Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 264 of 295
Found at i:84407824 original size:65 final size:62
Alignment explanation
Indices: 84407649--84407868 Score: 190
Period size: 63 Copynumber: 3.5 Consensus size: 62
84407639 ATTTTTAACC
* * *
84407649 TTATTTTTATATTATATATTATATAATTATTTTATTATATAT-TA-TTTATATTATTATTAT-
1 TTATTATTATATTATATATTATAT-ATTATTTTTTTACATATATATTTTATATTATTATTATA
* * * *
84407709 TTATTA-TATATTAT-T-TTCACAAATTATTATTTTACAT-TATTATTTATATATTATTGTTATA
1 TTATTATTATATTATATATT-ATATATTATTTTTTTACATATA-TATTT-TATATTATTATTATA
* *
84407770 TTTTTACTTGTATTATATATTATATATTATTTTTTTTACATATATACTTTTATATTATATATTAT
1 TTATTA-TTATATTATATATTATATATTA-TTTTTTTACATATATA-TTTTATATTAT-TATTAT
84407835 A
62 A
*
84407836 --ATTATTTTATTATATATTAT-TATGTCATTTTTT
1 TTATTATTATATTATATATTATATAT-T-ATTTTTT
84407869 ATATTATTAT
Statistics
Matches: 129, Mismatches: 15, Indels: 29
0.75 0.09 0.17
Matches are distributed among these distances:
56 1 0.01
57 14 0.11
58 5 0.04
59 10 0.08
60 18 0.14
61 5 0.04
62 3 0.02
63 29 0.22
64 11 0.09
65 22 0.17
66 11 0.09
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (62 bp):
TTATTATTATATTATATATTATATATTATTTTTTTACATATATATTTTATATTATTATTATA
Found at i:84407867 original size:24 final size:22
Alignment explanation
Indices: 84407690--84407906 Score: 97
Period size: 21 Copynumber: 10.0 Consensus size: 22
84407680 TTATTATATA
84407690 TTATT-TATATTATTATT-A-T
1 TTATTATATATTATTATTCATT
84407709 TTATTATATATTATT-TTCACAAATT
1 TTATTATATATTATTATT--C--ATT
* * *
84407734 ATTATTTTACATTATTATTTATAT
1 -TTATTATATATTATTATTCAT-T
* *
84407758 ATTATTGT-TA-TATT-TTTACTT
1 -TTATTATATATTATTATTCA-TT
*
84407779 GTATTATATATTATATATT-ATT
1 TTATTATATATTAT-TATTCATT
* * * *
84407801 TT-TTTTACA-TA-TATACTTT
1 TTATTATATATTATTATTCATT
*
84407820 TATATTATATATTATAATT-ATT
1 T-TATTATATATTATTATTCATT
84407842 TTATTATATATTATTATGTCA-T
1 TTATTATATATTATTAT-TCATT
*
84407864 TT-TT-TATATTATTATACATTT
1 TTATTATATATTATTATTCA-TT
84407885 TTATCTATATATTATTA-TCATT
1 TTAT-TATATATTATTATTCATT
84407907 AAAGGTTTTT
Statistics
Matches: 151, Mismatches: 20, Indels: 51
0.68 0.09 0.23
Matches are distributed among these distances:
18 3 0.02
19 12 0.08
20 28 0.19
21 37 0.25
22 23 0.15
23 11 0.07
24 21 0.14
25 1 0.01
26 13 0.09
27 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (22 bp):
TTATTATATATTATTATTCATT
Found at i:84407886 original size:20 final size:22
Alignment explanation
Indices: 84407839--84407899 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 22
84407829 TATTATAATT
* *
84407839 ATTTTATTATATATTATTATGTC
1 ATTTTA-TCTATATTATTATGAC
84407862 ATTTT-T-TATATTATTAT-AC
1 ATTTTATCTATATTATTATGAC
84407881 ATTTTTATCTATA-TATTAT
1 A-TTTTATCTATATTATTAT
84407900 TATCATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 2 0.06
20 15 0.44
21 8 0.24
22 4 0.12
23 5 0.15
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTATCTATATTATTATGAC
Found at i:84408091 original size:23 final size:21
Alignment explanation
Indices: 84408044--84408093 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
84408034 CATTAATTAC
*
84408044 TTATTTTATATTATTCTAAAT
1 TTATTTTATATTATTATAAAT
84408065 TTATATTTATATATATTATATAA-
1 TTAT-TTTATAT-TATTATA-AAT
84408088 TTATTT
1 TTATTT
84408094 CATTATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.16
22 9 0.36
23 10 0.40
24 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTATATTATTATAAAT
Found at i:84408174 original size:17 final size:17
Alignment explanation
Indices: 84408154--84408219 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
84408144 TTCTAAACCA
*
84408154 ATATATTTTATATTTTT
1 ATATATATTATATTTTT
*
84408171 ATATA-ATTATTATTCTT
1 ATATATATTA-TATTTTT
*
84408188 ATAAATA-TAT-TTTTT
1 ATATATATTATATTTTT
84408203 ATTATATATTATATTTT
1 A-TATATATTATATTTT
84408220 AAATTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.13
16 9 0.23
17 20 0.51
18 5 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATATATTATATTTTT
Found at i:84414962 original size:35 final size:35
Alignment explanation
Indices: 84414888--84414963 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
84414878 CTGTAACTGT
*
84414888 ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGT
1 ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGA
* * * * *
84414923 ATCTGTATTTGGCATAGGCTCAGGCTCGATTGTGA
1 ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGA
84414958 ATCTGT
1 ATCTGT
84414964 CTAATTTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (35 bp):
ATCTGTATTTGGAATAGGCTCAAGCCCGAATCTGA
Found at i:84424529 original size:22 final size:22
Alignment explanation
Indices: 84424504--84424555 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
84424494 CACTAGGAAC
* *
84424504 TATGTGATCTGAGGTCATGAGA
1 TATGTGATCTAAGCTCATGAGA
*
84424526 TATGTGGTCTAAGCTCATGAGA
1 TATGTGATCTAAGCTCATGAGA
84424548 TATGTGAT
1 TATGTGAT
84424556 ATATGTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (22 bp):
TATGTGATCTAAGCTCATGAGA
Found at i:84427761 original size:46 final size:46
Alignment explanation
Indices: 84427586--84427766 Score: 202
Period size: 46 Copynumber: 3.9 Consensus size: 46
84427576 TGTAACCCGC
* * * *
84427586 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
84427632 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** * *
84427678 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
84427725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
84427767 AACCATCCTA
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
46 75 0.68
47 35 0.32
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:84437259 original size:41 final size:40
Alignment explanation
Indices: 84437212--84437338 Score: 128
Period size: 41 Copynumber: 3.1 Consensus size: 40
84437202 AGTCCAACTG
* * *
84437212 GCTTCATGCCGGTGTATATTATCAGGCTTTGTGCCTAGTAG
1 GCTTCATGTCGGTGTATATTATCAGG-TTTGTGCCTAGCAA
* * * * *
84437253 GTTTCATGTTGGTTTATATTATTAAGGTTTATGCCTAGCAA
1 GCTTCATGTCGGTGTATATTA-TCAGGTTTGTGCCTAGCAA
* * *
84437294 GCTTCGTTTCAGTGTATATTATCAGGTTTTGTGCCTAGCAA
1 GCTTCATGTCGGTGTATATTATCAGG-TTTGTGCCTAGCAA
84437335 GCTT
1 GCTT
84437339 TAAGTCAATG
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
40 4 0.06
41 60 0.88
42 4 0.06
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.42
Consensus pattern (40 bp):
GCTTCATGTCGGTGTATATTATCAGGTTTGTGCCTAGCAA
Found at i:84439154 original size:23 final size:23
Alignment explanation
Indices: 84439128--84439186 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
84439118 ATATGATGCA
84439128 TGTGTGGTGTGA-TCTGCTAAGCT
1 TGTGTGGTGT-ATTCTGCTAAGCT
* * *
84439151 TGTGTTGTGTATTCTGTTTAGCT
1 TGTGTGGTGTATTCTGCTAAGCT
84439174 T-TGTGGTGTATTC
1 TGTGTGGTGTATTC
84439187 GATATTGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.10, C:0.10, G:0.31, T:0.49
Consensus pattern (23 bp):
TGTGTGGTGTATTCTGCTAAGCT
Found at i:84442565 original size:31 final size:31
Alignment explanation
Indices: 84442530--84442591 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
84442520 CTGGCACTCC
* *
84442530 AATCCAATTCGGACTAAATTGAGCTTGTGAA
1 AATCCAACTCAGACTAAATTGAGCTTGTGAA
84442561 AATCCAACTCAGACTAAATTGAGCTTGTGAA
1 AATCCAACTCAGACTAAATTGAGCTTGTGAA
84442592 TCTTTCTCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (31 bp):
AATCCAACTCAGACTAAATTGAGCTTGTGAA
Found at i:84450730 original size:16 final size:16
Alignment explanation
Indices: 84450678--84450730 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
84450668 TTATTTACTT
** *
84450678 TTTTATTTTACCTTAC
1 TTTTATTTTAGGTTAA
* *
84450694 TTTTACTTTAGGTTTA
1 TTTTATTTTAGGTTAA
*
84450710 GTTTATTTTAGGTTAA
1 TTTTATTTTAGGTTAA
84450726 TTTTA
1 TTTTA
84450731 ATTACGTTAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.21, C:0.08, G:0.09, T:0.62
Consensus pattern (16 bp):
TTTTATTTTAGGTTAA
Found at i:84462144 original size:20 final size:21
Alignment explanation
Indices: 84462099--84462154 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
84462089 GAGAATATCA
*
84462099 AACCTAAAAATATGATAGAAG
1 AACCAAAAAATATGATAGAAG
*
84462120 TACCAAAAAATATG-T-GAAAG
1 AACCAAAAAATATGATAG-AAG
* *
84462140 AACCAGATAATATGA
1 AACCAAAAAATATGA
84462155 GGGAAAGTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 15 0.54
21 12 0.43
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (21 bp):
AACCAAAAAATATGATAGAAG
Found at i:84462340 original size:19 final size:19
Alignment explanation
Indices: 84462306--84462343 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
84462296 GTACTTTTTA
*
84462306 TTTATTAGTATATAAAAAT
1 TTTATTAGTAGATAAAAAT
*
84462325 TTTATTAGTAGGTAAAAAT
1 TTTATTAGTAGATAAAAAT
84462344 GATATTTTCT
