Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 71 of 345
Found at i:22631951 original size:18 final size:18
Alignment explanation
Indices: 22631916--22631954 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22631906 TTTAATAAAA
*
22631916 TTATTTAATATTAGAATT
1 TTATTTAATAATAGAATT
22631934 TTATTCTAATAATA-AATT
1 TTATT-TAATAATAGAATT
22631952 TTA
1 TTA
22631955 ACATTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTATTTAATAATAGAATT
Found at i:22635683 original size:23 final size:23
Alignment explanation
Indices: 22635653--22635698 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22635643 AGTTATTCGA
*
22635653 ATCAACTCAAATAAAAAATTAAG
1 ATCAACTCAAATAAAAAAATAAG
*
22635676 ATCAACTCGAATAAAAAAATAAG
1 ATCAACTCAAATAAAAAAATAAG
22635699 TTTTTTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.61, C:0.13, G:0.07, T:0.20
Consensus pattern (23 bp):
ATCAACTCAAATAAAAAAATAAG
Found at i:22637955 original size:18 final size:18
Alignment explanation
Indices: 22637932--22637971 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22637922 GTCAGACATG
* *
22637932 GAGGAAAGGGATATAATT
1 GAGGAAAAGGATATAATC
22637950 GAGGAAAAGGATATAATC
1 GAGGAAAAGGATATAATC
22637968 GAGG
1 GAGG
22637972 GTGATACTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.35, T:0.17
Consensus pattern (18 bp):
GAGGAAAAGGATATAATC
Found at i:22640619 original size:19 final size:21
Alignment explanation
Indices: 22640576--22640619 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
22640566 TATAATATTA
22640576 TAAT-ATTATTTTACATGAAT
1 TAATAATTATTTTACATGAAT
22640596 T-ATAATTA-TTTA-ATGAAT
1 TAATAATTATTTTACATGAAT
22640614 TAATAA
1 TAATAA
22640620 ATACATGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.32
19 10 0.45
20 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
TAATAATTATTTTACATGAAT
Found at i:22642330 original size:12 final size:12
Alignment explanation
Indices: 22642313--22642345 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
22642303 TGGCCTGGCC
22642313 ATATTAATTTTT
1 ATATTAATTTTT
22642325 ATATT-ATTTTT
1 ATATTAATTTTT
22642336 ATA-TAATTTT
1 ATATTAATTTT
22642346 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:22644292 original size:20 final size:20
Alignment explanation
Indices: 22644267--22644317 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
22644257 AAAATTACAA
22644267 AAAAATCAAAAATAAATTTC
1 AAAAATCAAAAATAAATTTC
** * *
22644287 AAAAATTGAAAATAATTTTT
1 AAAAATCAAAAATAAATTTC
*
22644307 AAAATTCAAAA
1 AAAAATCAAAA
22644318 TATTTTTATA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATCAAAAATAAATTTC
Found at i:22644303 original size:19 final size:19
Alignment explanation
Indices: 22644275--22644319 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22644265 AAAAAAATCA
*
22644275 AAAATAAATTTCAAAAATTG
1 AAAAT-AATTTCAAAAATTC
**
22644295 AAAATAATTTTTAAAATTC
1 AAAATAATTTCAAAAATTC
22644314 AAAATA
1 AAAATA
22644320 TTTTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATAATTTCAAAAATTC
Found at i:22644329 original size:20 final size:21
Alignment explanation
Indices: 22644287--22644346 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 21
22644277 AATAAATTTC
* *
22644287 AAAAATTGAAAATAATTTT-T
1 AAAAATTCAAAATATTTTTAT
22644307 -AAAATTCAAAATATTTTTAT
1 AAAAATTCAAAATATTTTTAT
*
22644327 AAAAATTCTAAA-ATTTTTAT
1 AAAAATTCAAAATATTTTTAT
22644347 TTTTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 16 0.46
20 9 0.26
21 10 0.29
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAAATTCAAAATATTTTTAT
Found at i:22644350 original size:26 final size:27
Alignment explanation
Indices: 22644318--22644369 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
22644308 AAATTCAAAA
*
22644318 TATTTTTAT-AAAAATTCTAAAATTTT
1 TATTTTTATAAAAAATTATAAAATTTT
*
22644344 TATTTTTTTAAAAAATTATAAAATTT
1 TATTTTTATAAAAAATTATAAAATTT
22644370 AAAAAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTTTTATAAAAAATTATAAAATTTT
Found at i:22644366 original size:9 final size:9
Alignment explanation
Indices: 22644354--22644436 Score: 66
Period size: 9 Copynumber: 9.3 Consensus size: 9
22644344 TATTTTTTTA
22644354 AAAAATTAT
1 AAAAATTAT
* *
22644363 AAAATTTAA
1 AAAAATTAT
22644372 AAAAATCTA-
1 AAAAAT-TAT
22644381 AAAAATATAT
1 AAAAAT-TAT
22644391 AAAAATT-T
1 AAAAATTAT
22644399 -AAAATT-T
1 AAAAATTAT
*
22644406 AAAAATTTT
1 AAAAATTAT
*
22644415 AAAAATTTT
1 AAAAATTAT
*
22644424 ATAAAATAAT
1 A-AAAATTAT
22644434 AAA
1 AAA
22644437 TTTGGAATCT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
7 7 0.11
8 7 0.11
9 34 0.54
10 15 0.24
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:22644375 original size:19 final size:18
Alignment explanation
Indices: 22644353--22644410 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
22644343 TTATTTTTTT
22644353 AAAAAATTATAAAATTTA
1 AAAAAATTATAAAATTTA
* *
22644371 AAAAAATCTAAAAAATATA
1 AAAAAAT-TATAAAATTTA
*
22644390 TAAAAATT-TAAAATTTA
1 AAAAAATTATAAAATTTA
22644407 AAAA
1 AAAA
22644411 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 10 0.30
18 8 0.24
19 15 0.45
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAAATTATAAAATTTA
Found at i:22644491 original size:3 final size:3
Alignment explanation
Indices: 22644483--22644508 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22644473 CTAAAATATC
22644483 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
22644509 TTGCTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22648773 original size:32 final size:32
Alignment explanation
Indices: 22648731--22648795 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
22648721 TTTCATTTTT
22648731 TTAACCCTTAACTTGCATTATTTGTCAAATCA
1 TTAACCCTTAACTTGCATTATTTGTCAAATCA
* * * *
22648763 TTAACTCTTAATTTGCATTGTTTGTTAAATCA
1 TTAACCCTTAACTTGCATTATTTGTCAAATCA
22648795 T
1 T
22648796 ATCTACAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (32 bp):
TTAACCCTTAACTTGCATTATTTGTCAAATCA
Found at i:22654304 original size:20 final size:18
Alignment explanation
Indices: 22654267--22654309 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
22654257 CTATATAAAC
22654267 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
22654284 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
22654304 TTACAA
1 TCACAA
22654310 ACTTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:22662287 original size:7 final size:7
Alignment explanation
Indices: 22662275--22662304 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
22662265 TTATTATTAA
22662275 TTGAATT
1 TTGAATT
22662282 TTGAATT
1 TTGAATT
22662289 TTGAATT
1 TTGAATT
*
22662296 TTAAATT
1 TTGAATT
22662303 TT
1 TT
22662305 AAATAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (7 bp):
TTGAATT
Found at i:22677607 original size:21 final size:20
Alignment explanation
Indices: 22677574--22677612 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
22677564 TTAAGATGAC
*
22677574 CACACGGGCGTGTTGCCCTTG
1 CACACGAGCGTG-TGCCCTTG
*
22677595 CACACGAGTGTGTGCCCT
1 CACACGAGCGTGTGCCCT
22677613 GTTTCAAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.33, G:0.31, T:0.23
Consensus pattern (20 bp):
CACACGAGCGTGTGCCCTTG
Found at i:22678373 original size:17 final size:17
Alignment explanation
Indices: 22678351--22678383 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22678341 TAAAATCAAA
22678351 CAGAGCACACAACCGTG
1 CAGAGCACACAACCGTG
*
22678368 CAGAGCACACAGCCGT
1 CAGAGCACACAACCGT
22678384 ATGGTAAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.36, G:0.24, T:0.06
Consensus pattern (17 bp):
CAGAGCACACAACCGTG
Found at i:22687868 original size:25 final size:25
Alignment explanation
Indices: 22687838--22687899 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
22687828 ACATGGCAAT
*
22687838 AATGCTCACACAAGCTATAATTGTA
1 AATGCTCACACAAGCTATAACTGTA
* ** * *
22687863 ATTGCTCACATGAGTTGTAACTGTA
1 AATGCTCACACAAGCTATAACTGTA
22687888 AATGCTCACACA
1 AATGCTCACACA
22687900 GGCTGTGAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AATGCTCACACAAGCTATAACTGTA
Found at i:22689700 original size:46 final size:45
Alignment explanation
Indices: 22689643--22689942 Score: 261
Period size: 46 Copynumber: 6.5 Consensus size: 45
22689633 GATGAGTACT
*
22689643 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGACGTAAGCC
* * * * * *
22689689 AGTATAAGACATGTCTGGAACATGCATCGGCTATGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCT-CGAGACGTAAGCC
* * * * *
22689733 AGTGTAAGACCATCTCTGGGACATGGCATCGGCATTGAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTCGAGACGTA-AGCC
* *
22689781 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGACGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGACGTAAGCC
* * * *
22689827 AGTATAAGACATGTCTGGGACATGCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCT-CGAGACGTAAGCC
*
22689871 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATG-ATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTCG-AGACGTA-AGCC
22689920 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
22689943 CGGCATCGAC
Statistics
Matches: 208, Mismatches: 30, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
44 19 0.09
45 32 0.15
46 98 0.47
47 24 0.12
48 10 0.05
49 25 0.12
