Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 96 of 106
Found at i:20284902 original size:10 final size:10
Alignment explanation
Indices: 20284878--20284995 Score: 61
Period size: 10 Copynumber: 11.7 Consensus size: 10
20284868 ATAGATAAAT
*
20284878 AATAAAA-AT
1 AATAAAATAA
20284887 AATAAAATAA
1 AATAAAATAA
20284897 AATAAATATATA
1 AATAAA-ATA-A
20284909 TTAATAAATAGTAA
1 --AATAAA-A-TAA
20284923 TAAT-AAAT-A
1 -AATAAAATAA
* *
20284932 CATAAAATAT
1 AATAAAATAA
20284942 AA-AAAAT-A
1 AATAAAATAA
* * *
20284950 CATATATATTA
1 AATA-AAATAA
20284961 AAT-AAAT-A
1 AATAAAATAA
20284969 AATAAAATAA
1 AATAAAATAA
20284979 AATAAAATAA
1 AATAAAATAA
20284989 AATAAAA
1 AATAAAA
20284996 ACAAGGTGGA
Statistics
Matches: 87, Mismatches: 9, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
8 7 0.08
9 25 0.29
10 30 0.34
11 7 0.08
12 3 0.03
13 4 0.05
14 9 0.10
15 2 0.02
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (10 bp):
AATAAAATAA
Found at i:20284939 original size:53 final size:51
Alignment explanation
Indices: 20284814--20284968 Score: 149
Period size: 54 Copynumber: 3.0 Consensus size: 51
20284804 ATATATTAAT
* * * * *
20284814 TAATAGATAAATAATAATATATATAAATAGATAAATA-ATAATACATATATA-
1 TAATAGATAAATAATAA-AAATATAAA-AAATAAATATATATTAAATAAATAG
20284865 TCAATAGATAAATAATAAAAATAATAAAATAAAATAAATATATATT-AATAAATAG
1 T-AATAGATAAATAATAAAAAT-AT--AA-AAAATAAATATATATTAAATAAATAG
*
20284920 TAATA-ATAAATACAT-AAAATATAAAAAATACATATATATTAAATAAATA
1 TAATAGATAAATA-ATAAAAATATAAAAAATAAATATATATTAAATAAATA
20284969 AATAAAATAA
Statistics
Matches: 89, Mismatches: 6, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
49 15 0.17
50 10 0.11
51 4 0.04
52 20 0.22
53 12 0.13
54 22 0.25
55 6 0.07
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (51 bp):
TAATAGATAAATAATAAAAATATAAAAAATAAATATATATTAAATAAATAG
Found at i:20298049 original size:20 final size:21
Alignment explanation
Indices: 20298018--20298058 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
20298008 CATATATTAT
20298018 TTTAATATAAATATTA-ATATA
1 TTTAATATAAAT-TTAGATATA
20298039 TTTAA-ATAAATTTAGATATA
1 TTTAATATAAATTTAGATATA
20298059 AAACTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 11 0.58
21 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTAATATAAATTTAGATATA
Found at i:20298098 original size:18 final size:18
Alignment explanation
Indices: 20298074--20298112 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
20298064 ATTTTTATTT
*
20298074 ATAAAAATTTTAAAAATTA
1 ATAAAAA-TATAAAAATTA
*
20298093 ATAAAAATATAAAATTTA
1 ATAAAAATATAAAAATTA
20298111 AT
1 AT
20298113 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAAAATATAAAAATTA
Found at i:20298526 original size:3 final size:3
Alignment explanation
Indices: 20298520--20298569 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
20298510 TATGTATCAT
20298520 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20298568 AT
1 AT
20298570 CTACGTCTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:20298782 original size:2 final size:2
Alignment explanation
Indices: 20298775--20298813 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
20298765 ATAACCACTA
20298775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20298814 AATGAGATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20299810 original size:11 final size:11
Alignment explanation
Indices: 20299794--20299828 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
20299784 AATATTTAAC
20299794 AAAACAAACAA
1 AAAACAAACAA
20299805 AAAACAAA-AA
1 AAAACAAACAA
20299815 ATAAACAAACAA
1 A-AAACAAACAA
20299827 AA
1 AA
20299829 GAAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAACAAACAA
Found at i:20300623 original size:20 final size:19
Alignment explanation
Indices: 20300579--20300623 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
20300569 CCGCGCGTCA
*
20300579 ACCCGCGACCCGACCCGGG
1 ACCCGCGACCCGACCCGCG
**
20300598 GTCCGCGCACCCGACCCGCG
1 ACCCGCG-ACCCGACCCGCG
20300618 ACCCGC
1 ACCCGC
20300624 TGCCTTTATC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.13, C:0.56, G:0.29, T:0.02
Consensus pattern (19 bp):
ACCCGCGACCCGACCCGCG
Found at i:20301165 original size:19 final size:18
Alignment explanation
Indices: 20301125--20301168 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
20301115 TTTTTAAAAA
* *
20301125 TAATAAATAAAAATTGAT
1 TAATAAATAAAAATTAAC
*
20301143 TAATAAATTAAAATATAAC
1 TAATAAATAAAAAT-TAAC
20301162 TAATAAA
1 TAATAAA
20301169 AAATAAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TAATAAATAAAAATTAAC
Found at i:20301190 original size:210 final size:208
Alignment explanation
Indices: 20300964--20301513 Score: 860
Period size: 210 Copynumber: 2.7 Consensus size: 208
20300954 AAAAAAATGA
*
20300964 AAGAA-AAAGGAAATTTTTATCCGACGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACGA
1 AAGAAGAAAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACGA
20301028 AATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAAAAATTT
66 AATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAAAAATTT
* *
20301093 TCAATACAGTAAAGATTTTCTTTTTTTAAAAATAATAAATAAAAATTGATTAATAAATTAAAATA
131 TCAATACAGTAAAGATTTTC-TTTTTTAAAAATAATAAATAAAAATTAATGAATAAATTAAAATA
20301158 TAACTAATAAAAAAT
195 TAACTAAT-AAAAAT
20301173 AAG-AGAAGAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACG
1 AAGAAGAA-AGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACG
*
20301237 AAATCTCTAGGTGAGAAGA-TTTTTTT-AAGTACTACCAGCGTATTGGAGTATTTAT-AAAAATT
65 AAATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAAAAATT
* * *
20301299 TTCAATATAGTAAAGATTTTCTTTTTTAAGAATAATAAATAAAAATTAATGAATATATTAAAATA
130 TTCAATACAGTAAAGATTTTCTTTTTTAAAAATAATAAATAAAAATTAATGAATAAATTAAAATA
*
20301364 TAAGTAATAAAAAT
195 TAACTAATAAAAAT
* * * * *
20301378 AAGAAGAAAAGAAA-TTTAATCCGATGATGAGATTCAAAGGTATTCCGAGTAGAGATGCTTTAAG
1 AAGAAGAAAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATGC-CTACG
* * * * *
20301442 AAATCTCTAGGTGAGAAGATTTTTTGTAAAATATTACCAGCGTATTGGAATATTTATAGAAAATC
65 AAATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAAAAATT
20301507 TTCAATA
130 TTCAATA
20301514 TGATTAAATT
Statistics
Matches: 315, Mismatches: 19, Indels: 15
0.90 0.05 0.04
Matches are distributed among these distances:
204 42 0.13
205 36 0.11
206 57 0.18
207 53 0.17
208 41 0.13
209 12 0.04
210 74 0.23
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (208 bp):
AAGAAGAAAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACGA
AATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAAAAATTT
TCAATACAGTAAAGATTTTCTTTTTTAAAAATAATAAATAAAAATTAATGAATAAATTAAAATAT
AACTAATAAAAAT
Found at i:20301965 original size:192 final size:191
Alignment explanation
Indices: 20301638--20302008 Score: 681
Period size: 192 Copynumber: 1.9 Consensus size: 191
20301628 CATAACATAA
*
20301638 TTTCTTACGAAAAGTAAATTTAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATG
1 TTTCTTACGAAAAGTAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATG
20301703 CTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAG
66 CTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAG
20301768 AATTATTTCAACAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTTACATGACAT
131 AATTATTTCAACAAAAAGGTTTTAATTTATTTTTCTCGAGAAT-AATTTTTTTACATGACAT
20301830 TTTCTTACGAAAAGTAAATTCGAG-CCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGAT
1 TTTCTTACGAAAAGTAAATT-GAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGAT
*
20301894 GCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAATATTTTAA
65 GCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAA
* *
20301959 GAATTATTTCAATAAAAAGGTTTTGATTTATTTTTCTCGAGAATAATTTT
130 GAATTATTTCAACAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTT
20302009 AATAAATAAA
Statistics
Matches: 174, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
191 6 0.03
192 166 0.95
193 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (191 bp):
TTTCTTACGAAAAGTAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATG
CTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAG
AATTATTTCAACAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTACATGACAT
Found at i:20303126 original size:15 final size:16
Alignment explanation
Indices: 20303103--20303137 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
20303093 GCATCATTTT
*
20303103 TTTTTAAAAA-AAAAA
1 TTTTCAAAAATAAAAA
20303118 TTTTCAAAAATAAAAA
1 TTTTCAAAAATAAAAA
20303134 TTTT
1 TTTT
20303138 AACACATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTTCAAAAATAAAAA
Found at i:20310513 original size:8 final size:8
Alignment explanation
Indices: 20310500--20310529 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
20310490 TTTTGCTTAA
20310500 AAAAAAAG
1 AAAAAAAG
20310508 AAAAAAA-
1 AAAAAAAG
20310515 AAAAAAAG
1 AAAAAAAG
20310523 AAAAAAA
1 AAAAAAA
20310530 TGATGACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:20310518 original size:15 final size:15
Alignment explanation
Indices: 20310498--20310529 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
20310488 TATTTTGCTT
20310498 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
20310513 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
20310528 AA
1 AA
20310530 TGATGACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:20311351 original size:46 final size:47
Alignment explanation
Indices: 20311299--20312362 Score: 1697
Period size: 47 Copynumber: 22.9 Consensus size: 47
20311289 TTTGAAACAG
*
20311299 AAGATGAA-TTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
* *
20311345 AAGATGATTTTTAAAG-TGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311391 -AGATGAGATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
20311438 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311485 AAGATGAAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCC
*
20311534 AAGATGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCC
*
20311582 AAGATGAA-TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311628 -AGATGAATTTTAAAGTTGTTGAG-C-CTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
20311672 -A-ATGAAATTTTAAAGTTG-TGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
