Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 270 of 284
Found at i:90739315 original size:25 final size:25
Alignment explanation
Indices: 90739281--90739671 Score: 782
Period size: 25 Copynumber: 15.6 Consensus size: 25
90739271 ATGCTTTTAG
90739281 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739306 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739331 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739356 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739381 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739406 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739431 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739456 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739481 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739506 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739531 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739556 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739581 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739606 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739631 TGCAGTTATGTTCGATATACGGGAC
1 TGCAGTTATGTTCGATATACGGGAC
90739656 TGCAGTTATGTTCGAT
1 TGCAGTTATGTTCGAT
90739672 GACAAATCGA
Statistics
Matches: 366, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 366 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (25 bp):
TGCAGTTATGTTCGATATACGGGAC
Found at i:90741804 original size:28 final size:28
Alignment explanation
Indices: 90741764--90741870 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
90741754 GCAATCAAAT
* * *
90741764 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACAAAATATTGAGA
90741792 ATGGCACTTAGTGTACAAAATATTGAGA
1 ATGGCACTTAGTGTACAAAATATTGAGA
* * *
90741820 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACAAAATATTGAGA
* * *
90741848 ATGACACTTCGTGTGCAAAATAT
1 ATGGCACTTAGTGTACAAAATAT
90741871 CGAATGATTC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACAAAATATTGAGA
Found at i:90741846 original size:56 final size:56
Alignment explanation
Indices: 90741764--90741870 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
90741754 GCAATCAAAT
* *
90741764 ATGGTACTCAGTGTACGAAATATTGAGAATGGCACTTAGTGTACAAAATATTGAGA
1 ATGGCACTCAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
* * * * *
90741820 ATGGCACTTAGTGTGCGAGATATTGAGAATGACACTTCGTGTGCAAAATAT
1 ATGGCACTCAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATAT
90741871 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (56 bp):
ATGGCACTCAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
Found at i:90742083 original size:43 final size:43
Alignment explanation
Indices: 90741982--90742110 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 43
90741972 TTTATAATGG
* * * *
90741982 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTG-A-AA
*
90742027 T-ATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
90742070 TGATATCGGGCTTCAAGCCTAGCAGGC-AAAATGCCGGTGAA
1 TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
90742111 TGAGTTCAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 13 0.18
43 25 0.34
44 26 0.36
45 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:90742191 original size:40 final size:41
Alignment explanation
Indices: 90742043--90742190 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 41
90742033 CGGGCTTCGG
*
90742043 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * *
90742086 GCCTAGCAGGCAAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
** * *** *
90742127 GTTTAGTAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
90742167 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
90742191 TTTGATAAAA
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
40 29 0.36
41 28 0.35
42 11 0.14
43 12 0.15
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:90746189 original size:21 final size:21
Alignment explanation
Indices: 90746107--90746300 Score: 126
Period size: 21 Copynumber: 9.2 Consensus size: 21
90746097 AAGGCTAAAA
* * * *
90746107 AGAAGCTCATGAGAGCTAAAC
1 AGAAACTCATAAGAGTTGAAC
* *
90746128 AGAAACCCATAAGGGTTGAAC
1 AGAAACTCATAAGAGTTGAAC
* * * *
90746149 ATG-AGCTCGTAAAAGCTGAAC
1 A-GAAACTCATAAGAGTTGAAC
*
90746170 TGAAACTCATATA-AGTTGAAAC
1 AGAAACTCATA-AGAGTTG-AAC
* **
90746192 AGAAGCTCATAAGAGTAAAAC
1 AGAAACTCATAAGAGTTGAAC
* * *
90746213 AGAAGCTCAGAAGAGCTGAAC
1 AGAAACTCATAAGAGTTGAAC
90746234 AGAAACTCATAAGAGTTGAAC
1 AGAAACTCATAAGAGTTGAAC
90746255 AGAAACTCA-ATAGAGCTT-AAC
1 AGAAACTCATA-AGAG-TTGAAC
* * * *
90746276 GGAAACTCGTATGAGTTAAAC
1 AGAAACTCATAAGAGTTGAAC
90746297 AGAA
1 AGAA
90746301 GCTCGTGAGA
Statistics
Matches: 133, Mismatches: 31, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
20 4 0.03
21 109 0.82
22 20 0.15
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (21 bp):
AGAAACTCATAAGAGTTGAAC
Found at i:90746305 original size:21 final size:21
Alignment explanation
Indices: 90746183--90746317 Score: 87
Period size: 21 Copynumber: 6.4 Consensus size: 21
90746173 AACTCATATA
* *
90746183 AGTTGAAACAGAAGCTCATAAG
1 AGTT-AAACAGAAACTCGTAAG
* *
90746205 AGTAAAACAGAAGCTCAG-AAG
1 AGTTAAACAGAAACTC-GTAAG
* * *
90746226 AGCTGAACAGAAACTCATAAG
1 AGTTAAACAGAAACTCGTAAG
* *
90746247 AGTTGAACAGAAACTC-AATAG
1 AGTTAAACAGAAACTCGTA-AG
* *
90746268 AGCTT-AACGGAAACTCGTATG
1 AG-TTAAACAGAAACTCGTAAG
* *
90746289 AGTTAAACAGAAGCTCGTGAG
1 AGTTAAACAGAAACTCGTAAG
*
90746310 AGCTAAAC
1 AGTTAAAC
90746318 TAAAAGTAAA
Statistics
Matches: 90, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.03
21 81 0.90
22 6 0.07
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
AGTTAAACAGAAACTCGTAAG
Found at i:90746312 original size:42 final size:42
Alignment explanation
Indices: 90746189--90746313 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 42
90746179 TATAAGTTGA
* * *
90746189 AACAGAAGCTCATAAGAGTAAAACAGAAGCTCAGAAGAGCTG
1 AACAGAAACTCATAAGAGTTAAACAGAAGCTCAGTAGAGCTG
* * * *
90746231 AACAGAAACTCATAAGAGTTGAACAGAAACTCAATAGAGCTT
1 AACAGAAACTCATAAGAGTTAAACAGAAGCTCAGTAGAGCTG
* * *
90746273 AACGGAAACTCGTATGAGTTAAACAGAAGCTC-GTGAGAGCT
1 AACAGAAACTCATAAGAGTTAAACAGAAGCTCAGT-AGAGCT
90746314 AAACTAAAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
41 1 0.01
42 68 0.99
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
AACAGAAACTCATAAGAGTTAAACAGAAGCTCAGTAGAGCTG
Found at i:90748475 original size:30 final size:29
Alignment explanation
Indices: 90748430--90748491 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
90748420 ACTTATTTTA
*
90748430 TTGTTATTTTTTTATTATTTTAAAGACAT
1 TTGTTATTTTGTTATTATTTTAAAGACAT
*
90748459 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTT-ATTTTGTTATTATTTTAAAGACAT
90748489 TTG
1 TTG
90748492 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (29 bp):
TTGTTATTTTGTTATTATTTTAAAGACAT
Found at i:90749354 original size:19 final size:19
Alignment explanation
Indices: 90749330--90749366 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
90749320 ATGACCACAA
*
90749330 AAATCACTTTTTCACTTTC
1 AAATCAATTTTTCACTTTC
90749349 AAATCAATTTTTCACTTT
1 AAATCAATTTTTCACTTT
90749367 GACATGTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATCAATTTTTCACTTTC
Found at i:90753478 original size:19 final size:20
Alignment explanation
Indices: 90753456--90753493 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
90753446 TAGCATGGTA
90753456 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
90753475 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
90753494 CCCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:90754301 original size:30 final size:30
Alignment explanation
Indices: 90754267--90754326 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
90754257 ATTTAATACG
90754267 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
90754297 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
90754327 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:90760618 original size:44 final size:44
Alignment explanation
Indices: 90760569--90760655 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
90760559 ATTATTTACA
90760569 CAAAATAGGTACATTGCTATACATGCCATACTTAAGTAGTTGTG
1 CAAAATAGGTACATTGCTATACATGCCATACTTAAGTAGTTGTG
*
90760613 CAAAATAGGTATATTGCTATACATGCCATACTTAAGTAGTTGT
1 CAAAATAGGTACATTGCTATACATGCCATACTTAAGTAGTTGT
90760656 ACAAGCCATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (44 bp):
CAAAATAGGTACATTGCTATACATGCCATACTTAAGTAGTTGTG
Found at i:90761185 original size:46 final size:46
Alignment explanation
Indices: 90761118--90761284 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
90761108 CGCCCCTAAG
* *
90761118 TGAACTCGGACTAAACTCAACGAGCTCGAG-CGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGAGACGTT-GCATCCATAAA
* * *
90761164 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTC-GA-GAC--GTTGCATCCATAAA
* * *
90761211 CGAACTCGGACTCAACTCAACGAGTTC-AGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGAGAC-GTTGCATCCATAAA
*
90761257 TGAACTCGGAGTCAACTCAACGAGTTCG
1 TGAACTCGGACTCAACTCAACGAGTTCG
90761285 GATGCTCAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 2 0.02
46 50 0.50
47 29 0.29
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGAGACGTTGCATCCATAAA
Found at i:90761278 original size:93 final size:93
Alignment explanation
Indices: 90761119--90761289 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
90761109 GCCCCTAAGT
*
90761119 GAACTCGGACTAAACTCAACGAGCTCGAGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTAAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
90761184 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
90761212 GAACTCGGACTCAACTCAACGAGTTC-AGACATTTGCATCCATAAGTGAACTCGGAGTCAACTCA
1 GAACTCGGACTAAACTCAACGAGCTCGAG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
90761276 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
90761290 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTAAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90761742 original size:30 final size:30
Alignment explanation
Indices: 90761708--90761768 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
90761698 CATTTAATAC
90761708 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
90761738 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
90761768 A
1 A
