Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 233 of 345
Found at i:68187387 original size:14 final size:14
Alignment explanation
Indices: 68187368--68187446 Score: 68
Period size: 15 Copynumber: 5.4 Consensus size: 14
68187358 CAAAGATAAC
*
68187368 AAGAAAACCGAATA
1 AAGAAATCCGAATA
*
68187382 AAGAAATCCAAGATA
1 AAGAAATCCGA-ATA
* *
68187397 GAGAAACCCGGAATA
1 AAGAAATCC-GAATA
*
68187412 AAGAAATCAGAATA
1 AAGAAATCCGAATA
* *
68187426 AAGAGATCCAGGATA
1 AAGAAATCC-GAATA
68187441 AAGAAA
1 AAGAAA
68187447 CCCAAGATAC
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 21 0.42
15 28 0.56
16 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.19, T:0.10
Consensus pattern (14 bp):
AAGAAATCCGAATA
Found at i:68187455 original size:15 final size:15
Alignment explanation
Indices: 68187379--68187455 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
68187369 AGAAAACCGA
*
68187379 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
* *
68187394 ATAGAGAAACCC-GG
1 ATAAAGAAACCCAAG
*
68187408 AATAAAGAAA-TC-AG
1 -ATAAAGAAACCCAAG
* * *
68187422 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
68187438 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
68187453 ATA
1 ATA
68187456 CGATACTATG
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
14 12 0.26
15 34 0.72
16 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:68190510 original size:93 final size:93
Alignment explanation
Indices: 68190398--68190569 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
68190388 CGCCCATAAG
* *
68190398 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
68190463 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
68190491 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
68190556 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
68190570 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:68190566 original size:46 final size:46
Alignment explanation
Indices: 68190391--68190566 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
68190381 TGTAACCCGC
* * *
68190391 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
68190437 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
68190487 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
68190530 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
68190567 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:68202622 original size:12 final size:13
Alignment explanation
Indices: 68202605--68202642 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
68202595 ATCCTGGAAG
68202605 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
68202617 ATTAAGAACACATA
1 ATTAAGAACA-AGA
68202631 ATTAAGAACAAG
1 ATTAAGAACAAG
68202643 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:68204491 original size:21 final size:21
Alignment explanation
Indices: 68204452--68204491 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
68204442 CTAGCAGATA
*
68204452 TAAATTAAAATAATAAAACCC
1 TAAATTAAAAGAATAAAACCC
68204473 TAAATT-AAAGAATATAAAC
1 TAAATTAAAAGAATA-AAAC
68204492 TTAAAGAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAATTAAAAGAATAAAACCC
Found at i:68205141 original size:26 final size:27
Alignment explanation
Indices: 68205105--68205157 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
68205095 TTATACATCT
68205105 CATAAGGGCATAATAGTCA-TTTGTCA
1 CATAAGGGCATAATAGTCATTTTGTCA
* *
68205131 CATAGGGGCATAATAGTTATTTTGTCA
1 CATAAGGGCATAATAGTCATTTTGTCA
68205158 ATTTGGGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CATAAGGGCATAATAGTCATTTTGTCA
Found at i:68205289 original size:23 final size:23
Alignment explanation
Indices: 68205259--68205309 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
68205249 TGGCCCTAAA
68205259 GCCCATAAAGCGGGCACATGTGG
1 GCCCATAAAGCGGGCACATGTGG
68205282 GCCCATAAAGCGGGCACATGTGG
1 GCCCATAAAGCGGGCACATGTGG
68205305 GCCCA
1 GCCCA
68205310 CACGTCTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.33, T:0.12
Consensus pattern (23 bp):
GCCCATAAAGCGGGCACATGTGG
Found at i:68210793 original size:42 final size:42
Alignment explanation
Indices: 68210692--68210853 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 42
68210682 TGTGTTATCA
* * *
68210692 TGTAAGACCACGTCTGGGATGTTGGCATCGAATTATGATGTACG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGTATT-TGAT-TACG
*
68210736 TGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTACG
* *
68210778 TGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTGGATTACA
1 TGTAAGACCAC-GTCTAGGAC-GTTGGCATCG-TATTTGATTACG
* * *
68210821 TGTAAGACCACATCTGGGACGTTGGCATTGTAT
1 TGTAAGACCACGTCTAGGACGTTGGCATCGTAT
68210854 GAGCTTTTCG
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 33 0.32
43 37 0.36
44 32 0.31
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTACG
Found at i:68219968 original size:42 final size:43
Alignment explanation
Indices: 68219934--68220020 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 43
68219924 GGATGTTGGT
*
68219934 ATCG-TATCTGATTTCGTGTAAGACC-CTATCTGGGACAGTGGC
1 ATCGATATCTGATTTCATGTAAGACCAC-ATCTGGGACAGTGGC
* *
68219976 ATCGATATTTGATTTCATGTAAGACCACATCTGGGACATTGGC
1 ATCGATATCTGATTTCATGTAAGACCACATCTGGGACAGTGGC
68220019 AT
1 AT
68220021 TGTATGATCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 4 0.10
43 35 0.88
44 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (43 bp):
ATCGATATCTGATTTCATGTAAGACCACATCTGGGACAGTGGC
Found at i:68225058 original size:99 final size:98
Alignment explanation
Indices: 68224883--68225177 Score: 475
Period size: 99 Copynumber: 3.0 Consensus size: 98
68224873 GACTTGAAAT
* * * *
68224883 TTTCTGTAAGACCCTGTCTGGAATAAAGGCATCAATATTGAATTACATGTAAGACCATGTCTGGG
1 TTTCTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTGGG
68224948 ACGTTGGCATTGTACTTGTTTATGAGTATCTGA
66 ACGTTGGCATTGTACTTGTTTATGAGTATCTGA
* * *
68224981 TTTCATGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACATGTAAGATCACATCTGG
1 TTTC-TGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTGG
*
68225046 GACGTTGGCATTGTACTTGTTTATGAGTATTTGA
65 GACGTTGGCATTGTACTTGTTTATGAGTATCTGA
*
68225080 TTTC-GTTCAAGACCCTGTCTTGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTG
1 TTTCTG-T-AAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTG
68225144 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
64 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
68225178 TATCGCTTCG
Statistics
Matches: 181, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
97 1 0.01
98 5 0.03
99 175 0.97
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (98 bp):
TTTCTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTGGG
ACGTTGGCATTGTACTTGTTTATGAGTATCTGA
Found at i:68227917 original size:40 final size:40
Alignment explanation
Indices: 68227860--68228090 Score: 329
Period size: 40 Copynumber: 5.8 Consensus size: 40
68227850 GGATATAGCT
* * * *
68227860 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* *
68227899 GCTTGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
68227939 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
68227979 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* * ** * *
68228019 ACTTGCACAAATGCCTTCGGGACTTAGCTCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* *
68228059 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
68228091 TTATCATCCG
Statistics
Matches: 174, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 5 0.03
40 169 0.97
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
Found at i:68229472 original size:60 final size:61
Alignment explanation
Indices: 68229337--68229472 Score: 208
Period size: 60 Copynumber: 2.3 Consensus size: 61
68229327 CTCAAAGCTC
*
68229337 TTTTTCCTTCTTTTTATTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTCTCTTTTT
1 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTCTCTTTTT
*
68229398 TTTTT-CTTCTTTTTCTTTCTTCTATTTGGCCAAGAACAACATGAGAGCTTTT-T-TTTCTT
1 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTCTCTTT-TT
68229457 TCTTTTCCTT-TTTTTC
1 T-TTTTCCTTCTTTTTC
68229473 ATCATCATTT
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
58 3 0.04
59 4 0.06
60 55 0.79
61 8 0.11
ACGTcount: A:0.15, C:0.21, G:0.09, T:0.55
Consensus pattern (61 bp):
TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTCTCTTTTT
Found at i:68232524 original size:27 final size:27
Alignment explanation
Indices: 68232486--68232538 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
68232476 CTGGGACTTT
68232486 CTAGTTACTACAGGCAATTTGTAAAAG
1 CTAGTTACTACAGGCAATTTGTAAAAG
*
68232513 CTAGTTACTACAGGCGATTTGTAAAA
1 CTAGTTACTACAGGCAATTTGTAAAA
68232539 ACTTTCTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (27 bp):
CTAGTTACTACAGGCAATTTGTAAAAG
Found at i:68236080 original size:99 final size:99
Alignment explanation
Indices: 68235785--68236081 Score: 504
Period size: 99 Copynumber: 3.0 Consensus size: 99
68235775 TCGATCTGAA
* *
68235785 ATTTCGTGTAAGACCCTATCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTG
1 ATTTTGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTG
*
68235850 GGACGTTGGCATTGTACTTGTTTATGAGTATCCG
66 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
* * * * *
68235884 ATTTTGTGTAAGACCCTGTCTGGGACAGAGGCATCAATATTGAATTACATGTAAGATCACATCTA
1 ATTTTGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTG
*
68235949 GGATGTTGGCATTGTACTTGTTTATGAGTATCTG
66 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
68235983 ATTTTGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTG
1 ATTTTGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTG
*
68236048 GGACGTTGGTATTGTACTTGTTTATGAGTATCTG
66 GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
68236082 TATCGCTTCG
Statistics
Matches: 182, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 182 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (99 bp):
ATTTTGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATGTAAGACCACGTCTG
GGACGTTGGCATTGTACTTGTTTATGAGTATCTG
Found at i:68239124 original size:53 final size:52
Alignment explanation
Indices: 68239067--68239261 Score: 149
Period size: 54 Copynumber: 3.6 Consensus size: 52
68239057 ATTACCATTT
* * * *
68239067 CCATGTCTTGGCATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACT-ACCAATG
* * * * ** *
68239120 CCATGCCTTAACATGGTCTTACATGGGATCTTTGCCTTACAGTAGTTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG-A-ACTACCAATG
* * * * *
68239175 CCATGTCTTGACATGGTCTTACATGCTTTACTTTCCTTGTAT-AACATACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCC-T-TATGAAC-TACCAATG
* * *
68239229 TCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGCCTTGACATGGTCTTACATGGTATCCTT
68239262 AAACCCTAAT
Statistics
Matches: 106, Mismatches: 30, Indels: 11
0.72 0.20 0.07
Matches are distributed among these distances:
53 33 0.31
54 35 0.33
55 34 0.32
56 2 0.02
57 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (52 bp):
CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTACCAATG
Found at i:68250198 original size:40 final size:40
Alignment explanation
Indices: 68250136--68250343 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
68250126 CATTGGAATG
* * *
68250136 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * *
68250176 ATATCCAGGCTAAGACCTGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
68250216 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * ** * *
68250256 AAATCCGGGTTAAGACCCGAAGGCAATTGTGTGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* ** * * * * *
68250296 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
68250336 ATATCCGG
1 ATATCCGG
68250344 TTAAATTCGA
Statistics
Matches: 135, Mismatches: 31, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
39 3 0.02
40 130 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:68250342 original size:80 final size:79
Alignment explanation
Indices: 68250140--68250347 Score: 211
Period size: 80 Copynumber: 2.6 Consensus size: 79
68250130 GGAATGATAT
* * * *
68250140 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCAGGCTAAGACCTGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCC-GGTTAAGACCCGAAGGCATTCG
*** *
68250205 TGCGAGTTGTTATAT
65 TGCGAGTCACTATAA
* * ** *
68250220 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCC-GGTTAAGACCCGAAGGC-ATTC
*
68250284 GTGTGAGTCACTATAA
64 GTGCGAGTCACTATAA
** * * *
68250300 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGTTAA
68250348 ATTCGAAGGT
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
79 6 0.06
80 94 0.91
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGTTAAGACCCGAAGGCATTCGT
GCGAGTCACTATAA
Found at i:68257529 original size:11 final size:11
Alignment explanation
Indices: 68257513--68257539 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
68257503 CCGACTTTGG
68257513 AAATTCATTGT
1 AAATTCATTGT
68257524 AAATTCATTGT
1 AAATTCATTGT
68257535 AAATT
1 AAATT
68257540 AACCAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (11 bp):
AAATTCATTGT
Found at i:68258113 original size:40 final size:39
Alignment explanation
Indices: 68258069--68258252 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 39
68258059 GCTACTCGTT
*
68258069 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
* *
68258109 CAAATGCCTTTGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCC-TTCGGACTTAGCCCGG-TTATAGTAACTCGCA
* * ***
68258149 CCAATGCCTTCGGGCTTAGCCC-AAAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
68258188 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
68258229 CAAA-GCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG
68258253 ACATCATTCG
Statistics
Matches: 116, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
39 35 0.30
40 64 0.55
41 17 0.15
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:68258194 original size:39 final size:40
Alignment explanation
Indices: 68258097--68258200 Score: 147
Period size: 39 Copynumber: 2.6 Consensus size: 40
68258087 AGCCCGGTTA
* ** *
68258097 TAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAAAAT
* *
68258137 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAAAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAAAAT
68258176 TAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
68258201 ATCTTAGTCC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 33 0.58
40 24 0.42
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAAAAT
Found at i:68258237 original size:79 final size:80
Alignment explanation
Indices: 68258097--68258246 Score: 189
Period size: 79 Copynumber: 1.9 Consensus size: 80
68258087 AGCCCGGTTA
* * * *
68258097 TAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
68258162 G-CTTAGCCCAAAAT
66 GACTTAGCCCAAAAT
** * *
68258176 TAGTAACTCGCACAAATGCC-TTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTC
68258239 GGGACTTA
64 GGGACTTA
68258247 ACCCGGACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 5 0.08
79 47 0.78
80 8 0.13
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
GACTTAGCCCAAAAT
Found at i:68267225 original size:44 final size:42
Alignment explanation
Indices: 68267161--68267257 Score: 142
Period size: 44 Copynumber: 2.3 Consensus size: 42
68267151 ATATGTGTTA
* *
68267161 TCGTGTAAGACCACGTTTGGGACGTTGGCATTG-ACTTATGATT
1 TCGTGTAAGACCACATTTGGGACGTTGGCATCGTAC-T-TGATT
68267204 TACGTGTAAGACCACATTTGGGACGTTGGCATCGTACTTGATT
1 T-CGTGTAAGACCACATTTGGGACGTTGGCATCGTACTTGATT
68267247 TCGTGTAAGAC
1 TCGTGTAAGAC
68267258 TTTGTCTGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
42 10 0.20
43 7 0.14
44 31 0.62
45 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCACATTTGGGACGTTGGCATCGTACTTGATT
Found at i:68269307 original size:48 final size:48
Alignment explanation
Indices: 68269198--68269479 Score: 287
Period size: 48 Copynumber: 5.8 Consensus size: 48
68269188 GTAAGATGTA
* * * ***
68269198 GATGCCATGTCCCAAA-ATTGGTCATACACTGGCTCTCACATATCGGTGCC
1 GATGCCATGTTCCAAACA-TGGTCTTACACTAGCTCT--CATATAAATGCC
* * *
68269248 GATGCCATGTTCCAAAAATGGTCTTACTCTACCTCTCATATAAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATGCC
* *
68269296 GATGCAATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATGCC
** * * * ** *
68269344 GATGCCATGTTTTAAACAGGGTCTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATGCC
* * * *
68269392 GATGCCATGTTCCAGACATGGACTTACTCTAACTCTCATATAAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATGCC
* * * *
68269440 GATGCCATGTTCCGAACGTGGTCTTACACTGGCTCACATA
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATA
68269480 ACCCTAGTAT
Statistics
Matches: 188, Mismatches: 43, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
48 158 0.84
50 29 0.15
51 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATGCC
Found at i:68269462 original size:144 final size:145
Alignment explanation
Indices: 68269217--68269479 Score: 404
Period size: 144 Copynumber: 1.8 Consensus size: 145
68269207 TCCCAAAATT
* *
68269217 GGTCATACACTGGCTCTCACATATCGGTGCCGATGCCATGTTCCAAAAATGGTCTTACTCTACCT
1 GGTCATACACTGGC-CTCACATATCGGTGCCGATGCCATGTTCCAAAAATGGACTTACTCTAACT
*
68269282 CTCATATAAATGCCGATGCAATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGAT
65 CTCATATAAATGCCGATGCAATGTTCCAAACATGGTCTTACACTAGCTCACATATAAATGTCGAT
68269347 GCCATGTTTTAAACAG
130 GCCATGTTTTAAACAG
* * *
68269363 GGTCTTACACTGG-CTCACATATCGAG-GCCGATGCCATGTTCCAGACATGGACTTACTCTAACT
1 GGTCATACACTGGCCTCACATATCG-GTGCCGATGCCATGTTCCAAAAATGGACTTACTCTAACT
* * * *
68269426 CTCATATAAATGCCGATGCCATGTTCCGAACGTGGTCTTACACTGGCTCACATA
65 CTCATATAAATGCCGATGCAATGTTCCAAACATGGTCTTACACTAGCTCACATA
68269480 ACCCTAGTAT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
144 93 0.88
145 1 0.01
146 12 0.11
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (145 bp):
GGTCATACACTGGCCTCACATATCGGTGCCGATGCCATGTTCCAAAAATGGACTTACTCTAACTC
TCATATAAATGCCGATGCAATGTTCCAAACATGGTCTTACACTAGCTCACATATAAATGTCGATG
CCATGTTTTAAACAG
Found at i:68279478 original size:62 final size:62
Alignment explanation
