Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 343 of 444
Found at i:99311357 original size:47 final size:47
Alignment explanation
Indices: 99311288--99311381 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
99311278 GAATCCCAAA
99311288 CCCAATGCAGTATGTCATGTCATAATATTTTATGTATGCAAGGTTTC
1 CCCAATGCAGTATGTCATGTCATAATATTTTATGTATGCAAGGTTTC
*
99311335 CCCAATGCAGTATGTCATGTCATAATATTTTTTGTATGCAAGGTTTC
1 CCCAATGCAGTATGTCATGTCATAATATTTTATGTATGCAAGGTTTC
99311382 ATACTCAGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (47 bp):
CCCAATGCAGTATGTCATGTCATAATATTTTATGTATGCAAGGTTTC
Found at i:99322024 original size:49 final size:49
Alignment explanation
Indices: 99321947--99322192 Score: 303
Period size: 49 Copynumber: 5.0 Consensus size: 49
99321937 GTAGCCAAAG
* * *
99321947 TTATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
99321996 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** * * *
99322046 CCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
99322096 GTTATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACTAA
1 -TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
99322146 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
99322193 TCACAATAGA
Statistics
Matches: 168, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 82 0.49
50 48 0.29
51 38 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:99322189 original size:100 final size:99
Alignment explanation
Indices: 99321947--99322192 Score: 323
Period size: 100 Copynumber: 2.5 Consensus size: 99
99321937 GTAGCCAAAG
* * * * * *
99321947 TTATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTGGTACACGTA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATA
* *
99322012 GTAGCCTGCACTTAGTACTACACACGTGACCTAA
66 GTAGCCTACACTTAGTACTACACACGCGACCTAA
** * * *
99322046 CCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGGGTACACA
*
99322111 TAGTAGCCTACACTTAGTACTACACATGCGA-CTAA
64 TAGTAGCCTACACTTAGTACTACACACGCGACCTAA
* *
99322146 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
99322193 TCACAATAGA
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 39 0.31
100 47 0.38
101 39 0.31
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATA
GTAGCCTACACTTAGTACTACACACGCGACCTAA
Found at i:99344831 original size:23 final size:23
Alignment explanation
Indices: 99344805--99344886 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
99344795 ATCGTAGCGT
* *
99344805 AGCTGCTAATAATAACGCAGCAA
1 AGCTGCTAATAGTAACACAGCAA
* *
99344828 AGCTGCTAATAGTAACATAGAAA
1 AGCTGCTAATAGTAACACAGCAA
* *
99344851 AGTTGCTAATAGTAATACAGCAA
1 AGCTGCTAATAGTAACACAGCAA
99344874 AGCTGCTAATAGT
1 AGCTGCTAATAGT
99344887 GGTAAACGTG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (23 bp):
AGCTGCTAATAGTAACACAGCAA
Found at i:99350189 original size:40 final size:40
Alignment explanation
Indices: 99350111--99350294 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
99350101 TCGAATGATG
*
99350111 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * *
99350151 TCCGGACTAAGAT-CCGGAGGCATTTGTGCAAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
* *
99350191 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* *
99350229 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
* *
99350270 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
99350295 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 24 0.19
39 18 0.15
40 72 0.58
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:99350251 original size:78 final size:80
Alignment explanation
Indices: 99350111--99350292 Score: 219
Period size: 78 Copynumber: 2.3 Consensus size: 80
99350101 TCGAATGATG
* *
99350111 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGGAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
99350176 GTGCAAGTTACTA-A
66 GTGCAAGTTACTATA
* * * **
99350190 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
*
99350252 TTGTGCGAGTTACTATA
64 TTGTGCAAGTTACTATA
* * *
99350269 ACCAGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
99350293 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.01
78 48 0.55
79 28 0.32
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCAAGTTACTATA
Found at i:99354806 original size:175 final size:174
Alignment explanation
Indices: 99354501--99354857 Score: 624
Period size: 175 Copynumber: 2.0 Consensus size: 174
99354491 AACTAAGGAC
* *
99354501 CATTTTGCATAAGTTGTAAAATAGTTGATAAATGTGTGAAATAATGAGAATTTTGGGTGCTCCTA
1 CATTTTGCATAAGTTGTAAAATAATTGATAAATGTGTGAAATAATGAGAATTTTGGGTGATCCTA
* * * *
99354566 GTATAAAATGTATTCAGCTAGGCTTGATTAATGAGAAAATGTGATGAAAATCAATTTTTGGGTCT
66 GTATAAAAAGTATTCAGATAGGCTTGATTAATGAGAAAATGTGATAAAAATCAATTTTCGGGTCT
*
99354631 AGGGGTAAAATGATCATTTTGTGAAAGTTTAAGGGCAAAATGGT
131 AGGGGTAAAATGATCATTTTGTGAAAGTCTAAGGGCAAAATGGT
*
99354675 CATTTTGCATAAGTTGTAAAATAATTGATAAATGTGTGAAATAATGAGAATTTTGGGCTGATCTT
1 CATTTTGCATAAGTTGTAAAATAATTGATAAATGTGTGAAATAATGAGAATTTTGGG-TGATCCT
*
99354740 AGTATAAAAAGTATTCGGATAGGCTTGATTAATGAGAAAATGTGATAAAAATCAATTTTCGGGTC
65 AGTATAAAAAGTATTCAGATAGGCTTGATTAATGAGAAAATGTGATAAAAATCAATTTTCGGGTC
99354805 TAGGGGTAAAATGATCATTTTGTGAAAGTCTAAGGGCAAAATGGT
130 TAGGGGTAAAATGATCATTTTGTGAAAGTCTAAGGGCAAAATGGT
99354850 CATTTTGC
1 CATTTTGC
99354858 CCAATTATGA
Statistics
Matches: 173, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
174 56 0.32
175 117 0.68
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (174 bp):
CATTTTGCATAAGTTGTAAAATAATTGATAAATGTGTGAAATAATGAGAATTTTGGGTGATCCTA
GTATAAAAAGTATTCAGATAGGCTTGATTAATGAGAAAATGTGATAAAAATCAATTTTCGGGTCT
AGGGGTAAAATGATCATTTTGTGAAAGTCTAAGGGCAAAATGGT
Found at i:99358341 original size:35 final size:34
Alignment explanation
Indices: 99358291--99358374 Score: 127
Period size: 35 Copynumber: 2.5 Consensus size: 34
99358281 TCACATCAAT
*
99358291 TTGGGCC-TAAGCCCATTAAAATAACAGTTGCAC
1 TTGGGCCTTAAGCCCATTAAAATAACAGTGGCAC
*
99358324 TTGGGCCTATAAGCCCATTACAATAACAGTGGCAC
1 TTGGGCCT-TAAGCCCATTAAAATAACAGTGGCAC
99358359 TTGGGCCTT-AGCCCAT
1 TTGGGCCTTAAGCCCAT
99358375 AATAGCCTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
33 14 0.30
34 1 0.02
35 32 0.68
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (34 bp):
TTGGGCCTTAAGCCCATTAAAATAACAGTGGCAC
Found at i:99364008 original size:46 final size:44
Alignment explanation
Indices: 99363934--99364207 Score: 149
Period size: 46 Copynumber: 5.8 Consensus size: 44
99363924 GGGTTATTTG
* * *
99363934 TGTGCTAGTGTAAGACATGTTTGGGACATGCATCGGC-ATCGAGA
1 TGTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCTA-CAAGA
*
99363978 TGTAAGTTAGTGTAAGACATGTCTGAGACATGCATCGGCTACAAGA
1 TGT--GTTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
* * **
99364024 TGTGTCAATGTAAGACCATGTCTGGGACATGGCATCAAC-ACGTATAGA
1 TGTGTTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC--A-AGA
* * * ** *
99364072 GGTGTCAATGTAAGACCATGTCTGGGACATGGCATCGG-TATGGATA
1 TGTGTTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGA
* * **
99364118 TGTGAGAACTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGA
1 TGT--G--TTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACA-AGA
* ** *
99364169 TGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGC
1 TGTGTTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
99364208 ATTATACCCT
Statistics
Matches: 187, Mismatches: 27, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
44 13 0.07
45 15 0.08
46 48 0.26
47 34 0.18
48 40 0.21
49 1 0.01
50 31 0.17
51 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (44 bp):
TGTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
Found at i:99364155 original size:50 final size:48
Alignment explanation
Indices: 99363986--99364206 Score: 197
Period size: 48 Copynumber: 4.7 Consensus size: 48
99363976 GATGTAAGTT
* ** * *
99363986 AGTGTAAGA-CATGTCTGAGACAT-GCATCGG-CTACA-AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTGGATAGATGAGCC
* * * * * * *
99364030 AATGTAAGACCATGTCTGGGACATGGCATC-AACACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGAC-TGGATAGATGAGCC
* *
99364078 AATGTAAGACCATGTCTGGGACATGGCATCGGTA-TGGATATG-TGAGAACT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-ACTGGATA-GATGAG--CC
*
99364128 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATAGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTGGATAGATGAGCC
*
99364175 AGTGTAAGACCATGTCTGGGATATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
99364207 CATTATACCC
Statistics
Matches: 146, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
44 8 0.05
45 13 0.09
46 6 0.04
47 31 0.21
48 47 0.32
49 11 0.08
50 30 0.21
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGACTGGATAGATGAGCC
Found at i:99369244 original size:40 final size:40
Alignment explanation
Indices: 99369098--99369233 Score: 195
Period size: 40 Copynumber: 3.4 Consensus size: 40
99369088 TTCTAACACG
* * * * *
99369098 AGCCTACGGGTCTTT-AA-CCAGGATTCCATTCCAGCACAA
1 AGCCTGCGGGTCTTTAAACCCA-GATACAATTCCAGCATAT
*
99369137 AGCCTGCGGGTCTTTAAACCCAGATACAATTCTAGCATAT
1 AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
99369177 AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
99369217 AGCCTGCGGGTCTTTAA
1 AGCCTGCGGGTCTTTAA
99369234 GCTCAAATAC
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.16
40 71 0.81
41 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
Found at i:99376878 original size:40 final size:40
Alignment explanation
Indices: 99376834--99376981 Score: 217
Period size: 40 Copynumber: 3.7 Consensus size: 40
99376824 TTCAGCACGA
* *
99376834 AGCCTGCGAGTATTTAAACCCGGATACAATTCTAGCATAT
1 AGCCTGCGAGTCTTTAAACCCGGATACAATTCCAGCATAT
99376874 AGCCTGCGAGTCTTTAAACCCGGATACAATTCCAGCATAT
1 AGCCTGCGAGTCTTTAAACCCGGATACAATTCCAGCATAT
* *
99376914 AGCCTGTGGGT-TTGTAAACCCGGATACAATTCCAGCATAT
1 AGCCTGCGAGTCTT-TAAACCCGGATACAATTCCAGCATAT
* * *
99376954 AGCCTACGGGTCTTTAAGCCCGGATACA
1 AGCCTGCGAGTCTTTAAACCCGGATACA
99376982 CATATCAAAT
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.02
40 95 0.96
41 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
AGCCTGCGAGTCTTTAAACCCGGATACAATTCCAGCATAT
Found at i:99384380 original size:46 final size:46
Alignment explanation
Indices: 99384312--99384406 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
99384302 TATGAATGAG
* *
99384312 ATAGATTTTAGCAAAATTAACACCATAAGCAACAATTATAACATAA
1 ATAGATTTTAGCAAAATCAACACAATAAGCAACAATTATAACATAA
*
99384358 ATAGATTTTAGCAGAATCAACACAATAAGCAACAATTATAACATAA
1 ATAGATTTTAGCAAAATCAACACAATAAGCAACAATTATAACATAA
99384404 ATA
1 ATA
99384407 AGCTAGGACA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (46 bp):
ATAGATTTTAGCAAAATCAACACAATAAGCAACAATTATAACATAA
Found at i:99386526 original size:17 final size:19
Alignment explanation
Indices: 99386491--99386527 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
99386481 TTTAATTAGC
99386491 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