90761769 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:90763800 original size:8 final size:8
Alignment explanation
Indices: 90763787--90763819 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
90763777 AACTGCAAAG
90763787 GCTGAAAA
1 GCTGAAAA
90763795 GCTGAAAA
1 GCTGAAAA
90763803 G-TCGAAAA
1 GCT-GAAAA
90763811 GCTGAAAA
1 GCTGAAAA
90763819 G
1 G
90763820 TCAAAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 21 0.91
9 1 0.04
ACGTcount: A:0.48, C:0.12, G:0.27, T:0.12
Consensus pattern (8 bp):
GCTGAAAA
Found at i:90763811 original size:16 final size:16
Alignment explanation
Indices: 90763790--90763825 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
90763780 TGCAAAGGCT
90763790 GAAAAGCTGAAAAGTC
1 GAAAAGCTGAAAAGTC
90763806 GAAAAGCTGAAAAGTC
1 GAAAAGCTGAAAAGTC
90763822 -AAAA
1 GAAAA
90763826 AAGTGGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (16 bp):
GAAAAGCTGAAAAGTC
Found at i:90771517 original size:35 final size:35
Alignment explanation
Indices: 90771471--90771542 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
90771461 CAAATATACA
90771471 TATCTCATACATATTTCACACTAGCCATTCGGCTT
1 TATCTCATACATATTTCACACTAGCCATTCGGCTT
90771506 TATCTCATACATATTTCACACTAGCCATTCGGCTT
1 TATCTCATACATATTTCACACTAGCCATTCGGCTT
90771541 TA
1 TA
90771543 CCACATATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.38
Consensus pattern (35 bp):
TATCTCATACATATTTCACACTAGCCATTCGGCTT
Found at i:90771561 original size:48 final size:48
Alignment explanation
Indices: 90771506--90771929 Score: 624
Period size: 48 Copynumber: 9.1 Consensus size: 48
90771496 CATTCGGCTT
90771506 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
* * *
90771554 TATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATA
1 TATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACA
* *
90771602 TATCTCATATATATTTCACACTAGCTATTCGGCTTTA-C-C----AC-
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
90771643 -A--T-ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
*
90771687 TATCTCATACATATTACACACTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
* * *
90771735 TATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATA
1 TATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACA
90771783 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
*
90771831 TATCTCATACATATTTCACTCTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
*
90771879 TATCTCATACATATTTCAC-CTTAGCCATACGGCTTTACCACATATACA
1 TATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACA
90771927 TAT
1 TAT
90771930 ATTTTTCTTG
Statistics
Matches: 342, Mismatches: 18, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
37 29 0.08
38 2 0.01
39 1 0.00
40 1 0.00
42 1 0.00
43 2 0.01
45 1 0.00
46 1 0.00
47 5 0.01
48 297 0.87
49 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA
Found at i:90771568 original size:83 final size:83
Alignment explanation
Indices: 90771424--90771590 Score: 273
Period size: 83 Copynumber: 2.0 Consensus size: 83
90771414 ATATACACAC
* *
90771424 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCA
*
90771489 CAC-TAGCCATTCGGCTTT
66 C-CTTAGCCATACGGCTTT
* *
90771507 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCA
90771572 CCTTAGCCATACGGCTTT
66 CCTTAGCCATACGGCTTT
90771590 A
1 A
90771591 CCACATATAT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 1 0.01
83 77 0.99
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (83 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCA
CCTTAGCCATACGGCTTT
Found at i:90771655 original size:37 final size:37
Alignment explanation
Indices: 90771612--90771689 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
90771602 TATCTCATAT
*
90771612 ATATTTCACACTAGCTATTCGGCTTTACCACATATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATAC
90771649 ATATTTCACACTAGCCATTCGGCTTTACCACATATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATAC
90771686 ATAT
1 ATAT
90771690 CTCATACATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (37 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATAC
Found at i:90775622 original size:40 final size:40
Alignment explanation
Indices: 90775564--90775889 Score: 476
Period size: 40 Copynumber: 8.2 Consensus size: 40
90775554 CCGAATACAC
* * * * *
90775564 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * *
90775604 AACACCAGCACGAATGCTCTTCGGGACTTAACCTTGG-TAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCC-CGGATAT
* * *
90775644 AACTCTAGCACGAATGCTCTTCGAGACTTAGCCCCGG-TAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAG-CCCGGATAT
*
90775684 ATCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
90775724 ATCACTAGCACAAATGCTCTTCGAGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
90775764 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
90775804 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
90775844 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
90775884 ATCACT
1 ATCACT
90775890 TTCAATTCTC
Statistics
Matches: 260, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.02
40 252 0.97
41 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:90777434 original size:48 final size:48
Alignment explanation
Indices: 90777376--90777665 Score: 422
Period size: 48 Copynumber: 6.0 Consensus size: 48
90777366 ATATACACAC
* * *
90777376 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
90777424 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
90777472 ATCTCATATATATTTCAC-CTTAGCCATACAGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
* *
90777520 ATCTCATATATATTTCACACTAGCTATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
90777568 ATCTCATCCATATTACACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
90777616 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTCCCACATATACAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
90777664 AT
1 AT
90777666 ATTTGTCTTG
Statistics
Matches: 219, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
47 2 0.01
48 216 0.99
49 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:90777564 original size:144 final size:144
Alignment explanation
Indices: 90777376--90777665 Score: 490
Period size: 144 Copynumber: 2.0 Consensus size: 144
90777366 ATATACACAC
* * *
90777376 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTACA
90777441 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACCTTAGCCATACAGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACCTTAGCCATACAGCTT
*
90777506 TACCACATATATAT
131 TACCACATATACAT
* * * *
90777520 ATCTCATATATATTTCACACTAGCTATTCGGCTTTACCACATATACATATCTCATCCATATTACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTACA
*
90777585 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACCTTAGCCATACGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACCTTAGCCATACAGCTT
*
90777650 TCCCACATATACAT
131 TACCACATATACAT
90777664 AT
1 AT
90777666 ATTTGTCTTG
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
144 136 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (144 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTACA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACCTTAGCCATACAGCTT
TACCACATATACAT
Found at i:90777843 original size:49 final size:49
Alignment explanation
Indices: 90777771--90777868 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
90777761 TTTTCCTGAG
*
90777771 CAATAGTCACTAAATTATTTATAACTGGAGGTAAAAAACTCAAAATCAA
1 CAATAGTCACTAAATTATTTATAACTGGAGCTAAAAAACTCAAAATCAA
*
90777820 CAATAGTCACTAAATTATTTATAACTGGAGCTACAAAACTCAAAATCAA
1 CAATAGTCACTAAATTATTTATAACTGGAGCTAAAAAACTCAAAATCAA
90777869 TTGCGTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (49 bp):
CAATAGTCACTAAATTATTTATAACTGGAGCTAAAAAACTCAAAATCAA
Found at i:90780916 original size:29 final size:28
Alignment explanation
Indices: 90780880--90780957 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
90780870 TCATGAGATT
90780880 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
90780910 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
90780937 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
90780958 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:90781175 original size:174 final size:174
Alignment explanation
Indices: 90780910--90781237 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
90780900 AAATTGTACA
90780910 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
90780975 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGCGCGACTTTACCGAGTCAA
90781040 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
90781084 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
90781149 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGCGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGCGCGACTTTACCGAGTCAA
90781214 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
90781238 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGCGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:90783710 original size:19 final size:19
Alignment explanation
Indices: 90783686--90783724 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
90783676 GTGTCACTTG
90783686 AAAAGTTGAAAATTTTCTA
1 AAAAGTTGAAAATTTTCTA
90783705 AAAAGTTGAAAATTTTCTA
1 AAAAGTTGAAAATTTTCTA
90783724 A
1 A
90783725 GTTTCTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (19 bp):
AAAAGTTGAAAATTTTCTA
Found at i:90786210 original size:24 final size:24
Alignment explanation
Indices: 90786183--90786228 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
90786173 TATCCCACCC
90786183 CATGCAATGCAACATA-ATATTATA
1 CATGCAA-GCAACATAGATATTATA
*
90786207 CATGGAAGCAACATAGATATTA
1 CATGCAAGCAACATAGATATTA
90786229 CATGGCATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (24 bp):
CATGCAAGCAACATAGATATTATA
Found at i:90786319 original size:27 final size:27
Alignment explanation
Indices: 90786276--90786335 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
90786266 TAAATCTGTC
* *
90786276 ATTTTACCTTACCAGGGTACTACAGTT
1 ATTTTACCCTACAAGGGTACTACAGTT
* * *
90786303 ATTTTACCCTACAAGGGTATTTCGGTT
1 ATTTTACCCTACAAGGGTACTACAGTT
90786330 ATTTTA
1 ATTTTA
90786336 TCACATAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGTACTACAGTT
Found at i:90789143 original size:20 final size:19
Alignment explanation
Indices: 90789114--90789158 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
90789104 ATTAGAATGT
*
