22973240 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
22973170 AAAATGTGAT
22973180 TTTTGGATACCCG-GGGCAAAATGGTAA
1 TTTTGGATACCCGAGGGCAAAATGGTAA
* * *
22973207 TTTTGGATGCTCGAGGGCAAAATTGTAA
1 TTTTGGATACCCGAGGGCAAAATGGTAA
22973235 TTTTGG
1 TTTTGG
22973241 GAAAGTCGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (28 bp):
TTTTGGATACCCGAGGGCAAAATGGTAA
Found at i:22973311 original size:58 final size:57
Alignment explanation
Indices: 22973249--22973386 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 57
22973239 GGGAAAGTCG
* ** * *
22973249 GGGTCAAAAATGGAATTCTGGACATTTGGGGCTAAAATGGTAA-CTTTTGAATGTTTCA
1 GGGTCAAAAATGGAATTTTGGACATCCGAGGAT-AAATGGTAATCTTTTGAA-GTTTCA
* * *
22973307 GGGTCAAAAATAGAATTTTTGGACATCCGAGGATAAATGGTAATTTTTTGAAGTTTTA
1 GGGTCAAAAATGGAA-TTTTGGACATCCGAGGATAAATGGTAATCTTTTGAAGTTTCA
*
22973365 GTGTCAAAAATGGAATTTTGGA
1 GGGTCAAAAATGGAATTTTGGA
22973387 AAGTTTGTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
57 7 0.10
58 41 0.60
59 20 0.29
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (57 bp):
GGGTCAAAAATGGAATTTTGGACATCCGAGGATAAATGGTAATCTTTTGAAGTTTCA
Found at i:22973516 original size:59 final size:60
Alignment explanation
Indices: 22973367--22973600 Score: 217
Period size: 60 Copynumber: 3.8 Consensus size: 60
22973357 AAGTTTTAGT
* *
22973367 GTCAAAAATGGAATTTTGGAAAGTTTGTTTGGGGGT-AAAATGGTATTTTTTGGAAAAAAAT-TG
1 GTCAAAAATGGAATTTTGGAAA----GTTTGGGGGTAAAAAT-GTAATTTTTGG-AAAAAATCAG
22973430 G
60 G
* * * *
22973431 GTTAAAAATGGAATTTT-TAGATGTTTGGGGGT-AAGATGGTAATTTTTGG-AAAAATCAGG
1 GTCAAAAATGGAATTTTGGA-AAGTTTGGGGGTAAAAAT-GTAATTTTTGGAAAAAATCAGG
* * *
22973490 ATCAAAAATAGAATTTTGGAAAGTTTGGGGGTAAAAATGTAATTATTGGAAAAAATCAGG
1 GTCAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAAAATCAGG
* * * * * *
22973550 GTAAAAAATGTTAATTTTGGGAAGTTCGGGGGTCAAAATATAATTTTTGGA
1 GTCAAAAATG-GAATTTTGGAAAGTTTGGGGGTAAAAATGTAATTTTTGGA
22973601 CGGTTTAGGG
Statistics
Matches: 142, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
58 6 0.04
59 37 0.26
60 47 0.33
61 34 0.24
63 1 0.01
64 17 0.12
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (60 bp):
GTCAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAAAATCAGG
Found at i:22973541 original size:30 final size:29
Alignment explanation
Indices: 22973493--22973596 Score: 84
Period size: 29 Copynumber: 3.5 Consensus size: 29
22973483 AATCAGGATC
22973493 AAAAATAG-AATTTTGGAAAGTTTGGGGGT
1 AAAAAT-GTAATTTTGGAAAGTTTGGGGGT
*** **
22973522 AAAAATGTAATTATTGGAAAAAATCAGGGT
1 AAAAATGTAATT-TTGGAAAGTTTGGGGGT
* *
22973552 AAAAAATGTTAATTTTGGGAAGTTCGGGGGT
1 -AAAAATG-TAATTTTGGAAAGTTTGGGGGT
* *
22973583 CAAAATATAATTTT
1 AAAAATGTAATTTT
22973597 TGGACGGTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
28 1 0.02
29 17 0.30
30 17 0.30
31 17 0.30
32 5 0.09
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (29 bp):
AAAAATGTAATTTTGGAAAGTTTGGGGGT
Found at i:22973588 original size:61 final size:60
Alignment explanation
Indices: 22973469--22973600 Score: 169
Period size: 61 Copynumber: 2.2 Consensus size: 60
22973459 GGGTAAGATG
* *
22973469 GTAATTTTTGG-AAAAATCAGGATCAAAAATAGAATTTTGGAAAGTTTGGGGGTAAAAAT
1 GTAATTTTTGGAAAAAATCAGGATAAAAAATAGAATTTTGGAAAGTTCGGGGGTAAAAAT
* * * *