99386510 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
99386527 A
1 A
99386528 CTGTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:99388850 original size:9 final size:9
Alignment explanation
Indices: 99388838--99388894 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
99388828 TTTGATAAAC
99388838 ATGATATGT
1 ATGATATGT
*
99388847 ATGATATGCAC
1 ATGATATG--T
*
99388858 ATGACATGT
1 ATGATATGT
*
99388867 ATGATATGCAC
1 ATGATATG--T
99388878 ATGATATGT
1 ATGATATGT
99388887 ATGATATG
1 ATGATATG
99388895 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:99388861 original size:20 final size:20
Alignment explanation
Indices: 99388836--99388906 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
99388826 GTTTTGATAA
99388836 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
99388856 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
99388876 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
99388896 ACATGAGATGT
1 ACATGATATGT
99388907 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:99388883 original size:11 final size:11
Alignment explanation
Indices: 99388847--99388901 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
99388837 CATGATATGT
99388847 ATGATATGCAC
1 ATGATATGCAC
* *
99388858 ATGACATG--T
1 ATGATATGCAC
99388867 ATGATATGCAC
1 ATGATATGCAC
*
99388878 ATGATATG--T
1 ATGATATGCAC
99388887 ATGATATGCAC
1 ATGATATGCAC
99388898 ATGA
1 ATGA
99388902 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:99389008 original size:24 final size:24
Alignment explanation
Indices: 99388951--99389141 Score: 255
Period size: 24 Copynumber: 8.0 Consensus size: 24
99388941 GGAGGAAGTG
99388951 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
99388975 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
99388998 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
99389022 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * *
99389046 -TAAAGGGCTTATGCCCTAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTAT
99389069 CAAAAGGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
*
99389092 CAAAAAGGGCTTTTGCCCCAGTTACT
1 C-AAAAGGGCTTATGCCCCAGTTA-T
* * *
99389118 AAAAAAGGC-TAGGCCTCCAGTTAT
1 CAAAAGGGCTTATGCC-CCAGTTAT
99389142 ATGATAAAGC
Statistics
Matches: 148, Mismatches: 13, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
23 43 0.29
24 91 0.61
25 14 0.09
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:99389020 original size:47 final size:48
Alignment explanation
Indices: 99388951--99389141 Score: 255
Period size: 47 Copynumber: 4.0 Consensus size: 48
99388941 GGAGGAAGTG
*
99388951 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
99388998 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * *
99389046 -TAAAGGGCTTATGCCCTAGTGATCAAAAGGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * * *
99389092 CAAAAAGGGCTTTTGCCCCAGTTACTAAAAAAGGC-TAGGCCTCCAGTTAT
1 C-AAAAGGGCTTATGCCCCAGTTA-TCAAAAGGGCTTATGCC-CCAGTTAT
99389142 ATGATAAAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
47 67 0.53
48 45 0.35
49 15 0.12
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:99389071 original size:71 final size:70
Alignment explanation
Indices: 99388951--99389120 Score: 286
Period size: 71 Copynumber: 2.4 Consensus size: 70
99388941 GGAGGAAGTG
*
99388951 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTATGCCCC
99389016 AGTTA
66 AGTTA
*
99389021 TCAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTGATCAAAAGGGCTTATGCCC
1 -CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTATGCCC
99389086 CAGTTA
65 CAGTTA
* *
99389092 CAAAAAGGGCTTTTGCCCCAGTTACTAAA
1 C-AAAAGGGCTTATGCCCCAGTTATTAAA
99389121 AAAGGCTAGG
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
70 1 0.01
71 93 0.99
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (70 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTATGCCCC
AGTTA
Found at i:99389370 original size:31 final size:31
Alignment explanation
Indices: 99389335--99389398 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
99389325 CGTTTACAGT
99389335 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
99389366 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
99389397 AA
1 AA
99389399 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:99392812 original size:57 final size:57
Alignment explanation
Indices: 99392733--99392846 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
99392723 TGAGTTAGTC
99392733 CCTGGTTCGGCACACATCTTGATTGCTCCATACAGGATGGCTCCTACGGAGTTAAAG
1 CCTGGTTCGGCACACATCTTGATTGCTCCATACAGGATGGCTCCTACGGAGTTAAAG
*
99392790 CCTGGTTCGGCACCCATCTTGATTGCTCCATACAGGATGGCTCCTACGGAGTTAAAG
1 CCTGGTTCGGCACACATCTTGATTGCTCCATACAGGATGGCTCCTACGGAGTTAAAG
99392847 GAGTTGAAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (57 bp):
CCTGGTTCGGCACACATCTTGATTGCTCCATACAGGATGGCTCCTACGGAGTTAAAG
Found at i:99400791 original size:17 final size:17
Alignment explanation
Indices: 99400769--99400815 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
99400759 TTGTCACATA
99400769 AATTAAATTAATTATAG
1 AATTAAATTAATTATAG
99400786 AATTAAATTAATTATAG
1 AATTAAATTAATTATAG
*
99400803 AATTAATTTAATT
1 AATTAAATTAATT
99400816 GGGCAATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
AATTAAATTAATTATAG
Found at i:99401555 original size:50 final size:48
Alignment explanation
Indices: 99401436--99401606 Score: 159
Period size: 50 Copynumber: 3.5 Consensus size: 48
99401426 CATTCCAACA
* * * *
99401436 GTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTCAGT
1 GTAAGACCATGTCTGGGACATGGCGTCGGCACGGATAGAAGAGTCAGT
* *
99401484 GTAAGACTAGGTCTGGGACATGGCGTCGGCACGGATATGTAAGAG-CTAGT
1 GTAAGACCATGTCTGGGACATGGCGTCGGCACGGATA-G-AAGAGTC-AGT
* * * * *
99401534 GTAAGACCATGTCTGAGACATGGCGTTGGC-CTCGATTTCG-ATAGTCAGT
1 GTAAGACCATGTCTGGGACATGGCGTCGGCAC-GGA--TAGAAGAGTCAGT
*
99401583 GTAAGACCATGTCTAGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
99401607 ATTGGCATTA
Statistics
Matches: 101, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
48 33 0.33
49 31 0.31
50 35 0.35
51 1 0.01
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCGTCGGCACGGATAGAAGAGTCAGT
Found at i:99407749 original size:29 final size:28
Alignment explanation
Indices: 99407689--99407749 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
99407679 GCATACATGA
* *
99407689 ATATGGCCCACTAGGCCCAATCTCGTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
*
99407717 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCC-AATCACATTC
99407746 ATAT
1 ATAT
99407750 ACATGCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:99413823 original size:41 final size:41
Alignment explanation
Indices: 99413766--99413927 Score: 182
Period size: 41 Copynumber: 4.0 Consensus size: 41
99413756 TCAAGCTCTA
*
99413766 TGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGCTTAT
1 TGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGCTTAT
* ** *
99413807 TGCCTAGCAAGCTTTATGCCGACGTATTATTTCAGGCTTAT
1 TGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGCTTAT
* * * * *
99413848 TGCCTAGTAGGCTTTATGTCGGTTTATTATTTCAGGCCTAT
1 TGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGCTTAT
* * * *
99413889 TGTCTACCAGGCTCTGTGCCGGTGTATTATA-CTAGGCTT
1 TGCCTAGCAGGCTTTATGCCGGTGTATTATATC-AGGCTT
99413928 TATGCCTTGC
Statistics
Matches: 99, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 1 0.01
41 98 0.99
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (41 bp):
TGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGCTTAT
Found at i:99414328 original size:2 final size:2
Alignment explanation
Indices: 99414321--99414355 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
99414311 TGGAAATGTC
99414321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99414356 GAAATTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:99416652 original size:30 final size:30
Alignment explanation
Indices: 99416616--99416678 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
99416606 TACTTTAAAC
99416616 CTTCATAAAATAATAAAATAAA-ATTTTTGA
1 CTTCATAAAATAATAAAATAAATA-TTTTGA
99416646 CTTCATAAAATAATAAAATAAATATTTTGA
1 CTTCATAAAATAATAAAATAAATATTTTGA
99416676 CTT
1 CTT
99416679 TGGATTGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (30 bp):
CTTCATAAAATAATAAAATAAATATTTTGA
Found at i:99420089 original size:26 final size:26
Alignment explanation
Indices: 99420060--99420121 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
99420050 TCAAATATAA
*
99420060 TCATATATCTCATA-AGGGCATAACAG
1 TCAT-TATATCATACAGGGCATAACAG
* *
99420086 TCATTTTATCATACAGGGCATAATAG
1 TCATTATATCATACAGGGCATAACAG
*
99420112 TCATTTTATC
1 TCATTATATC
99420122 GATTCGGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 7 0.22
26 25 0.78
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (26 bp):
TCATTATATCATACAGGGCATAACAG
Found at i:99420097 original size:25 final size:26
Alignment explanation
Indices: 99420069--99420121 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
99420059 ATCATATATC
99420069 TCATA-AGGGCATAACAGTCATTTTA
1 TCATACAGGGCATAACAGTCATTTTA
*
99420094 TCATACAGGGCATAATAGTCATTTTA
1 TCATACAGGGCATAACAGTCATTTTA
99420120 TC
1 TC
99420122 GATTCGGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (26 bp):
TCATACAGGGCATAACAGTCATTTTA
Found at i:99424207 original size:29 final size:29
Alignment explanation
Indices: 99424014--99424206 Score: 305
Period size: 29 Copynumber: 6.7 Consensus size: 29
99424004 GCTTGGAAGG
* *
99424014 TATGGCAATAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
99424043 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
99424072 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
99424101 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
99424130 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
99424159 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
99424188 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
99424207 GATCGTTTAT
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 152 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:99430208 original size:48 final size:48
Alignment explanation
Indices: 99430155--99430250 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
99430145 CCTATCGATT
* * *
99430155 AGCTTTGCCACCAGAGGTGGAAAAGATTCATGACATGTTTCATGTATC
1 AGCTTTGCCACCAGAGCTGGAAAAGATTCACGACATGTTTCATATATC
*
99430203 AGCTTTGCCACCAGAGCTGGAAAAGATTCACGACGTGTTTCATATATC
1 AGCTTTGCCACCAGAGCTGGAAAAGATTCACGACATGTTTCATATATC
99430251 CATGCTACGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
AGCTTTGCCACCAGAGCTGGAAAAGATTCACGACATGTTTCATATATC
Found at i:99431787 original size:46 final size:44
Alignment explanation
Indices: 99431729--99431856 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 44
99431719 TCATTTGTGT
* *
99431729 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATATTATG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CAT-TGA-GAA