90789114 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
90789133 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
90789153 AAAAAT
1 AAAAAT
90789159 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:90792703 original size:56 final size:56
Alignment explanation
Indices: 90792629--90792952 Score: 499
Period size: 56 Copynumber: 5.8 Consensus size: 56
90792619 TCCAAGACAA
* * * * *
90792629 GGTCTTACTCGTAAACACATATCGGAATCACCTATCGATGCTAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
90792685 GGTTTTACTCACACACACATATCAGAATCACATATCGATGCC-ACTGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAAC-GTATTAAACGT
*
90792741 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
90792797 GGTCTTACTCGCACACACATATCAGAATCACATATCGATACCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
90792853 GGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
*
90792909 GGTCTTACTCGTACACACATATC-GAAATCACATATCGATGCCAA
1 GGTCTTACTCGCACACACATATCAG-AATCACATATCGATGCCAA
90792953 TGTACCAGAC
Statistics
Matches: 248, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
55 2 0.01
56 244 0.98
57 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:90792967 original size:168 final size:168
Alignment explanation
Indices: 90792602--90792987 Score: 524
Period size: 168 Copynumber: 2.3 Consensus size: 168
90792592 ACATGTAATT
* ** * * *
90792602 ACATATCGATGCCACTGT-CCAAGACAAGGTCTTACTCGTAAACACATATCGGAATCACCTATCG
1 ACATATCGATGCCAATGTACC-AGACGTGGTCTTACTCGCAAACACATATCAGAATCACATATCG
* * * *
90792666 ATGCTAACGTATTAAACGTGGTTTTACTCACACACACATATCAGAATCACATATCGATGCCACTG
65 ATACCAACGTATTAAACGTGGTCTTACTCACACACACATATCAAAATCACATATCGATGCCACTG
*
90792731 TATTAAACGTGGTCTTACTCGCACACACATATCGGAATC
130 TATTAAACGTGGTCTTACTCGCACACACATATCGAAATC
* ** * *
90792770 ACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCAGAATCACATATCGA
1 ACATATCGATGCCAATGTACCAGACGTGGTCTTACTCGCAAACACATATCAGAATCACATATCGA
* *
90792835 TACCAACGTATTAAATGTGGTCTTACTCGCACACACATATCAAAATCACATATCGATGCCAAC-G
66 TACCAACGTATTAAACGTGGTCTTACTCACACACACATATCAAAATCACATATCGATGCC-ACTG
* *
90792899 TATTAAATGTGGTCTTACTCGTACACACATATCGAAATC
130 TATTAAACGTGGTCTTACTCGCACACACATATCGAAATC
* * * *
90792938 ACATATCGATGCCAATGTACCAGACGTGGTGTTACACGTAATCACATATC
1 ACATATCGATGCCAATGTACCAGACGTGGTCTTACTCGCAAACACATATC
90792988 GATGCCAACG
Statistics
Matches: 187, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
168 185 0.99
169 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (168 bp):
ACATATCGATGCCAATGTACCAGACGTGGTCTTACTCGCAAACACATATCAGAATCACATATCGA
TACCAACGTATTAAACGTGGTCTTACTCACACACACATATCAAAATCACATATCGATGCCACTGT
ATTAAACGTGGTCTTACTCGCACACACATATCGAAATC
Found at i:90792982 original size:43 final size:43
Alignment explanation
Indices: 90792934--90793028 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
90792924 CACATATCGA
* * *
90792934 AATCACATATCGATGCCAATGTACCAGACGTGGTGTTACACGT
1 AATCACATATCGATGCCAACGTACCACACGTGGTCTTACACGT
* *
90792977 AATCACATATCGATGCCAACGTCCCACACGTGGTCTTACATGT
1 AATCACATATCGATGCCAACGTACCACACGTGGTCTTACACGT
90793020 AATCACATA
1 AATCACATA
90793029 CCAGAAATCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTACCACACGTGGTCTTACACGT
Found at i:90804615 original size:46 final size:45
Alignment explanation
Indices: 90804548--90804811 Score: 180
Period size: 46 Copynumber: 5.7 Consensus size: 45
90804538 TGTAACCCGC
* *
90804548 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* * * *
90804594 CCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * *
90804644 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* * * * * *
90804687 CCATAAGTGAACTTGGGCTCAACTCAACGTGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * **
90804737 -C-TCA-CGAACTCGGGCTCAACTCAACGAGTTCGAACGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCG-TTGCAT
* *
90804780 CCATAAGTGAACTCGGACTCAACTCAATGAGT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGT
90804812 CCAGATGCTC
Statistics
Matches: 170, Mismatches: 30, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
42 3 0.02
43 8 0.05
44 4 0.02
45 5 0.03
46 80 0.47
47 49 0.29
48 6 0.04
49 4 0.02
50 6 0.04
51 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:90804665 original size:93 final size:93
Alignment explanation
Indices: 90804555--90804806 Score: 378
Period size: 93 Copynumber: 2.7 Consensus size: 93
90804545 CGCCCATAAG
* * *
90804555 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
90804620 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGCTCGGATGCCTAGTTACATCTCA
* * * *
90804648 CGAACTTGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTTGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
**
90804713 ACGTGCTCGGATGCCTAGTTACATCTCA
66 ACAAGCTCGGATGCCTAGTTACATCTCA
* ** *
90804741 CGAACTCGGGCTCAACTCAACGAGTTCGAACGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
90804806 A
66 A
90804807 TGAGTCCAGA
Statistics
Matches: 141, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 141 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCA
Found at i:90804667 original size:47 final size:47
Alignment explanation
Indices: 90804609--90804768 Score: 168
Period size: 47 Copynumber: 3.4 Consensus size: 47
90804599 AGTGAACTCA
*
90804609 GACTCAACTCAACAAGTTCGGATGCCTAGTTACATCTCACGAACTTG
1 GACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTTG
* * *
90804656 GACTCAACTCAACGAGTTCGG--G-C-A-TTCGCATCCATAAGTGAACTTG
1 GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTTG
* * * *
90804702 GGCTCAACTCAACGTGCTCGGATGCCTAGTTACATCTCACGAACTCG
1 GACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTTG
*
90804749 GGCTCAACTCAACGAGTTCG
1 GACTCAACTCAACGAGTTCG
90804769 AACGTTTGCA
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 25 0.27
47 44 0.48
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (47 bp):
GACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTTG
Found at i:90808345 original size:27 final size:26
Alignment explanation
Indices: 90808310--90808386 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
90808300 AGCATGGCTG
* **
90808310 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAACCA
*
90808336 CCAGATACAGATAATCATGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAACCA
90808364 CCAGAACAGATATATGTGGCAGA
1 CCAGAACAGATA-ATGTGGCAGA
90808387 CCAGATCAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.12
27 23 0.53
28 15 0.35
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAACCA
Found at i:90808389 original size:23 final size:24
Alignment explanation
Indices: 90808363--90808408 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
90808353 TGGCAGAACC
90808363 ACCAGAACAGAT-ATATGTGGCAG
1 ACCAGAACAGATAATATGTGGCAG
* *
90808386 ACCAGATCAGATAATTTGTGGCA
1 ACCAGAACAGATAATATGTGGCA
90808409 TAGCCACCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (24 bp):
ACCAGAACAGATAATATGTGGCAG
Found at i:90809861 original size:24 final size:24
Alignment explanation
Indices: 90809834--90809880 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
90809824 CTAGATTTCC
**
90809834 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
90809858 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
90809881 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:90814376 original size:12 final size:12
Alignment explanation
Indices: 90814354--90814378 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90814344 TTTTAAAAAT
90814354 TTTTATTATATA
1 TTTTATTATATA
90814366 TTTTATTATATA
1 TTTTATTATATA
90814378 T
1 T
90814379 ATAATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATTATATA
Found at i:90814413 original size:28 final size:29
Alignment explanation
Indices: 90814360--90814437 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 29
90814350 AAATTTTTAT
* *
90814360 TATA-TATTTTATTATATATATAATAT-T
1 TATACTATTTTTTTATATATATAATATGG
* *
90814387 TATTCTATTTTTTTATATGTCAT-ATATGG
1 TATACTATTTTTTTATATAT-ATAATATGG
90814416 TATACTATTTATTTTACTATAT
1 TATACTATTT-TTTTA-TATAT
90814438 TTTTATATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
27 3 0.08
28 17 0.43
29 11 0.28
30 5 0.12
31 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (29 bp):
TATACTATTTTTTTATATATATAATATGG
Found at i:90818567 original size:45 final size:45
Alignment explanation
Indices: 90818496--90818610 Score: 196
Period size: 45 Copynumber: 2.6 Consensus size: 45
90818486 CCGGTATTTC
*
90818496 GCCTGCTAGGCTC-GAGGCCCGAATAATATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
90818540 GCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
* *
90818585 GCTTGCTAGGCTCAAAGGCCTGAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATA
90818611 GTACTGTACA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
44 13 0.19
45 54 0.81
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
Found at i:90826309 original size:47 final size:47
Alignment explanation
Indices: 90826246--90826340 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
90826236 ACAAAAGGAG
90826246 TAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATACAACAGACAAAC
1 TAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATACAACAGACAAAC
90826293 TAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATACAACAGACAAAC
1 TAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATACAACAGACAAAC
90826340 T
1 T
90826341 CAATTATACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (47 bp):
TAAGCTTTCATAAGCTTAGTAAGTTTTAAGCAATACAACAGACAAAC
Found at i:90826828 original size:45 final size:44
Alignment explanation
Indices: 90826740--90826867 Score: 170
Period size: 45 Copynumber: 2.9 Consensus size: 44
90826730 CCAAATTCAT
* * *
90826740 TCACCAGCATT-TCGCCTGCTAGGCTC-GAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGG-CCGAATAATATC
* *
90826783 TCATCGGCGTTATAGCCTGCTAGGCTCAAAGGTCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGG-CCGAATAATATC
90826828 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCC-GAATA
90826868 GTACTGTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 8 0.11
44 16 0.22
45 50 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCGAATAATATC
Found at i:90827391 original size:16 final size:16
Alignment explanation
Indices: 90827366--90827396 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90827356 CGGGCCATAA
*
90827366 ATAAATAAAAACAAAT
1 ATAAAAAAAAACAAAT
90827382 ATAAAAAAAAACAAA
1 ATAAAAAAAAACAAA
