Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 257 of 290
Found at i:88519721 original size:160 final size:160
Alignment explanation
Indices: 88519457--88519772 Score: 623
Period size: 160 Copynumber: 2.0 Consensus size: 160
88519447 GGCCCATCTG
*
88519457 CCCTGGCACTTTTCCTATGCCTCTGATCAGAATTGGAGGGCTTTAAATCTATTTTGTTTTTACTC
1 CCCTGGCACTTTTCCTATGCCACTGATCAGAATTGGAGGGCTTTAAATCTATTTTGTTTTTACTC
88519522 CTTTTCTTTTCCCAACTCTGGCGCTCAGCACGCTTCACATCCTCAGCTATCTTAGCTTTCTCTAC
66 CTTTTCTTTTCCCAACTCTGGCGCTCAGCACGCTTCACATCCTCAGCTATCTTAGCTTTCTCTAC
88519587 CAATGCTGCAAAATCTCGCTCCCTCTAATA
131 CAATGCTGCAAAATCTCGCTCCCTCTAATA
88519617 CCCTGGCACTTTTCCTATGCCACTGATCAGAATTGGAGGGCTTTAAATCTATTTTGTTTTTACTC
1 CCCTGGCACTTTTCCTATGCCACTGATCAGAATTGGAGGGCTTTAAATCTATTTTGTTTTTACTC
88519682 CTTTTCTTTTCCCAACTCTGGCGCTCAGCACGCTTCACATCCTCAGCTATCTTAGCTTTCTCTAC
66 CTTTTCTTTTCCCAACTCTGGCGCTCAGCACGCTTCACATCCTCAGCTATCTTAGCTTTCTCTAC
88519747 CAATGCTGCAAAATCTCGCTCCCTCT
131 CAATGCTGCAAAATCTCGCTCCCTCT
88519773 GTGGAGCTAT
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 155 1.00
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.37
Consensus pattern (160 bp):
CCCTGGCACTTTTCCTATGCCACTGATCAGAATTGGAGGGCTTTAAATCTATTTTGTTTTTACTC
CTTTTCTTTTCCCAACTCTGGCGCTCAGCACGCTTCACATCCTCAGCTATCTTAGCTTTCTCTAC
CAATGCTGCAAAATCTCGCTCCCTCTAATA
Found at i:88521841 original size:22 final size:21
Alignment explanation
Indices: 88521816--88521856 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
88521806 GATAACCCCA
*
88521816 TCCAACCCTGCACTTGCCTGCG
1 TCCAACCCTACACTT-CCTGCG
*
88521838 TCCATCCCTACACTTCCTG
1 TCCAACCCTACACTTCCTG
88521857 TGGGGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.15, C:0.46, G:0.12, T:0.27
Consensus pattern (21 bp):
TCCAACCCTACACTTCCTGCG
Found at i:88522806 original size:11 final size:11
Alignment explanation
Indices: 88522762--88522819 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
88522752 TATAGGGGAG
88522762 AAAAGAAAAACA
1 AAAAGAAAAA-A
*
88522774 AGAAGAAGAAAA
1 AAAAGAA-AAAA
*
88522786 ATAGAAGAAAAGA
1 A-A-AAGAAAAAA
*
88522799 AAATGAAAAAA
1 AAAAGAAAAAA
88522810 AAAAGAAAAA
1 AAAAGAAAAA
88522820 TATAAATTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
11 16 0.43
12 9 0.24
13 7 0.19
14 5 0.14
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:88523526 original size:51 final size:51
Alignment explanation
Indices: 88523454--88523587 Score: 169
Period size: 51 Copynumber: 2.6 Consensus size: 51
88523444 CCATCAAATC
* *
88523454 TCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAGATA
* ** * * * ** *
88523505 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAGATA
88523556 TCTAAGATTATAATATCATATCTTCTAAGATT
1 TCTAAGATTATAATATCATATCTTCTAAGATT
88523588 TGCCTAAGTT
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATAGATAAGATA
Found at i:88528542 original size:28 final size:28
Alignment explanation
Indices: 88528508--88528572 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
88528498 TCAGTGTACG
* *
88528508 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
88528536 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
88528564 AAATATTGA
1 AAATATTGA
88528573 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:88528688 original size:39 final size:39
Alignment explanation
Indices: 88528644--88528867 Score: 378
Period size: 39 Copynumber: 5.7 Consensus size: 39
88528634 CGACTTTATA
88528644 CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
1 CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
*
88528683 CTGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTG
1 CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
88528722 CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
1 CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
88528761 CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
1 CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
* *
88528800 CTGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTG
1 CTGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTG
*
88528839 CTGGTATTATATCCGGGCTTAAAGTCCCG
1 CTGGTGTTATATCCGGGC-T-AAGTCCCG
88528868 CATGCTTTGT
Statistics
Matches: 178, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
39 156 0.88
40 22 0.12
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (39 bp):
CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
Found at i:88538953 original size:28 final size:28
Alignment explanation
Indices: 88538913--88538991 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
88538903 GCAATCAAAT
* * *
88538913 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
88538941 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
88538969 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
88538992 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:88540476 original size:26 final size:26
Alignment explanation
Indices: 88540446--88540502 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
88540436 TCGAAACCCT
88540446 ATGTTGAAAAATATCAATAAACCAAA
1 ATGTTGAAAAATATCAATAAACCAAA
88540472 ATGTTGAAAAATATCAATAAACCAAA
1 ATGTTGAAAAATATCAATAAACCAAA
88540498 ATGTT
1 ATGTT
88540503 CTTTTTAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (26 bp):
ATGTTGAAAAATATCAATAAACCAAA
Found at i:88547169 original size:40 final size:40
Alignment explanation
Indices: 88547095--88547170 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
88547085 ACTATGTTCT
* * *
88547095 GCACTAAGTATGCGATTTGAAATAGCTTCGGCTATAAATA
1 GCACTAAGTATGCGAATTGAAATAACTTCAGCTATAAATA
* * *
88547135 GCACTGAGTGTGCGAATTGGAATAACTTCAGCTATA
1 GCACTAAGTATGCGAATTGAAATAACTTCAGCTATA
88547171 TGAGGCACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACTAAGTATGCGAATTGAAATAACTTCAGCTATAAATA
Found at i:88570371 original size:240 final size:240
Alignment explanation
Indices: 88569948--88570430 Score: 966
Period size: 240 Copynumber: 2.0 Consensus size: 240
88569938 TGGATGGTAG
88569948 TCGGCATGATATATGTGATTTTATAATTTATTAACTAAGGTTAAAAAGGTTAAATAATAATGAAT
1 TCGGCATGATATATGTGATTTTATAATTTATTAACTAAGGTTAAAAAGGTTAAATAATAATGAAT
88570013 AATATATATGTTATAATTTATGATAAATAAAACAAAGTGCTCATATTATTATTTCCCCATAGCCG
66 AATATATATGTTATAATTTATGATAAATAAAACAAAGTGCTCATATTATTATTTCCCCATAGCCG
88570078 AATATAAACAAAACAATTAGGAGAAGTTAGGTTCGGCCATCTTCCAAGCTAAAATTAAGGTTCGT
131 AATATAAACAAAACAATTAGGAGAAGTTAGGTTCGGCCATCTTCCAAGCTAAAATTAAGGTTCGT
88570143 TCTTTGTCAGTTTTTGATAATTTCTACGTTTTTGAGATCGTTGCT
196 TCTTTGTCAGTTTTTGATAATTTCTACGTTTTTGAGATCGTTGCT
88570188 TCGGCATGATATATGTGATTTTATAATTTATTAACTAAGGTTAAAAAGGTTAAATAATAATGAAT
1 TCGGCATGATATATGTGATTTTATAATTTATTAACTAAGGTTAAAAAGGTTAAATAATAATGAAT
88570253 AATATATATGTTATAATTTATGATAAATAAAACAAAGTGCTCATATTATTATTTCCCCATAGCCG
66 AATATATATGTTATAATTTATGATAAATAAAACAAAGTGCTCATATTATTATTTCCCCATAGCCG
88570318 AATATAAACAAAACAATTAGGAGAAGTTAGGTTCGGCCATCTTCCAAGCTAAAATTAAGGTTCGT
131 AATATAAACAAAACAATTAGGAGAAGTTAGGTTCGGCCATCTTCCAAGCTAAAATTAAGGTTCGT
88570383 TCTTTGTCAGTTTTTGATAATTTCTACGTTTTTGAGATCGTTGCT
196 TCTTTGTCAGTTTTTGATAATTTCTACGTTTTTGAGATCGTTGCT
88570428 TCG
1 TCG
88570431 AGCACTACAA
Statistics
Matches: 243, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 243 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (240 bp):
TCGGCATGATATATGTGATTTTATAATTTATTAACTAAGGTTAAAAAGGTTAAATAATAATGAAT
AATATATATGTTATAATTTATGATAAATAAAACAAAGTGCTCATATTATTATTTCCCCATAGCCG
AATATAAACAAAACAATTAGGAGAAGTTAGGTTCGGCCATCTTCCAAGCTAAAATTAAGGTTCGT
TCTTTGTCAGTTTTTGATAATTTCTACGTTTTTGAGATCGTTGCT
Found at i:88579441 original size:16 final size:16
Alignment explanation
Indices: 88579422--88579452 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88579412 CTTCTTCACT
88579422 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
88579438 TACTTACTTACTTAA
1 TACTCACTTACTTAA
88579453 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:88579458 original size:20 final size:20
Alignment explanation
Indices: 88579419--88579458 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
88579409 AAACTTCTTC
* *
88579419 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
88579439 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
88579459 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:88579718 original size:49 final size:52
Alignment explanation
Indices: 88579644--88579897 Score: 164
Period size: 53 Copynumber: 4.8 Consensus size: 52
88579634 ACGCGGGTCC
* * *
88579644 CTTACCATTGCCATGAT-TTGCCATGGTCTTACATGGTATCCTT-TC-GA-AA
1 CTTACCATTGCCATG-TCTTGACATGGTCTTACATGGTAGCCTTGCCTGAGAA
*
88579693 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTGA-GAA
* * * * *
88579746 CTCACCAATGCCATGCCTTGGCATGGTCTTACAT-G-AGACCTTTGCCTTATTGTAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAG-CC-TTGCCTGA--G-AA
* * * * * * *
88579801 CTTATCAATGCCATGTCGTGACATGGGCTTACACGAT-TCCTTGCCTTG-GAAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCC-TGAG-AA
* * * * *
88579853 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTT
88579898 AAACCCTAAT
Statistics
Matches: 163, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 1 0.01
51 3 0.02
52 6 0.04
53 45 0.28
54 31 0.19
55 37 0.23
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (52 bp):
CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTGAGAA
Found at i:88579776 original size:53 final size:54
Alignment explanation
Indices: 88579689--88579897 Score: 185
Period size: 53 Copynumber: 3.9 Consensus size: 54
88579679 GTATCCTTTC
* * *
88579689 GAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTAT
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACACGGTAGCCTTGCCTTAT
* * *
88579743 G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACA-TG-AGACCTTTGCCTTATT
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACACGGTAG-CC-TTGCCTTA-T
* * * * * * * *
88579797 GTAACTTATCAATGCCATGTCGTGACATGGGCTTACACGAT-TCCTTGCCTT-G
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACACGGTAGCCTTGCCTTAT
* * *
88579849 GAAACCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 GAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACACGGTAGCCTT
88579898 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 17
0.75 0.14 0.10
Matches are distributed among these distances:
51 2 0.02
52 6 0.05
53 46 0.37
54 33 0.27
55 36 0.29