* * *
99431775 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATTGGCATTGAGAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGAA
99431821 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCG
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCATCG
99431857 ACTACGAGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 23 0.33
47 28 0.41
48 17 0.25
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAA
Found at i:99439290 original size:2 final size:2
Alignment explanation
Indices: 99439283--99439329 Score: 67
Period size: 2 Copynumber: 23.0 Consensus size: 2
99439273 TAAACAATAC
* *
99439283 TA TA TA TA TA AA TA TA CTA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
99439326 TA TA
1 TA TA
99439330 ATAGAAATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:99439698 original size:3 final size:3
Alignment explanation
Indices: 99439683--99439763 Score: 76
Period size: 3 Copynumber: 26.3 Consensus size: 3
99439673 GAGGGCATAT
* *
99439683 ATA ATA TATA ATA ATA ATA ATA ATA TATA CATG AGA ATA ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA
* *
99439731 AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
99439764 AACAAAGCTC
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
2 4 0.06
3 50 0.78
4 10 0.16
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:99440142 original size:23 final size:22
Alignment explanation
Indices: 99440065--99440173 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 22
99440055 AACTAGCCTT
* *
99440065 TCCAAGAAACAAAAACAACCTTCTT
1 TCCAAAAAACAAAAA-AACC-TC-C
*
99440090 TCCAAAAAAACAAAAAAA-CACC
1 TCC-AAAAAACAAAAAAACCTCC
99440112 TCCAAAAAAACAAAAAAAGCCTCC
1 TCC-AAAAAACAAAAAAA-CCTCC
99440136 TCC--AAAACAAAGAACAATCCTCC
1 TCCAAAAAACAAA-AA-AA-CCTCC
*
99440159 TCCAAAAAACCAAAA
1 TCCAAAAAACAAAAA
99440174 CCCACCCCCC
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
21 8 0.11
22 20 0.28
23 11 0.15
24 9 0.13
25 12 0.17
26 11 0.15
ACGTcount: A:0.57, C:0.29, G:0.03, T:0.11
Consensus pattern (22 bp):
TCCAAAAAACAAAAAAACCTCC
Found at i:99440713 original size:44 final size:44
Alignment explanation
Indices: 99440660--99441345 Score: 626
Period size: 44 Copynumber: 15.6 Consensus size: 44
99440650 ATCTTCGATC
*
99440660 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
99440704 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
* * *
99440748 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-
1 TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACT
* * * * * * * *
99440791 TGCTTCACTGTACA-CACAGGAATGTCAGATCTGTTATCTTT-GATT
1 TG-TTCCCTATA-AGCACAGGGATGCCAAATCTGATAT-TTTCAACT
* *
99440836 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCGACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
*
99440880 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
* * * *
99440924 TGTTCCCTATAAGCACAGGGATG-C-TATGCTGAAATCTTTGATC-
1 TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACT
* * * * * * * * *
99440967 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATT
1 TG-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
* *
99441012 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
* * *
99441056 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-
1 TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACT
* * * * * * * * *
99441099 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATT
1 TG-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
* *
99441144 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
* * *
99441188 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-
1 TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACT
* * * * * * * * *
99441231 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATT
1 TG-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
* *
99441276 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACT
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
99441320 TGTTCCCTATAAGCACAGGGATGCCA
1 TGTTCCCTATAAGCACAGGGATGCCA
99441346 TGCTGAAATC
Statistics
Matches: 518, Mismatches: 97, Indels: 54
0.77 0.14 0.08
Matches are distributed among these distances:
42 8 0.02
43 32 0.06
44 436 0.84
45 34 0.07
46 8 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
TGTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT
Found at i:99440899 original size:176 final size:176
Alignment explanation
Indices: 99440606--99441301 Score: 856
Period size: 176 Copynumber: 4.0 Consensus size: 176
99440596 GATATTCGCT
*
99440606 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGAT-T-TCTATCTTCGATCTGTTCCCTA
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGT-TATCTTCGATTTGTTCCCTA
99440669 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATC
65 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATC
99440734 TGATATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
130 TGATATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
*
99440781 ATCTTTGATCTGCTTCACTGTACA-CACAGGAATGTCAGATCTGTTATCTTTGATTTGTTCCCTA
1 ATCTTTGATCTGCTTCACTGTA-AGCACAGGAATGTCAGATCTGTTATCTTCGATTTGTTCCCTA
*
99440845 TAAGCACAGGGATGCCAAATCTGATGTTTTCGACTTGTTCCCTATAAGCACAGGGATGCCAAATC
65 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATC
* *
99440910 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCTATGCTGAA
130 TGATATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
*
99440957 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATTTGTTCCCTAT
*
99441022 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGC
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAAT-C
* * * * * * * **
99441085 TGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTCA-GATCTGCT
130 TGATAT-TTTCAACTTG-TTCCCTATAAGCACAGGGATGCCATG--CTGAA
* * * * * * * * * * * *
99441134 ATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATTTGTTCCCTAT
** * * * * * * *
99441198 AAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTCAGA
66 AAGCACAGGGATGCCAAAT-CTGATGT-TTTCAACTTG-TTCCCTATAAGCACAGGGATGCCAAA
* * * *
99441260 TCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCA
128 TCTGATATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
99441302 AATCTGCTGT
Statistics
Matches: 455, Mismatches: 51, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
174 4 0.01
175 53 0.12
176 375 0.82
177 21 0.05
178 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (176 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCT
GATATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
Found at i:99440941 original size:132 final size:132
Alignment explanation
Indices: 99440826--99441404 Score: 1043
Period size: 132 Copynumber: 4.4 Consensus size: 132
99440816 CAGATCTGTT
* * * * * * * * * *
99440826 ATCTTTGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCGACTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
99440890 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCTATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
99440955 AA
131 AA
99440957 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
99441022 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
99441087 AA
131 AA
99441089 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
99441154 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
99441219 AA
131 AA
99441221 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
99441286 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
99441351 AA
131 AA
99441353 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
99441405 GTCTGCTCCT
Statistics
Matches: 435, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
131 11 0.03
132 424 0.97
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (132 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AA
Found at i:99441377 original size:44 final size:43
Alignment explanation
Indices: 99440605--99441382 Score: 491
Period size: 44 Copynumber: 17.7 Consensus size: 43
99440595 CGATATTCGC
* * * * * **
99440605 TATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATTTC
1 TATCTTTGATCTG-TTCCCTATAAGCACAGGGATGCCATG-CTGA
*
99440649 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGA
1 TATCTTTGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
* * *
99440693 TGT-TTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGA
1 TATCTTTGATC-TGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
* *
99440737 TAT-TTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
1 TATCTTTGATC-TGTTCCCTATAAGCACAGGGATGCCATGCTGA
* * * * * *
99440780 AATCTTTGATCTGCTTCACTGTACA-CACAGGAATGTCA-GATCTGT
1 TATCTTTGATCTG-TTCCCTATA-AGCACAGGGATGCCATG--CTGA
*
99440825 TATCTTTGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGA
1 TATCTTTGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
*
99440869 TGT-TTTCGA-CTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGA
1 TATCTTT-GATC-TGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
* * * *
99440913 TGT-TTTCAACTTGTTCCCTATAAGCACAGGGATGCTATGCTGA
1 TATCTTTGATC-TGTTCCCTATAAGCACAGGGATGCCATGCTGA
* * * * * *
99440956 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATCTGC
1 TATCTTTGATCTG-TTCCCTATAAGCACAGGGATGCCATG--CTGA
* * *
99441001 TATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGC
1 TATCTTTGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
* * *
99441045 TGT-TTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
1 TATCTTTGATC-TGTTCCCTATAAGCACAGGGATGCCATGCTGA
* * * * * *
99441088 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATCTGC
1 TATCTTTGATCTG-TTCCCTATAAGCACAGGGATGCCATG--CTGA
* * *
99441133 TATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGC
1 TATCTTTGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
* * *
99441177 TGT-TTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
1 TATCTTTGATC-TGTTCCCTATAAGCACAGGGATGCCATGCTGA
* * * * * *
99441220 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCA-GATCTGC
1 TATCTTTGATCTG-TTCCCTATAAGCACAGGGATGCCATG--CTGA
* * *
99441265 TATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGC
1 TATCTTTGATCTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA
* * *
99441309 TGT-TTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
1 TATCTTTGATC-TGTTCCCTATAAGCACAGGGATGCCATGCTGA
* * *
99441352 AATCTTTGATCTGCTTCACTGTAAGCACAGG
1 TATCTTTGATCTG-TTCCCTATAAGCACAGG
99441383 AATGTCAGAT
Statistics
Matches: 582, Mismatches: 105, Indels: 94
0.75 0.13 0.12
Matches are distributed among these distances:
42 10 0.02
43 74 0.13
44 439 0.75
45 55 0.09
46 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (43 bp):
TATCTTTGATCTGTTCCCTATAAGCACAGGGATGCCATGCTGA
Found at i:99441537 original size:68 final size:68
Alignment explanation
Indices: 99441457--99441655 Score: 276
Period size: 68 Copynumber: 2.9 Consensus size: 68
99441447 TCTTCTTCCA
* * * *