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTCGAGACGTAAGCC
Found at i:22689789 original size:92 final size:89
Alignment explanation
Indices: 22689594--22689950 Score: 280
Period size: 92 Copynumber: 3.8 Consensus size: 89
22689584 TTATGAGAGC
* * * *
22689594 CAGTGTAAGACCATGTCTAGGACTTGGCAACGGCATTGAGATG-AGTACTAGTGTAAGA-CATGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGATGTAG--C-AGTGTAAGACCATGT
* * *
22689657 CTGGGACAT-GCATCAGCCT-CGGGACGTAAGC
60 CTGGGACATGGCATC-GGCTACGAGACG--AGT
* * * *
22689688 CAGTATAAGACATGTCTGGAACATGCATCGGCTATGAGATGT-GTCAGTGTAAGACCATCTCTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGTAG-CAGTGTAAGACCATGTCTGG
*
22689752 GACATGGCATCGGC-ATTGAGACGAGT
64 GACATGGCATCGGCTA-CGAGACGAGT
* * * *
22689778 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGACGTAAGCTAGTATAAGA-CATGTC
1 -C-AGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGATGT-AGC-AGTGTAAGACCATGTC
* *
22689842 TGGGACAT-GCATCGGCTACGAGATGTGT
61 TGGGACATGGCATCGGCTACGAGACGAGT
22689870 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGTAAGACCATGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTCG-AGATG-TAG-CAGTGTAAGACCATGT
*
22689935 CTGGGACACGGCATCG
60 CTGGGACATGGCATCG
22689951 ACACTTTACC
Statistics
Matches: 215, Mismatches: 27, Indels: 41
0.76 0.10 0.14
Matches are distributed among these distances:
90 20 0.09
91 34 0.16
92 80 0.37
93 42 0.20
94 33 0.15
95 6 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (89 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGTAGCAGTGTAAGACCATGTCTGGGA
CATGGCATCGGCTACGAGACGAGT
Found at i:22689803 original size:138 final size:138
Alignment explanation
Indices: 22689594--22689942 Score: 556
Period size: 138 Copynumber: 2.5 Consensus size: 138
22689584 TTATGAGAGC
* * * *
22689594 CAGTGTAAGACCATGTCTAGGACTTGGCAACGGCATTGAGATGAGTACTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGTGCTAGTGTAAGACATGTCT
*
22689659 GGGACATGCATCAGCCTCGGGACGTAAGCCAGTATAAGACATGTCTGGAACATGCATCGGCTATG
66 GGGACATGCATCAGCCTCGGGACGTAAGCCAGTATAAGACATGTCTGGAACATGCATCGGCTACG
22689724 AGATGTGT
131 AGATGTGT
* *
22689732 CAGTGTAAGACCATCTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGTGCTAGTGTAAGACATGTCT
* *
22689797 GGGACATGCATCAGCCTCGGGACGTAAGCTAGTATAAGACATGTCTGGGACATGCATCGGCTACG
66 GGGACATGCATCAGCCTCGGGACGTAAGCCAGTATAAGACATGTCTGGAACATGCATCGGCTACG
22689862 AGATGTGT
131 AGATGTGT
* * *
22689870 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGA-TAGCCAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG-AGATGAGT-GCTAGTGTAAGA-CATG
22689934 TCTGGGACA
63 TCTGGGACA
22689943 CGGCATCGAC
Statistics
Matches: 194, Mismatches: 14, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
138 165 0.85
139 16 0.08
140 13 0.07
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (138 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGTGCTAGTGTAAGACATGTCT
GGGACATGCATCAGCCTCGGGACGTAAGCCAGTATAAGACATGTCTGGAACATGCATCGGCTACG
AGATGTGT
Found at i:22693367 original size:45 final size:45
Alignment explanation
Indices: 22693235--22693369 Score: 218
Period size: 45 Copynumber: 3.0 Consensus size: 45
22693225 CGATATCCTT
* * *
22693235 TCACCGGCATTATAGCCTGCTAGGCTTGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGC-TCAAAGGCCCGAATAGTGTC
*
22693280 TCACCGGCATTGTAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
22693325 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
22693370 GTACGATAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
44 4 0.05
45 80 0.95
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
Found at i:22700842 original size:43 final size:42
Alignment explanation
Indices: 22700792--22700902 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
22700782 TTTTATCAAA
* *
22700792 TCACCGGCATTTAGCCTGCTAGGTTTTAAAAACCCGA-ATTCAT
1 TCACCGGCATTTAGCCTGCTAGG-CTT-AAAACCCGATATCCAT
* ** *
22700835 TCACCGGCATTTCA-CCTGCTAGGCTTGAGGCCCGATATCCTT
1 TCACCGGCATTT-AGCCTGCTAGGCTTAAAACCCGATATCCAT
22700877 TCACCGGCATTATAGCCTGCTAGGCT
1 TCACCGGCATT-TAGCCTGCTAGGCT
22700903 CGAAAGCCTG
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 6 0.10
42 18 0.31
43 33 0.57
44 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (42 bp):
TCACCGGCATTTAGCCTGCTAGGCTTAAAACCCGATATCCAT
Found at i:22700943 original size:13 final size:13
Alignment explanation
Indices: 22700925--22700951 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22700915 TAGTATCTCA
22700925 CCGGCATTGTAGC
1 CCGGCATTGTAGC
22700938 CCGGCATTGTAGC
1 CCGGCATTGTAGC
22700951 C
1 C
22700952 TGCTAGGCTC
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:0.15, C:0.33, G:0.30, T:0.22
Consensus pattern (13 bp):
CCGGCATTGTAGC
Found at i:22700974 original size:58 final size:58
Alignment explanation
Indices: 22700880--22700996 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 58
22700870 TATCCTTTCA
* * *
22700880 CCGGCATTATAGCCTGCTAGGCTCGAAAGCCTGAATAGTATCTCACCGGCATTGTAGC
1 CCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAATATCTCACCGGCATTATAGC
* *
22700938 CCGGCATTGTAGCCTGCTAGGCTC-AAAGGCCCGAATAATGTCTCACCGGCATTATAGC
1 CCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAATATCTCACCGGCATTATAGC
22700996 C
1 C
22700997 TGCTAGGCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
57 3 0.06
58 50 0.94
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (58 bp):
CCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAATATCTCACCGGCATTATAGC
Found at i:22700988 original size:45 final size:45
Alignment explanation
Indices: 22700938--22701024 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
22700928 GCATTGTAGC
*
22700938 CCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAATGTCTCA
1 CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTCTCA
*
22700983 CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
1 CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
22701025 GTACGATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (45 bp):
CCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTCTCA
Found at i:22707174 original size:7 final size:7
Alignment explanation
Indices: 22707162--22707192 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
22707152 AATTTTGACT
22707162 AAAATAG
1 AAAATAG
22707169 AAAATAG
1 AAAATAG
22707176 AAAATAG
1 AAAATAG
*
22707183 AAAATGG
1 AAAATAG
22707190 AAA
1 AAA
22707193 TGATATTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (7 bp):
AAAATAG
Found at i:22708338 original size:49 final size:50
Alignment explanation
Indices: 22708215--22708345 Score: 185
Period size: 49 Copynumber: 2.6 Consensus size: 50
22708205 CGAGATGTGT
* *
22708215 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGTTATGTGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTAATGTGAGAGC
* * *
22708265 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-AA-GTTGATAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTAATG-TGAGAGC
*
22708314 CAGTGTAAGACCATGTCTGGGACATGGTATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
22708346 ACACTTTACC
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.51
50 35 0.48
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGTAATGTGAGAGC
Found at i:22711959 original size:16 final size:14
Alignment explanation
Indices: 22711933--22711972 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
22711923 GAGTTTTAGT
*
22711933 TTTTTATTTTTTAA
1 TTTTAATTTTTTAA
22711947 TTAATTAATTTTTTAA
1 TT--TTAATTTTTTAA
22711963 TTTTAATTTT
1 TTTTAATTTT
22711973 ATTTTCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:22712982 original size:7 final size:7
Alignment explanation
Indices: 22712972--22713006 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
22712962 ATATAATAAT
22712972 TCTGGTA
1 TCTGGTA
22712979 TCTGGTA
1 TCTGGTA
22712986 TCTGGTA
1 TCTGGTA
*
22712993 TCTGGCA
1 TCTGGTA
22713000 TCTGGTA
1 TCTGGTA
22713007 GTTTTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.14, C:0.17, G:0.29, T:0.40
Consensus pattern (7 bp):
TCTGGTA
Found at i:22721847 original size:90 final size:90
Alignment explanation
Indices: 22721694--22721865 Score: 308
Period size: 90 Copynumber: 1.9 Consensus size: 90
22721684 TCAACTTTTG
* *
22721694 TGGACTCTTCTGTTGAGAACATTAAAACAGTCAGGGAATTTCTAGATGTTTTTCTCGATGAGTTA
1 TGGACTCTTCTGTTGAGAACATTAAAACAGTCAAGGAATTTCTAGATGTTTTTCCCGATGAGTTA
*
22721759 TCGGGTTTACTTTTGAATCAGTTTA
66 TCGGATTTACTTTTGAATCAGTTTA
*
22721784 TGGACTCTTCTGTTGAGAACATTAAAACAGTGAAGGAATTTCTAGATGTTTTTCCCGATGAGTTA
1 TGGACTCTTCTGTTGAGAACATTAAAACAGTCAAGGAATTTCTAGATGTTTTTCCCGATGAGTTA
22721849 TCGGATTTACTTTTGAA
66 TCGGATTTACTTTTGAA
22721866 CCAGGAAGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (90 bp):
TGGACTCTTCTGTTGAGAACATTAAAACAGTCAAGGAATTTCTAGATGTTTTTCCCGATGAGTTA
TCGGATTTACTTTTGAATCAGTTTA
Found at i:22739013 original size:26 final size:25
Alignment explanation
Indices: 22738984--22739059 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
22738974 GTCTAGGACA
22738984 TGCATCAGCCACATTGTGAGAGCTAG
1 TGCATCAG-CACATTGTGAGAGCTAG
* *
22739010 TGCA--AG-ACATGTCTGGGA-C-A-
1 TGCATCAGCACAT-TGTGAGAGCTAG
22739030 TGCATCAGCTACATTGTGAGAGCTAG
1 TGCATCAGC-ACATTGTGAGAGCTAG
22739056 TGCA
1 TGCA
22739060 AGACATGTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
