Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 28 of 284
Found at i:9816931 original size:26 final size:26
Alignment explanation
Indices: 9816884--9816933 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9816874 ATGAAAATTC
* *
9816884 CTTCTGAAATTAAACAGCCACATATA
1 CTTCTGAAAATAAACAGACACATATA
* *
9816910 CTTCTGAAAATAAATATACACATA
1 CTTCTGAAAATAAACAGACACATA
9816934 GAATGCCCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (26 bp):
CTTCTGAAAATAAACAGACACATATA
Found at i:9823233 original size:10 final size:10
Alignment explanation
Indices: 9823218--9823255 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
9823208 TAACATGTTG
9823218 AATTTTAATT
1 AATTTTAATT
9823228 AATTTTATAATT
1 AA-TTT-TAATT
9823240 AATTTTAATT
1 AATTTTAATT
9823250 AATTTT
1 AATTTT
9823256 GATCATTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 13 0.50
11 6 0.23
12 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
AATTTTAATT
Found at i:9823240 original size:12 final size:11
Alignment explanation
Indices: 9823220--9823255 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
9823210 ACATGTTGAA
9823220 TTTTAATTAAT
1 TTTTAATTAAT
9823231 TTTATAATTAA-
1 TTT-TAATTAAT
9823242 TTTTAATTAAT
1 TTTTAATTAAT
9823253 TTT
1 TTT
9823256 GATCATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.30
11 9 0.39
12 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTAATTAAT
Found at i:9831424 original size:43 final size:43
Alignment explanation
Indices: 9831376--9831541 Score: 183
Period size: 43 Copynumber: 3.9 Consensus size: 43
9831366 ATTATTGAGA
*
9831376 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** * * *
9831419 TGTGATTATGTGTAAGACCATGCCTGGGACATTAGCATCGTTT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
9831462 TATGATTTCGTGTAAGACCATTTCTGGGACATTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
9831504 ATGTGATAACATGTAAAACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
9831542 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
42 7 0.07
43 95 0.93
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:9840076 original size:27 final size:26
Alignment explanation
Indices: 9840046--9840112 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
9840036 AACAATAGTC
9840046 TTACCATATAAGGGCAAAATAGTCATT
1 TTACCA-ATAAGGGCAAAATAGTCATT
* * *
9840073 TTACTACGTAAGGACAAAATAGTCATT
1 TTACCA-ATAAGGGCAAAATAGTCATT
*
9840100 TTATCAATAAGGG
1 TTACCAATAAGGG
9840113 GTCCAGGCAC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (26 bp):
TTACCAATAAGGGCAAAATAGTCATT
Found at i:9846813 original size:27 final size:25
Alignment explanation
Indices: 9846752--9846819 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
9846742 AATACTTTAG
*
9846752 TTTACTAAAATTACTGAAATACCCCCA
1 TTTA-TAAAATTAC-CAAATACCCCCA
* *
9846779 ATTGTAAAATTACCAAAGTACCCCCGA
1 TTTATAAAATTACCAAA-TACCCCC-A
9846806 TTTATAAAATTACC
1 TTTATAAAATTACC
9846820 GAAAAATCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.09
26 16 0.47
27 15 0.44
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (25 bp):
TTTATAAAATTACCAAATACCCCCA
Found at i:9846890 original size:80 final size:80
Alignment explanation
Indices: 9846757--9847013 Score: 281
Period size: 79 Copynumber: 3.2 Consensus size: 80
9846747 TTTAGTTTAC
* * * * *
9846757 TAAAATTACTGAAATACC-CCCAATTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCG
1 TAAAATTATTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCG
9846821 AAAAATCGTCGATTG
66 AAAAATCGTCGATTG
*
9846836 TAAAATTATTGGAATACTCTT-GACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATT-CC
1 TAAAATTATTGAAATAC-CTTCGACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACC
* * *
9846899 GAAATACCGTCAATTG
65 GAAAAATCGTCGATTG
* * * * ** *
9846915 TAAAATTACTGAAATACCTTCGATTTGTAAAATTACCGAAA-TACCCTCAGTTTGCAAAATTACT
1 TAAAATTATTGAAATACCTTCGACTTGTAAAATTACC-AAAGTACCCCCGGTTTATAAAATTACC
* *
9846979 GAAATACTC-TCGATTTA
65 GAAA-AATCGTCGA-TTG
9846996 TAAAATTATTGAAATACC
1 TAAAATTATTGAAATACC
9847014 CTTATAGGGT
Statistics
Matches: 148, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
78 3 0.02
79 76 0.51
80 49 0.33
81 20 0.14
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (80 bp):
TAAAATTATTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCG
AAAAATCGTCGATTG
Found at i:9846946 original size:27 final size:27
Alignment explanation
Indices: 9846757--9847015 Score: 199
Period size: 27 Copynumber: 9.7 Consensus size: 27
9846747 TTTAGTTTAC
* *
9846757 TAAAATTACTGAAATACCC-CCAATTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
9846783 TAAAATTAC-CAAAGTACCCCCGATTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
* * * *
9846810 TAAAATTACCGAAAAATCGTCGA-TTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * * * *
9846836 TAAAATTATTGGAATACTCTTGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * * *
9846863 TAAAATTAC-CAAAGTACCCCCGGTTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
* * *
9846890 TAAAATT-CCGAAATACCGTC-AATTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
9846915 TAAAATTACTGAAATACCTTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
9846942 TAAAATTACCGAAATACCCTC-AGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
* * *
9846969 CAAAATTACTGAAATACTCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
*
9846996 TAAAATTATTGAAATACCCT
1 TAAAATTACTGAAATACCCT
9847016 TATAGGGTAG
Statistics
Matches: 178, Mismatches: 45, Indels: 19
0.74 0.19 0.08
Matches are distributed among these distances:
25 12 0.07
26 51 0.29
27 111 0.62
28 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:9847029 original size:27 final size:27
Alignment explanation
Indices: 9846999--9847310 Score: 399
Period size: 27 Copynumber: 11.6 Consensus size: 27
9846989 CGATTTATAA
* * *
9846999 AATTATTGAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
9847026 AATTATTAAAATACCACTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
9847053 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
9847080 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
9847107 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
9847134 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
9847161 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
9847188 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
9847215 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
9847242 AATTACCGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
9847269 AATTATTGAAATACCCCTGTATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
9847296 AATTACCGAGATACC
1 AATTACTGAAATACC
9847311 TTTGTGGGGT
Statistics
Matches: 249, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 249 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:9847585 original size:27 final size:26
Alignment explanation
Indices: 9847555--9847606 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
9847545 GAGGAAGCGT
* *
9847555 TCTGGTTGCTATGCCACAAATATCTGC
1 TCTGGTGGCTATACCAC-AATATCTGC
*
9847582 TCTGGTGGCTCTACCACAATATCTG
1 TCTGGTGGCTATACCACAATATCTG
9847607 TATCTAGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (26 bp):
TCTGGTGGCTATACCACAATATCTGC
Found at i:9847863 original size:98 final size:98
Alignment explanation
Indices: 9847694--9847924 Score: 345
Period size: 98 Copynumber: 2.4 Consensus size: 98
9847684 ATTATTGTAG
* * *
9847694 GCTTCGTGCTGATTATAGACCTGTTATCAATGGCTGAGTGCCGATCATGTTACCGAAGGCTGTAT
1 GCTTCGTGCCGATTATAGACCCGTTATCAATGGCTAAGTGCCGATCATGTTACCGAAGGCTGTAT
* *
9847759 GCCGTTATTGTTGGCTTCGTATCGATATTATAA
66 GCCGTTACTGTGGGCTTCGTATCGATATTATAA
* *
9847792 GCTTCGTACCGATTATAGACCCGTTATCAATGGCTAAGTGCCGATCATGTTACCGAAGGCTGTGT
1 GCTTCGTGCCGATTATAGACCCGTTATCAATGGCTAAGTGCCGATCATGTTACCGAAGGCTGTAT
* **
9847857 GCCGTTACTGTGGGCTTCGTATCGATATTCTGG
66 GCCGTTACTGTGGGCTTCGTATCGATATTATAA
* * *
9847890 GCTTCGTGTCGATTACAGACCCGTTATCGATGGCT
1 GCTTCGTGCCGATTATAGACCCGTTATCAATGGCT
9847925 TTGTGCCACG
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (98 bp):
GCTTCGTGCCGATTATAGACCCGTTATCAATGGCTAAGTGCCGATCATGTTACCGAAGGCTGTAT
GCCGTTACTGTGGGCTTCGTATCGATATTATAA
Found at i:9847999 original size:27 final size:27
Alignment explanation
Indices: 9847946--9848026 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
9847936 ATTCTGTTAA
* * *
9847946 GTGGCTTTGCCACATTATTTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
9847973 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * * *
9848000 GCGACTCTGTCACAATATCAGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
9848026 G
1 G
9848027 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 5 0.11
27 40 0.87
28 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:9850258 original size:26 final size:25
Alignment explanation
Indices: 9850214--9850472 Score: 123
Period size: 27 Copynumber: 9.7 Consensus size: 25
9850204 TTTAGTTTAT
* * *
9850214 TAAAATTACTGAAACACCCCAAGTTG
1 TAAAATTAC-CAAATACCCCGAGTTG
*
9850240 TAAAATTACCAAAGTACCCCCG-GTTTA
1 TAAAATTACCAAA-TA-CCCCGAG-TTG
* *
9850267 TAAAATTATCGAAATACCGTCGA-TTG
1 TAAAATTA-CCAAATACC-CCGAGTTG
* *
9850293 TAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTAC-CAAATACCC-CGAGTTG
*
9850320 TAAAATTACCAAAGTACCCTCG-GTTTA
1 TAAAATTACCAAA-TACCC-CGAG-TTG
**
9850347 TAAAATTACCGAAATATCATCGA-TTG
1 TAAAATTACC-AAATA-CCCCGAGTTG
**
9850373 TAAAATTAATAAAATACCCTCGA-TATG
1 TAAAATT-ACCAAATACCC-CGAGT-TG
*
9850400 TAAAATTACCAAAATACCCTCGATTTG
1 TAAAATTACC-AAATACCC-CGAGTTG
* * * *
9850427 CAAAATTACTGAAATACCCTAGATTTG
1 TAAAATTAC-CAAATACCC-CGAGTTG
*
9850454 TAAAATTACTGAAATACCC
1 TAAAATTAC-CAAATACCC
9850473 TTGTAGGGTA
Statistics
Matches: 189, Mismatches: 24, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
25 5 0.03
26 56 0.30
27 119 0.63
28 9 0.05
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (25 bp):
TAAAATTACCAAATACCCCGAGTTG
Found at i:9850270 original size:27 final size:26
Alignment explanation
Indices: 9850240--9850473 Score: 139
Period size: 27 Copynumber: 8.7 Consensus size: 26
9850230 CCCCAAGTTG
*
9850240 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCTCGGTTTA
* * * *
9850267 TAAAATTATCGAAATACCGTC-GATTG
1 TAAAATTA-CCAAATACCCTCGGTTTA
* ** *
9850293 TAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTAC-CAAATACCCTCGGTTTA
9850320 TAAAATTACCAAAGTACCCTCGGTTTA
1 TAAAATTACCAAA-TACCCTCGGTTTA
* * * *
9850347 TAAAATTACCGAAATATCATC-GATTG
1 TAAAATTACC-AAATACCCTCGGTTTA