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:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTATTAGTAGATAAAAAT
Found at i:84463230 original size:21 final size:21
Alignment explanation
Indices: 84463173--84463232 Score: 59
Period size: 25 Copynumber: 2.7 Consensus size: 21
84463163 GATAAAGAGA
84463173 ATTATTTATGTTATTATATAAT
1 ATTATTTAT-TTATTATATAAT
*
84463195 GATTACATTAGTTTATATATATAAT
1 -ATTA-TTTA-TTTAT-TATATAAT
84463220 -TTATTTATTTATT
1 ATTATTTATTTATT
84463233 GATTCAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 1 0.03
21 5 0.16
22 3 0.09
23 7 0.22
24 7 0.22
25 9 0.28
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
ATTATTTATTTATTATATAAT
Found at i:84463294 original size:21 final size:21
Alignment explanation
Indices: 84463265--84463334 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
84463255 ATATATAATT
*
84463265 TTTTTATTATGATTAATATAA
1 TTTTAATTATGATTAATATAA
*
84463286 TTTTAATTATGATTTAATATCA
1 TTTTAATTATGA-TTAATATAA
* * * *
84463308 -TATAATTTTAAATAATATAA
1 TTTTAATTATGATTAATATAA
84463328 TTTTAAT
1 TTTTAAT
84463335 CATTTTATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 7 0.18
21 24 0.62
22 8 0.21
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTAATTATGATTAATATAA
Found at i:84463325 original size:15 final size:15
Alignment explanation
Indices: 84463278--84463333 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
84463268 TTATTATGAT
84463278 TAATATAATTTT-AA
1 TAATATAATTTTAAA
*
84463292 T--TATGA-TTTAATA
1 TAATATAATTTTAA-A
*
84463305 TCATATAATTTTAAA
1 TAATATAATTTTAAA
84463320 TAATATAATTTTAA
1 TAATATAATTTTAA
84463334 TCATTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
11 3 0.09
12 5 0.15
13 2 0.06
14 1 0.03
15 18 0.53
16 5 0.15
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
TAATATAATTTTAAA
Found at i:84467161 original size:16 final size:17
Alignment explanation
Indices: 84467121--84467171 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
84467111 GGATATTAAT
84467121 ATTAAT-ATATATTATA
1 ATTAATAATATATTATA
84467137 ATTTAAATAATATA-TATA
1 A-TT-AATAATATATTATA
*
84467155 ATTAATAATTTATTATA
1 ATTAATAATATATTATA
84467172 GGTTATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 9 0.30
17 8 0.27
18 8 0.27
19 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATAATATATTATA
Found at i:84469154 original size:60 final size:60
Alignment explanation
Indices: 84469061--84469180 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
84469051 CCTACTACAT
*
84469061 CAATTATGTATTTAACCAAATACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
1 CAATTATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
84469121 CAATTATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
1 CAATTATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
84469181 TTTTTTTCCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (60 bp):
CAATTATGTATTTAACCAAAGACATAATGACAACTAAGAATGTATTTACATGTCATTAAA
Found at i:84471624 original size:24 final size:24
Alignment explanation
Indices: 84471597--84471648 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
84471587 TTAGTAAGTC
*
84471597 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
84471621 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
84471645 AAAT
1 AAAT
84471649 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:84478772 original size:6 final size:6
Alignment explanation
Indices: 84478758--84478886 Score: 111
Period size: 6 Copynumber: 20.8 Consensus size: 6
84478748 TATCAAAACT
* * *
84478758 AGAACC AGAATC AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* *
84478807 AGAATC AGAATC AGAATC AGTATC AGGTAA-C AGAATC AAAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* *
84478856 AGTATC AAGTAA-C AGAATC TAAAATC AGAAT
1 AGAATC -AG-AATC AGAATC -AGAATC AGAAT
84478887 GTGCATGCAA
Statistics
Matches: 100, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
5 5 0.05
6 79 0.79
7 13 0.13
8 3 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:84478805 original size:37 final size:37
Alignment explanation
Indices: 84478763--84478862 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
84478753 AAACTAGAAC
* *
84478763 CAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
*
84478800 CAGAATCAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
84478837 CAGAATCAAAATCAGAATCAGTATCA
1 CAGAATCAGAATCAGAATCAGAATCA
84478863 AGTAACAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:84478807 original size:31 final size:31
Alignment explanation
Indices: 84478769--84478886 Score: 119
Period size: 31 Copynumber: 3.6 Consensus size: 31
84478759 GAACCAGAAT
* *
84478769 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGAATTAGGTAA
*
84478800 CAGAATCAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAG-A--A-T-T-AGGTAA
* * *
84478837 CAGAATCAAAATCAGAATCAGTATCAAGTAA
1 CAGAATCAAAATCAGAATCAGAATTAGGTAA
84478868 CAGAATCTAAAATCAGAAT
1 CAGAATC-AAAATCAGAAT
84478887 GTGCATGCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
31 33 0.44
32 12 0.16
33 1 0.01
34 2 0.03
35 1 0.01
36 1 0.01
37 25 0.33
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGAATTAGGTAA
Found at i:84479054 original size:27 final size:26
Alignment explanation
Indices: 84479023--84479109 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
84479013 GCTCAGTTAT
* *
84479023 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
* *
84479050 TAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
* *
84479076 CAGATATTTGTGGCACAGCCACCAGAAA
1 CAGATA-TTGTGACAGAGCCACCAG-AA
84479104 CAGATA
1 CAGATA
84479110 ATTTAGCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.12
27 38 0.73
28 8 0.15
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:84479122 original size:27 final size:27
Alignment explanation
Indices: 84479041--84479124 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
84479031 GTGATAGAGT
* * *
84479041 CACCAGATATAGAT-ATTGTGGCAGAGC
1 CACCAGA-ACAGATAATTGTAGCAAAGC
* * *
84479068 CACCAGAACAGATATTTGTGGCACAGC
1 CACCAGAACAGATAATTGTAGCAAAGC
84479095 CACCAGAAACAGATAATT-TAGCAAAGC
1 CACCAG-AACAGATAATTGTAGCAAAGC
84479122 CAC
1 CAC
84479125 TTAACAGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.10
27 34 0.69
28 10 0.20
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTAGCAAAGC
Found at i:84479319 original size:22 final size:22
Alignment explanation
Indices: 84479294--84479347 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
84479284 TGGCATACAA
*
84479294 CCATAATCAGGTTGGCAC-AGAG
1 CCATAATCAGGTTGACACGA-AG
*
84479316 CCAT-ATGTAGGTTGACACGAAG
1 CCATAAT-CAGGTTGACACGAAG
84479338 CCATAATCAG
1 CCATAATCAG
84479348 AAGGCTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 2 0.08
22 21 0.81
23 3 0.12
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (22 bp):
CCATAATCAGGTTGACACGAAG
Found at i:84479831 original size:27 final size:27
Alignment explanation
Indices: 84479774--84480049 Score: 365
Period size: 27 Copynumber: 10.3 Consensus size: 27
84479764 GGGGCAAAAT
* * *
84479774 GGTAATTTTACCCTACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
84479800 TGTAATTCCACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84479827 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84479854 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84479881 GATAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84479908 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84479935 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84479962 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84479989 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
84480016 AGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
84480043 GGTAATT
1 GGTAATT
84480050 TTTAAATCGA
Statistics
Matches: 221, Mismatches: 28, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
26 13 0.06
27 208 0.94
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:84480099 original size:27 final size:26
Alignment explanation
Indices: 84480031--84480100 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 26
84480021 TTCTACCCTA
* *
84480031 CAAGGGTATTTTGGTAATTTTTAAAT
1 CAAGGGTAATTTGGTAATTTGTAAAT
* ***
84480057 CGAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTAATTTGGTAATT-TGTAAAT
*
84480084 CAAGGGTACTTTGGTAA
1 CAAGGGTAATTTGGTAA
84480101 GTTTACAAGT
Statistics
Matches: 32, Mismatches: 11, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (26 bp):
CAAGGGTAATTTGGTAATTTGTAAAT
Found at i:84480174 original size:27 final size:27
Alignment explanation
Indices: 84480142--84480427 Score: 297
Period size: 27 Copynumber: 10.6 Consensus size: 27
84480132 ACAGGTCGAA