Indices: 68279381--68279505 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
68279371 ATACAAATGC
68279381 TATGTTTGTGGTTTAATTGAGAATATTTAATCATAAATGAATACCATGTTATATGCTTTTGA
1 TATGTTTGTGGTTTAATTGAGAATATTTAATCATAAATGAATACCATGTTATATGCTTTTGA
*
68279443 TATGTTTGTGGTTTAATTGAGAATATTTAATCATAAATGATTACCATGTTATATGCTTTTGA
1 TATGTTTGTGGTTTAATTGAGAATATTTAATCATAAATGAATACCATGTTATATGCTTTTGA
68279505 T
1 T
68279506 TTAGTATAAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.46
Consensus pattern (62 bp):
TATGTTTGTGGTTTAATTGAGAATATTTAATCATAAATGAATACCATGTTATATGCTTTTGA
Found at i:68286410 original size:14 final size:14
Alignment explanation
Indices: 68286391--68286417 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
68286381 TATTAAAGCA
68286391 ATAATTAAGAACAC
1 ATAATTAAGAACAC
68286405 ATAATTAAGAACA
1 ATAATTAAGAACA
68286418 AATCAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:68291997 original size:46 final size:46
Alignment explanation
Indices: 68291947--68292122 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
68291937 TATTTGGGCA
68291947 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
68291993 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
68292040 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
68292086 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68292123 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:68292102 original size:93 final size:93
Alignment explanation
Indices: 68291943--68292114 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
68291933 TGGATATTTG
* *
68291943 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
68292008 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
68292036 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
68292101 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
68292115 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:68295087 original size:15 final size:15
Alignment explanation
Indices: 68295067--68295135 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
68295057 GTATCTTGGG
68295067 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
68295082 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
68295097 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
68295112 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
68295127 TTTCTTTAT
1 TTTCTTTAT
68295136 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:68295136 original size:30 final size:30
Alignment explanation
Indices: 68295058--68295145 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
68295048 CATAGTATCG
* * * *
68295058 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
68295088 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
68295118 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
68295146 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:68297577 original size:46 final size:46
Alignment explanation
Indices: 68297527--68297702 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
68297517 TATTTGGGCA
68297527 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
68297573 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
68297620 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
68297666 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68297703 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:68297682 original size:93 final size:93
Alignment explanation
Indices: 68297523--68297694 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
68297513 TGGATATTTG
* *
68297523 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
68297588 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
68297616 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
68297681 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
68297695 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:68317972 original size:29 final size:29
Alignment explanation
Indices: 68317910--68318029 Score: 170
Period size: 29 Copynumber: 4.2 Consensus size: 29
68317900 TACATACACG
* *
68317910 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
68317938 CATATGGCCTATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
68317967 CGTATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
68317996 CATATGGCCGATTAGGCCCAAGTCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
68318025 TATAT
1 CATAT
68318030 ACATACTTTC
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 17 0.21
29 65 0.79
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:68324233 original size:25 final size:23
Alignment explanation
Indices: 68324189--68324244 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 23
68324179 TAAACAAATA
* *
68324189 AAATA-AAAAAATAAATTAAAGT
1 AAATAGAAAAAATAAAGTAAAGG
68324211 AAATAGAATAAAATGAAAGTAAAGG
1 AAATAGAA-AAAAT-AAAGTAAAGG
*
68324236 AAAAAGAAA
1 AAATAGAAA
68324245 CAAAATCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.18
23 2 0.07
24 6 0.21
25 15 0.54
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.16
Consensus pattern (23 bp):
AAATAGAAAAAATAAAGTAAAGG
Found at i:68325266 original size:24 final size:22
Alignment explanation
Indices: 68325239--68325285 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
68325229 AGGATTTATA
*
68325239 ATATTCCGGGTGTGTTTGGGCTGG
1 ATATT-CGAGTGTGTTTGGG-TGG
*
68325263 ATATTCTAGTGTGTTTGGGTGG
1 ATATTCGAGTGTGTTTGGGTGG
68325285 A
1 A
68325286 ATCCACGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.13, C:0.09, G:0.38, T:0.40
Consensus pattern (22 bp):
ATATTCGAGTGTGTTTGGGTGG
Found at i:68325906 original size:17 final size:18
Alignment explanation
Indices: 68325884--68325917 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68325874 CACATTGAAG
68325884 TGTTTT-AATGAAAACCT
1 TGTTTTCAATGAAAACCT
*
68325901 TGTTTTCATTGAAAACC
1 TGTTTTCAATGAAAACC
68325918 CTTCTTAAAA
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:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCAATGAAAACCT
Found at i:68327067 original size:28 final size:29
Alignment explanation
Indices: 68327033--68327123 Score: 132
Period size: 29 Copynumber: 3.2 Consensus size: 29
68327023 TACATACATG
*
68327033 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
*
68327061 CGTATGGCCCATTAGGCCCAAATCAT-ATT
1 CATATGGCCCATTAGGCCCAAATC-TCATT
*
68327090 CATATGGCCCATTAGGCCCAAATCGCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
68327119 CATAT
1 CATAT
68327124 ACATGCTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 17 0.30
29 38 0.68
30 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCTCATT
Found at i:68330801 original size:30 final size:30
Alignment explanation
Indices: 68330765--68330924 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
68330755 GACAAGATTG
* * * * *
68330765 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
68330795 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
68330823 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
68330852 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
68330882 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
68330911 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
68330925 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:68330892 original size:59 final size:57
Alignment explanation
Indices: 68330765--68330924 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
68330755 GACAAGATTG
* * * * * *
68330765 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
68330823 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
68330882 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
68330925 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:68333271 original size:29 final size:29
Alignment explanation
Indices: 68333238--68333398 Score: 155
Period size: 29 Copynumber: 5.6 Consensus size: 29
68333228 TGACGAGATC
*
68333238 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGAGCTGGAAATATAT
*
68333267 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGAGCTGGAAATATAT
* * *
68333296 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAATATAT
** ***
68333325 GGCACTGGGTGTGCGAGCTCGG-AGGGTAT
1 GGCACTAAGTGTGCGAGCT-GGAAATATAT
** * * *
68333354 GGCACTGTGTGTGCGGGCT-TAAATTACAT
1 GGCACTAAGTGTGCGAGCTGGAAA-TATAT
68333383 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
68333399 AATCGAGTAG
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
28 1 0.01
29 105 0.97
30 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAATATAT
Found at i:68336057 original size:29 final size:28
Alignment explanation
Indices: 68335991--68336058 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
68335981 TTTATTTCTT
* *
68335991 TTAAATTATATAATTAGTGATATATAAA
1 TTAAATTATATAATAAGTAATATATAAA
* *
68336019 TATAATTTATATAATAAG-AATTTATGATAA
1 T-TAAATTATATAATAAGTAATATAT-A-AA
68336049 TTAAATTATA
1 TTAAATTATA
68336059 ATGATATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 6 0.19
29 23 0.72
30 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (28 bp):
TTAAATTATATAATAAGTAATATATAAA
