Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 230 of 427
Found at i:65165694 original size:56 final size:56
Alignment explanation
Indices: 65165608--65165720 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
65165598 TAAGTTGAAT
65165608 TGGATTTGGAAATTTGATGCACTAAATGAGTGTTACAATGAGTAAACTATGCCGTA
1 TGGATTTGGAAATTTGATGCACTAAATGAGTGTTACAATGAGTAAACTATGCCGTA
65165664 TGGATTTGGAAATTTGATGCACTAAATGAGTGTTACAATGAGTAAACTATGCCGTA
1 TGGATTTGGAAATTTGATGCACTAAATGAGTGTTACAATGAGTAAACTATGCCGTA
65165720 T
1 T
65165721 ATGTGTTGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (56 bp):
TGGATTTGGAAATTTGATGCACTAAATGAGTGTTACAATGAGTAAACTATGCCGTA
Found at i:65166625 original size:38 final size:38
Alignment explanation
Indices: 65166564--65166767 Score: 210
Period size: 38 Copynumber: 5.3 Consensus size: 38
65166554 ATTTGATGTG
* ** * *
65166564 TATCCGGGCTTAAAGACCCGCAGGCTTTATACTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
* *
65166604 TGTCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
65166642 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
** * *
65166680 TATCCGGGTTAAATCCCTTAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * * *
65166718 TATCTGAGTTTAAAGTCCTGTAGGCTTCGTGCTGGTGTTA
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
* *
65166758 TGTTCGGGTT
1 TATCCGGGTT
65166768 TTATACCTTG
Statistics
Matches: 138, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
38 94 0.68
39 14 0.10
40 30 0.22
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:65168009 original size:49 final size:49
Alignment explanation
Indices: 65167912--65168227 Score: 408
Period size: 49 Copynumber: 6.5 Consensus size: 49
65167902 ATAGCGAAAC
* * * * *
65167912 TATGGTCTTAAACAGAATCACATAATCACAAACCGATGCCATAGCCCAGC
1 TATGGTCTTATACGGAATCACAT-ATCACATACCGATGCCATATCCCAGA
65167962 TATGGTCTTATACGGAATCACATATCACATACCGATGCCATATCCCAGA
1 TATGGTCTTATACGGAATCACATATCACATACCGATGCCATATCCCAGA
*
65168011 TATGGTCTTATACGGAATCACATATCACATACCGATGTCATATCCCAGA
1 TATGGTCTTATACGGAATCACATATCACATACCGATGCCATATCCCAGA
*
65168060 TATGGTCTTATAC-GAATACACATATCACATACCGATGCCATATTCCAGA
1 TATGGTCTTATACGGAAT-CACATATCACATACCGATGCCATATCCCAGA
* * * * *
65168109 TATGGTCTAATACGGATTCACATATCAC--ACTGATGCCATAGCCCAGC
1 TATGGTCTTATACGGAATCACATATCACATACCGATGCCATATCCCAGA
* * * * *
65168156 TATGGTCTTACACGGAA--ACATATAATCACACTGATGCCATATCCTAGA
1 TATGGTCTTATACGGAATCACATATCA-CATACCGATGCCATATCCCAGA
*
65168204 TATGGTCTTATACGGGATCACATA
1 TATGGTCTTATACGGAATCACATA
65168228 ATTTCATAGT
Statistics
Matches: 236, Mismatches: 23, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
45 7 0.03
46 1 0.00
47 29 0.12
48 35 0.15
49 135 0.57
50 29 0.12
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (49 bp):
TATGGTCTTATACGGAATCACATATCACATACCGATGCCATATCCCAGA
Found at i:65173705 original size:32 final size:32
Alignment explanation
Indices: 65173669--65173732 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
65173659 AGCCCAAACC
65173669 ATGTTTCACCA-CGGAAGAAGTGACAAAAGTTT
1 ATGTTTCACCACCGG-AGAAGTGACAAAAGTTT
65173701 ATGTTTCACCACCGGAGAAGTGACAAAAGTTT
1 ATGTTTCACCACCGGAGAAGTGACAAAAGTTT
65173733 TTAGCAGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 28 0.90
33 3 0.10
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (32 bp):
ATGTTTCACCACCGGAGAAGTGACAAAAGTTT
Found at i:65180589 original size:27 final size:27
Alignment explanation
Indices: 65180559--65180645 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
65180549 ATTACCAAAG
* * *
65180559 TACCCTCGATTTATAGAATCATTGTTT
1 TACCCTCAATTTACAGAATCACTGTTT
* *
65180586 TACCCTTAATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATCACTGTTT
* * **
65180613 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCAATTTACAGAATCACTGTTT
65180640 TACCCT
1 TACCCT
65180646 TGATTATGAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATCACTGTTT
Found at i:65180712 original size:27 final size:26
Alignment explanation
Indices: 65180682--65180806 Score: 119
Period size: 27 Copynumber: 4.7 Consensus size: 26
65180672 TATAGGGTAG
*
65180682 AATTACTAAAATATCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
* *
65180709 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* * *
65180736 AATTATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
*
65180763 AATTACCAAAATACCCCT-GATTTATAA
1 AATTACCAAAATA-CCCTAG-TTTGTAA
65180790 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
65180807 TGACTTTCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
26 10 0.12
27 67 0.83
28 4 0.05
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:65180740 original size:54 final size:55
Alignment explanation
Indices: 65180682--65180795 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 55
65180672 TATAGGGTAG
* * * *
65180682 AATTACT-AAAATATCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACTCAAAATA-CCCTCAATTTGTAAAATTACCAAAATACCACTGATTTATAA
* *
65180736 AATTA-TCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTATAA
1 AATTACTCAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTATAA
65180790 AATTAC
1 AATTAC
65180796 AGAAATACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 5 0.10
54 46 0.90
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (55 bp):
AATTACTCAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTATAA
Found at i:65180801 original size:54 final size:54
Alignment explanation
Indices: 65180702--65180806 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 54
65180692 ATATCCCTAG
* * *
65180702 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTATAAAATTATCGAAATACCCTCAA
*
65180756 TTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTA-CAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTGATTTATAAAATTATC-GAAATACCCT
65180807 TGACTTTCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.98
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTATAAAATTATCGAAATACCCTCAA
Found at i:65180828 original size:29 final size:27
Alignment explanation
Indices: 65180706--65180861 Score: 104
Period size: 27 Copynumber: 5.7 Consensus size: 27
65180696 CCCTAGTTTG
* * *
65180706 TAAAATTACCA-AAATACCACTGGTTTG
1 TAAAATTA-CAGAAATACCCCTGATTTA
* * *
65180733 TGAAATTATC-GAAATA-CCCTCAATTTG
1 TAAAATTA-CAGAAATACCCCT-GATTTA
65180760 TAAAATTACCA-AAATACCCCTGATTTA
1 TAAAATTA-CAGAAATACCCCTGATTTA
* *
65180787 TAAAATTACAGAAATACCCTTGACTTTC
1 TAAAATTACAGAAATACCCCTGA-TTTA
* ** *
65180815 TAAAAATTATAGAAATACCGTTGGTTTA
1 T-AAAATTACAGAAATACCCCTGATTTA
* *
65180843 CAAAATTACTGAAATACCC
1 TAAAATTACAGAAATACCC
65180862 TTGGTTTGTA
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
26 5 0.05
27 68 0.66
28 11 0.11
29 19 0.18
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TAAAATTACAGAAATACCCCTGATTTA
Found at i:65180970 original size:27 final size:25
Alignment explanation
Indices: 65180910--65180986 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 25
65180900 AATGACTAAA
65180910 ATACCCCTAATAGGTAAAATGACCGT
1 ATACCCCT-ATAGGTAAAATGACCGT
* *
65180936 AAAGCCCCTATAGGGTAAAGTGACCGT
1 ATA-CCCCTATA-GGTAAAATGACCGT
*
65180963 AGTACCCCTGTATGGTAAAATGAC
1 A-TACCCCTATA-GGTAAAATGAC
65180987 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (25 bp):
ATACCCCTATAGGTAAAATGACCGT
Found at i:65181878 original size:24 final size:25
Alignment explanation