20 4 0.11
21 1 0.03
22 7 0.18
23 10 0.26
24 7 0.18
25 1 0.03
26 8 0.21
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (25 bp):
TGCATCAGCACATTGTGAGAGCTAG
Found at i:22739017 original size:46 final size:46
Alignment explanation
Indices: 22738952--22739078 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
22738942 CATATAGGTT
* *
22738952 ATTGTG-G-GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC
1 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCAGCCAC
*
22738996 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCAGCTAC
1 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCAGCCAC
22739042 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGC
1 ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGC
22739079 CTTAGTTACG
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
44 6 0.08
45 1 0.01
46 71 0.91
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
ATTGTGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCAGCCAC
Found at i:22739019 original size:22 final size:22
Alignment explanation
Indices: 22738994--22739065 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
22738984 TGCATCAGCC
22738994 ACATTGTGAGAGCTAGTGCAAG
1 ACATTGTGAGAGCTAGTGCAAG
* *
22739016 ACATGTCTGGGA-C-A-TGCATCAG
1 ACAT-TGTGAGAGCTAGTGCA--AG
22739038 CTACATTGTGAGAGCTAGTGCAAG
1 --ACATTGTGAGAGCTAGTGCAAG
22739062 ACAT
1 ACAT
22739066 GTCTGGGACA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
20 4 0.11
21 1 0.03
22 11 0.29
23 10 0.26
24 7 0.18
25 1 0.03
26 4 0.11
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (22 bp):
ACATTGTGAGAGCTAGTGCAAG
Found at i:22740187 original size:13 final size:13
Alignment explanation
Indices: 22740169--22740193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22740159 TGGCTGTGTG
22740169 AAGGACATGGGCC
1 AAGGACATGGGCC
22740182 AAGGACATGGGC
1 AAGGACATGGGC
22740194 GTGTGCCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.40, T:0.08
Consensus pattern (13 bp):
AAGGACATGGGCC
Found at i:22746738 original size:46 final size:45
Alignment explanation
Indices: 22746593--22746754 Score: 168
Period size: 46 Copynumber: 3.5 Consensus size: 45
22746583 GTTATTGTGG
* * *
22746593 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GATGA-A
*
22746639 GCTAGTGTAAGACATGT-TAGGGACATGCATCGGTCT-CGAGATGCAA
1 GCTAGTGTAAGACATGTCT-GGGACATGCATCAG-CTACGAGATG-AA
* *
22746685 GCCAGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGA-A
* *
22746731 GTTAGTGTTAGACTATGTCTGGGA
1 GCTAGTGTAAGAC-ATGTCTGGGA
22746755 TGTGGCATTG
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
45 4 0.04
46 81 0.83
47 13 0.13
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAA
Found at i:22749657 original size:47 final size:46
Alignment explanation
Indices: 22749594--22749755 Score: 152
Period size: 46 Copynumber: 3.5 Consensus size: 46
22749584 GAGAGCAAGA
22749594 GTAAGACTATGTCTGGGACATGGCATCGGCATTGAGACGAGTA-CTAGT
1 GTAAGAC-ATGTCTGGGACAT-GCATCGGC-TTGAGACGAGTAGCTAGT
* * * * * *
22749642 GTAAGACGTGTCTGGGACATGCATTAGCCTCGATAC--GTAAGCCAGT
1 GTAAGACATGTCTGGGACATGCA-TCGGCTTGAGACGAGT-AGCTAGT
* * *
22749688 GTAAGACATGTCTGGGACATGCGTCGGCTATGAGATGA-TAGTTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCT-TGAGACGAGTAGCTAGT
22749734 GTAAGACCATGTCTGGGACATG
1 GTAAGA-CATGTCTGGGACATG
22749756 GCTTTGACTT
Statistics
Matches: 92, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
44 2 0.02
45 5 0.05
46 47 0.51
47 31 0.34
48 7 0.08
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCTTGAGACGAGTAGCTAGT
Found at i:22749769 original size:47 final size:48
Alignment explanation
Indices: 22749679--22749804 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 48
22749669 CCTCGATACG
*
22749679 TAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCGTCGGCTATGAGATGA
1 TAAGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGACTATGAGAT-A
** * *
22749726 T-AGTTAGTGTAAGACCATGTCTGGGACATGGCTTTGACT-TGAGATA
1 TAAGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGACTATGAGATA
* *
22749772 TAAGCCAGTGTAAGACCGTGTCTAGGACATGGC
1 TAAGCCAGTGTAAGACCATGTCTGGGACATGGC
22749805 ATCTACATCT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 13 0.19
47 48 0.72
48 6 0.09
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
TAAGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGACTATGAGATA
Found at i:22749776 original size:93 final size:92
Alignment explanation
Indices: 22749594--22749807 Score: 227
Period size: 93 Copynumber: 2.3 Consensus size: 92
22749584 GAGAGCAAGA
*
22749594 GTAAGACTATGTCTGGGACATGGCATCGGCATTGAGACGAGTACTAGTGTAAGACGTGTCTGGGA
1 GTAAGAC-ATGTCTGGGACAT-GCATCGGCATTGAGACGAGTACTAGTGTAAGACATGTCTGGGA
* * *
22749659 CATGCATTAGCCTCGATACGTAAGCCAGT
64 CATGCATTAGACTCGAGACATAAGCCAGT
* * *
22749688 GTAAGACATGTCTGGGACATGCGTCGGC-TATGAGATGA-TAGTTAGTGTAAGACCATGTCTGGG
1 GTAAGACATGTCTGGGACATGCATCGGCAT-TGAGACGAGTA-CTAGTGTAAGA-CATGTCTGGG
* * *
22749751 ACATGGC-TTTGACTTGAGATATAAGCCAGT
63 ACAT-GCATTAGACTCGAGACATAAGCCAGT
* *
22749781 GTAAGACCGTGTCTAGGACATGGCATC
1 GTAAGA-CATGTCTGGGACAT-GCATC
22749808 TACATCTTAG
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
91 3 0.03
92 24 0.24
93 49 0.49
94 21 0.21
95 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (92 bp):
GTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGTACTAGTGTAAGACATGTCTGGGACA
TGCATTAGACTCGAGACATAAGCCAGT
Found at i:22756864 original size:46 final size:46
Alignment explanation
Indices: 22756729--22756944 Score: 140
Period size: 46 Copynumber: 4.6 Consensus size: 46
22756719 CATTTGTGAG
* *
22756729 AGCTAGTGTAAGACCATGTCTGGGACATGGCATTTG-CATTGAG--ATGA
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GC-TTCGAC-TCGAGACAT-A
* * * *
22756776 GTGCTAGTGTAAGA-CTTTTCTGGGACATGCATCGACCTCGAGACATA
1 -AGCTAGTGTAAGACCATGTCTGGGACATGCTTCGA-CTCGAGACATA
* * *
22756823 AGCTAGTGTAAGA-CATGTCTGGGACATGCTTTGGCTACGAGATGAT-
1 AGCTAGTGTAAGACCATGTCTGGGACATGCTTCGACT-CGAGA-CATA
* * * *
22756869 AG-TCAGTGTAAGACCATGTATGGGATATTGCTTCGACTTGAGATATA
1 AGCT-AGTGTAAGACCATGTCTGGGACA-TGCTTCGACTCGAGACATA
* * * *
22756916 AGCCAGTGTAAGATCGTGTCTAGGACATG
1 AGCTAGTGTAAGACCATGTCTGGGACATG
22756945 GCATCTACAT
Statistics
Matches: 132, Mismatches: 25, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
45 5 0.04
46 54 0.41
47 51 0.39
48 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (46 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCTTCGACTCGAGACATA
Found at i:22756893 original size:93 final size:93
Alignment explanation
Indices: 22756729--22756944 Score: 219
Period size: 93 Copynumber: 2.3 Consensus size: 93
22756719 CATTTGTGAG
* * *
22756729 AGCTAGTGTAAGACCATGTCTGGGACATGGCATTTGCATTGAGATGAGTGCTAGTGTAAGACTTT
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATTTGCATCGAGATGAGTGCTAGTGTAAGACATG
*
22756794 TCTGGGACA-TGCATCGACCTCGAGACATA
65 TATGGGACATTGCATCGA-CTCGAGACATA
22756823 AGCTAGTGTAAGA-CATGTCTGGGACATGC-TTTGGC-TACGAGATGA-TAG-TCAGTGTAAGAC
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATTT-GCAT-CGAGATGAGT-GCT-AGTGTAAGA-
* * * *
22756883 CATGTATGGGATATTGCTTCGACTTGAGATATA
61 CATGTATGGGACATTGCATCGACTCGAGACATA
* * * *
22756916 AGCCAGTGTAAGATCGTGTCTAGGACATG
1 AGCTAGTGTAAGACCATGTCTGGGACATG
22756945 GCATCTACAT
Statistics
Matches: 104, Mismatches: 11, Indels: 14
0.81 0.09 0.11
Matches are distributed among these distances:
91 6 0.06
92 21 0.20
93 44 0.42
94 33 0.32
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (93 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATTTGCATCGAGATGAGTGCTAGTGTAAGACATGT
ATGGGACATTGCATCGACTCGAGACATA
Found at i:22763210 original size:46 final size:47
Alignment explanation
Indices: 22763166--22763324 Score: 146
Period size: 47 Copynumber: 3.4 Consensus size: 47
22763156 ATGCAAGACG
*
22763166 TGTCTGGGACAT-GCATCGGCCTCAAGATGTAAGCCAGTGTAAGA-CA
1 TGTCTGGGACATGGCATCGG-CTCGAGATGTAAGCCAGTGTAAGACCA
* * * * *
22763212 TGTCTCGTACAT-ACGTCGGCTACGAGATG-ATAGTCAGTGTAAGACCA
1 TGTCTGGGACATGGCATCGGCT-CGAGATGTA-AGCCAGTGTAAGACCA
* * * * * * *
22763259 TGTCTAGGACATGGCTTCGACTTGAGATATAAGCCAATGTAAGACCG
1 TGTCTGGGACATGGCATCGGCTCGAGATGTAAGCCAGTGTAAGACCA
22763306 TGTCTGGGACATGGCATCG
1 TGTCTGGGACATGGCATCG
22763325 ACATCTTACC
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
45 3 0.03
46 33 0.37
47 47 0.52
48 7 0.08
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (47 bp):
TGTCTGGGACATGGCATCGGCTCGAGATGTAAGCCAGTGTAAGACCA
Found at i:22766435 original size:23 final size:25
Alignment explanation
Indices: 22766391--22766442 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 25
22766381 TATAATTTTT
*
22766391 AAAAATTTATTATTAATGAAAATTTA
1 AAAAATTGATTATTAA-GAAAATTTA
22766417 AAAAATTGATTA-TAA-AAAATTTA
1 AAAAATTGATTATTAAGAAAATTTA
22766440 AAA
1 AAA
22766443 TCAAGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 11 0.44
25 3 0.12
26 11 0.44
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
AAAAATTGATTATTAAGAAAATTTA
Found at i:22774361 original size:15 final size:15
Alignment explanation
Indices: 22774341--22774371 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22774331 AATCACATTC
22774341 ATATTATATATACTA
1 ATATTATATATACTA
22774356 ATATTATATATACTA