20311717 AAGAT-AGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT-C
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311763 -AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
20311810 -AGATGAAATTTTAAAGTTGTTGGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATG-AATTTTAAAGTTGTT-GAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311858 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311905 -AGATGAAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311952 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311999 -AGATGAATTTTAAAGTTG-TGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20312044 -AGATGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20312090 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
20312138 -AGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CTTTT-C
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20312182 -AGATGAAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20312229 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
20312276 -AGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20312322 AAGATGAATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
20312363 CCTTTCAAAA
Statistics
Matches: 963, Mismatches: 26, Indels: 57
0.92 0.02 0.05
Matches are distributed among these distances:
43 7 0.01
44 41 0.04
45 120 0.12
46 245 0.25
47 355 0.37
48 178 0.18
49 17 0.02
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (47 bp):
AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
Found at i:20311853 original size:277 final size:283
Alignment explanation
Indices: 20311299--20312362 Score: 1708
Period size: 277 Copynumber: 3.8 Consensus size: 283
20311289 TTTGAAACAG
* * *
20311299 AAGATGAA-TTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATG-ATTTTTAAAG-
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AGATGAAATTTTAAAGT
* * *
20311361 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AGATGAGATTTTAAAGTTGTGGAGCCTCTGCTGA
65 TGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGA-GA-ATTTTAAAGTTGTTGAGCCTCTGCTGA
20311425 GAGGAGCTTTTCCAAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGAT
128 GAGGAGCTTTTCC-AGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGAT
20311490 GAAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCCAAGATG-AATTTTAAAGTTG-
192 G-AATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTT-CAAGATGAAATTTTAAAGTTGT
20311553 TGGAGCCTCTGCTGAGAGGAGCTTTTTCC
255 TGGAGCCTCTGCTGAGAGGAGCTTTTTCC
20311582 AAGATGAA-TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATG-AATTTTAAAGTT
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAAATTTTAAAGTT
* *
20311645 GTTGAG-C-CTGCTGAGAGGAGCTTTTTCAATGA-AATTTTAAAGTTG-TGAGCCTCTGCTGAGA
66 GTGGAGCCTCTGCTGAGAGGAGCTTTTCCAA-GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGA
20311706 GGAGCTTTTCCAAGAT-AGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT-C-AGATG
130 GGAGCTTTTCC-AGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATG
*
20311768 AAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AGATGAAATTTTAAAGTTGTTG
193 -AATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTG
20311832 GAGCCTCTGCTGAGAGGAGC-TTTTCC
257 GAGCCTCTGCTGAGAGGAGCTTTTTCC
20311858 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAAATTTTAAAGTT
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAAATTTTAAAGTT
20311923 GTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGA
66 GTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGA-GAATTTTAAAGTTGTTGAGCCTCTGCTGAGA
* *
20311988 GGAGCTTTTTCAGATGAATTTTAAAGTTG-TGAGCCTCTGCTGAGAGGAGCTTTTTC-AGATGAA
130 GGAGCTTTTCCAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAA
* *
20312051 TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGATTTTAAAGTTGTT-GAG
195 TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGGAG
20312115 CCTCTGCTGAGAGGAGCTTTTT-C
260 CCTCTGCTGAGAGGAGCTTTTTCC
20312138 -AGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-C-TTTTCAGATGAAATTTTAAAGTT
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAAATTTTAAAGTT
20312200 GTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGA
66 GTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGA-GAATTTTAAAGTTGTTGAGCCTCTGCTGAGA
*
20312265 GGAGCTTTTTCAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAA
130 GGAGCTTTTCCAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAA
* *
20312330 TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGC
195 TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGC
20312363 CCTTTCAAAA
Statistics
Matches: 748, Mismatches: 14, Indels: 42
0.93 0.02 0.05
Matches are distributed among these distances:
275 5 0.01
276 28 0.04
277 227 0.30
278 46 0.06
279 148 0.20
280 118 0.16
281 80 0.11
282 43 0.06
283 53 0.07
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (283 bp):
AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAAATTTTAAAGTT
GTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAG
GAGCTTTTCCAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAAT
TTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGGAGC
CTCTGCTGAGAGGAGCTTTTTCC
Found at i:20312369 original size:93 final size:93
Alignment explanation
Indices: 20311299--20312369 Score: 1626
Period size: 93 Copynumber: 11.5 Consensus size: 93
20311289 TTTGAAACAG
* *
20311299 AAGATGAA-TTTAAAGTTGTGGAGCCTCTGCTGAGAGGAG-CTTTTCCAAGATGATTTTTAAAG-
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT-C-AGATGAATTTTAAAGT
*
20311361 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
64 TGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311391 -AGATGAGATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAG-CTTTTCCAAGATGAATTTTAAAG
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT-C-AGATGAATTTTAAAG
20311454 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
63 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
* *
20311485 AAGATGAAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCCAAGATGAATTTTAAAG
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT-C-AGATGAATTTTAAAG
*
20311550 TTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCC
63 TTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCC
*
20311582 AAGATGAA-TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAATTTTAAAGTTG
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAGATGAATTTTAAAGTTG
*
20311646 TTGAG-C-CTGCTGAGAGGAGCTTTTTC
66 TTGAGCCTCTGCTGAGAGGAGCTTTTCC
20311672 -A-ATGAAATTTTAAAGTTG-TGAGCCTCTGCTGAGAGGAG-CTTTTCCAAGAT-AGATTTTAAA
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT-C-AGATGA-ATTTTAAA
20311732 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTT-C
62 GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311763 -AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAAATTTTAAAGT
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAGATG-AATTTTAAAGT
20311827 TGTTGGAGCCTCTGCTGAGAGGAGCTTTTCC
64 TGTT-GAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311858 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAAATTTTAAAGTT
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAGATG-AATTTTAAAGTT
*
20311923 GTGGAGCCTCTGCTGAGAGGAGCTTTTCC
65 GTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20311952 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAATTTTAAAGTTG
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAGATGAATTTTAAAGTTG
*
20312017 -TGAGCCTCTGCTGAGAGGAGCTTTTTC
66 TTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20312044 -AGATGAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAG-CTTTTCCAAGATGAGATTTTAAAG
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT-C-AGATGA-ATTTTAAAG
*
20312107 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
63 TTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
20312138 -AGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA--CTTTTCAGATGAAATTTTAAAGTT
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAGATG-AATTTTAAAGTT
*
20312200 GTGGAGCCTCTGCTGAGAGGAGCTTTTCC
65 GTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
20312229 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATGAATTTTAAAGTTG
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAGATGAATTTTAAAGTTG
20312294 TTGAGCCTCTGCTGAGAGGAGCTTTTCC
66 TTGAGCCTCTGCTGAGAGGAGCTTTTCC
* *
20312322 AAGATGAATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCCCTTTCA
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCA
20312370 AAAATAAAAA
Statistics
Matches: 927, Mismatches: 22, Indels: 59
0.92 0.02 0.06
Matches are distributed among these distances:
88 7 0.01
89 25 0.03
90 40 0.04
91 105 0.11
92 112 0.12
93 225 0.24
94 211 0.23
95 136 0.15
96 54 0.06
97 12 0.01
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (93 bp):
AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCAGATGAATTTTAAAGTTG
TTGAGCCTCTGCTGAGAGGAGCTTTTCC
Found at i:20312552 original size:11 final size:11
Alignment explanation
Indices: 20312536--20312570 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
20312526 AATATTTAAC
20312536 AAAACAAACAA
1 AAAACAAACAA
20312547 AAAACAAA-AA
1 AAAACAAACAA
20312557 ATAAACAAACAA
1 A-AAACAAACAA
20312569 AA
1 AA
20312571 GAAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAACAAACAA
Found at i:20313366 original size:20 final size:19
Alignment explanation
Indices: 20313322--20313366 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
20313312 CCGCGCGTCA
*
20313322 ACCCGCGACCCGACCCGGG
1 ACCCGCGACCCGACCCGCG
**
20313341 GTCCGCGCACCCGACCCGCG
1 ACCCGCG-ACCCGACCCGCG
20313361 ACCCGC
1 ACCCGC
20313367 TGCCTTTATC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.13, C:0.56, G:0.29, T:0.02
Consensus pattern (19 bp):
ACCCGCGACCCGACCCGCG
Found at i:20313909 original size:19 final size:18
Alignment explanation
Indices: 20313869--20313912 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
20313859 TTTTTAAAAA
* *
20313869 TAATAAATAAAAATTGAT
1 TAATAAATAAAAATTAAC
*
20313887 TAATAAATTAAAATATAAC
1 TAATAAATAAAAAT-TAAC
20313906 TAATAAA
1 TAATAAA
20313913 AAATAAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TAATAAATAAAAATTAAC
Found at i:20314228 original size:209 final size:208
Alignment explanation