90827397 AAATATAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (16 bp):
ATAAAAAAAAACAAAT
Found at i:90828716 original size:20 final size:21
Alignment explanation
Indices: 90828691--90828742 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
90828681 TATATATTAT
*
90828691 TTATTTTTATTAGCTAT-ATA
1 TTATTTTTATTAGCCATCATA
*
90828711 TTA-TTTTATTATCCATCATA
1 TTATTTTTATTAGCCATCATA
90828731 TTATTTTTATTA
1 TTATTTTTATTA
90828743 TTCTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 11 0.39
20 9 0.32
21 8 0.29
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATTTTTATTAGCCATCATA
Found at i:90828720 original size:25 final size:25
Alignment explanation
Indices: 90828653--90828716 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
90828643 TTAATCCTTT
90828653 TTATATATTTAATTTATTTTAAATACC
1 TTATATA-TT-ATTTATTTTAAATACC
* * *
90828680 TTATATATTATTTATTTTTATTAGC
1 TTATATATTATTTATTTTAAATACC
90828705 -TATATATTATTT
1 TTATATATTATTT
90828717 TATTATCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.35
25 13 0.38
26 2 0.06
27 7 0.21
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (25 bp):
TTATATATTATTTATTTTAAATACC
Found at i:90828757 original size:17 final size:17
Alignment explanation
Indices: 90828691--90828802 Score: 67
Period size: 17 Copynumber: 6.7 Consensus size: 17
90828681 TATATATTAT
90828691 TTAT-TTTTATTAGCTATA
1 TTATATTTTATTA--TATA
**
90828709 -TATTATTTTATTATCCA
1 TTA-TATTTTATTATATA
* *
90828726 TCATATTATTTTTAT-TA
1 TTATATT-TTATTATATA
* *
90828743 TTCTATTTTACTTATAAA
1 TTATATTTTA-TTATATA
90828761 TTATATTTTATTATATA
1 TTATATTTTATTATATA
*
90828778 TT-T-TATTA-TATATA
1 TTATATTTTATTATATA
90828792 TTAT-TTTTATT
1 TTATATTTTATT
90828803 TTTTAAAATT
Statistics
Matches: 73, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
14 8 0.11
15 9 0.12
16 4 0.05
17 26 0.36
18 18 0.25
19 8 0.11
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (17 bp):
TTATATTTTATTATATA
Found at i:90828773 original size:31 final size:30
Alignment explanation
Indices: 90828707--90828802 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 30
90828697 TTATTAGCTA
90828707 TATATTATTTTATTATCCATCATATTATTTTTAT
1 TATA-TATTTTATTAT--AT-ATATTATTTTTAT
*
90828741 TATTCTATTTTACTTATA-A-ATTATATTTTAT
1 TA-TATATTTTA-TTATATATATTAT-TTTTAT
90828772 TATATATTTTATTATATATATTATTTTTAT
1 TATATATTTTATTATATATATTATTTTTAT
90828802 T
1 T
90828803 TTTTAAAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
29 5 0.09
30 21 0.38
31 14 0.25
33 1 0.02
34 9 0.16
35 5 0.09
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (30 bp):
TATATATTTTATTATATATATTATTTTTAT
Found at i:90828783 original size:26 final size:26
Alignment explanation
Indices: 90828754--90828846 Score: 68
Period size: 26 Copynumber: 3.6 Consensus size: 26
90828744 TCTATTTTAC
90828754 TTATAAATTATATTTTATTATATATT
1 TTATAAATTATATTTTATTATATATT
* *
90828780 TTAT-TATATATATTATT-TT-TATTTT
1 TTATAAAT-TATATT-TTATTATATATT
* * *
90828805 TTA-AAATTATGTATTATTATTTAATT
1 TTATAAATTATATTTTATTATAT-ATT
* *
90828831 GTATAAATTCTATTTT
1 TTATAAATTATATTTT
90828847 TAAAAAGATT
Statistics
Matches: 49, Mismatches: 11, Indels: 13
0.67 0.15 0.18
Matches are distributed among these distances:
23 2 0.04
24 6 0.12
25 14 0.29
26 16 0.33
27 11 0.22
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATAAATTATATTTTATTATATATT
Found at i:90828789 original size:14 final size:14
Alignment explanation
Indices: 90828735--90828793 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
90828725 ATCATATTAT
*
90828735 TTTTATTAT-TCTA
1 TTTTATTATATATA
90828748 TTTTACTTATAAATTATA
1 TTTTA-TTAT--A-TATA
90828766 TTTTA-T-TATATA
1 TTTTATTATATATA
90828778 TTTTATTATATATA
1 TTTTATTATATATA
90828792 TT
1 TT
90828794 ATTTTTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
12 9 0.24
13 7 0.18
14 12 0.32
15 1 0.03
16 1 0.03
18 8 0.21
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTATATATA
Found at i:90829016 original size:21 final size:20
Alignment explanation
Indices: 90828992--90829043 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
90828982 TATATACATT
*
90828992 TTATTATATTTTTTATATTA
1 TTATTATATTTTTCATATTA
* **
90829012 CTTATCATATGATTCATATTA
1 -TTATTATATTTTTCATATTA
90829033 TTA-TATATTTT
1 TTATTATATTTT
90829044 GTTTACAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 16 0.67
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATTATATTTTTCATATTA
Found at i:90835829 original size:40 final size:40
Alignment explanation
Indices: 90835767--90835934 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
90835757 CGGATGATAA
* * * *
90835767 CCGGGCTAAGTCCTGAAAGCATTTGGGCGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
90835807 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
90835847 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* * *
90835887 CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAAT
90835927 CC-GGCTAA
1 CCGGGCTAA
90835935 ATTCTGAAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 8 0.07
40 103 0.91
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:90839705 original size:18 final size:19
Alignment explanation
Indices: 90839661--90839706 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
90839651 TTTAGAGGAA
90839661 TCTCAGGATTGTGAAGATG
1 TCTCAGGATTGTGAAGATG
*
90839680 TC-CAGGATTGTGATG-TG
1 TCTCAGGATTGTGAAGATG
*
90839697 TCTCCGGATT
1 TCTCAGGATT
90839707 TGTTGAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 18 0.75
19 2 0.08
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (19 bp):
TCTCAGGATTGTGAAGATG
Found at i:90840546 original size:41 final size:41
Alignment explanation
Indices: 90840489--90840638 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
90840479 TCGGGGTTTA
90840489 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
90840530 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
90840571 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
90840611 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
90840639 TGAGTCAGCG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:90851386 original size:222 final size:222
Alignment explanation
Indices: 90850993--90851406 Score: 810
Period size: 222 Copynumber: 1.9 Consensus size: 222
90850983 GGCCATGAAG
90850993 GGATCATATACATATAATATGTATTAATTATTAGTTAGTAGCTTTATATTTTATAACATAAATAA
1 GGATCATATACATATAATATGTATTAATTATTAGTTAGTAGCTTTATATTTTATAACATAAATAA
90851058 ATAAAAAGGAAAAGTAATTAAAATAAGGAAAGGAATGGTGAAGAAAACAAAGTATCACCTTGTTC
66 ATAAAAAGGAAAAGTAATTAAAATAAGGAAAGGAATGGTGAAGAAAACAAAGTATCACCTTGTTC
*
90851123 TTCTTAGCCGTACAAGAAGAAGAAAAAGAGGGGGGGCATTCGGCCTTTTGAATGAAGAGAAGGTT
131 TTCTTAGCCGTACAAGAAGAAGAAAAAGAGGGGGAGCATTCGGCCTTTTGAATGAAGAGAAGGTT
90851188 AGTAAATTATGTTAATTTTTTTTTAAA
196 AGTAAATTATGTTAATTTTTTTTTAAA
*
90851215 GGATTATATACATATAATATGTATTAATTATTAGTTAGTAGCTTTATATTTTATAACATAAATAA
1 GGATCATATACATATAATATGTATTAATTATTAGTTAGTAGCTTTATATTTTATAACATAAATAA
90851280 ATAAAAAGGAAAAGTAATTAAAATAAGGAAAGGAATGGTGAAGAAAACAAAGTATCACCTTGTTC
66 ATAAAAAGGAAAAGTAATTAAAATAAGGAAAGGAATGGTGAAGAAAACAAAGTATCACCTTGTTC
90851345 TTCTTAGCCGTACAAGAAGAAGAAAAAGAGGGGGAGCATTCGGCCTTTTGAATGAAGAGAAG
131 TTCTTAGCCGTACAAGAAGAAGAAAAAGAGGGGGAGCATTCGGCCTTTTGAATGAAGAGAAG
90851407 CTCAAGAGCT
Statistics
Matches: 190, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 190 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (222 bp):
GGATCATATACATATAATATGTATTAATTATTAGTTAGTAGCTTTATATTTTATAACATAAATAA
ATAAAAAGGAAAAGTAATTAAAATAAGGAAAGGAATGGTGAAGAAAACAAAGTATCACCTTGTTC
TTCTTAGCCGTACAAGAAGAAGAAAAAGAGGGGGAGCATTCGGCCTTTTGAATGAAGAGAAGGTT
AGTAAATTATGTTAATTTTTTTTTAAA
Found at i:90851641 original size:41 final size:41
Alignment explanation
Indices: 90851584--90851856 Score: 431
Period size: 41 Copynumber: 6.7 Consensus size: 41
90851574 TTGGGGTTTA
* *
90851584 AATCTGAGTTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
90851625 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
90851666 AATCCGAGCTTGGTTTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
90851707 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
90851748 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
90851789 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
90851829 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
90851857 TGAGTCAGCG
Statistics
Matches: 213, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 32 0.15
41 181 0.85
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:90857226 original size:20 final size:21
Alignment explanation
Indices: 90857201--90857253 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
90857191 TATATATTAT
*
90857201 TTATTTTTATTAGT-TAT-ATA
1 TTATTTTTATTA-TCCATCATA
90857221 TTA-TTTTATTATCCATCATA
1 TTATTTTTATTATCCATCATA
90857241 TTATTTTTATTAT
1 TTATTTTTATTAT
90857254 TCTATTTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 10 0.34
20 9 0.31
21 9 0.31
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTTTTATTATCCATCATA
Found at i:90857230 original size:25 final size:25
Alignment explanation
Indices: 90857163--90857226 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
90857153 TTAATCCTTT
90857163 TTATATATTTAATTTATTTTAAATACC
1 TTATATA-TT-ATTTATTTTAAATACC
* * *
90857190 TTATATATTATTTATTTTTATTA-G
1 TTATATATTATTTATTTTAAATACC
90857214 TTATATATTATTT
1 TTATATATTATTT
90857227 TATTATCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.38
25 12 0.35
26 2 0.06
27 7 0.21
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (25 bp):
TTATATATTATTTATTTTAAATACC
Found at i:90857267 original size:17 final size:17
Alignment explanation
Indices: 90857214--90857294 Score: 60
Period size: 17 Copynumber: 4.8 Consensus size: 17
90857204 TTTTTATTAG
90857214 TTATATA-T-TATTTTA
1 TTATATATTATATTTTA
** * *
90857229 TTATCCATCATATTATTT
1 TTATATATTATATT-TTA
*
90857247 TTAT-TATTCTATTTTA
1 TTATATATTATATTTTA
*
90857263 CTTATAAATTATATTTTA
1 -TTATATATTATATTTTA
*
90857281 TTATATATTTTATT
1 TTATATATTATATT
90857295 ATATATTATT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
15 5 0.10
16 2 0.04
17 26 0.53
18 16 0.33
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATATTATATTTTA
Found at i:90857328 original size:7 final size:6
Alignment explanation
Indices: 90857190--90857333 Score: 54
Period size: 7 Copynumber: 23.8 Consensus size: 6
90857180 TTTAAATACC