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (54 bp):
GAAACTTACCAATGCCATGCCTTGACATGGTCTTACACGGTAGCCTTGCCTTAT
Found at i:88579861 original size:108 final size:109
Alignment explanation
Indices: 88579691--88579887 Score: 265
Period size: 108 Copynumber: 1.8 Consensus size: 109
88579681 ATCCTTTCGA
* * * * * *
88579691 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAACTCACCAA-T
1 AACTTACCAATGCCATGTCGTGACATGGGCTTACACGATAGCCTTGCCTTAGGAACTCACCAATT
88579755 GCCATGCCTTGGCATGGTCTTACATGAGACCTTTGCCTTATTGT
66 GCCATGCCTTGGCATGGTCTTACATGAGACCTTTGCCTTATTGT
* * *
88579799 AACTTATCAATGCCATGTCGTGACATGGGCTTACACGAT-TCCTTGCCTT-GGAAACCTTACCAA
1 AACTTACCAATGCCATGTCGTGACATGGGCTTACACGATAGCCTTGCCTTAGG-AA-CTCACCAA
*
88579862 TTTCCATGCCTTGGCATGGTCTTACA
64 TTGCCATGCCTTGGCATGGTCTTACA
88579888 CGGTATCCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
106 1 0.01
107 11 0.14
108 40 0.53
109 24 0.32
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCGTGACATGGGCTTACACGATAGCCTTGCCTTAGGAACTCACCAATT
GCCATGCCTTGGCATGGTCTTACATGAGACCTTTGCCTTATTGT
Found at i:88585809 original size:16 final size:16
Alignment explanation
Indices: 88585790--88585820 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88585780 CTTCTTCACC
88585790 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
88585806 TACTTACTTACTTAA
1 TACTCACTTACTTAA
88585821 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:88586141 original size:53 final size:54
Alignment explanation
Indices: 88586012--88586266 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
88586002 ACACGGGTAC
* * * * *
88586012 CTTACCATTGCCATGACTTGTCATAGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
88586061 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
88586114 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
88586169 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
88586222 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
88586267 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 24, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 2 0.01
53 48 0.28
54 10 0.06
55 72 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:88586203 original size:108 final size:110
Alignment explanation
Indices: 88586059--88586259 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
88586049 ATCCTTTTGA
* *
88586059 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
88586122 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
88586167 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
88586232 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
88586260 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:88592348 original size:16 final size:16
Alignment explanation
Indices: 88592327--88592357 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88592317 AAAGTAAAAC
88592327 AAAAGAAAAAGAGAAA
1 AAAAGAAAAAGAGAAA
*
88592343 AAAAGAAACAGAGAA
1 AAAAGAAAAAGAGAA
88592358 GGAGACGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAGAAA
Found at i:88607497 original size:93 final size:92
Alignment explanation
Indices: 88607385--88607648 Score: 339
Period size: 93 Copynumber: 2.8 Consensus size: 92
88607375 CCCATAAGCG
* *
88607385 AACTCGGACTCAACTCAACGAGGTTGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTTAAC
1 AACTCGGACTCAACTCAACGA-GTTAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
88607450 GAGCTCAGATGCCTAGTTACATCTCACA
65 GAGCTCGGATGCCTAGTTACATCTCACA
*** * *
88607478 AACTCGGACTCAACTCAACGAGTTCAGATGTTCGCATCCATAAGTGGACTCGAACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTT-AGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* * **
88607543 AAGCTCGGATGCCTAGTTATATCTCATG
65 GAGCTCGGATGCCTAGTTACATCTCACA
* * * * *
88607571 AACTCGGACTCAACTCTACGAGTTCAGACGTTCGCATCCTTAAGTAAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTT-AGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
88607636 GAGTTCGGATGCC
65 GAGCTCGGATGCC
88607649 CAAATATCCG
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
92 3 0.02
93 147 0.98
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (92 bp):
AACTCGGACTCAACTCAACGAGTTAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGCTCGGATGCCTAGTTACATCTCACA
Found at i:88607539 original size:46 final size:45
Alignment explanation
Indices: 88607379--88607646 Score: 177
Period size: 46 Copynumber: 5.8 Consensus size: 45
88607369 AACCCGCCCA
* **
88607379 TAAGCGAACTCGGACTCAACTCAACGAGGTTGGGCA--TTCGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGA-GTTCAG-ATGTTCGCATCC
* * **
88607424 ATAAGTGAACTCGGACTCAACTTAACGAGCTCAGATGCCTAGTTACAT-C
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATG--T--TCGCATCC
* **
88607473 TCA-CAAACTCGGACTCAACTCAACGAGTTCAGATGTTCGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGTTCGCATCC
* * * * * * * * *
88607517 ATAAGTGGACTCGAACTCAACTCAACAAGCTCGGATGCCTAGTTATATC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATG-TTCG-CAT-CC
* * *
88607566 TCA-TGAACTCGGACTCAACTCTACGAGTTCAGACGTTCGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGTTCGCATCC
* *
88607610 TTAAGTAAACTCGGACTCAACTCAACGAGTTCGGATG
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATG
88607647 CCCAAATATC
Statistics
Matches: 165, Mismatches: 43, Indels: 28
0.70 0.18 0.12
Matches are distributed among these distances:
43 4 0.02
44 3 0.02
45 10 0.06
46 80 0.48
47 55 0.33
48 7 0.04
49 2 0.01
50 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGTTCGCATCC
Found at i:88607584 original size:47 final size:47
Alignment explanation
Indices: 88607429--88607598 Score: 157
Period size: 47 Copynumber: 3.6 Consensus size: 47
88607419 CATCCATAAG
* *
88607429 TGAACTCGGACTCAACTTAACGAGCTCAGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTATATCTCA
** * * * * * *
88607476 CAAACTCGGACTCAACTCAACGAGTTCAGATG-TTCG-CAT-CCATAA
1 TGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTATATC-TCA
* * * *
88607521 GTGGACTCGAACTCAACTCAACAAGCTCGGATGCCTAGTTATATCTCA
1 -TGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTATATCTCA
* *
88607569 TGAACTCGGACTCAACTCTACGAGTTCAGA
1 TGAACTCGGACTCAACTCAACGAGCTCAGA
88607599 CGTTCGCATC
Statistics
Matches: 90, Mismatches: 28, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 27 0.30
47 54 0.60
48 4 0.04
49 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (47 bp):
TGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTATATCTCA
Found at i:88612907 original size:46 final size:46
Alignment explanation
Indices: 88612826--88613085 Score: 176
Period size: 46 Copynumber: 5.6 Consensus size: 46
88612816 TGTAACCCGC
** * *
88612826 CCATAAGCAAACTCGGACTCAACTCAATGAACTCGGGCGTACGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTACGCAT
* * *
88612872 CCATAAGTGAACTCAGACTCAACTTAACGAGCTCGGATGCCTA-GTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTACG---CAT
* * * * * *
88612922 -C-TCA-TGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGAAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTACGCAT
*
88612965 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTA-GTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTACG---CAT
* * * * * * * *
88613015 -C-TCA-CGAACTCGGACTTAACTCAACGAGTTCAGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTACGCAT
88613058 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
88613086 AAGTTTGGAT
Statistics
Matches: 161, Mismatches: 35, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
43 5 0.03
44 2 0.01
45 8 0.05
46 77 0.48
47 52 0.32
48 10 0.06
49 2 0.01
50 5 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTACGCAT
Found at i:88612941 original size:47 final size:47
Alignment explanation
Indices: 88612879--88613042 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 47
88612869 CATCCATAAG
* *
88612879 TGAACTCAGACTCAACTTAACGAGCTCGGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
* * * * * *
88612926 TGAACTTGGACTCAACTCAACGAGTTCGGACG-TTCG--A-ATCCATAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA
88612971 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 -TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
* *
88613019 CGAACTCGGACTTAACTCAACGAG
1 TGAACTCGGACTCAACTCAACGAG
88613043 TTCAGACGTT
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 2 0.02
46 31 0.33
47 51 0.54
48 2 0.02
49 2 0.02
50 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:88612999 original size:93 final size:93
Alignment explanation
Indices: 88612835--88613085 Score: 378
Period size: 93 Copynumber: 2.7 Consensus size: 93
88612825 CCCATAAGCA
* ** * * * * *
88612835 AACTCGGACTCAACTCAATGAACTCGGGCGTACGCATCCATAAGTGAACTCAGACTCAACTTAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGAATCCATAAGTGAACTCGGACTCAACTCAAC
*
88612900 GAGCTCGGATGCCTAGTTACATCTCATG
66 GAGCTCGGATGCCTAGTTACATCTCACG
*
88612928 AACTTGGACTCAACTCAACGAGTTCGGACGTTCGAATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGAATCCATAAGTGAACTCGGACTCAACTCAAC
88612993 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
* *
88613021 AACTCGGACTTAACTCAACGAGTTCAGACGTTC-ACATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGA-ATCCATAAGTGAACTCGGACTCAACTCAA
88613085 C
65 C
88613086 AAGTTTGGAT
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 1 0.01
93 143 0.99
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCGGACGTTCGAATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:88614664 original size:13 final size:13
Alignment explanation
Indices: 88614646--88614670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88614636 TTAAAGAGAA
88614646 GGGAAATGAACAT
1 GGGAAATGAACAT
88614659 GGGAAATGAACA
1 GGGAAATGAACA
88614671 AGTTTACAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.32, T:0.12
Consensus pattern (13 bp):
GGGAAATGAACAT
Found at i:88616410 original size:28 final size:29
Alignment explanation
Indices: 88616356--88616410 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
88616346 TACAGGGGTT
*
88616356 TTCACACGGCTAAGCACACGCCTGTGTCC
1 TTCACACGGCTAAGCACACGCCCGTGTCC
88616385 TTCACACGGCCT-AG-ACACGCCCGTGT
1 TTCACACGG-CTAAGCACACGCCCGTGT
88616411 GGTTGCCCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 11 0.46
29 11 0.46
30 2 0.08
ACGTcount: A:0.20, C:0.38, G:0.22, T:0.20
Consensus pattern (29 bp):
TTCACACGGCTAAGCACACGCCCGTGTCC
Found at i:88620031 original size:43 final size:43