99441457 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
99441522 -TT
66 CCT
* * * *
99441524 GTTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCTAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
99441589 TCCT
65 TCCT
* *
99441593 CTGAAACTTCAAAGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
99441656 AATTTGTAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
67 6 0.05
68 108 0.94
69 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:99441923 original size:130 final size:130
Alignment explanation
Indices: 99441759--99442598 Score: 1060
Period size: 130 Copynumber: 6.5 Consensus size: 130
99441749 TAAATTCAAC
* * *
99441759 CTGTTACCCTACTGGTTA-GGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * **
99441823 GTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCCCATCAT-TTTTA
66 GGTTAAGGTCTGTAAATTCGGCTTGTTACCCTACTGCTT-AGGGGTTAAAGCCCATCATCTTCGA
99441887 T
130 T
*
99441888 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
99441953 GGTTTAAGG-CTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTT
66 GG-TTAAGGTC-TGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTC
99442017 GAT
128 GAT
* *
99442020 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTGCCCTACTACTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
99442085 GGTTAAGG-CTTGTAAATT-TGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCG
66 GGTTAAGGTC-TGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCG
99442148 AT
129 AT
* * *
99442150 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * *
99442212 GGAGATAAGATCTG-CAATTCGG-TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTT
65 GG-GTTAAGGTCTGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-CCCATCATCTT
99442275 CGAT
127 CGAT
99442279 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
99442343 GGTTAAGG-CT-TAAATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGAT
66 GGTTAAGGTCTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGAT
* * *
99442406 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * *
99442468 GGAGATAAGATCTG-CAATTCGG-TCTGTTACCCTAC-GATTAGGGGTT-AAGACCCTTCATCTT
65 GG-GTTAAGGTCTGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-CCCATCATCTT
99442529 CGAT
127 CGAT
* * * *
99442533 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTG-CAA--TTCAGTCTGTTACCCTACCGATTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
99442595 GGTT
66 GGTT
99442599 TAAGACCCTT
Statistics
Matches: 632, Mismatches: 53, Indels: 56
0.85 0.07 0.08
Matches are distributed among these distances:
125 3 0.00
126 51 0.08
127 96 0.15
128 117 0.19
129 77 0.12
130 149 0.24
131 70 0.11
132 69 0.11
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (130 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGTTAAGGTCTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGAT
Found at i:99442442 original size:43 final size:43
Alignment explanation
Indices: 99441673--99442690 Score: 633
Period size: 44 Copynumber: 23.7 Consensus size: 43
99441663 AATTTCCAGC
* * ** *
99441673 CTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAA-GATCTTCATCTTCGAT
* * * * * * *
99441717 CTATTTCCCAACTGCTTA-AGGGTTAAGAT-TT-ATAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCAT--CTTCGAT
* * * *
99441759 CTGTTACCCTACTGGTTA-GGGGTTAAGATTTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * ** *
99441803 CTGTTACCCTACTGCTTA-GGGTTTAAGGT-TTGTAAATTCG-G
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGAT
* ** * **
99441844 CTTGTTACCCTACTGCTTAAGGGGTTAAAGCCCATCAT-TTTTAT
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
* * *
99441888 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * * ** *
99441933 CAGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTCG-G
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGAT
** * *
99441975 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGAT
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
* * *
99442020 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * * ** * *
99442065 CTGTTGCCCTACTACTTA-GGGGTTAAG-GCTTGTAAATTTGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGAT
*
99442107 -TGTTACCCTACTGCTTAGGGGGTTAA-AGCCTATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCT-TCATCTTCGAT
*
99442150 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * * *
99442193 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATTCGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * *
99442235 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTTCATCTTCGAT
* * *
99442279 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * *
99442323 CTGTTACCCTACTGCTTA-GGGGTTAAG-GCTTAAAT-TTGGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGAT
** *
99442364 -TGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
*
99442406 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * * *
99442449 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATTCGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* *
99442491 CTGTTACCCTAC-GATTA-GGGGTTAAGACCCTTCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTTCATCTTCGAT
* * *
99442533 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGCA-ATTC-AGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGA-T
* * * * *
99442575 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTTCATCTTCGAT
* * *
99442619 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* *
99442663 CTGTTACCCTATTGCTTAGGGGCTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
99442691 GCTTGTGAAT
Statistics
Matches: 756, Mismatches: 163, Indels: 109
0.74 0.16 0.11
Matches are distributed among these distances:
40 33 0.04
41 33 0.04
42 172 0.23
43 223 0.29
44 231 0.31
45 62 0.08
46 2 0.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
Found at i:99442631 original size:256 final size:252
Alignment explanation
Indices: 99441759--99442644 Score: 1101
Period size: 256 Copynumber: 3.4 Consensus size: 252
99441749 TAAATTCAAC
* * * * *
99441759 CTGTTACCCTACTGGTTA-GGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA-CTTCAGCCTGTTACCCTACCGATTAGG
* * **
99441823 GTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCCCATCAT-TTTTA
65 GGTTAAGGCTTGT---TTC-GCTTGTTACCCTACTGCTT-AGGGGTTAAAGCCCATCATCTTCGA
* * * *
99441887 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCAGTTACCCTACTGCTTA
125 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTGTTTCCCTACTGCTTA
* * * * *
99441951 GGG-GTTTAAG-GCTTGTAAATTCGG-CTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCATCA
187 GGGAG-ATAAGATC-TG-CAATTCGGTC-TGTTACCCTAC-GATTA-GGGGTTAAGA-CCCTTCA
*
99442012 TCTTTGAT
245 TCTTCGAT
* *
99442020 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTGCCCTA-CTACTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA-CTTCAGCCTGTTACCCTACCGA-TTAG
* *
99442084 GGGTTAAGGCTTGTAAATTTGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCGA
64 GGGTTAAGGCTTGT---TTCGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCGA
99442149 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
125 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
*
99442214 AGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
190 AGATAAGATCTGCAATTCGGTCTGTTACCCTA-CGATTAGGGG-TTAAGACCCTTCATCTTCGAT
* *
99442279 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA-CTTCAGCCTGTTACCCTACCGATTAGG
* *
99442343 GGTTAAGGCTTAAATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGATCT
65 GGTTAAGGCTT--GTTTCGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGATCT
99442408 GTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
128 GTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGA
99442473 TAAGATCTGCAATTCGGTCTGTTACCCTACGATTAGGGGTTAAGACCCTTCATCTTCGAT
193 TAAGATCTGCAATTCGGTCTGTTACCCTACGATTAGGGGTTAAGACCCTTCATCTTCGAT
* *
99442533 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTG-CAA-TTCAGTCTGTTACCCTACCGATTAGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAACTTCAGCCTGTTACCCTACCGATTAGGG
* * *
99442596 GTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGTTAA
66 G-TTAAG--GCTT-GT-TTCGCT-TGTTACCCTACTGCTTAGGGGTTAA
99442645 GATCTGTAAA
Statistics
Matches: 563, Mismatches: 42, Indels: 45
0.87 0.06 0.07
Matches are distributed among these distances:
252 25 0.04
253 5 0.01
254 41 0.07
255 31 0.06
256 144 0.26
257 22 0.04
258 56 0.10
259 55 0.10
260 36 0.06
261 56 0.10
262 92 0.16
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (252 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAACTTCAGCCTGTTACCCTACCGATTAGGG
GTTAAGGCTTGTTTCGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGATCTGTT
TCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAA
GATCTGCAATTCGGTCTGTTACCCTACGATTAGGGGTTAAGACCCTTCATCTTCGAT
Found at i:99442860 original size:66 final size:66
Alignment explanation
Indices: 99442754--99442880 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
99442744 TCTATGCTTA
*
99442754 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
99442819 G
66 G
*
99442820 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
99442881 TATATGAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:99444040 original size:5 final size:6
Alignment explanation
Indices: 99444014--99444072 Score: 61
Period size: 6 Copynumber: 10.0 Consensus size: 6
99444004 TTTTTTAGAA
* *
99444014 TTTTT- TTTGTG TTTTTG TTTTTG TTTTTGTG TTTTTG TTTTTG TGTTT-
1 TTTTTG TTTTTG TTTTTG TTTTTG -TTTT-TG TTTTTG TTTTTG TTTTTG
99444062 TTTTT- TTTTTG
1 TTTTTG TTTTTG
99444073 CCTTTGCCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 13 0.28
6 23 0.50
7 8 0.17
8 2 0.04
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:99444040 original size:20 final size:20
Alignment explanation
Indices: 99444017--99444062 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 20
99444007 TTTAGAATTT
99444017 TTTTTGTGTTTTTGTTTTTG
1 TTTTTGTGTTTTTGTTTTTG
99444037 TTTTTGTGTTTTTGTTTTTG
1 TTTTTGTGTTTTTGTTTTTG
99444057 TGTTTT
1 T-TTTT
99444063 TTTTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (20 bp):
TTTTTGTGTTTTTGTTTTTG
Found at i:99444068 original size:20 final size:21
Alignment explanation
Indices: 99444026--99444071 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
99444016 TTTTTTGTGT
99444026 TTTTGTTTT-TGTTTTTGTGTT
1 TTTT-TTTTGTGTTTTTGTGTT
99444047 TTTGTTTTTGTGTTTTT-T-TT
1 TTT-TTTTTGTGTTTTTGTGTT
99444067 TTTTT
1 TTTTT
99444072 GCCTTTGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.09
20 5 0.22
21 8 0.35
22 8 0.35
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (21 bp):
TTTTTTTTGTGTTTTTGTGTT
Found at i:99444069 original size:14 final size:14
Alignment explanation
Indices: 99444017--99444068 Score: 81
Period size: 14 Copynumber: 3.8 Consensus size: 14
99444007 TTTAGAATTT
99444017 TTTTTGTGTTTT-TG
1 TTTTTGT-TTTTGTG
99444031 TTTTTGTTTTTGTG
1 TTTTTGTTTTTGTG
99444045 TTTTTGTTTTTGTG