Indices: 20313691--20314260 Score: 862
Period size: 209 Copynumber: 2.7 Consensus size: 208
20313681 AATAATACTA
*
20313691 AAGTAATAAAAA-AATGAAAGAAAAAGGAAATTTTTATCCGACGATGAGATTCAAAGGTATTCCG
1 AAGTAATAAAAATAA-G-AAG-AAAA-GAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCG
20313755 AGTAGTGATGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCAGCGTATTGGAG
62 AGTAGTGATGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCAGCGTATTGGAG
* *
20313820 TATTTATAAAAAATTTTCAATACAGTAAAGATTTTCTTTTTTTTAAAAATAATAAATAAAAATTG
127 TATTTAT-AAAAATTTTCAATATAGTAAAGATTTTCTTTTTTTTAAAAATAATAAATAAAAATTA
*
20313885 ATTAATAAATTAAAATAT
191 ATGAATAAATTAAAATAT
* *
20313903 AACTAATAAAAAATAAG-AGAAGAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAG
1 AAGTAAT-AAAAATAAGAAGAA-AAGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAG
*
20313967 TAGTGATGCCTACGAAATCTCTAGGTGAGAAGATTTTTTT-AAGTACTACCAGCGTATTGGAGTA
64 TAGTGATGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCAGCGTATTGGAGTA
*
20314031 TTTATAAAAATTTTTCAATATAGTAAAGATTTTC-TTTTTTTAAGAATAATAAATAAAAATTAAT
129 TTTATAAAAA-TTTTCAATATAGTAAAGATTTTCTTTTTTTTAAAAATAATAAATAAAAATTAAT
*
20314095 GAATATATTAAAATAT
193 GAATAAATTAAAATAT
*
20314111 AAGTAATAAAAATAAGAAGAAAAGAAA-TTTAATCCGATGATGAGATTCAAAGGTATTCCGAGTA
1 AAGTAATAAAAATAAGAAGAAAAGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTA
* * * * *
20314175 GAGATGCTTTAAGAAATCTCTAGGTGAGAAGATTTTTTGTAAAATATTACCAGCGTATTGGAATA
66 GTGATGC-CTACGAAATCTCTAGGTGAGAAGATTTTTT-TAAAATACTACCAGCGTATTGGAGTA
*
20314240 TTTATAGAAAATCTTCAATAT
129 TTTATA-AAAATTTTCAATAT
20314261 GATTAAATTC
Statistics
Matches: 330, Mismatches: 19, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
206 42 0.13
207 42 0.13
208 58 0.18
209 86 0.26
210 85 0.26
211 3 0.01
212 6 0.02
213 6 0.02
214 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (208 bp):
AAGTAATAAAAATAAGAAGAAAAGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTA
GTGATGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCAGCGTATTGGAGTATT
TATAAAAATTTTCAATATAGTAAAGATTTTCTTTTTTTTAAAAATAATAAATAAAAATTAATGAA
TAAATTAAAATAT
Found at i:20314307 original size:21 final size:23
Alignment explanation
Indices: 20314282--20314331 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
20314272 TTTTTTCTTC
*
20314282 AAAATTTTAAT-TAA-AATTAAT
1 AAAATTTTAATAAAATAATTAAT
20314303 AAAA--TTAATAAAATAATTAAT
1 AAAATTTTAATAAAATAATTAAT
20314324 AAAATTTT
1 AAAATTTT
20314332 TGAATGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 15 0.62
23 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATTTTAATAAAATAATTAAT
Found at i:20314722 original size:193 final size:192
Alignment explanation
Indices: 20314393--20314764 Score: 692
Period size: 193 Copynumber: 1.9 Consensus size: 192
20314383 CATAACATAA
*
20314393 TTTCTTACGAAAAGTAAATTTAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATG
1 TTTCTTACGAAAAGTAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATG
20314458 CTTTAAGAAATCTCTAGGTGAGAAAAAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAG
66 CTTTAAGAAATCTCTAGGTGAGAAAAAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAG
20314523 AATTATTTCAACAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTTTACATGACAT
131 AATTATTTCAACAAAAAGGTTTTAATTTATTTTTCTCGAGAAT-AATTTTTTTTACATGACAT
20314586 TTTCTTACGAAAAGTAAATTCGAG-CCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGAT
1 TTTCTTACGAAAAGTAAATT-GAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGAT
* *
20314650 GCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAATATTTTAA
65 GCTTTAAGAAATCTCTAGGTGAGAAAAAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAA
20314715 GAATTATTTCAACAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTT
130 GAATTATTTCAACAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTT
20314765 AATAAATAAA
Statistics
Matches: 175, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
192 6 0.03
193 167 0.95
194 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (192 bp):
TTTCTTACGAAAAGTAAATTGAGACCTCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGATG
CTTTAAGAAATCTCTAGGTGAGAAAAAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTAAG
AATTATTTCAACAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTTACATGACAT
Found at i:20321734 original size:17 final size:18
Alignment explanation
Indices: 20321703--20321736 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20321693 AACTTGTCTA
20321703 TTAAGAATTCATTTCCTC
1 TTAAGAATTCATTTCCTC
*
20321721 TTAA-AATTCTTTTCCT
1 TTAAGAATTCATTTCCT
20321737 GCAAATTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.50
Consensus pattern (18 bp):
TTAAGAATTCATTTCCTC
Found at i:20323942 original size:15 final size:15
Alignment explanation
Indices: 20323922--20323975 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
20323912 TCTAAAAATA
20323922 AAAAAAATTCATAAT
1 AAAAAAATTCATAAT
20323937 AAAAAAATTC--AAT
1 AAAAAAATTCATAAT
20323950 AAATTAAAA-T-ATAAT
1 AAA--AAAATTCATAAT
*
20323965 AGAAAAATTCA
1 AAAAAAATTCA
20323976 GTATTAAGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
13 10 0.31
14 2 0.06
15 20 0.62
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAAAATTCATAAT
Found at i:20333915 original size:32 final size:32
Alignment explanation
Indices: 20333879--20333943 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
20333869 CGTGTCCTTA
* * *
20333879 GGATTTTTAGGACTTTGGATTTCATGGATTTT
1 GGATTTTGAGGACTTTGGATTTAAGGGATTTT
* *
20333911 GGATTTTGGGGAGTTTGGATTTAAGGGATTTT
1 GGATTTTGAGGACTTTGGATTTAAGGGATTTT
20333943 G
1 G
20333944 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.46
Consensus pattern (32 bp):
GGATTTTGAGGACTTTGGATTTAAGGGATTTT
Found at i:20333938 original size:16 final size:16
Alignment explanation
Indices: 20333892--20333943 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
20333882 TTTTTAGGAC
* *
20333892 TTTGGATTTCATGGAT
1 TTTGGATTTAAGGGAT
** *
20333908 TTTGGATTTTGGGGAG
1 TTTGGATTTAAGGGAT
20333924 TTTGGATTTAAGGGAT
1 TTTGGATTTAAGGGAT
20333940 TTTG
1 TTTG
20333944 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (16 bp):
TTTGGATTTAAGGGAT
Found at i:20335059 original size:20 final size:20
Alignment explanation
Indices: 20335030--20335085 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
20335020 ACTGTGTTAT
20335030 TTTTTG-GTTTTTGTTTTTG
1 TTTTTGCGTTTTTGTTTTTG
* *
20335049 TTTTTGCGTTTTTTTTTTTT
1 TTTTTGCGTTTTTGTTTTTG
*
20335069 TTTTTACG-TTTTGTTTT
1 TTTTTGCGTTTTTGTTTT
20335086 GGGTATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.02, C:0.04, G:0.14, T:0.80
Consensus pattern (20 bp):
TTTTTGCGTTTTTGTTTTTG
Found at i:20335447 original size:23 final size:22
Alignment explanation
Indices: 20335398--20335458 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
20335388 CTTCTGTTTT
* * *
20335398 TTTTGTTTGGTATTTTTTTATTT
1 TTTTGTTTTGTA-TTTTGTATTC
20335421 TTTTGTTTTGTATTTTGTATTAC
1 TTTTGTTTTGTATTTTGTATT-C
20335444 TTTTGTATTTCGTAT
1 TTTTGT-TTT-GTAT
20335459 ATTATTATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 8 0.25
23 17 0.53
24 3 0.09
25 4 0.12
ACGTcount: A:0.11, C:0.03, G:0.13, T:0.72
Consensus pattern (22 bp):
TTTTGTTTTGTATTTTGTATTC
Found at i:20339515 original size:22 final size:22
Alignment explanation
Indices: 20339471--20339521 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
20339461 CCCAAGTAAT
* * *
20339471 TGGCACCTAAGCCTATATTAAC
1 TGGCACCTAAGCCCAGATCAAC
*
20339493 TGGCACTTAAGCCCAGATCAAC
1 TGGCACCTAAGCCCAGATCAAC
*
20339515 TAGCACC
1 TGGCACC
20339522 CAAATGATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (22 bp):
TGGCACCTAAGCCCAGATCAAC
Found at i:20339753 original size:103 final size:103
Alignment explanation
Indices: 20339635--20339895 Score: 341
Period size: 103 Copynumber: 2.5 Consensus size: 103
20339625 ATAACCTTTG
* *
20339635 GGCATAATTTGTAAGACCTCTAGAAAAAATATTTTAAATTTTCAAAGTTTCAATGCCTCTGATAC
1 GGCATAATCTGTAAGACCTCTAGAAAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTGATAC
*
20339700 GAAGAG-ACTCAAAGCTGTTGAGATTTATAAAACCTCTA
66 GAAGAGCACTCAAAGATGTTGAGATTTATAAAA-CTCTA
** *
20339738 GGCATAATCTGTAAGACCT-TAAGGCAAAACATTTTAAATTTTCAAAGTTTCAATTCCTCTGATA
1 GGCATAATCTGTAAGACCTCT-AGAAAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTGATA
* * * * *
20339802 CGAAGAGCACTTAAAGATGTTGAGATTTGTAAGACTTTC
65 CGAAGAGCACTCAAAGATGTTGAGATTTATAAAACTCTA
*
20339841 GGTCATAATCTGTAAGACCATC--GAACAAAACATTTTAAATTTTTAAAGTTTCAAT
1 GG-CATAATCTGTAAGACC-TCTAGAA-AAAACATTTTAAATTTTCAAAGTTTCAAT
20339896 CTAAAATGTA
Statistics
Matches: 138, Mismatches: 14, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
102 1 0.01
103 70 0.51
104 66 0.48
105 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (103 bp):
GGCATAATCTGTAAGACCTCTAGAAAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTGATAC
GAAGAGCACTCAAAGATGTTGAGATTTATAAAACTCTA
Found at i:20340022 original size:142 final size:142
Alignment explanation
Indices: 20339763--20340035 Score: 397
Period size: 142 Copynumber: 1.9 Consensus size: 142
20339753 ACCTTAAGGC
* * *
20339763 AAAACATTTTAAATTTTCAAAGTTTCAATTCCTCTGATACGAAGAGCACTTAAAGATGTTGAGAT
1 AAAACATTTTAAATTTTCAAAATTTCAATTCCTCTAATACGAAGAGCACTCAAAGATGTTGAGAT
* * *
20339828 TTGTAAGACTTTCGGTCATAATCTGTAAGACCATCGAACAAAACATTTTAAATTTTTAAAGTTTC
66 TTATAAGACCTTCGGTCATAATCTGTAAGACCATCGAACAAAACATTATAAATTTTTAAAGTTTC
20339893 AATCTAAAATGT
131 AATCTAAAATGT
* * *
20339905 AAAACATTTTAAATTTTCAAAATTTTAATGT-CTCTAATAGGAGGAGCACTCAAAGATGTTGAGA
1 AAAACATTTTAAATTTTCAAAATTTCAAT-TCCTCTAATACGAAGAGCACTCAAAGATGTTGAGA
* ** *
20339969 TTTATAAGACCTTCAGG-CATAATCTGTAAGACCTTCGAGTAAAATATTATAAATTTTTAAAGTT
65 TTTATAAGACCTTC-GGTCATAATCTGTAAGACCATCGAACAAAACATTATAAATTTTTAAAGTT
20340033 TCA
129 TCA
20340036 TTGCCCTTTA
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
142 113 0.97
143 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (142 bp):
AAAACATTTTAAATTTTCAAAATTTCAATTCCTCTAATACGAAGAGCACTCAAAGATGTTGAGAT
TTATAAGACCTTCGGTCATAATCTGTAAGACCATCGAACAAAACATTATAAATTTTTAAAGTTTC
AATCTAAAATGT
Found at i:20340139 original size:22 final size:23
Alignment explanation
Indices: 20340089--20340154 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