1 ATATTATATATACTA
22774371 A
1 A
22774372 GAGGATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTATATATACTA
Found at i:22774950 original size:2 final size:2
Alignment explanation
Indices: 22774943--22774999 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
22774933 ATGCCAATTT
*
22774943 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
22774985 AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
22775000 TATTTGCACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.47, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:22777176 original size:21 final size:23
Alignment explanation
Indices: 22777149--22777198 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
22777139 ATTATTATAT
22777149 TAGTATATGT-TTTAT-T-TACA
1 TAGTATATGTATTTATATCTACA
22777169 TACGTATATGTATTTATATCTACA
1 TA-GTATATGTATTTATATCTACA
22777193 TAGTAT
1 TAGTAT
22777199 TTTTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.08
21 8 0.31
22 5 0.19
23 5 0.19
24 6 0.23
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (23 bp):
TAGTATATGTATTTATATCTACA
Found at i:22777485 original size:24 final size:24
Alignment explanation
Indices: 22777458--22777516 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
22777448 GTTATGTACA
*
22777458 TATTATTTATACTATACTTAATAT
1 TATTATTTATACTACACTTAATAT
* * *
22777482 TATTA-TTATTATTACATTTACTAT
1 TATTATTTA-TACTACACTTAATAT
22777506 TATTATTTATA
1 TATTATTTATA
22777517 AATATTAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.10
24 23 0.79
25 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTATTTATACTACACTTAATAT
Found at i:22777512 original size:3 final size:3
Alignment explanation
Indices: 22777257--22777495 Score: 86
Period size: 3 Copynumber: 77.7 Consensus size: 3
22777247 TGAATTTCTA
* * *
22777257 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TAT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * *
22777305 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TA- TATT TAC TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * *
22777350 TAT TATT TAT AAA TAT TAGT GTA- TAT T-T TAT T-T TAA TAT CAT TA-
1 TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
22777394 TAT TAT GT-T TACT T-T TTT TCT ATAT TAT TAT TAT TGT TACT TAT TAT
1 TAT TAT -TAT TA-T TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT
* * * * *
22777441 TAT TAC TGT TAT GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT
1 TAT TAT TAT TAT -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT
22777488 TAT TAT TA
1 TAT TAT TA
22777496 CATTTACTAT
Statistics
Matches: 176, Mismatches: 32, Indels: 56
0.67 0.12 0.21
Matches are distributed among these distances:
2 19 0.11
3 126 0.72
4 29 0.16
5 2 0.01
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:22777598 original size:156 final size:153
Alignment explanation
Indices: 22777270--22777599 Score: 423
Period size: 153 Copynumber: 2.1 Consensus size: 153
22777260 TATTATTATT
* *
22777270 ATTATTGTTACTTATTATTATTACTATTATGTACATATTATTTATACTATACTTAATATTATTAT
1 ATTATTGATACTTACTATTATTACTATTATGTACATATTATTTATACTATACTTAATATTATTAT
*
22777335 TATTATATTTACTATTATTATTTATAAATATTAGTGTATATTTTATTTTAATATCATTATATTAT
66 TATTATATTTACTATTATTATTTATAAATATTAGTGTATATTTTATTATAATATCATTATATTAT
* * ** * **
22777400 GTTTACTTTTTTTCTATATTATT
131 CTTTACTTATGGTATATATTAAC
* * *
22777423 ATTATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTAT
1 ATTATTGATACTTACTATTATTACTATTATGTACATATTATTTATACTATACTTAATATTATTAT
**
22777488 TATTATTACATTTACTATTATTATTTATAAATATTAGTGTATATTTTATTAT-ATATGTTTATAT
66 TATTA-T--ATTTACTATTATTATTTATAAATATTAGTGTATATTTTATTATAATATCATTATAT
* *
22777552 ATACTCTTTA-TGTATGGTATTTTTTAAC
128 -TA-TCTTTACT-TATGGTATATATTAAC
*
22777580 ATTATT-ATATTTACTATTAT
1 ATTATTGATACTTACTATTAT
22777600 ATTTATATAT
Statistics
Matches: 155, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
153 69 0.45
154 1 0.01
155 10 0.06
156 56 0.36
157 19 0.12
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (153 bp):
ATTATTGATACTTACTATTATTACTATTATGTACATATTATTTATACTATACTTAATATTATTAT
TATTATATTTACTATTATTATTTATAAATATTAGTGTATATTTTATTATAATATCATTATATTAT
CTTTACTTATGGTATATATTAAC
Found at i:22777689 original size:3 final size:3
Alignment explanation
Indices: 22777674--22777727 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
22777664 GTATTTTTAC
*
22777674 TAT TAT T-T CTAT TAT TAT TAT TAT TAT TAT TAT TA- TATT TAT ATAA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT
22777720 TAT TAT TA
1 TAT TAT TA
22777728 ATAGGTACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 3 0.07
3 36 0.82
4 5 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:22779741 original size:21 final size:20
Alignment explanation
Indices: 22779712--22779764 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
22779702 ATTTTTGTTT
22779712 TTAACTTTTTTATTTAATTA
1 TTAACTTTTTTATTTAATTA
22779732 TTAACTTTTTTTATTTAATTA
1 TTAAC-TTTTTTATTTAATTA
*
22779753 TTAACATTTTTA
1 TTAACTTTTTTA
22779765 ACATATAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (20 bp):
TTAACTTTTTTATTTAATTA
Found at i:22783844 original size:33 final size:33
Alignment explanation
Indices: 22783792--22783922 Score: 154
Period size: 33 Copynumber: 4.0 Consensus size: 33
22783782 GCGGACCACC
* * *
22783792 CTGTGTTTGCTGTCTTGGAGGACTTACTCTGTT
1 CTGTGTTTACTGTCCTAGAGGACTTACTCTGTT
* * * * *
22783825 CCGTGTTTATTGTCCTGGAGAACTTACTCTATT
1 CTGTGTTTACTGTCCTAGAGGACTTACTCTGTT
*
22783858 CTGTGTTTACTGTCCTAGAGGATTTACTCTGTT
1 CTGTGTTTACTGTCCTAGAGGACTTACTCTGTT
* * *
22783891 CTGTGTTTACTATCTTAGAGGACATACTCTGT
1 CTGTGTTTACTGTCCTAGAGGACTTACTCTGT
22783923 GGATGCCATA
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (33 bp):
CTGTGTTTACTGTCCTAGAGGACTTACTCTGTT
Found at i:22785027 original size:40 final size:40
Alignment explanation
Indices: 22784982--22785119 Score: 249
Period size: 40 Copynumber: 3.5 Consensus size: 40
22784972 GCTAGGTTTA
*
22784982 TAACCCGGATATATTTTACCAGCACAAAGCCTACAGGATT
1 TAACCCGGATATATTTTACCAGCACAAAGCCTACGGGATT
*
22785022 TAACCCAGATATATTTTACCAGCACAAAGCCTACGGGATT
1 TAACCCGGATATATTTTACCAGCACAAAGCCTACGGGATT
*
22785062 TAACCCGGATATATTTTACCAGCACAAAGCCTGCGGGATT
1 TAACCCGGATATATTTTACCAGCACAAAGCCTACGGGATT
22785102 TAACCCGGATATATTTTA
1 TAACCCGGATATATTTTA
22785120 TATTATATAT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (40 bp):
TAACCCGGATATATTTTACCAGCACAAAGCCTACGGGATT
Found at i:22793820 original size:63 final size:60
Alignment explanation
Indices: 22793685--22793806 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 60
22793675 CATTATTGTG
*
22793685 AATAAAATTTATATTATTCCTTCTCTATTTCGTTATATTTATGCTTATACAACTTATGTA
1 AATAAAATTTAAATTATTCCTTCTCTATTTCGTTATATTTATGCTTATACAACTTATGTA
**
22793745 AATAAAATTTAAATTATTCCTTCTCTATTTTTTTTTCATATTTATGCTTATACAACTTATGT
1 AATAAAATTTAAATTATTCCTTCTCTA--TTTCGTT-ATATTTATGCTTATACAACTTATGT
22793807 CCTTCTAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
60 26 0.46
62 5 0.09
63 25 0.45
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (60 bp):
AATAAAATTTAAATTATTCCTTCTCTATTTCGTTATATTTATGCTTATACAACTTATGTA
Found at i:22794750 original size:53 final size:54
Alignment explanation
Indices: 22794688--22794797 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
22794678 CGATTAACAC
*
22794688 TAAATTTATTCTATTG-AAAAAAATCATGAAAAATTCAAACCTAATAATATTAG
1 TAAATTTATTCTATTGAAAAAAAATCATAAAAAATTCAAACCTAATAATATTAG
*
22794741 TAAATTTATTCTATTGAAAAAAAATCATAAAAAATTCAAATCTAATAATATTAG
1 TAAATTTATTCTATTGAAAAAAAATCATAAAAAATTCAAACCTAATAATATTAG
22794795 TAA
1 TAA
22794798 TTAACTTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 16 0.30
54 38 0.70
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.35
Consensus pattern (54 bp):
TAAATTTATTCTATTGAAAAAAAATCATAAAAAATTCAAACCTAATAATATTAG
Found at i:22802288 original size:5 final size:5
Alignment explanation
Indices: 22802278--22802305 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22802268 TTGTGTGTTC
22802278 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
22802306 TACAAATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:22811559 original size:27 final size:27
Alignment explanation
Indices: 22811528--22811582 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
22811518 GATAGGGTAA
22811528 TCCCTAAACCGATCAATTATGATAAGC
1 TCCCTAAACCGATCAATTATGATAAGC
22811555 TCCCTAAACCGATCAATTATGATAAGC
1 TCCCTAAACCGATCAATTATGATAAGC
22811582 T
1 T
22811583 AACATCTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.27
Consensus pattern (27 bp):
TCCCTAAACCGATCAATTATGATAAGC
Found at i:22812126 original size:64 final size:64
Alignment explanation
Indices: 22812025--22812156 Score: 183
Period size: 64 Copynumber: 2.1 Consensus size: 64
22812015 GTGAAGTTAA
* * * *
22812025 ACCTACTATGGTTACGCTTCAATTAACAGATTGATCCTTAGCACCTCCAGAAGGAAAAATTGAG
1 ACCTACTACGGTTACGCTTCAATTAACAGATCGATCCTTAGCACATCCAGAAGGAAAAATCGAG
* * * * *
22812089 ACCTACTACGGTTACGCTTCAGTTAGCATATCGATCCTTAGCATATCCGGAAGGAAAAATCGAG
1 ACCTACTACGGTTACGCTTCAATTAACAGATCGATCCTTAGCACATCCAGAAGGAAAAATCGAG
22812153 ACCT
1 ACCT
22812157 TCAATTAGCA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (64 bp):
ACCTACTACGGTTACGCTTCAATTAACAGATCGATCCTTAGCACATCCAGAAGGAAAAATCGAG