** * * *
9850373 TAAAATTAATAAAATACCCTCGATATG
1 TAAAATT-ACCAAATACCCTCGGTTTA
* *
9850400 TAAAATTACCAAAATACCCTCGATTTG
1 TAAAATTACC-AAATACCCTCGGTTTA
* * * * *
9850427 CAAAATTACTGAAATACCCTAGATTTG
1 TAAAATTAC-CAAATACCCTCGGTTTA
*
9850454 TAAAATTACTGAAATACCCT
1 TAAAATTAC-CAAATACCCT
9850474 TGTAGGGTAG
Statistics
Matches: 168, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 43 0.26
27 117 0.70
28 7 0.04
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGGTTTA
Found at i:9850332 original size:80 final size:78
Alignment explanation
Indices: 9850214--9850473 Score: 333
Period size: 80 Copynumber: 3.3 Consensus size: 78
9850204 TTTAGTTTAT
* * *
9850214 TAAAATTACTGAAACACCC-CAAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTATCG
1 TAAAATTACTGAAATACCCTCGA-TTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTA-CG
*
9850278 AAATACCGTCGATTG
64 AAATACCATCGATTG
9850293 TAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACCG
1 TAAAATTACTGAAATACCCTCGA-TTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTA-CG
*
9850358 AAATATCATCGATTG
64 AAATACCATCGATTG
* * * * **
9850373 TAAAATTAATAAAATACCCTCGATATGTAAAATTACCAAAATACCCTCGATTTGCAAAATTACTG
1 TAAAATTACTGAAATACCCTCGAT-TGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTAC-G
* *
9850438 AAATACCCTAGATTTG
64 AAATACCATCGA-TTG
9850454 TAAAATTACTGAAATACCCT
1 TAAAATTACTGAAATACCCT
9850474 TGTAGGGTAG
Statistics
Matches: 159, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
79 20 0.13
80 118 0.74
81 21 0.13
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (78 bp):
TAAAATTACTGAAATACCCTCGATTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACGAA
ATACCATCGATTG
Found at i:9850361 original size:54 final size:52
Alignment explanation
Indices: 9850237--9850473 Score: 226
Period size: 53 Copynumber: 4.4 Consensus size: 52
9850227 ACACCCCAAG
* * * * *
9850237 TTGTAAAATTACC-AAAGTACCCCCGGTTTATAAAATTATCGAAATACCGTCGA-
1 TTGTAAAATTACCGAAA-TACCCTC-GATTGTAAAATTA-CCAAATACCCTCGAT
* *
9850290 TTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGGT
1 TTGTAAAATTACCGAAATACCCTCGA-TTGTAAAATTACCAAA-TACCCTCGAT
* * * **
9850344 TTATAAAATTACCGAAATATCATCGATTGTAAAATTAATAAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCCTCGATTGTAAAATT-ACCAAATACCCTCGAT
* * * * *
9850397 ATGTAAAATTACCAAAATACCCTCGATTTGCAAAATTACTGAAATACCCTAGAT
1 TTGTAAAATTACCGAAATACCCTCGA-TTGTAAAATTAC-CAAATACCCTCGAT
*
9850451 TTGTAAAATTACTGAAATACCCT
1 TTGTAAAATTACCGAAATACCCT
9850474 TGTAGGGTAG
Statistics
Matches: 151, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
52 5 0.03
53 76 0.50
54 70 0.46
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (52 bp):
TTGTAAAATTACCGAAATACCCTCGATTGTAAAATTACCAAATACCCTCGAT
Found at i:9850418 original size:107 final size:106
Alignment explanation
Indices: 9850278--9850469 Score: 269
Period size: 107 Copynumber: 1.8 Consensus size: 106
9850268 AAAATTATCG
* ** * *
9850278 AAATACCGTCGATTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTAC-CAAAGTACCCTCG
1 AAATACCCTCGATTGTAAAATTACCAAAATACCCTCGACTTGCAAAATTACTCAAA-TACCCTAG
*
9850342 GTTTATAAAATTACCGAAATATCATCGATTGTAAAATTAATA
65 ATTTATAAAATTACCGAAATATCATCGATTGTAAAATTAATA
* *
9850384 AAATACCCTCGATATGTAAAATTACCAAAATACCCTCGATTTGCAAAATTACTGAAATACCCTAG
1 AAATACCCTCGAT-TGTAAAATTACCAAAATACCCTCGACTTGCAAAATTACTCAAATACCCTAG
* *
9850449 ATTTGTAAAATTACTGAAATA
65 ATTTATAAAATTACCGAAATA
9850470 CCCTTGTAGG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
106 12 0.16
107 59 0.80
108 3 0.04
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (106 bp):
AAATACCCTCGATTGTAAAATTACCAAAATACCCTCGACTTGCAAAATTACTCAAATACCCTAGA
TTTATAAAATTACCGAAATATCATCGATTGTAAAATTAATA
Found at i:9850487 original size:27 final size:27
Alignment explanation
Indices: 9850457--9850813 Score: 428
Period size: 27 Copynumber: 13.2 Consensus size: 27
9850447 AGATTTGTAA
*
9850457 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
9850484 AATTACTAAAATACCGCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
9850511 AATTACCGAAACACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
*
9850538 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
9850565 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
9850592 AAATT-CTAAAATACCCCTATAGGGTAG
1 -AATTACTGAAATACCCCTGTAGGGTAG
* ** *
9850619 AAATACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
9850646 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
9850673 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
9850700 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
9850727 AATTACCGAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
9850754 AATTACTAAAATACCCCTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
9850781 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
9850808 AATTAC
1 AATTAC
9850814 CATTTTACCC
Statistics
Matches: 286, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 3 0.01
27 280 0.98
28 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:9850495 original size:81 final size:80
Alignment explanation
Indices: 9850214--9850568 Score: 299
Period size: 80 Copynumber: 4.4 Consensus size: 80
9850204 TTTAGTTTAT
* * * * * * * *
9850214 TAAAATTACTGAAACACCC-C-AAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTATC
1 TAAAATTACTGAAATACCCTCGTAG-GGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACC
*
9850277 GAAATACCGTCGATTG
65 GAAATACCCTCGATTG
** * * *
9850293 TAAAATTACTGAAATACCCTCG-ACTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACC
1 TAAAATTACTGAAATACCCTCGTA-GGGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACC
* *
9850357 GAAATATCATCGATTG
65 GAAATACCCTCGATTG
* * * * *
9850373 TAAAATTAATAAAATACCCTCGATA-TGTAAAATTACCAAAATACCCTCGATTTGCAAAATTACT
1 TAAAATTACTGAAATACCCTCG-TAGGGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACC
*
9850437 GAAATACCCTAGATTTG
65 GAAATACCCTCGA-TTG
* * * ** *
9850454 TAAAATTACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACCGCT--ATAGGGTAGAATTAC
1 TAAAATTACTGAAATACCCTCGTAGGGTAAAATTACCAAAATACC-CTCGAT-TTGTAAAATTAC
* * **
9850517 CGAAACACCCTTGTAGGG
64 CGAAATACCCTCG-ATTG
*
9850535 TAAAATTACTGAAATACCCTTGTAGGGTAGAAAT
1 TAAAATTACTGAAATACCCTCGTAGGGTA-AAAT
9850569 ACTGAAATAC
Statistics
Matches: 233, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
79 18 0.08
80 121 0.52
81 87 0.37
82 7 0.03
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (80 bp):
TAAAATTACTGAAATACCCTCGTAGGGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCG
AAATACCCTCGATTG
Found at i:9851085 original size:27 final size:26
Alignment explanation
Indices: 9851039--9851120 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 26
9851029 GGAGGAAGCA
9851039 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTATGCCAC-AATATCTG
* *
9851066 TTCTGGTGGCTCTGCTACAATATCTG
1 TTCTGGTGGCTATGCCACAATATCTG
* * * *
9851092 TATCTGGTGACTTTGTCACAATATTTG
1 T-TCTGGTGGCTATGCCACAATATCTG
9851119 TT
1 TT
9851121 GACCGATCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 10 0.21
27 37 0.79
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.40
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTG
Found at i:9851289 original size:20 final size:20
Alignment explanation
Indices: 9851242--9851289 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9851232 CGAAGGCTGT
* *
9851242 GTGCCGTTATTGTGGGCTTC
1 GTGCCGATATTGTAGGCTTC
**
9851262 GTATCGATATTGTAGGCTTC
1 GTGCCGATATTGTAGGCTTC
9851282 GTGCCGAT
1 GTGCCGAT
9851290 TATAGACCCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTGTAGGCTTC
Found at i:9851343 original size:98 final size:98
Alignment explanation
Indices: 9851171--9851367 Score: 324
Period size: 98 Copynumber: 2.0 Consensus size: 98
9851161 TGTGTACCGT
* * *
9851171 TATTGTAGGCTTCGTGCTGATTATAGACTCGTTATCAATGGCTGAGTTCCGGTCATGTTACCGAA
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTTCCGATCATGTTACCGAA
*
9851236 GGCTGTGTGCCGTTATTGTGGGCTTCGTATCGA
66 GGCTATGTGCCGTTATTGTGGGCTTCGTATCGA
*
9851269 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGTTGAGTGT-CGATCATGTTACCGA
1 TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGT-TCCGATCATGTTACCGA
*
9851333 AGGCTATGTGCCGTTATTGTGGGCTTCGTGTCGA
65 AGGCTATGTGCCGTTATTGTGGGCTTCGTATCGA
9851367 T
1 T
9851368 TATAAACCCG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 91 0.99
99 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (98 bp):
TATTGTAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTTCCGATCATGTTACCGAA
GGCTATGTGCCGTTATTGTGGGCTTCGTATCGA
Found at i:9851441 original size:27 final size:27
Alignment explanation
Indices: 9851411--9851467 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
9851401 ATTCTATTAA
*
9851411 GTGGCT-TTGCCACATTATCTG-ATTCTG
1 GTGGCTCTT-CCACAATATCTGTA-TCTG
9851438 GTGGCTCTTCCACAATATCTGTATCTG
1 GTGGCTCTTCCACAATATCTGTATCTG
9851465 GTG
1 GTG
9851468 ACTGTCACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
GTGGCTCTTCCACAATATCTGTATCTG
Found at i:9853202 original size:43 final size:43
Alignment explanation
Indices: 9852822--9853253 Score: 490
Period size: 43 Copynumber: 10.0 Consensus size: 43
9852812 GCACGGTTAA
* * * ** *
9852822 ATCGATATGTGATTATGTATAAGACCACGTCTGGTACATTAGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
* * **
9852865 ATTGATATGTGATTACGTGTAAGACCACGTTTGGGACATTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
* * * *
9852908 ATGGATAAGTGATTATGTGTAAGACCACGTTTGGGATGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
* * *
9852951 ATCGATATGTGATTACGTGTAAGACCACGTTTGAGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
* * **
9852994 ATCGATATGTGATTACATGTAAGACCACGTCTAGGACATTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
* *
9853037 ATCCATATGTGATTACGTGTAAGACCACGTCTGAGATGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
*
9853080 ATCGATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
* * *
9853123 ATCGATATGTGATTACATGTAAGACCACGCCAGGGATGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
* * * *
9853166 ATCGATATGTGATGATGTGTAAGACC-CTATTTGGGATAG-TGGC
1 ATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAT-GTTGGC
* ** * ** *
9853209 ATCGATATGTGACTATATGTAAAACCATATCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
9853252 AT
1 AT
9853254 TGTACGATAT
Statistics
Matches: 337, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
42 2 0.01
43 334 0.99
44 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
ATCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGC
Found at i:9856527 original size:27 final size:27
Alignment explanation
Indices: 9856497--9856674 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
9856487 ATATTGGGTC
* * * *
9856497 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
9856524 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9856551 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
9856579 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
9856606 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
9856633 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9856660 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9856675 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:9856636 original size:82 final size:81
Alignment explanation
Indices: 9856518--9856673 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9856508 TGCTATATAA
* *
9856518 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
9856583 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
9856600 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
9856664 CACTTAGTGC
65 CACTTAGTGC
9856674 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9864711 original size:27 final size:27
Alignment explanation
Indices: 9864681--9864858 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
9864671 ATATTGAGTC
* * * *
9864681 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
9864708 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9864735 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
9864763 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
9864790 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
9864817 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9864844 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9864859 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:9864820 original size:82 final size:81
Alignment explanation
Indices: 9864702--9864857 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9864692 TGCTATATAA
* *
9864702 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
9864767 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
9864784 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
9864848 CACTTAGTGC
65 CACTTAGTGC
9864858 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9869817 original size:24 final size:24
Alignment explanation
Indices: 9869790--9869846 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
9869780 CCCATATCCG
9869790 TCACCAGACTAAGGTTAAGAGGTA
1 TCACCAGACTAAGGTTAAGAGGTA
*
9869814 TCACCAGACTAGGGTTAAGAGGTA
1 TCACCAGACTAAGGTTAAGAGGTA
*
9869838 TTACCAGAC
1 TCACCAGAC
9869847 AAATCAGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (24 bp):
TCACCAGACTAAGGTTAAGAGGTA
Found at i:9871289 original size:42 final size:43
Alignment explanation
Indices: 9871204--9871361 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
9871194 CCAACGTCTG
* * * *
9871204 AGACGTGGTCTTACAT-GTAATCGAATATCGATGCCACTGTCCC
1 AGACATGGTCTTAC-TCGAAATCAAATATCGATGCCAATGTCCC
9871247 AGACATGGTCTTACTCGAAATCAAATAT-GATGCCAATGTCCC
1 AGACATGGTCTTACTCGAAATCAAATATCGATGCCAATGTCCC
* * * *
9871289 AGAGATGGTCTTACACGTAAATCTCAA-ATCGATTCCAATG-CTCC
1 AGACATGGTCTTACTCG-AAATC-AAATATCGATGCCAATGTC-CC
* *
9871333 AGATGA-GGTCTTACAT-GAAATCACATATC
1 AGA-CATGGTCTTAC-TCGAAATCAAATATC
9871362 AAAAATCTTA
Statistics
Matches: 96, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
42 30 0.31
43 39 0.41
44 25 0.26
45 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
AGACATGGTCTTACTCGAAATCAAATATCGATGCCAATGTCCC
Found at i:9871335 original size:44 final size:42
Alignment explanation
Indices: 9871209--9871355 Score: 138
Period size: 42 Copynumber: 3.4 Consensus size: 42
9871199 GTCTGAGACG
* * * * *
9871209 TGGTCTTACATGTAATCGAATATCGATGCCACTGTCCCAGACA
1 TGGTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGAGA
* *
9871252 TGGTCTTACTCGAAATCAAATATGATGCCAATGTCCCAGAGA
1 TGGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGAGA
*
9871294 TGGTCTTACACGTAAATCTCAAAT-CGATTCCAATG-CTCCAGATGA
1 TGGTCTTACACG-AAA--TCAAATACGATGCCAATGTC-CCAGA-GA
*
9871339 -GGTCTTACATGAAATCA
1 TGGTCTTACACGAAATCA
9871356 CATATCAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
41 3 0.03
42 28 0.32
43 25 0.28
44 24 0.27
45 8 0.09
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGAGA
Found at i:9881470 original size:47 final size:46
Alignment explanation
Indices: 9881401--9881578 Score: 177
Period size: 47 Copynumber: 3.8 Consensus size: 46
9881391 TTTGATGCCC
* *
9881401 ATGCCATGTTCTAGACATGGTCTTACACTAGCTCATATCTCAAGT-C-G
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCT---GTGCTG
*
9881448 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGCATATCTGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG--CT--CATATCTGTGCTG
* *
9881498 ATGCCATGTCCCAGACACGGTCTTACACTAGCTC-TCATAATGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-AT-CTGT-GCTG
*
9881546 ATG-CATGTCCCAGGCAT-GTCTTACACTAGCTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCA
9881579 CAATAGCCCA
Statistics
Matches: 113, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
45 1 0.01
46 18 0.16
47 43 0.38
48 11 0.10
49 3 0.03
50 30 0.27
51 7 0.06
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTGTGCTG
Found at i:9881521 original size:50 final size:47
Alignment explanation
Indices: 9881447--9881577 Score: 167
Period size: 50 Copynumber: 2.7 Consensus size: 47
9881437 ATCTCAAGTC
* *
9881447 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGCAT-ATCTGTGCT
1 GATGCCATGTCCCAGACA-GGTCTTACACTAGCTCT--CATAATGTG-GCT
9881497 GATGCCATGTCCCAGACACGGTCTTACACTAGCTCTCATAATGTGGCT
1 GATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATAATGTGGCT
* *
9881545 GATG-CATGTCCCAGGCATGTCTTACACTAGCTC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTC
9881578 ACAATAGCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
46 15 0.20
47 12 0.16
48 10 0.13
49 4 0.05
50 34 0.45
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATAATGTGGCT
Found at i:9881671 original size:20 final size:21
Alignment explanation
Indices: 9881646--9881692 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
9881636 AATTCTACTA
*
9881646 TCTCATTT-ATCATCATGCAT
1 TCTCATTTCACCATCATGCAT
9881666 TCTCATTTCCACCATCATGCAT
1 TCTCATTT-CACCATCATGCAT
9881688 T-TCAT
1 TCTCAT
9881693 GATATATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 4 0.17
22 12 0.50
ACGTcount: A:0.23, C:0.30, G:0.04, T:0.43
Consensus pattern (21 bp):
TCTCATTTCACCATCATGCAT
Found at i:9889283 original size:40 final size:40
Alignment explanation
Indices: 9889228--9889765 Score: 974
Period size: 40 Copynumber: 13.5 Consensus size: 40
9889218 CGGATGGTAA
9889228 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9889268 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9889308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9889348 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9889388 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9889428 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9889468 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9889508 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9889548 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
9889588 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
9889628 CCGGGATAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9889668 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
9889708 CCGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
9889748 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
9889766 TACTTGGTTT
Statistics
Matches: 484, Mismatches: 11, Indels: 7
0.96 0.02 0.01
Matches are distributed among these distances:
39 18 0.04
40 465 0.96
41 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:9897623 original size:40 final size:40
Alignment explanation
Indices: 9897565--9897742 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
9897555 CGGATGGTAA
*
9897565 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
* * *
9897605 CTGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
9897645 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
* * *
9897685 CCGGGCTAAGTTCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
*
9897725 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
9897743 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
39 16 0.13
40 105 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:9905332 original size:20 final size:20
Alignment explanation
Indices: 9905307--9905344 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9905297 CACTTGACAC
9905307 AGGGGC-ACACGCCCTGTGCG
1 AGGGGCAACACG-CCTGTGCG
9905327 AGGGGCAACACGCCTGTG
1 AGGGGCAACACGCCTGTG
9905345 TGACCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.32, G:0.39, T:0.11
Consensus pattern (20 bp):
AGGGGCAACACGCCTGTGCG
Found at i:9907947 original size:31 final size:31
Alignment explanation
Indices: 9907912--9907987 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
9907902 TGTTACAATA
*
9907912 AACATGTACTTTTCATGTCATATTTCCAAAT
1 AACATGTACTTTTCATATCATATTTCCAAAT
*
9907943 AACATGTACTTTTCATATCATATTTCCATAT
1 AACATGTACTTTTCATATCATATTTCCAAAT
*
9907974 AACATGTACATTTC
1 AACATGTACTTTTC
9907988 CATAATCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (31 bp):
AACATGTACTTTTCATATCATATTTCCAAAT
Found at i:9917250 original size:54 final size:54
Alignment explanation
Indices: 9917187--9917290 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
9917177 ATACATGAGG
*
9917187 ATGATTTTATGGTGACCTTGTGATCATGGGCCTATACTTGTGATGTATGAGCCC
1 ATGATTTTATGGTGACCTTGTGATCATGGGCCTATACGTGTGATGTATGAGCCC
9917241 ATGATTTTATGGTGACCTTGTGATCATGGGCCTATACGTGTGATGTATGA
1 ATGATTTTATGGTGACCTTGTGATCATGGGCCTATACGTGTGATGTATGA
9917291 AATGTGGTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (54 bp):
ATGATTTTATGGTGACCTTGTGATCATGGGCCTATACGTGTGATGTATGAGCCC
Found at i:9925919 original size:27 final size:27
Alignment explanation
Indices: 9925889--9926086 Score: 229
Period size: 27 Copynumber: 7.3 Consensus size: 27
9925879 TACTGAAATG
*
9925889 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*** *
9925916 CCCTCGATTTATAGAATTATTGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
9925943 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