Found at i:68337719 original size:30 final size:29
Alignment explanation
Indices: 68337680--68337740 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
68337670 GTAGCTGAAG
*
68337680 CTAGTTAAATCGTACACTTAGTGCCAAAA
1 CTAGTTAAATCGCACACTTAGTGCCAAAA
68337709 CTAGTTTAAATCGCACACTTAGTGCCAAAA
1 CTAG-TTAAATCGCACACTTAGTGCCAAAA
68337739 CT
1 CT
68337741 TCCGTTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (29 bp):
CTAGTTAAATCGCACACTTAGTGCCAAAA
Found at i:68341624 original size:19 final size:19
Alignment explanation
Indices: 68341575--68341624 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
68341565 TAATTAGAAT
*
68341575 TAAATT-ATTAATATAAAA
1 TAAATTAATTAAAATAAAA
* * *
68341593 CAAATAAAATAAAATAAAA
1 TAAATTAATTAAAATAAAA
68341612 TAAATTAATTAAA
1 TAAATTAATTAAA
68341625 GCAAATAGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAATTAATTAAAATAAAA
Found at i:68342133 original size:18 final size:18
Alignment explanation
Indices: 68342110--68342144 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
68342100 TAAAAGAGTC
68342110 AATTAGG-ATTAAATTGAA
1 AATTAGGCA-TAAATTGAA
68342128 AATTAGGCATAAATTGA
1 AATTAGGCATAAATTGA
68342145 GTAGAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (18 bp):
AATTAGGCATAAATTGAA
Found at i:68342699 original size:24 final size:22
Alignment explanation
Indices: 68342672--68342718 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
68342662 AGGATTTATA
68342672 ATATTCCGAGTGTGTTTGGGCTGG
1 ATATT-CGAGTGTGTTTGGG-TGG
*
68342696 ATATTCTAGTGTGTTTGGGTGG
1 ATATTCGAGTGTGTTTGGGTGG
68342718 A
1 A
68342719 ATCCACGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 13 0.59
24 5 0.23
ACGTcount: A:0.15, C:0.09, G:0.36, T:0.40
Consensus pattern (22 bp):
ATATTCGAGTGTGTTTGGGTGG
Found at i:68344543 original size:29 final size:29
Alignment explanation
Indices: 68344477--68344572 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
68344467 AAGTCTACAT
* * *
68344477 ACATGCATATGGCCCACTCGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** *
68344505 TTAATCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
68344534 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
68344563 ACATTCATAT
1 ACATTCATAT
68344573 ACAGGCTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 18 0.31
29 40 0.69
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:68347596 original size:17 final size:18
Alignment explanation
Indices: 68347574--68347609 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
68347564 ATAGAAAAAA
*
68347574 AAGGATTAAA-TTGAATT
1 AAGGATAAAAGTTGAATT
68347591 AAGGATAAAAGTTGAATT
1 AAGGATAAAAGTTGAATT
68347609 A
1 A
68347610 TAGAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (18 bp):
AAGGATAAAAGTTGAATT
Found at i:68348265 original size:14 final size:14
Alignment explanation
Indices: 68348226--68348258 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
68348216 AATATAAAAC
*
68348226 AAATAAATTAAATT
1 AAATAAATTAAAGT
68348240 AAATAAATTAAAGT
1 AAATAAATTAAAGT
68348254 AAATA
1 AAATA
68348259 GAATAAAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAATAAATTAAAGT
Found at i:68349330 original size:24 final size:22
Alignment explanation
Indices: 68349303--68349349 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
68349293 AGGATTTATA
68349303 ATATTCCGGGTGTGTTAGGGCTGG
1 ATATT-CGGGTGTGTTAGGG-TGG
* *
68349327 ATATTCTGGTGTGTTTGGGTGG
1 ATATTCGGGTGTGTTAGGGTGG
68349349 A
1 A
68349350 ATCCGCGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.13, C:0.09, G:0.40, T:0.38
Consensus pattern (22 bp):
ATATTCGGGTGTGTTAGGGTGG
Found at i:68351178 original size:29 final size:29
Alignment explanation
Indices: 68351111--68351235 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
68351101 AAGTCTACAT
* * * *
68351111 ACATGCATATGGCCAACTCGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
68351139 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
68351168 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
68351197 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
68351226 ACATTCATAT
1 ACATTCATAT
68351236 ACATGCTTTC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 19 0.22
29 69 0.78
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:68351478 original size:16 final size:16
Alignment explanation
Indices: 68351444--68351487 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
68351434 CCATAGCCAA
68351444 ACTTTT-GAC-TTTTG
1 ACTTTTCGACATTTTG
*
68351458 ACTTTTCGGCATTTTG
1 ACTTTTCGACATTTTG
*
68351474 GCTTTTCGACATTT
1 ACTTTTCGACATTT
68351488 CGAATTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 6 0.24
15 2 0.08
16 17 0.68
ACGTcount: A:0.14, C:0.18, G:0.16, T:0.52
Consensus pattern (16 bp):
ACTTTTCGACATTTTG
Found at i:68353615 original size:39 final size:39
Alignment explanation
Indices: 68353561--68353692 Score: 176
Period size: 39 Copynumber: 3.4 Consensus size: 39
68353551 TGCATGGTAT
* * *
68353561 TGGAAAAATATCCGGACTTGAAGTCTGTAAGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAAGCTTTATGC
*
68353600 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAAGCTTTATGC
* * *
68353639 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAAGCTTTA-TGC
*
68353678 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
68353693 GCTAAGTCCC
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
38 2 0.02
39 83 0.98
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTGAAGTCCGCAAGCTTTATGC
Found at i:68353717 original size:39 final size:39
Alignment explanation
Indices: 68353597--68353900 Score: 301
Period size: 39 Copynumber: 7.7 Consensus size: 39
68353587 GTAAGCTTTA
* * **
68353597 TGCTGGAAATATATCCGGACTTGAAGT-CCGCAGGC-TTTA
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTCG
* * **
68353636 TGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGC-TAAG
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTCG
*
68353675 TGCTGGAAAAATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* * * *
68353714 TGCTGGTATTATATCTGGGCTAAGTCCTGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* * *
68353753 TGTTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
***
68353792 TGCTGGTGCTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
***
68353831 TGCTGGCGTTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* * *
68353870 TGCTGGTATTATATCTGGGCTTAAAGTCCCG
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCG
68353901 CATGCTTTGT
Statistics
Matches: 236, Mismatches: 25, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
37 4 0.02
38 8 0.03
39 215 0.91
40 1 0.00
41 8 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (39 bp):
TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
Found at i:68353770 original size:117 final size:118
Alignment explanation
Indices: 68353636--68353898 Score: 352
Period size: 117 Copynumber: 2.2 Consensus size: 118
68353626 GCAGGCTTTA
* * * *
68353636 TGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGGAAAAATATCCGGGCTAAGT
1 TGCTGGTATTATATCCGGGCTTAAAGTCCGAAGGCATAAGTGCTGGAAAAATATCCGGGCTAAGT
* * *
68353700 CCCGAAGGCATTCGTGCTGGTATTATATCTGGGCTAAGTCCTGAAGGCATTCG
66 CCCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCCGAAGGCATTCG
* ** ****
68353753 TGTTGGTATTATATCCGGGC-T-AAGTCCCGAAGGCATTCGTGCTGGTGCTATATCCGGGCTAAG
1 TGCTGGTATTATATCCGGGCTTAAAGT-CCGAAGGCATAAGTGCTGGAAAAATATCCGGGCTAAG
*
68353816 TCCCGAAGGCATTCGTGCTGGCGTTATATCCGGGCTAAGTCCCGAAGGCATTCG
65 TCCCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCCGAAGGCATTCG
*
68353870 TGCTGGTATTATATCTGGGCTTAAAGTCC
1 TGCTGGTATTATATCCGGGCTTAAAGTCC
68353899 CGCATGCTTT
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
115 4 0.03
116 8 0.06
117 106 0.85
118 3 0.02
119 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (118 bp):
TGCTGGTATTATATCCGGGCTTAAAGTCCGAAGGCATAAGTGCTGGAAAAATATCCGGGCTAAGT
CCCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCCGAAGGCATTCG
Found at i:68359163 original size:40 final size:40
Alignment explanation
Indices: 68359108--68359317 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
68359098 AACATTGGAA
68359108 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
68359148 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
68359188 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
68359228 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
68359267 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
68359308 CTATATCCGG
1 ATATATCCGG
68359318 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:68367195 original size:40 final size:40
Alignment explanation
Indices: 68367140--68367349 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
68367130 AACATTGGAA
68367140 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
68367180 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
68367220 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
68367260 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