1 TTTTTGTTTTTGTG
99444059 TTTTT-TTTTT
1 TTTTTGTTTTT
99444069 TTTGCCTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
13 9 0.24
14 28 0.76
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTTTTGTTTTTGTG
Found at i:99448237 original size:19 final size:18
Alignment explanation
Indices: 99448213--99448293 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 18
99448203 GAGGGCATAT
99448213 ATAATATATAATAATATAA
1 ATAATATATAATAATA-AA
*
99448232 ATAATATAT-ATACATGAGA
1 ATAATATATAATA-AT-AAA
99448251 AT-A-ATATAATAATATAA
1 ATAATATATAATAATA-AA
*
99448268 ATAATAGTAAAAATAATAAA
1 ATAATA-T-ATAATAATAAA
99448288 ATAATA
1 ATAATA
99448294 AAACAAAGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
16 1 0.02
17 9 0.18
18 8 0.16
19 15 0.29
20 10 0.20
21 8 0.16
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (18 bp):
ATAATATATAATAATAAA
Found at i:99448286 original size:27 final size:27
Alignment explanation
Indices: 99448225--99448291 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
99448215 AATATATAAT
* *
99448225 AATATAAATAATATATATACATGAGAAT
1 AATAT-AATAATATAAATACATGAGAAA
*
99448253 AATATAATAATATAAATA-AT-AGTAA
1 AATATAATAATATAAATACATGAGAAA
*
99448278 AA-ATAATAAAATAA
1 AATATAATAATATAA
99448292 TAAAACAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 11 0.31
25 5 0.14
26 2 0.06
27 12 0.34
28 5 0.14
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (27 bp):
AATATAATAATATAAATACATGAGAAA
Found at i:99448666 original size:23 final size:22
Alignment explanation
Indices: 99448595--99448702 Score: 87
Period size: 21 Copynumber: 4.7 Consensus size: 22
99448585 AACTAGCCTT
* *
99448595 TCCAAGAAACAAAAACAACCTTCTT
1 TCCAAAAAACAAAAA-AACC-TC-C
*
99448620 TCCAAAAAAACAAAAAAA-CACC
1 TCC-AAAAAACAAAAAAACCTCC
99448642 TCCAAAAAACAAAAAAAGCCTCC
1 TCCAAAAAACAAAAAAA-CCTCC
99448665 TCC--AAAACAAAGAACAATCCTCC
1 TCCAAAAAACAAA-AA-AA-CCTCC
*
99448688 TCCAAAAAACCAAAA
1 TCCAAAAAACAAAAA
99448703 CCCACCCCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
21 22 0.31
22 5 0.07
23 17 0.24
24 3 0.04
25 12 0.17
26 11 0.16
ACGTcount: A:0.56, C:0.30, G:0.03, T:0.11
Consensus pattern (22 bp):
TCCAAAAAACAAAAAAACCTCC
Found at i:99450380 original size:24 final size:24
Alignment explanation
Indices: 99450335--99450380 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
99450325 TGATAATTTG
* *
99450335 ACTAAAAAAATCACAAATTTAAAA
1 ACTAAAAAAATCAAAAAATTAAAA
* *
99450359 ACTAAAAAAGTGAAAAAATTAA
1 ACTAAAAAAATCAAAAAATTAA
99450381 TGAGATACTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (24 bp):
ACTAAAAAAATCAAAAAATTAAAA
Found at i:99453316 original size:32 final size:32
Alignment explanation
Indices: 99453275--99453336 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
99453265 TAATATCATG
99453275 AAGCCAAAGCTTATAAACTTTACATACATATA
1 AAGCCAAAGCTTATAAACTTTACATACATATA
99453307 AAGCCAAAGCTTATAAACTTTACATACATA
1 AAGCCAAAGCTTATAAACTTTACATACATA
99453337 CTTGTACGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.27
Consensus pattern (32 bp):
AAGCCAAAGCTTATAAACTTTACATACATATA
Found at i:99454275 original size:22 final size:20
Alignment explanation
Indices: 99454249--99454289 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
99454239 TAATAAAATT
99454249 CATTTCTCTAACCATAAACATG
1 CATTT-TCT-ACCATAAACATG
99454271 CATTTTCTACCATTAAACA
1 CATTTTCTACCA-TAAACA
99454290 CAAAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (20 bp):
CATTTTCTACCATAAACATG
Found at i:99458430 original size:30 final size:30
Alignment explanation
Indices: 99458396--99458457 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
99458386 CCGATACCTC
99458396 ATTTTCCAAAATCACTTGAACCT-GGGTTTT
1 ATTTTCCAAAATCACTTGAA-CTAGGGTTTT
99458426 ATTTTCCAAAATCACTTGAACTAGGGTTTT
1 ATTTTCCAAAATCACTTGAACTAGGGTTTT
99458456 AT
1 AT
99458458 CACTCGAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (30 bp):
ATTTTCCAAAATCACTTGAACTAGGGTTTT
Found at i:99463043 original size:33 final size:32
Alignment explanation
Indices: 99463005--99463094 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 32
99462995 GCTTTATTTG
*
99463005 TTCTGTGTTTACTGTCCCAATAGACTATC--TA
1 TTCT-TGTTTACTGTCCCAATGGACTATCTATA
* * ** *
99463036 TTCTCTGTTTATTGTCCTAGCGGACTATCTCTA
1 TTCT-TGTTTACTGTCCCAATGGACTATCTATA
99463069 TTCTATGTTTACTGTCCCAATGGACT
1 TTCT-TGTTTACTGTCCCAATGGACT
99463095 TTCTCTATGA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
31 23 0.50
33 23 0.50
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.43
Consensus pattern (32 bp):
TTCTTGTTTACTGTCCCAATGGACTATCTATA
Found at i:99463100 original size:33 final size:32
Alignment explanation
Indices: 99463005--99463102 Score: 99
Period size: 33 Copynumber: 3.0 Consensus size: 32
99462995 GCTTTATTTG
* * *
99463005 TTCTGTGTTTACTGTCCCAATAGAC-TATCTA
1 TTCTATGTTTACTGTCCCAATGGACTTCTCTA
* * * **
99463036 TTCTCTGTTTATTGTCCTAGCGGACTATCTCTA
1 TTCTATGTTTACTGTCCCAATGGACT-TCTCTA
99463069 TTCTATGTTTACTGTCCCAATGGACTTTCTCTA
1 TTCTATGTTTACTGTCCCAATGGAC-TTCTCTA
99463102 T
1 T
99463103 GAATGTCATG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
31 19 0.37
33 32 0.62
34 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.45
Consensus pattern (32 bp):
TTCTATGTTTACTGTCCCAATGGACTTCTCTA
Found at i:99463397 original size:50 final size:51
Alignment explanation
Indices: 99463280--99463402 Score: 153
Period size: 51 Copynumber: 2.4 Consensus size: 51
99463270 TCGCCATGGC
* * ** *
99463280 ATCTTTCATCCATGGTATTACACTATGTACCTTATACCAGATTGCAATAGT
1 ATCTTTCATCTATGGTCTTATGCTATGTACCTTATACCAGACTGCAATAGT
*
99463331 ATCTTTCATCTATGGTCTTATGCTATTTACCTTATACCAGACTGTC-ATAG-
1 ATCTTTCATCTATGGTCTTATGCTATGTACCTTATACCAGACTG-CAATAGT
99463381 A-CTTTTCATCTATGGTCTTATG
1 ATC-TTTCATCTATGGTCTTATG
99463403 TCATATAATG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
49 1 0.02
50 20 0.31
51 42 0.66
52 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTTCATCTATGGTCTTATGCTATGTACCTTATACCAGACTGCAATAGT
Found at i:99468977 original size:55 final size:53
Alignment explanation
Indices: 99468889--99469123 Score: 241
Period size: 55 Copynumber: 4.4 Consensus size: 53
99468879 ATTAGGGTTT
*
99468889 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * *
99468944 AAGGATACCATGTAAGACCATGTCAAGAAATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* *
99468999 AAAGG-T-CCAATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * * *
99469052 AAGGATACCATGTAAGACCATGTCGAGACATGGTAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
*
99469101 AATGGATACCATGTAATACCATG
1 AA-GGATACCATGTAAGACCATG
99469124 AAAAGTCATT
Statistics
Matches: 153, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
49 2 0.01
50 19 0.12
52 7 0.05
53 38 0.25
54 15 0.10
55 68 0.44
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:99469095 original size:108 final size:110
Alignment explanation
Indices: 99468898--99469096 Score: 314
Period size: 108 Copynumber: 1.8 Consensus size: 110
99468888 TAAGGATACC
99468898 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACC
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACC
*
99468963 ATGTCAAGAAATGGCATTGATAAGTTACTATAAGGCAAAGGTCCA
66 ATGTCAAGAAATGGCAATGATAAGTTACTATAAGGCAAAGGTCCA
*
99469008 ATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGAC
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGAC
* * * *
99469070 CATGTCGAGACATGGTAATGGTAAGTT
65 CATGTCAAGAAATGGCAATGATAAGTT
99469097 TCAAAATGGA
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.09
110 25 0.30
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACC
ATGTCAAGAAATGGCAATGATAAGTTACTATAAGGCAAAGGTCCA
Found at i:99469362 original size:8 final size:8
Alignment explanation
Indices: 99469351--99469375 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
99469341 TAAGTATTTA
99469351 AGTAAGTG
1 AGTAAGTG
99469359 AGTAAGTG
1 AGTAAGTG
99469367 AGTAAGTG
1 AGTAAGTG
99469375 A
1 A
99469376 ACAAGTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (8 bp):
AGTAAGTG
Found at i:99474099 original size:33 final size:33
Alignment explanation
Indices: 99474057--99474122 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
99474047 CTAAGGAGTG
*
99474057 GGAAAGTGTTAGCGGAATCTGAAAAGAAGCTAA
1 GGAAAGTGTTAGCGAAATCTGAAAAGAAGCTAA
*
99474090 GGAAAGTGTTAGCGAAATTTGAAAAGAAGCTAA
1 GGAAAGTGTTAGCGAAATCTGAAAAGAAGCTAA
99474123 CACAAGAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.29, T:0.20
Consensus pattern (33 bp):
GGAAAGTGTTAGCGAAATCTGAAAAGAAGCTAA
Found at i:99477825 original size:42 final size:42
Alignment explanation
Indices: 99477766--99477857 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
99477756 TGGCCCATAG
**
99477766 GCCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* *
99477808 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
*
99477850 ACCCATTT
1 GCCCATTT
99477858 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:99478029 original size:23 final size:23
Alignment explanation
Indices: 99477999--99478211 Score: 336
Period size: 23 Copynumber: 9.1 Consensus size: 23
99477989 CCTTGCCTCT
*
99477999 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
99478022 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
99478045 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
99478069 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
99478092 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
99478115 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
99478139 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
99478162 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
99478185 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
99478209 TTT
1 TTT
99478212 TGCACTTCCT
Statistics
Matches: 176, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
23 112 0.64
24 64 0.36
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:99478082 original size:70 final size:70
Alignment explanation
Indices: 99477999--99478211 Score: 390
Period size: 70 Copynumber: 3.0 Consensus size: 70
99477989 CCTTGCCTCT
* * *
99477999 TTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
99478064 AGCCC
66 AGCCC
99478069 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
99478134 AGCCC
66 AGCCC
*
99478139 TTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
99478204 AGCCC
66 AGCCC
99478209 TTT
1 TTT
99478212 TGCACTTCCT
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 139 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
AGCCC
Found at i:99478212 original size:47 final size:47
Alignment explanation
Indices: 99477997--99478212 Score: 346
Period size: 47 Copynumber: 4.6 Consensus size: 47
99477987 GGCCTTGCCT
* * *
99477997 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCC
* * *
99478044 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCC
99478091 C-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCC
99478138 C-TTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCC
*
99478184 CTTTTGATAACTGGGGCATAAGCCCTTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTTT
99478213 GCACTTCCTC
Statistics
Matches: 159, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
46 43 0.27
47 116 0.73
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCC
Found at i:99478284 original size:9 final size:9
Alignment explanation
Indices: 99478270--99478326 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
99478260 ATCTAATGTG
99478270 CATATCATA
1 CATATCATA
*
99478279 CATATCATGTG
1 CATATCA--TA
99478290 CATATCATA
1 CATATCATA
* *
99478299 CATGTCATGTG
1 CATATCA--TA
99478310 CATATCATA
1 CATATCATA
99478319 CATATCAT
1 CATATCAT
99478327 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:99478288 original size:20 final size:20
Alignment explanation
Indices: 99478265--99478328 Score: 119
Period size: 20 Copynumber: 3.2 Consensus size: 20
99478255 TGAACATCTA
99478265 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
*
99478285 ATGTGCATATCATACATGTC
1 ATGTGCATATCATACATATC
99478305 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
99478325 ATGT
1 ATGT
99478329 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTGCATATCATACATATC
Found at i:99478295 original size:11 final size:11
Alignment explanation
Indices: 99478265--99478317 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
99478255 TGAACATCTA
99478265 ATGTGCATATC
1 ATGTGCATATC
*
99478276 A--TACATATC
1 ATGTGCATATC
99478285 ATGTGCATATC
1 ATGTGCATATC
* *
99478296 A--TACATGTC
1 ATGTGCATATC
99478305 ATGTGCATATC
1 ATGTGCATATC
99478316 AT
1 AT
99478318 ACATATCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
ATGTGCATATC
Found at i:99481838 original size:45 final size:45
Alignment explanation
Indices: 99481764--99481936 Score: 190
Period size: 45 Copynumber: 3.8 Consensus size: 45
99481754 TGTAACCCGC
99481764 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
99481810 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * *
99481855 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
99481901 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
99481937 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 54 0.52
46 29 0.28
47 20 0.19
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:99481883 original size:92 final size:92
Alignment explanation
Indices: 99481772--99481940 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
99481762 GCCCATAAGT
* *
99481772 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
99481836 CGAGCTCGGATGCCTAGTTACATCTCTC
65 CGAGCTCGGATGCCTAGTTACATCTCTC
*
99481864 GAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
99481929 GAGTTCGGATGC
66 GAGCTCGGATGC
99481941 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 23 0.32
92 49 0.68
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:99484345 original size:15 final size:15
Alignment explanation
Indices: 99484313--99484376 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
99484303 CAAAGATAAC
99484313 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
99484326 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
99484341 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
99484356 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
99484371 AAGAAA
1 AAGAAA
99484377 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 3 0.07
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:99487446 original size:93 final size:93
Alignment explanation
Indices: 99487334--99487504 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
99487324 GCCCATAAGT
* *
99487334 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
99487399 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
99487427 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
99487492 CGAGTTCGGATGC
66 CGAGCTCGGATGC
99487505 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:99487501 original size:46 final size:46
Alignment explanation
Indices: 99487326--99487501 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
99487316 TGTAACCCGC
* *
99487326 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
99487372 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
99487418 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
99487465 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
99487502 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:99491661 original size:40 final size:40
Alignment explanation
Indices: 99491617--99491745 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
99491607 TGCTGGAAAT
* * *
99491617 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
99491657 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
99491697 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
99491737 TATATCCGG
1 TATATCCGG
99491746 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:99494711 original size:29 final size:29
Alignment explanation
Indices: 99494672--99494750 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
99494662 CTTAATAATC
*
99494672 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
99494702 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
99494731 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
99494751 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:99495401 original size:2 final size:2
Alignment explanation
Indices: 99495389--99495420 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
99495379 TGATGGCCGA
*
99495389 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99495421 CAACTATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99498284 original size:93 final size:93
Alignment explanation
Indices: 99498154--99498325 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
99498144 CGCCCATAAG
* * * *
99498154 CGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTTGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
99498219 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
99498247 CGAACTTGGACTCAATTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTTGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
99498312 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
99498326 TCAAATATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTTGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:99498322 original size:46 final size:46
Alignment explanation
Indices: 99498147--99498327 Score: 170
Period size: 46 Copynumber: 3.9 Consensus size: 46
99498137 TGTAACCCGC
* * * *
99498147 CCATAAGCGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
99498193 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * * *
99498243 -C-TCA-CGAACTTGGACTCAATTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
99498286 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
99498328 AAATATCCCG
Statistics
Matches: 108, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.62
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:99505595 original size:29 final size:29
Alignment explanation
Indices: 99505556--99505634 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
99505546 CTTAATAATC
*
99505556 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
99505586 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
99505615 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
99505635 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:99506291 original size:2 final size:2
Alignment explanation
Indices: 99506273--99506310 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
99506263 TGATGGCCGA
* *
99506273 AT AT GT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99506311 CAACTATACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99511727 original size:27 final size:27
Alignment explanation
Indices: 99511697--99511766 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
99511687 GTGTCTCACA
* *
99511697 ACTATCTTATGTGGAAAGTCCACTGGG
1 ACTATCTTATGTGGAAAGTCCACCGAG
* *
99511724 ACTATCTTATGTGGGAAGTCCGCCGAG
1 ACTATCTTATGTGGAAAGTCCACCGAG
*
99511751 ACTATCTTTTGTGGAA
1 ACTATCTTATGTGGAA
99511767 GTCTGTGAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (27 bp):
ACTATCTTATGTGGAAAGTCCACCGAG
Found at i:99511779 original size:26 final size:28
Alignment explanation
Indices: 99511697--99511783 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 28
99511687 GTGTCTCACA
* * *
99511697 ACTATCTTATGTGGAAAGTCCACTG-GG
1 ACTATCTTATGTGGGAAGTCCGCCGAGG
99511724 ACTATCTTATGTGGGAAGTCCGCCGA-G
1 ACTATCTTATGTGGGAAGTCCGCCGAGG
* * *
99511751 ACTATCTTTTGT-GGAAGTCTG-TGAGG
1 ACTATCTTATGTGGGAAGTCCGCCGAGG
99511777 ACTATCT
1 ACTATCT
99511784 AATATGGGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
25 2 0.04
26 16 0.31
27 34 0.65
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (28 bp):
ACTATCTTATGTGGGAAGTCCGCCGAGG
Found at i:99514323 original size:18 final size:17
Alignment explanation
Indices: 99514288--99514325 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
99514278 AATACATGAC
99514288 ATTTAAAATTATTTATT
1 ATTTAAAATTATTTATT
99514305 ATTTAAAACTT-TATTATT
1 ATTTAAAA-TTAT-TTATT
99514323 ATT
1 ATT
99514326 ATTATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTAAAATTATTTATT
Found at i:99516121 original size:26 final size:26
Alignment explanation
Indices: 99516085--99516134 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
99516075 TAACTAAAAC
99516085 GGAAGTATTTTGAAAGTCAAAGAAAT
1 GGAAGTATTTTGAAAGTCAAAGAAAT
*
99516111 GGAAGTATTTTGAAAGTTAAAGAA
1 GGAAGTATTTTGAAAGTCAAAGAA
99516135 CTATCCAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (26 bp):
GGAAGTATTTTGAAAGTCAAAGAAAT
Found at i:99517161 original size:30 final size:32
Alignment explanation
Indices: 99517127--99517186 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
99517117 AAAAGTTATT
*
99517127 TTTATTTAATTATAA-TA-TATATTTTTTAAA
1 TTTATTTAATTAAAACTATTATATTTTTTAAA
*
99517157 TTTATTTTATTAAAACTATTTATATTTTTT
1 TTTATTTAATTAAAACTA-TTATATTTTTT
99517187 TTACAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.52
31 2 0.08
33 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (32 bp):
TTTATTTAATTAAAACTATTATATTTTTTAAA
Found at i:99517245 original size:15 final size:15
Alignment explanation
Indices: 99517214--99517262 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
99517204 TCCATATTCC
*
99517214 ATTTTTATATTATTT
1 ATTTTTATATTAATT
99517229 ATTTTTA-ATATAATT
1 ATTTTTATAT-TAATT
99517244 ATTATTT-T-TTAATT
1 ATT-TTTATATTAATT
99517258 ATTTT
1 ATTTT
99517263 AAAAATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 15 0.50
16 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTATATTAATT
Found at i:99517448 original size:21 final size:23
Alignment explanation
Indices: 99517403--99517448 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
99517393 ATATATGAAA
* *