Found at i:22812180 original size:50 final size:50
Alignment explanation
Indices: 22812105--22812201 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
22812095 TACGGTTACG
* * * * *
22812105 CTTCAGTTAGCATATCGATCCTTAGCATATCCGGAAGGAAAAATCGAGAC
1 CTTCAATTAGCAGATCGATACTTAGCATATCCAGAACGAAAAATCGAGAC
*
22812155 CTTCAATTAGCAGATTGATACTTAGCATATCCAGAACGAAAAATCGA
1 CTTCAATTAGCAGATCGATACTTAGCATATCCAGAACGAAAAATCGA
22812202 TGATGTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (50 bp):
CTTCAATTAGCAGATCGATACTTAGCATATCCAGAACGAAAAATCGAGAC
Found at i:22816466 original size:21 final size:20
Alignment explanation
Indices: 22816426--22816474 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
22816416 GACTCCAATG
22816426 TCAAGCAAGGAACAAGATGA
1 TCAAGCAAGGAACAAGATGA
22816446 CTCAAGCAA-GAACAAGAATGA
1 -TCAAGCAAGGAACAAG-ATGA
*
22816467 TGAAGCAA
1 TCAAGCAA
22816475 AAGATGGGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.10
Consensus pattern (20 bp):
TCAAGCAAGGAACAAGATGA
Found at i:22819524 original size:17 final size:17
Alignment explanation
Indices: 22819487--22819525 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22819477 ATATGTGAGA
*
22819487 TAAGTTAAATAATTAAT
1 TAAGTTAAATAATTAAC
* *
22819504 TAAGTTAAATATTTTAC
1 TAAGTTAAATAATTAAC
22819521 TAAGT
1 TAAGT
22819526 GCGATTAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
TAAGTTAAATAATTAAC
Found at i:22823105 original size:48 final size:49
Alignment explanation
Indices: 22822997--22823118 Score: 140
Period size: 48 Copynumber: 2.5 Consensus size: 49
22822987 CTTGTTGTGT
* * * * *
22822997 GTCAATGTAAGACTTGTCTGGGACATGGTATCGGCACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATAAAA
* * *
22823046 GCCAGTGTAAGACCTGTCTGGGACAT-GCATTGGC-CTCGATATATAAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-CGATAGATAAAA
*
22823094 GTCAGTGTAAGACCTGTTTGGGACA
1 GTCAGTGTAAGACCTGTCTGGGACA
22823119 CAGCATTAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.02
48 38 0.61
49 23 0.37
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATAAAA
Found at i:22825178 original size:43 final size:42
Alignment explanation
Indices: 22825131--22825232 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 42
22825121 GTTAGGATAT
* *
22825131 TATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATGGGA
1 TATTAT-AGATATTATCTCTTAGCAATTTGATTCCTAATGGCA
22825174 TATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCA
1 TATTAT-AGATATTATCTCTTAGCAATTTGATTCCTAATGGCA
22825217 TATTATAGGATATTAT
1 TATTATA-GATATTAT
22825233 TATGGGATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (42 bp):
TATTATAGATATTATCTCTTAGCAATTTGATTCCTAATGGCA
Found at i:22827140 original size:50 final size:49
Alignment explanation
Indices: 22827028--22827259 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
22827018 CTGGTACGCA
* *
22827028 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
**
22827077 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGATACACG
* * * * ** *
22827127 TGGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGATACACG
* * * * * * *
22827178 TAGTTGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
*
22827227 TAGTAGCCTGCACTTAGTACTATACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
22827260 TCACAATAGA
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 69 0.45
50 49 0.32
51 35 0.23
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
Found at i:22830787 original size:23 final size:25
Alignment explanation
Indices: 22830742--22830787 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
22830732 TAAAAACATC
* *
22830742 AAAATAAATATTTCTCAACATATTG
1 AAAATAAATATTTCTAAAAATATTG
22830767 AAAATAAAT-TTT-TAAAAATAT
1 AAAATAAATATTTCTAAAAATAT
22830788 GTATACTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 3 0.16
25 9 0.47
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAATAAATATTTCTAAAAATATTG
Found at i:22830864 original size:30 final size:31
Alignment explanation
Indices: 22830828--22830891 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
22830818 ACTTAACAAG
*
22830828 CAAATGC-TTCTAAAATAAT-AACAAAATTAA
1 CAAATGCGTT-TAAAATAATAAAAAAAATTAA
22830858 CAAATGCGTTTAAAATAATAAAAAAAATTAA
1 CAAATGCGTTTAAAATAATAAAAAAAATTAA
22830889 CAA
1 CAA
22830892 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (31 bp):
CAAATGCGTTTAAAATAATAAAAAAAATTAA
Found at i:22830946 original size:22 final size:22
Alignment explanation
Indices: 22830921--22830963 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22830911 TATCCAAACA
22830921 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
22830943 ATAATATTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
22830964 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:22833368 original size:17 final size:17
Alignment explanation
Indices: 22833341--22833396 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
22833331 TAATTATTAC
*
22833341 TTTTAGTTTATTTTTCA
1 TTTTAATTTATTTTTCA
22833358 TTTTGAA-TTATTGATTT-A
1 TTTT-AATTTATT--TTTCA
22833376 TTTTAATTTACTTTTTCA
1 TTTTAATTTA-TTTTTCA
22833394 TTT
1 TTT
22833397 CAACGTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
17 14 0.44
18 13 0.41
19 5 0.16
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTAATTTATTTTTCA
Found at i:22834113 original size:23 final size:23
Alignment explanation
Indices: 22834089--22834131 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22834079 TATTTGTTAT
22834089 TTTTAAAAAATATTT-ATATTAA
1 TTTTAAAAAATATTTAATATTAA
**
22834111 TTTTAATTAATATTTAATATT
1 TTTTAAAAAATATTTAATATT
22834132 TAATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTAAAAAATATTTAATATTAA
Found at i:22834115 original size:11 final size:12
Alignment explanation
Indices: 22834097--22834146 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 12
22834087 ATTTTTAAAA
22834097 AATATTTATATT
1 AATATTTATATT
22834109 AAT-TTTA-ATT
1 AATATTTATATT
22834119 AATATTTAATATTT
1 AATATTT-ATA-TT
22834133 AATAATTTAATATT
1 AAT-ATTT-ATATT
22834147 TTTTTATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 6 0.18
11 7 0.21
12 4 0.12
13 1 0.03
14 7 0.21
15 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATATTTATATT
Found at i:22834142 original size:8 final size:7
Alignment explanation
Indices: 22834117--22834147 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
22834107 TTAATTTTAA
22834117 TTAATAT
1 TTAATAT
22834124 TTAATAT
1 TTAATAT
22834131 TTAATAAT
1 TTAAT-AT
22834139 TTAATAT
1 TTAATAT
22834146 TT
1 TT
22834148 TTTTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTAATAT
Found at i:22834142 original size:15 final size:14
Alignment explanation
Indices: 22834117--22834147 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
22834107 TTAATTTTAA
22834117 TTAATATTTAATAT
1 TTAATATTTAATAT
22834131 TTAATAATTTAATAT
1 TTAAT-ATTTAATAT
22834146 TT
1 TT
22834148 TTTTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATATTTAATAT
Found at i:22834256 original size:21 final size:21
Alignment explanation
Indices: 22834208--22834256 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
22834198 ATTTACATTA
22834208 TAATA-TAT-TATTATTAATT
1 TAATATTATGTATTATTAATT
*
22834227 TAATTTTATGTATTATTAATT
1 TAATATTATGTATTATTAATT
*
22834248 TTATATTAT
1 TAATATTAT
22834257 ATAAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 3 0.12
21 18 0.72
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TAATATTATGTATTATTAATT
Found at i:22840993 original size:20 final size:21
Alignment explanation
Indices: 22840945--22841007 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
22840935 ATTCATTTCT
* *
22840945 ATCCGTATGAACT-GTAATTC
1 ATCCGTATAAACTAGTAGTTC
* *
22840965 ATTCATAT-AACTAGTAGTTC
1 ATCCGTATAAACTAGTAGTTC
*
22840985 ATCCGTATAAAC-AATAGTTC
1 ATCCGTATAAACTAGTAGTTC
22841005 ATC
1 ATC
22841008 ACTAATAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 4 0.11
20 28 0.80
21 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (21 bp):
ATCCGTATAAACTAGTAGTTC
Found at i:22841057 original size:20 final size:20
Alignment explanation
Indices: 22840958--22841057 Score: 62
Period size: 20 Copynumber: 5.0 Consensus size: 20
22840948 CGTATGAACT
*
22840958 GTAATTCATTCATAT-AACTA
1 GTAATTCATCCATATAAAC-A
* *
22840978 GTAGTTCATCCGTATAAACA
1 GTAATTCATCCATATAAACA
* *
22840998 ATAGTTCAT-CACTA-ATAACA
1 GTAATTCATCCA-TATA-AACA
* * * * *
22841018 ATAATTTAACCGTATTAACA
1 GTAATTCATCCATATAAACA
22841038 GTAATTCATCCATATAAACA
1 GTAATTCATCCATATAAACA
22841058 CATATCTTAT
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
19 2 0.03
20 54 0.90
21 4 0.07
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (20 bp):
GTAATTCATCCATATAAACA
Found at i:22841231 original size:25 final size:25
Alignment explanation
Indices: 22841193--22841318 Score: 81
Period size: 23 Copynumber: 5.3 Consensus size: 25
22841183 CCATGATCGG
* * *
22841193 TAAGCTCCTCTTGAGCTGATGAACAG
1 TAAGCT-CTATTGAGCTGATAAACAA
*
22841219 TAAGCTTTATTGAGCT--TAAACAA
1 TAAGCTCTATTGAGCTGATAAACAA
* *
22841242 TAAGCTCTATCGAGCTG---AACAG
1 TAAGCTCTATTGAGCTGATAAACAA
*
22841264 TAAGCTC-ATACGAGCTG--AAACAA
1 TAAGCTCTAT-TGAGCTGATAAACAA
* * *
22841287 TAAGCTCCAATGAGCTGA-AAACAG
1 TAAGCTCTATTGAGCTGATAAACAA