* * *
90857190 TTATATA TTATTTA TTTTTA TTAGTTA TATATTA TT-TTA TTATCCA TCA-TA
1 TTAT-TA TTA-TTA TTATTA TTA-TTA T-TATTA TTATTA TTAT-TA TTATTA
* * *
90857241 TTATTT TTATTA TT-CTA TT-TTA CTTATAAA TTA-TA TT-TTA TTATATA
1 TTATTA TTATTA TTATTA TTATTA -TTAT-TA TTATTA TTATTA TTAT-TA
* * *
90857288 TT-TTA TTATATA TTATTT TTATT- TTTTTA -AATTA TGTATTA TTATT
1 TTATTA TTAT-TA TTATTA TTATTA TTATTA TTATTA T-TATTA TTATT
90857334 TAATTGTGTA
Statistics
Matches: 103, Mismatches: 17, Indels: 35
0.66 0.11 0.23
Matches are distributed among these distances:
5 32 0.31
6 30 0.29
7 37 0.36
8 4 0.04
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (6 bp):
TTATTA
Found at i:90857351 original size:19 final size:18
Alignment explanation
Indices: 90857307--90857353 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
90857297 ATATTATTTT
*
90857307 TATTTTT-TTAAATTATG
1 TATTTTTATTTAATTATG
* *
90857324 TATTATTATTTAATTGTG
1 TATTTTTATTTAATTATG
90857342 TAATTTTTATTT
1 T-ATTTTTATTT
90857354 TTAAAAAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 9 0.38
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TATTTTTATTTAATTATG
Found at i:90857526 original size:21 final size:20
Alignment explanation
Indices: 90857497--90857553 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
90857487 TACATTATAT
*
90857497 ATATT-TTATTATATTTTTT
1 ATATTATTATTATATTTTTC
* **
90857516 ATATTACTTATCATATGATTC
1 ATATTA-TTATTATATTTTTC
90857537 ATATTATTA-TATATTTT
1 ATATTATTATTATATTTT
90857554 GTTTACAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 10 0.34
20 3 0.10
21 16 0.55
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (20 bp):
ATATTATTATTATATTTTTC
Found at i:90858892 original size:30 final size:29
Alignment explanation
Indices: 90858796--90858885 Score: 83
Period size: 30 Copynumber: 3.1 Consensus size: 29
90858786 ATACACAGGA
* * *
90858796 ATAA-GTTGCTCACACAAGGTAACAGTAT
1 ATAAGGTTGCTCACACAAGCTGACATTAT
* *
90858824 ATCAGGATTGCTCACACAAGCTGGCATTAT
1 ATAAGG-TTGCTCACACAAGCTGACATTAT
* * *
90858854 AACAAGGTTGTTCACACAAGTTGACATTAT
1 -ATAAGGTTGCTCACACAAGCTGACATTAT
90858884 AT
1 AT
90858886 TGAGGTTACT
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 3 0.06
29 2 0.04
30 39 0.81
31 4 0.08
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (29 bp):
ATAAGGTTGCTCACACAAGCTGACATTAT
Found at i:90859670 original size:20 final size:20
Alignment explanation
Indices: 90859621--90859670 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
90859611 TATGGGATCA
* * *
90859621 CACTTCGGTGCCTCTGTTTG
1 CACTTCTGTGCCTCTATTCG
90859641 CACATT-TGTGCCTCTATTCG
1 CAC-TTCTGTGCCTCTATTCG
90859661 CACTTCTGTG
1 CACTTCTGTG
90859671 TAACAGCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.10, C:0.30, G:0.20, T:0.40
Consensus pattern (20 bp):
CACTTCTGTGCCTCTATTCG
Found at i:90860789 original size:27 final size:27
Alignment explanation
Indices: 90860757--90860817 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
90860747 CCTAGTTTGT
90860757 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
* ****
90860784 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
90860811 AAAATTA
1 AAAATTA
90860818 TAAAAATACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCTCGATTTAC
Found at i:90861500 original size:285 final size:285
Alignment explanation
Indices: 90860990--90861845 Score: 1667
Period size: 285 Copynumber: 3.0 Consensus size: 285
90860980 TTCGTAAGTC
90860990 TAATGTGTTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAACCGTCATCAACC
1 TAATGTGTTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAACCGTCATCAACC
90861055 AAGTGTGTAAACGACACCCTCCCTTAGACTAAATCGGTAAAAGTCGAAATACCGAAACGTTGGTA
66 AAGTGTGTAAACGACACCCTCCCTTAGACTAAATCGGTAAAAGTCGAAATACCGAAACGTTGGTA
90861120 TTTTGTGAACTCGCGAGTGTGCGAGCGCTCGTGAGACAGTTGTTAATAAATATGGTGCATTTGGA
131 TTTTGTGAACTCGCGAGTGTGCGAGCGCTCGTGAGACAGTTGTTAATAAATATGGTGCATTTGGA
90861185 TGATTAGAGTGCAGAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATGGGCTGAAAAC
196 TGATTAGAGTGCAGAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATGGGCTGAAAAC
90861250 GGGCCAATGGGCCAACGGGCCCACT
261 GGGCCAATGGGCCAACGGGCCCACT
90861275 TAATGTGTTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAACCGTCATCAACC
1 TAATGTGTTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAACCGTCATCAACC
90861340 AAGTGTGTAAACGACACCCTCCCTTAGACTAAATCGGTAAAAGTCGAAATACCGAAACGTTGGTA
66 AAGTGTGTAAACGACACCCTCCCTTAGACTAAATCGGTAAAAGTCGAAATACCGAAACGTTGGTA
90861405 TTTTGTGAACTCGCGAGTGTGCGAGCGCTCGTGAGACAGTTGTTAATAAATATGGTGCATTTGGA
131 TTTTGTGAACTCGCGAGTGTGCGAGCGCTCGTGAGACAGTTGTTAATAAATATGGTGCATTTGGA
90861470 TGATTAGAGTGCAGAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATGGGCTGAAAAC
196 TGATTAGAGTGCAGAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATGGGCTGAAAAC
90861535 GGGCCAATGGGCCAACGGGCCCACT
261 GGGCCAATGGGCCAACGGGCCCACT
90861560 TAATGTGTTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAACCGTCATCAACC
1 TAATGTGTTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAACCGTCATCAACC
* *
90861625 AAGTGTGTAAACGACACCCTCCCTTAGACTGAATCGGTAAAAGCCGAAATACCGAAACGTTGGTA
66 AAGTGTGTAAACGACACCCTCCCTTAGACTAAATCGGTAAAAGTCGAAATACCGAAACGTTGGTA
* *
90861690 TTTTGTGAACTCGCGAGCGTGCGAGCGCTCGTGAGACAGTTGTTAATGAATATGGTGCATTTGGA
131 TTTTGTGAACTCGCGAGTGTGCGAGCGCTCGTGAGACAGTTGTTAATAAATATGGTGCATTTGGA
*
90861755 TGATTAGAGTGCAGAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATGGGCCGAAAAC
196 TGATTAGAGTGCAGAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATGGGCTGAAAAC
90861820 GGGCCAATGGGCCAACGGGCCCACT
261 GGGCCAATGGGCCAACGGGCCCACT
90861845 T
1 T
90861846 TGGTAAAAAG
Statistics
Matches: 566, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
285 566 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (285 bp):
TAATGTGTTAGTGATCGATTGTAGGATTATCGCGTGGGAGATATCGTCATCAACCGTCATCAACC
AAGTGTGTAAACGACACCCTCCCTTAGACTAAATCGGTAAAAGTCGAAATACCGAAACGTTGGTA
TTTTGTGAACTCGCGAGTGTGCGAGCGCTCGTGAGACAGTTGTTAATAAATATGGTGCATTTGGA
TGATTAGAGTGCAGAGTGTGCATTTTCGTGCACAACGGTATTTTTGGGCTTAATGGGCTGAAAAC
GGGCCAATGGGCCAACGGGCCCACT
Found at i:90862139 original size:27 final size:26
Alignment explanation
Indices: 90862095--90862146 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
90862085 CTCGCTGCAA
*
90862095 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
90862122 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
90862147 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:90862214 original size:26 final size:27
Alignment explanation
Indices: 90862185--90862244 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
90862175 CCACATATAT
*
90862185 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
90862211 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
90862238 ATATCTG
1 ATATCTG
90862245 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:90871692 original size:3 final size:3
Alignment explanation
Indices: 90871684--90871709 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
90871674 TATACATAGT
90871684 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
90871710 TAAGAACAAG
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:90874962 original size:55 final size:55
Alignment explanation
Indices: 90874885--90875004 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 55
90874875 TATATAGGCC
* * * *
90874885 CACGTCCGTGTTAATTTAACAGGTTC-GACCATGGG-TGATAGACACAGGCGTGTCA
1 CACGCCCGTGTTAATATAACAGGTTCAG-CCACGGGTTCA-AGACACAGGCGTGTCA
* * * *
90874940 CACGCCCGTGTTAATATGACAGGTTCAGCCACGGGTTCAAGGCACGGGCGTGTCG
1 CACGCCCGTGTTAATATAACAGGTTCAGCCACGGGTTCAAGACACAGGCGTGTCA
90874995 CACGCCCGTG
1 CACGCCCGTG
90875005 CTATTTTAGC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
55 52 0.95
56 3 0.05
ACGTcount: A:0.22, C:0.27, G:0.30, T:0.22
Consensus pattern (55 bp):
CACGCCCGTGTTAATATAACAGGTTCAGCCACGGGTTCAAGACACAGGCGTGTCA
Found at i:90879727 original size:27 final size:27
Alignment explanation
Indices: 90879694--90880006 Score: 175
Period size: 27 Copynumber: 11.6 Consensus size: 27
90879684 TTGGTAAATC
* *
90879694 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
** * * **
90879721 TGTAAACCAATGGTATTTCCATAATTTT
1 TACAAATCAAGGGTATTTCGGTAA-TTT
* * *
90879749 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCGGTAATTT
** * * *
90879777 TGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
**
90879804 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * * * *
90879831 CACAAA-CCAGTGGCATTTTGGTAAATT
1 TACAAATCAAG-GGTATTTCGGTAATTT
*
90879858 TACAAA-CTAGGGGTATTTTC-GTAATTT
1 TACAAATC-AAGGGTA-TTTCGGTAATTT
** *
90879885 TACAAATTGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* **
90879912 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
90879939 TACAGA-CTAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
** * *** *
90879965 TGTAAATCGAGGGTAAAACAGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
**
90879992 TGTAAATCAAGGGTA
1 TACAAATCAAGGGTA
90880007 AAACAATAAN
Statistics
Matches: 221, Mismatches: 57, Indels: 16
0.75 0.19 0.05
Matches are distributed among these distances:
26 26 0.12
27 164 0.74
28 17 0.08
29 14 0.06
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGGTAATTT
Found at i:90879849 original size:54 final size:52
Alignment explanation
Indices: 90879682--90879979 Score: 193
Period size: 54 Copynumber: 5.5 Consensus size: 52
90879672 TACAAGTGTG
* * * ** *
90879682 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACCGAGGGTATTTC-GTAATTTTACAAACC-AGGGTA
*** * * * * ** **
90879736 TTTCCATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATTAGGGGTA
1 TTTTGGTAA-TTTTACAAA-CCGAGGGTATTTC-GTAATTTTACAAACCA-GGGTA
** * *
90879792 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGCA
1 TTTTGGTAATTTTACAAACCGAGGGTATTTC-GTAATTTTACAAACCAG-GGTA
* * **
90879846 TTTTGGTAAATTTACAAA-CTAGGGGTATTTTCGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACCGA-GGGTA-TTTCGTAATTTTACAAA-CCAGGGTA
* * * *
90879900 TTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAGACTAGGGTA
1 TTTTGGTAATTTTACAAACCGAGGGTA-TTTCGTAATTTTACAAACCAGGGTA
** *
90879953 TTTTGGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAACCGAGGGTA
90879980 AAACAGTAAT
Statistics
Matches: 193, Mismatches: 43, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
53 31 0.16
54 105 0.54
55 23 0.12