** *
84480142 GGTATTTCAATAATTTCACAAACCAGG
1 GGTATTTTGATAATTTTACAAACCAGG
* * *
84480169 GATATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGATAATTTTACAAACCAGG
84480196 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGATAATTTTACAAACCAGG
* *
84480223 GGTATTTTGGTAATTTTACAAATCAGG
1 GGTATTTTGATAATTTTACAAACCAGG
* * * * *
84480250 GGTATTTTGGTGATTTTATAAACAAAG
1 GGTATTTTGATAATTTTACAAACCAGG
84480277 GGTATTTT-AGTAATTTTACAAACCAGG
1 GGTATTTTGA-TAATTTTACAAACCAGG
* ** *
84480304 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGATAATTTTACAAACCAGG
* *
84480331 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGATAATTTTACAAACCAGG
* * * *
84480358 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGATAATTTTACAAACCAGG
* *
84480385 GATATTCT-AGTAATTTTACAAACCAGG
1 GGTATTTTGA-TAATTTTACAAACCAGG
* *
84480412 AGTATTTTGTTAATTT
1 GGTATTTTGATAATTT
84480428 GGTAAACTAA
Statistics
Matches: 212, Mismatches: 43, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
27 212 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTTGATAATTTTACAAACCAGG
Found at i:84480434 original size:54 final size:54
Alignment explanation
Indices: 84480152--84480427 Score: 374
Period size: 54 Copynumber: 5.1 Consensus size: 54
84480142 GGTATTTCAA
* * * *
84480152 TAATTTCACAAACC-AGGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGA
1 TAATTTTATAAACCAAGGG-TATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* * *
84480206 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* * *
84480260 TGATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* *
84480314 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* * * * * *
84480368 TGATTTTATAAACCAAGGATATTCTAGTAATTTTACAAACCAGGAGTATTTTGT
1 TAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
84480422 TAATTT
1 TAATTT
84480428 GGTAAACTAA
Statistics
Matches: 196, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 193 0.98
55 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
TAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
Found at i:84480436 original size:81 final size:80
Alignment explanation
Indices: 84480152--84480427 Score: 363
Period size: 81 Copynumber: 3.4 Consensus size: 80
84480142 GGTATTTCAA
* *
84480152 TAATTTCACAAACCAGGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAA
1 TAATTTTACAAACCAGGG-TATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAA
84480217 ACCAGGGGTATTTTGG
65 ACCAGGGGTATTTTGG
* * * * * *
84480233 TAATTTTACAAATCAGGGGTATTTTGGTGATTTTATAAACAAAGGGTATTTTAGTAATTTTACAA
1 TAATTTTACAAACCA-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAA
84480298 ACCAGGGGTATTTTGG
65 ACCAGGGGTATTTTGG
** * *
84480314 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAA
1 TAATTTTACAAACC-AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAA
* * * *
84480379 ACCAAGGATATTCTAG
65 ACCAGGGGTATTTTGG
*
84480395 TAATTTTACAAACCAGGAGTATTTTGTTAATTT
1 TAATTTTACAAACCAGG-GTATTTTGGTAATTT
84480428 GGTAAACTAA
Statistics
Matches: 167, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.02
81 160 0.96
82 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (80 bp):
TAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
CCAGGGGTATTTTGG
Found at i:84484617 original size:17 final size:15
Alignment explanation
Indices: 84484583--84484627 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
84484573 CCTTATTTTA
84484583 TAATTAAATTAAATT
1 TAATTAAATTAAATT
84484598 TAATTAATATTTAAATT
1 TAATTAA-A-TTAAATT
*
84484615 TAACTCAAATTAA
1 TAA-TTAAATTAA
84484628 CCCCCAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 11 0.42
18 3 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAAATTAAATT
Found at i:84490573 original size:20 final size:20
Alignment explanation
Indices: 84490548--84490588 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
84490538 TGTTCTATTA
84490548 CGTCGAGGTTTAGAAACATT
1 CGTCGAGGTTTAGAAACATT
84490568 CGTCGAGGTTTAGAAACATT
1 CGTCGAGGTTTAGAAACATT
84490588 C
1 C
84490589 AAGTGTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (20 bp):
CGTCGAGGTTTAGAAACATT
Found at i:84495281 original size:17 final size:17
Alignment explanation
Indices: 84495252--84495314 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
84495242 CTTCAAAAAT
*
84495252 AAATAAAAGAAAGAT-A
1 AAATAAAATAAAGATAA
84495268 AAATGAAAATAAAGATAA
1 AAAT-AAAATAAAGATAA
*
84495286 AAATAAAAATAAAAAATAA
1 AAAT-AAAAT-AAAGATAA
84495305 AAATAAAATA
1 AAATAAAATA
84495315 GATGGACTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 4 0.10
17 11 0.27
18 15 0.37
19 11 0.27
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (17 bp):
AAATAAAATAAAGATAA
Found at i:84495285 original size:6 final size:5
Alignment explanation
Indices: 84495247--84495314 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
84495237 TAAGTCTTCA
*
84495247 AAAAT -AAAT AAAAG AAAGAT AAAAT GAAAAT AAAGAT AAAAAT AAAA-
1 AAAAT AAAAT AAAAT AAA-AT AAAAT -AAAAT AAA-AT -AAAAT AAAAT
*
84495294 ATAA- AAAAT AAAAAT AAAAT A
1 AAAAT AAAAT -AAAAT AAAAT A
84495315 GATGGACTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
4 10 0.19
5 21 0.40
6 18 0.35
7 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:84495288 original size:12 final size:11
Alignment explanation
Indices: 84495252--84495314 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
84495242 CTTCAAAAAT
*
84495252 AAATAAAAGAA
1 AAATAAAATAA
* *
84495263 AGATAAAATGA
1 AAATAAAATAA
84495274 AAATAAAGATAA
1 AAATAAA-ATAA
84495286 AAAT-AAA-AA
1 AAATAAAATAA
*
84495295 TAA-AAAATAA
1 AAATAAAATAA
84495305 AAATAAAATA
1 AAATAAAATA
84495315 GATGGACTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 7 0.17
10 5 0.12
11 22 0.54
12 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:84495300 original size:7 final size:6
Alignment explanation
Indices: 84495267--84495312 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
84495257 AAAGAAAGAT
* *
84495267 AAAATG AAAATA AAGATA AAAATA AAAATAA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA AAA
84495313 TAGATGGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:84495302 original size:13 final size:13
Alignment explanation
Indices: 84495273--84495312 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
84495263 AGATAAAATG
*
84495273 AAAATAAAGAT-A
1 AAAATAAAAATAA
84495285 AAAATAAAAATAA
1 AAAATAAAAATAA
84495298 AAAATAAAAATAA
1 AAAATAAAAATAA
84495311 AA
1 AA
84495313 TAGATGGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:84495314 original size:18 final size:19
Alignment explanation
Indices: 84495246--84495312 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
84495236 ATAAGTCTTC
84495246 AAAAATAAATAA-AAGAAAGAT
1 AAAAATAAA-AATAA-AAA-AT
* *
84495267 -AAAATGAAAAT-AAAGAT
1 AAAAATAAAAATAAAAAAT
84495284 AAAAATAAAAATAAAAAAT
1 AAAAATAAAAATAAAAAAT
84495303 AAAAATAAAA
1 AAAAATAAAA
84495313 TAGATGGACT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.05
18 12 0.31
19 18 0.46
20 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAATAAAAAAT
Found at i:84507364 original size:17 final size:17
Alignment explanation
Indices: 84507344--84507381 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
84507334 TTTTATTAAG
84507344 TTTTTAAGATTCATTCA
1 TTTTTAAGATTCATTCA
*
84507361 TTTTTAAGATTCATTTA
1 TTTTTAAGATTCATTCA
84507378 TTTT
1 TTTT
84507382 CCTTTTCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (17 bp):
TTTTTAAGATTCATTCA
Found at i:84508846 original size:40 final size:40
Alignment explanation
Indices: 84508791--84508871 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
84508781 AGGACAAGCA
84508791 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
1 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
*
84508831 AATGCTTAAGTGTGGGGGTATTTGATAAATCGTAAATTAT
1 AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
84508871 A
1 A
84508872 CATATTTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (40 bp):
AATGCTTAAGTGTGGGGGTATTTGATAAACCGTAAATTAT
Found at i:84515309 original size:29 final size:29
Alignment explanation
Indices: 84515274--84515347 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
84515264 GTTGTGAGAT
* *
84515274 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
84515303 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
84515332 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84515348 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:84536396 original size:31 final size:32
Alignment explanation
Indices: 84536339--84536400 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
84536329 TAAGTAAACT
84536339 TTAAATCCTAAACCATTTAATATATATAAAGC
1 TTAAATCCTAAACCATTTAATATATATAAAGC