22973528 GTAATTATTGGAAAAAATCAGGGTAAAAAAT-GTTAATTTTGGGAAGTTCGGGGGTCAAAAT
1 GTAATTTTTGGAAAAAATCAGGATAAAAAATAG--AATTTTGGAAAGTTCGGGGGTAAAAAT
*
22973589 ATAATTTTTGGA
1 GTAATTTTTGGA
22973601 CGGTTTAGGG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 11 0.18
60 17 0.27
61 34 0.55
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (60 bp):
GTAATTTTTGGAAAAAATCAGGATAAAAAATAGAATTTTGGAAAGTTCGGGGGTAAAAAT
Found at i:22975386 original size:17 final size:17
Alignment explanation
Indices: 22975353--22975420 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
22975343 AATTTAATTT
*
22975353 TAAAGTTTAAGTTTAAAA
1 TAAA-TTTAAATTTAAAA
* *
22975371 T-TATTTCAAATTTAAAC
1 TAAATTT-AAATTTAAAA
22975388 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
22975405 TGAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
22975421 TCTAAGGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
16 3 0.07
17 34 0.81
18 5 0.12
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:22975399 original size:6 final size:6
Alignment explanation
Indices: 22975343--22975441 Score: 64
Period size: 6 Copynumber: 17.0 Consensus size: 6
22975333 CTGGACTTTG
* * * *
22975343 AATTTA ATTTTA AAGTTTA AGTTTA AAATT- -ATTTCA AATTTA AA-CTA
1 AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
* * * **
22975390 AATTTA AATTTA AA-ATG AATTTA AATTTA AATCT- AAGGTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
22975436 AATTTA
1 AATTTA
22975442 GAAATAAATC
Statistics
Matches: 69, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
4 3 0.04
5 10 0.14
6 47 0.68
7 9 0.13
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (6 bp):
AATTTA
Found at i:22975402 original size:34 final size:36
Alignment explanation
Indices: 22975343--22975437 Score: 101
Period size: 34 Copynumber: 2.8 Consensus size: 36
22975333 CTGGACTTTG
* * * *
22975343 AATTTAATTTTAAAGTTTAAGTTTAAAAT-TATTTCA
1 AATTTAAATCTAAAGTTTAAATTTAAAATGAATTT-A
22975379 AATTTAAA-CTAAA-TTTAAATTTAAAATGAATTTA
1 AATTTAAATCTAAAGTTTAAATTTAAAATGAATTTA
*
22975413 AATTTAAATCT-AAG-GTAAATTTAAA
1 AATTTAAATCTAAAGTTTAAATTTAAA
22975438 TTTAGAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
34 34 0.67
35 10 0.20
36 7 0.14
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (36 bp):
AATTTAAATCTAAAGTTTAAATTTAAAATGAATTTA
Found at i:22975418 original size:23 final size:23
Alignment explanation
Indices: 22975388--22975441 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
22975378 AAATTTAAAC
* *
22975388 TAAATTTAAATTTAAAATGAATT
1 TAAATTTAAATCTAAAATAAATT
**
22975411 TAAATTTAAATCTAAGGTAAATT
1 TAAATTTAAATCTAAAATAAATT
22975434 TAAATTTA
1 TAAATTTA
22975442 GAAATAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
TAAATTTAAATCTAAAATAAATT
Found at i:22979688 original size:23 final size:23
Alignment explanation
Indices: 22979633--22979688 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
22979623 TTAGGTTAGA
*
22979633 TAAATAAAAAATTAAGAATTAAT
1 TAAATAAAATATTAAGAATTAAT
22979656 TAAATAAAATATTAA-AA-TAAT
1 TAAATAAAATATTAAGAATTAAT
22979677 TAGAATTAAAAT
1 TA-AA-TAAAAT
22979689 TTTAGGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 6 0.20
22 4 0.13
23 20 0.67
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAATAAAATATTAAGAATTAAT
Found at i:22980836 original size:22 final size:22
Alignment explanation
Indices: 22980808--22980860 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
22980798 ATTAGCAATC
* **
22980808 TATGTGAACATGGCTTTATTAA
1 TATGTGAACACGGCTAAATTAA
*
22980830 TCTGTGAACACGGCTAAATTAA
1 TATGTGAACACGGCTAAATTAA
22980852 TATGTGAAC
1 TATGTGAAC
22980861 CTGTTGTCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (22 bp):
TATGTGAACACGGCTAAATTAA
Found at i:22980987 original size:23 final size:23
Alignment explanation
Indices: 22980961--22981004 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22980951 GAACTTGTGC
* *
22980961 TTTATAAACATGTGAACCCTTGT
1 TTTACAAACATGCGAACCCTTGT
22980984 TTTACAAACATGCGAACCCTT
1 TTTACAAACATGCGAACCCTT
22981005 TCTTATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (23 bp):
TTTACAAACATGCGAACCCTTGT
Found at i:22981046 original size:16 final size:16
Alignment explanation
Indices: 22981027--22981066 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
22981017 CGAACCATTG
*
22981027 TATGTATGCAAGCCTA
1 TATGTATGCAAACCTA
*
22981043 TATGTGTGCAAACCTA
1 TATGTATGCAAACCTA
22981059 TATGTATG
1 TATGTATG
22981067 TGAGCCCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (16 bp):
TATGTATGCAAACCTA
Found at i:23045827 original size:6 final size:6
Alignment explanation
Indices: 23045818--23045876 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
23045808 TTAAATTCAT
* *
23045818 TTTAAA TTTAAA TTT--A TTTAAA GTTTAAA TTT-AA TTTAAA --TCAT
1 TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA
23045862 TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTT
23045877 TTTAAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
4 6 0.14
5 5 0.12
6 26 0.60
7 6 0.14
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:23045827 original size:17 final size:16
Alignment explanation
Indices: 23045801--23045904 Score: 75
Period size: 16 Copynumber: 6.9 Consensus size: 16
23045791 AAGCCCAATC
*
23045801 TTTAATTTTAAATTCAT
1 TTTAAATTTAAATT-AT
23045818 TTTAAATTTAAATT-T
1 TTTAAATTTAAATTAT
23045833 ATTTAAAGTTT-AA--A-
1 -TTTAAA-TTTAAATTAT
*
23045847 TTT-AATTTAAATCAT
1 TTTAAATTTAAATTAT
23045862 TTTAAATTTAAATT-T
1 TTTAAATTTAAATTAT
* *
23045877 TTTAAA-TT-ATTTAA
1 TTTAAATTTAAATTAT
23045891 TTTAAA-TTAAATTA
1 TTTAAATTTAAATTA
23045905 ATTAAGTTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
11 3 0.04
12 4 0.06
13 6 0.08
14 11 0.15
15 15 0.21
16 17 0.24
17 16 0.22
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (16 bp):
TTTAAATTTAAATTAT
Found at i:23045854 original size:28 final size:26
Alignment explanation
Indices: 23045822--23045903 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 26
23045812 ATTCATTTTA
23045822 AATTTAAATTTATTTAAAGTTTAAATTT
1 AATTTAAA-TTATTTAAA-TTTAAATTT
*
23045850 AATTTAAATCATTTTAAATTTAAATTT
1 AATTTAAATTA-TTTAAATTTAAATTT
*
23045877 --TTTAAATTATTT-AATTTAAATTA
1 AATTTAAATTATTTAAATTTAAATTT
23045900 AATT
1 AATT
23045904 AATTAAGTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
23 10 0.21
24 3 0.06
25 10 0.21
27 11 0.23
28 14 0.29
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTTAAATTATTTAAATTTAAATTT
Found at i:23045867 original size:44 final size:44