9925970 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
9925997 CCCTCGATTT-TCAGAATTACCGTTTTA
1 CCCTCGATTTAT-AGAATTACCATTTTA
* *
9926024 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * **
9926051 CCCTC-AGTTTACAAAATTACTGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
9926078 CCCTCGATT
1 CCCTCGATT
9926087 GTGAAATTAC
Statistics
Matches: 146, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 143 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:9926004 original size:81 final size:81
Alignment explanation
Indices: 9925889--9926086 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
9925879 TACTGAAATG
* * **
9925889 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTAT-AGAATTATTGTTTCACCCTCGATTT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTT-TCAGAATTACCGTTTCACCCTCGATTT
9925953 ACAAAATTACCATTTTA
65 ACAAAATTACCATTTTA
*
9925970 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTTCAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTTCAGAATTACCGTTTCACCCTCGATTTA
9926035 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * **
9926051 CCCTCAGTTTACAAAATTACTGTTTTACCCTCGATT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATT
9926087 GTGAAATTAC
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 105 0.99
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTTCAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:9926108 original size:27 final size:27
Alignment explanation
Indices: 9926078--9926267 Score: 149
Period size: 27 Copynumber: 7.1 Consensus size: 27
9926068 TACTGTTTTA
* *
9926078 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCTCGATTGTAAAATTACCAAAATAC
* * *
9926105 CCCTGGTTTGTAAAATTACCGAAATA-
1 CCCTCGATTGTAAAATTACCAAAATAC
**
9926131 CCCTTAATTTGTAAAATTACCAAAATAC
1 CCCTCGA-TTGTAAAATTACCAAAATAC
* *
9926159 CCCTAGTTTG-AAAATTACCAAAATAC
1 CCCTCGATTGTAAAATTACCAAAATAC
* * * * **
9926185 CACTGGTTTGTGAAATTACTGAAATA-
1 CCCTCGATTGTAAAATTACCAAAATAC
*
9926211 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTCGA-TTGTAAAATTACCAAAATAC
9926239 CCCT-GATT-TATAAAGTTA-CAGAAATAC
1 CCCTCGATTGTA-AAA-TTACCA-AAATAC
9926266 CC
1 CC
9926268 TTGACTTTCT
Statistics
Matches: 130, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
25 2 0.02
26 38 0.29
27 82 0.63
28 8 0.06
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
CCCTCGATTGTAAAATTACCAAAATAC
Found at i:9926159 original size:54 final size:53
Alignment explanation
Indices: 9926076--9926267 Score: 194
Period size: 54 Copynumber: 3.6 Consensus size: 53
9926066 ATTACTGTTT
* * * *
9926076 TACCCTCGA-TTGTGAAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAA
1 TACCCT-GATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
*
9926129 TACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTG-AAAATTACCAAAA
1 TACCC-TGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
* * ** *
9926182 TACCACTGGTTTGTGAAATTACTGAAATA-CCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTGATTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAA
* *
9926236 TACCCCTGATTTATAAAGTTA-CAGAAATACCC
1 TA-CCCTGATTTGTAAAATTACCA-AAATACCC
9926268 TTGACTTTCT
Statistics
Matches: 114, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
52 4 0.04
53 45 0.39
54 61 0.54
55 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (53 bp):
TACCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
Found at i:9926242 original size:80 final size:80
Alignment explanation
Indices: 9926090--9926242 Score: 261
Period size: 80 Copynumber: 1.9 Consensus size: 80
9926080 CTCGATTGTG
* * *
9926090 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
9926155 ATACCCCTAGTTTGA
66 ATACCCCTAGTTTGA
* *
9926170 AAATTACCAAAATACCACTGGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
9926235 ATACCCCT
66 ATACCCCT
9926243 GATTTATAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTTTGA
Found at i:9926340 original size:27 final size:27
Alignment explanation
Indices: 9926108--9926333 Score: 186
Period size: 27 Copynumber: 8.3 Consensus size: 27
9926098 AAAATACCCC
9926108 TGGTTTGTAAAATTACCGAAATACCCT
1 TGGTTTGTAAAATTACCGAAATACCCT
** * *
9926135 TAATTTGTAAAATTACCAAAATACCCC
1 TGGTTTGTAAAATTACCGAAATACCCT
* *
9926162 TAGTTTG-AAAATTACCAAAATACCAC-
1 TGGTTTGTAAAATTACCGAAATACC-CT
* *
9926188 TGGTTTGTGAAATTACTGAAATACCCT
1 TGGTTTGTAAAATTACCGAAATACCCT
*** * *
9926215 CAATTTGTAAAATTACCAAAATACCCC
1 TGGTTTGTAAAATTACCGAAATACCCT
* * * *
9926242 TGATTTATAAAGTTACAGAAATACCCT
1 TGGTTTGTAAAATTACCGAAATACCCT
* * ** *
9926269 TGACTTTCTAAAACTTATGGAAATACCAT
1 TG-GTTTGTAAAA-TTACCGAAATACCCT
** *
9926298 TGGTTTACAAAATTACTGAAATACCCT
1 TGGTTTGTAAAATTACCGAAATACCCT
9926325 TGGTTTGTA
1 TGGTTTGTA
9926334 GATTTACCAA
Statistics
Matches: 157, Mismatches: 37, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
26 24 0.15
27 105 0.67
28 14 0.09
29 14 0.09
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
TGGTTTGTAAAATTACCGAAATACCCT
Found at i:9927295 original size:25 final size:24
Alignment explanation
Indices: 9927256--9927325 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
9927246 AGGAAGTGCT
*
9927256 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCT-TGCCCCAGTTTACCA
*
9927281 AAAAGGGCTTCGCCCCAGTTTATCA
1 AAAAGGGCTT-GCCCCAGTTTACCA
9927306 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGC-TTGCCCCAGTT
9927326 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 1 0.02
25 38 0.93
26 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTTGCCCCAGTTTACCA
Found at i:9927338 original size:24 final size:24
Alignment explanation
Indices: 9927255--9927338 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
9927245 GAGGAAGTGC
* *
9927255 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
9927280 GAAAAGGGCTTCGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
9927304 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
9927328 TAAAAGAGGCT
1 TAAAAG-GGCT
9927339 AGGCCTCCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 37 0.74
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:9927594 original size:31 final size:31
Alignment explanation
Indices: 9927545--9927627 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
9927535 CGCTTACAGT
*
9927545 AAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
9927575 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
9927606 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
9927628 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.30
31 35 0.70
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:9927715 original size:33 final size:34
Alignment explanation
Indices: 9927655--9927723 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
9927645 CTTAGGCCCA
*
9927655 TATTGCTACTGTTTAAGGGCTAAGGCCCAGACTG
1 TATTGCTACTGTATAAGGGCTAAGGCCCAGACTG
* ** *
9927689 TATTGTTACTGTAT-AGGGCTTTGGCCCAGATTG
1 TATTGCTACTGTATAAGGGCTAAGGCCCAGACTG
9927722 TA
1 TA
9927724 CTGACACTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 18 0.60
34 12 0.40
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (34 bp):
TATTGCTACTGTATAAGGGCTAAGGCCCAGACTG
Found at i:9929931 original size:27 final size:27
Alignment explanation
Indices: 9929901--9930098 Score: 202
Period size: 27 Copynumber: 7.3 Consensus size: 27
9929891 TACTGAAATG
**
9929901 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *** *
9929928 CCCTCGATTTATAGAATTATTGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* **
9929955 CCCTCGATTTACAAAATTACTTTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
9929982 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
9930009 CCCTC-AGTTTACAGAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
* *
9930036 CCATCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
9930063 CCCTC-AGCTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
9930090 CCCTCGATT
1 CCCTCGATT
9930099 GTGAAATTAC
Statistics
Matches: 143, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 139 0.97
28 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:9929973 original size:54 final size:54
Alignment explanation
Indices: 9929915--9930098 Score: 235
Period size: 54 Copynumber: 3.4 Consensus size: 54
9929905 CGATTTGTAG
* *** *
9929915 AATTACCATTTTACCCTCGATTTATAGAATTATTGTTTCACCCTC-GATTTACAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAG-TTTACAA
** * *
9929969 AATTACTTTTTTACCCTCAATTTATAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAA
* * * *
9930023 AATTACCGTTTTACCATCGATTTACAAAATTACCATTTTACCCTCAGCTTACAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAA
9930077 AATTACCGTTTTACCCTCGATT
1 AATTACCGTTTTACCCTCGATT
9930099 GTGAAATTAC
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 111 0.99
55 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.40
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAA
Found at i:9929997 original size:81 final size:81
Alignment explanation
Indices: 9929901--9930098 Score: 254
Period size: 81 Copynumber: 2.4 Consensus size: 81
9929891 TACTGAAATG
* * * ** *
9929901 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTATTGTTTCACCCTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCATCGATTTA
**
9929966 CAAAATTACTTTTTTA
66 CAAAATTACCATTTTA
*
9929982 CCCTCAATTTATAGAATTACCATTTTACCCTC-AGTTTACAGAATTACCGTTTTACCATCGATTT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGA-TTTACAGAATTACCGTTTCACCATCGATTT
9930046 ACAAAATTACCATTTTA
65 ACAAAATTACCATTTTA
** * * *
9930063 CCCTCAGCTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATT
9930099 GTGAAATTAC
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 99 0.98
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCATCGATTTA
CAAAATTACCATTTTA
Found at i:9930120 original size:27 final size:27
Alignment explanation
Indices: 9930090--9930280 Score: 169
Period size: 27 Copynumber: 7.1 Consensus size: 27
9930080 TACCGTTTTA
* * *
9930090 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* *
9930117 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
*
9930144 CCTTA-ATTTGTAAAATTACCAAAATAC
1 CCCTAGA-TTGTAAAATTACCAAAATAC
*
9930171 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* * * * *
9930198 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCTAGATTGTAAAATTACCAAAATAC
*
9930224 CCCTCA-ATTTGTAAAATTACTAAAATAC
1 CCCT-AGA-TTGTAAAATTACCAAAATAC
9930252 CCCT-GATT-TACAAAGTTA-CAGAAATAC
1 CCCTAGATTGTA-AAA-TTACCA-AAATAC
9930279 CC
1 CC
9930281 TTGACTTTCT