84536371 TTAAATCCTAAACCATTT-ATATATATAAAG
1 TTAAATCCTAAACCATTTAATATATATAAAG
84536401 TCTAATCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (32 bp):
TTAAATCCTAAACCATTTAATATATATAAAGC
Found at i:84536500 original size:22 final size:22
Alignment explanation
Indices: 84536456--84536501 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
84536446 CTTAAACCCC
* *
84536456 AACCCTTAAACCATAATCCTTA
1 AACCCATAAACCATAAACCTTA
* *
84536478 AACCCATAATCCATAAACTTTA
1 AACCCATAAACCATAAACCTTA
84536500 AA
1 AA
84536502 ATAGTAACTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCATAAACCATAAACCTTA
Found at i:84536554 original size:14 final size:14
Alignment explanation
Indices: 84536520--84536564 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
84536510 TCATACACTT
* *
84536520 TAAACTCTAAACCA
1 TAAACCCTAAACTA
* *
84536534 TATACCCTAAATTA
1 TAAACCCTAAACTA
84536548 TAAACCCTAAACTA
1 TAAACCCTAAACTA
84536562 TAA
1 TAA
84536565 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:84536697 original size:21 final size:22
Alignment explanation
Indices: 84536658--84536698 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
84536648 CTAATTAATC
84536658 TAAACCCTAAACTCATAATCTT
1 TAAACCCTAAACTCATAATCTT
*
84536680 TAAATCCTAAAC-CATAATC
1 TAAACCCTAAACTCATAATC
84536699 CTAAAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAACCCTAAACTCATAATCTT
Found at i:84536778 original size:25 final size:25
Alignment explanation
Indices: 84536733--84536780 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
84536723 AACACTTAAA
*
84536733 CCTTAAATCACAACCCTTAAACCAC
1 CCTTAAACCACAACCCTTAAACCAC
*
84536758 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCACAA-CCCTTAAACC
84536781 CATATCTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (25 bp):
CCTTAAACCACAACCCTTAAACCAC
Found at i:84536828 original size:28 final size:29
Alignment explanation
Indices: 84536761--84536829 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
84536751 AAACCACCCT
* *
84536761 TAAACCATAATCCCTAAACCCATATCTCA
1 TAAACCATAAACCCTAAACCCATATATCA
*
84536790 TAAA-CATTAAACCCTTAA-CCATATATCA
1 TAAACCA-TAAACCCTAAACCCATATATCA
*
84536818 TAAACCCTAAAC
1 TAAACCATAAAC
84536830 TATAATGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
TAAACCATAAACCCTAAACCCATATATCA
Found at i:84538187 original size:26 final size:25
Alignment explanation
Indices: 84538094--84538215 Score: 106
Period size: 26 Copynumber: 4.7 Consensus size: 25
84538084 GAACAGATTA
* *
84538094 ATGTGACAGAGTCACCAGATATCAGAT
1 ATGTGGCAGAGCCACCAGATA--AGAT
*
84538121 AATCGTGGCAGA-CCA-CAGA-ATGAT
1 -AT-GTGGCAGAGCCACCAGATAAGAT
*
84538145 ATATGTGCAGAGCCACCAGATAAGAAT
1 ATGTG-GCAGAGCCACCAGATAAG-AT
*
84538172 ATGTGGCAGAGCCACCAGATCAGAT
1 ATGTGGCAGAGCCACCAGATAAGAT
*
84538197 ATTGTGGCATAGCCACCAG
1 A-TGTGGCAGAGCCACCAG
84538216 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
22 2 0.03
23 7 0.09
24 6 0.08
25 7 0.09
26 36 0.46
27 10 0.13
28 4 0.05
29 7 0.09
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (25 bp):
ATGTGGCAGAGCCACCAGATAAGAT
Found at i:84540196 original size:41 final size:40
Alignment explanation
Indices: 84540131--84540236 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
84540121 CGTTACAAGT
*
84540131 GGCGTTTTTT-AAAAGCGCCGGCTAAAGGT-GAACTTATAGC
1 GGCGTTTTTTAAAAAGCGCC-GCTAAAGCTCGAACTT-TAGC
* ** *
84540171 GGCGTTTTTTTAAAAAGCGCCGCTAATGCTCGTTCTTTAGT
1 GGCG-TTTTTTAAAAAGCGCCGCTAAAGCTCGAACTTTAGC
*
84540212 GGCATTTTTTAAAAAGCGCCGCTAA
1 GGCGTTTTTTAAAAAGCGCCGCTAA
84540237 TGCTTATTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
40 25 0.44
41 19 0.33
42 13 0.23
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (40 bp):
GGCGTTTTTTAAAAAGCGCCGCTAAAGCTCGAACTTTAGC
Found at i:84540230 original size:40 final size:40
Alignment explanation
Indices: 84540167--84540260 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
84540157 GGTGAACTTA
* *
84540167 TAGCGGCGTTTTTTTAAAAAGCGCCGCTAATGCTCGTTCTT
1 TAGCGGC-ATTTTTTAAAAAGCGCCGCTAATGCTCATTCTT
* *
84540208 TAGTGGCATTTTTTAAAAAGCGCCGCTAATGCTTATTCTT
1 TAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCATTCTT
*
84540248 TGGCGGCATTTTT
1 TAGCGGCATTTTT
84540261 CATTCAAACG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 41 0.87
41 6 0.13
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.39
Consensus pattern (40 bp):
TAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCATTCTT
Found at i:84561509 original size:19 final size:19
Alignment explanation
Indices: 84561462--84561519 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
84561452 AAAATGATAA
84561462 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
**
84561482 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATGTTTC
84561501 AATCAAGTTAAAATTGTTT
1 AATCAAGTTAAAA-TGTTT
84561520 TAAAACAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:84565768 original size:47 final size:47
Alignment explanation
Indices: 84565648--84565780 Score: 162
Period size: 46 Copynumber: 2.9 Consensus size: 47
84565638 ATAATCTCAC
* * *
84565648 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGCTTCACAT
** *
84565694 CCATAATGAACTCAGAACAAAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* * *
84565740 CCATAGGTGAACTCAGAATGCAACTCAACGAGTTCGAATGC
1 CCATA-ATGAACTCAGAACGCAACTCAACGAGTTCGGATGC
84565781 CTCATAATTC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
46 42 0.57
47 32 0.43
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (47 bp):
CCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:84571148 original size:12 final size:12
Alignment explanation
Indices: 84571131--84571163 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
84571121 CCTTGATAGG
84571131 AAAATTTATTGT
1 AAAATTTATTGT
84571143 AAAATTTATTGT
1 AAAATTTATTGT
84571155 AAAATTTAT
1 AAAATTTAT
84571164 ATATGTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (12 bp):
AAAATTTATTGT
Found at i:84581030 original size:11 final size:11
Alignment explanation
Indices: 84581008--84581040 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
84580998 TTAGTTTAGG
84581008 TTTTCATTTTTC
1 TTTTC-TTTTTC
84581020 TTTTCTTTTTC
1 TTTTCTTTTTC
84581031 TTTTCTTTTT
1 TTTTCTTTTT
84581041 GTTGTAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:84595766 original size:14 final size:15
Alignment explanation
Indices: 84595747--84595802 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
84595737 AATCTTCAAT
84595747 GATATG-CAATCTTA
1 GATATGACAATCTTA
84595761 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
84595778 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
84595796 GATATGA
1 GATATGA
84595803 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:84595791 original size:35 final size:37
Alignment explanation
Indices: 84595745--84595823 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
84595735 ATAATCTTCA
84595745 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
84595781 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
84595817 A-GATATG
1 ATGATATG
84595824 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:84595823 original size:17 final size:19
Alignment explanation
Indices: 84595745--84595816 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
84595735 ATAATCTTCA
84595745 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
84595764 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
84595781 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
84595799 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
84595817 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:84595842 original size:22 final size:22
Alignment explanation
Indices: 84595745--84595839 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
84595735 ATAATCTTCA
84595745 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
84595764 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
84595781 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
84595799 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
84595821 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
84595840 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:84606417 original size:78 final size:78
Alignment explanation
Indices: 84606264--84606557 Score: 421
Period size: 78 Copynumber: 3.8 Consensus size: 78
84606254 CGAAGAAACA
* * * *
84606264 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATA-CAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
*
84606328 GCAGATCCAAGAT
66 GTAGATCCAAGAT
* *
84606341 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
84606406 GTAGATCCAAGAT
66 GTAGATCCAAGAT
* **