Indices: 65181796--65181865 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
65181786 AGGAAGTGCT
* * * *
65181796 AAAAGGGCTATGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
65181821 AAAATGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
65181846 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
65181866 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:65186420 original size:310 final size:310
Alignment explanation
Indices: 65185858--65186470 Score: 1172
Period size: 310 Copynumber: 2.0 Consensus size: 310
65185848 ATGATAAACT
* *
65185858 ATGTACACTATTACTGATATTTTAATCACATTTTAAAAACTTGGTTACTGTTATCGATATTAGTG
1 ATGTACACTATTACTGATATTTTAATCACATTTTAAAAACGTGGTTACTGTTATCAATATTAGTG
65185923 AAAGCATCATTAATCATGCTCACTGATACTATTATATTGAATGCATGATACTTCATGCCACTATT
66 AAAGCATCATTAATCATGCTCACTGATACTATTATATTGAATGCATGATACTTCATGCCACTATT
65185988 TTTGATAAAATTGATCTCATAATCAAATCATGCCTACTATATTATTTATGTTATTGTTAAAACAT
131 TTTGATAAAATTGATCTCATAATCAAATCATGCCTACTATATTATTTATGTTATTGTTAAAACAT
65186053 GTCATACTGCATTGGAGTTGGGACAATTATGTAAGGATAGAATGTAATAAAAACTACTAAAAAAC
196 GTCATACTGCATTGGAGTTGGGACAATTATGTAAGGATAGAATGTAATAAAAACTACTAAAAAAC
65186118 ATAAATTACTACTTTAAGCATAAAAACCTAAATATATATTAAGGTGAACC
261 ATAAATTACTACTTTAAGCATAAAAACCTAAATATATATTAAGGTGAACC
* *
65186168 ATGTACACTGTTACTGATATTTTAATCACATTTTAAAAACGTGGTTACTGTTATCAATATTATTG
1 ATGTACACTATTACTGATATTTTAATCACATTTTAAAAACGTGGTTACTGTTATCAATATTAGTG
*
65186233 AAAGCATCATTAATCATGCTCACTGATACTGTTATATTGAATGCATGATACTTCATGCCACTATT
66 AAAGCATCATTAATCATGCTCACTGATACTATTATATTGAATGCATGATACTTCATGCCACTATT
*
65186298 TTTGATAAAATTGATCTCATAATCAAATCATGCCTACTGTATTATTTATGTTATTGTTAAAACAT
131 TTTGATAAAATTGATCTCATAATCAAATCATGCCTACTATATTATTTATGTTATTGTTAAAACAT
65186363 GTCATACTGCATTGGAGTTGGGACAATTATGTAAGGATAGAATGTAATAAAAACTACTAAAAAAC
196 GTCATACTGCATTGGAGTTGGGACAATTATGTAAGGATAGAATGTAATAAAAACTACTAAAAAAC
65186428 ATAAATTACTACTTTAAGCATAAAAACCTAAATATATATTAAG
261 ATAAATTACTACTTTAAGCATAAAAACCTAAATATATATTAAG
65186471 ATGCTTTGAT
Statistics
Matches: 297, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
310 297 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (310 bp):
ATGTACACTATTACTGATATTTTAATCACATTTTAAAAACGTGGTTACTGTTATCAATATTAGTG
AAAGCATCATTAATCATGCTCACTGATACTATTATATTGAATGCATGATACTTCATGCCACTATT
TTTGATAAAATTGATCTCATAATCAAATCATGCCTACTATATTATTTATGTTATTGTTAAAACAT
GTCATACTGCATTGGAGTTGGGACAATTATGTAAGGATAGAATGTAATAAAAACTACTAAAAAAC
ATAAATTACTACTTTAAGCATAAAAACCTAAATATATATTAAGGTGAACC
Found at i:65188081 original size:26 final size:26
Alignment explanation
Indices: 65188052--65188108 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
65188042 TACACATCGT
*
65188052 AGGGCA-AATCAGTCATTTTACTTTAC
1 AGGGCATAAT-AGTCATTTTACTCTAC
* *
65188078 AGGGGTATTATAGTCATTTTACTCTAC
1 A-GGGCATAATAGTCATTTTACTCTAC
65188105 AGGG
1 AGGG
65188109 GTATTACAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.15
27 20 0.77
28 2 0.08
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (26 bp):
AGGGCATAATAGTCATTTTACTCTAC
Found at i:65188092 original size:27 final size:26
Alignment explanation
Indices: 65188062--65188248 Score: 187
Period size: 27 Copynumber: 7.0 Consensus size: 26
65188052 AGGGCAAATC
** *
65188062 AGTCATTTTACTTTACAGGGGTATTAT
1 AGTCATTTTACCCTATAGGGGTATT-T
* * *
65188089 AGTCATTTTACTCTACAGGGGTATTAC
1 AGTCATTTTACCCTATAGGGGTATT-T
* **
65188116 AGTCATTTTTCTGTATAGGGGTATTT
1 AGTCATTTTACCCTATAGGGGTATTT
* *
65188142 CGTTCATTTTACCTTATAGGGGTATTT
1 AG-TCATTTTACCCTATAGGGGTATTT
*
65188169 CGATCATTTTACCCTATAGGGGTATTTT
1 AG-TCATTTTACCCTATAGGGGTA-TTT
* *
65188197 GGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATAGGGGTA-TTT
65188224 AGTCATTTTACCCTAT-GGGGTATTT
1 AGTCATTTTACCCTATAGGGGTATTT
65188249 CGGTCATTCT
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
25 3 0.02
26 7 0.05
27 129 0.90
28 4 0.03
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.44
Consensus pattern (26 bp):
AGTCATTTTACCCTATAGGGGTATTT
Found at i:65188149 original size:54 final size:53
Alignment explanation
Indices: 65188060--65188262 Score: 214
Period size: 54 Copynumber: 3.8 Consensus size: 53
65188050 GTAGGGCAAA
** * * *
65188060 TCAGTCATTTTACTTTACAGGGGTATTAT-AGTCATTTTACTCTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT-TCGGTCATTTTAC-CTATAGGGGTATT
* * ** *
65188114 ACAGTCATTTTTCTGTATAGGGGTATTTCGTTCATTTTACCTTATAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACC-TATAGGGGTATT
* *
65188168 TC-GATCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATT
1 TCAG-TCATTTTACCCTATAGGGGTATTTCGGTCATTTTA-CCTATAGGGGTATT
* *
65188222 TTAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTCTACCT
1 TCAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCT
65188263 TCCGGCCCAA
Statistics
Matches: 127, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 3 0.02
53 21 0.17
54 100 0.79
55 3 0.02
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (53 bp):
TCAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTATAGGGGTATT
Found at i:65188167 original size:81 final size:81
Alignment explanation
Indices: 65188062--65188248 Score: 209
Period size: 81 Copynumber: 2.3 Consensus size: 81
65188052 AGGGCAAATC
* * * *
65188062 AGTCATTTTACTTTACAGGGGTATTATAG-TCATTTTACTCTACAGGGGTATTACAGTCATTTTT
1 AGTCATTTTACCTTATAGGGGTATT-TAGATCATTTTACCCTACAGGGGTATTACAGTCATTTTA
**
65188126 CTGTATAGGGGTA-TTT
65 CCCTATAGGGGTATTTT
* * * ***
65188142 CGTTCATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGGTCATTTTA
1 AG-TCATTTTACCTTATAGGGGTATTTAGATCATTTTACCCTACAGGGGTATTACAGTCATTTTA
*
65188207 CCCTATGGGGGTATTTT
65 CCCTATAGGGGTATTTT
*
65188224 AGTCATTTTACCCTAT-GGGGTATTT
1 AGTCATTTTACCTTATAGGGGTATTT
65188249 CGGTCATTCT
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 12 0.13
81 73 0.82
82 4 0.04
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.44
Consensus pattern (81 bp):
AGTCATTTTACCTTATAGGGGTATTTAGATCATTTTACCCTACAGGGGTATTACAGTCATTTTAC
CCTATAGGGGTATTTT
Found at i:65189201 original size:10 final size:12
Alignment explanation
Indices: 65189165--65189205 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
65189155 CCTTGATTTC
*
65189165 CTCCTAATATCT
1 CTCCTCATATCT
65189177 CTCCTCATATCT
1 CTCCTCATATCT
65189189 CTCCTCA-ATTCT
1 CTCCTCATA-TCT
65189201 CTCCT
1 CTCCT
65189206 ACAATCCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 1 0.04
12 26 0.96
ACGTcount: A:0.17, C:0.41, G:0.00, T:0.41
Consensus pattern (12 bp):
CTCCTCATATCT
Found at i:65189929 original size:15 final size:15
Alignment explanation
Indices: 65189909--65189942 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
65189899 TTTCTCTCAC
*
65189909 TTTTGTGACTTTTTA
1 TTTTGTGACTTTTAA
65189924 TTTTGTGACTTTTAA
1 TTTTGTGACTTTTAA
65189939 TTTT
1 TTTT
65189943 TACTCTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.68
Consensus pattern (15 bp):
TTTTGTGACTTTTAA
Found at i:65192171 original size:24 final size:25
Alignment explanation
Indices: 65192143--65192192 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
65192133 AAGGAAATGA
*
65192143 AGAAAAATG-GAAGGGAA-TGAAGAG
1 AGAAAAATGAG-AGAGAAGTGAAGAG
65192167 AGAAAAATGAGAGAGAAGTGAAGAG
1 AGAAAAATGAGAGAGAAGTGAAGAG
65192192 A
1 A
65192193 TGGGAAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (25 bp):
AGAAAAATGAGAGAGAAGTGAAGAG
Found at i:65192837 original size:19 final size:20
