Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 75 of 362
Found at i:23455014 original size:20 final size:23
Alignment explanation
Indices: 23454972--23455015 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
23454962 TTAGAAGTTA
23454972 GAATTGGCTTGGTTATAATGTTT
1 GAATTGGCTTGGTTATAATGTTT
23454995 GAATTGG-TTGG-TAT-ATGTTT
1 GAATTGGCTTGGTTATAATGTTT
23455015 G
1 G
23455016 CAAGTATCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
22 4 0.19
23 7 0.33
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (23 bp):
GAATTGGCTTGGTTATAATGTTT
Found at i:23459020 original size:33 final size:33
Alignment explanation
Indices: 23458983--23459047 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
23458973 CAATGAATAC
23458983 TTAGTTTTCATTCATGGTTCAATCATAATTGAT
1 TTAGTTTTCATTCATGGTTCAATCATAATTGAT
23459016 TTAGTTTTCATTCATGGTTCAATCATAATTGA
1 TTAGTTTTCATTCATGGTTCAATCATAATTGA
23459048 GTTAAATGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (33 bp):
TTAGTTTTCATTCATGGTTCAATCATAATTGAT
Found at i:23461749 original size:34 final size:34
Alignment explanation
Indices: 23461676--23461742 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
23461666 TCGAAAAATA
*
23461676 TTAAGTTCTGTTTGAATGATAAATTTTAATGGAG
1 TTAAGTTCTGTTTGAATGATAAATTTCAATGGAG
* *
23461710 TTAAGTTCTGTTTGAATGATGAATTTCGATGGA
1 TTAAGTTCTGTTTGAATGATAAATTTCAATGGA
23461743 TATAAGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.43
Consensus pattern (34 bp):
TTAAGTTCTGTTTGAATGATAAATTTCAATGGAG
Found at i:23466550 original size:21 final size:21
Alignment explanation
Indices: 23466525--23466573 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
23466515 AATATGCATA
23466525 TGATTTCTGACGATCCAAAGC
1 TGATTTCTGACGATCCAAAGC
*
23466546 TGATTTCTGACGATCCGAAGC
1 TGATTTCTGACGATCCAAAGC
*
23466567 TGCTTTC
1 TGATTTC
23466574 AGACTATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (21 bp):
TGATTTCTGACGATCCAAAGC
Found at i:23470905 original size:39 final size:40
Alignment explanation
Indices: 23470860--23471084 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
23470850 GCTCCTCGTT
* * * *
23470860 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
23470900 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
23470939 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
23470979 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
23471019 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
23471060 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23471085 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23470953 original size:40 final size:38
Alignment explanation
Indices: 23470827--23471084 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
23470817 AAATCACGTA
* * *
23470827 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
23470866 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
23470905 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
23470945 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
23470985 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
23471025 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
23471065 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
23471085 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:23471093 original size:41 final size:41
Alignment explanation
Indices: 23471016--23471093 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
23471006 CTTGTATCTC
* * *
23471016 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
23471057 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
23471094 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:23475867 original size:68 final size:67
Alignment explanation
Indices: 23475821--23475978 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 67
23475811 ATACTATATA
23475821 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
23475886 AAT
65 AAT
23475889 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
23475954 AAT
65 AAT
* *
23475957 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
23475979 TCCAAGTGAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:23476052 original size:66 final size:67
Alignment explanation
Indices: 23475855--23476052 Score: 174
Period size: 68 Copynumber: 2.9 Consensus size: 67
23475845 GGGATGTATC
* * * *
23475855 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTACACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
23475917 TGTATC-
62 AGGA-CA
* *
23475923 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTACACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
23475988 AGGACA
62 AGGACA
* *
23475994 CCATGTACACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTACACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
23476053 TTCACCATGT
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.48
69 1 0.01
70 1 0.01
71 25 0.22
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.21
Consensus pattern (67 bp):
CCATGTACACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:23481568 original size:20 final size:20
Alignment explanation
Indices: 23481543--23481587 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
23481533 CGGGTAAGGG
*
23481543 ACACGAGCGTGTCCCCAAGA
1 ACACGAGCATGTCCCCAAGA
*
23481563 ACACGAGCATGTCCCCAAGC
1 ACACGAGCATGTCCCCAAGA
23481583 ACACG
1 ACACG
23481588 GGTGCGTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.38, G:0.22, T:0.09
Consensus pattern (20 bp):
ACACGAGCATGTCCCCAAGA
Found at i:23487969 original size:43 final size:46
Alignment explanation
Indices: 23487915--23488048 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 46
23487905 GAGATATGTG
* *
23487915 GCATCCAAGCTCATTGAGAGGTCCGAGTTCATTATGGATGC-A-A-
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAATAT
* * **
23487958 GCATCCGAGCTCGTTGAGAGGTTCGGGTTCATGGTGGATGCAATTCAT
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAA-T-AT
*
23488006 GTAACATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
1 G---CATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
23488049 TGTTACTTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
43 35 0.49
44 1 0.01
47 1 0.01
48 1 0.01
51 34 0.47
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAATAT
Found at i:23498655 original size:180 final size:179
Alignment explanation
Indices: 23498384--23498921 Score: 794
Period size: 180 Copynumber: 3.0 Consensus size: 179
23498374 GAGCTACAGA
*
23498384 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTTACTATAAAATT
1 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTTACCATAAAA-T
23498449 TTTAGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGTTACCCCTTTTTCACTGTC
65 TTTAGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGTTACCCCTTTTTCACTGTC
*
23498514 CAATAGTTCCGACATCTCTTCACTAAAAATTATTTATCTTATGGTACAAG
130 CAATAGTTCCGACATCTCTTCACTAAAAATTATTTATCTCATGGTACAAG
23498564 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTTACCATAAAATT
1 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTTACCATAAAATT
* **
23498629 TTAAGAATTTTTGGTTTAACCAATTAGTACAGGTTATTCATTAAAGTTACCCCAGTTTCACTGTC
66 TT-AGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGTTACCCCTTTTTCACTGTC
*
23498694 CAATAGTTCCGACATCTCTTCACTAAAAACTATTTATCTCATGGTACAAG
130 CAATAGTTCCGACATCTCTTCACTAAAAATTATTTATCTCATGGTACAAG
** * * * * * * *
23498744 ACTCCAAATTAAGAACTGCTAATTTTCCCAAAAACTATACTTATATATATTCTTACCATAAAAGT
1 ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTTACCATAAAA-T
* **
23498809 TTTAGAATTTTTGGTTTATCCAATTAAAACAGTTTATTCATTAAA-TATA-CCCTTATTTCACTG
65 TTTAGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGT-TACCCCTT-TTTCACTG
* * * * *
23498872 TCTAACAGTTCTGATC-TTTCTTCACTAAAAATTATTTATCTCCTGGTACA
128 TCCAATAGTTCCGA-CATCTCTTCACTAAAAATTATTTATCTCATGGTACA
23498922 GATCTCGGAT
Statistics
Matches: 326, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
179 8 0.02
180 313 0.96
181 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.40
Consensus pattern (179 bp):
ACTCCAAATTAAGATTTGTTAATTTTCTCAGAAACTAGACTCACATATATTTTTACCATAAAATT
TTAGAATTTTTGGTTTAACCAATTAGTACAGTTTATTCATTAAAGTTACCCCTTTTTCACTGTCC
AATAGTTCCGACATCTCTTCACTAAAAATTATTTATCTCATGGTACAAG
Found at i:23499553 original size:50 final size:50
Alignment explanation
Indices: 23499478--23499922 Score: 391
Period size: 50 Copynumber: 8.8 Consensus size: 50
23499468 ACCGAAGCTC
*
23499478 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCT-ACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG-TGACCTATCAA
* * * *
23499528 TCTGGTACACGTAGTAGCCTGCACTTAGTACTAGACATGTGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * ** *
23499578 TCTGGTACACGTAGTAGCCTGGACGTAGTACTACACACGTGATCAAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * *
23499630 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
23499679 TAC-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CTGAACCA
1 T-CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-ATCAA
* * * * ** * *
23499729 TTTGATACA-AGTAGTAGCCTGCACTTAGTATTACACACGTGATCGAAACTA
1 TCTGGTACACA-TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAA
* * * * *
23499780 TCTAGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * *
23499830 TTTGGTACACGTAGTAGCCTGTACTTAGTACTACACATGTGACC-A-AAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
23499878 ACTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
23499923 TTCTCACAAT
Statistics
Matches: 320, Mismatches: 60, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
48 4 0.01
49 7 0.02
50 201 0.63
51 73 0.23
52 35 0.11
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:23499758 original size:151 final size:150
Alignment explanation
Indices: 23499481--23499872 Score: 552
Period size: 151 Copynumber: 2.6 Consensus size: 150
23499471 GAAGCTCTCT
*
23499481 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATC-GGTACACGTAGTAGC
* * * * * *
23499546 CTGCACTTAGTACTAGACATGTGACTTATCCATCTGGTACACGTAGTAGCCTGGACGTAGTACTA
65 CTGCACTTAGTACTACACATGTGACTGAACCATCTGATACAAGTAGTAGCCTGCACGTAGTACTA
*
23499611 CACACGTGATC-AAAGTTAACG
130 CACACGTGATCGAAA-CTAACG
* *
23499632 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTATCAATACGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAAT-CGGTACACGTAGTAGC