99517403 AATACTTTAAAATTTTATCAAAT
1 AATACTTTAAAATTCTATAAAAT
99517426 AATA-TTTAAAA-TCTATAAAAT
1 AATACTTTAAAATTCTATAAAAT
99517447 AA
1 AA
99517449 AGTTCATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 7 0.33
23 4 0.19
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (23 bp):
AATACTTTAAAATTCTATAAAAT
Found at i:99520870 original size:17 final size:17
Alignment explanation
Indices: 99520848--99520882 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
99520838 CCAAGGTGCT
99520848 ATGTAGCAGAGAGCGGG
1 ATGTAGCAGAGAGCGGG
99520865 ATGTAGCAGAGAGCGGG
1 ATGTAGCAGAGAGCGGG
99520882 A
1 A
99520883 GTTGCACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.46, T:0.11
Consensus pattern (17 bp):
ATGTAGCAGAGAGCGGG
Found at i:99543903 original size:61 final size:60
Alignment explanation
Indices: 99543727--99543952 Score: 213
Period size: 61 Copynumber: 3.7 Consensus size: 60
99543717 AAAGTTTTGT
* ** * * * * *
99543727 CACAAAGGCATCCTTT-GCATCAAATACTTGCCACAAAGGCTTTTCTATCTAGAATTATGC
1 CACAAAGGCATTCTTTAATATCCAATACTT-CCACAAAGGCTTTCCTGTCTAGAGTTGTGC
* * * * * *
99543787 CAAAAAGGCATTCCTTAATATTCAATACTTGCAGCAAAGGCTTTCTTGTCCAGAGTTGTGC
1 CACAAAGGCATTCTTTAATATCCAATACTTCCA-CAAAGGCTTTCCTGTCTAGAGTTGTGC
* * *
99543848 CACAAAGGCATTCTTTAATATCCAATACTTACCATAAAGGCTTACCTGTCTAGAGTTGTGT
1 CACAAAGGCATTCTTTAATATCCAATACTT-CCACAAAGGCTTTCCTGTCTAGAGTTGTGC
** *
99543909 TGCAAAGGCATTCTTTAATATCCAATA-GTCGCTACAAAGGCTTT
1 CACAAAGGCATTCTTTAATATCCAATACTTC-C-ACAAAGGCTTT
99543953 AGGCGTTCCT
Statistics
Matches: 133, Mismatches: 28, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
59 1 0.01
60 17 0.13
61 113 0.85
62 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (60 bp):
CACAAAGGCATTCTTTAATATCCAATACTTCCACAAAGGCTTTCCTGTCTAGAGTTGTGC
Found at i:99543987 original size:39 final size:39
Alignment explanation
Indices: 99543914--99543991 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
99543904 TGTGTTGCAA
* * *
99543914 AGGCATTCTTTAATATCCAATAGTCGCTACAAAGGCTTT
1 AGGCATTCCTTAATATCCAATACTCGCCACAAAGGCTTT
* * *
99543953 AGGCGTTCCTTAATATCCAGTACTCGCCATAAAGGCTTT
1 AGGCATTCCTTAATATCCAATACTCGCCACAAAGGCTTT
99543992 CCTATCCAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (39 bp):
AGGCATTCCTTAATATCCAATACTCGCCACAAAGGCTTT
Found at i:99544003 original size:100 final size:100
Alignment explanation
Indices: 99543853--99544052 Score: 247
Period size: 100 Copynumber: 2.0 Consensus size: 100
99543843 TGTGCCACAA
* * * * ***
99543853 AGGCATTCTTTAATATCCAATACTTACCATAAAGGCTTACCTGTCTAGAGTTGTGTTGCAAAGGC
1 AGGCATTCCTTAATATCCAATACTCACCATAAAGGCTTACCTATCCAGAGTTGTGCCACAAAGGC
* * *
99543918 ATTCTTTAATATCCAATAGTCGCTACAAAGGCTTT
66 ATTCCTTAATATCCAATACTCGCCACAAAGGCTTT
* * * * *
99543953 AGGCGTTCCTTAATATCCAGTACTCGCCATAAAGGCTTTCCTATCCAGAGTTGTGCCATAAAGGC
1 AGGCATTCCTTAATATCCAATACTCACCATAAAGGCTTACCTATCCAGAGTTGTGCCACAAAGGC
* *
99544018 ATTCCTTAATATTCACTACTCGCCACAAAGGCTTT
66 ATTCCTTAATATCCAATACTCGCCACAAAGGCTTT
99544053 CCTGTCTAGA
Statistics
Matches: 83, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (100 bp):
AGGCATTCCTTAATATCCAATACTCACCATAAAGGCTTACCTATCCAGAGTTGTGCCACAAAGGC
ATTCCTTAATATCCAATACTCGCCACAAAGGCTTT
Found at i:99544053 original size:61 final size:61
Alignment explanation
Indices: 99543953--99544383 Score: 481
Period size: 61 Copynumber: 7.1 Consensus size: 61
99543943 CAAAGGCTTT
* * * * * *
99543953 AGGCGTTCCTTAATATCCAGTACTCGCCATAAAGGCTTTCCTATCCAGAGTTGTGCCATAA
1 AGGCATTCCTTAATATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCACAA
* * * *
99544014 AGGCATTCCTTAATATTCACTACTCGCCACAAAGGCTTTCCTGTCTAGAGTTGTGTCACAA
1 AGGCATTCCTTAATATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCACAA
* * * *
99544075 AGGCATTCCTTAATA-TCTAGTACTCACCAGAAAAGCTTTCCTATCTAGACTTGTACCACAA
1 AGGCATTCCTTAATATTC-AGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCACAA
* ** * * *
99544136 AGGCATTCCTTAATATCCAGTACTTGCCACAAAGGCTTTCCTGTCCATAGTTGTGCCACAA
1 AGGCATTCCTTAATATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCACAA
* * *
99544197 AGGCATTCCTTAATA-TCAAGTACTCACCACAAAGGCTTTACC-ATCCAGAGTTGTGTCATAA
1 AGGCATTCCTTAATATTC-AGTACTCACCACAAAGGCTTT-CCTATCTAGAGTTGTGCCACAA
* * * * * ** * *
99544258 AGGTATTCTTTAATATCCAGTACTCACCATAAAGGTTTTGTTGTCTAGAGTTGTTCCACAA
1 AGGCATTCCTTAATATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCACAA
* * * * *
99544319 AGGCATTCTTTAATATTCAGAACTCACCACCAAGGCTTTCCCATCTAGAGTTTTGCCACAA
1 AGGCATTCCTTAATATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCACAA
99544380 AGGC
1 AGGC
99544384 TTTTTCTTTC
Statistics
Matches: 307, Mismatches: 57, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
60 3 0.01
61 300 0.98
62 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (61 bp):
AGGCATTCCTTAATATTCAGTACTCACCACAAAGGCTTTCCTATCTAGAGTTGTGCCACAA
Found at i:99544101 original size:29 final size:29
Alignment explanation
Indices: 99544069--99544223 Score: 86
Period size: 29 Copynumber: 5.1 Consensus size: 29
99544059 TAGAGTTGTG
99544069 TCACAAAGGCATTCCTTAATATCTAGTAC
1 TCACAAAGGCATTCCTTAATATCTAGTAC
* * * * *
99544098 TCACCAGAAAAGCTTTCC-TATCTAGACTTGTAC
1 TCA-C--AAAGGCATTCCTTA-ATA-TCTAGTAC
*
99544131 -CACAAAGGCATTCCTTAATATCCAGTAC
1 TCACAAAGGCATTCCTTAATATCTAGTAC
* * *
99544159 TTGCCACAAAGGCTTTCCTGTCCATAGT-T-GTGC
1 -T--CACAAAGGCATTCCT-T-AATA-TCTAGTAC
*
99544192 -CACAAAGGCATTCCTTAATATCAAGTAC
1 TCACAAAGGCATTCCTTAATATCTAGTAC
99544220 TCAC
1 TCAC
99544224 CACAAAGGCT
Statistics
Matches: 91, Mismatches: 19, Indels: 32
0.64 0.13 0.23
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 9 0.10
29 31 0.34
30 3 0.03
31 3 0.03
32 27 0.30
33 10 0.11
34 3 0.03
35 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (29 bp):
TCACAAAGGCATTCCTTAATATCTAGTAC
Found at i:99544151 original size:222 final size:222
Alignment explanation
Indices: 99543751--99544174 Score: 562
Period size: 222 Copynumber: 1.9 Consensus size: 222
99543741 TTGCATCAAA
* * *
99543751 TACTTGCCACAAAGGCTTTTCTATCTAGAATTATGCCAAAAAGGCATTCCTTAATATTCAATACT
1 TACTCGCCACAAAGGCTTTCCTATCCAGAATTATGCCAAAAAGGCATTCCTTAATATTCAATACT
* * * *
99543816 TGCAGCAAAGGCTTTCTTGTCCAGAGTTGTGCCACAAAGGCATTCTTTAATATCCAATACTTACC
66 CGCAGCAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAATATCCAATACTCACC
* * * * **** * * *
99543881 ATAAAGGCTTACCTGTCTAGAGTTGTGTTGCAAAGGCATTCTTTAATATCCAATAGTCGCTACAA
131 AGAAAAGCTTACCTATCTAGACTTGTACCACAAAGGCATTCCTTAATATCCAATACTCGCCACAA
99543946 AGGCTTTAGGCGTTCCTTAATATCCAG
196 AGGCTTTAGGCGTTCCTTAATATCCAG
* * * * *
99543973 TACTCGCCATAAAGGCTTTCCTATCCAGAGTTGTGCCATAAAGGCATTCCTTAATATTCACTACT
1 TACTCGCCACAAAGGCTTTCCTATCCAGAATTATGCCAAAAAGGCATTCCTTAATATTCAATACT
* * * *
99544038 CGCCA-CAAAGGCTTTCCTGTCTAGAGTTGTGTCACAAAGGCATTCCTTAATATCTAGTACTCAC
66 CG-CAGCAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAATATCCAATACTCAC
* * *
99544102 CAGAAAAGCTTTCCTATCTAGACTTGTACCACAAAGGCATTCCTTAATATCCAGTACTTGCCACA
130 CAGAAAAGCTTACCTATCTAGACTTGTACCACAAAGGCATTCCTTAATATCCAATACTCGCCACA
99544167 AAGGCTTT
195 AAGGCTTT
99544175 CCTGTCCATA
Statistics
Matches: 171, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
222 169 0.99
223 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (222 bp):
TACTCGCCACAAAGGCTTTCCTATCCAGAATTATGCCAAAAAGGCATTCCTTAATATTCAATACT
CGCAGCAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAATATCCAATACTCACC
AGAAAAGCTTACCTATCTAGACTTGTACCACAAAGGCATTCCTTAATATCCAATACTCGCCACAA
AGGCTTTAGGCGTTCCTTAATATCCAG
Found at i:99544273 original size:183 final size:183
Alignment explanation
Indices: 99543953--99544383 Score: 560
Period size: 183 Copynumber: 2.4 Consensus size: 183
99543943 CAAAGGCTTT
* * *
99543953 AGGCGTTCCTTAATATCCAGTACTCGCCATAAAGGCTTTCCTATCCAGAGTTGTGCCATAAAGGC
1 AGGCATTCCTTAATATCCAGTACTCGCCACAAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGC
* * *
99544018 ATTCCTTAATATTCACTACTCGCCACAAAGGCTTTCCTGTCTAGAGTTGTGTCACAAAGGCATTC
66 ATTCCTTAATATTCACTACTCACCACAAAGGCTTTCCTATCCAGAGTTGTGTCACAAAGGCATTC
*
99544083 CTTAATATCTAGTACTCACCAGAAAAGCTTTCCTATCTAGACTTGTACCACAA
131 CTTAATATCCAGTACTCACCAGAAAAGCTTTCCTATCTAGACTTGTACCACAA
* * *
99544136 AGGCATTCCTTAATATCCAGTACTTGCCACAAAGGCTTTCCTGTCCATAGTTGTGCCACAAAGGC
1 AGGCATTCCTTAATATCCAGTACTCGCCACAAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGC
* * *
99544201 ATTCCTTAATA-TCAAGTACTCACCACAAAGGCTTTACC-ATCCAGAGTTGTGTCATAAAGGTAT
66 ATTCCTTAATATTC-ACTACTCACCACAAAGGCTTT-CCTATCCAGAGTTGTGTCACAAAGGCAT
* * * * ** * * *
99544264 TCTTTAATATCCAGTACTCACCATAAAGGTTTTGTTGTCTAGAGTTGTTCCACAA
129 TCCTTAATATCCAGTACTCACCAGAAAAGCTTTCCTATCTAGACTTGTACCACAA
* * * * * * * *
99544319 AGGCATTCTTTAATATTCAGAACTCACCACCAAGGCTTTCCCATCTAGAGTTTTGCCACAAAGGC
1 AGGCATTCCTTAATATCCAGTACTCGCCACAAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGC
99544384 TTTTTCTTTC
Statistics
Matches: 213, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
182 2 0.01
183 209 0.98
184 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (183 bp):
AGGCATTCCTTAATATCCAGTACTCGCCACAAAGGCTTTCCTATCCAGAGTTGTGCCACAAAGGC
ATTCCTTAATATTCACTACTCACCACAAAGGCTTTCCTATCCAGAGTTGTGTCACAAAGGCATTC
CTTAATATCCAGTACTCACCAGAAAAGCTTTCCTATCTAGACTTGTACCACAA
Found at i:99548341 original size:37 final size:37
Alignment explanation
Indices: 99548291--99548364 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
99548281 ATCAATCACG
* *
99548291 ACATGGGATGAACTTGTAGGGAAATTCCTACAAAAGT
1 ACATGGGATGAACTCGTAGGCAAATTCCTACAAAAGT
99548328 ACATGGGATGAACTCGTAGGCAAATTCCTACAAAAGT
1 ACATGGGATGAACTCGTAGGCAAATTCCTACAAAAGT
99548365 TCTTCCCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (37 bp):
ACATGGGATGAACTCGTAGGCAAATTCCTACAAAAGT
Found at i:99552794 original size:15 final size:16
Alignment explanation
Indices: 99552776--99552805 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99552766 TAAATTAAGT
99552776 TAAATTAA-CTAAATA
1 TAAATTAAGCTAAATA
99552791 TAAATTAAGCTAAAT
1 TAAATTAAGCTAAAT
99552806 GCAATGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (16 bp):
TAAATTAAGCTAAATA
Found at i:99560866 original size:24 final size:25
Alignment explanation
Indices: 99560839--99560900 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
99560829 AGAAATTTCA
** *
99560839 GCACTATGTGTGC-AAGGTTATGCG
1 GCACTATGTGTGCAAAAATTAAGCG
* *
99560863 GCACTATATGTGCAAAAATTAAGTG
1 GCACTATGTGTGCAAAAATTAAGCG
99560888 GCACTATGTGTGC
1 GCACTATGTGTGC
99560901 GAGACTACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (25 bp):
GCACTATGTGTGCAAAAATTAAGCG
Found at i:99560921 original size:24 final size:24
Alignment explanation
Indices: 99560886--99560950 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
99560876 AAAAATTAAG
*
99560886 TGGCACTATGTGTGCGA-GACTACA
1 TGGCACTATGTGTGCGAGGA-AACA
* * *
99560910 TGGCACTCTGTGTGTGAGGAAACG
1 TGGCACTATGTGTGCGAGGAAACA
99560934 TGGCACTATGTGTGCGA
1 TGGCACTATGTGTGCGA
99560951 ATAAGTAAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 32 0.94