Statistics
Matches: 134, Mismatches: 21, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
25 2 0.01
26 9 0.07
27 119 0.89
28 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
CCCTAGATTGTAAAATTACCAAAATAC
Found at i:9930172 original size:54 final size:53
Alignment explanation
Indices: 9930097--9930253 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 53
9930087 TTACCCTCGA
* *
9930097 TTGTGAAATTACTAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTTAAT
1 TTGTGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-TAAT
* **
9930151 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC-CTAAT
* * *
9930205 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACTAAAATACCC
1 TTGTGAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC
9930254 CTGATTTACA
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
53 5 0.05
54 86 0.93
55 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (53 bp):
TTGTGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTAAT
Found at i:9930216 original size:81 final size:81
Alignment explanation
Indices: 9930097--9930255 Score: 255
Period size: 81 Copynumber: 2.0 Consensus size: 81
9930087 TTACCCTCGA
* * * *
9930097 TTGTGAAATTACTAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTA
9930162 CCAAAATACCCCTAGT
66 CCAAAATACCCCTAGT
* *
9930178 TTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTA
*
9930243 CTAAAATACCCCT
66 CCAAAATACCCCT
9930256 GATTTACAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTA
CCAAAATACCCCTAGT
Found at i:9930332 original size:27 final size:27
Alignment explanation
Indices: 9930102--9930343 Score: 114
Period size: 27 Copynumber: 8.9 Consensus size: 27
9930092 CTCGATTGTG
* * **
9930102 AAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACTAAAATACCCTTGGTTTACA
** ** **
9930129 AAATTACCGAAATACCCTTAATTTGTA
1 AAATTACTAAAATACCCTTGGTTTACA
* * * **
9930156 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACTAAAATACCCTTGGTTTACA
* ***
9930183 AAATTACCAAAATACCAC-TGGTTTGTG
1 AAATTACTAAAATACC-CTTGGTTTACA
** *** **
9930210 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACTAAAATACCCTTGGTTTACA
* *
9930237 AAATTACTAAAATACCCCTGATTTACA
1 AAATTACTAAAATACCCTTGGTTTACA
* *
9930264 AAGTTAC-AGAAATACCCTTGACTTT-CTAA
1 AAATTACTA-AAATACCCTTG-GTTTAC--A
* *
9930293 AAATTA-TGGAAATACCATTGGTTTACA
1 AAATTACT-AAAATACCCTTGGTTTACA
9930320 AAATTACTAAAATACCCTTGGTTT
1 AAATTACTAAAATACCCTTGGTTT
9930344 GTAGATGTAC
Statistics
Matches: 175, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.01
27 148 0.85
28 8 0.05
29 17 0.10
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTTGGTTTACA
Found at i:9930427 original size:27 final size:27
Alignment explanation
Indices: 9930397--9930488 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
9930387 ACCCCTATTA
*
9930397 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
9930424 GGTAAAGTGACCGTATAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
9930451 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
9930478 GGTAAAATGAC
1 GGTAAAATGAC
9930489 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:9931334 original size:25 final size:25
Alignment explanation
Indices: 9931296--9931366 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
9931286 AGGAAGTGCT
* *
9931296 AAAAGGGCTATGCCCCAGTTAACCG
1 AAAAGGGCTTTGCCCCAGTTAACCA
* *
9931321 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTAACCA
9931346 AAAAGGGCTTTGCCCCAGTTA
1 AAAAGGGCTTTGCCCCAGTTA
9931367 TTAAAAGAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTAACCA
Found at i:9931378 original size:24 final size:23
Alignment explanation
Indices: 9931295--9931392 Score: 88
Period size: 25 Copynumber: 4.0 Consensus size: 23
9931285 GAGGAAGTGC
*
9931295 TAAAAGGGCTATGCCCCAGTTAACC
1 TAAAAGGGCTATGCCCCAGTT-A-T
* *
9931320 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAG-TTAT
* *
9931344 CAAAAAGGGCTTTGCCCCAGTTAT
1 -TAAAAGGGCTATGCCCCAGTTAT
*
9931368 TAAAAGAGGCTAGGCCTCCAGTTAT
1 TAAAAG-GGCTATGCC-CCAGTTAT
9931393 ATGAGAAAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 44 0.71
26 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (23 bp):
TAAAAGGGCTATGCCCCAGTTAT
Found at i:9932823 original size:20 final size:20
Alignment explanation
Indices: 9932788--9932844 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
9932778 TGATATGTGG
9932788 GATATGATAT-ACATGA-AT
1 GATATGATATGACATGATAT
9932806 GATATGATATGCACATGATAT
1 GATATGATATG-ACATGATAT
*
9932827 G-TATGAAATGAACATGAT
1 GATATGATATG-ACATGAT
9932845 GTAATCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.29
20 21 0.62
21 3 0.09
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (20 bp):
GATATGATATGACATGATAT
Found at i:9932930 original size:26 final size:26
Alignment explanation
Indices: 9932901--9932997 Score: 128
Period size: 26 Copynumber: 3.8 Consensus size: 26
9932891 TGCAAAAGGG
*
9932901 TTATGCCCCAGTTCATTGAAAATGGC
1 TTATGCCCCAGTTTATTGAAAATGGC
9932927 TTATGCCCCAGTTTATTGAAAATGGC
1 TTATGCCCCAGTTTATTGAAAATGGC
* * *
9932953 TTATGCCCTAGTTTACTGAAAAGGGC
1 TTATGCCCCAGTTTATTGAAAATGGC
*
9932979 TT-TGCCTCAG-TTATT-AAAA
1 TTATGCCCCAGTTTATTGAAAA
9932998 GAGGCTAGGC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
23 4 0.06
24 4 0.06
25 6 0.09
26 50 0.78
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (26 bp):
TTATGCCCCAGTTTATTGAAAATGGC
Found at i:9933580 original size:20 final size:21
Alignment explanation
Indices: 9933551--9933589 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9933541 TTTTCTAGGA
*
9933551 TTATTTTATTT-TTAATAACT
1 TTATTCTATTTGTTAATAACT
9933571 TTATTCTATTTGTTAATAA
1 TTATTCTATTTGTTAATAA
9933590 ATAGGCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
TTATTCTATTTGTTAATAACT
Found at i:9935847 original size:39 final size:39
Alignment explanation
Indices: 9935803--9936077 Score: 471
Period size: 39 Copynumber: 7.1 Consensus size: 39
9935793 ATGCAAGACA
9935803 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
9935842 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
9935881 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
9935920 CTGGAAATGTATCC-GGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* *
9935958 CTGGAAATATATCCAGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
9935997 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
** *
9936036 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
9936075 CTG
1 CTG
9936078 ATAATATAAT
Statistics
Matches: 223, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
38 36 0.16
39 187 0.84
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
Found at i:9944766 original size:20 final size:20
Alignment explanation
Indices: 9944733--9944807 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
9944723 ATACATGGGA
9944733 TATGATAT--ACATGA-ATG
1 TATGATATGCACATGATATG
*
9944750 ATATGATACGCACATGATATG
1 -TATGATATGCACATGATATG
9944771 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
9944791 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
9944808 GTAATCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 7 0.14
20 41 0.80
21 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:9944896 original size:26 final size:26
Alignment explanation
Indices: 9944857--9944976 Score: 163
Period size: 26 Copynumber: 4.7 Consensus size: 26
9944847 GAGGAAGTGC
*
9944857 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* * *
9944882 AAAGGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
9944908 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
9944934 AAAAGCGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
9944960 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
9944977 ATTATTAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
25 14 0.17
26 67 0.83
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:9944932 original size:52 final size:52
Alignment explanation
Indices: 9944857--9944976 Score: 181
Period size: 52 Copynumber: 2.3 Consensus size: 52
9944847 GAGGAAGTGC
* *
9944857 AAAAGGGC-TATGCCCCAGTTTATTGAAAGGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGCGCTTATGCCCCAGTTTACCA
* * *
9944908 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGCGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGCGCTTATGCCCCAGTTTACCA
9944960 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
9944977 ATTATTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
51 14 0.23
52 48 0.77
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGCGCTTATGCCCCAGTTTACCA
Found at i:9946615 original size:29 final size:29
Alignment explanation
Indices: 9946577--9946653 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
9946567 AATAATATTC
*
9946577 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
9946606 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
**
9946635 ATATATCCCATTAGGCCCA
1 ATATGGCCCATTAGGCCCA
9946654 GTCACATTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:9946898 original size:16 final size:16
Alignment explanation
Indices: 9946877--9946913 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9946867 GTAGCCAAAC
9946877 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
**
9946893 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTCAGCA
9946909 TTTCG
1 TTTCG
9946914 ACTTGGACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.22, G:0.22, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:9947989 original size:16 final size:17
Alignment explanation
Indices: 9947963--9947995 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
9947953 AAGTTTGAGA
9947963 TTTCAGGGATTTTTGGG
1 TTTCAGGGATTTTTGGG
9947980 TTTC-GGGATTTTTGGG
1 TTTCAGGGATTTTTGGG
9947996 GCGTTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.09, C:0.06, G:0.36, T:0.48
Consensus pattern (17 bp):
TTTCAGGGATTTTTGGG
Found at i:9954090 original size:28 final size:28
Alignment explanation
Indices: 9954029--9954093 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
9954019 GAAGAATTAG
*
9954029 AAAAGAAAATAAAAATTTAAATAGTAAT
1 AAAAGTAAATAAAAATTTAAATAGTAAT
*
9954057 AAAAGTAAATAAAAATTTAAATTGTAAT
1 AAAAGTAAATAAAAATTTAAATAGTAAT
9954085 AAAAGTAAA
1 AAAAGTAAA
9954094 GTGGCTAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (28 bp):
AAAAGTAAATAAAAATTTAAATAGTAAT
Found at i:9955226 original size:46 final size:46
Alignment explanation