* * * *
23499697 CTGCACTTAGTACTACACACGTGACTGAACCATTTGATACAAGTAGTAGCCTGCACTTAGTATTA
65 CTGCACTTAGTACTACACATGTGACTGAACCATCTGATACAAGTAGTAGCCTGCACGTAGTACTA
* *
23499762 CACACGTGATCGAAACTATCT
130 CACACGTGATCGAAACTAACG
* * * *
23499783 AGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA-TCGGTACACGTAGTAGC
*
23499848 CTGTACTTAGTACTACACATGTGAC
65 CTGCACTTAGTACTACACATGTGAC
23499873 CAAAAACTGT
Statistics
Matches: 214, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
151 209 0.98
152 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCGGTACACGTAGTAGCC
TGCACTTAGTACTACACATGTGACTGAACCATCTGATACAAGTAGTAGCCTGCACGTAGTACTAC
ACACGTGATCGAAACTAACG
Found at i:23499793 original size:101 final size:103
Alignment explanation
Indices: 23499482--23499918 Score: 326
Period size: 101 Copynumber: 4.3 Consensus size: 103
23499472 AAGCTCTCTG
* * * * * * *
23499482 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATTTGATACAAGTAGTAGCC
* * ** * * *
23499547 TGCACTTAGTACTAGACATGTGA-C-TTATCCATC-TG
66 TGCACTTAGTACTACACACGTGACCAAAAACTATCTTA
* * * * * * * * *
23499582 GTACACGTAGTAGCCTGGACGTAGTACTACACACGTGATC-AA-AGTTAACGGGTACGCA-TAGT
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATT---TGATAC-AAGTAGT
* * * ** *
23499644 AGCCTGCACTTAGTACTACACATGCGACTTATCAA-TA-C--G
62 AGCCTGCACTTAGTACTACACACGTGAC-CAAAAACTATCTTA
* *
23499683 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CTGAACCATTTGATACAAGTAGTAGC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT-AACAATTTGATACAAGTAGTAGC
* * *
23499747 CTGCACTTAGTATTACACACGTGATC-GAAACTATC-TA
65 CTGCACTTAGTACTACACACGTGACCAAAAACTATCTTA
* * * * *
23499784 GTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATTTGATACAAGTAGTAGCC
* * *
23499849 TGTACTTAGTACTACACATGTGACCAAAAACTGTCTTA
66 TGCACTTAGTACTACACACGTGACCAAAAACTATCTTA
* *
23499887 -AACACATAGTAGCCTGCACATAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
23499919 TGTGTTCTCA
Statistics
Matches: 267, Mismatches: 53, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
98 4 0.01
99 4 0.01
100 66 0.25
101 146 0.55
102 40 0.15
103 5 0.02
104 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (103 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATTTGATACAAGTAGTAGCC
TGCACTTAGTACTACACACGTGACCAAAAACTATCTTA
Found at i:23500435 original size:43 final size:43
Alignment explanation
Indices: 23500374--23500504 Score: 244
Period size: 43 Copynumber: 3.0 Consensus size: 43
23500364 AAACCATTTT
*
23500374 CATAACTATAACAGTCCACAATTTGCATTAAATCACACACTTA
1 CATAACTATAGCAGTCCACAATTTGCATTAAATCACACACTTA
*
23500417 CATAACTATAGCAATCCACAATTTGCATTAAATCACACACTTA
1 CATAACTATAGCAGTCCACAATTTGCATTAAATCACACACTTA
23500460 CATAACTATAGCAGTCCACAATTTGCATTAAATCACACACTTA
1 CATAACTATAGCAGTCCACAATTTGCATTAAATCACACACTTA
23500503 CA
1 CA
23500505 CACATTTTAC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.41, C:0.26, G:0.05, T:0.27
Consensus pattern (43 bp):
CATAACTATAGCAGTCCACAATTTGCATTAAATCACACACTTA
Found at i:23502300 original size:17 final size:17
Alignment explanation
Indices: 23502280--23502312 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23502270 TTTAACTATC
23502280 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
23502297 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
23502313 TACAATACCA
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:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:23506230 original size:24 final size:24
Alignment explanation
Indices: 23506184--23506248 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
23506174 ATGGGAGGTT
* * * * *
23506184 GGAGTGATTTATAGAGTATATCAT
1 GGAGAGATTTATGGAGAAAATCAA
23506208 GGAGAGATATTA-GGAGAAAATCAA
1 GGAGAGAT-TTATGGAGAAAATCAA
*
23506232 GGAGTGATTTATGGAGA
1 GGAGAGATTTATGGAGA
23506249 GATTTAAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.38, C:0.03, G:0.31, T:0.28
Consensus pattern (24 bp):
GGAGAGATTTATGGAGAAAATCAA
Found at i:23508082 original size:27 final size:25
Alignment explanation
Indices: 23508005--23508093 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 25
23507995 CTTTCTGCAA
*
23508005 ATCATATTTACCAGTGGCTATGTGCT
1 ATCATATTTACCA-TGGCTATGTGCG
* * *
23508031 AGTCATATTTATCGATGACTTTGTGTCG
1 A-TCATATTTA-CCATGGCTATGTG-CG
*
23508059 ATCATATTTACCCATGGCTGTGTGCTG
1 ATCATATTTA-CCATGGCTATGTGC-G
*
23508086 ATTATATT
1 ATCATATT
23508094 ACCGTCGCTA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
26 2 0.04
27 44 0.88
28 4 0.08
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (25 bp):
ATCATATTTACCATGGCTATGTGCG
Found at i:23513432 original size:18 final size:18
Alignment explanation
Indices: 23513409--23513451 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
23513399 GAATATGAGA
23513409 TTCTTTTGCCTTAACTGT
1 TTCTTTTGCCTTAACTGT
23513427 TTCTTTTGCCTTAACTGT
1 TTCTTTTGCCTTAACTGT
23513445 TTCTTTT
1 TTCTTTT
23513452 ATGAGAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.21, G:0.09, T:0.60
Consensus pattern (18 bp):
TTCTTTTGCCTTAACTGT
Found at i:23513552 original size:16 final size:16
Alignment explanation
Indices: 23513533--23513564 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23513523 AATTGTTTTA
23513533 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
23513549 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
23513565 ATTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:23513829 original size:50 final size:50
Alignment explanation
Indices: 23513775--23514152 Score: 372
Period size: 50 Copynumber: 7.5 Consensus size: 50
23513765 CTGGTACGTA
23513775 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* * * * * ** * *
23513825 TAGTAGCCTACACTTAGTACTACACATGTGACTTAACCATCTGAAATACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* ** * *
23513875 TAGTATCCTGCACTTAGTACTACACACATGATCGAAGT-T-AA-CGGGTACACA
1 TAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAATCTGGTACACG
*
23513926 TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
* * * * *
23513976 TATTAGCCTGCACTTAGTACTAAGCACAT--GACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACT-A-CACATGCGACCTATCAATCTGGTACACG
* * * ** * * ** *
23514026 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACG
23514077 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
23514127 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
23514153 CGTGACTCAC
Statistics
Matches: 260, Mismatches: 54, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
47 4 0.02
48 5 0.02
49 12 0.05
50 160 0.62
51 62 0.24
52 14 0.05
54 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
Found at i:23513968 original size:101 final size:101
Alignment explanation
Indices: 23513774--23514051 Score: 255
Period size: 101 Copynumber: 2.8 Consensus size: 101
23513764 TCTGGTACGT
** * *
23513774 ATAGTAGCCTGCACTTAGTACT-A-CACATG--CGACCTATCAATCTGGTACACGTAGTAGCCTA
1 ATAGTAGCCTGCACTTAGTACTAAGCACATGATCGAAGT-T-AA-CGGGTACACATAGTAGCCTA
** * * *
23513835 CACTTAGTACTACACATGTGACTTAACCATCTGAAATAC
63 CACTTAGTACTACACATACGACCTAACAATCTGAAACAC
* *
23513874 ATAGTATCCTGCACTTAGTACTACA-CACATGATCGAAGTTAACGGGTACACATAGTAGCCTGCA
1 ATAGTAGCCTGCACTTAGTACTA-AGCACATGATCGAAGTTAACGGGTACACATAGTAGCCTACA
* **
23513938 CTTAGTACTACACATACGACCTATCAATCTGGTACAC
65 CTTAGTACTACACATACGACCTAACAATCTGAAACAC
* * * ** * * * *
23513975 GTATTAGCCTGCACTTAGTACTAAGCACATGA-CTTAA-CCATCTGATACACGTAGTAGCCTACA
1 ATAGTAGCCTGCACTTAGTACTAAGCACATGATC-GAAGTTAACGGGTACACATAGTAGCCTACA
23514038 CTTAGTACTACACA
65 CTTAGTACTACACA
23514052 CGTGATCGAA
Statistics
Matches: 147, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
100 56 0.38
101 77 0.52
102 9 0.06
103 1 0.01
104 4 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (101 bp):
ATAGTAGCCTGCACTTAGTACTAAGCACATGATCGAAGTTAACGGGTACACATAGTAGCCTACAC
TTAGTACTACACATACGACCTAACAATCTGAAACAC
Found at i:23514041 original size:151 final size:151
Alignment explanation
Indices: 23513774--23514159 Score: 625
Period size: 151 Copynumber: 2.6 Consensus size: 151
23513764 TCTGGTACGT
*
23513774 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
* * *
23513839 TAGTACT-ACACATGTGACTTAACCATCTGAAATACATAGTATCCTGCACTTAGTACTACACACA
66 TAGTACTAACACA-GTGACTTAACCATCTGAAACACATAGTAGCCTACACTTAGTACTACACACA
23513903 TGATCGAAGTTAACGGGTACAC
130 TGATCGAAGTTAACGGGTACAC
* *
23513925 ATAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACACGTATTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
* * *
23513990 TAGTACTAAGCACA-TGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACG
66 TAGTACTAA-CACAGTGACTTAACCATCTGAAACACATAGTAGCCTACACTTAGTACTACACACA
**
23514054 TGATCGAAGTTAACGGGTATGC
130 TGATCGAAGTTAACGGGTACAC
23514076 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
23514141 TAGTACT-ACACACGTGACT
66 TAGTACTAACACA-GTGACT
23514160 CACAACGAAT
Statistics
Matches: 218, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
149 4 0.02
150 1 0.00
151 208 0.95
152 1 0.00
153 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (151 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
TAGTACTAACACAGTGACTTAACCATCTGAAACACATAGTAGCCTACACTTAGTACTACACACAT
GATCGAAGTTAACGGGTACAC
Found at i:23519435 original size:72 final size:72
Alignment explanation
Indices: 23519297--23519442 Score: 172
Period size: 72 Copynumber: 2.0 Consensus size: 72
23519287 CCACATATTT
*
23519297 TGTAATGCCCGCATTTGAACTACTCACGAGTCTGTACACAAAGTCAGCATCCAGACCCCCAAAGC
1 TGTAATGCCCGCATTTGAACTACTCACGAGTCTATACACAAAGTCAGCATCCAGACCCCCAAAGC
*
23519362 ATTATCA
66 ATTAACA
* * * * * *
23519369 TGTAATGCCCGC-TCATTGAGCTACTCATGGGTTTATACACAAAGTTAGCA-CCTGGA-CCCCAA
1 TGTAATGCCCGCAT--TTGAACTACTCACGAGTCTATACACAAAGTCAGCATCC-AGACCCCCAA
23519431 AGCATTAACA
63 AGCATTAACA
23519441 TG
1 TG
23519443 ATATGCTTGC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
71 1 0.02
72 31 0.49
73 31 0.49
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (72 bp):
TGTAATGCCCGCATTTGAACTACTCACGAGTCTATACACAAAGTCAGCATCCAGACCCCCAAAGC
ATTAACA
Found at i:23519466 original size:72 final size:73
Alignment explanation
Indices: 23519331--23519467 Score: 163
Period size: 72 Copynumber: 1.9 Consensus size: 73
23519321 CACGAGTCTG
* **