Alignment explanation
Indices: 23045801--23045902 Score: 143
Period size: 44 Copynumber: 2.3 Consensus size: 44
23045791 AAGCCCAATC
23045801 TTTAATTTTAAATTCATTTTAAATTTAAATTTATTTAAAGT-TTAAA
1 TTTAA-TTTAAA-TCATTTTAAATTTAAATTT-TTTAAAGTATTAAA
* *
23045847 TTTAATTTAAATCATTTTAAATTTAAATTTTTTAAATTATTTAA
1 TTTAATTTAAATCATTTTAAATTTAAATTTTTTAAAGTATTAAA
*
23045891 TTTAAATTAAAT
1 TTTAATTTAAAT
23045903 TAATTAAGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 7 0.13
44 34 0.65
45 6 0.12
46 5 0.10
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (44 bp):
TTTAATTTAAATCATTTTAAATTTAAATTTTTTAAAGTATTAAA
Found at i:23045902 original size:19 final size:19
Alignment explanation
Indices: 23045878--23045915 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23045868 TTTAAATTTT
* *
23045878 TTAAATTATTTAATTTAAA
1 TTAAATTAATTAAGTTAAA
23045897 TTAAATTAATTAAGTTAAA
1 TTAAATTAATTAAGTTAAA
23045916 AAAAGTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TTAAATTAATTAAGTTAAA
Found at i:23045907 original size:15 final size:15
Alignment explanation
Indices: 23045845--23045907 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
23045835 TTAAAGTTTA
* *
23045845 AATTTAATTTAAATC
1 AATTTAAATTAAATT
*
23045860 ATTTTAAATTTAAATT
1 AATTTAAA-TTAAATT
* *
23045876 -TTTTAAATT-ATTT
1 AATTTAAATTAAATT
23045889 AATTTAAATTAAATT
1 AATTTAAATTAAATT
23045904 AATT
1 AATT
23045908 AAGTTAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.08
14 10 0.26
15 20 0.51
16 6 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTTAAATTAAATT
Found at i:23046583 original size:3 final size:3
Alignment explanation
Indices: 23046577--23046626 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
23046567 AAATGATTAT
* * **
23046577 TAA TAA TAT TAA TAA TAA CAA TAA TAA TAA TTT TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23046624 TAA
1 TAA
23046627 AAAAAGCTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:23046592 original size:12 final size:12
Alignment explanation
Indices: 23046572--23046620 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
23046562 GTATTAAATG
*
23046572 ATTATTAATAAT
1 ATTAATAATAAT
*
23046584 ATTAATAATAAC
1 ATTAATAATAAT
*
23046596 AATAATAATAAT
1 ATTAATAATAAT
*
23046608 TTTAATAATAAT
1 ATTAATAATAAT
23046620 A
1 A
23046621 AAATAAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
ATTAATAATAAT
Found at i:23047760 original size:30 final size:30
Alignment explanation
Indices: 23047689--23047850 Score: 138
Period size: 29 Copynumber: 5.6 Consensus size: 30
23047679 AGAAAGTCCT
* * *
23047689 TAAACTCTTT-AAAAATCATATTTTGATCGC
1 TAAACT-TTTCAAAAATTACATTTTGATCCC
* *
23047719 -AAACTTCTCAAAAATTACATTTTGACCCC
1 TAAACTTTTCAAAAATTACATTTTGATCCC
* * * * *
23047748 TGAACTTTTCAAAAATCATATATTGA-CCA
1 TAAACTTTTCAAAAATTACATTTTGATCCC
* *
23047777 TAAACTTTCCAAAAATTACATTTTTATCCC
1 TAAACTTTTCAAAAATTACATTTTGATCCC
* *
23047807 TAAAC--TTCCAAAATTACATTTTTATCCC
1 TAAACTTTTCAAAAATTACATTTTGATCCC
*
23047835 TAAAC-TTCCAAAAATT
1 TAAACTTTTCAAAAATT
23047851 GTCATTTTAC
Statistics
Matches: 106, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
28 28 0.26
29 51 0.48
30 27 0.25
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
TAAACTTTTCAAAAATTACATTTTGATCCC
Done.