20340079 AAGATTTTCA
20340089 AGCATAATCTTTAAGA-CATCCG
1 AGCATAATCTTTAAGATCATCCG
* *
20340111 GGTATAATCTTTAAGATCAT-CG
1 AGCATAATCTTTAAGATCATCCG
20340133 AGCATAAT-TTGTAAGATC-TCCG
1 AGCATAATCTT-TAAGATCATCCG
20340155 GATAAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 3 0.08
22 31 0.84
23 3 0.08
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (23 bp):
AGCATAATCTTTAAGATCATCCG
Found at i:20342153 original size:21 final size:21
Alignment explanation
Indices: 20342124--20342167 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20342114 CAATATTTAT
*
20342124 AAAAGTTTTCAATATAA-TAAA
1 AAAAATTTTCAATA-AAGTAAA
*
20342145 AAAAATTTTCTATAAAGTAAA
1 AAAAATTTTCAATAAAGTAAA
20342166 AA
1 AA
20342168 TAAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAAATTTTCAATAAAGTAAA
Found at i:20342213 original size:29 final size:30
Alignment explanation
Indices: 20342159--20342225 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
20342149 ATTTTCTATA
20342159 AAGTAAAAATAAAAATTAACTAAAAATTATT
1 AAGT-AAAATAAAAATTAACTAAAAATTATT
*
20342190 AAGTAAAATAAAATTTAACT-AAAATTATT
1 AAGTAAAATAAAAATTAACTAAAAATTATT
20342219 AA-TAAAA
1 AAGTAAAA
20342226 ATAATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 5 0.14
29 11 0.31
30 15 0.43
31 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (30 bp):
AAGTAAAATAAAAATTAACTAAAAATTATT
Found at i:20342226 original size:29 final size:31
Alignment explanation
Indices: 20342159--20342229 Score: 112
Period size: 29 Copynumber: 2.4 Consensus size: 31
20342149 ATTTTCTATA
20342159 AAGTAAAAATAAAAATTAACTAAAAATTATT
1 AAGTAAAAATAAAAATTAACTAAAAATTATT
*
20342190 AAGT-AAAATAAAATTTAACT-AAAATTATT
1 AAGTAAAAATAAAAATTAACTAAAAATTATT
20342219 AA-TAAAAATAA
1 AAGTAAAAATAA
20342230 TAAAAAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
28 1 0.03
29 18 0.47
30 15 0.39
31 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (31 bp):
AAGTAAAAATAAAAATTAACTAAAAATTATT
Found at i:20343591 original size:26 final size:26
Alignment explanation
Indices: 20343562--20343620 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
20343552 AAGCAATCCT
20343562 AAAAAAATATTGCC-AAAAACAAAAAC
1 AAAAAAAT-TTGCCAAAAAACAAAAAC
**
20343588 AAAAAAATTTGCCAAAAAACAAAAGG
1 AAAAAAATTTGCCAAAAAACAAAAAC
20343614 AAAAAAA
1 AAAAAAA
20343621 AAATCAGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.71, C:0.12, G:0.07, T:0.10
Consensus pattern (26 bp):
AAAAAAATTTGCCAAAAAACAAAAAC
Found at i:20344576 original size:19 final size:20
Alignment explanation
Indices: 20344538--20344579 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
20344528 TGAAAAAAGT
*
20344538 AATAAATTAAAATAACCAAA
1 AATAAATAAAAATAACCAAA
20344558 AATAAATAAAAATAA-CAAA
1 AATAAATAAAAATAACCAAA
20344577 AAT
1 AAT
20344580 GTAAGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (20 bp):
AATAAATAAAAATAACCAAA
Found at i:20346151 original size:29 final size:29
Alignment explanation
Indices: 20346105--20346164 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
20346095 ATGATGCAAT
*
20346105 ATGTCAATTAACACGAGGCATCTAACTTA
1 ATGTCAATTAACAAGAGGCATCTAACTTA
*
20346134 ATGTCAATTAACAAGAGGCATTTAACTTA
1 ATGTCAATTAACAAGAGGCATCTAACTTA
20346163 AT
1 AT
20346165 TAATTCTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (29 bp):
ATGTCAATTAACAAGAGGCATCTAACTTA
Found at i:20347030 original size:20 final size:20
Alignment explanation
Indices: 20347005--20347044 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20346995 AATGTCCAAC
*
20347005 TCTCTTGCTCCTTTCTTTCA
1 TCTCTTACTCCTTTCTTTCA
**
20347025 TCTCTTACTTTTTTCTTTCA
1 TCTCTTACTCCTTTCTTTCA
20347045 CTTGTTTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.03, T:0.60
Consensus pattern (20 bp):
TCTCTTACTCCTTTCTTTCA
Found at i:20358786 original size:24 final size:23
Alignment explanation
Indices: 20358722--20358786 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 23
20358712 AAGTCACAAC
20358722 ATTTT-AATTTATATTAATAAATA
1 ATTTTAAATTT-TATTAATAAATA
* *
20358745 ATTTTTAAAATATT-TTAATTGAATA
1 A-TTTT-AAATTTTATTAA-TAAATA
20358770 ATTTTAAATTTTATTAA
1 ATTTTAAATTTTATTAA
20358787 AATTTTGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
23 7 0.21
24 16 0.47
25 7 0.21
26 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTTAAATTTTATTAATAAATA
Found at i:20363646 original size:30 final size:30
Alignment explanation
Indices: 20363612--20363668 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20363602 TTTTATTATA
*
20363612 ATTAATTAAAT-TTTAAAATTTTTATTTCGG
1 ATTAATTAAATCTTT-AAATATTTATTTCGG
*
20363642 ATTAATTGAATCTTTAAATATTTATTT
1 ATTAATTAAATCTTTAAATATTTATTT
20363669 TCACTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (30 bp):
ATTAATTAAATCTTTAAATATTTATTTCGG
Found at i:20365364 original size:2 final size:2
Alignment explanation
Indices: 20365357--20365385 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20365347 GTTCCTTTTC
20365357 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20365386 TGAGTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20376419 original size:3 final size:3
Alignment explanation
Indices: 20376411--20376455 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
20376401 AATATAATTT
20376411 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
20376456 CCATTTTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:20376902 original size:14 final size:14
Alignment explanation
Indices: 20376883--20376909 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20376873 TTGTAGAAAC
20376883 AAAACAAAACAAAT
1 AAAACAAAACAAAT
20376897 AAAACAAAACAAA
1 AAAACAAAACAAA
20376910 ATTTTTAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.15, G:0.00, T:0.04
Consensus pattern (14 bp):
AAAACAAAACAAAT
Found at i:20377399 original size:5 final size:5
Alignment explanation
Indices: 20377389--20377429 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
20377379 TTCCCTTTTC
20377389 TATTT TATTT TCATTT T-TTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT T-ATTT TATTT TATTT TATTT TATTT TATTT T
20377430 TGTTATTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:20377412 original size:20 final size:19
Alignment explanation
Indices: 20377384--20377429 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
20377374 TAGTTTTCCC
*
20377384 TTTTCTATTTTATTTTCATT
1 TTTTTTATTTTATTTT-ATT
20377404 TTTTTTATTTTATTTTATT
1 TTTTTTATTTTATTTTATT
20377423 TTATTTT
1 TT-TTTT
20377430 TGTTATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTATTTTATTTTATT
Found at i:20377586 original size:3 final size:3
Alignment explanation
Indices: 20377578--20377626 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
20377568 AAATAAAAGG
20377578 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20377626 A
1 A
20377627 GAGCAAGGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20377884 original size:11 final size:11
Alignment explanation
Indices: 20377870--20377896 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
20377860 AAAATATTTT
20377870 AATAATAAAAA
1 AATAATAAAAA
20377881 AATAATAAAAA
1 AATAATAAAAA
20377892 AATAA
1 AATAA
20377897 AAGTGTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAATAAAAA
Found at i:20378811 original size:7 final size:7
Alignment explanation
Indices: 20378801--20378829 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
20378791 ATTACATATA
20378801 TTAAAAT
1 TTAAAAT
20378808 TTAAAAT
1 TTAAAAT
20378815 TTAAAAT
1 TTAAAAT
20378822 TTAAAAT
1 TTAAAAT
20378829 T
1 T
20378830 ATTAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTAAAAT
Found at i:20378915 original size:2 final size:2
Alignment explanation
Indices: 20378908--20378935 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20378898 ACAGAAGATC
20378908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20378936 TGAGTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20382844 original size:3 final size:3
Alignment explanation
Indices: 20382830--20382884 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
20382820 GAGAAAAAAG
*
20382830 AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20382878 AAT AAT A
1 AAT AAT A
20382885 TTTAAGATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:20385066 original size:18 final size:18
Alignment explanation
Indices: 20385040--20385079 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20385030 AACAAAAATT
*
20385040 TATTCTAACAGACTTAAA
1 TATTCTAACAGACATAAA
* *
20385058 TATTTTAACATACATAAA
1 TATTCTAACAGACATAAA
20385076 TATT
1 TATT
20385080 GATGATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (18 bp):
TATTCTAACAGACATAAA
Found at i:20386009 original size:3 final size:3
Alignment explanation
Indices: 20386001--20386044 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
20385991 AACTAAAAGT
20386001 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20386045 TTTAGGATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20396139 original size:30 final size:31
Alignment explanation
Indices: 20396081--20396139 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
20396071 AATGAGGAAC
* * *
20396081 AGAAAGAGAAAAAAAATTATAGATTTTAACA
1 AGAAAGAGAAAAAAAATGAGAGAGTTTAACA
*
20396112 AGAAA-AGTAAAAAAATGAGAGAGTTTAA
1 AGAAAGAGAAAAAAAATGAGAGAGTTTAA
20396140 ATGTTAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.61, C:0.02, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAAAGAGAAAAAAAATGAGAGAGTTTAACA
Found at i:20398947 original size:20 final size:18
Alignment explanation
Indices: 20398922--20398966 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
20398912 CAAACAAATC
*
20398922 AATAAAAACTAGTAAAATTA
1 AATAAAAACT-G-AAAATAA
20398942 AATAAAAAACTGAAAATAA
1 AAT-AAAAACTGAAAATAA
20398961 AATAAA
1 AATAAA
20398967 TAATTAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 9 0.39
20 4 0.17
21 7 0.30
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (18 bp):
AATAAAAACTGAAAATAA
Found at i:20398957 original size:19 final size:21
Alignment explanation
Indices: 20398925--20399010 Score: 61
Period size: 21 Copynumber: 4.2 Consensus size: 21
20398915 ACAAATCAAT
*
20398925 AAAAACTAGTAAAATTAAATA
1 AAAAACTAGTAAAATAAAATA
20398946 AAAAACT-G-AAAATAAAATA
1 AAAAACTAGTAAAATAAAATA