25 2 0.06
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAGGAAACA
Found at i:99562873 original size:40 final size:40
Alignment explanation
Indices: 99562818--99563040 Score: 245
Period size: 40 Copynumber: 5.5 Consensus size: 40
99562808 TATTCGGATG
* *
99562818 ATATCCGAGCTAAGTCCCGAAGGTATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
99562858 ATATCCGGGCTAAGTCCAGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* *
99562901 ATA-CCTGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
99562940 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
99562980 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
99563020 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
99563041 ATACTTGGGT
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
39 30 0.19
40 89 0.57
41 1 0.01
42 17 0.11
43 18 0.12
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:99572471 original size:3 final size:3
Alignment explanation
Indices: 99572465--99572495 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
99572455 ACACTACTAT
99572465 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
99572496 AAAATATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:99572832 original size:3 final size:3
Alignment explanation
Indices: 99572819--99572912 Score: 65
Period size: 3 Copynumber: 31.3 Consensus size: 3
99572809 GAGGGCATAT
99572819 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
99572863 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A-A ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
99572906 AAA ATA A
1 ATA ATA A
99572913 AACAAGGCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
2 11 0.15
3 51 0.70
4 9 0.12
5 2 0.03
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:99572843 original size:12 final size:12
Alignment explanation
Indices: 99572819--99572902 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
99572809 GAGGGCATAT
99572819 ATAATAT-AATA
1 ATAATATAAATA
99572830 ATAATATAAATA
1 ATAATATAAATA
99572842 ATAATATATACATGA
1 ATAATATA-A-AT-A
99572857 GA-AATA-ATAATA
1 -ATAATATA-AATA
99572869 ATAATATAAATA
1 ATAATATAAATA
* *
99572881 ATAGTAAAAATA
1 ATAATATAAATA
*
99572893 ATAAAATAAA
1 ATAATATAAA
99572903 ATAAAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:99572863 original size:21 final size:18
Alignment explanation
Indices: 99572824--99572883 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
99572814 CATATATAAT
*
99572824 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
99572842 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
99572863 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
99572881 ATA
1 ATA
99572884 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:99573371 original size:25 final size:25
Alignment explanation
Indices: 99573337--99573393 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
99573327 CCAAGGTGGG
*
99573337 TGGCCAACAATGGTGGTAGAGTAGA
1 TGGCCAACAAGGGTGGTAGAGTAGA
* *
99573362 TGGCCAACAAGGGTGGTGGAGTAGG
1 TGGCCAACAAGGGTGGTAGAGTAGA
99573387 TGGCCAA
1 TGGCCAA
99573394 GGTGGTGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.40, T:0.18
Consensus pattern (25 bp):
TGGCCAACAAGGGTGGTAGAGTAGA
Found at i:99580262 original size:22 final size:22
Alignment explanation
Indices: 99580207--99580267 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
99580197 TATTAAATAA
* * *
99580207 AGAGCACTAAAGTGTTATACAG
1 AGAGCACTAATGTGCTAAACAG
* *
99580229 ATAGCAC-AATGTGCTAAACGG
1 AGAGCACTAATGTGCTAAACAG
99580250 AGAGCACTAATGTGCTAA
1 AGAGCACTAATGTGCTAA
99580268 TAATCAAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (22 bp):
AGAGCACTAATGTGCTAAACAG
Found at i:99581197 original size:23 final size:21
Alignment explanation
Indices: 99581141--99581201 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
99581131 ATTAGTATAC
99581141 GACACATAAGTGCCT-AAAAT
1 GACACATAAGTGCCTAAAAAT
* *
99581161 GACACACGAGGTGCCTAAAATAT
1 GACACA-TAAGTGCCTAAAA-AT
99581184 GACACATAAAGTGCCTAA
1 GACACAT-AAGTGCCTAA
99581202 TCGGCAAAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 6 0.18
21 7 0.21
22 3 0.09
23 17 0.52
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (21 bp):
GACACATAAGTGCCTAAAAAT
Found at i:99585597 original size:26 final size:26
Alignment explanation
Indices: 99585568--99585742 Score: 145
Period size: 26 Copynumber: 6.7 Consensus size: 26
99585558 TCGGAGAATG
*
99585568 CCACGAAA-GCTTCCATTTTAGATATA
1 CCAC-AAAGGCTTCCATTTCAGATATA
** **
99585594 CCACAAAGGCTTATATTTCAGATACG
1 CCACAAAGGCTTCCATTTCAGATATA
*
99585620 CCACAAAGGCTTCCATTTCAGATATT
1 CCACAAAGGCTTCCATTTCAGATATA
* * * **
99585646 CCATAAAGGCTTCTATTTCGGATACG
1 CCACAAAGGCTTCCATTTCAGATATA
* * * * **
99585672 CCACAAAAGTTTCTATTTCGGATACG
1 CCACAAAGGCTTCCATTTCAGATATA
* **
99585698 CCACAAAGGCTTCCATTTCGGATACG
1 CCACAAAGGCTTCCATTTCAGATATA
*
99585724 CCATAAAGGCTTCCATTTC
1 CCACAAAGGCTTCCATTTC
99585743 CTAACGTGTT
Statistics
Matches: 127, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
25 3 0.02
26 124 0.98
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (26 bp):
CCACAAAGGCTTCCATTTCAGATATA
Found at i:99585633 original size:52 final size:52
Alignment explanation
Indices: 99585567--99585742 Score: 219
Period size: 52 Copynumber: 3.4 Consensus size: 52
99585557 TTCGGAGAAT
* * *
99585567 GCCACGAAA-GCTTCCATTTTAGATATACCACAAAGGCTTATATTTCAGATAC
1 GCCAC-AAAGGCTTCCATTTCAGATATACCACAAAGGCTTCTATTTCGGATAC
* *
99585619 GCCACAAAGGCTTCCATTTCAGATATTCCATAAAGGCTTCTATTTCGGATAC
1 GCCACAAAGGCTTCCATTTCAGATATACCACAAAGGCTTCTATTTCGGATAC
* * * * ** *
99585671 GCCACAAAAGTTTCTATTTCGGATACGCCACAAAGGCTTCCATTTCGGATAC
1 GCCACAAAGGCTTCCATTTCAGATATACCACAAAGGCTTCTATTTCGGATAC
*
99585723 GCCATAAAGGCTTCCATTTC
1 GCCACAAAGGCTTCCATTTC
99585743 CTAACGTGTT
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
51 3 0.03
52 103 0.97
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (52 bp):
GCCACAAAGGCTTCCATTTCAGATATACCACAAAGGCTTCTATTTCGGATAC
Found at i:99585677 original size:78 final size:78
Alignment explanation
Indices: 99585576--99585742 Score: 226
Period size: 78 Copynumber: 2.1 Consensus size: 78
99585566 TGCCACGAAA
** ** *
99585576 GCTTCCATTTTAGATATACCACAAAGGCTTATATTTCAGATACGCCACAAAGGCTTCCATTTCAG
1 GCTTCCATTTCGGATACGCCACAAAAGCTTATATTTCAGATACGCCACAAAGGCTTCCATTTCAG
**
99585641 ATATTCCATAAAG
66 ATACGCCATAAAG
* * * * *
99585654 GCTTCTATTTCGGATACGCCACAAAAGTTTCTATTTCGGATACGCCACAAAGGCTTCCATTTCGG
1 GCTTCCATTTCGGATACGCCACAAAAGCTTATATTTCAGATACGCCACAAAGGCTTCCATTTCAG
99585719 ATACGCCATAAAG
66 ATACGCCATAAAG
99585732 GCTTCCATTTC
1 GCTTCCATTTC
99585743 CTAACGTGTT
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (78 bp):
GCTTCCATTTCGGATACGCCACAAAAGCTTATATTTCAGATACGCCACAAAGGCTTCCATTTCAG
ATACGCCATAAAG
Found at i:99589725 original size:34 final size:34
Alignment explanation
Indices: 99589682--99589750 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
99589672 ATCGTTTTTG
99589682 GACGAGTATGTCCTTTTCACCTTTGTGGTATCGA
1 GACGAGTATGTCCTTTTCACCTTTGTGGTATCGA
99589716 GACGAGTATGTCCTTTTCACCTTTGTGGTATCGA
1 GACGAGTATGTCCTTTTCACCTTTGTGGTATCGA
99589750 G
1 G
99589751 GTAGGTTCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (34 bp):
GACGAGTATGTCCTTTTCACCTTTGTGGTATCGA
Found at i:99592910 original size:46 final size:44
Alignment explanation
Indices: 99592760--99592916 Score: 151
Period size: 44 Copynumber: 3.5 Consensus size: 44
99592750 TATGAGAGCC
* * *
99592760 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGA-ATGTTAACC
1 AGTGTAAGACATGTCTGGGACATGCGTCAG-CTACGACATG-T-GCT
* * * *
99592805 AATGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGCT
99592849 AGTGTAAGACATGTCTGGGACATGCGTCAGC-ACGGTTACATGTG-T
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTAC-G--ACATGTGCT
*
99592894 CAGTGTAAGACCTGTCTGGGACA
1 -AGTGTAAGACATGTCTGGGACA
99592917 CGGCATCGAC
Statistics
Matches: 95, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.02
44 32 0.34
45 31 0.33
46 30 0.32
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGCT
Found at i:99595701 original size:20 final size:18
Alignment explanation
Indices: 99595676--99595712 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
99595666 ATTGCTAAGT
99595676 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
99595696 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
99595713 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:99602524 original size:14 final size:15
Alignment explanation
Indices: 99602498--99602527 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99602488 CAACAATAAA
99602498 GTTTTTCTCTTCTTG
1 GTTTTTCTCTTCTTG
99602513 GTTTTTCT-TTCTTG
1 GTTTTTCTCTTCTTG
99602527 G
1 G
99602528 CCAGTTGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.67
Consensus pattern (15 bp):
GTTTTTCTCTTCTTG
Found at i:99608634 original size:15 final size:15
Alignment explanation
Indices: 99608611--99608641 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99608601 TTTCCCTTTG
99608611 CTTTGTTTTTTTTTT
1 CTTTGTTTTTTTTTT
*
99608626 CTTTTTTTTTTTTTT
1 CTTTGTTTTTTTTTT
99608641 C
1 C
99608642 CAACTCAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (15 bp):
CTTTGTTTTTTTTTT
Found at i:99610801 original size:17 final size:17
Alignment explanation
Indices: 99610779--99610828 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
99610769 TCATTTTTCC
99610779 ACATATATATATCAAAA
1 ACATATATATATCAAAA
99610796 ACATATAAATATAT-AAAA
1 ACATAT--ATATATCAAAA
99610814 A-ATATA-ATA-CAAAA
1 ACATATATATATCAAAA
99610828 A
1 A
99610829 AAAATAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.27
15 1 0.03
17 10 0.33
18 5 0.17
19 6 0.20
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (17 bp):
ACATATATATATCAAAA
Found at i:99610809 original size:19 final size:17
Alignment explanation
Indices: 99610785--99610846 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 17
99610775 TTCCACATAT
99610785 ATATATCAAAAACATATAA
1 ATATAT-AAAAA-ATATAA
99610804 ATATATAAAAAATAT-A
1 ATATATAAAAAATATAA
* *
99610820 ATACA-AAAAAAAATAA
1 ATATATAAAAAATATAA
* *
99610836 AAAAATAAAAA
1 ATATATAAAAA
99610847 TTTACCTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 8 0.22
16 9 0.24
17 9 0.24
18 5 0.14
19 6 0.16
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (17 bp):
ATATATAAAAAATATAA
Found at i:99610827 original size:32 final size:34
Alignment explanation
Indices: 99610781--99610846 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 34
99610771 ATTTTTCCAC
* * * *
99610781 ATATATATATCAAAAACATATAAATATATAAAAA
1 ATATATATATCAAAAAAAAATAAAAAAATAAAAA
99610815 ATATA-ATA-CAAAAAAAAATAAAAAAATAAAAA
1 ATATATATATCAAAAAAAAATAAAAAAATAAAAA
99610847 TTTACCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 20 0.71
33 3 0.11
34 5 0.18
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (34 bp):
ATATATATATCAAAAAAAAATAAAAAAATAAAAA
Done.