22841311 TAAGCTCT
1 TAAGCTCT
22841319 TACGAGCTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.02
22 18 0.22
23 36 0.43
24 13 0.16
25 8 0.10
26 6 0.07
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (25 bp):
TAAGCTCTATTGAGCTGATAAACAA
Found at i:22841263 original size:45 final size:46
Alignment explanation
Indices: 22841212--22841326 Score: 130
Period size: 45 Copynumber: 2.5 Consensus size: 46
22841202 CTTGAGCTGA
* * * *
22841212 TGAACAGTAAGCTTTAT-TGAGCTTAAACAATAAGCT-CTATCGAGC
1 TGAACAGTAAGCTTCATACGAGCTGAAACAATAAGCTCCAAT-GAGC
22841257 TGAACAGTAAGC-TCATACGAGCTGAAACAATAAGCTCCAATGAGC
1 TGAACAGTAAGCTTCATACGAGCTGAAACAATAAGCTCCAATGAGC
*
22841302 TGAAAACAGTAAGC-TCTTACGAGCT
1 TG--AACAGTAAGCTTCATACGAGCT
22841327 AATATATTGG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
44 3 0.05
45 35 0.57
46 3 0.05
47 20 0.33
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (46 bp):
TGAACAGTAAGCTTCATACGAGCTGAAACAATAAGCTCCAATGAGC
Found at i:22841293 original size:23 final size:23
Alignment explanation
Indices: 22841230--22841326 Score: 101
Period size: 23 Copynumber: 4.2 Consensus size: 23
22841220 AAGCTTTATT
*
22841230 GAGCTTAAACAATAAGCTC-TATC
1 GAGCTGAAACAATAAGCTCATA-C
*
22841253 GAGCTG-AACAGTAAGCTCATAC
1 GAGCTGAAACAATAAGCTCATAC
*
22841275 GAGCTGAAACAATAAGCTCCA-AT
1 GAGCTGAAACAATAAGCT-CATAC
* *
22841298 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTG-AAACAATAAGCTCATAC
22841322 GAGCT
1 GAGCT
22841327 AATATATTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
22 18 0.29
23 25 0.40
24 19 0.31
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (23 bp):
GAGCTGAAACAATAAGCTCATAC
Found at i:22844582 original size:49 final size:49
Alignment explanation
Indices: 22844519--22844787 Score: 196
Period size: 49 Copynumber: 5.6 Consensus size: 49
22844509 CATCAAAGTT
* *
22844519 GATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATTGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCC
* * * * * *
22844568 GATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCC
* * *
22844617 GATGCCATGTCCCAGACAGGTCTTACACTAACTTGT-ATATCTCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCGAGGCC
* * * * * ***
22844666 GATG-GATGTCCCAGACATGTCTTACACT-AGCTCTC--ATCTCAATATC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCC
* * * * * *
22844712 GAT-ACATGTCCTAGACATGTTTTACACTGGCTTGT-ATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCGAGGCC
* *
22844760 GATG-CATGTCCCATACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
22844788 AGCACACATA
Statistics
Matches: 172, Mismatches: 37, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
46 32 0.19
47 3 0.02
48 56 0.33
49 79 0.46
50 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCC
Found at i:22844682 original size:48 final size:48
Alignment explanation
Indices: 22844617--22844790 Score: 183
Period size: 48 Copynumber: 3.6 Consensus size: 48
22844607 TATCGGTGTC
* *
22844617 GATGCCATGTCCCAGACAGGTCTTACACTAACTTGTATATCTCGAGGCT
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCT
* * * ***
22844666 GATGGATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTC-AATAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCT
* * * * *
22844711 CGATACATGTCCTAGACATGTTTTACACTGGCTTGTATATCTCGAGGCC
1 -GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCT
*
22844760 GATGCATGTCCCATACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
22844791 ACACATATCA
Statistics
Matches: 97, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
45 2 0.02
46 31 0.32
47 4 0.04
48 55 0.57
49 5 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCT
Found at i:22844751 original size:94 final size:96
Alignment explanation
Indices: 22844476--22844790 Score: 325
Period size: 94 Copynumber: 3.3 Consensus size: 96
22844466 ATATTGACAC
* ** * *
22844476 CATGTCCCAGACATGGTCTTACACTGGCTAGCA-CATCAA-AGTTGATGCCATGTCCCAGACAGG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCATCAATA-TCGATGACATGTCCCAGACAGG
* * * *
22844539 TCTTACATTGACTT-TCATATATTGAGGCCGATG
64 TCTTACACTAACTTGT-ATATCTCGAGGCCGATG
* * * * ** * *
22844572 CCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACAGG
1 -CATGTCCCAGACATGTCTTACACTAGCTCTCATC-ATCAATATCGATGACATGTCCCAGACAGG
*
22844637 TCTTACACTAACTTGTATATCTCGAGGCTGATG
64 TCTTACACTAACTTGTATATCTCGAGGCCGATG
* * * *
22844670 GATGTCCCAGACATGTCTTACACTAGCTCTCATC-TCAATATCGAT-ACATGTCCTAGACATGTT
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCATCAATATCGATGACATGTCCCAGACAGGTC
**
22844733 TTACACTGGCTTGTATATCTCGAGGCCGATG
66 TTACACTAACTTGTATATCTCGAGGCCGATG
*
22844764 CATGTCCCATACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
22844791 ACACATATCA
Statistics
Matches: 183, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
94 67 0.37
95 8 0.04
96 16 0.09
97 41 0.22
98 50 0.27
99 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (96 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCATCAATATCGATGACATGTCCCAGACAGGTC
TTACACTAACTTGTATATCTCGAGGCCGATG
Found at i:22844799 original size:48 final size:48
Alignment explanation
Indices: 22844476--22844799 Score: 183
Period size: 49 Copynumber: 6.8 Consensus size: 48
22844466 ATATTGACAC
* * * * * **
22844476 CATGTCCCAGACATGGTCTTACACTGGCTAGCACA--TCAAAGTTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCGCATATCTCGAGGCCGATG
* * ** * *
22844523 CCATGTCCCAGACAGGTCTTACA-TTGACTTTCATATATTGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAG-CTCGCATATCTCGAGGCCGATG
* * * * * * * *
22844572 CCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAG-GCCGATG
* * * * *
22844621 CCATGTCCCAGACAGGTCTTACACTAACTTGTATATCTCGAGGCTGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAGGCCGATG
* * * *** *
22844670 GATGTCCCAGACATGTCTTACACTAGCTCTC--ATCTCAATATCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAGGCCGATG
* * * * *
22844716 CATGTCCTAGACATGTTTTACACTGGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAGGCCGATG
* * *
22844764 CATGTCCCATACATGTCTTACACTAGCACACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTCGCATATC
22844800 ACCCAATGTC
Statistics
Matches: 208, Mismatches: 60, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
46 35 0.17
47 13 0.06
48 77 0.37
49 80 0.38
50 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAGGCCGATG
Found at i:22851210 original size:28 final size:28
Alignment explanation
Indices: 22851145--22851211 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
22851135 CGACCGGGCA
*
22851145 CACGCCTGTATGCCTTACACGGCCATGG
1 CACGCCTGTGTGCCTTACACGGCCATGG
*
22851173 CACGCTTGTGTGCCTTACACGGCCATGG
1 CACGCCTGTGTGCCTTACACGGCCATGG
22851201 CACGCCTGTGT
1 CACGCCTGTGT
22851212 CGTAGCCCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.15, C:0.34, G:0.27, T:0.24
Consensus pattern (28 bp):
CACGCCTGTGTGCCTTACACGGCCATGG
Found at i:22854535 original size:17 final size:17
Alignment explanation
Indices: 22854509--22854547 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
22854499 TTTGAAAAAG
22854509 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
22854526 AAAACGAATGAATCTTA
1 AAAACAAATGAATCTTA
22854543 AAAAC
1 AAAAC
22854548 TTAATAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:22861805 original size:49 final size:48
Alignment explanation
Indices: 22861670--22861840 Score: 150
Period size: 49 Copynumber: 3.5 Consensus size: 48
22861660 GATGCCGACG
* *
22861670 CCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTCGAT
1 CCATGTCCCAGACA-GGTCTTACACTGGCTAGCATCTATCGAAGTCAAT
* * * ** *
22861717 GCATGTCCCAGACAGGTCTTATACTGACTTTCATATATCGAA-TCCAATT
1 CCATGTCCCAGACAGGTCTTACACTGGCTAGCATCTATCGAAGT-CAA-T
* * ** *
22861766 CCGTGTCCCAGACAGGTCTTACACTGGCTCGCATCTATCGGTGTCGAT
1 CCATGTCCCAGACAGGTCTTACACTGGCTAGCATCTATCGAAGTCAAT
* *
22861814 GCCATGTCCCAGAAAAGTCTTACACTG
1 -CCATGTCCCAGACAGGTCTTACACTG
22861841 ACATATAACA
Statistics
Matches: 97, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
46 15 0.15
47 14 0.14
48 8 0.08
49 59 0.61
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTAGCATCTATCGAAGTCAAT
Found at i:22861968 original size:46 final size:48
Alignment explanation
Indices: 22861852--22861980 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 48
22861842 CATATAACAA
* * * *
22861852 GCTGATGCCATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAG
* * *
22861901 GCTGATGCATGTTCCAGACATGTCTTACACTAGC-TCT-CGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAG
*
22861947 GCTGATGCATGTGCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
22861981 ACACATATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
46 38 0.53
47 2 0.03
48 25 0.35
49 7 0.10
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAG
Found at i:22877445 original size:16 final size:17
Alignment explanation
Indices: 22877412--22877452 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
22877402 ACATTTCATG
22877412 TCATATC-ATAATCTAA
1 TCATATCAATAATCTAA
*
22877428 TCATATCAATACTC-AA
1 TCATATCAATAATCTAA
22877444 TCATCATCA
1 TCAT-ATCA
22877453 CTTACACATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (17 bp):
TCATATCAATAATCTAA
Found at i:22878594 original size:25 final size:23
Alignment explanation