* * *
20398965 AATAATTAAG-ATAATAAAATA
1 AAAAACT-AGTAAAATAAAATA
* * ** *
20398986 AATAATTAAAAAAATAAAATG
1 AAAAACTAGTAAAATAAAATA
20399007 AAAA
1 AAAA
20399011 TGAAAAAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
19 15 0.28
20 2 0.04
21 37 0.69
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAAACTAGTAAAATAAAATA
Found at i:20398982 original size:21 final size:21
Alignment explanation
Indices: 20398954--20399019 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
20398944 TAAAAAACTG
*
20398954 AAAATAAAATAAATAATTAAG
1 AAAATAAAATAAATAATTAAA
*
20398975 ATAATAAAATAAATAATTAAA
1 AAAATAAAATAAATAATTAAA
* *
20398996 AAAATAAAATGAA-AATGAAA
1 AAAATAAAATAAATAATTAAA
20399016 AAAA
1 AAAA
20399020 AATTGGCGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 10 0.25
21 30 0.75
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAATAAAATAAATAATTAAA
Found at i:20399899 original size:16 final size:15
Alignment explanation
Indices: 20399872--20399904 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
20399862 TAGTATAATC
20399872 TAATATACCATATAA
1 TAATATACCATATAA
20399887 TAATATCACCATATAA
1 TAATAT-ACCATATAA
20399903 TA
1 TA
20399905 CAATACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATATACCATATAA
Found at i:20400178 original size:37 final size:37
Alignment explanation
Indices: 20400128--20400312 Score: 158
Period size: 37 Copynumber: 5.0 Consensus size: 37
20400118 CTAGATTGAA
** * * *
20400128 CCGAGATAAAAAAATCAAGAAGATAATTTAGACTAAG
1 CCGAGATCGAAAAATTAAGAAGATGATTTGGACTAAG
* * *
20400165 CCGAGATCGAAAAATTAAAAAGATGATCTT-AATTAAG
1 CCGAGATCGAAAAATTAAGAAGATGAT-TTGGACTAAG
* * * * *
20400202 CTGAAATTGAAAAGTTAGGAAGATGATTTGGACTAAG
1 CCGAGATCGAAAAATTAAGAAGATGATTTGGACTAAG
* * * * *
20400239 TCGAAATC-AAAAAGTTAAAAAGATAATCTGGACTAAG
1 CCGAGATCGAAAAA-TTAAGAAGATGATTTGGACTAAG
* *
20400276 CTGAGATCGAAAAATTAAGAAAATGATTTGGACTAAG
1 CCGAGATCGAAAAATTAAGAAGATGATTTGGACTAAG
20400313 TTGAGATTGA
Statistics
Matches: 114, Mismatches: 30, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
36 6 0.05
37 101 0.89
38 7 0.06
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.23
Consensus pattern (37 bp):
CCGAGATCGAAAAATTAAGAAGATGATTTGGACTAAG
Found at i:20400257 original size:74 final size:74
Alignment explanation
Indices: 20400137--20400313 Score: 212
Period size: 74 Copynumber: 2.4 Consensus size: 74
20400127 ACCGAGATAA
* * * * * * * *
20400137 AAAAATCAAGAAGATAATTTAGACTAAGCCGAGATCGAAAAATTAAAAAGATGATCTTAATTAAG
1 AAAAATTAAGAAGATGATTTGGACTAAGTCGAAATCGAAAAATTAAAAAGATAATCTGAACTAAG
*
20400202 CTGAAATTG
66 CTGAAATCG
* * *
20400211 AAAAGTTAGGAAGATGATTTGGACTAAGTCGAAATC-AAAAAGTTAAAAAGATAATCTGGACTAA
1 AAAAATTAAGAAGATGATTTGGACTAAGTCGAAATCGAAAAA-TTAAAAAGATAATCTGAACTAA
*
20400275 GCTGAGATCG
65 GCTGAAATCG
*
20400285 AAAAATTAAGAAAATGATTTGGACTAAGT
1 AAAAATTAAGAAGATGATTTGGACTAAGT
20400314 TGAGATTGAA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
73 5 0.06
74 81 0.94
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.24
Consensus pattern (74 bp):
AAAAATTAAGAAGATGATTTGGACTAAGTCGAAATCGAAAAATTAAAAAGATAATCTGAACTAAG
CTGAAATCG
Found at i:20400381 original size:93 final size:93
Alignment explanation
Indices: 20400261--20400463 Score: 298
Period size: 93 Copynumber: 2.2 Consensus size: 93
20400251 AGTTAAAAAG
** * * * *
20400261 ATAATCTGGACTAAGCTGAGATCGAAAAATTAAGAAAATGATTTGGACTAAGTTGAGATTGAATG
1 ATAATCTGGACTAAGCCAAGATAGAAAAATTAAAAAAATGATCTAGACTAAGTTGAGATTGAATG
* *
20400326 ATCAGGACAAAACTACGAATCTAGGAAA
66 ATCAGGACAAAACCACGAATCTAAGAAA
* *
20400354 ATGATCTGGACTAAGCCAAGATAGAAAAGTTAAAAAAATGATCTAGACTAAGTTGAGATTGAATG
1 ATAATCTGGACTAAGCCAAGATAGAAAAATTAAAAAAATGATCTAGACTAAGTTGAGATTGAATG
20400419 ATCAGGACAAAACCACGAATCTAAGAAA
66 ATCAGGACAAAACCACGAATCTAAGAAA
* *
20400447 ATAATTTGGACTGAGCC
1 ATAATCTGGACTAAGCC
20400464 GAAATGAAAC
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 97 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (93 bp):
ATAATCTGGACTAAGCCAAGATAGAAAAATTAAAAAAATGATCTAGACTAAGTTGAGATTGAATG
ATCAGGACAAAACCACGAATCTAAGAAA
Found at i:20415014 original size:1 final size:1
Alignment explanation
Indices: 20415008--20415037 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
20414998 ATCCCTTTGT
*
20415008 AAAAAAAAAAAAAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20415038 CTAATAGCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:20424674 original size:3 final size:3
Alignment explanation
Indices: 20424668--20424715 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
20424658 TATTATTTTT
20424668 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20424716 GAGGATGGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20429137 original size:31 final size:30
Alignment explanation
Indices: 20429099--20429156 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
20429089 AATATGTTTA
20429099 AAAAATATTATAGA-ATTAATATAAAAATTTT
1 AAAAATATTATA-ATATTAA-ATAAAAATTTT
*
20429130 AAAAATATTTTAATATTAAATAAAAAT
1 AAAAATATTATAATATTAAATAAAAAT
20429157 AAATGGATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAAATATTATAATATTAAATAAAAATTTT
Found at i:20440357 original size:20 final size:20
Alignment explanation
Indices: 20440332--20440372 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20440322 AATAATGAGA
20440332 TCGGAGAAAGAGTGGACTTT
1 TCGGAGAAAGAGTGGACTTT
20440352 TCGGAGAAAGAGTGGACTTT
1 TCGGAGAAAGAGTGGACTTT
20440372 T
1 T
20440373 AAGAGCTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.34, T:0.27
Consensus pattern (20 bp):
TCGGAGAAAGAGTGGACTTT
Found at i:20445660 original size:23 final size:23
Alignment explanation
Indices: 20445634--20445716 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
20445624 TAAATATGAA
*
20445634 ATAAATTTTAATAATTATTATAT
1 ATAAATTTTAATAATTATTAAAT
*
20445657 ATAAATTTTAATAA-AATTAAAT
1 ATAAATTTTAATAATTATTAAAT
* **
20445679 ATATATTTTATATTTTTATGTAAAT
1 ATAAATTTTA-ATAATTAT-TAAAT
*
20445704 ATAAATTGTAATA
1 ATAAATTTTAATA
20445717 TATAATTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
22 15 0.31
23 16 0.33
24 4 0.08
25 13 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAAATTTTAATAATTATTAAAT
Found at i:20445750 original size:31 final size:30
Alignment explanation
Indices: 20445690--20445784 Score: 86
Period size: 32 Copynumber: 3.0 Consensus size: 30
20445680 TATATTTTAT
*
20445690 ATTTTTATGTAAATA-TAAATTGTAATATATA
1 ATTTTTATGTAAATATTATA-TG-AATATATA
*
20445721 ATTTTTATGTAAAATATTATATGAGTATATGA
1 ATTTTTATGT-AAATATTATATGAATATAT-A
**
20445753 ATTTTAATAT-TTTATATTATATGAATATATA
1 ATTTT--TATGTAAATATTATATGAATATATA
20445784 A
1 A
20445785 CTTATTAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
31 18 0.33
32 29 0.54
33 4 0.07
34 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.49
Consensus pattern (30 bp):
ATTTTTATGTAAATATTATATGAATATATA
Found at i:20445891 original size:22 final size:22
Alignment explanation
Indices: 20445851--20445901 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
20445841 AAAATATAAA
20445851 AAAAATACGATTTAAAATTTTAGT
1 AAAAATAC-ATTTAAAATTTT-GT
* *
20445875 AAAAATA-ATTTATAATTTTTT
1 AAAAATACATTTAAAATTTTGT
20445896 AAAAAT
1 AAAAAT
20445902 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
24 7 0.28
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (22 bp):
AAAAATACATTTAAAATTTTGT
Found at i:20445994 original size:18 final size:17
Alignment explanation
Indices: 20445973--20446006 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
20445963 GACACTAAAT
20445973 AAATATAATATTTTTTAA
1 AAATATAA-ATTTTTTAA
20445991 AAATATAAATTTTTTA
1 AAATATAAATTTTTTA
20446007 TTTTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATATAAATTTTTTAA
Found at i:20453193 original size:18 final size:18
Alignment explanation
Indices: 20453170--20453207 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
20453160 GTAAAAAACT
20453170 AACAACATTAATTAATCA
1 AACAACATTAATTAATCA
20453188 AACAACATTAATTAATCA
1 AACAACATTAATTAATCA
20453206 AA
1 AA
20453208 ATATTATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (18 bp):
AACAACATTAATTAATCA
Found at i:20456084 original size:63 final size:64
Alignment explanation
Indices: 20456016--20456140 Score: 191
Period size: 63 Copynumber: 2.0 Consensus size: 64
20456006 CCAAAGGGTG
* * * *
20456016 TGTTATAATGCTTTAATTTTATTGGT-GAAAATTTTAAACTCTATTGATAATGATTAA-ATAATT
1 TGTTATAACGCTTTAATTTTATT-ATAAAAAATTTTAAACTCTATTAATAATGATTAAGATAATT
20456079 TGTTATAACGCTTTAATTTTATTATAAAAAATTTTAAACTCTATTAATAATGATTAAGATAA
1 TGTTATAACGCTTTAATTTTATTATAAAAAATTTTAAACTCTATTAATAATGATTAAGATAA
20456141 ATTTTAAAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
62 1 0.02
63 51 0.91
64 4 0.07
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (64 bp):
TGTTATAACGCTTTAATTTTATTATAAAAAATTTTAAACTCTATTAATAATGATTAAGATAATT
Found at i:20456143 original size:32 final size:31
Alignment explanation
Indices: 20456044--20456148 Score: 106
Period size: 32 Copynumber: 3.3 Consensus size: 31
20456034 TTATTGGTGA
*
20456044 AAATTTTAAACTCTATTGATAATGATTAAAT
1 AAATTTTAAACTCTATTAATAATGATTAAAT
* * * * *
20456075 AATTTGTTATAACGCT-TTAAT-TTTATTATAAA
1 AAATT-TTA-AACTCTATTAATAATGATTA-AAT
20456107 AAATTTTAAACTCTATTAATAATGATTAAGAT
1 AAATTTTAAACTCTATTAATAATGATTAA-AT
20456139 AAATTTTAAA
1 AAATTTTAAA
20456149 ACTTCAATAA
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
30 5 0.09
31 18 0.32
32 29 0.51
33 5 0.09
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (31 bp):
AAATTTTAAACTCTATTAATAATGATTAAAT
Found at i:20456343 original size:80 final size:79
Alignment explanation
Indices: 20456212--20456374 Score: 238
Period size: 80 Copynumber: 2.1 Consensus size: 79
20456202 TTATGCTATT
* *
20456212 CTTTTTTTTTTTCTATAAAGCAATAGAATCTTTAGCAACACATGACTAGATTCAAC-AAGTTTCA
1 CTTTTTTTTTTTCTAGAAAGCAATAGAAGCTTTAGCAACACATGACTAGATTCAACTAAGTTTCA
20456276 TGTATTTGAAAGTG
66 TGTATTTGAAAGTG
* * * *
20456290 CTTTTTCTTTTTCTTTAGAAAGCAATAGAAGGTTTGGCAACATATGACTAGATTCAACTAAGTTT
1 CTTTTT-TTTTT-TCTAGAAAGCAATAGAAGCTTTAGCAACACATGACTAGATTCAACTAAGTTT
*
20456355 TATGTATTTGAAAGTG
64 CATGTATTTGAAAGTG
20456371 CTTT
1 CTTT
20456375 ACTATAATTG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
78 6 0.08
79 5 0.07