Alignment explanation
Indices: 88619942--88620097 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 43
88619932 TGTGATTACA
* * * * *
88619942 TGTAAGACAATGTCTGGGACATTGGCGTTGTATTGTGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAATGCGATTATG
88619985 TGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-CGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TAATGCGATTAT-G
* * ** * * **
88620028 TGTAAAACCCTGTCTGGGACAGAGGCATCG-ATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTA-ATGCGATTATG
* *
88620071 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
88620098 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 8 0.09
43 78 0.87
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTAATGCGATTATG
Found at i:88626157 original size:82 final size:82
Alignment explanation
Indices: 88626019--88626208 Score: 245
Period size: 82 Copynumber: 2.3 Consensus size: 82
88626009 CCGTGTGTGA
** *
88626019 CACACGGCCTAGCACATAGGCGTGTGATTTGGCCGTGTGTCCCCTACATCTCTAAAACGTCAAAA
1 CACACGGCCTAGCACAT-GG-GCATGATCTGGCCGTGTGTCCCCTACATCTCTAAAACGTCAAAA
*
88626084 CAGAATGCTCAGAATTGAT
64 CAGAATGCTCAAAATTGAT
* ** * * *
88626103 CACACGGCCTAGCACATGGGCATGATCTGGCCGTGTGTCTCCTTTATCTTTAAAATGTCAAAATA
1 CACACGGCCTAGCACATGGGCATGATCTGGCCGTGTGTCCCCTACATCTCTAAAACGTCAAAACA
88626168 GAATGCTCAAAATTGAT
66 GAATGCTCAAAATTGAT
* * *
88626185 CACACGACTTGGCACATGGGCATG
1 CACACGGCCTAGCACATGGGCATG
88626209 TGGCTTGGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
82 74 0.80
83 2 0.02
84 17 0.18
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (82 bp):
CACACGGCCTAGCACATGGGCATGATCTGGCCGTGTGTCCCCTACATCTCTAAAACGTCAAAACA
GAATGCTCAAAATTGAT
Found at i:88629133 original size:27 final size:25
Alignment explanation
Indices: 88629081--88629133 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
88629071 AAACTCTTCT
*
88629081 AAAAGAAACTCAAGAGAAATTCTTA
1 AAAAGAAACTCAAGAGAAATTATTA
*
88629106 AAAAGAAAACTCAAAGAGAATTTATTA
1 AAAAG-AAACTC-AAGAGAAATTATTA
88629133 A
1 A
88629134 CGCAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 6 0.25
27 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.21
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTATTA
Found at i:88630265 original size:11 final size:12
Alignment explanation
Indices: 88630239--88630270 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
88630229 TAAATAATAT
88630239 GATCCTAGATAA
1 GATCCTAGATAA
88630251 -ATCC-AGATAA
1 GATCCTAGATAA
88630261 GATCCTAGAT
1 GATCCTAGAT
88630271 GTATATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.33
11 8 0.44
12 4 0.22
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (12 bp):
GATCCTAGATAA
Found at i:88636130 original size:49 final size:49
Alignment explanation
Indices: 88636058--88636155 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
88636048 ATGTAAATGA
*
88636058 ATCAAAAATATAAAAGTATCAAAGCTATGATGAATTGACGGATATTGAG
1 ATCAAAAATATAAAAGTATCAAAGCTATGATGAATAGACGGATATTGAG
88636107 ATCAAAAATATAAAAGTATCAAAGCTATGATGAATAGACGGATATTGAG
1 ATCAAAAATATAAAAGTATCAAAGCTATGATGAATAGACGGATATTGAG
88636156 TCCCAGTTGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.48, C:0.08, G:0.18, T:0.26
Consensus pattern (49 bp):
ATCAAAAATATAAAAGTATCAAAGCTATGATGAATAGACGGATATTGAG
Found at i:88639907 original size:46 final size:44
Alignment explanation
Indices: 88639728--88639944 Score: 190
Period size: 46 Copynumber: 4.7 Consensus size: 44
88639718 ATTGTGAGCT
* * *
88639728 AGTGTAAGACATGTTTGGGACATGCATCGG-TCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-ACGA-GAT--GAGTC
* *
88639774 AGTGTAAGAACATGTCTGGGACATGGCATCGGC-ATTGAGACGAGTGC
1 AGTGTAAG-ACATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGT-C
* *
88639821 TAGTGTAAGACATGTTTGGGACATGCATCGGCCT-CAAGATGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG--AGTC
* *
88639868 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGTC
*
88639912 TGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
88639945 ACCTTACCCC
Statistics
Matches: 143, Mismatches: 14, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 65 0.45
47 32 0.22
48 19 0.13
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGTC
Found at i:88642272 original size:20 final size:20
Alignment explanation
Indices: 88642247--88642284 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88642237 TATTTAGGGC
88642247 AAAAATTTTCT-AAGTTCTAT
1 AAAAA-TTTCTAAAGTTCTAT
88642267 AAAAATTTCTAAAGTTCT
1 AAAAATTTCTAAAGTTCT
88642285 CAGTTTAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (20 bp):
AAAAATTTCTAAAGTTCTAT
Found at i:88643113 original size:9 final size:8
Alignment explanation
Indices: 88643074--88643112 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
88643064 AGTTTCTTTA
88643074 TTTTTTCAT
1 TTTTTTC-T
* *
88643083 TTCTCTCT
1 TTTTTTCT
88643091 TTTTTTCT
1 TTTTTTCT
88643099 TTTTTTCT
1 TTTTTTCT
88643107 TTTTTT
1 TTTTTT
88643113 TGCCATATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 21 0.81
9 5 0.19
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTCT
Found at i:88643524 original size:146 final size:146
Alignment explanation
Indices: 88643282--88643586 Score: 445
Period size: 146 Copynumber: 2.1 Consensus size: 146
88643272 AAACATGTTA
* *
88643282 ATTTTTTCTAAAAAAGATAAAGTTTAGATTTTTAAAATAAAAATATTTTTTTAGTCATATTAAAG
1 ATTTTTT-TTAAAAAGATAAAGTTTAGATTTTTAAAATAAAAATATATTTTTAGTCATATTAAAG
* *
88643347 GAAATGTTTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAATTATTTCGAAATAAA-GTTTGAT
65 GAAAAGTTTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAATGTTTGAT
*
88643411 TTTTAAGAAAAATGGTG
130 TTTTAAGAAAAATAGTG
* *
88643428 ATTTTTTTTAAAAAGA-AAAGGTTTAGATTTTTAAAATAAAAATATGATTTTTCGTCATTTTAAA
1 ATTTTTTTTAAAAAGATAAA-GTTTAGATTTTTAAAATAAAAATAT-ATTTTTAGTCATATTAAA
* * *
88643492 GGAAAAGTTTAAATTTTTTAAAATAAA-TTTTGATCTTTTTCAACTATTTCTAAATAAATTTTTG
64 GGAAAAGTTTAAA-TTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAATGTTTG
*
88643556 ATTTTTAAGAAAAGTAGTG
128 ATTTTTAAGAAAAATAGTG
*
88643575 ATTCTTTTTAAA
1 ATTTTTTTTAAA
88643587 GAAACTTTGA
Statistics
Matches: 143, Mismatches: 12, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
144 3 0.02
145 33 0.23
146 63 0.44
147 44 0.31
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.45
Consensus pattern (146 bp):
ATTTTTTTTAAAAAGATAAAGTTTAGATTTTTAAAATAAAAATATATTTTTAGTCATATTAAAGG
AAAAGTTTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAATGTTTGATT
TTTAAGAAAAATAGTG
Found at i:88648635 original size:13 final size:14
Alignment explanation
Indices: 88648617--88648652 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
88648607 CCTAAATTTC
88648617 TTCTTTTCTTC-TT
1 TTCTTTTCTTCTTT
88648630 TTCTTTTC-TCTTT
1 TTCTTTTCTTCTTT
88648643 TTCTTTTCTT
1 TTCTTTTCTT
88648653 TCTGTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.10
13 18 0.86
14 1 0.05
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTCTTCTTT
Found at i:88649291 original size:45 final size:45
Alignment explanation
Indices: 88649240--88649325 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
88649230 ATGTGATCTG
*
88649240 AACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCCA
1 AACTCATTGAGTCGTGGTCTGAGTTCATGATATATGTGACATCCA
*
88649285 AACTCATTGAGTCGTGGTCTGAGTTCATGATGTATGTGACA
1 AACTCATTGAGTCGTGGTCTGAGTTCATGATATATGTGACA
88649326 CATGTTTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (45 bp):
AACTCATTGAGTCGTGGTCTGAGTTCATGATATATGTGACATCCA
Found at i:88652291 original size:49 final size:49
Alignment explanation
Indices: 88652162--88652301 Score: 167
Period size: 49 Copynumber: 2.8 Consensus size: 49
88652152 TATTGTGAGG
*
88652162 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC--AAAACTGTGA
* * * *
88652213 TCACACGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTA-T-TGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAA--ACTGTGA
* *
88652262 TCGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
88652302 GATAGCTTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
49 40 0.52
50 1 0.01
51 36 0.47
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (49 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAAACTGTGA
Found at i:88659703 original size:12 final size:12
Alignment explanation
Indices: 88659663--88659696 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
88659653 ATCAATTATT
88659663 CATTCATTCATC
1 CATTCATTCATC
88659675 CATTCA-TCAATC
1 CATTCATTC-ATC
88659687 CATTCATTCA
1 CATTCATTCA
88659697 CTCATTCGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.10
12 16 0.80
13 2 0.10
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (12 bp):
CATTCATTCATC
Found at i:88663754 original size:29 final size:29
Alignment explanation
Indices: 88663682--88663777 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 29
88663672 AAGTCTACAT
* * *
88663682 ACATGCATTTGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
88663710 TCATACATATGGCCCATTAGGCCCAAATA
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
88663739 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
88663768 ACATTCATAT
1 ACATTCATAT
88663778 ACATGCTTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 20 0.35
29 37 0.65
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:88667443 original size:42 final size:42
Alignment explanation
Indices: 88667349--88667499 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 42
88667339 GATTTAAGAT
88667349 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGA
** *
88667391 TTACACGTAAGACTATGTCTGGGACATTGGCATCGTATCTGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGA
* * * ** *
88667433 -TATCGTGTAAGACCCTATCAGGGACAGAGGCATCG-ACACTGAA
1 TTA-CGTGTAAGACCATGTCTGGGACATTGGCATCGTA-TCTG-A
* **
88667476 TTACATGTAAGACCACATCTGGGA
1 TTACGTGTAAGACCATGTCTGGGA
88667500 TGTAGGCATT
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
41 3 0.03
42 66 0.74
43 18 0.20
44 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGA
Found at i:88670762 original size:29 final size:29
Alignment explanation
Indices: 88670698--88670815 Score: 184
Period size: 29 Copynumber: 4.1 Consensus size: 29
88670688 CATACATGCA
* * * *
88670698 TATGGCCCACTAAGCCC-AATCTCATTCA
1 TATGGCCCATTAGGCCCAAATCACATTCG
*
88670726 TATGGCCCATTAGGCCCAAATAACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