Alignment explanation
Indices: 65192815--65192859 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
65192805 ATTTAAGTAC
*
65192815 AATTTA-ATTTTTCTATAAT
1 AATTTATATTTTTCTACAAT
*
65192834 AATTAAATATTTTTCTACAAT
1 AATT-TATATTTTTCTACAAT
65192855 AATTT
1 AATTT
65192860 TATCGAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.19
20 1 0.05
21 16 0.76
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTATATTTTTCTACAAT
Found at i:65194334 original size:17 final size:17
Alignment explanation
Indices: 65194304--65194337 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
65194294 AAAACCTAAT
65194304 CCTAAAATATTAAATAA
1 CCTAAAATATTAAATAA
65194321 CCTAAGAATA-TAAATAA
1 CCTAA-AATATTAAATAA
65194338 AATAAAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.26
Consensus pattern (17 bp):
CCTAAAATATTAAATAA
Found at i:65196555 original size:33 final size:33
Alignment explanation
Indices: 65196509--65196587 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
65196499 TTAGCCCCTC
* *
65196509 TTTCAATAGCAGTGCCAGTCT-GGCCTGAGCCCA
1 TTTCAGTA-CAGTGCCAGTCTAAGCCTGAGCCCA
* *
65196542 TTTCAGTATCAGTGCTAGTCTAAGCCTTAGCCCA
1 TTTCAGTA-CAGTGCCAGTCTAAGCCTGAGCCCA
65196576 TTTCAGTACAGT
1 TTTCAGTACAGT
65196588 ATGCAAACAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 22 0.55
34 18 0.45
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (33 bp):
TTTCAGTACAGTGCCAGTCTAAGCCTGAGCCCA
Found at i:65204318 original size:40 final size:40
Alignment explanation
Indices: 65204228--65204448 Score: 209
Period size: 40 Copynumber: 5.5 Consensus size: 40
65204218 CTCAAGTAAT
* * * *
65204228 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
65204266 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
65204306 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
65204346 CTTTGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
65204386 CTTC-GGATCTTAGTCTGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
* *
65204427 CTTTGGGACTTAGCTCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
65204449 CATTCGAATA
Statistics
Matches: 146, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
38 11 0.08
39 18 0.12
40 90 0.62
41 24 0.16
42 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:65207735 original size:49 final size:49
Alignment explanation
Indices: 65207675--65208028 Score: 554
Period size: 49 Copynumber: 7.3 Consensus size: 49
65207665 GTATGAGATA
65207675 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
65207724 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
65207773 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
65207822 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
65207871 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
65207920 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * *
65207967 TATATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
65208014 TATAAATGTGATAAG
1 TATATATGTGATAAG
65208029 TCCCGAAGGG
Statistics
Matches: 286, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 56 0.20
49 230 0.80
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:65216777 original size:40 final size:40
Alignment explanation
Indices: 65216678--65216859 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
65216668 CTTGCACAAG
*
65216678 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCAC-AAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
65216717 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
65216756 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
65216796 GCCTTCGGATCTTAGTCCGGTTATAGTCACTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
65216836 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
65216860 CATTCGAATA
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
38 26 0.21
39 16 0.13
40 79 0.65
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:65219458 original size:79 final size:82
Alignment explanation
Indices: 65219318--65219502 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
65219308 TCGAATGATG
* * *
65219318 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
65219382 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
65219398 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
65219460 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
65219478 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65219503 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:65219510 original size:40 final size:40
Alignment explanation
Indices: 65219319--65219510 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
65219309 CGAATGATGT
* * * * *
65219319 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
65219359 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
65219399 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
65219438 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
65219478 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
65219511 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:65219533 original size:79 final size:79
Alignment explanation
Indices: 65219318--65219535 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
65219308 TCGAATGATG
* * * * ** *
65219318 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
65219381 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
65219398 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
65219463 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
65219478 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
65219536 TACGTGATTT
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:65229373 original size:29 final size:29
Alignment explanation
Indices: 65229341--65229418 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
65229331 ATACCCTTCG
* * *
65229341 AGCACGCACACCCAGTGCCGTATTTTTCC
1 AGCATGCACACCCAGTGCCATATATTTCC
**
65229370 AGCATGCACACTTAGTGCCATATATTTCC
1 AGCATGCACACCCAGTGCCATATATTTCC
**
65229399 AGCATGCACACTTAGTGCCA
1 AGCATGCACACCCAGTGCCA
65229419 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
AGCATGCACACCCAGTGCCATATATTTCC
Found at i:65230629 original size:24 final size:24
Alignment explanation
Indices: 65230588--65230643 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
65230578 TTTTTTTTTT
65230588 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
65230613 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
65230636 TATTCTTT
1 T-TTCTTT
65230644 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:65233220 original size:79 final size:82
Alignment explanation
Indices: 65233080--65233264 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
65233070 TCGAATGATG
* * *
65233080 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
65233144 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
65233160 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
65233222 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
65233240 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65233265 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:65233272 original size:40 final size:40
Alignment explanation
Indices: 65233081--65233272 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
65233071 CGAATGATGT
* * * * *
65233081 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
65233121 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