Indices: 22878566--22878628 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
22878556 AAGCTCCTTC
22878566 TGAGCCGATGAACAGTAAGCTCTAT
1 TGAGCCGA--AACAGTAAGCTCTAT
* *
22878591 TGAGCTGAAACGGTAAGCTCTAT
1 TGAGCCGAAACAGTAAGCTCTAT
*
22878614 TGAGCTG-AACAGTAA
1 TGAGCCGAAACAGTAA
22878629 CCTCATACGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.20
23 21 0.60
25 7 0.20
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (23 bp):
TGAGCCGAAACAGTAAGCTCTAT
Found at i:22878609 original size:23 final size:23
Alignment explanation
Indices: 22878580--22878655 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
22878570 CCGATGAACA
22878580 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACG
*
22878603 GTAAGCTCTATTGAGCTG-AACA
1 GTAAGCTCTATTGAGCTGAAACG
* *
22878625 GTAACCTC-ATACGAGCTGAAACG
1 GTAAGCTCTAT-TGAGCTGAAACG
*
22878648 ATAAGCTC
1 GTAAGCTC
22878656 CAATAAGCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.04
22 16 0.36
23 27 0.60
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACG
Found at i:22878665 original size:45 final size:45
Alignment explanation
Indices: 22878574--22878667 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
22878564 TCTGAGCCGA
* * * * * *
22878574 TGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATTGAGC
1 TGAACAGTAACCTCTATCGAGCTGAAACGATAAGCTCCAATAAGC
22878619 TGAACAGTAACCTC-ATACGAGCTGAAACGATAAGCTCCAATAAGC
1 TGAACAGTAACCTCTAT-CGAGCTGAAACGATAAGCTCCAATAAGC
22878664 TGAA
1 TGAA
22878668 AATAGTAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (45 bp):
TGAACAGTAACCTCTATCGAGCTGAAACGATAAGCTCCAATAAGC
Found at i:22878882 original size:23 final size:24
Alignment explanation
Indices: 22878848--22878903 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
22878838 GCATTTAATG
*
22878848 ATCA-ATA-ATTCAATT-TATCAA
1 ATCATATACATTCAATTCAATCAA
*
22878869 ATCATATACATTCAATTCAATTAA
1 ATCATATACATTCAATTCAATCAA
22878893 AT-ATATACATT
1 ATCATATACATT
22878904 TAAATACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 17 0.57
24 6 0.20
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
ATCATATACATTCAATTCAATCAA
Found at i:22885037 original size:20 final size:21
Alignment explanation
Indices: 22885014--22885064 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
22885004 CAAGCTTATA
22885014 GCTCAACATA-GGTTGATT-TG
1 GCTCAACATAGGGTTG-TTGTG
*
22885034 GCTCGACATAGGGTTGTTGTG
1 GCTCAACATAGGGTTGTTGTG
22885055 GCTCAACATA
1 GCTCAACATA
22885065 AGGATGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (21 bp):
GCTCAACATAGGGTTGTTGTG
Found at i:22886438 original size:16 final size:17
Alignment explanation
Indices: 22886419--22886451 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22886409 TTTTATAGGT
22886419 TAATTAATT-TAATTTA
1 TAATTAATTCTAATTTA
*
22886435 TAATTATTTCTAATTTA
1 TAATTAATTCTAATTTA
22886452 GGCTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTAATTCTAATTTA
Found at i:22889644 original size:8 final size:8
Alignment explanation
Indices: 22889615--22889665 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
22889605 GCAGTCAAAC
*
22889615 TTTCAGCT
1 TTTCGGCT
* *
22889623 TTTTGGCA
1 TTTCGGCT
22889631 TTTCGGCT
1 TTTCGGCT
22889639 TTTCGGCT
1 TTTCGGCT
*
22889647 TTTCGACT
1 TTTCGGCT
*
22889655 TTTTGGCT
1 TTTCGGCT
22889663 TTT
1 TTT
22889666 GCCGATCTAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.06, C:0.20, G:0.20, T:0.55
Consensus pattern (8 bp):
TTTCGGCT
Found at i:22889662 original size:16 final size:16
Alignment explanation
Indices: 22889621--22889665 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
22889611 AAACTTTCAG
* *
22889621 CTTTTTGGCATTTCGG
1 CTTTTTGGCTTTTCGA
*
22889637 CTTTTCGGCTTTTCGA
1 CTTTTTGGCTTTTCGA
22889653 CTTTTTGGCTTTT
1 CTTTTTGGCTTTT
22889666 GCCGATCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.04, C:0.20, G:0.20, T:0.56
Consensus pattern (16 bp):
CTTTTTGGCTTTTCGA
Found at i:22901999 original size:21 final size:21
Alignment explanation
Indices: 22901960--22901999 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22901950 TTAGAGATTA
*
22901960 ATTTAATTTCTTTAGATTATT
1 ATTTAATTTCTATAGATTATT
22901981 ATTTAATTTACTATA-ATTA
1 ATTTAATTT-CTATAGATTA
22902000 AACAATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTAATTTCTATAGATTATT
Found at i:22909344 original size:43 final size:43
Alignment explanation
Indices: 22909221--22909331 Score: 206
Period size: 42 Copynumber: 2.6 Consensus size: 43
22909211 GCTGGTATTA
*
22909221 TATTCGGGCCTTCGTGCCTAGCAGGTTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
22909264 TATTCGGGCCTTCGT-CCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
22909306 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
22909332 ATAATGCCGG
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
42 41 0.62
43 25 0.38
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:22910874 original size:47 final size:47
Alignment explanation
Indices: 22910805--22910901 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 47
22910795 CCTAGCCTCT
22910805 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
* * *
22910852 TTTAATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
22910899 TTT
1 TTT
22910902 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:22910903 original size:24 final size:24
Alignment explanation
Indices: 22910798--22910902 Score: 167
Period size: 24 Copynumber: 4.4 Consensus size: 24
22910788 CTGGAGGCCT
*
22910798 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
22910823 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22910847 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
22910870 AGCCCTTTTGATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22910894 AGCCCTTTT
1 AGCCCTTTT
22910903 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 23 0.30
24 49 0.64
25 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:22910974 original size:9 final size:9
Alignment explanation
Indices: 22910960--22911016 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22910950 ATCTCATGTG
22910960 CATATCATA
1 CATATCATA
*
22910969 CATATCATGTG
1 CATATCA--TA
22910980 CATATCATA
1 CATATCATA
* *
22910989 CATGTCATGTG
1 CATATCA--TA
22911000 CATATCATA
1 CATATCATA
22911009 CATATCAT
1 CATATCAT
22911017 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:22910976 original size:20 final size:20
Alignment explanation
Indices: 22910948--22911018 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
22910938 GCATTTATGA
*
22910948 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
22910968 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
22910988 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
22911008 ACATATCATGT
1 ACATATCATGT
22911019 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:22910983 original size:11 final size:11
Alignment explanation
Indices: 22910953--22911007 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
22910943 TATGAACATC
22910953 TCATGTGCATA
1 TCATGTGCATA
*
22910964 TCA--TACATA
1 TCATGTGCATA
22910973 TCATGTGCATA
1 TCATGTGCATA
* *
22910984 TCA--TACATG
1 TCATGTGCATA
22910993 TCATGTGCATA
1 TCATGTGCATA
22911004 TCAT
1 TCAT
22911008 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:22911083 original size:25 final size:25
Alignment explanation
Indices: 22911055--22911102 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22911045 ATATATAAAC
* * *
22911055 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
22911080 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
22911103 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:22911295 original size:25 final size:24
Alignment explanation
Indices: 22911223--22911285 Score: 101
Period size: 24 Copynumber: 2.6 Consensus size: 24
22911213 AAATGCCCTT
22911223 GTTATT-AAAGGGCTTATGCCCCA
1 GTTATTAAAAGGGCTTATGCCCCA
*
22911246 GTTATTAAAAGGGCTTTTGCCCCA
1 GTTATTAAAAGGGCTTATGCCCCA
22911270 GTTATTAAAAGAGGCT
1 GTTATTAAAAG-GGCT
22911286 AGGCCTCCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
23 6 0.16
24 27 0.73
25 4 0.11
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (24 bp):
GTTATTAAAAGGGCTTATGCCCCA
Found at i:22918021 original size:47 final size:47
Alignment explanation
Indices: 22917952--22918048 Score: 149
Period size: 47 Copynumber: 2.1 Consensus size: 47
22917942 CCTAGCCTCT
*
22917952 TTTAATAACTGGGTCAAAAGCCCTTTTAATAACCGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACCGGGGCATAAGCCC
* * **
22917999 TTTAATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACCGGGGCATAAGCCC
22918046 TTT
1 TTT
22918049 TGCACTTCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAAGCCCTTTTAATAACCGGGGCATAAGCCC
Found at i:22918050 original size:24 final size:24
Alignment explanation
Indices: 22917945--22918049 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 24
22917935 CTGGAGGCCT
* *
22917945 AGCCTCTTTTAATAACTGGGTCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
22917970 AGCCCTTTTAATAACCGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22917994 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
22918017 AGCCCTTTTGATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
22918041 AGCCCTTTT
1 AGCCCTTTT