56 34 0.18
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (52 bp):
TTTTGGTAATTTTACAAACCGAGGGTATTTCGTAATTTTACAAACCAGGGTA
Found at i:90879887 original size:81 final size:81
Alignment explanation
Indices: 90879784--90879979 Score: 279
Period size: 81 Copynumber: 2.4 Consensus size: 81
90879774 CTTTGTAAAT
90879784 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGCATT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGCATT
*
90879848 TTGGTAAATTTACAAAC
65 TTAGTAAATTTACAAAC
* * * *
90879865 TAGGGGTATTTTCGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGCATTT
* *
90879930 TAGTAATTTTACAGAC
66 TAGTAAATTTACAAAC
** *
90879946 TA-GGGTATTTTGGTAATTTTGTAAATCGAGGGTA
1 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
90879980 AAACAGTAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 28 0.27
81 73 0.71
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGCATTT
TAGTAAATTTACAAAC
Found at i:90892670 original size:46 final size:47
Alignment explanation
Indices: 90892598--90892797 Score: 169
Period size: 46 Copynumber: 4.3 Consensus size: 47
90892588 AACTCACCAC
*
90892598 AGCTCATTGGAGCTTACCGATTCAGCTCGTAAGAGCTTACT-GTTTT
1 AGCTCATTGGAGCTTACCGATTCAGCTCGAAAGAGCTTACTAGTTTT
* * ** *
90892644 AGCTTATTGGAGTTTATTGATTCAGCTCGAAAGAGCTTACTATTTTT
1 AGCTCATTGGAGCTTACCGATTCAGCTCGAAAGAGCTTACTAGTTTT
* * * * * *
90892691 AGCTCATTGGAGCTGATCG-TTCCAGCTTGTATGAGCTTACTA--TTC
1 AGCTCATTGGAGCTTACCGATT-CAGCTCGAAAGAGCTTACTAGTTTT
* * * * *
90892736 AGCTCAATAGAGCTTACTGTTTCAGCTC-AATAGAGCTTACT-GTTTC
1 AGCTCATTGGAGCTTACCGATTCAGCTCGAA-AGAGCTTACTAGTTTT
* *
90892782 AGCTCAATAGAGCTTA
1 AGCTCATTGGAGCTTA
90892798 TTGTTCATCA
Statistics
Matches: 126, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
44 1 0.01
45 30 0.24
46 59 0.47
47 36 0.29
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (47 bp):
AGCTCATTGGAGCTTACCGATTCAGCTCGAAAGAGCTTACTAGTTTT
Found at i:90892763 original size:23 final size:23
Alignment explanation
Indices: 90892723--90892812 Score: 137
Period size: 23 Copynumber: 3.9 Consensus size: 23
90892713 CAGCTTGTAT
*
90892723 GAGCTTACT-ATTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
90892745 GAGCTTACTGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
90892768 GAGCTTACTGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
*
90892791 GAGCTTATTGTTCATCAGCTCA
1 GAGCTTACTGTT--TCAGCTCA
90892813 GGAGGAGCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
22 9 0.14
23 46 0.73
25 8 0.13
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:90893174 original size:34 final size:34
Alignment explanation
Indices: 90893136--90893205 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
90893126 GTAAGTTTAA
90893136 TTCTGAATTATACGGGCTTACTAAGCTATAAAGC
1 TTCTGAATTATACGGGCTTACTAAGCTATAAAGC
90893170 TTCTGAATTATACGGGCTTACTAAGCTATAAAGC
1 TTCTGAATTATACGGGCTTACTAAGCTATAAAGC
90893204 TT
1 TT
90893206 ACTCTGTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (34 bp):
TTCTGAATTATACGGGCTTACTAAGCTATAAAGC
Found at i:90893205 original size:17 final size:17
Alignment explanation
Indices: 90893151--90893208 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
90893141 AATTATACGG
90893151 GCTTACTAAGCTATAAA
1 GCTTACTAAGCTATAAA
* **
90893168 GCTT-CTGAA-TTATACGG
1 GCTTACT-AAGCTATA-AA
90893185 GCTTACTAAGCTATAAA
1 GCTTACTAAGCTATAAA
90893202 GCTTACT
1 GCTTACT
90893209 CTGTTTCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 6 0.19
17 19 0.61
18 6 0.19
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (17 bp):
GCTTACTAAGCTATAAA
Found at i:90895315 original size:20 final size:20
Alignment explanation
Indices: 90895290--90895327 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90895280 CAAATAAAAC
90895290 AATAGTTCTATCTCTTGATA
1 AATAGTTCTATCTCTTGATA
* *
90895310 AATAGTTGTATCTTTTGA
1 AATAGTTCTATCTCTTGA
90895328 ACAATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (20 bp):
AATAGTTCTATCTCTTGATA
Found at i:90898241 original size:79 final size:78
Alignment explanation
Indices: 90898109--90898267 Score: 264
Period size: 79 Copynumber: 2.0 Consensus size: 78
90898099 TTTAATTCAT
* *
90898109 TTTACCCCTAAATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCCATTCATGTCCAAT
1 TTTACCCCTAAATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAAATCCATCCATGTCCAAT
90898174 ATTTGTCCATAAAC
66 -TTTGTCCATAAAC
* **
90898188 TTTACCCCTAAATGACTAAAATGCCCTTTTTACTAAACTTTCCAAAAAATCCATCCATGTCCAAT
1 TTTACCCCTAAATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAAATCCATCCATGTCCAAT
90898253 TTTGTCCATAAAC
66 TTTGTCCATAAAC
90898266 TT
1 TT
90898268 AGAAATTGGT
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
78 15 0.20
79 60 0.80
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (78 bp):
TTTACCCCTAAATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAAATCCATCCATGTCCAAT
TTTGTCCATAAAC
Found at i:90902845 original size:29 final size:29
Alignment explanation
Indices: 90902720--90902864 Score: 104
Period size: 29 Copynumber: 5.1 Consensus size: 29
90902710 TCTACATACA
* *
90902720 TTCATATGGCCCACTT-GGCCC-AATCTCA
1 TTCATATGGCCCA-TTAGGCCCAAATCACC
* * *
90902748 TTCATATGGTCCATTAGGCCCAATTCACA
1 TTCATATGGCCCATTAGGCCCAAATCACC
* * **
90902777 TTTAT-TCGACCCACCAGGCCCAATTAT-A-C
1 TTCATAT-GGCCCATTAGGCCCAA--ATCACC
90902806 -TCATATGGCCCATTAGGCCCAAATCACC
1 TTCATATGGCCCATTAGGCCCAAATCACC
* **
90902834 TTTATATGGCCCGCTAGGCCCAAATCACC
1 TTCATATGGCCCATTAGGCCCAAATCACC
90902863 TT
1 TT
90902865 GTATTCGTGC
Statistics
Matches: 91, Mismatches: 17, Indels: 17
0.73 0.14 0.14
Matches are distributed among these distances:
26 2 0.02
27 3 0.03
28 35 0.38
29 49 0.54
30 1 0.01
31 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.28
Consensus pattern (29 bp):
TTCATATGGCCCATTAGGCCCAAATCACC
Found at i:90902853 original size:57 final size:57
Alignment explanation
Indices: 90902717--90902856 Score: 160
Period size: 57 Copynumber: 2.5 Consensus size: 57
90902707 ACCTCTACAT
* * * *
90902717 ACATTCATATGGCCCACTTGGCCCAATCTCATTCATATGGTCCATTAGGCCCAATTC
1 ACATTTATATGGCCCACTAGGCCCAATCTCATTCATATGGCCCATTAGGCCCAAATC
* *
90902774 ACATTTAT-TCGACCCACCAGGCCCAAT-T-ATACTCATATGGCCCATTAGGCCCAAATC
1 ACATTTATAT-GGCCCACTAGGCCCAATCTCAT--TCATATGGCCCATTAGGCCCAAATC
* *
90902831 ACCTTTATATGGCCCGCTAGGCCCAA
1 ACATTTATATGGCCCACTAGGCCCAA
90902857 ATCACCTTGT
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
55 2 0.03
56 2 0.03
57 64 0.93
58 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.26
Consensus pattern (57 bp):
ACATTTATATGGCCCACTAGGCCCAATCTCATTCATATGGCCCATTAGGCCCAAATC
Found at i:90905226 original size:43 final size:42
Alignment explanation
Indices: 90905179--90905284 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 42
90905169 GATGTCGATA
*
90905179 TCCCAGCTATTGTCTTACACGAAATCAAATAACGATGCCAATG
1 TCCCAGC-ATGGTCTTACACGAAATCAAATAACGATGCCAATG
* * *
90905222 TCCCAAACATGGTCTTACACGAAATCAAATAACGGTGTCAATG
1 TCCC-AGCATGGTCTTACACGAAATCAAATAACGATGCCAATG
90905265 TCCCAGACATGGTCTTACAC
1 TCCCAG-CATGGTCTTACAC
90905285 ATAATCACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 1 0.02
43 53 0.95
44 2 0.04
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
TCCCAGCATGGTCTTACACGAAATCAAATAACGATGCCAATG
Found at i:90905291 original size:43 final size:43
Alignment explanation
Indices: 90905190--90905284 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 43
90905180 CCCAGCTATT
90905190 GTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAACATG
1 GTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAACATG
* * *
90905233 GTCTTACACGAAATCAAATAACGGTGTCAATGTCCCAGACATG
1 GTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAACATG
90905276 GTCTTACAC
1 GTCTTACAC
90905285 ATAATCACAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATAACGATGCCAATGTCCCAAACATG
Found at i:90910917 original size:48 final size:47
Alignment explanation
Indices: 90910845--90911066 Score: 191
Period size: 48 Copynumber: 4.6 Consensus size: 47
90910835 TAAAGTACCA
* * *
90910845 ATGCCATGTCCCCGACATGATCTTACA-AGAATCCACATACCATCGTC-G
1 ATGCCATGTCCCAGACATGGTCTTACACAGAA--CACATACCATC-ACAG
* *
90910893 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCACAG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGAACACATACCATCACAG
* * * * *
90910941 ATGCCATGTCCCAGACATGGTCTTGCACTGACACATATATCATTACCA-
1 ATGCCATGTCCCAGACATGGTCTTACACAGA-ACACATACCATCA-CAG
* * * * * * *
90910989 ATTCTATGTCCCA-AGCATGGTCTTACACAGGCATATATATCATCACCG
1 ATGCCATGTCCCAGA-CATGGTCTTACACA-GAACACATACCATCACAG
90911037 ATGCCATGTCCCAGACATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
90911067 GCACATTTAG
Statistics
Matches: 145, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
47 5 0.03
48 133 0.92
49 4 0.03
50 3 0.02
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGAACACATACCATCACAG
Found at i:90911067 original size:48 final size:48
Alignment explanation
Indices: 90910891--90911072 Score: 242
Period size: 48 Copynumber: 3.8 Consensus size: 48
90910881 ATACCATCGT
*
90910891 CGATGCCATGTCCCAGACATGGTCTTACACTA-GCACACATATCATCAC
1 CGATGCCATGTCCCAGACATGGTCTTACAC-AGGCACATATATCATCAC
* * * * *
90910939 AGATGCCATGTCCCAGACATGGTCTTGCACTGACACATATATCATTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCAC
* * * *
90910987 CAATTCTATGTCCCA-AGCATGGTCTTACACAGGCATATATATCATCAC
1 CGATGCCATGTCCCAGA-CATGGTCTTACACAGGCACATATATCATCAC
90911035 CGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
90911073 TTAGTACGGT
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.01
48 110 0.98
49 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCAC
Found at i:90918463 original size:6 final size:6
Alignment explanation
Indices: 90918440--90918561 Score: 70
Period size: 6 Copynumber: 19.8 Consensus size: 6
90918430 TATCAAAACT
* * * *
90918440 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * *
90918489 AGAATT AGAATC AGAATT AG-GTGAC AGAATT AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* *
90918538 AGGTAA-C ATAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
90918562 GTGCATGCAA
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
5 4 0.05
6 73 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:90918481 original size:37 final size:36
Alignment explanation
Indices: 90918440--90918561 Score: 128
Period size: 37 Copynumber: 3.4 Consensus size: 36