65233161 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
65233200 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
65233240 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
65233273 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:65233295 original size:79 final size:79
Alignment explanation
Indices: 65233080--65233297 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
65233070 TCGAATGATG
* * * * ** *
65233080 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
65233143 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
65233160 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
65233225 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
65233240 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
65233298 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:65237715 original size:29 final size:29
Alignment explanation
Indices: 65237681--65237783 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
65237671 TAATCAGCCG
** *
65237681 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
65237710 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
65237739 CGCACACTTAGTGTCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
65237768 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
65237784 ATCTCTCAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 3 0.04
29 64 0.96
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:65238323 original size:13 final size:13
Alignment explanation
Indices: 65238307--65238333 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65238297 TAGAGAATTT
65238307 AGTACAATTACAC
1 AGTACAATTACAC
65238320 AGTACAATTACAC
1 AGTACAATTACAC
65238333 A
1 A
65238334 TTCTTACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (13 bp):
AGTACAATTACAC
Found at i:65243945 original size:40 final size:39
Alignment explanation
Indices: 65243890--65244053 Score: 213
Period size: 40 Copynumber: 4.1 Consensus size: 39
65243880 CGGATGATAA
*
65243890 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATA-T
*
65243930 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATAT
* *
65243970 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTACTATAT
* * *
65244010 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATAT
65244050 CCGG
1 CCGG
65244054 TTAAAGCCCG
Statistics
Matches: 111, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
39 2 0.02
40 106 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATAT
Found at i:65244023 original size:80 final size:80
Alignment explanation
Indices: 65243890--65244053 Score: 242
Period size: 80 Copynumber: 2.0 Consensus size: 80
65243880 CGGATGATAA
* * *
65243890 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
* *
65243955 TGCGAGTTACTATAT
66 AGCGAGTGACTATAT
65243970 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATT
*
65244033 TGAGCGAGTGGCTATAT
64 TGAGCGAGTGACTATAT
65244050 CCGG
1 CCGG
65244054 TTAAAGCCCG
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
79 2 0.03
80 72 0.95
81 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCAAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTGACTATAT
Found at i:65246782 original size:50 final size:50
Alignment explanation
Indices: 65246707--65246843 Score: 181
Period size: 50 Copynumber: 2.7 Consensus size: 50
65246697 GGCTACTACG
*
65246707 TGTGTAGTACTAAGTGCAGGTTACTACGTGTATCC-GATGGTTAGG-TCACA
1 TGTGTAGTACTAAGTGCAGGATACTACGTGTA-CCAGATGGTTAGGTTC-CA
* *
65246757 TGTGTATTACTAAGTGCAGGATACTACGTGTACCAGATTGTTAGGTTCCA
1 TGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATGGTTAGGTTCCA
* *
65246807 TGTGTAGTACTAAGTGCAGG-TGACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGAT-ACTACGTGTACCAGA
65246844 GAGCTTCGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
49 3 0.04
50 73 0.94
51 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATGGTTAGGTTCCA
Found at i:65259083 original size:40 final size:39
Alignment explanation
Indices: 65258915--65259085 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
65258905 AGAAATTGAA
* *
65258915 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
65258955 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
65258995 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
65259035 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
65259075 TGATATCCGGG
1 TGATATCCGGG
65259086 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:65267100 original size:40 final size:39
Alignment explanation
Indices: 65266932--65267102 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
65266922 AGAAATTGAA
* *
65266932 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
65266972 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
65267012 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
65267052 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
65267092 TGATATCCGGG
1 TGATATCCGGG
65267103 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:65272982 original size:29 final size:29
Alignment explanation
Indices: 65272941--65273059 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 29
65272931 GTGAGCATGA
**
65272941 ATAT-AATGTGATTTGGGCCTAATAAGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
65272969 ATATAAATGTGATTTGGGCTTAATGGGCT
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
65272998 ATATAAATGTGATCTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
** * *
65273027 ATACGAATGTGA-TTAGGCCTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
65273055 ATATA
1 ATATA
65273060 CAGGTATTTG
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 20 0.26
29 56 0.74
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:65278446 original size:40 final size:39
Alignment explanation
Indices: 65278382--65278553 Score: 168
Period size: 40 Copynumber: 4.3 Consensus size: 39
65278372 TCTTCGGAAT
* ** *
65278382 TTAG-CCGGATATAACCACAAGCACAATTGCCTTTGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *** *
65278421 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
65278461 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* * *
65278501 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
65278541 TTAGCCCGGATAT
1 TTAGCCCGGATAT
65278554 CATTCAAATG
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 104 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:65278472 original size:80 final size:80
Alignment explanation
Indices: 65278373--65278553 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
65278363 AATCGAGTCT
* * * * * **
65278373 CTTCGGAATTTAG-CCGGATATAACCACAAGCAC-AATTGCCTTTGGGTCTTAACCCGGATTTGG
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACGAA-TGCCTTCGGGTCTTAACCCGGATATAA
*
65278436 TAACTTGCACAAATGC
65 TAACTAGCACAAATGC
* ** *
65278452 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* *
65278517 CACTAGCATAAATGC
66 AACTAGCACAAATGC
65278532 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
65278554 CATTCAAATG
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
79 10 0.12
80 73 0.86
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:65280481 original size:40 final size:40
Alignment explanation
Indices: 65280426--65280565 Score: 217
Period size: 40 Copynumber: 3.5 Consensus size: 40
65280416 CTGGGTCAAT
65280426 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