22918050 GCACTTCCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
23 22 0.30
24 47 0.64
25 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:22918121 original size:9 final size:9
Alignment explanation
Indices: 22918107--22918163 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22918097 ATCTCATGTG
22918107 CATATCATA
1 CATATCATA
*
22918116 CATATCATGTG
1 CATATCA--TA
22918127 CATATCATA
1 CATATCATA
* *
22918136 CATGTCATGTG
1 CATATCA--TA
22918147 CATATCATA
1 CATATCATA
22918156 CATATCAT
1 CATATCAT
22918164 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:22918123 original size:20 final size:20
Alignment explanation
Indices: 22918095--22918165 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
22918085 GCATTTATGA
*
22918095 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
22918115 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
22918135 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
22918155 ACATATCATGT
1 ACATATCATGT
22918166 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:22918130 original size:11 final size:11
Alignment explanation
Indices: 22918100--22918154 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
22918090 TATGAACATC
22918100 TCATGTGCATA
1 TCATGTGCATA
*
22918111 TCA--TACATA
1 TCATGTGCATA
22918120 TCATGTGCATA
1 TCATGTGCATA
* *
22918131 TCA--TACATG
1 TCATGTGCATA
22918140 TCATGTGCATA
1 TCATGTGCATA
22918151 TCAT
1 TCAT
22918155 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:22924518 original size:38 final size:38
Alignment explanation
Indices: 22924473--22924557 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 38
22924463 GGCTTAAAAA
* *
22924473 CCCGCAGGCTTCGTGCTGGTAAAATGTCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAAT
**
22924511 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAAT
22924549 CCCGCAGGC
1 CCCGCAGGC
22924558 CTAGTGCCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.25
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGATAAAT
Found at i:22924570 original size:38 final size:38
Alignment explanation
Indices: 22924499--22924580 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
22924489 TGGTAAAATG
* * * *
22924499 TCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATA
1 TCCGGGATAAATCCCGCAGGCCTAGTGCCGGTATTATA
22924537 TCCGGGATAAATCCCGCAGGCCTAGTGCCGGTATTATA
1 TCCGGGATAAATCCCGCAGGCCTAGTGCCGGTATTATA
*
22924575 TTCGGG
1 TCCGGG
22924581 CCTTCATGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (38 bp):
TCCGGGATAAATCCCGCAGGCCTAGTGCCGGTATTATA
Found at i:22924783 original size:43 final size:43
Alignment explanation
Indices: 22924552--22924768 Score: 321
Period size: 43 Copynumber: 5.1 Consensus size: 43
22924542 GATAAATCCC
* * * *
22924552 GCAGGCCTAGTGCCGGT-AT-TATATTCGGGCCTTCATGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
22924593 GTAGGCTTCGTGTCGGTGATGTGTATTCGGGCCTTCGTACCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
22924636 GCAGGCTTCGCGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
22924679 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
22924722 GCAGGCTTTGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
22924765 GCAG
1 GCAG
22924769 CCGTAATGTC
Statistics
Matches: 158, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 13 0.08
42 2 0.01
43 143 0.91
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:22926403 original size:31 final size:31
Alignment explanation
Indices: 22926368--22926429 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
22926358 TCTAATGGCC
22926368 ATATACAAAATAATCATAATACTTTCATGAG
1 ATATACAAAATAATCATAATACTTTCATGAG
22926399 ATATACAAAATAATCATAATACTTTCATGAG
1 ATATACAAAATAATCATAATACTTTCATGAG
22926430 CAAACTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (31 bp):
ATATACAAAATAATCATAATACTTTCATGAG
Found at i:22930558 original size:27 final size:27
Alignment explanation
Indices: 22930527--22930707 Score: 238
Period size: 27 Copynumber: 6.7 Consensus size: 27
22930517 TTAGTTTACC
22930527 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
22930554 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
22930581 AAATCACCAAAACA-CCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
22930607 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
22930634 AAATTACCAAAAAACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
22930661 AAATTACCAAAATACCCATGGTATGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
22930688 AAATTACTAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
22930708 TAGGGTAGAA
Statistics
Matches: 129, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
26 21 0.16
27 108 0.84
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:22930691 original size:54 final size:54
Alignment explanation
Indices: 22930527--22930707 Score: 265
Period size: 54 Copynumber: 3.4 Consensus size: 54
22930517 TTAGTTTACC
*
22930527 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
22930581 AAATCACCAAAACA-CCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
22930634 AAATTACCAAAAAACCCCTGGTTTGTAAAATTACCAAAATACCCATGGTATGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
22930688 AAATTACTAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
22930708 TAGGGTAGAA
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
53 48 0.43
54 64 0.57
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:22930719 original size:27 final size:27
Alignment explanation
Indices: 22930662--22930812 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
22930652 TGGTTTGTAA
* * * *
22930662 AATTACCAAAATACCCATGGTA-TGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
**
22930689 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
22930716 AATTACCGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
22930743 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
22930770 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
22930797 AATTACCGAGATACCC
1 AATTACCGAAATACCC
22930813 TAGGGTGTTA
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
26 3 0.03
27 104 0.97
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:22930720 original size:54 final size:53
Alignment explanation
Indices: 22930527--22930785 Score: 177
Period size: 54 Copynumber: 4.8 Consensus size: 53
22930517 TTAGTTTACC
** * * * *
22930527 AAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCT-GTAGGGTAGAATTACCAAAATACCC-TGGTATGTA
* * ** * * **
22930581 AAATCACCAAAACA-CCCTAGT-TTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCT-GTAGGGTAGAATTACCAAAATACCC-TGGTATGTA
* ** *
22930634 AAATTACCAAAAAACCCCTGGT-TTGTAAAATTACCAAAATACCCATGGTATGTA
1 AAATTACCAAAATACCCCT-GTAGGGTAGAATTACCAAAATACCC-TGGTATGTA
* * * * *
22930688 AAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACTCTTGTAGGGTA
1 AAATTACCAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTGGTA-TGTA
* **
22930742 GAAA-TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCC
1 -AAATTACCAAAATACCCCTGTAGGGTAGAATTACCAAAATACCC
22930786 CTATAGGGTA
Statistics
Matches: 176, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
53 54 0.31
54 119 0.68
55 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTGGTATGTA
Found at i:22930720 original size:81 final size:78
Alignment explanation
Indices: 22930527--22930729 Score: 203
Period size: 80 Copynumber: 2.5 Consensus size: 78
22930517 TTAGTTTACC
** * * * *
22930527 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCT-GTGGGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
22930592 ACACCCTAGTTTGTA
65 ATACCCT-GTATGTA
* *
22930607 AAATTACCAAAATA-CCCT-TGGTTTACAAAATTACCAAAAAACCCCTGGTTTGTAAAATTACCA
1 AAATTACCAAAATACCCCTGTGG-GT--AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCA
22930670 AAATACCCATGGTATGTA
63 AAATACCC-T-GTATGTA
* * *
22930688 AAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATAC
1 AAATTACCAAAATACCCCTGT-GGGTAAAATTACCAAAATAC
22930730 TCTTGTAGGG
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 4 0.04
80 53 0.53
81 33 0.33
82 4 0.04
83 2 0.02
84 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (78 bp):
AAATTACCAAAATACCCCTGTGGGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
TACCCTGTATGTA
Found at i:22931248 original size:6 final size:6
Alignment explanation
Indices: 22931217--22931304 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
22931207 TTGCATTCAC
* *
22931217 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
22931265 ATCACTTG ATTTTG ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
22931305 GATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.08
6 51 0.80
7 5 0.08
8 3 0.05
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:22931248 original size:25 final size:24
Alignment explanation
Indices: 22931220--22931287 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
22931210 CATTCACATT
22931220 CTGATTTTGATTCTG-TTACCTGAT-A
1 CTGATTTTGATTCTGATT--CT-ATCA
*
22931245 CTGATTCTGATTCTGATTCTATCA
1 CTGATTTTGATTCTGATTCTATCA
22931269 CTTGATTTTGATTCTGATT
1 C-TGATTTTGATTCTGATT
22931288 TTGATTCTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 2 0.05
24 4 0.11
25 30 0.79
26 2 0.05
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (24 bp):
CTGATTTTGATTCTGATTCTATCA
Done.