88670755 TATGGCCCATTAGGCCCAAATCACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
88670784 TATGGCCCATTAGGCCCAAATCACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
88670813 TAT
1 TAT
88670816 ACATGTTTTC
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 15 0.18
29 68 0.82
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTCG
Found at i:88678933 original size:30 final size:30
Alignment explanation
Indices: 88678897--88678954 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
88678887 CCCGAGCCTG
*
88678897 GGGGCAAAAGTGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGCAAAAGTTTA
* *
88678927 GGGGCAAAAATGTAATTTTGCCAAAGTT
1 GGGGCAAAAATGTAATTATGCAAAAGTT
88678955 CGTATTAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGCAAAAGTTTA
Found at i:88691542 original size:18 final size:18
Alignment explanation
Indices: 88691519--88691553 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
88691509 AGGGTGCCGA
88691519 TGATGATGATGACGAGGT
1 TGATGATGATGACGAGGT
88691537 TGATGATGATGACGAGG
1 TGATGATGATGACGAGG
88691554 AGACCCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.40, T:0.26
Consensus pattern (18 bp):
TGATGATGATGACGAGGT
Found at i:88694547 original size:24 final size:23
Alignment explanation
Indices: 88694511--88694560 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
88694501 TCAAGTACAT
88694511 TTTAGTTTTTGTTTTTCATTTTAG
1 TTTAGTTTTTGTTTTT-ATTTTAG
*
88694535 TTTA-TTTTCTGTTTTTATTTTTG
1 TTTAGTTTT-TGTTTTTATTTTAG
88694558 TTT
1 TTT
88694561 TTGTTTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.10, C:0.04, G:0.10, T:0.76
Consensus pattern (23 bp):
TTTAGTTTTTGTTTTTATTTTAG
Found at i:88697890 original size:27 final size:27
Alignment explanation
Indices: 88697858--88698035 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
88697848 ATATTGAGTC
* *
88697858 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
88697885 CACACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
88697912 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** *
88697940 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
* **
88697967 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
88697994 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
88698021 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88698036 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:88698534 original size:12 final size:12
Alignment explanation
Indices: 88698517--88698543 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
88698507 ATGGCATACT
88698517 TATGTATATATA
1 TATGTATATATA
88698529 TATGTATATATA
1 TATGTATATATA
88698541 TAT
1 TAT
88698544 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:88720521 original size:29 final size:27
Alignment explanation
Indices: 88720503--88720572 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
88720493 ATATTAAGTC
88720503 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
88720530 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
88720558 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
88720573 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:88720566 original size:28 final size:28
Alignment explanation
Indices: 88720503--88720600 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
88720493 ATATTAAGTC
*
88720503 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
88720530 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
88720558 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
88720587 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88720601 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:88730266 original size:52 final size:48
Alignment explanation
Indices: 88730183--88730284 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 48
88730173 TGGCACTTTT
88730183 AAGGTAAACAACACCCGTTTAAAACCCTATTTTGATGAGATTGATAGCAGG
1 AAGGTAAACAACACCCGTTTAAAACCCTATTTT-A--AGATTGATAGCAGG
* *
88730234 ANAGGTAAACAACACCCGTTTAAAACCTTATTTTAAGATTGATAGTAGG
1 A-AGGTAAACAACACCCGTTTAAAACCCTATTTTAAGATTGATAGCAGG
88730283 AA
1 AA
88730285 TGAGGAGTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
48 1 0.02
49 14 0.29
51 2 0.04
52 31 0.65
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (48 bp):
AAGGTAAACAACACCCGTTTAAAACCCTATTTTAAGATTGATAGCAGG
Found at i:88737761 original size:34 final size:34
Alignment explanation
Indices: 88737691--88737784 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 34
88737681 CTGATACTGA
* * *
88737691 ACTGAAATGGGCCAAGGCCCACACTAATACTACT
1 ACTGATATGGGCTAAGGCCCACACTGATACTACT
* *
88737725 ACTG-TATTGGGCTAAGGCCCACACTGATATTGCT
1 ACTGATA-TGGGCTAAGGCCCACACTGATACTACT
* *
88737759 ACTGATATGGGCTTAGGCCCAGACTG
1 ACTGATATGGGCTAAGGCCCACACTG
88737785 TTCAACTCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
33 1 0.02
34 48 0.94
35 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (34 bp):
ACTGATATGGGCTAAGGCCCACACTGATACTACT
Found at i:88741441 original size:13 final size:13
Alignment explanation
Indices: 88741423--88741447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88741413 CTTGGCAGGG
88741423 ACACGCCCGTGTA
1 ACACGCCCGTGTA
88741436 ACACGCCCGTGT
1 ACACGCCCGTGT
88741448 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:88763921 original size:31 final size:31
Alignment explanation
Indices: 88763886--88763962 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
88763876 AACCGAAGCT
*
88763886 ATCCCTTTTAATAATTTTGGTGGTCGTCACC
1 ATCCCTTTTAATAATTTTGATGGTCGTCACC
* * *
88763917 ATCCCTTTTTAT-A-GTTGATGGTTGTCACC
1 ATCCCTTTTAATAATTTTGATGGTCGTCACC
*
88763946 ATCCCTTTTCATAATTT
1 ATCCCTTTTAATAATTT
88763963 GATAGCCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 24 0.63
30 2 0.05
31 12 0.32
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.45
Consensus pattern (31 bp):
ATCCCTTTTAATAATTTTGATGGTCGTCACC
Found at i:88764072 original size:119 final size:119
Alignment explanation
Indices: 88763856--88764138 Score: 372
Period size: 119 Copynumber: 2.4 Consensus size: 119
88763846 GGTTGTCACC
* * * *** *
88763856 ATCCTTTTTCAT-ATATCGATAACCGAAGCTATCCCTTTTAATAATTTTGGTGGTCGTCACCATC
1 ATCCTTTTTCATAAT-TCGATAGCCGAAGCTATCCCTTTTCAT-AGTTCAATGGTCATCACCATC
*
88763920 CCTTTTTATAGTTGATGGTTGTCACCATCCCTTTTCATAATTTGATAGCCAAAGCT
64 CCTTTTTATAGTTGATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCAAAGCT
*
88763976 ATCC-TTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCAATGGTCATCGCCATCCC
1 ATCCTTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCAATGGTCATCACCATCCC
* **
88764040 TTTTTCATTGTTGATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCT
66 TTTTT-ATAGTTGATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCAAAGCT
* * * *
88764095 ATCCTTTTTTCATAATTTGATAGCCAAAGTTATCTCTTTTCATA
1 ATCC-TTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATA
88764139 ATTCGATAGC
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
118 22 0.15
119 81 0.57
120 6 0.04
121 34 0.24
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.41
Consensus pattern (119 bp):
ATCCTTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAGTTCAATGGTCATCACCATCCC
TTTTTATAGTTGATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCAAAGCT
Found at i:88764106 original size:31 final size:31
Alignment explanation
Indices: 88764070--88764164 Score: 129
Period size: 31 Copynumber: 3.1 Consensus size: 31
88764060 TCACCATCCC
*
88764070 TTTTCATAATTTGATAGCTGAAGCTATCCTT
1 TTTTCATAATTTGATAGCCGAAGCTATCCTT
* * *
88764101 TTTTCATAATTTGATAGCCAAAGTTAT-CTC
1 TTTTCATAATTTGATAGCCGAAGCTATCCTT
* *
88764131 TTTTCATAATTCGATAGCCGAAGCTATCCCT
1 TTTTCATAATTTGATAGCCGAAGCTATCCTT
88764162 TTT
1 TTT
88764165 CATTGATCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 26 0.48
31 28 0.52
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (31 bp):
TTTTCATAATTTGATAGCCGAAGCTATCCTT
Found at i:88764175 original size:30 final size:30
Alignment explanation
Indices: 88763946--88764167 Score: 191
Period size: 30 Copynumber: 7.4 Consensus size: 30
88763936 GGTTGTCACC
* *
88763946 ATCCCTTTTCATAATTTGATAGCCAAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
88763976 AT-CCTTTTCATAATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
* * * * * *
88764005 ATCCCTTTTCATAGTTCAATGGTC-ATCGCC
1 ATCCCTTTTCATAATTCGATAGCCGA-AGCT
** * * * *
88764035 ATCCCTTTTTCATTGTT-GATGGTCGTCA-CC
1 ATCCC-TTTTCATAATTCGATAGCCG-AAGCT
* *
88764065 ATCCCTTTTCATAATTTGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
* * * *
88764095 ATCCTTTTTTCATAATTTGATAGCCAAAGTT
1 ATCC-CTTTTCATAATTCGATAGCCGAAGCT
*
88764126 ATCTCTTTTCATAATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
88764156 ATCCCTTTTCAT
1 ATCCCTTTTCAT
88764168 TGATCGATGA
Statistics
Matches: 155, Mismatches: 29, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
29 38 0.25
30 82 0.53
31 35 0.23
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGCCGAAGCT
Found at i:88765976 original size:22 final size:22
Alignment explanation
Indices: 88765948--88766000 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
88765938 AAATGATCAC
** *
88765948 GGTGGTGGTGCGGCGGTGGTGA
1 GGTGGTGGTGCAACGATGGTGA
*
88765970 GGTGGTGGTGCAATGATGGTGA
1 GGTGGTGGTGCAACGATGGTGA
88765992 GGTGGTGGT
1 GGTGGTGGT
88766001 ATGGTTCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.09, C:0.06, G:0.58, T:0.26
Consensus pattern (22 bp):
GGTGGTGGTGCAACGATGGTGA
Found at i:88766000 original size:11 final size:11
Alignment explanation
Indices: 88765948--88766000 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
88765938 AAATGATCAC
*
88765948 GGTGGTGGTGC
1 GGTGGTGGTGA
*
88765959 GGCGGTGGTGA
1 GGTGGTGGTGA
88765970 GGTGGTGGTGCA
1 GGTGGTGGTG-A
* *
88765982 -ATGATGGTGA
1 GGTGGTGGTGA
88765992 GGTGGTGGT
1 GGTGGTGGT
88766001 ATGGTTCATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
10 1 0.03
11 31 0.94
12 1 0.03
ACGTcount: A:0.09, C:0.06, G:0.58, T:0.26
Consensus pattern (11 bp):
GGTGGTGGTGA
Found at i:88772275 original size:24 final size:24
Alignment explanation
Indices: 88772244--88772297 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
88772234 TATTGCAAAG
* *
88772244 AAGCCACTCAAT-AGTGTTGTGGTC
1 AAGCCACTCAATAACT-TTGTGGCC
88772268 AAGCCACTCAATAACTTTGTGGCC
1 AAGCCACTCAATAACTTTGTGGCC