23519331 TACACAAAGTCAGCATCCAGACCCCCAAAGCATTATCATGTAATGCCCGCTCATTGAGCTACTCA
1 TACACAAAGTCAGCATCCAGACCCCCAAAGCATTAACATGTAATGCCCGCTCAGCGAGCTACTCA
23519396 TGGGTTTA
66 TGGGTTTA
* * ** *
23519404 TACACAAAGTTAGCA-CCTGGA-CCCCAAAGCATTAACATG-ATATGCTTGCTCAGCGAGTTACT
1 TACACAAAGTCAGCATCC-AGACCCCCAAAGCATTAACATGTA-ATGCCCGCTCAGCGAGCTACT
23519466 CA
64 CA
23519468 CGGGCCTGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
71 1 0.02
72 37 0.69
73 16 0.30
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (73 bp):
TACACAAAGTCAGCATCCAGACCCCCAAAGCATTAACATGTAATGCCCGCTCAGCGAGCTACTCA
TGGGTTTA
Found at i:23520203 original size:20 final size:20
Alignment explanation
Indices: 23520178--23520216 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23520168 AAAATTTCAA
23520178 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
23520198 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
23520217 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:23522822 original size:43 final size:42
Alignment explanation
Indices: 23522761--23522852 Score: 157
Period size: 43 Copynumber: 2.2 Consensus size: 42
23522751 AAAACATGTG
*
23522761 TCACATATATCATGAACTCAGAGCACAACTCAATGAGTTCAGA
1 TCACATATATCATGAACTCAGACCACAACTC-ATGAGTTCAGA
23522804 TCACATATATCATGAACTCAGACCACAACTCATGAGTTCAGA
1 TCACATATATCATGAACTCAGACCACAACTCATGAGTTCAGA
*
23522846 TCGCATA
1 TCACATA
23522853 ATTCCTAGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 17 0.36
43 30 0.64
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (42 bp):
TCACATATATCATGAACTCAGACCACAACTCATGAGTTCAGA
Found at i:23522824 original size:22 final size:22
Alignment explanation
Indices: 23522761--23522830 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
23522751 AAAACATGTG
23522761 TCACATATATCATGAACTCAGA
1 TCACATATATCATGAACTCAGA
* * **
23522783 GCACA-A-CTCAATGAGTTCAGA
1 TCACATATATC-ATGAACTCAGA
23522804 TCACATATATCATGAACTCAGA
1 TCACATATATCATGAACTCAGA
*
23522826 CCACA
1 TCACA
23522831 ACTCATGAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 18 0.50
23 2 0.06
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (22 bp):
TCACATATATCATGAACTCAGA
Found at i:23530329 original size:43 final size:42
Alignment explanation
Indices: 23530271--23530353 Score: 139
Period size: 43 Copynumber: 2.0 Consensus size: 42
23530261 CATGTGTCAC
*
23530271 ATATATCATGAACTCAGATCACAACTCAATGAGTTCAGATCAT
1 ATATATCATGAACTCAGACCACAACTC-ATGAGTTCAGATCAT
*
23530314 ATATATCATGAACTCAGACCATAACTCATGAGTTCAGATC
1 ATATATCATGAACTCAGACCACAACTCATGAGTTCAGATC
23530354 GCATAATTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 13 0.34
43 25 0.66
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.28
Consensus pattern (42 bp):
ATATATCATGAACTCAGACCACAACTCATGAGTTCAGATCAT
Found at i:23530330 original size:22 final size:22
Alignment explanation
Indices: 23530271--23530336 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
23530261 CATGTGTCAC
*
23530271 ATATATCATGAACTCAGATCAC
1 ATATATCATGAACTCAGATCAT
* **
23530293 A-A-CTCAATGAGTTCAGATCAT
1 ATATATC-ATGAACTCAGATCAT
*
23530314 ATATATCATGAACTCAGACCAT
1 ATATATCATGAACTCAGATCAT
23530336 A
1 A
23530337 ACTCATGAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
20 2 0.06
21 14 0.42
22 15 0.45
23 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (22 bp):
ATATATCATGAACTCAGATCAT
Found at i:23530350 original size:20 final size:20
Alignment explanation
Indices: 23530293--23530351 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
23530283 CTCAGATCAC
*
23530293 AACTCAATGAGTTCAGATCAT
1 AACTC-ATGAGTTCAGACCAT
* **
23530314 ATATATCATGAACTCAGACCAT
1 A-A-CTCATGAGTTCAGACCAT
23530336 AACTCATGAGTTCAGA
1 AACTCATGAGTTCAGA
23530352 TCGCATAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
20 11 0.38
21 2 0.07
22 14 0.48
23 2 0.07
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
AACTCATGAGTTCAGACCAT
Found at i:23538081 original size:20 final size:18
Alignment explanation
Indices: 23538047--23538110 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 18
23538037 TTATAACCAC
23538047 AATATATAATAATATAAA
1 AATATATAATAATATAAA
*
23538065 CATATGATAAGTAATATAAA
1 AATAT-ATAA-TAATATAAA
23538085 AATATAT-ATAATA-AAA
1 AATATATAATAATATAAA
**
23538101 TGTATATAAT
1 AATATATAAT
23538111 GTATAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 8 0.21
17 7 0.18
18 5 0.13
19 6 0.15
20 13 0.33
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (18 bp):
AATATATAATAATATAAA
Found at i:23538106 original size:14 final size:14
Alignment explanation
Indices: 23538083--23538175 Score: 59
Period size: 14 Copynumber: 6.6 Consensus size: 14
23538073 AAGTAATATA
23538083 AAAATATATATAAT
1 AAAATATATATAAT
*
23538097 AAAATGTATATAAT
1 AAAATATATATAAT
** * *
23538111 -GTATA-ATAAAAGG
1 AAAATATATATAA-T
23538124 AAAATAT-TATAA-
1 AAAATATATATAAT
*
23538136 AGAATAATATATAAT
1 AAAAT-ATATATAAT
23538151 AAAATATGATATGTAAT
1 AAAATAT-ATA--TAAT
23538168 AAAATATA
1 AAAATATA
23538176 CTGTCATATA
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
12 9 0.15
13 4 0.07
14 27 0.46
15 7 0.12
16 1 0.02
17 11 0.19
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (14 bp):
AAAATATATATAAT
Found at i:23538162 original size:17 final size:17
Alignment explanation
Indices: 23538142--23538174 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23538132 ATAAAGAATA
23538142 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
23538159 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
23538175 ACTGTCATAT
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:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:23538387 original size:77 final size:81
Alignment explanation
Indices: 23538262--23538414 Score: 190
Period size: 80 Copynumber: 1.9 Consensus size: 81
23538252 TTAGTAAATT
23538262 ATAAAATAATAATAATACGAAAAATAAGGTATAGTAAGATATTATATATAA-TAAAATTT-CAAA
1 ATAAAATAATAATAATACGAAAAATAA-GTATAGTAAGATATTATATATAACTAAAATTTACAAA
*
23538325 AATATATAATAATGTAA
65 AATAAATAATAATGTAA
* ** * * *
23538342 ATAATATAATAGATAATAC-AAAAATAA-TAT-GTACTATTTTATATATAACTAATATTTATAAA
1 ATAAAATAATA-ATAATACGAAAAATAAGTATAGTAAGATATTATATATAACTAAAATTTACAAA
23538404 AATAAATAATA
65 AATAAATAATA
23538415 TACATAAGGC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
77 15 0.24
78 10 0.16
79 13 0.21
80 18 0.29
81 7 0.11
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (81 bp):
ATAAAATAATAATAATACGAAAAATAAGTATAGTAAGATATTATATATAACTAAAATTTACAAAA
ATAAATAATAATGTAA
Found at i:23543194 original size:87 final size:87
Alignment explanation
Indices: 23543016--23543613 Score: 868
Period size: 87 Copynumber: 6.9 Consensus size: 87
23543006 TCCCTACATA
* * *
23543016 TACAGAGACGCCAAATTTGCTTCTTTGATTTGCTTCAACGTAAACACATGAAAGCCCAAATCAGC
1 TACAGAGACGCCAAA--T-CATCTTAGATTTGCTTCAACGTAAACACGTGAAAG-CCAAATCAGC
* * *
23543081 TATGTCTTCAATCTGTTCTCTAACAG
62 TATGTCTTCGATCTGCTCTCTGACAG
* * *
23543107 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAGCCAAATCAACTATG
1 TACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
*
23543172 TCTTTGATCTGCTCTCTGACAG
66 TCTTCGATCTGCTCTCTGACAG
* *
23543194 TACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATTAGCTATG
1 TACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* *
23543259 TCTTTGATCTGCTCTCTGATAG
66 TCTTCGATCTGCTCTCTGACAG
**
23543281 TACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAATTATG
1 TACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
23543346 TCTTCGATCTGCTCTCTGACAG
66 TCTTCGATCTGCTCTCTGACAG
* *
23543368 TACAGAGACGCC-AA--ATC----ATTTGCTTCAACGTGAACACGTGAAAGCCAAATCAACTATG
1 TACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
*
23543426 TCTTTGATCTGCTCTCTGACAG
66 TCTTCGATCTGCTCTCTGACAG
* * *
23543448 TACAGAGGCGCCAAATCATCATAGATTTGCTTCAACGTAAACACGTGAAATCCAAATCAGCTATG
1 TACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* *
23543513 TCTTCGATCTGCTCCCTAACAG
66 TCTTCGATCTGCTCTCTGACAG
* *
23543535 TACAGAGACGCCAAATCATCTTAGATTTACTTCGACGTAAACACGTGAAAGCCAAATCAGCTATG
1 TACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
*
23543600 TCTTCGATTTGCTC
66 TCTTCGATCTGCTC
23543614 CTTGTAAACA
Statistics
Matches: 462, Mismatches: 38, Indels: 18
0.89 0.07 0.03
Matches are distributed among these distances:
80 71 0.15
81 2 0.00
83 3 0.01
84 3 0.01
86 2 0.00
87 335 0.73
88 31 0.07
89 1 0.00
91 14 0.03
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (87 bp):
TACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
TCTTCGATCTGCTCTCTGACAG
Found at i:23543512 original size:254 final size:257
Alignment explanation
Indices: 23542987--23543613 Score: 902
Period size: 254 Copynumber: 2.4 Consensus size: 257
23542977 AGGAACACCA
* * * * * *
23542987 AGCTATATCTTCAATATGCTCCCT-ACATATACAGAGACGCCAAATTTGCTTCTTTGATTTGCTT
1 AGCTATGTCTTCGATCTGCTCCCTAACA-GTACAGAGACGCCAAA--T-CATCTTAGATTTGCTT
* * * *
23543051 CAACGTAAACACATGAAAGCCCAAATCAGCTATGTCTTCAATCTGTTCTCTAACAGTACAGAGAT
62 CAACGTAAACACGTGAAAG-CCAAATCAGCTATGTCTTCGATCTGCTCTCTAACAGTACAGAGAC
23543116 GCCAAATCATCTTAGATTTGCTTCAACATAAACACGTGAAAGCCAAATCAACTATGTCTTTGATC
126 GCCAAA-CATC-T--ATTTGCTTCAACATAAACACGTGAAAGCCAAATCAACTATGTCTTTGATC
*
23543181 TGCTCTCTGACAGTACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGC
187 TGCTCTCTGACAGTACAGAGACACCAAATCATCATAGATTTGCTTCAACGTAAACACGTGAAAGC
*
23543246 CAAATT
252 CAAATC
* * * *
23543252 AGCTATGTCTTTGATCTGCTCTCTGATAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
1 AGCTATGTCTTCGATCTGCTCCCTAACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
** *
23543317 GTAAACACGTGAAAGCCAAATCAATTATGTCTTCGATCTGCTCTCTGACAGTACAGAGACGCC-A
66 GTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTAACAGTACAGAGACGCCAA
* *
23543381 A-ATC-ATTTGCTTCAACGTGAACACGTGAAAGCCAAATCAACTATGTCTTTGATCTGCTCTCTG
131 ACATCTATTTGCTTCAACATAAACACGTGAAAGCCAAATCAACTATGTCTTTGATCTGCTCTCTG
* * *
23543444 ACAGTACAGAGGCGCCAAATCATCATAGATTTGCTTCAACGTAAACACGTGAAATCCAAATC
196 ACAGTACAGAGACACCAAATCATCATAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATC
* *
23543506 AGCTATGTCTTCGATCTGCTCCCTAACAGTACAGAGACGCCAAATCATCTTAGATTTACTTCGAC
1 AGCTATGTCTTCGATCTGCTCCCTAACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
*
23543571 GTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