90918430 TATCAAAACT
90918440 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAAT-AGAATCAGAATCAGAATCAGGTGAC
* * *
90918477 AGAATCAGAATTAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCA-AAATAGAATCAGAATCAGAATCAGGTGAC
* *
90918514 AGAAT-----TAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATAGAATCAGAATCAGAATCAGGTGAC
*
90918545 ATAATCAAAATCAGAAT
1 AGAATCAAAAT-AGAAT
90918562 GTGCATGCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
31 26 0.37
36 1 0.01
37 40 0.57
38 3 0.04
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.21
Consensus pattern (36 bp):
AGAATCAAAATAGAATCAGAATCAGAATCAGGTGAC
Found at i:90918493 original size:31 final size:31
Alignment explanation
Indices: 90918452--90918561 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
90918442 AATCAAAATG
90918452 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
90918483 AGAATTAGAATTAGAATCAGAATTAGGTGACAGAATT
1 ------AGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
90918520 AGAATCAGAATCAGTATCAGGTAACATAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
90918551 AAAATCAGAAT
1 AGAATCAGAAT
90918562 GTGCATGCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
31 35 0.56
37 28 0.44
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:90918831 original size:67 final size:67
Alignment explanation
Indices: 90918738--90919043 Score: 558
Period size: 67 Copynumber: 4.6 Consensus size: 67
90918728 CAGATCAAAT
* * * * * *
90918738 ATATATGTGACGAAGCCACCAAATTGCAGCGAGGCTGCCAGATATTTTGACGAAGTAACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
90918803 AG
66 AG
90918805 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
90918870 AG
66 AG
90918872 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
90918937 AG
66 AG
90918939 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
90919004 AG
66 AG
90919006 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGC
90919044 CAGAACACTT
Statistics
Matches: 233, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 233 1.00
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAC
AG
Found at i:90918891 original size:27 final size:26
Alignment explanation
Indices: 90918844--90918894 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
90918834 CGAGGCTGCT
*
90918844 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
90918870 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
90918895 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:90918958 original size:27 final size:26
Alignment explanation
Indices: 90918911--90918961 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
90918901 CGAGGCTGCT
*
90918911 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
90918937 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
90918962 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:90919025 original size:27 final size:26
Alignment explanation
Indices: 90918978--90919028 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
90918968 CGAGGCTGCT
*
90918978 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
90919004 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
90919029 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:90919293 original size:27 final size:27
Alignment explanation
Indices: 90919263--90919502 Score: 291
Period size: 27 Copynumber: 8.9 Consensus size: 27
90919253 AACACCCTAG
* * *
90919263 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
90919290 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
90919317 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
90919344 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* ** *
90919371 GGATAAAATAGTAATTTTTTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* **
90919398 GGGTAAGATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
**
90919425 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
90919452 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
90919479 GGGTAAAACGATAATTTTGTAAAT
1 GGGTAAAACGGTAATTTTGTAAAT
90919503 TAAGGGTATT
Statistics
Matches: 188, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTGTAAATCGA
Found at i:90919378 original size:81 final size:81
Alignment explanation
Indices: 90919263--90919502 Score: 338
Period size: 81 Copynumber: 3.0 Consensus size: 81
90919253 AACACCCTAG
* * *
90919263 GGGTAAAATGGTAATTTTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG
1 GGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG
*
90919328 TAATTCTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * * * * *
90919344 GGGTAAAACGATAATTCTATAAATCGAGGATAAAATAGTAATTTTTTAAATCGAGGGTAAGATAG
1 GGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG
90919409 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * *
90919425 GGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-G
1 GGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG
90919489 ATAATTTTGTAAAT
66 -TAATTTTGTAAAT
90919503 TAAGGGTATT
Statistics
Matches: 137, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 1 0.01
81 136 0.99
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (81 bp):
GGGTAAAACGATAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG
TAATTTTGTAAATCGA
Found at i:90919540 original size:27 final size:27
Alignment explanation
Indices: 90919516--90919574 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
90919506 GGGTATTTTG
*
90919516 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
*
90919543 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
*
90919570 ATAAT
1 GTAAT
90919575 GCTGCCATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:90921491 original size:27 final size:27
Alignment explanation
Indices: 90921460--90921637 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90921450 TAAATTGTAC
90921460 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90921487 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90921513 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90921541 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90921569 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90921596 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90921623 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90921638 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90921574 original size:82 final size:81
Alignment explanation
Indices: 90921461--90921616 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90921451 AAATTGTACA
* *
90921461 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90921525 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90921542 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90921607 TGCGAGTTGA
65 TGCGAATTGA
90921617 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90921628 original size:82 final size:81
Alignment explanation
Indices: 90921457--90921637 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
90921447 GATTAAATTG
* *
90921457 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90921522 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90921538 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90921602 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90921620 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90921638 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90927675 original size:57 final size:57
Alignment explanation
Indices: 90927607--90927721 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
90927597 ATGAAGAAGA
* * *
90927607 ACCGATTCGTATCCTAGCTCGTGAAGTGAAA-GAGTTGCGAAACAAAAGGGTTCCGCT
1 ACCGATGCGTATCCTAGCTCGTGAAGT-AAAGGAGTTACGAAACAAAAGAGTTCCGCT
90927664 ACCGATGCGTATCCTAGCTCGTGAAGTAAAGGAGTTACGAAACAAAAGAGTTCCGCT
1 ACCGATGCGTATCCTAGCTCGTGAAGTAAAGGAGTTACGAAACAAAAGAGTTCCGCT
90927721 A
1 A
90927722 GTAAAGGTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 3 0.06
57 51 0.94
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (57 bp):
ACCGATGCGTATCCTAGCTCGTGAAGTAAAGGAGTTACGAAACAAAAGAGTTCCGCT
Found at i:90928350 original size:39 final size:39
Alignment explanation
Indices: 90928296--90928373 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
90928286 AAAAAATGGT
90928296 CTCATCCATACCCCCCCTTGTTGCAGTGAGTTGAGGAAA
1 CTCATCCATACCCCCCCTTGTTGCAGTGAGTTGAGGAAA
*
90928335 CTCATCCATACCCCCCCTTGTTGCCGTGAGTTGAGGAAA
1 CTCATCCATACCCCCCCTTGTTGCAGTGAGTTGAGGAAA
90928374 GAAAACAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (39 bp):
CTCATCCATACCCCCCCTTGTTGCAGTGAGTTGAGGAAA
Found at i:90929262 original size:85 final size:85
Alignment explanation
Indices: 90929139--90929306 Score: 300
Period size: 85 Copynumber: 2.0 Consensus size: 85
90929129 CTGGTATTGA
*
90929139 TTGGCCAAGCCAAAAATTCTGAAAATTGTATGGATGGAAGATATATGAGTCTATATTCAGGGAAA
1 TTGGCCAAGCCAAAAATTCTGAAAATTGTATGGATGGAAGATATACGAGTCTATATTCAGGGAAA
90929204 ATTAACGGATAGTGATTTTG
66 ATTAACGGATAGTGATTTTG
* *
90929224 TTGGCCAAGCCAAAAATTCTGAAAATTTTTTGGATGGAAGATATACGAGTCTATATTCAGGGAAA
1 TTGGCCAAGCCAAAAATTCTGAAAATTGTATGGATGGAAGATATACGAGTCTATATTCAGGGAAA
*
90929289 ATTAACGGCTAGTGATTT
66 ATTAACGGATAGTGATTT
90929307 GGAGTTTTGT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.31
Consensus pattern (85 bp):
TTGGCCAAGCCAAAAATTCTGAAAATTGTATGGATGGAAGATATACGAGTCTATATTCAGGGAAA
ATTAACGGATAGTGATTTTG
Found at i:90929900 original size:27 final size:27
Alignment explanation
Indices: 90929869--90930046 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90929859 TAAATTGTAC
90929869 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90929896 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90929922 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90929950 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90929978 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90930005 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90930032 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90930047 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90929983 original size:82 final size:81
Alignment explanation
Indices: 90929870--90930025 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90929860 AAATTGTACA
* *
90929870 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90929934 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90929951 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90930016 TGCGAGTTGA