68367299 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
68367340 CTATATCCGG
1 ATATATCCGG
68367350 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:68374311 original size:31 final size:31
Alignment explanation
Indices: 68374273--68374336 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
68374263 CCCTATGTCA
68374273 ATTCAACCGATTAATTAAATCTAATAAGCAC
1 ATTCAACCGATTAATTAAATCTAATAAGCAC
68374304 ATTCAACCGATTAATTAAATCTAATAAGCAC
1 ATTCAACCGATTAATTAAATCTAATAAGCAC
68374335 AT
1 AT
68374337 AAAAGACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (31 bp):
ATTCAACCGATTAATTAAATCTAATAAGCAC
Found at i:68377905 original size:40 final size:39
Alignment explanation
Indices: 68377823--68377912 Score: 108
Period size: 40 Copynumber: 2.3 Consensus size: 39
68377813 GGTATTGCAT
** *
68377823 ACTTAGTGCCTTATATAGCCGAAGCTATTCCATTTCATAC
1 ACTTAGTG-CTTATATAGCCGAAGCTATTCCAAATCACAC
* * *
68377863 ACTTAGTGCTATTTATAGCCGAAGCTATTTCAAATCGCAC
1 ACTTAGTGCT-TATATAGCCGAAGCTATTCCAAATCACAC
68377903 ACTTAGTGCT
1 ACTTAGTGCT
68377913 GAACATAGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.05
40 41 0.95
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (39 bp):
ACTTAGTGCTTATATAGCCGAAGCTATTCCAAATCACAC
Found at i:68387459 original size:43 final size:43
Alignment explanation
Indices: 68387411--68387511 Score: 202
Period size: 43 Copynumber: 2.3 Consensus size: 43
68387401 AAGTTTGCTT
68387411 TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
1 TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
68387454 TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
1 TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
68387497 TCGGCACTAAGTGTG
1 TCGGCACTAAGTGTG
68387512 TGTGCTGGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (43 bp):
TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
Found at i:68387575 original size:29 final size:29
Alignment explanation
Indices: 68387498--68387562 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
68387488 GTGACGAGAT
*** *
68387498 CGGCACTAAGTGTGTGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
*
68387527 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
68387556 CGGCACT
1 CGGCACT
68387563 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGGAAAAATA
Found at i:68392479 original size:43 final size:43
Alignment explanation
Indices: 68392431--68392531 Score: 202
Period size: 43 Copynumber: 2.3 Consensus size: 43
68392421 AAGTTTGCTT
68392431 TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
1 TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
68392474 TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
1 TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
68392517 TCGGCACTAAGTGTG
1 TCGGCACTAAGTGTG
68392532 TGTGCTGGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (43 bp):
TCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGACGAGA
Found at i:68392595 original size:29 final size:29
Alignment explanation
Indices: 68392518--68392582 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
68392508 GTGACGAGAT
*** *
68392518 CGGCACTAAGTGTGTGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
*
68392547 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
68392576 CGGCACT
1 CGGCACT
68392583 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGGAAAAATA
Found at i:68401827 original size:29 final size:29
Alignment explanation
Indices: 68401762--68401841 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 29
68401752 CCAATCTCTT
* *
68401762 TCATATGGCCCATT-AGACCC-AATCATAT
1 TCATATGGCCCATTAAG-CCCAAATCACAG
* *
68401790 TTATGTGGCCCATTAAGCCCAAATCACAG
1 TCATATGGCCCATTAAGCCCAAATCACAG
*
68401819 TCATATGG-CCATTAGGCCCAAAT
1 TCATATGGCCCATTAAGCCCAAAT
68401842 TACATTTACA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 29 0.67
29 14 0.33
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (29 bp):
TCATATGGCCCATTAAGCCCAAATCACAG
Found at i:68404074 original size:46 final size:46
Alignment explanation
Indices: 68404011--68404174 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
68404001 GATGCCACGA
* *
68404011 CCCAGACACGGTCTTACACTGGCTATCATCTAGTAGCCGATGCATGT
1 CCCAGACACGGTCTTACACTGGCTCTCATCTAGT-GCAGATGCATGT
* * * * *
68404058 CCCAGACA-TGTCTTACACTAGCTCT-TTCTCAATGAAGATGCCATGT
1 CCCAGACACGGTCTTACACTGGCTCTCATCT-AGTGCAGATG-CATGT
* *
68404104 CCCAGACACGGTCTTACACTGGCTCTCAT-AATGTGGCTGATGCATGT
1 CCCAGACACGGTCTTACACTGGCTCTCATCTA-GT-GCAGATGCATGT
* *
68404151 CCCAGACA-TGTCTTACACTAGCTC
1 CCCAGACACGGTCTTACACTGGCTC
68404175 ACAAAAAAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
45 8 0.08
46 44 0.46
47 37 0.39
48 6 0.06
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CCCAGACACGGTCTTACACTGGCTCTCATCTAGTGCAGATGCATGT
Found at i:68404160 original size:93 final size:93
Alignment explanation
Indices: 68404001--68404174 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
68403991 GTAAGGTGCT
*
68404001 GATGCCACGACCCAGACACGGTCTTACACTGGCTATCATCTAGTAGCCGATGCATGTCCCAGACA
1 GATGCCACGACCCAGACACGGTCTTACACTGGCTATCATATAGTAGCCGATGCATGTCCCAGACA
68404066 TGTCTTACACTAGCTCTTTCTCAATGAA
66 TGTCTTACACTAGCTCTTTCTCAATGAA
* * * * *
68404094 GATGCCATGTCCCAGACACGGTCTTACACTGGCTCTCATA-ATGTGGCTGATGCATGTCCCAGAC
1 GATGCCACGACCCAGACACGGTCTTACACTGGCTATCATATA-GTAGCCGATGCATGTCCCAGAC
68404158 ATGTCTTACACTAGCTC
65 ATGTCTTACACTAGCTC
68404175 ACAAAAAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (93 bp):
GATGCCACGACCCAGACACGGTCTTACACTGGCTATCATATAGTAGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTCTTTCTCAATGAA
Found at i:68414821 original size:47 final size:48
Alignment explanation
Indices: 68414752--68414971 Score: 179
Period size: 47 Copynumber: 4.7 Consensus size: 48
68414742 AGGTTCCAAC
*
68414752 GCCATGTCCCAGACACGGTCTTACACTGGGTCAT-ATCTCAAGTCGAT
1 GCCATGTCCCAGACACGGTCTTACACTGGCTCATCATCTCAAGTCGAT
* * * * *
68414799 GCCATGTCCTAGACACGGTCTTAAACTGACT-ATCATCTCGTAGCCGAT
1 GCCATGTCCCAGACACGGTCTTACACTGGCTCATCATCTC-AAGTCGAT
* * * *
68414847 G-CATGTCCCAAACA-TGTCTTACACTAGCTC-TCGTCTCAA-TGCTGAT
1 GCCATGTCCCAGACACGGTCTTACACTGGCTCATCATCTCAAGT-C-GAT
* * *** *
68414893 GCCATGTCCCAGACACAGTCTTACACTGGCTC-TCATAATGTGGTCAAT
1 GCCATGTCCCAGACACGGTCTTACACTGGCTCATCAT-CTCAAGTCGAT
* *
68414941 G-CATGTCCCAGACA-TGTCTTACACTAGCTCA
1 GCCATGTCCCAGACACGGTCTTACACTGGCTCA
68414972 CAAACAAATG
Statistics
Matches: 137, Mismatches: 26, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.01
46 37 0.27
47 68 0.50
48 27 0.20
49 2 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAGACACGGTCTTACACTGGCTCATCATCTCAAGTCGAT
Found at i:68414894 original size:46 final size:43
Alignment explanation
Indices: 68414844--68414970 Score: 123
Period size: 48 Copynumber: 2.8 Consensus size: 43
68414834 TCTCGTAGCC
*
68414844 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCT-
1 GATGCATGTCCCAAACATGTCTTACACTAGCTCTC--AT-AATG-TG
*
68414890 GATGCCATGTCCCAGACACA-GTCTTACACTGGCTCTCATAATGTG
1 GATG-CATGTCCCA-A-ACATGTCTTACACTAGCTCTCATAATGTG
*
68414935 GTCAATGCATGTCCCAGACATGTCTTACACTAGCTC
1 G---ATGCATGTCCCAAACATGTCTTACACTAGCTC
68414971 ACAAACAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
44 1 0.01
45 8 0.12
46 19 0.28
47 18 0.26
48 20 0.29
49 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (43 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATGTG
Found at i:68414896 original size:94 final size:94
Alignment explanation
Indices: 68414796--68414970 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 94
68414786 ATCTCAAGTC
* * * *
68414796 GATGCCATGTCCTAGACACGGTCTTAAACTGACTATCAT-CTCGTAGCCGATGCATGTCCCAAAC
1 GATGCCATGTCCCAGACACAGTCTTAAACTGACTATCATAAT-GTAGCCAATGCATGTCCCAAAC
68414860 ATGTCTTACACTAGCTCTCGTCTCAATGCT
65 ATGTCTTACACTAGCTCTCGTCTCAATGCT
* * * * * *
68414890 GATGCCATGTCCCAGACACAGTCTTACACTGGCTCTCATAATGTGGTCAATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACACAGTCTTAAACTGACTATCATAATGTAGCCAATGCATGTCCCAAACA
68414955 TGTCTTACACTAGCTC
66 TGTCTTACACTAGCTC
68414971 ACAAACAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
94 69 0.99
95 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAGACACAGTCTTAAACTGACTATCATAATGTAGCCAATGCATGTCCCAAACA
TGTCTTACACTAGCTCTCGTCTCAATGCT
Found at i:68420979 original size:28 final size:28
Alignment explanation
Indices: 68420947--68421045 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
68420937 GCCATAAGCC
*
68420947 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
68420975 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
68421003 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
68421032 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68421046 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:68428640 original size:28 final size:28
Alignment explanation
Indices: 68428608--68428706 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
68428598 TGCATAAGCC
*
68428608 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