Indices: 9955139--9955230 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
9955129 GCCTAAGAGC
* *
9955139 CCTCAAAATTGGCCTTTTCCGAATTGGACTAAACTTTGGTTCAGCA
1 CCTCAAAATTGGCCTTTTCCGAATAGGACTAAACTTGGGTTCAGCA
* ** *
9955185 CCTCAAAATTGGCTTTTTCCGAATAGGTTTATACTTGGGTTCAGCA
1 CCTCAAAATTGGCCTTTTCCGAATAGGACTAAACTTGGGTTCAGCA
9955231 GGGACACGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (46 bp):
CCTCAAAATTGGCCTTTTCCGAATAGGACTAAACTTGGGTTCAGCA
Found at i:9969836 original size:17 final size:17
Alignment explanation
Indices: 9969797--9969842 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
9969787 ATAAATTTTT
*
9969797 TAAAATTATTTATTAAA
1 TAAAAATATTTATTAAA
9969814 TAAAAAATATTTATTAAA
1 T-AAAAATATTTATTAAA
9969832 TAAAAAT-TTTA
1 TAAAAATATTTA
9969843 ACATGTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 16 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAAATATTTATTAAA
Found at i:9969837 original size:19 final size:18
Alignment explanation
Indices: 9969798--9969837 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
9969788 TAAATTTTTT
*
9969798 AAAATTATTTATTAAATA
1 AAAAATATTTATTAAATA
9969816 AAAAATATTTATTAAATA
1 AAAAATATTTATTAAATA
9969834 AAAA
1 AAAA
9969838 TTTTAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATATTTATTAAATA
Found at i:9973389 original size:24 final size:24
Alignment explanation
Indices: 9973357--9973404 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9973347 CAATATCGAC
9973357 GCCTCTGTCCCAGACAAGGTCTTA
1 GCCTCTGTCCCAGACAAGGTCTTA
9973381 GCCTCTGTCCCAGACAAGGTCTTA
1 GCCTCTGTCCCAGACAAGGTCTTA
9973405 CACAAAGTCA
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:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (24 bp):
GCCTCTGTCCCAGACAAGGTCTTA
Found at i:9978465 original size:10 final size:10
Alignment explanation
Indices: 9978450--9978483 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9978440 CTAGCTCAGA
* *
9978450 CATCGGGGAT
1 CATCGGGAAC
9978460 CATCGGGAAC
1 CATCGGGAAC
9978470 CATCGGGAAC
1 CATCGGGAAC
9978480 CATC
1 CATC
9978484 ATCAAACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.15
Consensus pattern (10 bp):
CATCGGGAAC
Found at i:9985339 original size:67 final size:65
Alignment explanation
Indices: 9985194--9985347 Score: 193
Period size: 67 Copynumber: 2.3 Consensus size: 65
9985184 CATCATGTGT
* * * * *
9985194 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCGTGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TATGATGTAGCTAGGTCGCATGCGTGATACCATGAGGACACCATG
9985259 TAG
63 TAG
*
9985262 ACAAGAGAGCTACGAGATAT-ATGTAGCTAGGTCGCATGCGTGATTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATGATGTAGCTAGGTCGCATGCGTGATACCA--TG-AGGACACCATG
9985326 TAG
63 TAG
9985329 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
9985348 AACTGGCTAG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
64 24 0.31
65 3 0.04
66 3 0.04
67 31 0.40
68 16 0.21
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (65 bp):
ACAAGAGAGCTACGAGATATGATGTAGCTAGGTCGCATGCGTGATACCATGAGGACACCATGTAG
Found at i:9998753 original size:18 final size:19
Alignment explanation
Indices: 9998720--9998755 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9998710 TTAAATTTAG
*
9998720 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
9998739 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
9998756 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:9999239 original size:64 final size:66
Alignment explanation
Indices: 9999159--9999320 Score: 186
Period size: 67 Copynumber: 2.5 Consensus size: 66
9999149 AGACATTATG
* * * *
9999159 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
*
9999222 T
66 A
* * * *
9999223 TTGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
9999288 AA
65 AA
* *
9999290 AT-TCGCTAGGTCACATGGGTGGTACTGAGTG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTG
9999321 TTCAGTATCT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
64 23 0.29
66 24 0.30
67 32 0.41
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
A
Found at i:10003229 original size:40 final size:40
Alignment explanation
Indices: 10003185--10003311 Score: 184
Period size: 40 Copynumber: 3.1 Consensus size: 40
10003175 GGATTTAACT
*
10003185 GGATATAGCAAATCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
10003225 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 GGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
10003265 GGATATAGTC-ACTAGCACAAAGTGCCTTCGGGTCTTAGCCC
1 GGATATAG-CAACTCGCACAAA-TGCCTTCGGGACTTAGCCC
10003306 GGATAT
1 GGATAT
10003312 CATCCGAATA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 55 0.71
41 23 0.29
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
GGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:10006014 original size:27 final size:27
Alignment explanation
Indices: 10005950--10006014 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
10005940 TAACACCGAG
*
10005950 TAAGCATAAAAGAATAGTAAGTTCATA
1 TAAGCAGAAAAGAATAGTAAGTTCATA
* * **
10005977 TAAGCATAAAAGATTAGTAAGTTTGTA
1 TAAGCAGAAAAGAATAGTAAGTTCATA
*
10006004 TAATCAGAAAA
1 TAAGCAGAAAA
10006015 CAAAACTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.28
Consensus pattern (27 bp):
TAAGCAGAAAAGAATAGTAAGTTCATA
Found at i:10011151 original size:38 final size:38
Alignment explanation
Indices: 10011094--10011166 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
10011084 ATTCGGGTTC
* * *
10011094 AATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGATA
1 AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGATA
*
10011132 AATCCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGG
10011167 CCTTCGTGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (38 bp):
AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGATA
Found at i:10011214 original size:43 final size:43
Alignment explanation
Indices: 10011159--10011313 Score: 238
Period size: 43 Copynumber: 3.6 Consensus size: 43
10011149 GCTGGTATTA
* * *
10011159 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTT
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
10011202 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
10011245 TATTCGGGCCTTCTTGCCTAGCAGGGTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
10011288 TATTCGGGCCTTCGTGCCTAACAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
10011314 GTAATACCGA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.13, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:10012961 original size:48 final size:48
Alignment explanation
Indices: 10012866--10012969 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
10012856 TGTGCTAAGC
* * **
10012866 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
**
10012914 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAACTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAACTAGT
*
10012962 ATAAGACC
1 GTAAGACC
10012970 ATAGTTGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.17
48 39 0.83
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
Found at i:10016655 original size:38 final size:38
Alignment explanation
Indices: 10016598--10016670 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
10016588 ATTCGGGTTC
* * *
10016598 AATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGATA
1 AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGATA
*
10016636 AATCCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGG
10016671 CCTTCGTGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (38 bp):
AATCCCGCAGGCCTAGTGCTGGTATTATATCCGGGATA
Found at i:10016719 original size:43 final size:43
Alignment explanation
Indices: 10016642--10016826 Score: 232
Period size: 43 Copynumber: 4.3 Consensus size: 43
10016632 GATAAATCCC
* * *
10016642 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * **
10016683 GCAGGCTTAGTGCCAGTAATGTGTATTCAAGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
10016726 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
10016769 GCAGGGTTCA-TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTT-AGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
10016812 ACAGGCGTAATGCCG
1 GCAGGCTTAGTGCCG
10016827 ATGAAATGAT
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
41 14 0.11
42 3 0.02
43 107 0.86
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.29
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:10021264 original size:29 final size:29
Alignment explanation
Indices: 10021229--10021367 Score: 140
Period size: 29 Copynumber: 4.8 Consensus size: 29
10021219 TGAATATAAG
* *
10021229 GTGATTTGGGCCTAATGGGCCATATAAAA
1 GTGAATTGGGCCTAATGGGCCATATAAAT
* * *
10021258 GTGATTTGGGCCTAATAGGCCATCTAAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
* *
10021287 GTGAAATTGGGCCTGATGGGCCATATGAAT
1 GTG-AATTGGGCCTAATGGGCCATATAAAT
** *
10021317 GTGAATCAGGCC-GATGGGCCATATAAAT
1 GTGAATTGGGCCTAATGGGCCATATAAAT
*
10021345 GAG-ATTGGGCC-AAGTGGGCCATA
1 GTGAATTGGGCCTAA-TGGGCCATA
10021368 CACATGTATG
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
27 7 0.08
28 26 0.28
29 36 0.39
30 24 0.26
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATAAAT
Found at i:10021362 original size:28 final size:27
Alignment explanation
Indices: 10021234--10021367 Score: 97
Period size: 28 Copynumber: 4.7 Consensus size: 27
10021224 ATAAGGTGAT
* *
10021234 TTGGGCCTAATGGGCCATATAAAAGTGA
1 TTGGGCC-AATGGGCCATATAAATGAGA
* * *
10021262 TTTGGGCCTAATAGGCCATCTAAATGTGAAA
1 -TTGGGCC-AATGGGCCATATAAA--TGAGA
* * *
10021293 TTGGGCCTGATGGGCCATATGAATGTGAA
1 TTGGGCC-AATGGGCCATATAAATGAG-A
** *
10021322 TCAGGCCGATGGGCCATATAAATGAGA
1 TTGGGCCAATGGGCCATATAAATGAGA
10021349 TTGGGCCAAGTGGGCCATA
1 TTGGGCCAA-TGGGCCATA
10021368 CACATGTATG
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
27 7 0.08
28 28 0.34
29 27 0.33
30 19 0.23
31 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (27 bp):
TTGGGCCAATGGGCCATATAAATGAGA
Found at i:10024441 original size:27 final size:27
Alignment explanation
Indices: 10024411--10024560 Score: 147
Period size: 27 Copynumber: 5.5 Consensus size: 27
10024401 AAATTGTACA
*
10024411 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
* ** * *
10024438 GCACTCAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
10024465 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
* *
10024492 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * *
10024520 GCACTAAGTGTGCGATTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
10024547 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
10024561 GGCTCAATAT
Statistics
Matches: 101, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 79 0.78
28 22 0.22
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:10024524 original size:82 final size:81
Alignment explanation
Indices: 10024411--10024560 Score: 203
Period size: 82 Copynumber: 1.8 Consensus size: 81
10024401 AAATTGTACA
* * *
10024411 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
10024475 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** * *
10024492 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
10024557 TGCG
65 TGCG
10024561 GGCTCAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
81 16 0.27
82 43 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:10024551 original size:55 final size:53
Alignment explanation
Indices: 10024410--10024560 Score: 158
Period size: 55 Copynumber: 2.8 Consensus size: 53
10024400 TAAATTGTAC
* * *
10024410 AGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
* * ** ** *
10024463 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTGACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * *
10024518 TAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG
10024561 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
53 1 0.01
54 36 0.46
55 41 0.52
56 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:10029744 original size:40 final size:40
Alignment explanation
Indices: 10029698--10029809 Score: 143
Period size: 40 Copynumber: 3.0 Consensus size: 40
10029688 AAGGGATTTT
10029698 TTTAATCTAAAATTAACTAACTAATTAACTATGAATGCGA
1 TTTAATCTAAAATTAACTAACTAATTAACTATGAATGCGA
* *
10029738 TTTAATCTAAAATTAACTAACTAA-TGA-T-T---T---T
1 TTTAATCTAAAATTAACTAACTAATTAACTATGAATGCGA
10029769 TTTAATCTAAAATTAACTAACTAATTAACTATGAATGCGA
1 TTTAATCTAAAATTAACTAACTAATTAACTATGAATGCGA
10029809 T
1 T
10029810 AGAGAGCGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
31 24 0.41
32 2 0.03
33 1 0.02
34 2 0.03
37 2 0.03
38 1 0.02
39 2 0.03
40 25 0.42
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (40 bp):
TTTAATCTAAAATTAACTAACTAATTAACTATGAATGCGA
Found at i:10031483 original size:27 final size:25
Alignment explanation
Indices: 10031448--10031542 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 25
10031438 AGCATGGCTG
*
10031448 CCAGAACAGATAATGTGAAGGAGTCA
1 CCAGAACAGATAATGTGAA-GAGCCA
*
10031474 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GT-GAAGAGCCA
* *
10031502 CCAGAACAGATATATGTGGCAGAGCTA
1 CCAGAACAGATA-ATGT-GAAGAGCCA
*
10031529 CCAGATCAGATAAT
1 CCAGAACAGATAAT
10031543 TTGTGGCATA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
26 7 0.11
27 38 0.62
28 14 0.23
29 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (25 bp):
CCAGAACAGATAATGTGAAGAGCCA
Found at i:10031549 original size:55 final size:54
Alignment explanation
Indices: 10031448--10031560 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 54
10031438 AGCATGGCTG
10031448 CCAGAACAGATAATGTGAAGGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGAAGGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
10031502 CCAGAACAGATATATGTGGCA-GAG-CTACCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGT-GAAGGAGTC-ACCAGATACAGATAA-TCGTGGCAGAGCCA
10031557 CCAG
1 CCAG
10031561 GACACTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
54 20 0.38
55 30 0.58
56 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGAAGGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:10031559 original size:28 final size:28
Alignment explanation
Indices: 10031472--10031560 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 28
10031462 GTGAAGGAGT
*
10031472 CACCAGATACAGATAA-TCGTGGCAGAGC
1 CACCAGAT-CAGATAATTTGTGGCAGAGC
* *
10031500 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGATCAGATAATTTGTGGCAGAGC
* *
10031527 TACCAGATCAGATAATTTGTGGCATAGC
1 CACCAGATCAGATAATTTGTGGCAGAGC
10031555 CACCAG
1 CACCAG
10031561 GACACTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 26 0.51
28 24 0.47
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (28 bp):
CACCAGATCAGATAATTTGTGGCAGAGC
Found at i:10033130 original size:16 final size:16
Alignment explanation
Indices: 10033109--10033140 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10033099 CCAAATGCCA
10033109 TACTGAAGTTCAACCG
1 TACTGAAGTTCAACCG
10033125 TACTGAAGTTCAACCG
1 TACTGAAGTTCAACCG
10033141 CGTGAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (16 bp):
TACTGAAGTTCAACCG
Found at i:10033148 original size:15 final size:15
Alignment explanation
Indices: 10033110--10033149 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
10033100 CAAATGCCAT
10033110 ACTGAAGTTCAACCG
1 ACTGAAGTTCAACCG
10033125 TACTGAAGTTCAACCG
1 -ACTGAAGTTCAACCG
10033141 -CGTGAAGTT
1 AC-TGAAGTT
10033150 TGGGGATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.04
15 7 0.30
16 15 0.65
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (15 bp):
ACTGAAGTTCAACCG
Found at i:10038270 original size:28 final size:27
Alignment explanation
Indices: 10038221--10038333 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
10038211 AGCATAGCTG
* *
10038221 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
10038247 ACAGATACAGGTAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
10038275 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
10038302 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA-TTGTGGCAGAGCCA
10038330 CCAG
1 CCAG
10038334 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 35 0.47
28 32 0.43
29 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:10038307 original size:55 final size:54
Alignment explanation
Indices: 10038221--10038333 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
10038211 AGCATAGCTG
* *
10038221 CCAGAACAGATAATGTGACAGAGTCAACAGATACAGGTAA-TTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCAACAGAT-CAGATAATTTGTGGCAGAGCCA
* * *
10038275 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCAACAGATCAGATAATTTGTGGCAGAGCCA
10038330 CCAG
1 CCAG
10038334 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 18 0.35
55 34 0.65
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCAACAGATCAGATAATTTGTGGCAGAGCCA
Found at i:10045883 original size:28 final size:26
Alignment explanation
Indices: 10045828--10045939 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 26
10045818 AGCATGGCTG
* *
10045828 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
10045854 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
10045882 CCAGAACATATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
10045909 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
10045937 CCA
1 CCA
10045940 AGACGCTCCC
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.49
28 32 0.43
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:10045911 original size:55 final size:54
Alignment explanation
Indices: 10045828--10045939 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 54
10045818 AGCATGGCTG
*
10045828 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * * *
10045882 CCAGAACATATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
10045937 CCA
1 CCA
10045940 AGACGCTCCC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:10049727 original size:56 final size:56
Alignment explanation
Indices: 10049596--10049729 Score: 205
Period size: 56 Copynumber: 2.4 Consensus size: 56
10049586 TAGACAGGGT
* * * *
10049596 CTTAGTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACATGGT
1 CTTACTCGCACACATATATTGAAGTCACATATCGATGCCAACGTATTAAACATGGC
* * *
10049652 CTTACTTGCACACATATATTGAAGTCACATATCGATGCCAACGTCTTAAACGTGGC
1 CTTACTCGCACACATATATTGAAGTCACATATCGATGCCAACGTATTAAACATGGC
10049708 CTTACTCGCACACATATATTGA
1 CTTACTCGCACACATATATTGA
10049730 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (56 bp):
CTTACTCGCACACATATATTGAAGTCACATATCGATGCCAACGTATTAAACATGGC
Found at i:10053624 original size:7 final size:7
Alignment explanation
Indices: 10053590--10053627 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
10053580 AAAAAGAAAG
*
10053590 ATAAAAA
1 ATAAATA
10053597 AT-AATA
1 ATAAATA
10053603 A-AAATA
1 ATAAATA
10053609 ATAAATA
1 ATAAATA
10053616 ATAAATA
1 ATAAATA
10053623 ATAAA
1 ATAAA
10053628 CTCAATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 9 0.32
7 19 0.68
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
ATAAATA
Found at i:10053721 original size:14 final size:15
Alignment explanation
Indices: 10053702--10053929 Score: 62
Period size: 14 Copynumber: 14.5 Consensus size: 15
10053692 AAAAAATTAG
*
10053702 AAATAACAA-AATAA
1 AAATAAAAATAATAA
10053716 AAATAAAAATAAT-A
1 AAATAAAAATAATAA
10053730 AAATGAAATATATAA-AA
1 AAAT-AAA-A-ATAATAA
*
10053747 AAA-AAAAATTATGAAA
1 AAATAAAAATAAT--AA
* * *
10053763 AAAGAAAAAAAATTAG
1 AAATAAAAATAA-TAA
*
10053779 AAATAACAA-AATAA
1 AAATAAAAATAATAA
10053793 AAATAAAAACTAA-AA
1 AAATAAAAA-TAATAA
** *
10053808 TGATAAAATATATGAAAA
1 AAATAAAA-ATA--ATAA
10053826 AAATTAAAATATAA-AA
1 AAA-TAAAA-ATAATAA
*
10053842 AATTAAAAAT-ATAA
1 AAATAAAAATAATAA
** *
10053856 GCATAAGAATAATAA
1 AAATAAAAATAATAA
* *
10053871 ATTAAT-TAACTAATTAGTA
1 A--AATAAAAATAA-TA--A
10053890 AAATAAAAATAA-AA
1 AAATAAAAATAATAA
*
10053904 AATATAACAATTAATAA
1 AA-ATAA-AAATAATAA
10053921 TAAATAAAA
1 -AAATAAAA
10053930 TAAAATTGGG
Statistics
Matches: 159, Mismatches: 26, Indels: 56
0.66 0.11 0.23
Matches are distributed among these distances:
13 4 0.03
14 37 0.23
15 34 0.21
16 33 0.21
17 29 0.18
18 11 0.07
19 11 0.07
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (15 bp):
AAATAAAAATAATAA
Found at i:10053725 original size:20 final size:20
Alignment explanation
Indices: 10053702--10053801 Score: 75
Period size: 20 Copynumber: 5.2 Consensus size: 20
10053692 AAAAAATTAG
10053702 AAATAACAAAATAAAAATAA
1 AAATAACAAAATAAAAATAA
* *
10053722 AAATAATAAAATGAAATATATA
1 AAATAACAAAAT-AAAAATA-A
** *
10053744 AAA-AA-AAAA-AATTATGA
1 AAATAACAAAATAAAAATAA
* * *
10053761 AAA-AAGAAAA-AAAATTAG
1 AAATAACAAAATAAAAATAA
10053779 AAATAACAAAATAAAAATAA
1 AAATAACAAAATAAAAATAA
10053799 AAA
1 AAA
10053802 CTAAAATGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
17 6 0.10
18 15 0.24
19 6 0.10
20 24 0.38
21 8 0.13
22 4 0.06
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (20 bp):
AAATAACAAAATAAAAATAA