65 TGCGAATTGA
90930026 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90930037 original size:82 final size:81
Alignment explanation
Indices: 90929866--90930046 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
90929856 GATTAAATTG
* *
90929866 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90929931 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90929947 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90930011 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90930029 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90930047 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90930057 original size:27 final size:27
Alignment explanation
Indices: 90929951--90930057 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
90929941 TGACCATGCG
* * * *
90929951 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
90929979 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
90930006 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
90930033 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
90930058 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:90933203 original size:40 final size:40
Alignment explanation
Indices: 90933136--90933312 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
90933126 ACCCAAGTAT
*
90933136 CTTCGGGAT-TTAG-CCGGATATAACAACTCACACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCACACAAATGC
*
90933175 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
* *
90933215 CTTCGGGTCTTAGCCCGGATATAATC-ACT-AGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCA-CACAAATGC
* * * * * *
90933255 CTTTGGGACATAGCCCGGATATAGCAACTCGCACGACTGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
* *
90933295 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
90933313 TTATCATTCG
Statistics
Matches: 114, Mismatches: 18, Indels: 11
0.80 0.13 0.08
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 98 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCACACAAATGC
Found at i:90933269 original size:80 final size:79
Alignment explanation
Indices: 90933136--90933312 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 79
90933126 ACCCAAGTAT
* *
90933136 CTTCGGGAT-TTAGCCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTCACACAAATGCCTTCGGGACATAGCCCGGATATAGC
90933200 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
90933215 CTTCGGGTCTTAGCCCGGATATAATC-ACT-AGCATAAATGCCTTTGGGACATAGCCCGGATATA
1 CTTCGGGTCTTAG-CCGGATATAA-CAACTCA-CACAAATGCCTTCGGGACATAGCCCGGATATA
* *
90933278 GCAACTCGCACGACTGC
63 GCAACTCGCACAAATGC
*
90933295 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
90933313 TTATCATTCG
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 12 0.14
80 72 0.84
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTCACACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:90942563 original size:17 final size:17
Alignment explanation
Indices: 90942541--90942573 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
90942531 ACTTCCCTTC
90942541 TCATCTTTTATTTTCTT
1 TCATCTTTTATTTTCTT
*
90942558 TCATCTTTTCTTTTCT
1 TCATCTTTTATTTTCT
90942574 CCATAGCCGA
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:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (17 bp):
TCATCTTTTATTTTCTT
Found at i:90943696 original size:28 final size:28
Alignment explanation
Indices: 90943653--90943768 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
90943643 GGAGGAAGCG
90943653 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
90943681 TTCTGGTGGCTTTGCCACAAATAACTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
90943709 TTCTGGTGGCACTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * * *
90943737 ATCTGGTGACTCAGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
90943763 TTCTGG
1 TTCTGG
90943769 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
26 5 0.07
27 7 0.09
28 63 0.84
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:90949756 original size:46 final size:46
Alignment explanation
Indices: 90949642--90949818 Score: 126
Period size: 46 Copynumber: 3.8 Consensus size: 46
90949632 GGGGTAGGGT
* * * * * *
90949642 GCCGATGCCATATCCCTGATATGGTCTTACACTGACTATCATCTCGTA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACATTGGCT-TCGTCTCG-AG
* *
90949690 GCCGATG-TATGTCCTAGACATGTCTTACATTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACATTGGCTT-CGTCTCGAG
* * * * * * *
90949736 GCCGATG-CATGTCTCGGACATGTTTTACACTAGCACTCGTCTCGAT
1 GCCGATGCCATGTCCCAGACATGTCTTACATTGGC-TTCGTCTCGAG
* *
90949782 GCGGATGCCATGTCCCAGACATGGTCTTACATAGGCT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACATTGGCT
90949819 CCCATAATGT
Statistics
Matches: 99, Mismatches: 25, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
45 2 0.02
46 59 0.60
47 22 0.22
48 16 0.16
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACATTGGCTTCGTCTCGAG
Found at i:90951600 original size:19 final size:20
Alignment explanation
Indices: 90951565--90951602 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
90951555 ATAAGGTGGT
90951565 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
90951585 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
90951603 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:90958911 original size:93 final size:93
Alignment explanation
Indices: 90958752--90959634 Score: 1757
Period size: 93 Copynumber: 9.5 Consensus size: 93
90958742 GGATGGTTGA
90958752 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
90958817 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
90958845 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
90958910 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
90958938 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
90959003 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
90959031 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
90959096 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
90959124 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
90959189 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
90959217 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
90959282 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
90959310 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
90959375 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
90959403 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
90959468 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
90959496 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
90959561 TGAGTCCGAATTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
*
90959589 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
90959635 TTGATAAATT
Statistics
Matches: 789, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 789 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAATTCGTGAGATGTAACTAG
Found at i:90967535 original size:23 final size:23
Alignment explanation
Indices: 90967495--90967541 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
90967485 TATAAATCCT
*
90967495 AATAAAAATAAGCTTAAAG-AGA
1 AATAAAAATAAGCCTAAAGTAGA
*
90967517 AATAAAAATTAGTCCTAAAGTAGA
1 AATAAAAATAAG-CCTAAAGTAGA
90967541 A
1 A
90967542 TAACAGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 6 0.29
24 4 0.19
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (23 bp):
AATAAAAATAAGCCTAAAGTAGA
Found at i:90969434 original size:13 final size:13
Alignment explanation
Indices: 90969416--90969440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90969406 TGTGAGTGCA
90969416 CACGGTCGTGTCG
1 CACGGTCGTGTCG
90969429 CACGGTCGTGTC
1 CACGGTCGTGTC
90969441 TATCTTCGTT
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:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CACGGTCGTGTCG
Found at i:90984161 original size:39 final size:39
Alignment explanation
Indices: 90983997--90984179 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
90983987 TTGAATGCTG
* * * * * * *
90983997 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
90984037 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
90984077 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
90984117 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
90984156 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
90984180 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:90993874 original size:27 final size:27
Alignment explanation
Indices: 90993844--90994066 Score: 241
Period size: 27 Copynumber: 8.3 Consensus size: 27
90993834 GGGGTAAAAT
* * *
90993844 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90993871 GGTAATTCTACCTTACAAGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
90993898 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTC
90993925 GGT-ATTGCTACCCTACAAGGGTATTTC
1 GGTAATT-CTACCCTACAAGGGTATTTC
* * *
90993952 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
90993979 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
90994006 GGTATTTCTACTGTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
90994033 GACATTTCTACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
90994060 GGTAATT
1 GGTAATT
90994067 TTGTAAATCG
Statistics
Matches: 164, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 3 0.02
27 158 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:90993944 original size:81 final size:80
Alignment explanation
Indices: 90993852--90994066 Score: 268
Period size: 81 Copynumber: 2.6 Consensus size: 80
90993842 ATGGTAATTT
* * *
90993852 TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAAGAGTATTTCAGTAATTCTACCCTACAGG
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAG-GTATTTCAGTAATTCTACCCTACAGG
90993917 GGTATTCCGGTATTGC
65 GGTATTCCGGTATTGC
* * *
90993933 TACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGG
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-AGGTATTTCAGTAATTCTACCCTACAGG
** *
90993998 GGTATTTTGGTATTTC
65 GGTATTCCGGTATTGC
** ** * *
90994014 TACTGTACAAGGGTATTTCGACATTTCTACCCTACAAGGATATTTCGGTAATT
1 TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-TATTTCAGTAATT
90994067 TTGTAAATCG
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.02
81 111 0.97
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (80 bp):
TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGTATTTCAGTAATTCTACCCTACAGGG
GTATTCCGGTATTGC
Done.