80 39 0.52
81 25 0.33
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (79 bp):
CTTTTTTTTTTTCTAGAAAGCAATAGAAGCTTTAGCAACACATGACTAGATTCAACTAAGTTTCA
TGTATTTGAAAGTG
Found at i:20457009 original size:12 final size:13
Alignment explanation
Indices: 20456992--20457022 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20456982 ATATAAATAG
20456992 TTTATGGT-TCAA
1 TTTATGGTGTCAA
20457004 TTTATGGTGTCAA
1 TTTATGGTGTCAA
20457017 TTTATG
1 TTTATG
20457023 CTATCAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (13 bp):
TTTATGGTGTCAA
Found at i:20458166 original size:135 final size:135
Alignment explanation
Indices: 20457879--20458149 Score: 488
Period size: 135 Copynumber: 2.0 Consensus size: 135
20457869 TTATAATTAG
* *
20457879 AATCTTGAGATTATGATATATGAAATTTATTAATATTTTAATTGCTAATGTTCGTGAAATTAATT
1 AATCTTGACATTATGATATATGAAATTTATTAATATTTTAATTACTAATGTTCGTGAAATTAATT
* *
20457944 AGTGTTGTGGTTTCTATTGACAATGACTCATTGCCACTTTTAATTTATAATGAGTTGATCGTCAA
66 AGTGTTGTGGTTTCCATTGACAATGACTCATTGCCACTTTTAATTTATAATGAGTTGATCATCAA
20458009 TGTTT
131 TGTTT
*
20458014 AATCTTGACATTATGATATATGAAATTTATTAATATTTTAATTACTAATGTTTGTGAAATTAATT
1 AATCTTGACATTATGATATATGAAATTTATTAATATTTTAATTACTAATGTTCGTGAAATTAATT
*
20458079 AGTGTTTTGGTTTCCATTGACAATGACTCATTGCCACTTTTAATTTATAATGAGTTGATCATCAA
66 AGTGTTGTGGTTTCCATTGACAATGACTCATTGCCACTTTTAATTTATAATGAGTTGATCATCAA
20458144 TGTTT
131 TGTTT
20458149 A
1 A
20458150 TGAATTTTAA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 130 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.45
Consensus pattern (135 bp):
AATCTTGACATTATGATATATGAAATTTATTAATATTTTAATTACTAATGTTCGTGAAATTAATT
AGTGTTGTGGTTTCCATTGACAATGACTCATTGCCACTTTTAATTTATAATGAGTTGATCATCAA
TGTTT
Found at i:20460080 original size:2 final size:2
Alignment explanation
Indices: 20460068--20460097 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
20460058 TACATGTTTA
*
20460068 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20460098 TAAAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20461467 original size:18 final size:20
Alignment explanation
Indices: 20461431--20461467 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
20461421 ATTAAAAGGC
20461431 CCAAAGTTTGAATTGTGAAG
1 CCAAAGTTTGAATTGTGAAG
*
20461451 CCAAA-TTT-AATTTTGAA
1 CCAAAGTTTGAATTGTGAA
20461468 AACCCAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 3 0.19
20 5 0.31
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (20 bp):
CCAAAGTTTGAATTGTGAAG
Found at i:20463859 original size:16 final size:16
Alignment explanation
Indices: 20463838--20463896 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
20463828 TAAAACATTT
*
20463838 AAAACCTTCATACCTC
1 AAAACCTTCAAACCTC
*
20463854 AAAACCTTAAAACC-C
1 AAAACCTTCAAACCTC
* *
20463869 GAAA-CTTCAAAACTC
1 AAAACCTTCAAACCTC
*
20463884 AAAACCTTAAAAC
1 AAAACCTTCAAAC
20463897 ACTAATCCTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
14 7 0.21
15 8 0.24
16 18 0.55
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAACCTTCAAACCTC
Found at i:20472367 original size:17 final size:17
Alignment explanation
Indices: 20472345--20472398 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
20472335 AAAAAAAGTC
20472345 TATTATTAAAAATATT-
1 TATTATTAAAAATATTA
* *
20472361 TACTTATGAATAATATTA
1 TA-TTATTAAAAATATTA
*
20472379 TATTAATAAATAATATTA
1 TATTATTAAA-AATATTA
20472397 TA
1 TA
20472399 ATATAATACA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.07
17 17 0.57
18 11 0.37
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
TATTATTAAAAATATTA
Found at i:20472435 original size:20 final size:20
Alignment explanation
Indices: 20472412--20472449 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20472402 TAATACATTA
*
20472412 ATAAATAATATTATAATATT
1 ATAAACAATATTATAATATT
*
20472432 ATAAACAATATTTTAATA
1 ATAAACAATATTATAATA
20472450 CATATTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAACAATATTATAATATT
Found at i:20472491 original size:15 final size:15
Alignment explanation
Indices: 20472372--20472497 Score: 72
Period size: 15 Copynumber: 8.6 Consensus size: 15
20472362 ACTTATGAAT
*
20472372 AATATTATATTAATA
1 AATAATATATTAATA
20472387 AAT-A-ATATT-ATA
1 AATAATATATTAATA
*
20472399 ATATAATACATTAATA
1 A-ATAATATATTAATA
20472415 AATAATATTATAATATTATA
1 AATAATA-TAT--TA--ATA
* *
20472435 AACAATATTTTAATA
1 AATAATATATTAATA
*
20472450 CAT-AT-TATT-ATA
1 AATAATATATTAATA
*
20472462 AATAA-A-AATAA-A
1 AATAATATATTAATA
20472474 AATAATATATTAATA
1 AATAATATATTAATA
*
20472489 AATACTATA
1 AATAATATA
20472498 AAAATAATAA
Statistics
Matches: 84, Mismatches: 12, Indels: 30
0.67 0.10 0.24
Matches are distributed among these distances:
12 17 0.20
13 13 0.15
14 7 0.08
15 26 0.31
16 6 0.07
17 2 0.02
18 2 0.02
19 2 0.02
20 9 0.11
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:20472571 original size:14 final size:13
Alignment explanation
Indices: 20472548--20472578 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
20472538 AATATTTTAA
20472548 TATTAAATATAAT
1 TATTAAATATAAT
20472561 TATTCAAATATAAT
1 TATT-AAATATAAT
20472575 TATT
1 TATT
20472579 TTAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTAAATATAAT
Found at i:20472593 original size:18 final size:18
Alignment explanation
Indices: 20472522--20472614 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 18
20472512 TTATTTTAAG
*
20472522 TATTTTTATATTACATAA-
1 TATTTTAATATTA-ATAAT
20472540 TATTTTAATATTAAATATAAT
1 TATTTTAATATT--A-ATAAT
*
20472561 TA-TTCAA-A-T-ATAAT
1 TATTTTAATATTAATAAT
20472575 TATTTTAATATTAAT-A-
1 TATTTTAATATTAATAAT
*
20472591 -ATTTTAATAATAA-AAT
1 TATTTTAATATTAATAAT
20472607 TATTTTAA
1 TATTTTAA
20472615 ATATATTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
14 7 0.12
15 17 0.28
16 1 0.02
17 9 0.15
18 14 0.23
19 1 0.02
20 9 0.15
21 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTTTAATATTAATAAT
Found at i:20472608 original size:32 final size:33
Alignment explanation
Indices: 20472540--20472649 Score: 111
Period size: 32 Copynumber: 3.3 Consensus size: 33
20472530 TATTACATAA
* *
20472540 TATTTTAATATTAAATATAATTATTCA-AATATAAT
1 TATTTTAATATT--ATATAATT-TTAATAATAAAAT
20472575 TATTTTAATATTA-ATAATTTTAATAATAAAAT
1 TATTTTAATATTATATAATTTTAATAATAAAAT
* **
20472607 TATTTTAA-ATATATTTTTTTTTAATAAT-AAAT
1 TATTTTAATAT-TATATAATTTTAATAATAAAAT
20472639 TATTTTAATAT
1 TATTTTAATAT
20472650 ATTTTAATAA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
31 5 0.08
32 35 0.53
33 14 0.21
35 12 0.18
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (33 bp):
TATTTTAATATTATATAATTTTAATAATAAAAT
Found at i:20472617 original size:15 final size:15
Alignment explanation
Indices: 20472550--20472650 Score: 82
Period size: 15 Copynumber: 6.6 Consensus size: 15
20472540 TATTTTAATA
20472550 TTAAATATAATTA-T
1 TTAAATATAATTATT
*
20472564 TCAAATATAATTATT
1 TTAAATATAATTATT
*
20472579 TT-AATATTAATAATT
1 TTAAATA-TAATTATT
*
20472594 TTAATAATAAAATTATT
1 TT-A-AATATAATTATT
* *
20472611 TTAAATATATTTTTT
1 TTAAATATAATTATT
*
20472626 TTTAATAATAAATTATT
1 TTAAAT-AT-AATTATT
20472643 TT-AATATA
1 TTAAATATA
20472651 TTTTAATAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
14 17 0.25
15 27 0.39
16 6 0.09
17 15 0.22
18 4 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAATATAATTATT
Found at i:20472652 original size:31 final size:33
Alignment explanation
Indices: 20472592--20472654 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 33
20472582 ATATTAATAA
20472592 TTTTAATAATAAAATTATTTTAAATATATTTTT
1 TTTTAATAATAAAATTATTTTAAATATATTTTT
20472625 TTTTAATAAT-AAATTATTTT-AATATATTTT
1 TTTTAATAATAAAATTATTTTAAATATATTTT
20472655 AATAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 10 0.33
32 10 0.33
33 10 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
TTTTAATAATAAAATTATTTTAAATATATTTTT
Found at i:20472666 original size:33 final size:33
Alignment explanation
Indices: 20472596--20472667 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
20472586 TAATAATTTT
** *
20472596 AATAATAAAATTATTTTAAATATATTTTTTTTT
1 AATAATAAAATTATTTTAAATATATTTTTAATA
20472629 AATAAT-AAATTATTTT-AATATATTTTAATAATA
1 AATAATAAAATTATTTTAAATATATTTT--TAATA
20472662 AATAAT
1 AATAAT
20472668 TTTTAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 10 0.29
32 10 0.29
33 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
AATAATAAAATTATTTTAAATATATTTTTAATA
Found at i:20472682 original size:25 final size:26
Alignment explanation
Indices: 20472580--20472685 Score: 99
Period size: 26 Copynumber: 3.9 Consensus size: 26
20472570 ATAATTATTT
*
20472580 TAATATTAATA-ATTTTAATAATAAAA
1 TAATTTTAATATATTTTAATAAT-AAA
*
20472606 TTATTTTAAATATATTTTTTTTTAATAATAAA
1 TAATTTT-AATATA-----TTTTAATAATAAA
*
20472638 TTATTTTAATATATTTTAATAATAAA
1 TAATTTTAATATATTTTAATAATAAA
*
20472664 TAATTTTTA-ATATTTTAATAAT
1 TAATTTTAATATATTTTAATAAT
20472686 TATATTAATA
Statistics
Matches: 69, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
25 13 0.19
26 25 0.36
27 4 0.06
28 1 0.01
31 6 0.09
32 10 0.14
33 10 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TAATTTTAATATATTTTAATAATAAA
Found at i:20472699 original size:58 final size:58
Alignment explanation
Indices: 20472585--20472704 Score: 138
Period size: 58 Copynumber: 2.1 Consensus size: 58
20472575 TATTTTAATA
* * **
20472585 TTAATAATTTTAATAATAAAATTATTTTAAATATATTTTTTTTTAATAATAAATTATT
1 TTAATAATTTTAATAATAAAATAATTTTAAATATATTTATAATTAATAATAAATTATT
* *
20472643 TTAATATATTTTAATAAT-AAATAATTTTTAATAT-TTTAATAATT-ATATTAATATTATT
1 TTAATA-ATTTTAATAATAAAATAATTTTAAATATATTT-ATAATTAATAATAA-ATTATT
20472701 TTAA
1 TTAA
20472705 AAAACAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
57 9 0.17
58 33 0.62
59 11 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (58 bp):
TTAATAATTTTAATAATAAAATAATTTTAAATATATTTATAATTAATAATAAATTATT
Found at i:20475370 original size:15 final size:15
Alignment explanation
Indices: 20475347--20475393 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
20475337 AAGATTGTTA
20475347 AAGAAGATTTGTTTT
1 AAGAAGATTTGTTTT
* **
20475362 AAGATGA-TTG-TAA
1 AAGAAGATTTGTTTT
20475375 AAGAAGATTTGTTTT
1 AAGAAGATTTGTTTT
20475390 AAGA
1 AAGA
20475394 TGAAAAAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