88772292 AAGCCA
1 AAGCCA
88772298 TTTAATATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (24 bp):
AAGCCACTCAATAACTTTGTGGCC
Found at i:88773648 original size:29 final size:29
Alignment explanation
Indices: 88773615--88773673 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
88773605 TCCACCTTGA
* * *
88773615 CACGAATTCTCAATGAACAAGTTCTTCAC
1 CACGAACTCTCAATGAAAAAGTTCTCCAC
88773644 CACGAACTCTCAATGAAAAAGTTCTCCAC
1 CACGAACTCTCAATGAAAAAGTTCTCCAC
88773673 C
1 C
88773674 TCTTCCATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.24
Consensus pattern (29 bp):
CACGAACTCTCAATGAAAAAGTTCTCCAC
Found at i:88778028 original size:22 final size:19
Alignment explanation
Indices: 88778003--88778050 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
88777993 TACAATTTTG
88778003 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
88778025 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
88778043 ATTAAATT
1 ATTAAATT
88778051 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:88781340 original size:46 final size:46
Alignment explanation
Indices: 88781288--88781555 Score: 197
Period size: 46 Copynumber: 5.8 Consensus size: 46
88781278 ATTTGGACAT
* *
88781288 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGC
* * * * *
88781334 CCGAACTCGTTGGGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGGC
* * * * *
88781379 ATCCAAATTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGC
* * * * * *
88781427 CCTAACTCATTGAGTTGTGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGGC
* * *
88781472 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGC
* * * *
88781520 CTGAGCTCGTTTAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88781556 GCGGGTTACA
Statistics
Matches: 171, Mismatches: 37, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
43 11 0.06
45 10 0.06
46 83 0.49
47 47 0.27
48 10 0.06
50 10 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGC
Found at i:88781399 original size:93 final size:93
Alignment explanation
Indices: 88781285--88781548 Score: 375
Period size: 93 Copynumber: 2.8 Consensus size: 93
88781275 GATATTTGGA
* * *
88781285 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGGGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGTT
*
88781350 GAGTCCAAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* * * * *
88781378 CATCCAAATTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAATGCCCTAACTCATTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGTT
*
88781443 GTGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* * * * * * *
88781471 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTTAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGTT
88781536 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
88781549 CTTATGGGCG
Statistics
Matches: 148, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 148 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:88787566 original size:47 final size:47
Alignment explanation
Indices: 88787503--88787853 Score: 309
Period size: 47 Copynumber: 7.5 Consensus size: 47
88787493 CAAAGGCCCA
*
88787503 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
* * * * *
88787550 AACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA-T--GC--CCG
1 AACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
*
88787596 AACTCATTGAGGTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
* * * * *
88787643 AACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA-T--GC--CCG
1 AACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
*
88787689 AACTCATTGAGGTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
* * * * *
88787736 AACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA-T--GC--CCG
1 AACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
*
88787782 AACTCATTGAGGTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
*
88787829 AGCTCATTGAGTTGAGTCCGAGTTC
1 AACTCATTGAGTTGAGTCCGAGTTC
88787854 ACTTATGGAT
Statistics
Matches: 241, Mismatches: 36, Indels: 54
0.73 0.11 0.16
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 12 0.05
46 75 0.31
47 100 0.41
48 12 0.05
50 15 0.06
51 6 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (47 bp):
AACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
Found at i:88787612 original size:93 final size:93
Alignment explanation
Indices: 88787449--88787900 Score: 751
Period size: 93 Copynumber: 4.9 Consensus size: 93
88787439 AGGATATTTG
* ** * * * *
88787449 GGCATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAAGGCCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
*
88787514 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 GTGAGTCCGAGTTCGTGAGATGTAACTA
88787542 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
88787607 GTGAGTCCGAGTTCGTGAGATGTAACTA
66 GTGAGTCCGAGTTCGTGAGATGTAACTA
88787635 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
88787700 GTGAGTCCGAGTTCGTGAGATGTAACTA
66 GTGAGTCCGAGTTCGTGAGATGTAACTA
88787728 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
88787793 GTGAGTCCGAGTTCGTGAGATGTAACTA
66 GTGAGTCCGAGTTCGTGAGATGTAACTA
* * * ** * *
88787821 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
* *
88787886 TTGTGTCCGAGTTCG
66 GTGAGTCCGAGTTCG
88787901 CTTATGGGCG
Statistics
Matches: 342, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 342 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
GTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:88789411 original size:40 final size:40
Alignment explanation
Indices: 88789353--88789570 Score: 253
Period size: 40 Copynumber: 5.5 Consensus size: 40
88789343 AAGCCAAGTA
* * * *
88789353 CCTTCGGGAGTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
88789392 CCTCCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
88789432 CCTTTGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
88789472 CCTTCGGGACTTAGCCCGAATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
88789512 CCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
88789552 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
88789571 TTATCATCCG
Statistics
Matches: 155, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
39 11 0.07
40 144 0.93
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:88794448 original size:34 final size:34
Alignment explanation
Indices: 88794402--88794468 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
88794392 TAATATTAGT
* *
88794402 TGGGCCTTAGCCC-ATTACAGTACCAGTATCAGTG
1 TGGGCCTCAGCCCAATT-CAGTAACAGTATCAGTG
*
88794436 TGGGCCTCAGCCCAATTTAGTAACAGTATCAGT
1 TGGGCCTCAGCCCAATTCAGTAACAGTATCAGT
88794469 ATAGAATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (34 bp):
TGGGCCTCAGCCCAATTCAGTAACAGTATCAGTG
Found at i:88802147 original size:24 final size:24
Alignment explanation
Indices: 88802117--88802164 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
88802107 AAACTAAGAG
88802117 TCATACTTCATTATATCATAATCA
1 TCATACTTCATTATATCATAATCA
88802141 TCATACTTCATTATATCATAATCA
1 TCATACTTCATTATATCATAATCA
88802165 AACATCAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.42
Consensus pattern (24 bp):
TCATACTTCATTATATCATAATCA
Found at i:88803830 original size:43 final size:42
Alignment explanation
Indices: 88803722--88803842 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 42
88803712 CATATGTCAT
* *
88803722 GACATAGG-ATTCGATATGTGATTTCATGTAAGACCACGTCTGG
1 GACATAGGCA-TCG-TATTTGATTTCGTGTAAGACCACGTCTGG
* * *
88803765 GACGTTGGCATCG-ACTTATGATTTACGTGTAAGACCATGT-TAGG
1 GACATAGGCATCGTA-TT-TGATTT-CGTGTAAGACCACGTCT-GG
88803809 GACATAGGCATCGTATTTGATTTCGTGTAAGACC
1 GACATAGGCATCGTATTTGATTTCGTGTAAGACC
88803843 CTATCTGGGA
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
41 1 0.02
42 12 0.18
43 22 0.34
44 29 0.45
45 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GACATAGGCATCGTATTTGATTTCGTGTAAGACCACGTCTGG
Found at i:88803853 original size:42 final size:42
Alignment explanation
Indices: 88803722--88803862 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 42
88803712 CATATGTCAT
* *
88803722 GACATAGG-ATTCGATATGTGATTTCATGTAAGACCAC-GTCTGG
1 GACATAGGCA-TCG-TATTTGATTTCGTGTAAGACC-CTGTCTGG
* * *
88803765 GACGTTGGCATCG-ACTTATGATTTACGTGTAAGACCATGT-TAGG
1 GACATAGGCATCGTA-TT-TGATTT-CGTGTAAGACCCTGTCT-GG
*
88803809 GACATAGGCATCGTATTTGATTTCGTGTAAGACCCTATCTGG
1 GACATAGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGG
88803851 GACAGT-GGCATC
1 GACA-TAGGCATC
88803863 AATATTAGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
41 1 0.01
42 26 0.32
43 24 0.30
44 28 0.35
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
GACATAGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGG
Found at i:88812361 original size:22 final size:24
Alignment explanation
Indices: 88812330--88812380 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
88812320 TGGTATGTTT
*
88812330 TTGGTTTATGGAATG-ACATGA-A
1 TTGGTATATGGAATGAACATGAGA
**
88812352 TTGGTATATGTTATGAACATGAGA
1 TTGGTATATGGAATGAACATGAGA
88812376 TTGGT
1 TTGGT
88812381 TGCTAATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.50
23 6 0.25
24 6 0.25
ACGTcount: A:0.29, C:0.04, G:0.27, T:0.39
Consensus pattern (24 bp):
TTGGTATATGGAATGAACATGAGA
Found at i:88815785 original size:27 final size:27
Alignment explanation
Indices: 88815751--88815932 Score: 215
Period size: 27 Copynumber: 6.7 Consensus size: 27
88815741 TGGATAAGTT
*
88815751 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
88815778 GTAGAATTACTGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
** *
88815804 AGTAGAATTATTGAAATACCCCTGTAGG
1 -GTAGAATTACCGAAATACCCCTGTAAG
*
88815832 GTAGAATTATCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
** * *
88815858 GATAGAATTACTAAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* *
88815886 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
88815913 GTAGAATTACCGAGATACCC
1 GTAGAATTACCGAAATACCC
88815933 TTGTGGGCTA
Statistics
Matches: 134, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.03
27 127 0.95
28 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:88815835 original size:54 final size:53
Alignment explanation
Indices: 88815751--88815949 Score: 249
Period size: 54 Copynumber: 3.7 Consensus size: 53
88815741 TGGATAAGTT
* *
88815751 GTAGAATTACCGAAATACCCTTGTAAGGTAGAATTACTGAAATACCCCTGTAG