68428636 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
68428664 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
68428693 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68428707 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:68436885 original size:28 final size:28
Alignment explanation
Indices: 68436853--68436917 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
68436843 ATTTACTAGA
*
68436853 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
68436881 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
68436909 ATACCCCTA
1 ATACCCCTA
68436918 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:68437064 original size:28 final size:29
Alignment explanation
Indices: 68437023--68437085 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
68437013 AGGAAGCGTC
*
68437023 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
68437051 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
68437080 CTGGTG
1 CTGGTG
68437086 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:68437096 original size:29 final size:28
Alignment explanation
Indices: 68437033--68437096 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
68437023 CTGGTGGCTA
* *
68437033 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
68437061 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
68437090 TGTCACA
1 TGCCACA
68437097 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:68439066 original size:43 final size:43
Alignment explanation
Indices: 68438902--68439067 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
68438892 CATGAGGTTC
* * *
68438902 CGATATGTGA-TTTCGTGTAAGACCACATCTAGGACATTGGCAT
1 CGATATGTAAGTTACGTGTAAGACCACGTCTAGGACA-TGGCAT
* * * * * *
68438945 TGATTTGTAATTTACGTGTAAGACAATGTCT-GAGACATCAGCAT
1 CGATATGTAAGTTACGTGTAAGACCACGTCTAG-GACAT-GGCAT
* *
68438989 C-ATATATAAGTT-CGTGTAAGACCATGTCTAGGACAGTGGCAT
1 CGATATGTAAGTTACGTGTAAGACCACGTCTAGGACA-TGGCAT
* * *
68439031 CGATATGTGA-TTACATGTAAGACCACGTCTGGGACAT
1 CGATATGTAAGTTACGTGTAAGACCACGTCTAGGACAT
68439068 TGTTGTTGTA
Statistics
Matches: 97, Mismatches: 19, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
42 28 0.29
43 45 0.46
44 24 0.25
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
CGATATGTAAGTTACGTGTAAGACCACGTCTAGGACATGGCAT
Found at i:68443164 original size:11 final size:11
Alignment explanation
Indices: 68443144--68443177 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
68443134 AATTTTGAAC
*
68443144 TTACCGTTTCA
1 TTACCTTTTCA
68443155 TTACCTTTTC-
1 TTACCTTTTCA
68443165 TTACCTTTTCA
1 TTACCTTTTCA
68443176 TT
1 TT
68443178 TGTATAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (11 bp):
TTACCTTTTCA
Found at i:68446649 original size:46 final size:46
Alignment explanation
Indices: 68446599--68446774 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
68446589 TGGTTGAGCA
*
68446599 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68446645 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
68446690 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68446738 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCATTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68446775 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68446755 original size:93 final size:93
Alignment explanation
Indices: 68446596--68446766 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
68446586 GGATGGTTGA
* *
68446596 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
68446661 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
68446689 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
68446754 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
68446767 ATTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68460492 original size:20 final size:20
Alignment explanation
Indices: 68460443--68460494 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
68460433 TGATTAATTG
68460443 ACACGGGCGTGTTGGACTGA
1 ACACGGGCGTGTTGGACTGA
**
68460463 ACACAAGCGTGTTGGACTGA
1 ACACGGGCGTGTTGGACTGA
68460483 ACACGGGCGTGT
1 ACACGGGCGTGT
68460495 GAGAAATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.37, T:0.19
Consensus pattern (20 bp):
ACACGGGCGTGTTGGACTGA
Found at i:68464066 original size:15 final size:15
Alignment explanation
Indices: 68464043--68464072 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68464033 TTAAGAATTT
*
68464043 CTCCTTTTTTATTGA
1 CTCCCTTTTTATTGA
68464058 CTCCCTTTTTATTGA
1 CTCCCTTTTTATTGA
68464073 GATTTAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.07, T:0.57
Consensus pattern (15 bp):
CTCCCTTTTTATTGA
Found at i:68466698 original size:40 final size:40
Alignment explanation
Indices: 68466524--68466709 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
68466514 TCGAATGATG
* * *
68466524 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
68466564 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
68466604 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
68466644 TCCGGGATAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
68466685 -CCGGGCCATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
68466710 AACGAGTGGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68466727 original size:80 final size:81
Alignment explanation
Indices: 68466554--68466727 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 81
68466544 CTTTGTGCTA
* *
68466554 AGTGACTATATCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATC
1 AGTGACTATATCCGGGACTAAGATCCAAAGGCATTTGTGCGAGTTACTAAATCCGGACCAAGATC
**
68466618 CGAAGGCATTTGTGCG
66 CGAAGGCATTTGAACG
* * * *
68466634 AGTTACTAAATCCGGGA-TAAG-TCCCAAAGGCATTTGTGCGAGTTACTATAA-CCGGGCCATG-
1 AGTGACTATATCCGGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTA-AATCCGGACCAAGA
*
68466695 TCCCGAAGGTATTTGAACG
64 T-CCGAAGGCATTTGAACG
*
68466714 AGTGGCTATATCCG
1 AGTGACTATATCCG
68466728 AACTAACTCC
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
79 2 0.03
80 71 0.91
81 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (81 bp):
AGTGACTATATCCGGGACTAAGATCCAAAGGCATTTGTGCGAGTTACTAAATCCGGACCAAGATC
CGAAGGCATTTGAACG
Found at i:68468406 original size:30 final size:30
Alignment explanation
Indices: 68468371--68468428 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
68468361 TAGGCACTTC
*
68468371 CACACGGGT-GATCCACACGCCTGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCGTGTGTGA
*
68468401 CACACGGGTAGACCACATGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCGTGTGT
68468429 CATGACCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTGA
Found at i:68480363 original size:19 final size:19
Alignment explanation
Indices: 68480339--68480378 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
68480329 TTCAAAGTAA
68480339 AACACAATTATACACTTGT
1 AACACAATTATACACTTGT
68480358 AACACAATTATACACTTGT
1 AACACAATTATACACTTGT
68480377 AA
1 AA
68480379 ATACTCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (19 bp):
AACACAATTATACACTTGT
Found at i:68483040 original size:28 final size:29
Alignment explanation
Indices: 68482973--68483073 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
68482963 ATAGTGAATC
*
68482973 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
68483002 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
68483030 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
68483060 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68483074 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:68485494 original size:29 final size:29
Alignment explanation
Indices: 68485461--68485533 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
68485451 GTGACGAGAT
68485461 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
68485490 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
68485519 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
68485534 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:68485549 original size:29 final size:30
Alignment explanation
Indices: 68485461--68485593 Score: 141
Period size: 29 Copynumber: 4.6 Consensus size: 30
68485451 GTGACGAGAT
68485461 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
68485490 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* ***
68485519 TGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* * * **
68485548 TGGCACTATGTGTGCG-GGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGATGCTGGAAAT-ATA
68485577 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
68485594 AATCGAGTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
28 2 0.02
29 87 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGATGCTGGAAATATA
Found at i:68493237 original size:29 final size:29
Alignment explanation
Indices: 68493204--68493276 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
68493194 GTGACGAGAT
68493204 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
68493233 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
68493262 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