*
65280466 TCCCGAAGGCATTTGTGCGAGTTACCAAAACTGGGTTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
* * * * *
65280506 TCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAT
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
*
65280546 TCCCGAAGGCAATTGTGCGA
1 TCCCGAAGGCATTTGTGCGA
65280566 ATCACTATAA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
Found at i:65280580 original size:40 final size:40
Alignment explanation
Indices: 65280423--65280607 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
65280413 AATCTGGGTC
* * *
65280423 AATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTT
1 AATTCCCGAAGGCAATTGTGCGAGTTACTAAAACCGGGCT
* * * * *
65280463 AAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACTGGGTT
1 AATTCCCGAAGGCAATTGTGCGAGTTACTAAAACCGGGCT
* *
65280503 AAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAATCCGGGCT
1 AATTCCCGAAGGCAATT-GTGCGAGTTACTAAAACCGGGCT
* * *
65280543 AATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGC-
1 AATTCCCGAAGGCAATTGTGCGAGTTACTAAAACCGGGCT
* *
65280582 AATGTCCCGAAGACAATTGAGCGAGT
1 AAT-TCCCGAAGGCAATTGTGCGAGT
65280608 CGCTATATCC
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 5 0.04
40 119 0.94
41 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
AATTCCCGAAGGCAATTGTGCGAGTTACTAAAACCGGGCT
Found at i:65280614 original size:40 final size:40
Alignment explanation
Indices: 65280536--65280619 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
65280526 GTTACTAAAT
* *
65280536 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATTGAGCGAATCACTATAA
* * *
65280576 CCGGGC-AATGTCCCGAAGACAATTGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATTGAGCGAATCACTATAA
65280616 CCGG
1 CCGG
65280620 TTAAATTCTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 3 0.08
40 35 0.92
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATTGAGCGAATCACTATAA
Found at i:65283189 original size:29 final size:29
Alignment explanation
Indices: 65283120--65283270 Score: 123
Period size: 29 Copynumber: 5.3 Consensus size: 29
65283110 ACCCCTACAT
* * *
65283120 ACATGCATATGGCCCACCAGG-CCAA-TC
1 ACATTCATATGGCCCATCTGGCCCAATTC
* *
65283147 TCATTTATATGGCCCATCTGGCCCAATTC
1 ACATTCATATGGCCCATCTGGCCCAATTC
** * *
65283176 AGGTTCATATGGCCCATCAGACCCAATTC
1 ACATTCATATGGCCCATCTGGCCCAATTC
65283205 ACATTCATATGGCCCAT-TAGGCCCAA-TC
1 ACATTCATATGGCCCATCT-GGCCCAATTC
* * * ** *
65283233 TCATTTATATGACCCATCCAGCCCAAATC
1 ACATTCATATGGCCCATCTGGCCCAATTC
65283262 ACATT-ATAT
1 ACATTCATAT
65283271 CTATGCTCAC
Statistics
Matches: 98, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
27 16 0.16
28 30 0.31
29 52 0.53
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATCTGGCCCAATTC
Found at i:65283221 original size:58 final size:54
Alignment explanation
Indices: 65283125--65283270 Score: 152
Period size: 57 Copynumber: 2.6 Consensus size: 54
65283115 TACATACATG
* * *
65283125 CATATGGCCCACCAGGCCAATCTCATTTATATGGCCCATCT-GGCCCAAT-TCAGGTT
1 CATATGGCCCATCAGCCCAATCACA-TTATATGGCCCAT-TAGGCCCAATCTCA--TT
65283181 CATATGGCCCATCAGACCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATCAG-CCCAA-TCACATT-ATATGGCCCATTAGGCCCAATCTCATT
* *
65283238 TATATGACCCATCCAGCCCAAATCACATTATAT
1 CATATGGCCCAT-CAGCCC-AATCACATTATAT
65283271 CTATGCTCAC
Statistics
Matches: 78, Mismatches: 5, Indels: 14
0.80 0.05 0.14
Matches are distributed among these distances:
56 18 0.23
57 29 0.37
58 28 0.36
59 3 0.04
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (54 bp):
CATATGGCCCATCAGCCCAATCACATTATATGGCCCATTAGGCCCAATCTCATT
Found at i:65291039 original size:29 final size:29
Alignment explanation
Indices: 65290929--65291041 Score: 131
Period size: 29 Copynumber: 3.9 Consensus size: 29
65290919 ACCCCTACAT
* *
65290929 ACATGCATATGGCCCACTAGGCCCAA-TC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* *
65290957 TCATTTATATGGCCCATCTA-GCCCAATTC
1 ACATTCATATGGCCCAT-TAGGCCCAATTC
* * *
65290986 ACGTTCATTTGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
*
65291015 ACATTCATATGGCCCATTAGCCCCAAT
1 ACATTCATATGGCCCATTAGGCCCAAT
65291042 CTCATTTAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 20 0.29
29 49 0.71
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:65291058 original size:57 final size:57
Alignment explanation
Indices: 65290938--65291065 Score: 138
Period size: 57 Copynumber: 2.2 Consensus size: 57
65290928 TACATGCATA
* * * *
65290938 TGGCCCA-CTAGGCCCAATCTCATTTATATGGCCCATCTAGCCCAATTCACGTTCATT
1 TGGCCCATC-AGGCCCAATCACATTCATATGGCCCATCTAGCCCAATTCACGTTAAAT
*
65290995 TGGCCCATCAGGCCCAATTCACATTCATATGGCCCAT-TAGCCCCAATCTCA-TTTAAAT
1 TGGCCCATCAGGCCCAA-TCACATTCATATGGCCCATCTAG-CCCAAT-TCACGTTAAAT
*
65291053 T-GCCCATCCGGCC
1 TGGCCCATCAGGCC
65291066 AAAATCAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
57 29 0.48
58 29 0.48
59 3 0.05
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.27
Consensus pattern (57 bp):
TGGCCCATCAGGCCCAATCACATTCATATGGCCCATCTAGCCCAATTCACGTTAAAT
Found at i:65292916 original size:43 final size:43
Alignment explanation
Indices: 65292849--65293009 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 43
65292839 AAGCTCGTAT
* * *
65292849 AATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCG
1 AATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATAT-G
* *
65292893 -ATGCC-ACTGTCCCAGACAG-GGTCTGACACGAAATCAAATATG
1 AATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATG
*
65292935 AATGCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGT-T-
1 AATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AA-TATG
* * *
65292979 CATTCCAACATCCCAGACGTGGTCTTACACG
1 AATGCCAACGTCCCAGACGTGGTCTTACACG
65293010 ATAACACATA
Statistics
Matches: 97, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
42 4 0.04
43 54 0.56
44 35 0.36
45 3 0.03
46 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATG
Found at i:65294038 original size:17 final size:17
Alignment explanation
Indices: 65294016--65294048 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65294006 ACTTCCCTTC
65294016 TCATCTTTTCTCTTCTT
1 TCATCTTTTCTCTTCTT
*
65294033 TCATCTTTTCTTTTCT
1 TCATCTTTTCTCTTCT
65294049 CCATAGCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (17 bp):
TCATCTTTTCTCTTCTT
Found at i:65294996 original size:27 final size:27
Alignment explanation
Indices: 65294966--65295023 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
65294956 TACTAAAATA
*
65294966 CCCTAAGTATG-AAAATTACCATTATAC
1 CCCTAAG-ATGCAAAATGACCATTATAC
* *
65294993 CCCT-AGGTGCAAACTGACCATTATAC
1 CCCTAAGATGCAAAATGACCATTATAC
65295019 CCCTA
1 CCCTA
65295024 GGGTTGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.08
26 20 0.77
27 4 0.15
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.26
Consensus pattern (27 bp):
CCCTAAGATGCAAAATGACCATTATAC
Found at i:65295201 original size:28 final size:27
Alignment explanation
Indices: 65295127--65295242 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 27
65295117 TGGAGGAAGC
*
65295127 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATAT
* * *
65295154 GATCTGGTAGCTCTCCCACAAATATAT
1 GTTCTGGTGGCTCTGCCACAAATATAT
* * * *
65295181 GTTTCTGGTGGCCCTGTCACAATTATCT
1 G-TTCTGGTGGCTCTGCCACAAATATAT
* * * * *
65295209 GTATTTGGTGACTCAGTCAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATAT
65295236 GTTCTGG
1 GTTCTGG
65295243 CAACCATACT
Statistics
Matches: 70, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
26 4 0.06
27 33 0.47
28 33 0.47
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATAT
Found at i:65298165 original size:29 final size:29
Alignment explanation
Indices: 65298132--65298233 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
65298122 TGACGAGATC
65298132 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
65298161 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
65298190 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
65298219 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
65298234 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:65306157 original size:29 final size:29
Alignment explanation
Indices: 65306124--65306225 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
65306114 TGACGAGATC
65306124 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
65306153 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
65306182 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
65306211 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
65306226 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:65311259 original size:40 final size:40
Alignment explanation
Indices: 65311200--65311367 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
65311190 AAATTGAATG
* *
65311200 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAGATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTGGAGATT
* * * **
65311240 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAGATT
* *
65311280 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAGATT
* * ** *
65311320 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAGATT
65311360 ATATCCGG
1 ATATCCGG
65311368 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
39 3 0.03
40 96 0.94
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAGATT
Found at i:65319099 original size:14 final size:14
Alignment explanation
Indices: 65319073--65319110 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
65319063 AAAATTAAAG
*
65319073 CACAAA-AATTTCA
1 CACAAATAAATTCA
65319086 CACAAATAAATTCA
1 CACAAATAAATTCA
65319100 CACATAATAAA
1 CACA-AATAAA
65319111 CACATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
CACAAATAAATTCA
Found at i:65320996 original size:43 final size:43
Alignment explanation
Indices: 65320879--65321032 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 43
65320869 TCATACAATA
* *
65320879 CCAACATCCCAGATGTGGTCTTACATGT-AATCAAATACTGATG
1 CCAACGTCCCAGATGTGGTCTTACAAGTAAATCAAATAC-GATG
* *
65320922 CC-ACTGTCCTAGATAG-GGTCTTACACG-AAATCAAATACGATG
1 CCAAC-GTCCCAGAT-GTGGTCTTACAAGTAAATCAAATACGATG
** *
65320964 CCAACGTCCCAGGCGTGGTCTTACAAGTAAATCATAAGT-CAATG
1 CCAACGTCCCAGATGTGGTCTTACAAGTAAATCA-AA-TACGATG
65321008 CCAACGTCCCAGATGTGGTCTTACA
1 CCAACGTCCCAGATGTGGTCTTACA
65321033 CGATAACACA
Statistics
Matches: 93, Mismatches: 10, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 37 0.40
44 30 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
CCAACGTCCCAGATGTGGTCTTACAAGTAAATCAAATACGATG
Found at i:65322116 original size:34 final size:34
Alignment explanation
Indices: 65322078--65322157 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
65322068 TAGCCCCTCC
65322078 TTCAGTAACAGTAACAGTCTGAGCCTGAGCCCAT
1 TTCAGTAACAGTAACAGTCTGAGCCTGAGCCCAT
* *** * * *
65322112 TTCAGTATCAGTGGTATTCTGGGCCTTAGCCCAT
1 TTCAGTAACAGTAACAGTCTGAGCCTGAGCCCAT
65322146 TTCAGT-ACAGTA
1 TTCAGTAACAGTA
65322158 TGCAAACACA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 4 0.11
34 33 0.89
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (34 bp):
TTCAGTAACAGTAACAGTCTGAGCCTGAGCCCAT
Found at i:65325425 original size:27 final size:26
Alignment explanation
Indices: 65325355--65325466 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
65325345 GGAGGAAGCT
65325355 TTCTGGTGGCTATGCCACAATTATCTG
1 TTCTGGTGGCTATGCCACAA-TATCTG
65325382 TTTCTGGTGGCTATGCCACAAATATCTG
1 -TTCTGGTGGCTATGCCAC-AATATCTG
* *
65325410 TTCTGGTGGCTCTGCCACAATATTTG
1 TTCTGGTGGCTATGCCACAATATCTG
** * *
65325436 TATCTGGTAACTCTGTCACAATATCTG
1 T-TCTGGTGGCTATGCCACAATATCTG
65325463 TTCT
1 TTCT
65325467 AGCAGCCATG
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.14
27 39 0.51
28 24 0.32
29 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTG
Found at i:65331952 original size:29 final size:29
Alignment explanation
Indices: 65331920--65331992 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
65331910 TGAAAAGTAT
* * *
65331920 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
65331949 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
65331978 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
65331993 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:65339882 original size:29 final size:29
Alignment explanation
Indices: 65339850--65339922 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
65339840 TGAAAAGTAT
* * *
65339850 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
65339879 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
65339908 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
65339923 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:65344338 original size:28 final size:27
Alignment explanation
Indices: 65344301--65344389 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
65344291 GGAGGAAGTG
*
65344301 TTCTAGTGGCTATGCCACAATTATCTGT
1 TTCTGGTGGCTATGCCACAA-TATCTGT
*
65344329 TTCTGGTGGCTATGCCAAAAATATCTG-
1 TTCTGGTGGCTATGCC-ACAATATCTGT
* *
65344356 TTCTGGTGGCTCTGCCACAATATTTGT
1 TTCTGGTGGCTATGCCACAATATCTGT
*
65344383 ATCTGGT
1 TTCTGGT
65344390 AACTCTATCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.15
27 21 0.40
28 21 0.40
29 3 0.06
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAATATCTGT
Found at i:65344371 original size:27 final size:27
Alignment explanation
Indices: 65344299--65344389 Score: 103
Period size: 28 Copynumber: 3.3 Consensus size: 27
65344289 ATGGAGGAAG
* * *
65344299 TGTTCTAGTGGCTATGCCACAATTATC
1 TGTTCTGGTGGCTATGCCAAAAATATC
65344326 TGTTTCTGGTGGCTATGCCAAAAATATC
1 TG-TTCTGGTGGCTATGCCAAAAATATC
* * *
65344354 TGTTCTGGTGGCTCTGCC-ACAATATT
1 TGTTCTGGTGGCTATGCCAAAAATATC
65344380 TGTATCTGGT
1 TGT-TCTGGT
65344390 AACTCTATCA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.16
27 23 0.41
28 24 0.43
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (27 bp):
TGTTCTGGTGGCTATGCCAAAAATATC
Found at i:65344395 original size:27 final size:26
Alignment explanation
Indices: 65344348--65344407 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
65344338 CTATGCCAAA
** *
65344348 AATATCTGTTCTGGTGGCTCTGCCAC
1 AATATCTGTTCTGGTAACTCTACCAC
* *
65344374 AATATTTGTATCTGGTAACTCTATCAC
1 AATATCTGT-TCTGGTAACTCTACCAC
65344401 AATATCT
1 AATATCT
65344408 ATTTTGGCAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (26 bp):
AATATCTGTTCTGGTAACTCTACCAC
Found at i:65352204 original size:25 final size:25
Alignment explanation
Indices: 65352176--65352235 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
65352166 GAGGAAGTGC
*
65352176 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCA
* * *
65352201 AAAAGGACTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TATGCCCCAGTTTACCA
65352227 AAAAGGGCT