84606419 GATTTGGCATCTCTATATTAGACGGGGAGCCGATCAAAGACATAATAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCT-GACCTTCATTGA
*
84606483 AGTATATCCAAGAT
65 AGTAGATCCAAGAT
* * ** *
84606497 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGAAGATATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCAT
84606558 GTGTTTACAT
Statistics
Matches: 193, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
77 39 0.20
78 153 0.79
79 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
GTAGATCCAAGAT
Found at i:84606650 original size:45 final size:45
Alignment explanation
Indices: 84606497--84606770 Score: 286
Period size: 45 Copynumber: 6.1 Consensus size: 45
84606487 TATCCAAGAT
* *
84606497 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGAAGATATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATA-A-CA
* * * * * ** * *
84606544 GATCTGACCT-TCATGTGTTTACATC--AAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
84606589 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
84606634 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* **
84606678 GGTTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
84606723 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
84606768 GAT
1 GAT
84606771 ATTGCCTTCC
Statistics
Matches: 187, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 43 0.23
45 110 0.59
46 5 0.03
47 23 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:84607147 original size:19 final size:19
Alignment explanation
Indices: 84607123--84607194 Score: 96
Period size: 18 Copynumber: 3.9 Consensus size: 19
84607113 ATAATCTTCA
*
84607123 ATGATATACTATCTTAGAT
1 ATGATATACAATCTTAGAT
84607142 ATG--ATACAATCTTAGAT
1 ATGATATACAATCTTAGAT
*
84607159 ATGAT-TGCAATCTTAGAT
1 ATGATATACAATCTTAGAT
*
84607177 ATGATATGCAATCTTAGA
1 ATGATATACAATCTTAGA
84607195 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 16 0.33
18 17 0.35
19 15 0.31
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATACAATCTTAGAT
Found at i:84607148 original size:17 final size:17
Alignment explanation
Indices: 84607128--84607194 Score: 89
Period size: 17 Copynumber: 3.8 Consensus size: 17
84607118 CTTCAATGAT
*
84607128 ATACTATCTTAGATATG
1 ATACAATCTTAGATATG
84607145 ATACAATCTTAGATATG
1 ATACAATCTTAGATATG
*
84607162 ATTGCAATCTTAGATATG
1 A-TACAATCTTAGATATG
84607180 ATATGCAATCTTAGA
1 ATA--CAATCTTAGA
84607195 AGATATGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
17 18 0.41
18 16 0.36
19 10 0.23
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (17 bp):
ATACAATCTTAGATATG
Found at i:84607171 original size:18 final size:18
Alignment explanation
Indices: 84607133--84607194 Score: 99
Period size: 18 Copynumber: 3.4 Consensus size: 18
84607123 ATGATATACT
*
84607133 ATCTTAGATATGA-TACA
1 ATCTTAGATATGATTGCA
84607150 ATCTTAGATATGATTGCA
1 ATCTTAGATATGATTGCA
84607168 ATCTTAGATATGATATGCA
1 ATCTTAGATATGAT-TGCA
84607187 ATCTTAGA
1 ATCTTAGA
84607195 AGATATGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
17 13 0.31
18 17 0.40
19 12 0.29
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
ATCTTAGATATGATTGCA
Found at i:84607483 original size:17 final size:17
Alignment explanation
Indices: 84607461--84607496 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
84607451 CATGTTTCCC
84607461 TAATTTTTT-ATATATTT
1 TAATTTTTTAATA-ATTT
84607478 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
84607495 TA
1 TA
84607497 GTATCATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:84608919 original size:88 final size:88
Alignment explanation
Indices: 84608770--84608945 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
84608760 AAATTTCTAT
84608770 ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
1 ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
84608835 GCATGAAATTATAATATAAGGAA
66 GCATGAAATTATAATATAAGGAA
*
84608858 ATATTTTATGAAGTTTTCTCCTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
1 ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
84608923 GCATGAAATTATAATATAAGGAA
66 GCATGAAATTATAATATAAGGAA
84608946 TTAGAATGTC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (88 bp):
ATATTTTATGAAGTTTTCTACTCATACGTCTCAAGAAAAAATGATTAAGTAAAAATTATGTTTAT
GCATGAAATTATAATATAAGGAA
Found at i:84611338 original size:24 final size:24
Alignment explanation
Indices: 84611311--84611362 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
84611301 TTAGTAAGTC
*
84611311 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
84611335 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
84611359 AAAT
1 AAAT
84611363 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:84613308 original size:24 final size:24
Alignment explanation
Indices: 84613281--84613332 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
84613271 TTAGTAAGTC
*
84613281 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
84613305 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
84613329 AAAT
1 AAAT
84613333 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:84622429 original size:40 final size:39
Alignment explanation
Indices: 84622239--84622422 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 39
84622229 TGAATGATGT
* ** * *
84622239 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * *
84622279 CCGGACTATGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
84622319 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
84622357 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
84622398 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
84622423 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 34 0.28
40 76 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84622444 original size:79 final size:79
Alignment explanation
Indices: 84622291--84622445 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
84622281 GGACTATGAT
* * ** *
84622291 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAAGTACTAA
84622356 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
84622370 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACG-AGTAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAAGTA-C
*
84622433 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
84622446 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.62
80 23 0.35
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAAGTACTAA
ATCCGGGTTAAGTC
Found at i:84634330 original size:41 final size:40
Alignment explanation
Indices: 84634285--84634420 Score: 215
Period size: 41 Copynumber: 3.4 Consensus size: 40
84634275 TTCTGAATCG
*
84634285 ATGAAAAGGTTGAAAAGGATGTTATCCGAAAA-AATGTATCA
1 ATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGA--TATCA
84634326 ATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATCA
1 ATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATCA
84634366 TATGAAAAGGTTG--AAGGATGTTATCCGAAAAGGATATCA
1 -ATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATCA
84634405 ATGAAAAGGTTGAAAA
1 ATGAAAAGGTTGAAAA
84634421 TGATAACAAT
Statistics
Matches: 90, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
38 12 0.13
39 26 0.29
40 7 0.08
41 44 0.49
42 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.24
Consensus pattern (40 bp):
ATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATCA
Found at i:84634425 original size:24 final size:24
Alignment explanation
Indices: 84634392--84634438 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
84634382 GATGTTATCC
*
84634392 GAAAAGGATATCAATGAAAAGGTT
1 GAAAAGGATAACAATGAAAAGGTT
*
84634416 GAAAATGATAACAATGAAAAGGT
1 GAAAAGGATAACAATGAAAAGGT
84634439 CGATATCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.23, T:0.19
Consensus pattern (24 bp):
GAAAAGGATAACAATGAAAAGGTT
Found at i:84634435 original size:39 final size:38
Alignment explanation
Indices: 84634321--84634437 Score: 110
Period size: 39 Copynumber: 3.0 Consensus size: 38
84634311 CGAAAAAATG
* ***
84634321 TATCAATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGA
1 TATCAATGAAAAGGTTGAAAATGATAACAT--GAAAAGGA
* * * *
84634361 TATCATATGAAAAGGTTGAAGGATGTTATC-CGAAAAGGA
1 TATCA-ATGAAAAGGTTGAA-AATGATAACATGAAAAGGA
84634400 TATCAATGAAAAGGTTGAAAATGATAACAATGAAAAGG
1 TATCAATGAAAAGGTTGAAAATGATAAC-ATGAAAAGG
84634438 TCGATATCTC
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
37 6 0.10
38 14 0.22
39 20 0.32
40 5 0.08
41 14 0.22
42 4 0.06
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.23
Consensus pattern (38 bp):
TATCAATGAAAAGGTTGAAAATGATAACATGAAAAGGA
Found at i:84643168 original size:21 final size:21
Alignment explanation
Indices: 84643142--84643185 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
84643132 TTGACCAAGC
84643142 ATGATGTTTTAAGTATGTAAA