68493277 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:68493292 original size:29 final size:30
Alignment explanation
Indices: 68493204--68493336 Score: 141
Period size: 29 Copynumber: 4.6 Consensus size: 30
68493194 GTGACGAGAT
68493204 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
68493233 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* ***
68493262 TGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGCGATGCTGGAAATATA
* * * **
68493291 TGGCACTATGTGTGCG-GGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGATGCTGGAAAT-ATA
68493320 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
68493337 AATCGAGTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
28 2 0.02
29 87 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGATGCTGGAAATATA
Found at i:68500335 original size:28 final size:28
Alignment explanation
Indices: 68500303--68500372 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
68500293 AATGAGATTG
68500303 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
* *
68500331 GCACTATGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
68500359 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
68500373 GACTTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:68503423 original size:5 final size:5
Alignment explanation
Indices: 68503413--68503438 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
68503403 AATGCCAACC
68503413 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
68503439 ATTTTGGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:68504648 original size:11 final size:11
Alignment explanation
Indices: 68504628--68504661 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
68504618 AATTTTGAAC
*
68504628 TTACCATTTCA
1 TTACCTTTTCA
68504639 TTACCTTTTC-
1 TTACCTTTTCA
68504649 TTACCTTTTCA
1 TTACCTTTTCA
68504660 TT
1 TT
68504662 TGTATAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (11 bp):
TTACCTTTTCA
Found at i:68505159 original size:33 final size:34
Alignment explanation
Indices: 68505080--68505161 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
68505070 ACATTGTCAG
68505080 TCCAACCGAACACACAAGATGCTCACACGAGCCAA
1 TCCAACC-AACACACAAGATGCTCACACGAGCCAA
** * * * * *
68505115 TCCCTCAAACACACTA-ATGCTCATACGATCTAA
1 TCCAACCAACACACAAGATGCTCACACGAGCCAA
68505148 TCCAACCAACACAC
1 TCCAACCAACACAC
68505162 CAAATAGAGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
33 25 0.68
34 8 0.22
35 4 0.11
ACGTcount: A:0.39, C:0.38, G:0.09, T:0.15
Consensus pattern (34 bp):
TCCAACCAACACACAAGATGCTCACACGAGCCAA
Found at i:68507461 original size:40 final size:40
Alignment explanation
Indices: 68507395--68507561 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
68507385 AAATTGAATG
* * *
68507395 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
68507434 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
68507474 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
68507514 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
68507554 ATATCCGG
1 ATATCCGG
68507562 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:68515454 original size:40 final size:40
Alignment explanation
Indices: 68515388--68515554 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
68515378 AAATTGAATG
* * *
68515388 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
68515427 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
68515467 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
68515507 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
68515547 ATATCCGG
1 ATATCCGG
68515555 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:68518811 original size:207 final size:207
Alignment explanation
Indices: 68518456--68518870 Score: 812
Period size: 207 Copynumber: 2.0 Consensus size: 207
68518446 AAAGTGGTAC
68518456 AATTCAAGAAGTTCTTGGATATTCTAAAACAACTTTACATCAACATCCCGTTGGTGGAGGCTTTA
1 AATTCAAGAAGTTCTTGGATATTCTAAAACAACTTTACATCAACATCCCGTTGGTGGAGGCTTTA
68518521 GAACAAATGCCCAACTACGTGAAGTTTATGAAGGATATTCTATCCAAGAAGAAATGACTTAGTGA
66 GAACAAATGCCCAACTACGTGAAGTTTATGAAGGATATTCTATCCAAGAAGAAATGACTTAGTGA
68518586 GTATGAGACTATTGCTTTGACGAAGGAGTGAAGTGTAACAGCCCAATTTTGGGTCTAGTCAGAAC
131 GTATGAGACTATTGCTTTGACGAAGGAGTGAAGTGTAACAGCCCAATTTTGGGTCTAGTCAGAAC
68518651 AGTGGTTTCGAG
196 AGTGGTTTCGAG
68518663 AATTCAAGAAGTTCTTGGATATTCTAAAACAACTTTACATCAACATCCCGTTGGTGGAGGCTTTA
1 AATTCAAGAAGTTCTTGGATATTCTAAAACAACTTTACATCAACATCCCGTTGGTGGAGGCTTTA
*
68518728 GAACAAATGCCCAACTACGTGAAGTTTATGAAGGATATTCTATCCAAGAAGAAGTGACTTAGTGA
66 GAACAAATGCCCAACTACGTGAAGTTTATGAAGGATATTCTATCCAAGAAGAAATGACTTAGTGA
*
68518793 GTATGAGACTATTGCTTTGACGAATGAGTGAAGTGTAACAGCCCAATTTTGGGTCTAGTCAGAAC
131 GTATGAGACTATTGCTTTGACGAAGGAGTGAAGTGTAACAGCCCAATTTTGGGTCTAGTCAGAAC
68518858 AGTGGTTTCGAG
196 AGTGGTTTCGAG
68518870 A
1 A
68518871 CCACAAATCT
Statistics
Matches: 206, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
207 206 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (207 bp):
AATTCAAGAAGTTCTTGGATATTCTAAAACAACTTTACATCAACATCCCGTTGGTGGAGGCTTTA
GAACAAATGCCCAACTACGTGAAGTTTATGAAGGATATTCTATCCAAGAAGAAATGACTTAGTGA
GTATGAGACTATTGCTTTGACGAAGGAGTGAAGTGTAACAGCCCAATTTTGGGTCTAGTCAGAAC
AGTGGTTTCGAG
Found at i:68520117 original size:42 final size:42
Alignment explanation
Indices: 68520050--68520169 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 42
68520040 AGGGTTACTA
* *
68520050 AGATAACGTGTAAGACCATATCTGGGATATGACAT-CGATATG
1 AGATTACGTGTAAGACCATATCTGGGATATGACATACG-TACG
* * * *
68520092 AGACTT-CGTGTAAGACAATAGCTGGGCTATTGGCATACGTACG
1 AGA-TTACGTGTAAGACCATATCTGGGATA-TGACATACGTACG
* *
68520135 AGATTACATGTAAGACCATATCTGGGACATGACAT
1 AGATTACGTGTAAGACCATATCTGGGATATGACAT
68520170 TGGTACGATA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
42 30 0.48
43 30 0.48
44 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGATATGACATACGTACG
Found at i:68521384 original size:27 final size:27
Alignment explanation
Indices: 68521354--68521457 Score: 122
Period size: 27 Copynumber: 3.8 Consensus size: 27
68521344 GACTGCCAGA
* * *
68521354 ACAGATAATGTGACAAAGTCACTAGAT
1 ACAGATAATGTGGCAGAGCCACTAGAT
*
68521381 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACTAGAT
68521408 ACAGATATATGTGGCAGAGCCACTAGAT
1 ACAGATA-ATGTGGCAGAGCCACTAGAT
*
68521436 -CAGATAATTGTGGCATAGCCAC
1 ACAGATAA-TGTGGCAGAGCCAC
68521458 CAGGACGCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.01
27 51 0.76
28 15 0.22
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACTAGAT
Found at i:68521440 original size:54 final size:54
Alignment explanation
Indices: 68521349--68521460 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
68521339 AACATGACTG
*
68521349 CCAGAACAGATAATGTGACAAAGTCACTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAAAGCCACTAGATACAGATAATCGTGGCAGAGCCA
* * * *
68521403 CCAGAACAGATATATGTGGCAGAGCCACTAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAAAGCCACTAGATACAGATAATCGTGGCAGAGCCA
68521457 CCAG
1 CCAG
68521461 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAAAGCCACTAGATACAGATAATCGTGGCAGAGCCA
Found at i:68525852 original size:24 final size:23
Alignment explanation
Indices: 68525820--68525928 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
68525810 ACCAAACGTT
* **
68525820 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
68525844 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
68525868 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
68525892 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
68525916 GCACACATAGTGC
1 GCACACATAGTGC
68525929 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:68525894 original size:48 final size:48
Alignment explanation
Indices: 68525820--68525928 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
68525810 ACCAAACGTT
* **
68525820 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
68525868 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
68525916 GCACACATAGTGC
1 GCACACATAGTGC
68525929 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:68533724 original size:24 final size:23
Alignment explanation
Indices: 68533692--68533800 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
68533682 ACCAAACGTT
* **
68533692 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
68533716 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
68533740 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
68533764 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
68533788 GCACACATAGTGC
1 GCACACATAGTGC
68533801 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:68533766 original size:48 final size:48
Alignment explanation
Indices: 68533692--68533800 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
68533682 ACCAAACGTT
* **
68533692 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
68533740 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
68533788 GCACACATAGTGC
1 GCACACATAGTGC
68533801 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:68540180 original size:27 final size:27