1 GTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAG
* *
88815804 AGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCCTGTAG
1 -GTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACT-GAAATACCCCTGTAG
* * *
88815858 GATAGAATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGG
1 G-TAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTA-G
* * *
88815913 GTAGAATTACCGAGATACCCTTGT-GGGCTAAAATTAC
1 GTAGAATTACTGAAATACCCTTGTAGGG-TAGAATTAC
88815950 CATTTTGCCC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
53 5 0.04
54 119 0.94
55 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (53 bp):
GTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAG
Found at i:88815949 original size:81 final size:80
Alignment explanation
Indices: 88815751--88815936 Score: 273
Period size: 81 Copynumber: 2.3 Consensus size: 80
88815741 TGGATAAGTT
* * **
88815751 GTAGAATTACCGAAATACCCTTGTAAGGTAGAATTACTGAAATACCCCTGTAGAGTAGAATTATT
1 GTAGAATTACCGAAATACCCTTGT-AGGTAGAATTACTAAAATACCCCTGTAGAGTAGAAATACC
88815816 GAAATACCCCTGTAGG
65 GAAATACCCCTGTAGG
* * * *
88815832 GTAGAATTATCGAAATACCCCTGTAGGATAGAATTACTAAAATACCCTTGTAGGGTAGAAATACC
1 GTAGAATTACCGAAATACCCTTGTAGG-TAGAATTACTAAAATACCCCTGTAGAGTAGAAATACC
88815897 GAAATACCCCTGTAGG
65 GAAATACCCCTGTAGG
*
88815913 GTAGAATTACCGAGATACCCTTGT
1 GTAGAATTACCGAAATACCCTTGT
88815937 GGGCTAAAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 3 0.03
81 90 0.97
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (80 bp):
GTAGAATTACCGAAATACCCTTGTAGGTAGAATTACTAAAATACCCCTGTAGAGTAGAAATACCG
AAATACCCCTGTAGG
Found at i:88816627 original size:27 final size:26
Alignment explanation
Indices: 88816583--88816634 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
88816573 CTCGCTGTAA
*
88816583 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
88816610 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
88816635 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:88817762 original size:26 final size:26
Alignment explanation
Indices: 88817726--88817778 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
88817716 CTGAGACTGT
*
88817726 AGCTAGGCTACCGTAAAAGGAAACAA
1 AGCTAGGCTACCGCAAAAGGAAACAA
88817752 AGCTAGGCTACCGCAAAAGGAAACAA
1 AGCTAGGCTACCGCAAAAGGAAACAA
88817778 A
1 A
88817779 CTCAAACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.09
Consensus pattern (26 bp):
AGCTAGGCTACCGCAAAAGGAAACAA
Found at i:88821757 original size:27 final size:26
Alignment explanation
Indices: 88821713--88821764 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
88821703 CTCGCTGCAA
*
88821713 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
88821740 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
88821765 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:88827148 original size:31 final size:31
Alignment explanation
Indices: 88827100--88827184 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
88827090 TCAATCTCAA
88827100 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* * *
88827130 CATGTCACTGTGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
88827161 CATATCACTGGGCCGAAGCCTTTA
1 CATATCACTGGGCCGAAGCCTTTA
88827185 TTGTAAAGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:88827430 original size:25 final size:25
Alignment explanation
Indices: 88827402--88827471 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
88827392 CTCTTTTAAT
* *
88827402 AACTGGGGCAACGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
88827427 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
88827452 AACTGGGGCAAAGCTCTTTT
1 AACTGGGGCAAAGCCCTTTT
88827472 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:88827535 original size:11 final size:11
Alignment explanation
Indices: 88827519--88827577 Score: 72
Period size: 11 Copynumber: 5.7 Consensus size: 11
88827509 TATATGAATT
88827519 TATCATGTGCA
1 TATCATGTGCA
*
88827530 TATCA--TACA
1 TATCATGTGCA
88827539 TATCATGTGCA
1 TATCATGTGCA
*
88827550 TATCA--TACA
1 TATCATGTGCA
88827559 TATCATGTGCA
1 TATCATGTGCA
88827570 TATCATGT
1 TATCATGT
88827578 CAAATAATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 16 0.40
11 24 0.60
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:88827544 original size:20 final size:20
Alignment explanation
Indices: 88827519--88827575 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
88827509 TATATGAATT
88827519 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
88827539 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
88827559 TATCATGTGCATATCAT
1 TATCATGTGCATATCAT
88827576 GTCAAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:88828485 original size:52 final size:52
Alignment explanation
Indices: 88828407--88828514 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
88828397 CTTAAACCAC
*
88828407 AAGATACAAATGGAAAGAAGGTTCGAATACTTACCAAGAGATCTACTCGTTG
1 AAGATACAAATAGAAAGAAGGTTCGAATACTTACCAAGAGATCTACTCGTTG
*
88828459 AAGATACAAATAGAAAGAAGGTTCGAATACTTACCAAGAGTTCTACTCGTTG
1 AAGATACAAATAGAAAGAAGGTTCGAATACTTACCAAGAGATCTACTCGTTG
88828511 AAGA
1 AAGA
88828515 ACGTTCCAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (52 bp):
AAGATACAAATAGAAAGAAGGTTCGAATACTTACCAAGAGATCTACTCGTTG
Found at i:88829676 original size:3 final size:3
Alignment explanation
Indices: 88829668--88829692 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
88829658 ATTTAATTAC
88829668 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
88829693 TTTATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:88831982 original size:25 final size:25
Alignment explanation
Indices: 88831954--88832023 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
88831944 CTCTTTTAAT
88831954 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
88831979 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
88832004 AACTGGGGTAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
88832024 GCATTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:88834717 original size:37 final size:37
Alignment explanation
Indices: 88834667--88834745 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
88834657 TTATTACGAA
* * *
88834667 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
88834704 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
88834741 GTCTT
1 GTCTT
88834746 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:88834938 original size:49 final size:49
Alignment explanation
Indices: 88834864--88835841 Score: 1781
Period size: 49 Copynumber: 20.1 Consensus size: 49
88834854 CCCTTCGGGA
* * * * *
88834864 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * * *
88834911 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
88834960 CTTATCACGTATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835007 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835056 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835105 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835154 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835203 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835252 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835301 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835350 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835399 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835448 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835497 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835546 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835595 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835644 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835693 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835742 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88835791 CCTATCACGTATAT--ACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88835838 CTTA
1 CTTA
88835842 CTATCATTTC
Statistics
Matches: 910, Mismatches: 16, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
47 88 0.10
48 3 0.00
49 819 0.90
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88839462 original size:3 final size:3
Alignment explanation
Indices: 88839456--88839483 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
88839446 CTACTACTAC
88839456 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
88839484 TTTATAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:88842590 original size:23 final size:25
Alignment explanation
Indices: 88842564--88842615 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 25
88842554 AGTAAGCCAT
*
88842564 ATACAAACAAATAAAC-TTATC-AA
1 ATACAAACAAATAAACATCATCTAA
*
88842587 ATAC-AACATATAAACATCATCTAA
1 ATACAAACAAATAAACATCATCTAA
88842611 ATACA
1 ATACA
88842616 TATACTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 10 0.42
23 8 0.33
24 6 0.25
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (25 bp):
ATACAAACAAATAAACATCATCTAA
Found at i:88842997 original size:42 final size:43
Alignment explanation
Indices: 88842885--88843041 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
88842875 AGCTCGTACA
* * * * *
88842885 ATGCCAACGTCTCACACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* *
88842928 ATGCCACTATCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
* *
88842970 ATGCCAATGTCCCAGACGTGGTTTTACACATAAATCATAAGT-T-G
1 ATGCCAATGTCCCAGACGTGGTCTTACAC-GAAATCA-AA-TATCG
* * *
88843014 ATGCCAACGTTCCAAACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
88843042 TTAAAACACA
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 37 0.40
44 28 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:88845846 original size:40 final size:40
Alignment explanation
Indices: 88845774--88845984 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
88845764 TCTTCAGAAT
** * *
88845774 TTAG-CCGGATATAACCACTTGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * *
88845812 TTAGCCCAGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
88845852 TTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
88845892 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
88845932 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCAGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
88845972 TTAGCCCGGATAT
1 TTAGCCCGGATAT
88845985 CATTCAAATA
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