1 AAAAGGGCT
65352236 TTTGCCCTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTACCA
Found at i:65352249 original size:25 final size:26
Alignment explanation
Indices: 65352186--65352247 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
65352176 AAAAGGGCTA
* *
65352186 TGCCCCAGTTTACCGAAAAGGACTTT
1 TGCCCCAGTTTATCAAAAAGGACTTT
*
65352212 TGCCCCAGTTTATCAAAAAGGGCTTT
1 TGCCCCAGTTTATCAAAAAGGACTTT
*
65352238 TGCCCTAGTT
1 TGCCCCAGTT
65352248 ATTAAAGGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAAGGACTTT
Found at i:65352538 original size:31 final size:31
Alignment explanation
Indices: 65352465--65352544 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
65352455 TATTGTTACA
** * *
65352465 GTAAAGGCTTCAACCCAGTGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGCGACATGAATAAT
*
65352496 GAAAAGGCTTCGGCCCAGCGACATGAATAAT
1 GTAAAGGCTTCGGCCCAGCGACATGAATAAT
65352527 GTAAAGGCTTCGGCCCAG
1 GTAAAGGCTTCGGCCCAG
65352545 TATATATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGCGACATGAATAAT
Found at i:65360171 original size:25 final size:25
Alignment explanation
Indices: 65360143--65360202 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
65360133 GAGGAAGTGC
*
65360143 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCA
* * *
65360168 AAAAGGACTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TATGCCCCAGTTTACCA
65360194 AAAAGGGCT
1 AAAAGGGCT
65360203 TTTGCCCTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTACCA
Found at i:65360216 original size:25 final size:26
Alignment explanation
Indices: 65360153--65360214 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
65360143 AAAAGGGCTA
* *
65360153 TGCCCCAGTTTACCGAAAAGGACTTT
1 TGCCCCAGTTTATCAAAAAGGACTTT
*
65360179 TGCCCCAGTTTATCAAAAAGGGCTTT
1 TGCCCCAGTTTATCAAAAAGGACTTT
*
65360205 TGCCCTAGTT
1 TGCCCCAGTT
65360215 ATTAAAGGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAAGGACTTT
Found at i:65360510 original size:31 final size:31
Alignment explanation
Indices: 65360432--65360510 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
65360422 TATTGTTACA
** *
65360432 GTAAAGGCTTTGGCCCAGTGATATGAATAAT
1 GTAAAGGCTTTGGCCCAACGACATGAATAAT
* * *
65360463 GAAAAGGCATCGGCCCAACGACATGAATAAT
1 GTAAAGGCTTTGGCCCAACGACATGAATAAT
*
65360494 GTAAAGGCTTTAGCCCA
1 GTAAAGGCTTTGGCCCA
65360511 GTATATGCTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (31 bp):
GTAAAGGCTTTGGCCCAACGACATGAATAAT
Found at i:65365472 original size:33 final size:33
Alignment explanation
Indices: 65365430--65365495 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
65365420 TTCGGGTCTT
* *
65365430 AGCCCGGATATGGTCACTAGCACAGATGCCTTC
1 AGCCCGGATATAGTCACTAGCACAAATGCCTTC
*
65365463 AGCCCGGATATAGTCGCTAGCACAAATGCCTTC
1 AGCCCGGATATAGTCACTAGCACAAATGCCTTC
65365496 GGGTCTTAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (33 bp):
AGCCCGGATATAGTCACTAGCACAAATGCCTTC
Found at i:65365585 original size:41 final size:41
Alignment explanation
Indices: 65365463--65365594 Score: 144
Period size: 40 Copynumber: 3.3 Consensus size: 41
65365453 AGATGCCTTC
* *
65365463 AGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTT
1 AGCCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTT
* * *
65365503 AGCCCGAATATAG-CAACTCGCACGAATGCCTTC-GGATCTT
1 AGCCCGGATATAGTCAACTAGCACAAATGCCTTCGGGA-CTT
* * * *
65365543 AGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTT
*
65365584 AGCCTGGATAT
1 AGCCCGGATAT
65365595 CATTCGAATA
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
39 3 0.04
40 40 0.55
41 27 0.37
42 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
AGCCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTT
Found at i:65373595 original size:39 final size:40
Alignment explanation
Indices: 65373574--65373757 Score: 246
Period size: 40 Copynumber: 4.6 Consensus size: 40
65373564 CTTGCACAAG
*
65373574 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCAC-AAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
65373613 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
65373653 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
65373693 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
65373734 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
65373758 CATTCGAATA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 34 0.27
40 61 0.49
41 29 0.23
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:65373748 original size:81 final size:79
Alignment explanation
Indices: 65373574--65373757 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 79
65373564 CTTGCACAAG
*
65373574 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAATGCCTTCGGGACTTAGCCCGGATATAG
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAATGCCTTCGGGACTTAGCCCGGATATAG
* *
65373639 TCGCTAGCACAAAT
66 TCCCTAGCACAAAA
* * *
65373653 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCAC-AATGCCTTCGGGA-CTTAGCCCGGATA
65373716 TAGTCACCTAGCACAAAA
63 TAGTC-CCTAGCACAAAA
*
65373734 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
65373758 CATTCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 35 0.37
80 25 0.27
81 33 0.35
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAATGCCTTCGGGACTTAGCCCGGATATAG
TCCCTAGCACAAAA
Found at i:65381906 original size:29 final size:28
Alignment explanation
Indices: 65381844--65381944 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
65381834 GTGACGAGAT
* * *
65381844 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-GATATA
* *
65381873 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGA-TATA
* *
65381902 TGGCACTATGTGTGCGGGCTT-GA-ATCA
1 TGGCACTAAGTGTGCGAGCTTGGATAT-A
65381929 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65381945 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 16 0.27
28 3 0.05
29 39 0.65
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGGATATA
Found at i:65381951 original size:27 final size:27
Alignment explanation
Indices: 65381874--65381951 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
65381864 TGTAATGTAC
*
65381874 GGCACTAAGTGTGCGAGTTTGGACTATAT
1 GGCACTAAGTGTGCGAGATT-GAC-ATAT
* * *
65381903 GGCACTATGTGTGCGGGCTTGA-ATCAT
1 GGCACTAAGTGTGCGAGATTGACAT-AT
*
65381930 GGCACTAAGTGTGCGTGATTGA
1 GGCACTAAGTGTGCGAGATTGA
65381952 GTATTAAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 21 0.50
28 2 0.05
29 17 0.40
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.29
Consensus pattern (27 bp):
GGCACTAAGTGTGCGAGATTGACATAT
Found at i:65391437 original size:83 final size:83
Alignment explanation
Indices: 65391340--65391492 Score: 263
Period size: 83 Copynumber: 1.8 Consensus size: 83
65391330 GTGACCATAT
* *
65391340 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGG-TGAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCT-AAGACCCGAAGGCATGT
65391404 GTGCGAATAGTTGATATAC
65 GTGCGAATAGTTGATATAC
*
65391423 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCTGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
65391488 TGCGA
66 TGCGA
65391493 GTTGCTATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
83 65 0.98
84 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (83 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAATAGTTGATATAC
Found at i:65391441 original size:43 final size:40
Alignment explanation