Found at i:10053751 original size:19 final size:18
Alignment explanation
Indices: 10053709--10053843 Score: 55
Period size: 21 Copynumber: 7.1 Consensus size: 18
10053699 TAGAAATAAC
* *
10053709 AAAATAAAAATAAAAATAA
1 AAAATAAATATATAAA-AA
10053728 TAAAATGAAATATATAAAAA
1 -AAAAT-AAATATATAAAAA
10053748 AAAA-AAAT-TATGAAAAA
1 AAAATAAATATAT-AAAAA
* *
10053765 AGAAA-AAAAATTAGAAATAA
1 A-AAATAAATA-TATAAA-AA
*
10053785 CAAAATAAAAATA-AAAACTA
1 -AAAATAAATATATAAAA--A
*
10053805 AAATGATAAAATATATGAAAA
1 AAA--AT-AAATATATAAAAA
*
10053826 AAATTAAA-ATATAAAAA
1 AAAATAAATATATAAAAA
10053843 A
1 A
10053844 TTAAAAATAT
Statistics
Matches: 93, Mismatches: 8, Indels: 31
0.70 0.06 0.23
Matches are distributed among these distances:
16 3 0.03
17 19 0.20
18 10 0.11
19 14 0.15
20 17 0.18
21 21 0.23
22 6 0.06
23 3 0.03
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (18 bp):
AAAATAAATATATAAAAA
Found at i:10053790 original size:57 final size:55
Alignment explanation
Indices: 10053685--10053801 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 55
10053675 AAAAATACGG
* *
10053685 AAAAAGAAAAAAATTAGAAATAACAAAATAAAAATAAAAATAATAAAATGAAATATAT
1 AAAAAGAAAAAAATTAGAAAAAACAAAATAAAAATAAAAATAACAAAAT-AAA-A-AT
* * *
10053743 AAAAA-AAAAAAATTATGAAAAAAGAAAA-AAAATTAGAAATAACAAAATAAAAAT
1 AAAAAGAAAAAAATTA-GAAAAAACAAAATAAAAATAAAAATAACAAAATAAAAAT
10053797 AAAAA
1 AAAAA
10053802 CTAAAATGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
54 7 0.13
55 1 0.02
56 3 0.06
57 27 0.51
58 15 0.28
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (55 bp):
AAAAAGAAAAAAATTAGAAAAAACAAAATAAAAATAAAAATAACAAAATAAAAAT
Found at i:10053850 original size:78 final size:77
Alignment explanation
Indices: 10053685--10053828 Score: 229
Period size: 77 Copynumber: 1.9 Consensus size: 77
10053675 AAAAATACGG
*
10053685 AAAAAG-AAAAAAATTAGAAATAACAAAATAAAAATAAAAATAATAAAATGAAATATATAAAAAA
1 AAAAAGAAAAAAAATTAGAAATAACAAAATAAAAATAAAAATAATAAAATAAAATATATAAAAAA
10053749 AAAAAATTATGA
66 AAAAAATTATGA
* *
10053761 AAAAAGAAAAAAAATTAGAAATAACAAAATAAAAATAAAAACTAA-AATGATAAAATATATGAAA
1 AAAAAGAAAAAAAATTAGAAATAACAAAATAAAAATAAAAA-TAATAA-AATAAAATATATAAAA
10053825 AAAA
64 AAAA
10053829 TTAAAATATA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
76 6 0.10
77 36 0.58
78 20 0.32
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (77 bp):
AAAAAGAAAAAAAATTAGAAATAACAAAATAAAAATAAAAATAATAAAATAAAATATATAAAAAA
AAAAAATTATGA
Found at i:10057994 original size:30 final size:30
Alignment explanation
Indices: 10057960--10058016 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10057950 CACGGACTGG
10057960 CACATGGGCGTA-TGGCCAGCCCATGTGGCT
1 CACATGGGCG-AGTGGCCAGCCCATGTGGCT
* *
10057990 CACATGGGTGAGTGGCCAGCCCGTGTG
1 CACATGGGCGAGTGGCCAGCCCATGTG
10058017 AAAATGCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.16, C:0.28, G:0.37, T:0.19
Consensus pattern (30 bp):
CACATGGGCGAGTGGCCAGCCCATGTGGCT
Found at i:10066887 original size:9 final size:9
Alignment explanation
Indices: 10066873--10066947 Score: 60
Period size: 9 Copynumber: 7.9 Consensus size: 9
10066863 TAAGTTGAAG
10066873 AAAATAAAA
1 AAAATAAAA
10066882 AAAATAAAA
1 AAAATAAAA
* *
10066891 CAACTAAAA
1 AAAATAAAA
10066900 CAAAATTAAAA
1 -AAAA-TAAAA
* *
10066911 AGAAAGATAA
1 A-AAATAAAA
*
10066921 AAAATAATA
1 AAAATAAAA
10066930 AAAATAATAA
1 AAAATAA-AA
*
10066940 ATAATAAA
1 AAAATAAA
10066948 TAATAAACTC
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
9 29 0.57
10 14 0.27
11 8 0.16
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.16
Consensus pattern (9 bp):
AAAATAAAA
Found at i:10066933 original size:23 final size:23
Alignment explanation
Indices: 10066873--10066954 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
10066863 TAAGTTGAAG
* *
10066873 AAAATAAAAAAAATAAAACAACTAA
1 AAAATAATAAAAATAATA-AA-TAA
* *
10066898 AACAA-AATTAAAAAGAA-AGATAA
1 AA-AATAA-TAAAAATAATAAATAA
10066921 AAAATAATAAAAATAATAAATAA
1 AAAATAATAAAAATAATAAATAA
*
10066944 TAAATAATAAA
1 AAAATAATAAA
10066955 CTCAATGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
22 10 0.21
23 22 0.47
24 1 0.02
25 5 0.11
26 9 0.19
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (23 bp):
AAAATAATAAAAATAATAAATAA
Found at i:10066951 original size:7 final size:7
Alignment explanation
Indices: 10066917--10066954 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
10066907 AAAAAGAAAG
*
10066917 ATAAAAA
1 ATAAATA
10066924 AT-AATA
1 ATAAATA
10066930 A-AAATA
1 ATAAATA
10066936 ATAAATA
1 ATAAATA
10066943 ATAAATA
1 ATAAATA
10066950 ATAAA
1 ATAAA
10066955 CTCAATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 9 0.32
7 19 0.68
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
ATAAATA
Found at i:10067048 original size:14 final size:15
Alignment explanation
Indices: 10067029--10067104 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 15
10067019 AAAAAATTAG
*
10067029 AAATAACAA-AATAA
1 AAATAAAAATAATAA
10067043 AAATAAAAATAAT-A
1 AAATAAAAATAATAA
10067057 AAATGAAATATATAA-AA
1 AAAT-AAA-A-ATAATAA
10067074 AAATTAAAAAT-ATAA
1 AAA-TAAAAATAATAA
** *
10067089 GTATAAGAATAATAA
1 AAATAAAAATAATAA
10067104 A
1 A
10067105 TTAATTAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.41
15 15 0.31
16 2 0.04
17 11 0.22
18 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (15 bp):
AAATAAAAATAATAA
Found at i:10067071 original size:23 final size:20
Alignment explanation
Indices: 10067029--10067074 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
10067019 AAAAAATTAG
*
10067029 AAATAACAAAATAAAAATAA
1 AAATAATAAAATAAAAATAA
10067049 AAATAATAAAATGAAATATATAA
1 AAATAATAAAAT-AAA-A-ATAA
10067072 AAA
1 AAA
10067075 AATTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 3 0.14
22 1 0.05
23 7 0.32
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
AAATAATAAAATAAAAATAA
Found at i:10067076 original size:17 final size:17
Alignment explanation
Indices: 10067047--10067088 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
10067037 AAATAAAAAT
*
10067047 AAAA-ATAATAAAATGA
1 AAAATATAAAAAAATGA
* *
10067063 AATATATAAAAAAATTA
1 AAAATATAAAAAAATGA
10067080 AAAATATAA
1 AAAATATAA
10067089 GTATAAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATATAAAAAAATGA
Found at i:10067979 original size:61 final size:63
Alignment explanation
Indices: 10067846--10067979 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 63
10067836 ACTGGGCCTA
* *
10067846 AGCCCTATT-CAGAAATCAGAGTTAATTGGGCCTTAGCCCATATCAATATTAATCTAGGCCAT
1 AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCAT
* * * * * *
10067908 AGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATCAATCTGGGTCGT
1 AGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCAT
10067968 AGCCCTATTACA
1 AGCCCTATTACA
10067980 AGTCATGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
60 31 0.52
61 21 0.35
62 8 0.13
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (63 bp):
AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCAT
Found at i:10077087 original size:42 final size:42
Alignment explanation
Indices: 10077040--10077154 Score: 108
Period size: 42 Copynumber: 2.8 Consensus size: 42
10077030 TGACATTAGG
* *
10077040 GTTATGAG-TTTACGTGTAAGACCATATCTGGGATATGGAATC
1 GTTATGAGATTT-CGTGTAAGACAATATCTGGGACATGGAATC
* * *
10077082 GTTATGAGATTTTGTGTAAGACAATGTCTGGGACATGGCATC
1 GTTATGAGATTTCGTGTAAGACAATATCTGGGACATGGAATC
** * * * *
10077124 AATATGAAAATT-GTGTAAGACCATAGCTGGG
1 GTTATGAGATTTCGTGTAAGACAATATCTGGG
10077155 CTATTGGCAT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 16 0.27
42 41 0.68
43 3 0.05
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.31
Consensus pattern (42 bp):
GTTATGAGATTTCGTGTAAGACAATATCTGGGACATGGAATC
Found at i:10077154 original size:41 final size:42
Alignment explanation
Indices: 10077053--10077154 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
10077043 ATGAGTTTAC
* * ** **
10077053 GTGTAAGACCATATCTGGGATATGGAATCGTTATGAGATTTT
1 GTGTAAGACCATAGCTGGGACATGGAATCAATATGAGAAATT
* *
10077095 GTGTAAGACAAT-GTCTGGGACATGGCATCAATATGA-AAATT
1 GTGTAAGACCATAG-CTGGGACATGGAATCAATATGAGAAATT
10077136 GTGTAAGACCATAGCTGGG
1 GTGTAAGACCATAGCTGGG
10077155 CTATTGGCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
41 19 0.39
42 30 0.61
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGACATGGAATCAATATGAGAAATT
Found at i:10077164 original size:42 final size:42
Alignment explanation
Indices: 10077053--10077174 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 42
10077043 ATGAGTTTAC
* * * ** **
10077053 GTGTAAGACCATATCTGGGATATGGAATCGTTATGAGATTTT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAATATGAGAAATT
*
10077095 GTGTAAGACAAT-GTCTGGGAC-ATGGCATCAATATGA-AAATT
1 GTGTAAGACCATAG-CTGGG-CTATGGCATCAATATGAGAAATT
**
10077136 GTGTAAGACCATAGCTGGGCTATTGGCATTGATATGAGA
1 GTGTAAGACCATAGCTGGGCTA-TGGCATCAATATGAGA
10077175 TCCCATGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
40 1 0.02
41 20 0.32
42 41 0.65
43 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCAATATGAGAAATT
Found at i:10084904 original size:39 final size:38
Alignment explanation
Indices: 10084792--10084919 Score: 130
Period size: 39 Copynumber: 3.3 Consensus size: 38
10084782 CTTTAACCCG
* * *
10084792 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATTTTTCCAGCATGTAGCCTGCGGA-CTCATGTCCA
* ** * *
10084831 GATATATTTATAGCATATAGCCTGCAGATCTCATGTCCA
1 GATATTTTTCCAGCATGTAGCCTGCGGA-CTCATGTCCA
* *
10084870 GATATTTTTCCAGCATGTAGCCTGTGGACATCATGTTCA
1 GATATTTTTCCAGCATGTAGCCTGCGGAC-TCATGTCCA
10084909 GATATATTTTC
1 GATAT-TTTTC
10084920 AATCTTATAC
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
38 1 0.01
39 65 0.92
40 5 0.07
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (38 bp):
GATATTTTTCCAGCATGTAGCCTGCGGACTCATGTCCA
Found at i:10092687 original size:39 final size:39
Alignment explanation
Indices: 10092644--10092768 Score: 162
Period size: 39 Copynumber: 3.2 Consensus size: 39
10092634 GGTCTTTAAC
* *
10092644 CCGGATATTTTTCCAGCACGTAGCCTGAGGACCTCAAGT
1 CCGGATATTTTTCCAGCATGTAGCCTGAGGACCTCATGT
* ** * * *
10092683 CCGGATATATTTATAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATGTAGCCTGAGGACCTCATGT
10092722 CCGGATATTTTTCCAGCATGTAGCCTGCA-GACCTCATGT
1 CCGGATATTTTTCCAGCATGTAGCCTG-AGGACCTCATGT
10092761 CCGGATAT
1 CCGGATAT
10092769 ACTTTCAATC
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATGTAGCCTGAGGACCTCATGT
Done.