38 4 0.03
39 15 0.10
40 123 0.86
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:88849963 original size:19 final size:19
Alignment explanation
Indices: 88849939--88849977 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
88849929 AGTAAATTAC
*
88849939 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
88849958 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
88849977 T
1 T
88849978 GCCAGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:88850204 original size:50 final size:50
Alignment explanation
Indices: 88850143--88850239 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
88850133 TATGTACAAG
88850143 GGCTGTTACAAAGTGATTAATGCAGCTATTCAAGTTGGGATTGGTTACAT
1 GGCTGTTACAAAGTGATTAATGCAGCTATTCAAGTTGGGATTGGTTACAT
88850193 GGCTGTTACAAAGTGATTAATGCAGCTATTCAAGTTGGGATTGGTTA
1 GGCTGTTACAAAGTGATTAATGCAGCTATTCAAGTTGGGATTGGTTA
88850240 TATACAAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (50 bp):
GGCTGTTACAAAGTGATTAATGCAGCTATTCAAGTTGGGATTGGTTACAT
Found at i:88867053 original size:49 final size:49
Alignment explanation
Indices: 88866997--88867220 Score: 232
Period size: 49 Copynumber: 4.5 Consensus size: 49
88866987 TAGTATGTAT
* *
88866997 AGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTATACGC
1 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGC
* * * * ** * * *
88867046 AGTAGCCTACACTTTGTACTACACACGTGACCTAACCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACGC
* * * * * **
88867096 AGTAGCCTGTACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACGC
* * *
88867147 AGTAGCCTGCACTTAGTACGACACATGCGACCAATAATCCGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGC
88867196 AGTAGCCTGCACTTAGTACTACACA
1 AGTAGCCTGCACTTAGTACTACACA
88867221 CGTGACCTCA
Statistics
Matches: 141, Mismatches: 31, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
49 62 0.44
50 42 0.30
51 37 0.26
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGC
Found at i:88867212 original size:100 final size:99
Alignment explanation
Indices: 88866996--88867227 Score: 272
Period size: 100 Copynumber: 2.3 Consensus size: 99
88866986 CTAGTATGTA
** *
88866996 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTATACGCAGTAGCCTACACTTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTATACGCAGTAGCCTACACTTA
* * * *
88867061 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACGACACACGCGACCTAACAATCCGATACACG
* * * *
88867095 TAGTAGCCTGTACTTAGTACTACACATGTGATCGAAGTTAT-CGG-GTACGCATAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTATACGC--AGTAGCCTACA
* * *
88867158 CTTAGTACGACACATGCGACC-AATAATCCGGTACACG
62 CTTAGTACGACACACGCGACCTAACAATCCGATACACG
*
88867195 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
88867228 TCACAATAGA
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
99 34 0.30
100 47 0.42
101 31 0.28
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTATACGCAGTAGCCTACACTTA
GTACGACACACGCGACCTAACAATCCGATACACG
Found at i:88874521 original size:43 final size:41
Alignment explanation
Indices: 88874455--88874594 Score: 129
Period size: 43 Copynumber: 3.3 Consensus size: 41
88874445 TCATACAATA
* *
88874455 CCAACGTCCCAAATGAGGTCTTACATGTAATCAAATATTGATG
1 CCAATGTCCCAAAT-AGGTCTTACATGTAATCAAATA-CGATG
* * * * *
88874498 CCACTGTCCCAGATAGGATCTTACACGAAATCATATACGATG
1 CCAATGTCCCAAATAGG-TCTTACATGTAATCAAATACGATG
*
88874540 CCAATGTCCCAAACATGGTCTTACATGTAAATTTCAAAT-CGATG
1 CCAATGTCCCAAATA-GGTCTTACATGT-AA--TCAAATACGATG
*
88874584 CCAACGTCCCA
1 CCAATGTCCCA
88874595 GATGTGGTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
42 27 0.35
43 31 0.40
44 15 0.19
45 5 0.06
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (41 bp):
CCAATGTCCCAAATAGGTCTTACATGTAATCAAATACGATG
Found at i:88881683 original size:17 final size:17
Alignment explanation
Indices: 88881661--88881703 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
88881651 ACGAGCGTGC
88881661 TTATTTAAATATT-ATTT
1 TTATTTAAAT-TTCATTT
**
88881678 TTATTTTTATTTCATTT
1 TTATTTAAATTTCATTT
88881695 TTATTTAAA
1 TTATTTAAA
88881704 ATTCCATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTAAATTTCATTT
Found at i:88885540 original size:48 final size:49
Alignment explanation
Indices: 88885468--88885783 Score: 394
Period size: 48 Copynumber: 6.6 Consensus size: 49
88885458 TAAAGTACCA
* * * *
88885468 ATGCCATGTCCCTGACATGGTCTTACACTGGCACACATATCACCGA-TG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGACTG
*
88885516 ATGCCATGTCCCAGACATGATCTTACACAGGCACATATATCATC-ACTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGACTG
* * * *
88885564 ATGCCATGTCCTAGACTTGGTCTTACACAGGCAAATATATCATCG-CCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGACTG
* *
88885612 ATGCCATGTCCTAGACATGGTCTTACACAGGCACATATATCATCG-TTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGACTG
* *
88885660 ATGCCATGTCCCAGACATGGTCTTACACAGACACATATAGCATC-ACTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGACTG
* * * *
88885708 ATGCCATGTCCCAGACATGGTCTTACATAGGCACACATCTCA--GATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGA-CT-G
* *
88885757 ATACCATGTCCCAGACATAGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
88885784 TGGTGTAATA
Statistics
Matches: 236, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
47 2 0.01
48 208 0.88
49 26 0.11
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGACTG
Found at i:88885729 original size:144 final size:144
Alignment explanation
Indices: 88885468--88885740 Score: 440
Period size: 144 Copynumber: 1.9 Consensus size: 144
88885458 TAAAGTACCA
*
88885468 ATGCCATGTCCCTGACATGGTCTTACACTGGCACACATATCACCGATGATGCCATGTCCCAGACA
1 ATGCCATGTCCCTGACATGGTCTTACACAGGCACACATATCACCGATGATGCCATGTCCCAGACA
* * * *
88885533 TGATCTTACACAGGCACATATATCATCACTGATGCCATGTCCTAGACTTGGTCTTACACAGGCAA
66 TGATCTTACACAGACACATATAGCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCAA
88885598 ATATATCATCGCCG
131 ATATATCATCGCCG
* * *
88885612 ATGCCATGT-CCTAGACATGGTCTTACACAGGCACATATATCATCGTTGATGCCATGTCCCAGAC
1 ATGCCATGTCCCT-GACATGGTCTTACACAGGCACACATATCACCGATGATGCCATGTCCCAGAC
* *
88885676 ATGGTCTTACACAGACACATATAGCATCACTGATGCCATGTCCCAGACATGGTCTTACATAGGCA
65 ATGATCTTACACAGACACATATAGCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCA
88885741 CACATCTCAG
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
143 3 0.03
144 115 0.97
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (144 bp):
ATGCCATGTCCCTGACATGGTCTTACACAGGCACACATATCACCGATGATGCCATGTCCCAGACA
TGATCTTACACAGACACATATAGCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCAA
ATATATCATCGCCG
Found at i:88887076 original size:48 final size:48
Alignment explanation
Indices: 88887000--88887315 Score: 329
Period size: 48 Copynumber: 6.6 Consensus size: 48
88886990 TATGTGTGCC
* *
88887000 AGTGTAAGACCATGTCTGGGATATGGCATCGGCCA-TAATATTAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATTAGAGCT
* * * * *
88887048 AGTGCAAGACCATGTCTAGGACATGGCATGGGCATTGATATGT-GTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAT-TAGAGCT
** * * *
88887096 AGTGTAAGACCATGTCTGGGACATGGCGCCGACCACT-ATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTGATATTAGAGCT
*
88887144 AGT-TAAGACCATGTCTGGGACATGGCATCGGCATTGATATGT-GCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAT-TAGAGCT
* * * **
88887191 AGTGTAAGACCATGTCTAGGATATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATTAGAGCT
* * * *
88887239 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAT-TAGAGCT
* *
88887287 AGTGTAAGACCATGTTTGGAACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
88887316 TAACAATTCA
Statistics
Matches: 220, Mismatches: 39, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
46 3 0.01
47 38 0.17
48 174 0.79
49 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATTAGAGCT
Found at i:88887262 original size:143 final size:144
Alignment explanation
Indices: 88887000--88887315 Score: 415
Period size: 143 Copynumber: 2.2 Consensus size: 144
88886990 TATGTGTGCC
*
88887000 AGTGTAAGACCATGTCTGGGATATGGCATCGGCCATAATATTAGAGCTAGTGCAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAATATTAGAGCTAGTGCAAGACCATGTCT
* * * * * *
88887065 AGGACATGGCATGGGCATTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCGCCGACC
66 AGGACATGGCATCGGCATTGAGACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCACCGACC
* *
88887130 ACTATATG-AGAGCT
131 ACGACATGTA-AGCT
* * *
88887144 AGT-TAAGACCATGTCTGGGACATGGCATCGG-CATTGATATGT-GCGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TAATAT-TAGAGCTAGTGCAAGACCATGT
* * *
88887206 CTAGGATATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA
64 CTAGGACATGGCATCGGCATTGAGACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCACCGA
*
88887271 CCTCGACATGTAAGCT
129 CCACGACATGTAAGCT
* *
88887287 AGTGTAAGACCATGTTTGGAACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
88887316 TAACAATTCA
Statistics
Matches: 150, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
142 2 0.01
143 120 0.80
144 28 0.19
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAATATTAGAGCTAGTGCAAGACCATGTCT
AGGACATGGCATCGGCATTGAGACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCACCGACC
ACGACATGTAAGCT
Found at i:88887288 original size:96 final size:94
Alignment explanation
Indices: 88886987--88887315 Score: 381
Period size: 96 Copynumber: 3.4 Consensus size: 94
88886977 GACATTTGGG
* * *
88886987 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCCATAATATTAGAGCTAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGG-CAT-ATATGAGAGCTAGTG
* * *
88887052 CAAGACCATGTCTAGGACATGGCATGGGCAT
64 TAAGACCATGTCTGGGACATGGCATCGGCAT
* * * ** *
88887083 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCGCCGACCACTATATGAGAGCTAGT-
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCG-GCA-TATATGAGAGCTAGTG
88887147 TAAGACCATGTCTGGGACATGGCATCGGCAT
64 TAAGACCATGTCTGGGACATGGCATCGGCAT
* * * *
88887178 TGATATGTGCGCTAGTGTAAGACCATGTCTAGGATATGGCATCGGCATTGAGACGAGAGCTAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCA-T-ATATGAGAGCTAGTG
* *
88887243 TAAGACCATGTCTGGGACATGGCATCGACCT
64 TAAGACCATGTCTGGGACATGGCATCGGCAT
* * * * * *
88887274 CGACATGTAAGCTAGTGTAAGACCATGTTTGGAACATGGCAT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGATATGGCAT
88887316 TAACAATTCA
Statistics
Matches: 201, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