1 ATGATGTTTTAAGTATGTAAA
84643163 ATGATGTTTTAAGTATGTAAA
1 ATGATGTTTTAAGTATGTAAA
84643184 AT
1 AT
84643186 ATGATATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (21 bp):
ATGATGTTTTAAGTATGTAAA
Found at i:84646828 original size:12 final size:12
Alignment explanation
Indices: 84646795--84646835 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
84646785 ACTACCAAAC
84646795 ATTTAATCACA-
1 ATTTAATCACAT
84646806 ATGTTAA-CACAT
1 AT-TTAATCACAT
84646818 ATTTAATCACAT
1 ATTTAATCACAT
*
84646830 AATTAA
1 ATTTAA
84646836 CCATGAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (12 bp):
ATTTAATCACAT
Found at i:84648282 original size:40 final size:40
Alignment explanation
Indices: 84648224--84648341 Score: 155
Period size: 40 Copynumber: 3.0 Consensus size: 40
84648214 ATTATGTTTG
* *
84648224 GCACTTAGTGTGCATATTGAAATAGCTTTGGCTATATAAA
1 GCACTTAGTGTGCGTATTGAAATAGCTTAGGCTATATAAA
* *
84648264 GCACTTAGTGTGCGTATTGAGATAACTTAGGCTATATAAA
1 GCACTTAGTGTGCGTATTGAAATAGCTTAGGCTATATAAA
* * * * *
84648304 GCAATTAGTGTGCGAATAGGAATAGCTTCGGCTATATA
1 GCACTTAGTGTGCGTATTGAAATAGCTTAGGCTATATA
84648342 TATATATAGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGTATTGAAATAGCTTAGGCTATATAAA
Found at i:84651600 original size:10 final size:10
Alignment explanation
Indices: 84651587--84651635 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
84651577 TTTATTTTCT
84651587 TTTATCTTTA
1 TTTATCTTTA
84651597 TTTATCTTTA
1 TTTATCTTTA
*
84651607 GTTT-TATTTA
1 -TTTATCTTTA
84651617 TTTAT-TTGTA
1 TTTATCTT-TA
84651627 TTTATCTTT
1 TTTATCTTT
84651636 TAGAATTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 5 0.15
10 24 0.71
11 5 0.15
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.71
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:84652361 original size:17 final size:18
Alignment explanation
Indices: 84652329--84652362 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84652319 TTTTTTCTAT
*
84652329 TTTAATTTATGCAATTTA
1 TTTAATTTACGCAATTTA
84652347 TTTAATTT-CGCAATTT
1 TTTAATTTACGCAATTT
84652363 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTACGCAATTTA
Found at i:84655352 original size:19 final size:19
Alignment explanation
Indices: 84655325--84655363 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
84655315 TGATTCAATC
84655325 TTCAATTCA-ATTACTTTTG
1 TTCAATTCAGA-TACTTTTG
*
84655344 TTCAGTTCAGATACTTTTG
1 TTCAATTCAGATACTTTTG
84655363 T
1 T
84655364 ATCCAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.51
Consensus pattern (19 bp):
TTCAATTCAGATACTTTTG
Found at i:84669244 original size:46 final size:48
Alignment explanation
Indices: 84669172--84669291 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
84669162 GACAGGACAG
* * * *
84669172 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGATCCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
84669218 GACAGGAATGATCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGATCCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
84669266 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGATCCATGTAAGTCCAT
84669292 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 26 0.41
47 1 0.02
48 36 0.57
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (48 bp):
GACAGGAATGATCCATGTAAGTCCATATCATATATATATGGCATTGGA
Found at i:84669877 original size:67 final size:67
Alignment explanation
Indices: 84669799--84669935 Score: 274
Period size: 67 Copynumber: 2.0 Consensus size: 67
84669789 ATTAGCTAAT
84669799 AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
1 AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
84669864 TA
66 TA
84669866 AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
1 AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
84669931 TA
66 TA
84669933 AGA
1 AGA
84669936 AAAATGTGAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (67 bp):
AGAGTGGCTGATGATATACATGTTTAATAGTATGTATGATTAAGTAGTAACTACCACATGAAAAC
TA
Found at i:84673145 original size:28 final size:28
Alignment explanation
Indices: 84673105--84673183 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
84673095 GCAGTTAAAT
* *
84673105 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
**
84673133 ATGGCACTTAGTGTGCGCGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
84673161 ATGACACTTAGTGTGCGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
84673184 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:84678046 original size:40 final size:40
Alignment explanation
Indices: 84677993--84678117 Score: 142
Period size: 40 Copynumber: 3.1 Consensus size: 40
84677983 CGTTTGAATG
* * *
84677993 AAAAACACGGCTAAAGAACAAGCATTAGCGGCGCTTTTTA
1 AAAAACACCGCTAAAGATCAAGTATTAGCGGCGCTTTTTA
* * * * **
84678033 AAAAACGCCGCTAAAGATCGAGTATTAGCGGTGCTGTACA
1 AAAAACACCGCTAAAGATCAAGTATTAGCGGCGCTTTTTA
* * *
84678073 AAAAACACCGCTAAAGATCAAGTATTAGCAGCACTTTTTT
1 AAAAACACCGCTAAAGATCAAGTATTAGCGGCGCTTTTTA
84678113 AAAAA
1 AAAAA
84678118 TGTCGTTATC
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (40 bp):
AAAAACACCGCTAAAGATCAAGTATTAGCGGCGCTTTTTA
Found at i:84678299 original size:40 final size:40
Alignment explanation
Indices: 84678237--84678322 Score: 138
Period size: 40 Copynumber: 2.1 Consensus size: 40
84678227 AGATCGAGTA
*
84678237 TTAGCGGCACTTTTTAAGAAACGCCGCTATAAGTACACCT
1 TTAGCGGCACTTTTTAAGAAACGCCACTATAAGTACACCT
*
84678277 TTAGCGGCACTTTTTGAA-AAACGCCACTATATGTACACCT
1 TTAGCGGCACTTTTT-AAGAAACGCCACTATAAGTACACCT
84678317 TTAGCG
1 TTAGCG
84678323 TTGTTTTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 41 0.95
41 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (40 bp):
TTAGCGGCACTTTTTAAGAAACGCCACTATAAGTACACCT
Found at i:84681165 original size:26 final size:26
Alignment explanation
Indices: 84681134--84681215 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
84681124 TGAAATGCCC
84681134 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
84681160 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
84681186 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
84681212 ATCA
1 ATCA
84681216 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:84681836 original size:21 final size:21
Alignment explanation
Indices: 84681790--84681841 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
84681780 TTAATTATCA
* *
84681790 TTATAGTTTAGGGTTTATGAT
1 TTATGGTTAAGGGTTTATGAT
*
84681811 ATATGGTTAAGGGTTTAATG-T
1 TTATGGTTAAGGGTTT-ATGAT
84681832 TTATGAGTTA
1 TTATG-GTTA
84681842 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGAT
Found at i:84681889 original size:15 final size:15
Alignment explanation
Indices: 84681853--84681885 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
84681843 TATTTTAAGT
*
84681853 TTTATGGATTATAGG
1 TTTAGGGATTATAGG
84681868 TTTAGGGATTAT-GG
1 TTTAGGGATTATAGG
84681882 TTTA
1 TTTA
84681886 AGGGTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
TTTAGGGATTATAGG
Found at i:84681975 original size:14 final size:14
Alignment explanation
Indices: 84681956--84682010 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
84681946 ATGGTCAGGG
*
84681956 TTTATGTTTTAGGA
1 TTTATGGTTTAGGA
*
84681970 TTTATGGTTTAGGG
1 TTTATGGTTTAGGA
*
84681984 TTTATGGATTAGGA
1 TTTATGGTTTAGGA
*
84681998 GTTTAGGGTTTAG
1 -TTTATGGTTTAG
84682011 ATTAATTAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
14 24 0.71
15 10 0.29
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TTTATGGTTTAGGA
Found at i:84681985 original size:7 final size:7
Alignment explanation
Indices: 84681904--84682010 Score: 56
Period size: 7 Copynumber: 15.1 Consensus size: 7
84681894 TTAAGGGTTG
84681904 GGGTTTA
1 GGGTTTA
*
84681911 AGGTTTA
1 GGGTTTA
84681918 GGTGTTCT-
1 GG-GTT-TA
*
84681926 GGGTTAA
1 GGGTTTA
*
84681933 GGGTTAA
1 GGGTTTA
* *
84681940 TGGTTCA
1 GGGTTTA
* *
84681947 TGG-TCA
1 GGGTTTA
84681953 GGGTTTA
1 GGGTTTA
* *
84681960 TGTTTTA
1 GGGTTTA
*
84681967 GGATTTA
1 GGGTTTA
*
84681974 TGGTTTA
1 GGGTTTA
84681981 GGGTTTA
1 GGGTTTA
* *
84681988 TGGATTA
1 GGGTTTA
84681995 GGAGTTTA
1 GG-GTTTA
84682003 GGGTTTA
1 GGGTTTA
84682010 G
1 G
84682011 ATTAATTAGT
Statistics
Matches: 77, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
6 5 0.06
7 60 0.78
8 11 0.14
9 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:84682186 original size:15 final size:15
Alignment explanation
Indices: 84682166--84682213 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
84682156 ACTGTTTTAA
*
84682166 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
84682181 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
* * *
84682195 GATTTAGGGTTTAAG
1 GGTTTAGGGATTATG
84682210 GGTT
1 GGTT