13 7 0.29
14 6 0.25
15 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (15 bp):
AAGAAGATTTGTTTT
Found at i:20475377 original size:28 final size:28
Alignment explanation
Indices: 20475339--20475396 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
20475329 ATGAAAGTAA
*
20475339 GATTGTTAAAGAAGATTTGTTTTAAGAT
1 GATTGTAAAAGAAGATTTGTTTTAAGAT
20475367 GATTGTAAAAGAAGATTTGTTTTAAGAT
1 GATTGTAAAAGAAGATTTGTTTTAAGAT
20475395 GA
1 GA
20475397 AAAAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.40
Consensus pattern (28 bp):
GATTGTAAAAGAAGATTTGTTTTAAGAT
Found at i:20475386 original size:14 final size:13
Alignment explanation
Indices: 20475332--20475383 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
20475322 AGAGGAAATG
20475332 AAAGTAAGATTGTT
1 AAAG-AAGATTGTT
20475346 AAAGAAGATTTGTTT
1 AAAGAAGA-TTG-TT
* * *
20475361 TAAGATGATTGTA
1 AAAGAAGATTGTT
20475374 AAAGAAGATT
1 AAAGAAGATT
20475384 TGTTTTAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 13 0.42
14 10 0.32
15 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (13 bp):
AAAGAAGATTGTT
Found at i:20475404 original size:28 final size:28
Alignment explanation
Indices: 20475346--20475404 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
20475336 TAAGATTGTT
****
20475346 AAAGAAGATTTGTTTTAAGATGATTGTA
1 AAAGAAGATTTGTTTTAAGATGAAAAAA
20475374 AAAGAAGATTTGTTTTAAGATGAAAAAA
1 AAAGAAGATTTGTTTTAAGATGAAAAAA
20475402 AAA
1 AAA
20475405 ATCAAGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.32
Consensus pattern (28 bp):
AAAGAAGATTTGTTTTAAGATGAAAAAA
Found at i:20476004 original size:37 final size:37
Alignment explanation
Indices: 20475963--20476038 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
20475953 GAGCTTTTGC
* *
20475963 TCCTCCATTAATGATTGTTGAAGG-TCGAATGTGGTGG
1 TCCTCCATCAAAGATTGTTGAAGGCT-GAATGTGGTGG
* *
20476000 TCCTCCATCAAAGGTTGTTGACGGCTGAATGTGGTGG
1 TCCTCCATCAAAGATTGTTGAAGGCTGAATGTGGTGG
20476037 TC
1 TC
20476039 AAAGTCGTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (37 bp):
TCCTCCATCAAAGATTGTTGAAGGCTGAATGTGGTGG
Found at i:20479470 original size:19 final size:19
Alignment explanation
Indices: 20479448--20479490 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
20479438 TCCGGGAGAC
20479448 AAGACTTACTGGTGGAGTG
1 AAGACTTACTGGTGGAGTG
20479467 AAGACTTACTGGTGGAGTG
1 AAGACTTACTGGTGGAGTG
20479486 AAGAC
1 AAGAC
20479491 AGGTAAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (19 bp):
AAGACTTACTGGTGGAGTG
Found at i:20484064 original size:18 final size:19
Alignment explanation
Indices: 20484036--20484071 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20484026 AGCGATTTTG
20484036 GGTGAGGAGGAAGAGGAGA
1 GGTGAGGAGGAAGAGGAGA
*
20484055 GGTG-GGAGGAAGCGGAG
1 GGTGAGGAGGAAGAGGAG
20484072 GAAGGGGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.31, C:0.03, G:0.61, T:0.06
Consensus pattern (19 bp):
GGTGAGGAGGAAGAGGAGA
Found at i:20484329 original size:3 final size:3
Alignment explanation
Indices: 20484321--20484359 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
20484311 GAAAAGGTGG
20484321 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20484360 ATGTTGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20484927 original size:31 final size:31
Alignment explanation
Indices: 20484892--20484951 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
20484882 TAAAATAAAT
20484892 GATATTAATTAAAAAATTTA-TTTATTAATGA
1 GATATT-ATTAAAAAATTTATTTTATTAATGA
***
20484923 GATATTATTATTTAATTTATTTTATTAAT
1 GATATTATTAAAAAATTTATTTTATTAAT
20484952 AAATTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (31 bp):
GATATTATTAAAAAATTTATTTTATTAATGA
Found at i:20484970 original size:28 final size:31
Alignment explanation
Indices: 20484906--20484972 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 31
20484896 TTAATTAAAA
20484906 AATTTA-TTTATTAATGAGATATTATTATTT
1 AATTTATTTTATTAATGAGATATTATTATTT
*
20484936 AATTTATTTTATTAAT-A-A-ATTTTTATTT
1 AATTTATTTTATTAATGAGATATTATTATTT
20484964 AATTTATTT
1 AATTTATTT
20484973 ATAATATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
28 18 0.51
29 1 0.03
30 7 0.20
31 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
AATTTATTTTATTAATGAGATATTATTATTT
Found at i:20490811 original size:48 final size:48
Alignment explanation
Indices: 20490740--20490837 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
20490730 TAAAAAAAAG
20490740 AATACCATTTCATAATATGACCACCAGTACGATCTACAATAGTAGTCA
1 AATACCATTTCATAATATGACCACCAGTACGATCTACAATAGTAGTCA
*
20490788 AATACCATTTCATAATATGACCACCAGTACGATCTATAATAGTAGTCA
1 AATACCATTTCATAATATGACCACCAGTACGATCTACAATAGTAGTCA
20490836 AA
1 AA
20490838 ATTGATATTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (48 bp):
AATACCATTTCATAATATGACCACCAGTACGATCTACAATAGTAGTCA
Found at i:20490826 original size:24 final size:24
Alignment explanation
Indices: 20490751--20490828 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
20490741 ATACCATTTC
20490751 ATAATATGACCACCAGTACGATCT
1 ATAATATGACCACCAGTACGATCT
* * * * *
20490775 ACAATA-GTAGTCA--AATACCATTT
1 ATAATATG-A-CCACCAGTACGATCT
20490798 CATAATATGACCACCAGTACGATCT
1 -ATAATATGACCACCAGTACGATCT
20490823 ATAATA
1 ATAATA
20490829 GTAGTCAAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
23 10 0.26
24 18 0.47
25 10 0.26
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (24 bp):
ATAATATGACCACCAGTACGATCT
Found at i:20492905 original size:3 final size:3
Alignment explanation
Indices: 20492897--20492925 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20492887 CTAAAATATA
20492897 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20492926 GTTAATAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:20500674 original size:21 final size:21
Alignment explanation
Indices: 20500649--20500731 Score: 157
Period size: 21 Copynumber: 4.0 Consensus size: 21
20500639 ATAGATGTCC
20500649 GGAAGCCTTTAAGAGCTTCCG
1 GGAAGCCTTTAAGAGCTTCCG
20500670 GGAAGCCTTTAAGAGCTTCCG
1 GGAAGCCTTTAAGAGCTTCCG
20500691 GGAAGCCTTTAAGAGCTTCCG
1 GGAAGCCTTTAAGAGCTTCCG
*
20500712 GAAAGCCTTTAAGAGCTTCC
1 GGAAGCCTTTAAGAGCTTCC
20500732 CACATTTACA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
GGAAGCCTTTAAGAGCTTCCG
Found at i:20500783 original size:20 final size:21
Alignment explanation
Indices: 20500742--20500784 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
20500732 CACATTTACA
20500742 GAAGCTCTTAAAGGCTTTCCG
1 GAAGCTCTTAAAGGCTTTCCG
20500763 GAAGCTCTTAAAGGC-TTCCG
1 GAAGCTCTTAAAGGCTTTCCG
20500783 GA
1 GA
20500785 CATCTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (21 bp):
GAAGCTCTTAAAGGCTTTCCG
Found at i:20503322 original size:6 final size:6
Alignment explanation
Indices: 20503311--20503339 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
20503301 ATCTGAACCA
20503311 ACAGCC ACAGCC ACAGCC ACAGCC ACAGC
1 ACAGCC ACAGCC ACAGCC ACAGCC ACAGC
20503340 ATCTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.48, G:0.17, T:0.00
Consensus pattern (6 bp):
ACAGCC
Found at i:20509117 original size:34 final size:33
Alignment explanation
Indices: 20509043--20509118 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
20509033 AAAAACGCCG
* ***
20509043 TTAAATTTAGTGACGTTTTATGCTACAAACGGC
1 TTAAATTTAGTGACGTTTTATGCCACAAACAAA
* *
20509076 TCGAAATTTAGTGGCGTTTTATGCCACAAACAAAA
1 T-TAAATTTAGTGACGTTTTATGCCACAAAC-AAA
20509111 TTAAATTT
1 TTAAATTT
20509119 TAAATTTATA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
33 1 0.03
34 32 0.94
35 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (33 bp):
TTAAATTTAGTGACGTTTTATGCCACAAACAAA
Found at i:20510689 original size:161 final size:158
Alignment explanation
Indices: 20510388--20511125 Score: 628
Period size: 161 Copynumber: 4.6 Consensus size: 158
20510378 CATTTGGGCC
* * * * *
20510388 TTTCATACATATCAA-TCATGAAAACCAAGTTCAATCATTTGAA-AATGTTGAATATTATGTATT
1 TTTCACACATATCAACT-AT-AAAATCAAGTTCAATCATTCGAACAA-GTTTAATATCATGTATT
* ** * * ** * *
20510451 GAAGCCATCCAAACTATTAAAATAGATTAATAATAGCAAATTTATATTTTTTCCTTTTAACGGCA
63 GAAGCTATCCAAACTATTAAAATAGAACAATACTAACAAATTTGCA-TTTTGCCTTTTAACAGCA
* * * *
20510516 AAAATAATCCTAAATAGATATAAACGATAATTT
127 AAAAT-ATCCTAAACAGATGTAAATGATAACTT
* * *
20510549 TTTGACACATATCAA-TCATATAAATAAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTA
1 TTTCACACATATCAACT-ATA-AAATCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTG
* * * *
20510613 AAGCTATCCATACTATTAAAATAGAACAATACTATCAAATTTGCATTTTGCCTTTTTTATAGCAT
64 AAGCTATCCAAACTATTAAAATAGAACAATACTAACAAATTTGCATTTTGCC-TTTTAACAGCA-
* * *
20510678 AAAATATCCTAAACAGACGTAAATGTTAGCTT
127 AAAATATCCTAAACAGATGTAAATGATAACTT
* *
20510710 TTTCACACATATCAACTGTGAAAATCAAGTTCAATTATTCTG-ACAAGTTTAATATCATGTATTG
1 TTTCACACATATCAACTAT-AAAATCAAGTTCAATCATTC-GAACAAGTTTAATATCATGTATTG
* * *
20510774 AAGCTATACAAATTGTTAAAATAGAACAATAAC-AACAAATTTGCATGTTTGCCTTTTAACAGCA
64 AAGCTATCCAAACTATTAAAATAGAACAAT-ACTAACAAATTTGCAT-TTTGCCTTTTAACAGCA
* * *
20510838 CAAAA-GTCTTAAACAGATGTAGATGATAACTT
127 -AAAATATCCTAAACAGATGTAAATGATAACTT
* * * *
20510870 TTTCACACATATTAACTGTGAAAATCAAGTTCAATCATTCGGACAAGTTTAATATCATGTATTGG
1 TTTCACACATATCAACTAT-AAAATCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGA
* * * * ** * * *
20510935 AGTTATCCAAACTGTTAAAAAAGAACAAT-TTGTCCAAATTTGTATTTTTACCTATTAAC-GACA
65 AGCTATCCAAACTATTAAAATAGAACAATACT-AACAAATTTGCA-TTTTGCCTTTTAACAG-CA
* * * * *
20510998 CAAAATGTCCTAAATAGACGTAACTAATAACTT
127 -AAAATATCCTAAACAGATGTAAATGATAACTT
* ** ** * * * * * * *
20511031 TTTCATACATATCAACCGTGGAACCTAAGGTCAATAATTTGGATAAATTTAATATCATGTATTGA
1 TTTCACACATATCAACTATAAAATC-AAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGA
* *
20511096 AACTATCAAAACTATTAAAATAGAACAATA
65 AGCTATCCAAACTATTAAAATAGAACAATA
20511126 ACTGTAAATT
Statistics
Matches: 478, Mismatches: 82, Indels: 33
0.81 0.14 0.06
Matches are distributed among these distances:
159 2 0.00
160 143 0.30
161 315 0.66
162 18 0.04
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (158 bp):
TTTCACACATATCAACTATAAAATCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAA
GCTATCCAAACTATTAAAATAGAACAATACTAACAAATTTGCATTTTGCCTTTTAACAGCAAAAA
TATCCTAAACAGATGTAAATGATAACTT