94 3 0.01
95 78 0.39
96 119 0.59
97 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (94 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCATATATGAGAGCTAGTGTA
AGACCATGTCTGGGACATGGCATCGGCAT
Found at i:88890933 original size:38 final size:38
Alignment explanation
Indices: 88890882--88890957 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
88890872 TTCATCCTTT
*
88890882 TTCATTTCTTTTGGCCGACAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
88890920 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
88890958 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:88892240 original size:40 final size:40
Alignment explanation
Indices: 88892146--88892290 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
88892136 TACTCGAATG
*
88892146 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
88892187 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
88892227 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
88892267 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
88892291 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:88898735 original size:14 final size:13
Alignment explanation
Indices: 88898716--88898756 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
88898706 AAAGGAGAAG
88898716 AAATTCAGAAAAAA
1 AAATTC-GAAAAAA
88898730 AAATTC-AAAAAA
1 AAATTCGAAAAAA
88898742 AAA-TCGAAAAAA
1 AAATTCGAAAAAA
88898754 AAA
1 AAA
88898757 GGAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.08
12 18 0.69
14 6 0.23
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (13 bp):
AAATTCGAAAAAA
Found at i:88898741 original size:12 final size:12
Alignment explanation
Indices: 88898723--88898767 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
88898713 AAGAAATTCA
88898723 GAAAAAAAAATTC
1 GAAAAAAAAA-TC
88898736 -AAAAAAAAATC
1 GAAAAAAAAATC
*
88898747 GAAAAAAAAA-G
1 GAAAAAAAAATC
88898758 GAAAAAAAAA
1 GAAAAAAAAA
88898768 AGTGACAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 12 0.40
12 18 0.60
ACGTcount: A:0.80, C:0.04, G:0.09, T:0.07
Consensus pattern (12 bp):
GAAAAAAAAATC
Found at i:88898768 original size:12 final size:14
Alignment explanation
Indices: 88898748--88898780 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
88898738 AAAAAAATCG
88898748 AAAAAAAAAG-GA-
1 AAAAAAAAAGTGAC
88898760 AAAAAAAAAGTGAC
1 AAAAAAAAAGTGAC
88898774 AAAAAAA
1 AAAAAAA
88898781 TCGAGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 2 0.11
14 7 0.37
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAGTGAC
Found at i:88898768 original size:24 final size:24
Alignment explanation
Indices: 88898701--88898767 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
88898691 TATTGGATTT
* * *
88898701 AAAAAAAAGGAGAAGAAATTCAGA
1 AAAAAAAAGGAAAAAAAAATCAGA
**
88898725 AAAAAAAATTCAAAAAAAAATC-GA
1 AAAAAAAA-GGAAAAAAAAATCAGA
88898749 AAAAAAAAGGAAAAAAAAA
1 AAAAAAAAGGAAAAAAAAA
88898768 AGTGACAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
23 9 0.26
24 18 0.51
25 8 0.23
ACGTcount: A:0.76, C:0.04, G:0.12, T:0.07
Consensus pattern (24 bp):
AAAAAAAAGGAAAAAAAAATCAGA
Found at i:88898777 original size:13 final size:13
Alignment explanation
Indices: 88898735--88898780 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
88898725 AAAAAAAATT
*
88898735 CAAAAAAAAATCGA
1 CAAAAAAAAGT-GA
88898749 -AAAAAAAAG-GA
1 CAAAAAAAAGTGA
*
88898760 AAAAAAAAAGTGA
1 CAAAAAAAAGTGA
88898773 CAAAAAAA
1 CAAAAAAA
88898781 TCGAGTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 9 0.32
13 17 0.61
ACGTcount: A:0.78, C:0.07, G:0.11, T:0.04
Consensus pattern (13 bp):
CAAAAAAAAGTGA
Found at i:88899765 original size:37 final size:37
Alignment explanation
Indices: 88899714--88899784 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
88899704 CATTCTTGTA
88899714 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
88899751 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
88899785 GAGAGGCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:88899784 original size:6 final size:6
Alignment explanation
Indices: 88899724--88899773 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
88899714 AAGAGAAAAC
*
88899724 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
88899773 A
1 A
88899774 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:88901916 original size:52 final size:52
Alignment explanation
Indices: 88901838--88901944 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
88901828 GTGACAGCCC
*
88901838 AAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACGGAATCACCG
1 AAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAATCACCG
*
88901890 AAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAGTCACCG
1 AAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAATCACCG
88901942 AAA
1 AAA
88901945 TGTTTGAATG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (52 bp):
AAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACCGCTAAACCGAATCACCG
Found at i:88903459 original size:40 final size:40
Alignment explanation
Indices: 88903429--88903638 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
88903419 GGATTAAAAT
* * * *
88903429 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
88903469 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
88903509 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
88903549 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* ** * *
88903589 CCGAAGGCATT-GTGTGAGTTACCAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
88903628 CCGAAGGCATT
1 CCGAAGGCATT
88903639 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 34 0.22
40 123 0.78
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:88903590 original size:120 final size:120
Alignment explanation
Indices: 88903376--88903638 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 120
88903366 TTGAATGCTG
* * *
88903376 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAAATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAAATCCGAAGGCATT
* ***
88903440 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACCAAA
* * * * * *
88903496 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTT-AAGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAAAT-CCGAAGGCAT
* ** * *
88903559 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACCAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACCAAA
*
88903615 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
88903639 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
119 36 0.30
120 79 0.65
121 6 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAAATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACCAAA
Found at i:88911411 original size:40 final size:39
Alignment explanation
Indices: 88911380--88911589 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
88911370 GGACTAAGAT
* *
88911380 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
88911420 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
88911460 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
88911500 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
88911540 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
88911579 CCGAAGGCATT
1 CCGAAGGCATT
88911590 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:88911543 original size:120 final size:120
Alignment explanation
Indices: 88911327--88911589 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
88911317 TTGAATGCTG
* *
88911327 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
88911391 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
88911447 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
88911510 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
88911566 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
88911590 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:88911609 original size:79 final size:80
Alignment explanation
Indices: 88911328--88911624 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
88911318 TGAATGCTGT
* ** * * * **
88911328 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
88911391 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
88911408 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
88911472 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
88911488 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
88911552 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
88911567 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
88911625 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:88913853 original size:14 final size:13
Alignment explanation
Indices: 88913821--88913864 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 13
88913811 TAATAGAATG
88913821 TAAAAAA-T-AAA
1 TAAAAAATTAAAA
*
88913832 TTAAAAATTAAAA
1 TAAAAAATTAAAA
88913845 TAGAAAAATTAAAA
1 TA-AAAAATTAAAA
88913859 TAAAAA
1 TAAAAA
88913865 TGGTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.21
12 1 0.04
13 8 0.29
14 13 0.46
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:88917307 original size:93 final size:93
Alignment explanation
Indices: 88917148--88917319 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
88917138 CGCCCATAAG
*** * *
88917148 CGAACTCGGAATCAAATCAACGAGCTCGGGTGTTCGCATCCCTGAGTGAACTCAGACTCAACTCA
1 CGAACTCGGAATCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
88917213 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * * *
88917241 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGAATCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
88917306 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88917320 TCAACCATCC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGAATCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88917309 original size:46 final size:46
Alignment explanation
Indices: 88917141--88917316 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
88917131 TGTAACCCGC
* * * *** *
88917141 CCATAAGCGAACTCGGAATCAAATCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * * *
88917187 CCCTGAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
88917237 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
88917280 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88917317 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Done.