66 GTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
23543614 CTTGTAAACA
Statistics
Matches: 329, Mismatches: 32, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
254 213 0.65
258 3 0.01
260 2 0.01
261 42 0.13
262 32 0.10
263 1 0.00
265 34 0.10
266 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (257 bp):
AGCTATGTCTTCGATCTGCTCCCTAACAGTACAGAGACGCCAAATCATCTTAGATTTGCTTCAAC
GTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTAACAGTACAGAGACGCCAA
ACATCTATTTGCTTCAACATAAACACGTGAAAGCCAAATCAACTATGTCTTTGATCTGCTCTCTG
ACAGTACAGAGACACCAAATCATCATAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATC
Found at i:23543635 original size:87 final size:88
Alignment explanation
Indices: 23543385--23543655 Score: 313
Period size: 87 Copynumber: 3.1 Consensus size: 88
23543375 ACGCCAAATC
* * * *
23543385 ATTTGCTTCAACGTGAACACGTGAAAGCCAAATCAACTATGTCTTTGATCTGCT-CTCTG-ACAG
1 ATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCT-TGTA-AA
* * *
23543448 TACAGAGG-CGCCAAATCATCATAG
64 CACACAGGACGCCAAATCATCTTAG
* *
23543472 ATTTGCTTCAACGTAAACACGTGAAATCCAAATCAGCTATGTCTTCGATCTGCTCC--CT-AACA
1 ATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCTTGTAAACA
*
23543534 GTACAGAGACGCCAAATCATCTTAG
66 -CACAG-GACGCCAAATCATCTTAG
* * *
23543559 ATTTACTTCGACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACA
1 ATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCTTGTAAACA
* *
23543624 CA-AGGATGCCAAATCATCTTGG
66 CACAGGACGCCAAATCATCTTAG
*
23543646 ATCTGCTTCA
1 ATTTGCTTCA
23543656 GTGAACATCT
Statistics
Matches: 155, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
84 2 0.01
85 3 0.02
86 1 0.01
87 140 0.90
88 3 0.02
89 2 0.01
90 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (88 bp):
ATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCTTGTAAACA
CACAGGACGCCAAATCATCTTAG
Found at i:23543813 original size:170 final size:175
Alignment explanation
Indices: 23543580--23543951 Score: 540
Period size: 170 Copynumber: 2.1 Consensus size: 175
23543570 CGTAAACACG
* * * *
23543580 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTATAAACACAAGAATGCCAAATCATCTTG
* *
23543645 GATCTGCTTCAGTG-AA-CATCTCAAGGTTAGA-T-CTATGTATCTGCTCTCCGTCGAA-ATAGA
66 GATCTACTTCAGTGAAATCATCTCAAGGTTAGACTGCTATGTATCTGCTCTCCATCGAATATAGA
23543705 GA-TGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
131 GACT-CCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
* * * *
23543750 TGAAAGTCAAATCTGCTATGTTTTTGATTTGTTCCTTATAAACACAAGAATGTCAAATCATCTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTATAAACACAAGAATGCCAAATCATCTTG
* * *
23543815 GATCTACTTCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCATCGAATATGG
66 GATCTACTTCAGTGAAATCATCTCAAGGTTAGA-CTGCTATGTATCTGCTCTCCATCGAATATAG
23543880 AGACTCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
130 AGACTCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
* **
23543926 TGAAAGTCAGATCTATTATGTCTTCG
1 TGAAAGTCAAATCTGCTATGTCTTCG
23543952 GTCTGTTACT
Statistics
Matches: 177, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
170 70 0.40
171 2 0.01
172 14 0.08
174 1 0.01
175 21 0.12
176 68 0.38
177 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (175 bp):
TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTATAAACACAAGAATGCCAAATCATCTTG
GATCTACTTCAGTGAAATCATCTCAAGGTTAGACTGCTATGTATCTGCTCTCCATCGAATATAGA
GACTCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
Found at i:23544871 original size:7 final size:7
Alignment explanation
Indices: 23544859--23544920 Score: 76
Period size: 7 Copynumber: 9.1 Consensus size: 7
23544849 TTGGCCTCTC
23544859 CTTTTTT
1 CTTTTTT
23544866 CTTTTTT
1 CTTTTTT
23544873 CTTTTTT
1 CTTTTTT
*
23544880 CTCTTTT
1 CTTTTTT
23544887 CTTTTTAT
1 CTTTTT-T
23544895 -TTTTTT
1 CTTTTTT
23544901 C-TTTTT
1 CTTTTTT
*
23544907 CTTTTCT
1 CTTTTTT
23544914 -TTTTTT
1 CTTTTTT
23544920 C
1 C
23544921 CCTTTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
6 12 0.26
7 34 0.72
8 1 0.02
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (7 bp):
CTTTTTT
Found at i:23544886 original size:21 final size:20
Alignment explanation
Indices: 23544862--23544930 Score: 88
Period size: 21 Copynumber: 3.5 Consensus size: 20
23544852 GCCTCTCCTT
23544862 TTTTCTTTTTTCTTTTTTCTC
1 TTTTCTTTTTT-TTTTTTCTC
23544883 TTTTCTTTTTATTTTTTTCT-
1 TTTTCTTTTT-TTTTTTTCTC
* *
23544903 TTTTCTTTTCTTTTTTTCCC
1 TTTTCTTTTTTTTTTTTCTC
23544923 TTTT-TTTT
1 TTTTCTTTT
23544931 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.27
20 13 0.30
21 18 0.41
22 1 0.02
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTCTTTTTTTTTTTTCTC
Found at i:23544897 original size:19 final size:20
Alignment explanation
Indices: 23544869--23544930 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
23544859 CTTTTTTCTT
23544869 TTTTCT-TTTTTCTCTTTTC
1 TTTTCTATTTTTCTCTTTTC
*
23544888 TTTT-TATTTTTTTCTTTTTC
1 TTTTCTATTTTTCTC-TTTTC
* *
23544908 TTTTCTTTTTTTCCCTTTT-
1 TTTTCTATTTTTCTCTTTTC
23544927 TTTT
1 TTTT
23544931 GAAATAGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 1 0.03
19 15 0.42
20 13 0.36
21 7 0.19
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTCTATTTTTCTCTTTTC
Found at i:23551515 original size:34 final size:32
Alignment explanation
Indices: 23551461--23551524 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
23551451 AATATAAGAG
* * *
23551461 ATAATATATAGTAAAATATATTATTTATAACC
1 ATAATATATAATAAAATATATAATGTATAACC
23551493 ATAATATATAATAAAATGTATATAATGTATAA
1 ATAATATATAATAAAA--TATATAATGTATAA
23551525 TAAAAGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 15 0.56
34 12 0.44
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (32 bp):
ATAATATATAATAAAATATATAATGTATAACC
Found at i:23551769 original size:21 final size:18
Alignment explanation
Indices: 23551731--23551777 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
23551721 AATAAAATTT
23551731 CAAAAATATATAATAATA
1 CAAAAATATATAATAATA
*
23551749 TAAATAATATAATAGATAATA
1 CAAA-AATAT-ATA-ATAATA
23551770 CAAAAATA
1 CAAAAATA
23551778 ATATGTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 5 0.21
20 7 0.29
21 9 0.38
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
CAAAAATATATAATAATA
Found at i:23560909 original size:26 final size:26
Alignment explanation
Indices: 23560870--23560925 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
23560860 TCTTATCTCT
*
23560870 ATTTTACCCTTAGTAAAATTTTGACG
1 ATTTTACCCATAGTAAAATTTTGACG
*
23560896 ATTTTATCCATAGTAAAATTTTGACG
1 ATTTTACCCATAGTAAAATTTTGACG
23560922 ATTT
1 ATTT
23560926 GGCCCTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (26 bp):
ATTTTACCCATAGTAAAATTTTGACG
Found at i:23561106 original size:6 final size:6
Alignment explanation
Indices: 23561095--23561119 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23561085 AATTTCCATC
23561095 TTCATT TTCATT TTCATT TTCATT T
1 TTCATT TTCATT TTCATT TTCATT T
23561120 CCAAATGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCATT
Found at i:23569033 original size:15 final size:15
Alignment explanation
Indices: 23569013--23569044 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23569003 TGAAGGCTAA
23569013 AGTAAAAGGTTCTTT
1 AGTAAAAGGTTCTTT
23569028 AGTAAAAGGTTCTTT
1 AGTAAAAGGTTCTTT
23569043 AG
1 AG
23569045 CACTAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (15 bp):
AGTAAAAGGTTCTTT
Found at i:23573705 original size:3 final size:3
Alignment explanation
Indices: 23573687--23573737 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
23573677 AGTTAGCATC
* * * * *
23573687 AAG AAA AAG AAG -AG AAG AAG AAG AAA AAG AAG AAG GAG GAG AAG GAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
23573734 AAG A
1 AAG A
23573738 GAAACAATGG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:23573877 original size:50 final size:50
Alignment explanation
Indices: 23573813--23573907 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
23573803 TAGACTCCAA
* *
23573813 TTTCTCCTTTCATAAATCTTTGGGTTTTCATGGAGGAAATCAATTTCAAT
1 TTTCCCCTTTCATAAATATTTGGGTTTTCATGGAGGAAATCAATTTCAAT
*
23573863 TTTCCCCTTTCATAAATATTTGGGTTTTTATGGAGGAAATCAATT
1 TTTCCCCTTTCATAAATATTTGGGTTTTCATGGAGGAAATCAATT
23573908 GGGATACCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (50 bp):
TTTCCCCTTTCATAAATATTTGGGTTTTCATGGAGGAAATCAATTTCAAT
Found at i:23581512 original size:46 final size:48
Alignment explanation
Indices: 23581406--23581527 Score: 131
Period size: 50 Copynumber: 2.5 Consensus size: 48
23581396 TGTCTTCGAC
* * * *
23581406 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATAACTAAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCA-ATATAT-ACTAAT
* * *
23581456 ATGGGCTTACATGTCTCATTCCTGTCTCCAAAGCC-ATATAT-CTTAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATACTAAT
* *
23581502 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGACTCATTCCTGTC
23581528 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 27 0.44
48 6 0.10
50 29 0.47
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (48 bp):
ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATACTAAT
Found at i:23583162 original size:13 final size:13
Alignment explanation
Indices: 23583144--23583191 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
23583134 TAAAACACGA
*
23583144 AAAAAATATTAGT
1 AAAAAATATTAAT
**
23583157 AAAAAAATATTTCT
1 -AAAAAATATTAAT
*
23583171 TAAAAATATTAAT
1 AAAAAATATTAAT
23583184 AAAAAATA
1 AAAAAATA
23583192 GAATTTAGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (13 bp):
AAAAAATATTAAT
Found at i:23583174 original size:15 final size:14
Alignment explanation
Indices: 23583143--23583189 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
23583133 ATAAAACACG
23583143 AAAAAAATATTAGT
1 AAAAAAATATTAGT
**
23583157 AAAAAAATATTTCT
1 AAAAAAATATTAGT
* *
23583171 -TAAAAATATTAAT
1 AAAAAAATATTAGT
23583184 AAAAAA
1 AAAAAA
23583190 TAGAATTTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
AAAAAAATATTAGT
Found at i:23583295 original size:31 final size:31
Alignment explanation
Indices: 23583229--23583299 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
23583219 AAAAATTTAA
** **
23583229 GAGAGAATTTGAGAGATTTTCGAGAGTTGATT
1 GAGA-AATTTGAGAGATTTAAGAGAGTAAATT