Found at i:20511011 original size:321 final size:319
Alignment explanation
Indices: 20510388--20511127 Score: 778
Period size: 321 Copynumber: 2.3 Consensus size: 319
20510378 CATTTGGGCC
* * * *
20510388 TTTCATACATATCAA-TCATGAAAACCAAGTTCAATCATTTGAAAATGTTGAATATTATGTATTG
1 TTTCATACATATCAACT-GTGAAAACCAAGTTCAATAATTTGAAAA-GTTTAATATCATGTATTG
* ** * * * * * *
20510452 AAGCCATCCAAACTATTAAAATAGATTAATAATAGCAAATTTATATTTTTTCCTTTTAACGGCAA
64 AAGCTAT-CAAACTATTAAAATAGAACAATAACAACAAATTTACATGTTTGCCTTTTAACAGCAA
* * *
20510517 AAATAATCCTAAATAGATATAAACGATAATTTTTTGACACATATCAATCATATAAATAAAGTTCA
128 AAATAATCCTAAACAGATATAAACGATAACTTTTTCACACATATCAATCATATAAATAAAGTTCA
* *
20510582 ATCATTCGAACAAGTTTAATATCATGTATTAAAGCTATCCATACTATTAAAATAGAACAATACTA
193 ATCATTCGAACAAGTTTAATATCATGTATTAAAGCTATCCAAACTATTAAAAAAGAACAATACTA
* * * ** *
20510647 TCAAATTTGCATTTTGCCTTTTTTATAGCATAAAATATCCTAAACAGACGTAAATGTTAGCTT
258 TCAAATTTGCATTTTACC-TTATTATAGCACAAAATATCCTAAACAGACGTAAATAATAACTT
* * * *
20510710 TTTCACACATATCAACTGTGAAAATCAAGTTCAATTATTCTGACAAGTTTAATATCATGTATTGA
1 TTTCATACATATCAACTGTGAAAACCAAGTTCAATAATT-TGAAAAGTTTAATATCATGTATTGA
* * * *
20510775 AGCTATACAAATTGTTAAAATAGAACAATAACAACAAATTTGCATGTTTGCCTTTTAACAGCACA
65 AGCTAT-CAAACTATTAAAATAGAACAATAACAACAAATTTACATGTTTGCCTTTTAACAGCAAA
* * * * * * * *
20510840 AA-AGTCTTAAACAGATGTAGATGATAACTTTTTCACACATATTAA-C-TGTGAAAATCAAGTTC
129 AATAATCCTAAACAGATATAAACGATAACTTTTTCACACATATCAATCATAT--AAATAAAGTTC
* ** * * *
20510902 AATCATTCGGACAAGTTTAATATCATGTATTGGAGTTATCCAAACTGTTAAAAAAGAACAAT-TT
192 AATCATTCGAACAAGTTTAATATCATGTATTAAAGCTATCCAAACTATTAAAAAAGAACAATACT
* * * * *
20510966 GTCCAAATTTGTATTTTTACC-TATTA-ACGACACAAAATGTCCTAAATAGACGTAACTAATAAC
257 AT-CAAATTTGCA-TTTTACCTTATTATA-G-CACAAAATATCCTAAACAGACGTAAATAATAAC
20511029 TT
318 TT
* * *
20511031 TTTCATACATATCAACCGTG-GAACCTAAGGTCAATAATTTGGATAAA-TTTAATATCATGTATT
1 TTTCATACATATCAACTGTGAAAACC-AAGTTCAATAATTT-GA-AAAGTTTAATATCATGTATT
*
20511094 GAAACTATCAAAACTATTAAAATAGAACAATAAC
63 GAAGCTATC-AAACTATTAAAATAGAACAATAAC
20511128 TGTAAATTTA
Statistics
Matches: 345, Mismatches: 61, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
319 3 0.01
320 13 0.04
321 212 0.61
322 111 0.32
323 6 0.02
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (319 bp):
TTTCATACATATCAACTGTGAAAACCAAGTTCAATAATTTGAAAAGTTTAATATCATGTATTGAA
GCTATCAAACTATTAAAATAGAACAATAACAACAAATTTACATGTTTGCCTTTTAACAGCAAAAA
TAATCCTAAACAGATATAAACGATAACTTTTTCACACATATCAATCATATAAATAAAGTTCAATC
ATTCGAACAAGTTTAATATCATGTATTAAAGCTATCCAAACTATTAAAAAAGAACAATACTATCA
AATTTGCATTTTACCTTATTATAGCACAAAATATCCTAAACAGACGTAAATAATAACTT
Found at i:20512351 original size:13 final size:13
Alignment explanation
Indices: 20512326--20512361 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
20512316 TAAAAGCGAT
*
20512326 TATATAAAAAACA
1 TATATAAAGAACA
*
20512339 TATGTAAAGAACA
1 TATATAAAGAACA
20512352 TATATAAAGA
1 TATATAAAGA
20512362 TATTGAGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (13 bp):
TATATAAAGAACA
Found at i:20514626 original size:21 final size:21
Alignment explanation
Indices: 20514596--20514637 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20514586 TCCTCATCAC
20514596 TTTGAATATCACAATCACCAA
1 TTTGAATATCACAATCACCAA
* **
20514617 TTTGAGTATCATTATCACCAA
1 TTTGAATATCACAATCACCAA
20514638 CATGAGTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTGAATATCACAATCACCAA
Found at i:20517319 original size:96 final size:96
Alignment explanation
Indices: 20517155--20517347 Score: 368
Period size: 96 Copynumber: 2.0 Consensus size: 96
20517145 AATCTTCTTC
20517155 AATATTTTTTAGGGGATTATTGAAGGCGTTTCAGGTAGAAAACACCTTAAATAATCCCTTTACAT
1 AATATTTTTTAGGGGATTATTGAAGGCGTTTCAGGTAGAAAACACCTTAAATAATCCCTTTACAT
*
20517220 TTTAATGAAGAGATTATTGAAGGTATTTTTT
66 TTTAATGAAGAGATTATTGAAGATATTTTTT
*
20517251 AATATTTTTTAGGGGATTATTGAAGGCGTTTCATGTAGAAAACACCTTAAATAATCCCTTTACAT
1 AATATTTTTTAGGGGATTATTGAAGGCGTTTCAGGTAGAAAACACCTTAAATAATCCCTTTACAT
20517316 TTTAATGAAGAGATTATTGAAGATATTTTTT
66 TTTAATGAAGAGATTATTGAAGATATTTTTT
20517347 A
1 A
20517348 CAAAAAATAC
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (96 bp):
AATATTTTTTAGGGGATTATTGAAGGCGTTTCAGGTAGAAAACACCTTAAATAATCCCTTTACAT
TTTAATGAAGAGATTATTGAAGATATTTTTT
Found at i:20517476 original size:61 final size:64
Alignment explanation
Indices: 20517404--20517549 Score: 149
Period size: 61 Copynumber: 2.3 Consensus size: 64
20517394 TTTTTAGTCA
* * *
20517404 AAAATGCCTTCAATAATCCCTTT-CAAATTTTTAAAGAAAATTACTGAAGG-CTTTTTTTGTA-
1 AAAACGCCTTCAATAATCCCTTTGAAAAATTTTAAAGAAAATTACTGAAGGTCTTTTTTTGTAG
* * * * *
20517465 AAAAC-CTCTTCAAT-ATTCCTTTGAAAAATTTTAGATAAAATTATTGAAGGTATTTTTTTTTTG
1 AAAACGC-CTTCAATAATCCCTTTGAAAAATTTTAAAGAAAATTACTGAAGG---TCTTTTTTTG
20517528 TAG
62 TAG
20517531 AAAACGCCTTCAATAATCC
1 AAAACGCCTTCAATAATCC
20517550 TCTCTAATGA
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
60 8 0.12
61 33 0.49
65 10 0.15
66 12 0.18
67 4 0.06
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (64 bp):
AAAACGCCTTCAATAATCCCTTTGAAAAATTTTAAAGAAAATTACTGAAGGTCTTTTTTTGTAG
Found at i:20517596 original size:117 final size:114
Alignment explanation
Indices: 20517443--20517662 Score: 268
Period size: 117 Copynumber: 1.9 Consensus size: 114
20517433 TTTAAAGAAA
* * * * * *
20517443 ATTACTGAAGGCTTTTTTTGTAAAAACCTCTTCAAT-AT-TCCTTTGAAAAATTTTAGATA-AAA
1 ATTACTGAAGGCGTTTTTAGTAAAAACCTATTCAATAATGTAC--TAAAAAATTTTA-AAAGAAA
20517505 TTATTGAAGGTATTTTTTTTTTGTAGAAAACGCCTTCAATAATCCTCTCTAATG
63 TTATTGAAGGTA--TTTTTTTTGTAGAAAACGCCTTCAATAATCCTCTCTAATG
*
20517559 ATTATTGAAGGCGTTTTTAGTGAAAAACAC-ATTCAATAATGTACTAAAAAATTTTAAAAGAAAT
1 ATTACTGAAGGCGTTTTTAGT-AAAAAC-CTATTCAATAATGTACTAAAAAATTTTAAAAGAAAT
* *
20517623 TATTGAAGGTATTTTTTTTGTAGAAAATGCCTTTAATAAT
64 TATTGAAGGTATTTTTTTTGTAGAAAACGCCTTCAATAAT
20517663 AATTATTGAA
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
115 27 0.30
116 20 0.22
117 38 0.42
118 3 0.03
119 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.40
Consensus pattern (114 bp):
ATTACTGAAGGCGTTTTTAGTAAAAACCTATTCAATAATGTACTAAAAAATTTTAAAAGAAATTA
TTGAAGGTATTTTTTTTGTAGAAAACGCCTTCAATAATCCTCTCTAATG
Found at i:20517757 original size:96 final size:101
Alignment explanation
Indices: 20517554--20517758 Score: 233
Period size: 105 Copynumber: 2.0 Consensus size: 101
20517544 TAATCCTCTC
* * *
20517554 TAATGATTATTGAAGGCGTTTTTAGTGAAAAACACATTCAATAATGTACTAAAAAATTTTAAAAG
1 TAATAATTATTGAAAGCGTTTTTAATGAAAAACACATTCAATAA--TACTAAAAAATTTT--AAG
* * * *
20517619 AAATTATTGAAGGTATTTTTTTTGTAGAAAATGCCTTTAA
62 AAATTATTAAAGGCATTATTTTTGCAGAAAATGCCTTTAA
* * *
20517659 TAATAATTATTGAAAGCGTTTTTAATGAAAAATACCTTCAAT-A-A-TAAAAAATTTT-AGAACT
1 TAATAATTATTGAAAGCGTTTTTAATGAAAAACACATTCAATAATACTAAAAAATTTTAAGAAAT
20517720 TATTAAAGGCA-TATTTTTGCAGAAAATG-CTTTCAA
66 TATTAAAGGCATTATTTTTGCAGAAAATGCCTTT-AA
20517755 TAAT
1 TAAT
20517759 CATTTCTAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
95 4 0.04
96 21 0.24
97 14 0.16
100 11 0.12
101 1 0.01
104 1 0.01
105 37 0.42
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (101 bp):
TAATAATTATTGAAAGCGTTTTTAATGAAAAACACATTCAATAATACTAAAAAATTTTAAGAAAT
TATTAAAGGCATTATTTTTGCAGAAAATGCCTTTAA
Found at i:20521912 original size:62 final size:61
Alignment explanation
Indices: 20521811--20521987 Score: 201
Period size: 62 Copynumber: 2.8 Consensus size: 61
20521801 GTTTCTGGCT
* * *
20521811 AAAAATGCATTCAATAATCCCCTTCAAAATTTTTTTATGGATTATTGAAGGCGTTTTTCGTC
1 AAAAATACATTCAATAAT-CCCTTCCAAATTTTTTTATGGATTATTGAAGGCGTTTTTCGAC
* *
20521873 AAAAATACTTTCAATAATCCCTTCCAAATTTTTTCTATGGATTATTGAAGGCGTTTTTTGAC
1 AAAAATACATTCAATAATCCCTTCCAAATTTTTT-TATGGATTATTGAAGGCGTTTTTCGAC
* * * * * * *
20521935 GAAAACACCTTCAATATTCTCTCTCCAAAATTTTTTGAATGGATTATTAAAGG
1 AAAAATACATTCAATAATCCCT-TCC-AAATTTTTT-TATGGATTATTGAAGG
20521988 TATTTCTAGC
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
61 15 0.15
62 58 0.59
63 3 0.03
64 23 0.23
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (61 bp):
AAAAATACATTCAATAATCCCTTCCAAATTTTTTTATGGATTATTGAAGGCGTTTTTCGAC
Found at i:20522399 original size:63 final size:63
Alignment explanation
Indices: 20522239--20522400 Score: 167
Period size: 63 Copynumber: 2.6 Consensus size: 63
20522229 TTTTAAGGTA
*
20522239 ATTATTGAAGGCA-TTTCTGA-CAGAAAA-TACCTTCAATAATCACCTCCATTTTTTATGAGAGG
1 ATTATTCAAGGCATTTTCT-ATCA-AAAAGTACCTTCAATAATCACCTCCATTTTTTATGAGAGG
* * *
20522301 ATTATTCAAGGCATTTTCTATCAAAAAG-GCTTTCAATAATC-CC-CTATCTATATTTATGAGAG
1 ATTATTCAAGGCATTTTCTATCAAAAAGTACCTTCAATAATCACCTCCAT-T-T-TTTATGAGAG
20522363 G
63 G
* * *
20522364 ATTATTCAATGTATTTTTTATC-AAAAGTACCTTCAAT
1 ATTATTCAAGGCATTTTCTATCAAAAAGTACCTTCAAT
20522401 TATTGCTTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
60 3 0.04
61 3 0.04
62 34 0.40
63 44 0.52
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (63 bp):
ATTATTCAAGGCATTTTCTATCAAAAAGTACCTTCAATAATCACCTCCATTTTTTATGAGAGG
Found at i:20523329 original size:6 final size:6
Alignment explanation
Indices: 20523318--20523342 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20523308 ATCTGAACCA
20523318 ACAGCC ACAGCC ACAGCC ACAGCC A
1 ACAGCC ACAGCC ACAGCC ACAGCC A
20523343 TAGCATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACAGCC
Found at i:20527691 original size:52 final size:52
Alignment explanation
Indices: 20527634--20527738 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
20527624 TATAATCATA
* *
20527634 CAAACTTGCCTAGTAAGAATCCCTCTCCTTTTAGAATTCTTATTATACAAGT
1 CAAACTTACCTAGTAAGAATCACTCTCCTTTTAGAATTCTTATTATACAAGT
* * * * * * *
20527686 CAAACTTACCTATTAAGTATCATTTTTCTTTTAGAATTCTTCTTCTACAAGT
1 CAAACTTACCTAGTAAGAATCACTCTCCTTTTAGAATTCTTATTATACAAGT
20527738 C
1 C
20527739 TTATTATTGA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTACCTAGTAAGAATCACTCTCCTTTTAGAATTCTTATTATACAAGT
Found at i:20528693 original size:11 final size:11
Alignment explanation
Indices: 20528674--20528713 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
20528664 AGTAATATCT
20528674 AACAAATCTCA
1 AACAAATCTCA
* *
20528685 AATAAATCTCT
1 AACAAATCTCA
20528696 AACAAATCTCA
1 AACAAATCTCA
20528707 AACAAAT
1 AACAAAT
20528714 TTTTTATGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (11 bp):
AACAAATCTCA
Done.