84682214 GAGGTTTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:84682186 original size:22 final size:21
Alignment explanation
Indices: 84682162--84682210 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
84682152 AGTTACTGTT
*
84682162 TTAAGGTTTATGGA-TTATGGGT
1 TTAAGGATTAT-GATTTA-GGGT
*
84682184 TTAGGGATTATGATTTAGGGT
1 TTAAGGATTATGATTTAGGGT
84682205 TTAAGG
1 TTAAGG
84682211 GTTGAGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (21 bp):
TTAAGGATTATGATTTAGGGT
Found at i:84682243 original size:21 final size:21
Alignment explanation
Indices: 84682205--84682244 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
84682195 GATTTAGGGT
*
84682205 TTAAGGGTTGAGGTTTAAGGC
1 TTAAGGGTTGAGGGTTAAGGC
84682226 TTAAGGGTT-AGGAGTTAAG
1 TTAAGGGTTGAGG-GTTAAG
84682245 TGTTAGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.28, C:0.03, G:0.38, T:0.33
Consensus pattern (21 bp):
TTAAGGGTTGAGGGTTAAGGC
Found at i:84682298 original size:14 final size:14
Alignment explanation
Indices: 84682110--84682298 Score: 55
Period size: 14 Copynumber: 13.4 Consensus size: 14
84682100 TATCATTATA
*
84682110 GTTTAGGGTTTATG
1 GTTTAGGGTTTAGG
*
84682124 GTTTAAGGTTTAGG
1 GTTTAGGGTTTAGG
** * *
84682138 GTTTAAAGTGTATGA
1 GTTTAGGGTTTA-GG
* * *
84682153 G-TTACTGTTTTAAG
1 GTTTA-GGGTTTAGG
* *
84682167 GTTTATGGATTATGG
1 GTTTAGGGTTTA-GG
* *
84682182 GTTTAGGGATTATG
1 GTTTAGGGTTTAGG
*
84682196 ATTTAGGGTTTAAGG
1 GTTTAGGGTTT-AGG
*
84682211 GTTGA-GGTTTAAGG
1 GTTTAGGGTTT-AGG
* *
84682225 CTTAAGGG-TTAGG
1 GTTTAGGGTTTAGG
* *
84682238 AGTTAAGTG-TTAGG
1 -GTTTAGGGTTTAGG
* *
84682252 TTTTTAGGGTTTAGA
1 -GTTTAGGGTTTAGG
* * *
84682267 GATTA-TGTTTATG
1 GTTTAGGGTTTAGG
*
84682280 ATTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
84682294 GTTTA
1 GTTTA
84682299 AAGGATAGGG
Statistics
Matches: 126, Mismatches: 40, Indels: 18
0.68 0.22 0.10
Matches are distributed among these distances:
13 11 0.09
14 84 0.67
15 31 0.25
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAGG
Found at i:84682758 original size:31 final size:31
Alignment explanation
Indices: 84682714--84682774 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
84682704 ATGTGTATGA
*
84682714 TTAAATCAAAATTA-AAGTTTCA-ACTATACAT
1 TTAAACCAAAATTAGAA-TTTCACA-TATACAT
*
84682745 TTAAACCACAATTAGAATTTCACATATACA
1 TTAAACCAAAATTAGAATTTCACATATACA
84682775 ATTACACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (31 bp):
TTAAACCAAAATTAGAATTTCACATATACAT
Found at i:84684608 original size:49 final size:50
Alignment explanation
Indices: 84684542--84684687 Score: 195
Period size: 51 Copynumber: 2.9 Consensus size: 50
84684532 GTAGCCAAAC
* * *
84684542 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACGTGCGACCAA-T
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGT
* * * *
84684591 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAGT
* *
84684642 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
84684688 TAGCTACATA
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 38 0.46
50 4 0.05
51 40 0.49
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (50 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGT
Found at i:84685500 original size:30 final size:30
Alignment explanation
Indices: 84685466--84685526 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
84685456 TCCTTAACTC
84685466 AAACTTTTGAAAATTTACAATTTTGCCCCT
1 AAACTTTTGAAAATTTACAATTTTGCCCCT
* * *
84685496 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAATTTACAATTTTGCCCCT
84685526 A
1 A
84685527 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGAAAATTTACAATTTTGCCCCT
Found at i:84686641 original size:7 final size:7
Alignment explanation
Indices: 84686603--84686627 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
84686593 AAACTTAAAA
84686603 ATTTAAT
1 ATTTAAT
84686610 ATTTAAT
1 ATTTAAT
84686617 ATTTAAT
1 ATTTAAT
84686624 ATTT
1 ATTT
84686628 TAGTTCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTAAT
Found at i:84686753 original size:16 final size:18
Alignment explanation
Indices: 84686724--84686765 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
84686714 AAAAAAATAG
84686724 AAAAAATATGTTAAAAAT
1 AAAAAATATGTTAAAAAT
*
84686742 AAAAAAT-T-TTAAAATT
1 AAAAAATATGTTAAAAAT
*
84686758 AAACAATA
1 AAAAAATA
84686766 GTACAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 13 0.62
17 1 0.05
18 7 0.33
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAAATATGTTAAAAAT
Found at i:84690304 original size:15 final size:16
Alignment explanation
Indices: 84690284--84690314 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
84690274 GTTTTTGTCT
84690284 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
84690299 TATATATGATCTAAAA
1 TATATATGATCTAAAA
84690315 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:84691868 original size:43 final size:43
Alignment explanation
Indices: 84691813--84691895 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
84691803 TTTAGTTGCG
* * * *
84691813 TTTTTAGGAAAAGCGCCACTAAAGGTCCTGATCTTTAGCGACA
1 TTTTTAGGAAAAGCACCACTAAAGATCATGACCTTTAGCGACA
84691856 TTTTT-GGAAAAAGCACCACTAAAGATCATGACCTTTAGCG
1 TTTTTAGG-AAAAGCACCACTAAAGATCATGACCTTTAGCG
84691896 GCCTCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.06
43 33 0.94
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (43 bp):
TTTTTAGGAAAAGCACCACTAAAGATCATGACCTTTAGCGACA
Found at i:84692208 original size:12 final size:12
Alignment explanation
Indices: 84692191--84692231 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
84692181 ATAACATTAA
*
84692191 TAATATCCATAC
1 TAATATACATAC
84692203 TAATATACATAC
1 TAATATACATAC
84692215 ATAATATACATAC
1 -TAATATACATAC
84692228 TAAT
1 TAAT
84692232 TTATCAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATATACATAC
Found at i:84692212 original size:25 final size:25
Alignment explanation
Indices: 84692154--84692231 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 25
84692144 TGTCACATAC
* *
84692154 CATACATAACATACACACTAATATA
1 CATACATAATATACATACTAATATA
84692179 TCATAACATTAATAATATCCATACTAATATA
1 -CAT-ACA-TAAT-ATA--CATACTAATATA
84692210 CATACATAATATACATACTAAT
1 CATACATAATATACATACTAAT
84692232 TTATCAATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
25 9 0.20
26 3 0.07
27 6 0.13
28 7 0.16
29 6 0.13
30 3 0.07
31 11 0.24
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (25 bp):
CATACATAATATACATACTAATATA
Found at i:84692580 original size:43 final size:43
Alignment explanation
Indices: 84692429--84692594 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 43
84692419 CGATATAGAT
* * * * *
84692429 AACGCCGCTAAAAGTCATGGCCTTTAGCGGCGATTTCCCCACA
1 AACGCCGCTAAAAGTCATGACCTTTAGCGACGCTTTTCCCAAA
* * * * *
84692472 AACGCCGCTAAAGGTCATGGCCTTTACCGACACTTTT-CCTAA
1 AACGCCGCTAAAAGTCATGACCTTTAGCGACGCTTTTCCCAAA
* * * * *
84692514 AACACCACTAAAAATAATAACCTTTAGCGACGCTTTTCCCAAA
1 AACGCCGCTAAAAGTCATGACCTTTAGCGACGCTTTTCCCAAA
* * * *
84692557 AACGCCCCTAAAAGTTATGACCTTTAACAACGCTTTTC
1 AACGCCGCTAAAAGTCATGACCTTTAGCGACGCTTTTC
84692595 TTAAAAATAC
Statistics
Matches: 97, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 31 0.32
43 66 0.68
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (43 bp):
AACGCCGCTAAAAGTCATGACCTTTAGCGACGCTTTTCCCAAA
Found at i:84692601 original size:43 final size:43
Alignment explanation
Indices: 84692433--84692619 Score: 133
Period size: 43 Copynumber: 4.4 Consensus size: 43
84692423 ATAGATAACG
* * * * * * * * *
84692433 CCGCTAAAAGTCATGGCCTTTAGCGGCGATTTCCCCACAAACG
1 CCGCTAAAAGTTATGACCTTTAACGACGCTTTTCCTAAAAACA
* * * * *
84692476 CCGCTAAAGGTCATGGCCTTTACCGACACTTTTCCT-AAAACA
1 CCGCTAAAAGTTATGACCTTTAACGACGCTTTTCCTAAAAACA
* * * * * * *
84692518 CCACTAAAAATAATAACCTTTAGCGACGCTTTTCCCAAAAACG
1 CCGCTAAAAGTTATGACCTTTAACGACGCTTTTCCTAAAAACA
* * * *
84692561 CCCCTAAAAGTTATGACCTTTAACAACGCTTTTCTTAAAAATA
1 CCGCTAAAAGTTATGACCTTTAACGACGCTTTTCCTAAAAACA
*
84692604 CCGCTAAAGGTTATGA
1 CCGCTAAAAGTTATGA
84692620 AATTTAAAAA
Statistics
Matches: 112, Mismatches: 31, Indels: 2
0.77 0.21 0.01
Matches are distributed among these distances:
42 31 0.28
43 81 0.72
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
CCGCTAAAAGTTATGACCTTTAACGACGCTTTTCCTAAAAACA
Found at i:84692785 original size:19 final size:19
Alignment explanation
Indices: 84692740--84692786 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
84692730 ATTAAATTAA
*
84692740 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
84692759 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
84692778 AATAAAAAT
1 AATAAAAAT
84692787 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:84692810 original size:31 final size:32
Alignment explanation