23583261 GAGAAATTTGAGAGATTTAAGAGAG-AAATGT
1 GAGAAATTTGAGAGATTTAAGAGAGTAAAT-T
23583292 GAGAAATT
1 GAGAAATT
23583300 AGCAAGTGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.06
31 28 0.82
32 4 0.12
ACGTcount: A:0.39, C:0.01, G:0.30, T:0.30
Consensus pattern (31 bp):
GAGAAATTTGAGAGATTTAAGAGAGTAAATT
Found at i:23584081 original size:10 final size:10
Alignment explanation
Indices: 23584066--23584099 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
23584056 TTTAGAAGTT
23584066 TTAAAATCAA
1 TTAAAATCAA
*
23584076 TTAAAATCAT
1 TTAAAATCAA
23584086 TTAAAA-CAA
1 TTAAAATCAA
23584095 TTAAA
1 TTAAA
23584100 GAGTGATTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (10 bp):
TTAAAATCAA
Found at i:23589301 original size:26 final size:24
Alignment explanation
Indices: 23589259--23589306 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
23589249 ACATATTGGG
*
23589259 AGATAAATTTTTATTATTTTTTTA
1 AGATAAATTTTTATTATCTTTTTA
23589283 AGATAAATATTTTATTTATCTTTT
1 AGATAAAT-TTTTA-TTATCTTTT
23589307 CTATTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 5 0.24
26 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
AGATAAATTTTTATTATCTTTTTA
Found at i:23589306 original size:25 final size:24
Alignment explanation
Indices: 23589259--23589306 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
23589249 ACATATTGGG
*
23589259 AGATAAATTTTTATTATTTTTTTA
1 AGATAAATTTTTATTATTCTTTTA
23589283 AGATAAATATTTTATT-TATCTTTT
1 AGATAAAT-TTTTATTAT-TCTTTT
23589307 CTATTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
AGATAAATTTTTATTATTCTTTTA
Found at i:23593087 original size:24 final size:24
Alignment explanation
Indices: 23593043--23593089 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23593033 GTTAAATGTC
*
23593043 TTATTGAATTTTATAGTTAAGTTT
1 TTATTGAATTTTATAGCTAAGTTT
*
23593067 TTATTTAATTTTAATA-CTAAGTT
1 TTATTGAATTTT-ATAGCTAAGTT
23593090 AATATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (24 bp):
TTATTGAATTTTATAGCTAAGTTT
Found at i:23596425 original size:42 final size:42
Alignment explanation
Indices: 23596374--23596494 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
23596364 TTTGAGATTA
*
23596374 CGTGTAAGACCATATCTGGGATATGGAATCGATATGAGA-CTT
1 CGTGTAAGACCATATCTGGGATATGGAATCGATATGAGATC-C
* * * * *
23596416 TGTGTAAGACCATAGCTAGGCTATTGACATCGATATGAGATCC
1 CGTGTAAGACCATATCTGGGATATGGA-ATCGATATGAGATCC
* * *
23596459 CATGTAAGACCATATCTGGGATATGGCATTGATATG
1 CGTGTAAGACCATATCTGGGATATGGAATCGATATG
23596495 GTACTATGAG
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 30 0.48
43 32 0.51
44 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGAATCGATATGAGATCC
Found at i:23596726 original size:35 final size:35
Alignment explanation
Indices: 23596679--23596754 Score: 143
Period size: 35 Copynumber: 2.1 Consensus size: 35
23596669 TATGATTGTG
23596679 CAAGTTATGATATTAAGGTTTTAATAATATTCATGC
1 CAAG-TATGATATTAAGGTTTTAATAATATTCATGC
23596715 CAAGTATGATATTAAGGTTTTAATAATATTCATGC
1 CAAGTATGATATTAAGGTTTTAATAATATTCATGC
23596750 CAAGT
1 CAAGT
23596755 TGGACTATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (35 bp):
CAAGTATGATATTAAGGTTTTAATAATATTCATGC
Found at i:23611819 original size:43 final size:44
Alignment explanation
Indices: 23611714--23611826 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
23611704 ATGTGCTTCG
* * ** *
23611714 TGTAAGACCACATCTGGGACGTTGGTATCGATTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACATGTGATTTACA
23611758 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGACATGTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACATGTGATTTACA
*
23611801 TGTAAGACCACGTCTGGGACGCTGGC
1 TGTAAGACCACGTCTGGGACGTTGGC
23611827 GTTGTGCGAG
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
42 1 0.02
43 27 0.45
44 31 0.52
45 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACATGTGATTTACA
Found at i:23614622 original size:12 final size:12
Alignment explanation
Indices: 23614605--23614632 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23614595 TAATTAAATG
23614605 AATTAAAAGCCA
1 AATTAAAAGCCA
23614617 AATTAAAAGCCA
1 AATTAAAAGCCA
23614629 AATT
1 AATT
23614633 TTGTCCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:23615545 original size:42 final size:42
Alignment explanation
Indices: 23615455--23615550 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
23615445 TGAAATTATG
* *
23615455 TGTAAGACCATATCTAGGATATAGCATCAGTATGAGACTTCG
1 TGTAAGACCATATCTAGGATATAGCACCAGTATGAGACTTCA
* * * *
23615497 TATAAGACCATATCTGAGGA-ATGGCACC-GATATGAGATTTTA
1 TGTAAGACCATATCT-AGGATATAGCACCAG-TATGAGACTTCA
23615539 TGTAAGACCATA
1 TGTAAGACCATA
23615551 GCTGGGCTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 40 0.89
43 4 0.09
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATAGCACCAGTATGAGACTTCA
Found at i:23617223 original size:30 final size:30
Alignment explanation
Indices: 23617158--23617233 Score: 127
Period size: 30 Copynumber: 2.5 Consensus size: 30
23617148 CAAGGGCGTA
*
23617158 TGTCTCAGCCGTGTGAAGTACACAGGCATG
1 TGTCTTAGCCGTGTGAAGTACACAGGCATG
23617188 TGTCTTAGCCGTGTGAAGTACACAGGCATG
1 TGTCTTAGCCGTGTGAAGTACACAGGCATG
23617218 TGTCTT-GCCCGTGTGA
1 TGTCTTAG-CCGTGTGA
23617234 CTTCAATTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 1 0.02
30 43 0.98
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (30 bp):
TGTCTTAGCCGTGTGAAGTACACAGGCATG
Found at i:23617904 original size:42 final size:41
Alignment explanation
Indices: 23617856--23617966 Score: 152
Period size: 42 Copynumber: 2.7 Consensus size: 41
23617846 ATAGGATACG
*
23617856 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-CTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGAT-TGAGATCCT-A
* *
23617898 TGTAAGACCATAGCTGGGCTATTGGCATCGATTGAGATCCTA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATTGAGATCCTA
*
23617940 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
23617967 TGGTATGGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 6 0.10
42 43 0.70
43 12 0.20
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCGATTGAGATCCTA
Found at i:23625132 original size:23 final size:24
Alignment explanation
Indices: 23625089--23625138 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
23625079 ATGTTTAGTT
* *
23625089 TCATCTCTCGAATAAATCAAAATA
1 TCATCTATCGAATAAATCAAAAAA
23625113 TCATCTAT-GAATACAA-CAAAAAA
1 TCATCTATCGAATA-AATCAAAAAA
23625136 TCA
1 TCA
23625139 ATTTAGGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.26
Consensus pattern (24 bp):
TCATCTATCGAATAAATCAAAAAA
Found at i:23629944 original size:27 final size:27
Alignment explanation
Indices: 23629913--23630090 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
23629903 TAAATTGTAC
*
23629913 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
23629940 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
23629966 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
23629994 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
23630021 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
23630049 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
23630076 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23630091 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:23629974 original size:54 final size:55
Alignment explanation
Indices: 23629913--23630090 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
23629903 TAAATTGTAC
* **
23629913 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
23629968 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
23630021 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
23630076 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23630091 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:23632221 original size:28 final size:28
Alignment explanation
Indices: 23632189--23632245 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
23632179 TCATGCAGTA
23632189 AGAAAATACAGTCTAGGTCTAAGCCCGT
1 AGAAAATACAGTCTAGGTCTAAGCCCGT
23632217 AGAAAATACAGTCTAGGTCTAAGCCCGT
1 AGAAAATACAGTCTAGGTCTAAGCCCGT
23632245 A
1 A
23632246 TCAGTAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (28 bp):
AGAAAATACAGTCTAGGTCTAAGCCCGT
Found at i:23641436 original size:49 final size:49
Alignment explanation
Indices: 23641324--23641497 Score: 155
Period size: 49 Copynumber: 3.7 Consensus size: 49
23641314 ACACATCAAA
* * *
23641324 GTCGATGCCATGTCCCAGATAGGTCTTACACTAACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
* *** *
23641373 G-CTAATGATGTGTCCCAGACAGGTCTTACACTGACTCTCATCTATCG-G
1 GTC-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
* * * *
23641421 TGTCGATGCCATGTCCCAGACAGGTCTTACATTGA--CACACA-A-CAAG
1 -GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
* *
23641467 CT-GACGCCATGTCCCAGACAGGTCTTACACT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACT
23641498 AGCTTGTATA
Statistics
Matches: 101, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
44 27 0.27
45 2 0.02
46 2 0.02
47 3 0.03
48 2 0.02
49 64 0.63
50 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG
Found at i:23643101 original size:68 final size:68
Alignment explanation
Indices: 23643029--23643180 Score: 186
Period size: 67 Copynumber: 2.2 Consensus size: 68
23643019 CATCATGTGT
** * *
23643029 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCATGATACTAGTGAAGGACACCA
23643092 TGTAG
64 TGTAG
* * *
23643097 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCATGGTTCTAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCATGATACTA-GTGAAGGACACCAT
23643160 GTAG
65 GTAG
23643164 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
23643181 TAAACTGGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
64 24 0.33
65 3 0.04
66 3 0.04
67 27 0.38
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCATGATACTAGTGAAGGACACCATG
TAG
Found at i:23648873 original size:26 final size:26
Alignment explanation
Indices: 23648810--23648884 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
23648800 ATGCGCAAAT
** * *
23648810 ATAGTCATACATCTCATAAGGGCATA
1 ATAGTCATTTATCTTATAGGGGCATA
23648836 ATAGTCATTTTATCTTATAGGGGCATA
1 ATAGTCA-TTTATCTTATAGGGGCATA
*
23648863 ATAGTCATTTATCATTTTAGGG
1 ATAGTCATTTATC-TTATAGGG