Alignment explanation
Indices: 68540150--68540256 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
68540140 GGCTACCAAA
* *
68540150 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
*
68540177 ACAGACAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
68540204 ACAGATATATGTGGTAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
68540232 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
68540257 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.01
27 51 0.74
28 17 0.25
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:68540245 original size:54 final size:54
Alignment explanation
Indices: 68540144--68540256 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
68540134 CAGCATGGCT
* *
68540144 ACCAAAACAGATAATGTGACAGAGTCACCAGATACAGACAATCGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGACAATCGTGGCAGAGCC
** * * *
68540198 ACCAGAACAGATATATGTGGTAGAGCCACCAGAT-CAGATAATTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGACAATCGTGGCAGAGCC
68540252 ACCAG
1 ACCAG
68540257 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGACAATCGTGGCAGAGCC
Found at i:68540688 original size:8 final size:7
Alignment explanation
Indices: 68540675--68540718 Score: 52
Period size: 8 Copynumber: 5.7 Consensus size: 7
68540665 AATACCGGCT
68540675 TTTTGGC
1 TTTTGGC
68540682 ATTTTGGC
1 -TTTTGGC
68540690 TTTTTGGC
1 -TTTTGGC
68540698 ATTTTGGC
1 -TTTTGGC
68540706 TTTTCGGC
1 TTTT-GGC
68540714 TTTTG
1 TTTTG
68540719 CCGATCTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 5 0.15
8 28 0.85
ACGTcount: A:0.05, C:0.14, G:0.25, T:0.57
Consensus pattern (7 bp):
TTTTGGC
Found at i:68540692 original size:16 final size:16
Alignment explanation
Indices: 68540671--68540718 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
68540661 TCAAAATACC
68540671 GGCTTTTTGGCATTTT
1 GGCTTTTTGGCATTTT
68540687 GGCTTTTTGGCATTTT
1 GGCTTTTTGGCATTTT
*
68540703 GGCTTTTCGGC-TTTT
1 GGCTTTTTGGCATTTT
68540718 G
1 G
68540719 CCGATCTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 5 0.16
16 26 0.84
ACGTcount: A:0.04, C:0.15, G:0.27, T:0.54
Consensus pattern (16 bp):
GGCTTTTTGGCATTTT
Found at i:68543260 original size:30 final size:30
Alignment explanation
Indices: 68543225--68543282 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
68543215 TAGGTACTTC
68543225 CACACGGGT-GATCCACACGCCCATGTGTGA
1 CACACGGGTAGA-CCACACGCCCATGTGTGA
*
68543255 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCATGTGT
68543283 CATGGCCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.22, C:0.34, G:0.28, T:0.16
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCATGTGTGA
Found at i:68544226 original size:71 final size:71
Alignment explanation
Indices: 68544098--68544233 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 71
68544088 TCTTCCTTGG
* * *
68544098 GACATGTCATCGACACAGATAAGTGAGAGCCAGTGTAAGATCTATCTGGAGCGTGGCATCGGCCT
1 GACATGGCATCGACACAGATAAGTGAGAGCCAGTGTAAGACCTATCTGGAGCATGGCATCGGCCT
68544163 TGATAT
66 TGATAT
* *
68544169 GACATGGCATCGACACAGATAAGTGAGAGCCAGTGTAAGACCTCTCTGG-GACATGGCATTGGCC
1 GACATGGCATCGACACAGATAAGTGAGAGCCAGTGTAAGACCTATCTGGAG-CATGGCATCGGCC
68544233 T
65 T
68544234 CGATGCATGG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 58 0.98
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (71 bp):
GACATGGCATCGACACAGATAAGTGAGAGCCAGTGTAAGACCTATCTGGAGCATGGCATCGGCCT
TGATAT
Found at i:68547577 original size:49 final size:49
Alignment explanation
Indices: 68547518--68547646 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 49
68547508 TTGTTGTGTG
* * **
68547518 TCAGTGTAAGACTTGTCTAGGACATGGCATTGACATCGATAGATGTGA-
1 TCAGTGTAAGACCTGTCTAGGACATGGCATCGACATCGATAGATGAAAC
* * * * *
68547566 TCCAGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCGATATATGAAAC
1 T-CAGTGTAAGACCTGTCTAGGACATGGCATCGACATCGATAGATGAAAC
* *
68547616 TCAGTGTAAGACCTATCTAGGACACGGCATC
1 TCAGTGTAAGACCTGTCTAGGACATGGCATC
68547647 AACTTTAATG
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.02
49 64 0.97
50 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (49 bp):
TCAGTGTAAGACCTGTCTAGGACATGGCATCGACATCGATAGATGAAAC
Found at i:68560033 original size:23 final size:24
Alignment explanation
Indices: 68559984--68560041 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
68559974 CTTAATCAAT
68559984 CAAATTTTCTAAAAAGTATTTTCC
1 CAAATTTTCTAAAAAGTATTTTCC
68560008 CAAATTTTCTAAAAAGTATTTTCC
1 CAAATTTTCTAAAAAGTATTTTCC
*
68560032 AAAATTTTCT
1 CAAATTTTCT
68560042 TTCTGTGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (24 bp):
CAAATTTTCTAAAAAGTATTTTCC
Found at i:68565913 original size:38 final size:39
Alignment explanation
Indices: 68565800--68565942 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
68565790 CCGCACAAAG
*
68565800 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
68565840 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
68565879 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
68565917 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
68565943 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:68565921 original size:77 final size:79
Alignment explanation
Indices: 68565760--68565941 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
68565750 TCGTTCAAAC
* * **
68565760 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
68565825 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
68565840 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
68565903 CAATTTGCACAATT
66 CAATTTGCACAATT
68565917 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
68565942 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:68573897 original size:39 final size:39
Alignment explanation
Indices: 68573813--68573965 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
68573803 TATGGTAACC
** * *
68573813 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
68573853 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
68573892 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
68573931 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
68573966 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:68573939 original size:78 final size:79
Alignment explanation
Indices: 68573782--68573964 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
68573772 TCGTTCAAAC
* * **
68573782 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
68573847 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
68573862 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
68573926 CAATTTGCACAATT
66 CAATTTGCACAATT
68573940 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
68573965 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:68586809 original size:20 final size:20
Alignment explanation
Indices: 68586743--68586809 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
68586733 ATTTTAGTAA
*
68586743 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
** *
68586763 ACATGACCTGTATGCTATGC
1 ACATGATATGTATGATATGC
68586783 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
68586803 ACATGAT
1 ACATGAT
68586810 GTATTCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:68586890 original size:23 final size:23
Alignment explanation
Indices: 68586860--68586932 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
68586850 AGGAAGTGCA
68586860 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
68586883 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
68586906 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
68586930 AAA
1 AAA
68586933 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:68586949 original size:25 final size:24
Alignment explanation
Indices: 68586859--68586953 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
68586849 GAGGAAGTGC
68586859 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
68586883 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
68586906 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
68586930 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
68586954 ATAATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:68587182 original size:31 final size:31
Alignment explanation
Indices: 68587147--68587210 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
68587137 CGTTTACAGT
*
68587147 AAAGGCTTCGGCCCAATAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* **
68587178 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
68587209 AA
1 AA
68587211 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:68593411 original size:11 final size:11
Alignment explanation
Indices: 68593391--68593424 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
68593381 AATTTTGAAC
68593391 TTACCGTTTCA
1 TTACCGTTTCA
*
68593402 TTACCTTTTC-
1 TTACCGTTTCA
68593412 TTACCGTTTCA
1 TTACCGTTTCA
68593423 TT
1 TT
68593425 TGTATAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.15, C:0.26, G:0.06, T:0.53
Consensus pattern (11 bp):
TTACCGTTTCA
Done.