Indices: 84692730--84692810 Score: 100
Period size: 31 Copynumber: 2.6 Consensus size: 32
84692720 AAAATTTTCT
84692730 ATTAAAT-TAAAATAAA-AATAAAAATATAGA
1 ATTAAATATAAAATAAATAATAAAAATATAGA
*
84692760 ATCAAA-ACTAAAATAAATAATAAAAAT-TAG-
1 ATTAAATA-TAAAATAAATAATAAAAATATAGA
84692790 ATTAAATATAAATATAAATAA
1 ATTAAATATAAA-ATAAATAA
84692811 AATACAGCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
30 14 0.32
31 21 0.48
32 9 0.20
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (32 bp):
ATTAAATATAAAATAAATAATAAAAATATAGA
Found at i:84698070 original size:17 final size:18
Alignment explanation
Indices: 84698037--84698070 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84698027 TATTTCTTAA
84698037 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
84698055 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
84698071 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:84698503 original size:7 final size:7
Alignment explanation
Indices: 84698493--84698584 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
84698483 GTAAAACAAA
*
84698493 AAACCAC
1 AAACCAT
84698500 AAACTC-T
1 AAAC-CAT
84698507 AAACCAT
1 AAACCAT
84698514 AAACCAT
1 AAACCAT
*
84698521 AAACCAA
1 AAACCAT
84698528 AAACTC-T
1 AAAC-CAT
*
84698535 AAACCAA
1 AAACCAT
*
84698542 AAACAAT
1 AAACCAT
84698549 AAA-CAT
1 AAACCAT
* *
84698555 TATCTCAT
1 AAAC-CAT
*
84698563 AAACCCT
1 AAACCAT
*
84698570 AAATCCCT
1 AAA-CCAT
84698578 AAACCAT
1 AAACCAT
84698585 GGACATTAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
6 5 0.08
7 46 0.71
8 14 0.22
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCAT
Found at i:84698510 original size:14 final size:14
Alignment explanation
Indices: 84698493--84698545 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
84698483 GTAAAACAAA
*
84698493 AAACCACAAACTCT
1 AAACCAAAAACTCT
*
84698507 AAACCATAAAC-CAT
1 AAACCAAAAACTC-T
84698521 AAACCAAAAACTCT
1 AAACCAAAAACTCT
84698535 AAACCAAAAAC
1 AAACCAAAAAC
84698546 AATAAACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 1 0.03
14 33 0.94
15 1 0.03
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.11
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:84698517 original size:28 final size:28
Alignment explanation
Indices: 84698485--84698552 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
84698475 TACTAACTGT
* *
84698485 AAAACAAAAAACCACAAACTCTAAACCA
1 AAAACAATAAACCAAAAACTCTAAACCA
* *
84698513 TAAACCATAAACCAAAAACTCTAAACCA
1 AAAACAATAAACCAAAAACTCTAAACCA
84698541 AAAACAATAAAC
1 AAAACAATAAAC
84698553 ATTATCTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.63, C:0.26, G:0.00, T:0.10
Consensus pattern (28 bp):
AAAACAATAAACCAAAAACTCTAAACCA
Found at i:84698551 original size:14 final size:14
Alignment explanation
Indices: 84698485--84698552 Score: 64
Period size: 14 Copynumber: 4.9 Consensus size: 14
84698475 TACTAACTGT
*
84698485 AAAACAAAAAACCA
1 AAAACAATAAACCA
* **
84698499 CAAACTCTAAACCA
1 AAAACAATAAACCA
* *
84698513 TAAACCATAAACCA
1 AAAACAATAAACCA
**
84698527 AAAACTCTAAACCA
1 AAAACAATAAACCA
84698541 AAAACAATAAAC
1 AAAACAATAAAC
84698553 ATTATCTCAT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.63, C:0.26, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAACAATAAACCA
Found at i:84699187 original size:14 final size:15
Alignment explanation
Indices: 84699159--84699196 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
84699149 TACCATATTT
84699159 ACCTCTAAACCCCAA
1 ACCTCTAAACCCCAA
*
84699174 ACCTC-AAACTCCAA
1 ACCTCTAAACCCCAA
84699188 ACC-CTAAAC
1 ACCTCTAAAC
84699197 TCTAGGCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 15 0.71
15 5 0.24
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (15 bp):
ACCTCTAAACCCCAA
Found at i:84699328 original size:40 final size:41
Alignment explanation
Indices: 84699253--84699474 Score: 315
Period size: 41 Copynumber: 5.5 Consensus size: 41
84699243 TTTTGTGGCA
84699253 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
*
84699294 TTTTTCAAAAAGCGCCGCT-AAAGCTCGATCTATAGCGGTG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
* ** *
84699334 TTTTTCAAAAAACGCCGCTAAAAGCTCGATCTATAGTTGTG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
* * *
84699375 TTTCTCCAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
* * *
84699416 TTTTTCCAAAAGCG-CGCTAAAACCTCGACCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
*
84699456 TTTTTC-CAAAGCGCCGCTA
1 TTTTTCAAAAAGCGCCGCTA
84699475 TTGTTCAGTT
Statistics
Matches: 165, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 6 0.04
40 74 0.45
41 85 0.52
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (41 bp):
TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCG
Found at i:84699350 original size:81 final size:80
Alignment explanation
Indices: 84699253--84699474 Score: 311
Period size: 81 Copynumber: 2.8 Consensus size: 80
84699243 TTTTGTGGCA
*
84699253 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAAGC
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCGTTTTTC-AAAAGCGCCGCTAAACC
*
84699318 TCGATCTATAGCGGTG
65 TCGATCTATAGCGGCG
* ** * *
84699334 TTTTTCAAAAAACGCCGCTAAAAGCTCGATCTATAGTTGTGTTTCTCCAAAAGCGCCGCTAAAAC
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCGTTT-TTCAAAAGCGCCGCT-AAAC
84699399 CTCGATCTATAGCGGCG
64 CTCGATCTATAGCGGCG
* * * *
84699416 TTTTTCCAAAAGCG-CGCTAAAACCTCGACCTATAGCGGCGTTTTTCCAAAGCGCCGCTA
1 TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCGTTTTTCAAAAGCGCCGCTA
84699475 TTGTTCAGTT
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 13 0.11
81 76 0.62
82 33 0.27
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
TTTTTCAAAAAGCGCCGCTAAAAGCTCGATCTATAGCGGCGTTTTTCAAAAGCGCCGCTAAACCT
CGATCTATAGCGGCG
Found at i:84699524 original size:41 final size:40
Alignment explanation
Indices: 84699467--84699579 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 40
84699457 TTTTCCAAAG
* *
84699467 CGCCGCTATTGTTCAGTTTTTAGCGGCGTTTGGACCAAAAA
1 CGCCGCTATTGCTCAGTTTTTA-CGGCGTTTAGACCAAAAA
* * *
84699508 TGCCGCTATTGCTCAGTTTATAACGGCGCTTAGACCAAAAA
1 CGCCGCTATTGCTCAGTTT-TTACGGCGTTTAGACCAAAAA
* * *
84699549 CGCTGCTATTACTTAGTTTTTTACGGCGTTT
1 CGCCGCTATTGCTCAG-TTTTTACGGCGTTT
84699580 TTTTGCAAAC
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 54 0.92
42 5 0.08
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (40 bp):
CGCCGCTATTGCTCAGTTTTTACGGCGTTTAGACCAAAAA
Found at i:84699703 original size:18 final size:17
Alignment explanation
Indices: 84699682--84699717 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
84699672 AAAAAATAAC
84699682 AATACAATATATAATACA
1 AATACAATATATAA-ACA
84699700 AATACAATATATAAACA
1 AATACAATATATAAACA
84699717 A
1 A
84699718 CGAAGACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (17 bp):
AATACAATATATAAACA
Found at i:84700232 original size:22 final size:23
Alignment explanation
Indices: 84700182--84700235 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
84700172 ATGGATTTTG
* *
84700182 ATTTTAATGAATTTAATAAATGA
1 ATTTTAATAAATTTAACAAATGA
*
84700205 A-GTTAATAAATTTAACAAAT-A
1 ATTTTAATAAATTTAACAAATGA
84700226 ATTTTAATAA
1 ATTTTAATAA
84700236 TTTTTTTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 23 0.88
23 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (23 bp):
ATTTTAATAAATTTAACAAATGA
Found at i:84710207 original size:19 final size:20
Alignment explanation
Indices: 84710176--84710224 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
84710166 TATCTTAACC
*
84710176 ATTAAATCTAAAAA-AAT-T
1 ATTAAAACTAAAAATAATAT
84710194 ATTACAAACTAAAAATAATAT
1 ATTA-AAACTAAAAATAATAT
84710215 ATTAAAACTA
1 ATTAAAACTA
84710225 TCTTAATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 4 0.15
19 9 0.33
20 9 0.33
21 5 0.19
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
ATTAAAACTAAAAATAATAT
Found at i:84713231 original size:19 final size:19
Alignment explanation
Indices: 84713204--84713250 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
84713194 GTTATTATTT
* *
84713204 TTTATTAAATAAAATAATC
1 TTTACTAAATAAAATAATA
* *
84713223 TTTACTAAATGAAATTATA
1 TTTACTAAATAAAATAATA
84713242 TTT-CTAAAT
1 TTTACTAAAT
84713251 TTAATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTACTAAATAAAATAATA
Found at i:84714514 original size:16 final size:15
Alignment explanation
Indices: 84714493--84714531 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
84714483 TCTAAATACA
84714493 AGTTATTCCAAACAAT
1 AGTTATTCCAAAC-AT
*
84714509 AGTTATTCTAAACAT
1 AGTTATTCCAAACAT
*
84714524 AGCTATTC
1 AGTTATTC
84714532 TTGAAATGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (15 bp):
AGTTATTCCAAACAT
Done.