23648885 TCTAGGTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.31
27 29 0.69
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (26 bp):
ATAGTCATTTATCTTATAGGGGCATA
Found at i:23648884 original size:27 final size:27
Alignment explanation
Indices: 23648820--23648872 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
23648810 ATAGTCATAC
* *
23648820 ATCTCATAAGGGCATAATAGTCATTTT
1 ATCTTATAGGGGCATAATAGTCATTTT
23648847 ATCTTATAGGGGCATAATAGTCATTT
1 ATCTTATAGGGGCATAATAGTCATTT
23648873 ATCATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (27 bp):
ATCTTATAGGGGCATAATAGTCATTTT
Found at i:23649128 original size:17 final size:19
Alignment explanation
Indices: 23649098--23649133 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
23649088 GTGTAGTTTA
23649098 CCCGTGTGGAGCCCACATG
1 CCCGTGTGGAGCCCACATG
23649117 CCCGTG-GG-GCCCACATG
1 CCCGTGTGGAGCCCACATG
23649134 GCCCATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.14, C:0.39, G:0.33, T:0.14
Consensus pattern (19 bp):
CCCGTGTGGAGCCCACATG
Found at i:23655019 original size:49 final size:50
Alignment explanation
Indices: 23654945--23655079 Score: 139
Period size: 51 Copynumber: 2.7 Consensus size: 50
23654935 ATCTGGTATG
* * * * *
23654945 CATAGTAGCTTGTACTTAGTACTACATATGCGACCAA-TTATTC-GGTACA
1 CATAGTAGCCTGCAATTAGTACTACACATGCGACCAAGTTA-TCAAGTACA
* * * * *
23654994 CGTAGTAGCCTGCAATTAGTACTACACACGTGATCGAAGTTATCAAGTACG
1 CATAGTAGCCTGCAATTAGTACTACACATGCGA-CCAAGTTATCAAGTACA
*
23655045 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAGTAGCCTGCAATTAGTACTACACATGCGACC
23655080 TCACAATATA
Statistics
Matches: 68, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
49 26 0.38
50 6 0.09
51 36 0.53
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (50 bp):
CATAGTAGCCTGCAATTAGTACTACACATGCGACCAAGTTATCAAGTACA
Found at i:23673294 original size:27 final size:26
Alignment explanation
Indices: 23673246--23673305 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
23673236 GCGAGGCTGC
*
23673246 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
23673273 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
23673299 CAAATAT
1 CAGATAT
23673306 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23675271 original size:30 final size:30
Alignment explanation
Indices: 23675237--23675297 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
23675227 TTCCCGAGCC
23675237 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
23675267 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
23675297 T
1 T
23675298 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:23688655 original size:40 final size:40
Alignment explanation
Indices: 23688571--23688754 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
23688561 TTGAATGCTG
* * * *
23688571 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
23688610 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * **
23688651 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACCAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
23688691 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
23688731 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23688755 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 110 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:23688775 original size:39 final size:39
Alignment explanation
Indices: 23688651--23688801 Score: 117
Period size: 40 Copynumber: 3.8 Consensus size: 39
23688641 AGTTATTAAT
* ** * * *
23688651 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC-CAAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
23688691 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
23688731 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
23688771 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
23688802 GAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.31
40 64 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:23696851 original size:81 final size:81
Alignment explanation
Indices: 23696712--23696897 Score: 327
Period size: 81 Copynumber: 2.3 Consensus size: 81
23696702 ATATTCTATC
* * *
23696712 ATCTTATTCATTCATACTTATTTATTGATAGAATTTAAGATTTAGGATTTGAATCATGATGCTGG
1 ATCTTATTCATTCATACTTATGTATGGATAGAATTTAAGATTTAGGATTTGAAGCATGATGCTGG
23696777 TTTTGATGAAGTTGCA
66 TTTTGATGAAGTTGCA
*
23696793 ATCTTATTCATTCACACTTATGTATGGATAGAATTTAAGATTTAGGATTTGAAGCATGATGCTGG
1 ATCTTATTCATTCATACTTATGTATGGATAGAATTTAAGATTTAGGATTTGAAGCATGATGCTGG
23696858 TTTTGATGAAGTTGCA
66 TTTTGATGAAGTTGCA
*
23696874 ATCTTATTCATTCATACTAATGTA
1 ATCTTATTCATTCATACTTATGTA
23696898 CTGTCAATGT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (81 bp):
ATCTTATTCATTCATACTTATGTATGGATAGAATTTAAGATTTAGGATTTGAAGCATGATGCTGG
TTTTGATGAAGTTGCA
Found at i:23703829 original size:20 final size:20
Alignment explanation
Indices: 23703804--23703864 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
23703794 TCGAAATGCT
*
23703804 AACAGAGGCACTGTAGTGCA
1 AACAGAGGCACTGAAGTGCA
*
23703824 AACAGAGGCACT-ACAATGCA
1 AACAGAGGCACTGA-AGTGCA
*
23703844 AACAAAGGCACTGAAGTGCA
1 AACAGAGGCACTGAAGTGCA
23703864 A
1 A
23703865 TCCTGTACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (20 bp):
AACAGAGGCACTGAAGTGCA
Found at i:23723620 original size:43 final size:42
Alignment explanation
Indices: 23723472--23723621 Score: 117
Period size: 43 Copynumber: 3.5 Consensus size: 42
23723462 TCTGTGACAT
** *
23723472 CGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACACAGGCATCGTATTGA-A-TTA
* * ** *
23723515 CGTATAAGACCATGTCTGGGACATTGGCATCGTATCT-AATTT
1 CGTGTAAGACCACGTCTGGGACACAGGCATCGTAT-TGAATTA
* * * *
23723557 TGTGTAAGACC-CTTTTTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCAC-GTCTGGGACACAGGCATCG-TATTGAATTA
*
23723600 CATGTAAGACCACGTCTGGGAC
1 CGTGTAAGACCACGTCTGGGAC
23723622 GTCGGCATTG
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
42 27 0.33
43 51 0.61
44 4 0.05
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACACAGGCATCGTATTGAATTA
Found at i:23739958 original size:25 final size:25
Alignment explanation
Indices: 23739930--23739986 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
23739920 TGTTTACACA
* *
23739930 AGCTGTGAATCGGTATGCTCTCATG
1 AGCTGTGAATCAGTATGCTCTCACG
*
23739955 AGCTGTAAATCAGTATGCTCTCACG
1 AGCTGTGAATCAGTATGCTCTCACG
*
23739980 AACTGTG
1 AGCTGTG
23739987 GGCCAGAACG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (25 bp):
AGCTGTGAATCAGTATGCTCTCACG
Found at i:23758822 original size:39 final size:39
Alignment explanation
Indices: 23758757--23758941 Score: 280
Period size: 39 Copynumber: 4.7 Consensus size: 39
23758747 TTCCAACACA
*
23758757 AATGCCTTCGGGACTTAGCTCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
23758796 AATACCTTCGGGACTTAGCCCAGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
23758835 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
** * * *
23758874 AATGCCTTCAAGACTTAGCCCAGACATAACACCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
**
23758913 AATGCCTTCGAAACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
23758942 ATCTCACACA
Statistics
Matches: 132, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 132 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.19
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:23764837 original size:46 final size:46
Alignment explanation
Indices: 23764770--23764949 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 46
23764760 TGTAACCCGC
23764770 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
**
23764816 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCGTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT--TCGCAT
* * * *
23764866 CTC-TCGAACTCGAACTCGGAC-CAACTCAACGAGTTCGGACATTCGCAT
1 C-CAT--AAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
23764914 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
23764950 ATGCCCAAAT
Statistics
Matches: 115, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
45 10 0.09
46 56 0.49
47 1 0.01
48 10 0.09
50 8 0.07
51 1 0.01
52 19 0.17
53 10 0.09
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:23767388 original size:15 final size:15
Alignment explanation
Indices: 23767334--23767396 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
23767324 CAAAGATAAT
*
23767334 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
23767348 AAGATATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
23767363 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
23767378 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
23767393 AAGA
1 AAGA
23767397 GATCTAGGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
14 8 0.21
15 30 0.77
16 1 0.03
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:23770205 original size:46 final size:46
Alignment explanation
Indices: 23770138--23770318 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 46
23770128 TGTAACCCGC
23770138 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
23770184 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * *
23770234 CTCTTAAACTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 C-CAT-AAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
23770283 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
23770319 ATGCCCAAAT
Statistics
Matches: 115, Mismatches: 11, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
46 63 0.55
47 3 0.03
48 5 0.04
49 5 0.04
50 5 0.04
51 5 0.04
52 3 0.03
53 26 0.23
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:23774996 original size:39 final size:39
Alignment explanation
Indices: 23774942--23775122 Score: 299
Period size: 39 Copynumber: 4.6 Consensus size: 39
23774932 AACACAAATG
23774942 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
23774981 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
23775020 CCTTCGTGACTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
** * * *
23775059 CCTTCGGGACTTAGCCTAGACATAACACTAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
23775098 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
23775123 ATCTCACACA
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 132 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:23783614 original size:40 final size:40
Alignment explanation
Indices: 23783520--23783664 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
23783510 ATTTCGAATG
*
23783520 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
23783561 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
23783601 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
23783641 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
23783665 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:23786972 original size:27 final size:27
Alignment explanation
Indices: 23786936--23787010 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 27
23786926 GCTGTAGGAT
* * * * *
23786936 GGTAGCATTATTGGAATACCCTTGTAG
1 GGTAGAATTACTGAAATACCCCTATAG
*
23786963 GGTAGAATTACTGAAATGCCCCTATAG
1 GGTAGAATTACTGAAATACCCCTATAG
* **
23786990 GGTAAAATTACCAAAATACCC
1 GGTAGAATTACTGAAATACCC
23787011 TTAATTTACA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
GGTAGAATTACTGAAATACCCCTATAG
Found at i:23787036 original size:27 final size:27
Alignment explanation
Indices: 23787014--23787253 Score: 302
Period size: 27 Copynumber: 8.9 Consensus size: 27
23787004 AATACCCTTA
* *
23787014 ATTTACAAAATTATTGTTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* **
23787041 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
23787068 ATTTACAAAATTATTGTTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
*
23787095 ATTTACAAAATTACTATCTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
23787122 ATTTAAAAAATTACTATTTTATCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* * *
23787149 ATTTATAGAATTA-TCATTTTACCCTCA
1 ATTTACAAAATTACT-ATTTTACCCTCG
*
23787176 ATTTACAGAATTACTATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
23787203 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
23787230 ATTTATAAAATTACCATTTTACCC
1 ATTTACAAAATTACTATTTTACCC
23787254 CTAGGGTGTT
Statistics
Matches: 190, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (27 bp):
ATTTACAAAATTACTATTTTACCCTCG
Found at i:23787091 original size:81 final size:81
Alignment explanation
Indices: 23787006--23787253 Score: 352
Period size: 81 Copynumber: 3.1 Consensus size: 81
23786996 ATTACCAAAA
* * * *
23787006 TACCCTTAATTTACAAAATTATTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
* **
23787071 TACAAAATTATTGTTT
66 TATAAAATTATCATTT
* * * * * *
23787087 TACCCTCGATTTACAAAATTACTATCTTACCCTCGATTTAAAAAATTACTATTTTATCCTCGATT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
23787152 TATAGAATTATCATTT
66 TATAAAATTATCATTT
*
23787168 TACCCTCAATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
23787233 TATAAAATTACCATTT
66 TATAAAATTATCATTT
23787249 TACCC
1 TACCC
23787254 CTAGGGTGTT
Statistics
Matches: 144, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 144 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (81 bp):
TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
TATAAAATTATCATTT
Found at i:23787533 original size:27 final size:26
Alignment explanation
Indices: 23787489--23787540 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
23787479 CTCGCTGCAA
*
23787489 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
23787516 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
23787541 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:23787793 original size:6 final size:6
Alignment explanation
Indices: 23787784--23787885 Score: 66
Period size: 6 Copynumber: 16.7 Consensus size: 6
23787774 TACCTGATAT
* * * * *
23787784 TGATTC TGATTC TAATTC TG-TCACC TAATTC TGATTC TAATTC TAATTC
1 TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC
* * *
23787833 TGATTC TG-TCACC TGATTC TGATTC TGATTC TCATTT TGATTC T-AGTTC
1 TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC
23787882 TGAT
1 TGAT
23787886 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
5 3 0.04
6 63 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:23787874 original size:37 final size:37
Alignment explanation
Indices: 23787784--23787876 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
23787774 TACCTGATAT
* *
23787784 TGATTCTGATTCTAATTCTGTCACCTAATTCTGATTC
1 TGATTCTAATTCTGATTCTGTCACCTAATTCTGATTC
* *
23787821 TAATTCTAATTCTGATTCTGTCACCTGATTCTGATTC
1 TGATTCTAATTCTGATTCTGTCACCTAATTCTGATTC
* *
23787858 TGATTCTCATTTTGATTCT
1 TGATTCTAATTCTGATTCT
23787877 AGTTCTGATA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (37 bp):
TGATTCTAATTCTGATTCTGTCACCTAATTCTGATTC
Found at i:23788869 original size:29 final size:29
Alignment explanation
Indices: 23788782--23788896 Score: 101
Period size: 29 Copynumber: 4.0 Consensus size: 29
23788772 TACTTGTATC
* *
23788782 TGGCCCATTAAG-CCTAATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * * *
23788810 TGGCCCATTAAGCCGAAACCACCTGT-TTA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
* *
23788839 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * *
23788868 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
23788896 T
1 T
23788897 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
28 25 0.36
29 44 0.63
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:23789126 original size:8 final size:8
Alignment explanation
Indices: 23789115--23789149 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
23789105 ACTTTCAGCT
23789115 TTTCGGCA
1 TTTCGGCA
*
23789123 TTTCGGCT
1 TTTCGGCA
*
23789131 TTTCAGCA
1 TTTCGGCA
23789139 TTTCGGCA
1 TTTCGGCA
23789147 TTT
1 TTT
23789150 TAGTTTTTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (8 bp):
TTTCGGCA
Found at i:23789131 original size:16 final size:16
Alignment explanation
Indices: 23789107--23789150 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
23789097 GTAGCCAAAC
* *
23789107 TTTCAGCTTTTCGGCA
1 TTTCGGCTTTTCAGCA
23789123 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
23789139 TTTCGGCATTTT
1 TTTCGGC-TTTT
23789151 AGTTTTTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:23794683 original size:27 final size:27
Alignment explanation
Indices: 23794653--23794830 Score: 268
Period size: 27 Copynumber: 6.6 Consensus size: 27
23794643 CCCTAATTGA
* * *
23794653 TAAAATGATTGTTTTGCCCTTCTGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
23794680 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
23794707 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
23794734 TAAAATGACTGTTTT-CTCCTTATGTGG
1 TAAAATGACTATTTTGC-CCTTATGTGG
*
23794761 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
23794788 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
23794815 TAAATTGACTACTTTT
1 TAAAATGACTA-TTTT
23794831 CTCATATGTG
Statistics
Matches: 141, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
26 1 0.01
27 135 0.96
28 5 0.04
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:23795225 original size:18 final size:18
Alignment explanation
Indices: 23795165--23795221 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
23795155 ACTGGTATAC
*
23795165 TGTTACTGCACTGATTAC
1 TGTTACTGCACTGATTAT
23795183 TGTTACT-CACTGATTAT
1 TGTTACTGCACTGATTAT
* * *
23795200 TATTTCTGCATTGATTAT
1 TGTTACTGCACTGATTAT
23795218 TGTT
1 TGTT
23795222 TCTGTAATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
17 14 0.42
18 19 0.58
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (18 bp):
TGTTACTGCACTGATTAT
Found at i:23800229 original size:19 final size:19
Alignment explanation
Indices: 23800193--23800231 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
23800183 TTTTCATCAT
* *
23800193 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
23800212 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
23800231 A
1 A
23800232 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:23800782 original size:28 final size:28
Alignment explanation
Indices: 23800695--23800783 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
23800685 GTGACAGAGT
* *
23800695 CACCAGATACAGATATTTTGTGGTAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
***
23800724 CACCAGAACAGATAA-ACATGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
23800751 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
23800779 CACCA
1 CACCA
23800784 AGACGCTTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
27 21 0.44
28 19 0.40
29 8 0.17
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:23800937 original size:28 final size:28
Alignment explanation
Indices: 23800893--23800954 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
23800883 TTAACCCTAA
*
23800893 GGGTATAAAGGTCATTTTGCACACATAG
1 GGGTATAAAGGTAATTTTGCACACATAG
* * *
23800921 GGGTATAATGGTAATTTTGCATACGTAG
1 GGGTATAAAGGTAATTTTGCACACATAG
23800949 GGGTAT
1 GGGTAT
23800955 TCTAGTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTTGCACACATAG
Found at i:23809866 original size:100 final size:100
Alignment explanation
Indices: 23809751--23809938 Score: 315
Period size: 100 Copynumber: 1.9 Consensus size: 100
23809741 AAAGCTATCT
*
23809751 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TAACCTAGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAACC-AGTACACGTAGTAGC
*
23809815 CTGCACTTAGTACTACACATGTGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * *
23809851 GGTACACATAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAACCAGTACACGTAGTAGCC
23809916 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
23809939 CATCACAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 78 0.95
101 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAACCAGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:23809877 original size:51 final size:49
Alignment explanation
Indices: 23809746--23809933 Score: 243
Period size: 49 Copynumber: 3.8 Consensus size: 49
23809736 TAGCCAAAGC
* *
23809746 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
23809794 TAACCTAGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAGT
1 TATCC-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
23809846 TTTCGGGTACACATAGTAGCCTGCATTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
23809895 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
23809934 CGTGACATCA
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
48 3 0.03
49 73 0.62
50 2 0.02
51 37 0.32
52 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:23817017 original size:4 final size:4
Alignment explanation
Indices: 23816996--23817033 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
23816986 CAGTTCTAGC
*
23816996 ATTT TTTT A-TT A-TT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
23817034 TATTGTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 6 0.19
4 25 0.81
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:23823162 original size:47 final size:47
Alignment explanation
Indices: 23823097--23823605 Score: 955
Period size: 47 Copynumber: 10.8 Consensus size: 47
23823087 AGACAGTGTA
23823097 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
23823144 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
23823191 TATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
23823238 TATATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
23823285 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
23823332 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
23823379 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
23823426 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
23823473 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
23823520 TATATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
**
23823569 TATATATGCAATAAGGCCTAATGGCCGATGTGATGAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
23823606 GGCCTAATGG
Statistics
Matches: 456, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
47 410 0.90
49 46 0.10
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:23823611 original size:23 final size:23
Alignment explanation
Indices: 23823581--23823628 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
23823571 TATATGCAAT
23823581 AAGGCCTAATGGCCGATGTGATG
1 AAGGCCTAATGGCCGATGTGATG
23823604 AAGGCCTAATGGCCGATGTGATG
1 AAGGCCTAATGGCCGATGTGATG
23823627 AA
1 AA
23823629 TGTGAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (23 bp):
AAGGCCTAATGGCCGATGTGATG
Found at i:23823655 original size:70 final size:70
Alignment explanation
Indices: 23823534--23823673 Score: 219
Period size: 70 Copynumber: 2.0 Consensus size: 70
23823524 TATATGCGAT
* * *
23823534 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCAATAAGGCCTAA-TGGCCGAT
1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCAACAAGGCC-AAGTGGCCAAC
23823598 GTGATG
65 GTGATG
**
23823604 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCAAGTGGCCAACG
1 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCAACAAGGCCAAGTGGCCAACG
23823669 TGATG
66 TGATG
23823674 GATGTGAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 2 0.03
70 62 0.97
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (70 bp):
AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCAACAAGGCCAAGTGGCCAACG
TGATG
Found at i:23823672 original size:47 final size:47
Alignment explanation
Indices: 23823604--23823696 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
23823594 CGATGTGATG
* * *
23823604 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
1 AAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGAC
*
23823651 AAGGCC-AAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 AAGGCCTAA-TGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGA
23823697 TAAGTCCCGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 2 0.05
47 39 0.95
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (47 bp):
AAGGCCTAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGAC
Found at i:23823875 original size:37 final size:37
Alignment explanation
Indices: 23823819--23823897 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23823809 CCGAGCTCTA
* * *
23823819 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
23823856 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23823893 AAGAC
1 AAGAC
23823898 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23824879 original size:45 final size:45
Alignment explanation
Indices: 23824825--23824919 Score: 190
Period size: 45 Copynumber: 2.1 Consensus size: 45
23824815 TTGGGTTTAT
23824825 TTATGTTTTGTTGTTTTCCAAATTTTGAGATGTTTTCCATTATTA
1 TTATGTTTTGTTGTTTTCCAAATTTTGAGATGTTTTCCATTATTA
23824870 TTATGTTTTGTTGTTTTCCAAATTTTGAGATGTTTTCCATTATTA
1 TTATGTTTTGTTGTTTTCCAAATTTTGAGATGTTTTCCATTATTA
23824915 TTATG
1 TTATG
23824920 AACTTAAGCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.58
Consensus pattern (45 bp):
TTATGTTTTGTTGTTTTCCAAATTTTGAGATGTTTTCCATTATTA
Found at i:23828137 original size:40 final size:40
Alignment explanation
Indices: 23828043--23828187 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
23828033 TACTCAAATG
*
23828043 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
23828084 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
23828124 ATATTCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
23828164 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
23828188 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:23832349 original size:22 final size:23
Alignment explanation
Indices: 23832300--23832419 Score: 93
Period size: 22 Copynumber: 5.3 Consensus size: 23
23832290 TGATGAACGG
*
23832300 TAAGCTCTATTAAGCTAAACCGA
1 TAAGCTCTATTGAGCTAAACCGA
* *
23832323 TAAGCTCTATTGAGCTGAA-TGA
1 TAAGCTCTATTGAGCTAAACCGA
* *
23832345 TAAGCTCTATCGAGCTAAACAG-
1 TAAGCTCTATTGAGCTAAACCGA
* * *
23832367 TAAGCTC-ATTCAAGCTAAAACGG
1 TAAGCTCTATT-GAGCTAAACCGA
* * * *
23832390 TAAGCTCCAATGAGCTGAAAACAA
1 TAAGCTCTATTGAGCT-AAACCGA
23832414 TAAGCT
1 TAAGCT
23832420 ATTATGAGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.03
22 34 0.44
23 29 0.37
24 13 0.17
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (23 bp):
TAAGCTCTATTGAGCTAAACCGA
Found at i:23832394 original size:45 final size:45
Alignment explanation
Indices: 23832295--23832396 Score: 109
Period size: 45 Copynumber: 2.3 Consensus size: 45
23832285 TAAGCTGATG
* * * *
23832295 AACGGTAAGCTCTATTAAGCTAAACCGATAAGCTCTATTGAGCTG
1 AACGGTAAGCTCTATCAAGCTAAACAGATAAGCTCTATTAAGCTA
* * *
23832340 AATGATAAGCTCTATCGAGCTAAACAG-TAAGCTC-ATTCAAGCTAA
1 AACGGTAAGCTCTATCAAGCTAAACAGATAAGCTCTATT-AAGCT-A
23832385 AACGGTAAGCTC
1 AACGGTAAGCTC
23832397 CAATGAGCTG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
43 3 0.07
44 11 0.24
45 32 0.70
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (45 bp):
AACGGTAAGCTCTATCAAGCTAAACAGATAAGCTCTATTAAGCTA
Found at i:23835507 original size:40 final size:40
Alignment explanation
Indices: 23835461--23835605 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
23835451 CTCGCACAAG
* * * * *
23835461 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
23835501 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
23835541 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
23835582 GCCTTCGGGACTTAGCCCGAATAT
1 GCCTTCGGGACTTAGCCCGGATAT
23835606 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:23855698 original size:54 final size:54
Alignment explanation
Indices: 23855640--23855753 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
23855630 TTTAACACCC
23855640 TAGGGGCAAAATT-GTAATTT-TACCCCACAAGGGTCTCTCGGTAATTCTACCCTA
1 TAGGGG-AAAATTAGT-ATTTCTACCCCACAAGGGTCTCTCGGTAATTCTACCCTA
* ** * * * *
23855694 TAGGGGTATTTTAGTATTTCTACCCTACAAGGGTTTTTCGGTAATTCTATCCTA
1 TAGGGGAAAATTAGTATTTCTACCCCACAAGGGTCTCTCGGTAATTCTACCCTA
*
23855748 CAGGGG
1 TAGGGG
23855754 TATTTCGGTC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 7 0.14
54 43 0.86
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (54 bp):
TAGGGGAAAATTAGTATTTCTACCCCACAAGGGTCTCTCGGTAATTCTACCCTA
Found at i:23855700 original size:27 final size:27
Alignment explanation
Indices: 23855653--23855851 Score: 191
Period size: 27 Copynumber: 7.4 Consensus size: 27
23855643 GGGCAAAATT
* * * * *
23855653 GTAATTTTACCCCACAAGGGTCTCTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* **
23855680 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
23855707 GTATTTCTACCCTACAAGGGTTTTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
23855734 GTAATTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* ** * **
23855761 GTCATTCTATACTACAGGAGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
23855788 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * * *
23855815 ATAATTATACCTTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
23855842 GTAATTCTAC
1 GTAATTCTAC
23855852 AACTTATCCA
Statistics
Matches: 137, Mismatches: 35, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:23855796 original size:81 final size:81
Alignment explanation
Indices: 23855677--23855850 Score: 224
Period size: 81 Copynumber: 2.1 Consensus size: 81
23855667 CAAGGGTCTC
** * * * * * * *
23855677 TCGGTAATTCTACCCTATAGGGGTATTTTAGTATTTCTACCCTACAAGGGTTTTTCGGTAATTCT
1 TCGGTAATTCTATACTACAGGAGTATTTTAATAATTCTACCCTACAAGGGTATTTCGATAATTAT
23855742 ATCC-TACAGGGGTATT
66 A-CCTTACAGGGGTATT
* *
23855758 TCGGTCATTCTATACTACAGGAGTATTTTAATAATTCTACCCTACAGGGGTATTTCGATAATTAT
1 TCGGTAATTCTATACTACAGGAGTATTTTAATAATTCTACCCTACAAGGGTATTTCGATAATTAT
23855823 ACCTTACAGGGGTATT
66 ACCTTACAGGGGTATT
*
23855839 TTGGTAATTCTA
1 TCGGTAATTCTA
23855851 CAACTTATCC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 2 0.03
81 77 0.97
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (81 bp):
TCGGTAATTCTATACTACAGGAGTATTTTAATAATTCTACCCTACAAGGGTATTTCGATAATTAT
ACCTTACAGGGGTATT
Found at i:23859735 original size:49 final size:49
Alignment explanation
Indices: 23859671--23859896 Score: 285
Period size: 49 Copynumber: 4.5 Consensus size: 49
23859661 CTGGTACGTA
* *
23859671 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
* ** *
23859720 TAGTAGCCTGCACTTAGTACTACACA-CCTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGC-GACC-AATTATCTGGTACACG
* * * * *
23859770 TAGTAGCGTGTCACTTAGTACTACACATGTGATCGAAGTTAT-TAGGTACGCA
1 TAGTAGCCTG-CACTTAGTACTACACATGCGA-CCAA-TTATCT-GGTACACG
23859822 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
23859871 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
23859897 CGTGACCTCA
Statistics
Matches: 149, Mismatches: 20, Indels: 16
0.81 0.11 0.09
Matches are distributed among these distances:
48 1 0.01
49 66 0.44
50 24 0.16
51 41 0.28
52 17 0.11
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
Done.