Indices: 65391318--65391520 Score: 252
Period size: 40 Copynumber: 5.0 Consensus size: 40
65391308 GGGTGTTACA
*
65391318 GCATTTGTGCTAGTGACCATATCCGGGCTAAGTCCCGAAG
1 GCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
65391358 GCATTTGTGCTAGTGACTATATCCGGG-TGAAGTCCCGAAG
1 GCATTTGTGCTAGTGACTATATCCGGGCT-AAGTCCCGAAG
*
65391398 GCATTTGTGCGAATAGTTGA-TATACCCGGGCTAAGTCCCGAAG
1 GCATTTGTGC---TAG-TGACTATATCCGGGCTAAGTCCCGAAG
* *
65391441 GCATTTGTGCTAGTGACTATATCCGGGCTAAGACCTGAAG
1 GCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
* * * *
65391481 GCATGTGTGCGAGTTG-CTATATCC-GGCTAAATCCTGAAG
1 GCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAG
65391520 G
1 G
65391521 TACTTGGGTT
Statistics
Matches: 146, Mismatches: 9, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
39 18 0.12
40 89 0.61
41 2 0.01
43 33 0.23
44 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
GCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
Found at i:65395593 original size:30 final size:30
Alignment explanation
Indices: 65395557--65395617 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
65395547 CATTTATTAC
65395557 AAACTTTGGCAAAATTACA-TTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTT-CCCCT
* *
65395587 AAACTTTTGCATAATTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACACTTTTTCCCCT
65395617 A
1 A
65395618 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTTCCCCT
Found at i:65397181 original size:12 final size:12
Alignment explanation
Indices: 65397166--65397215 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
65397156 CAAAATTACA
65397166 AATTTAATTCAC
1 AATTTAATTCAC
65397178 AATTTAATTCAC
1 AATTTAATTCAC
*
65397190 AATTTAA-TAAC
1 AATTTAATTCAC
65397201 ATATTTAATTCAC
1 A-ATTTAATTCAC
65397214 AA
1 AA
65397216 ATTACGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 4 0.12
12 26 0.76
13 4 0.12
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTAATTCAC
Found at i:65397186 original size:24 final size:24
Alignment explanation
Indices: 65397159--65397218 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
65397149 TTTTTAACAA
*
65397159 AATTACAAATTTAATTCACA-ATTT
1 AATTACAAATTTAA-TAACATATTT
65397183 AATT-CACAATTTAATAACATATTT
1 AATTACA-AATTTAATAACATATTT
65397207 AATTCACAAATT
1 AATT-ACAAATT
65397219 ACGAATATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 6 0.19
24 19 0.61
25 4 0.13
26 2 0.06
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTACAAATTTAATAACATATTT
Found at i:65407261 original size:39 final size:39
Alignment explanation
Indices: 65407216--65407337 Score: 217
Period size: 39 Copynumber: 3.1 Consensus size: 39
65407206 AATTATATTA
* *
65407216 CCAGCACAAAGCCTGCTGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
65407255 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
65407294 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
65407333 CCAGC
1 CCAGC
65407338 CCAGATACAT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:65407344 original size:17 final size:17
Alignment explanation
Indices: 65407318--65407354 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
65407308 GCGGGTCTTT
*
65407318 AGCCCGGATACATTTCC
1 AGCCCAGATACATTTCC
65407335 AGCCCAGATACATTTCC
1 AGCCCAGATACATTTCC
65407352 AGC
1 AGC
65407355 ACGAAGCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (17 bp):
AGCCCAGATACATTTCC
Found at i:65407365 original size:56 final size:56
Alignment explanation
Indices: 65407279--65407393 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
65407269 GCGGGACTTT
*
65407279 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
1 AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
65407335 AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
1 AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
65407391 AGC
1 AGC
65407394 ACGAAGCCTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (56 bp):
AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCC
Found at i:65407389 original size:39 final size:39
Alignment explanation
Indices: 65407335--65407509 Score: 287
Period size: 39 Copynumber: 4.5 Consensus size: 39
65407325 ATACATTTCC
*
65407335 AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGTCTTT
1 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTT
** * *
65407374 AGCCCGGATACATTTCCAGCACGAAGCCTATGAGACTTT
1 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTT
*
65407413 AGCCCGGATACATTTCCAGCACGAAGCCTGTGGGTCTTT
1 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTT
*
65407452 AGCCCGGATACATTTCCAGCATGAAGCCTGCGGGTCTTT
1 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTT
65407491 AGCCCGGATACATTTCCAG
1 AGCCCGGATACATTTCCAG
65407510 TGTCTTGCTT
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 126 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTT
Found at i:65407413 original size:95 final size:95
Alignment explanation
Indices: 65407240--65407432 Score: 332
Period size: 95 Copynumber: 2.0 Consensus size: 95
65407230 GCTGGACTTT
*
65407240 AGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
1 AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
* * *
65407305 CCTGCGGGTCTTTAGCCCGGATACATTTCC
66 CCTACGAGACTTTAGCCCGGATACATTTCC
*
65407335 AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCACGAAG
1 AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
*
65407400 CCTATGAGACTTTAGCCCGGATACATTTCC
66 CCTACGAGACTTTAGCCCGGATACATTTCC
65407430 AGC
1 AGC
65407433 ACGAAGCCTG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (95 bp):
AGCCCAGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
CCTACGAGACTTTAGCCCGGATACATTTCC
Found at i:65407456 original size:134 final size:134
Alignment explanation
Indices: 65407216--65407471 Score: 449
Period size: 134 Copynumber: 1.9 Consensus size: 134
65407206 AATTATATTA
* * *
65407216 CCAGCACAAAGCCTGCTGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAGACTTTAG
65407281 CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCCCAGATAC
66 CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCCCAGATAC
65407346 ATTT
131 ATTT
* * *
65407350 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCACGAAGCCTATGAGACTTTAG
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAGACTTTAG
*
65407415 CCCGGATACATTTCCAGCACGAAGCCTGTGGGTCTTTAGCCCGGATACATTTCCAGC
66 CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGC
65407472 ATGAAGCCTG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 115 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (134 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAGACTTTAG
CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCAGCCCAGATAC
ATTT
Found at i:65412004 original size:52 final size:52
Alignment explanation
Indices: 65411936--65412042 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
65411926 ATGGTAACAA
* * *
65411936 CATCCAATCGGTTGGAAAACAATGACCTCTAACTATCAAAGGGCA-TTCATTG
1 CATCAAATCGATTGGAAAACAATGACCTCTAACTATCAAAGGACATTTC-TTG
*
65411988 CATCAAATCGATTGGAAAACACTGACCTCTAACTATCAAAGGACATTTCTTG
1 CATCAAATCGATTGGAAAACAATGACCTCTAACTATCAAAGGACATTTCTTG
65412040 CAT
1 CAT
65412043 ACTTTATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 47 0.94
53 3 0.06
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (52 bp):
CATCAAATCGATTGGAAAACAATGACCTCTAACTATCAAAGGACATTTCTTG
Found at i:65424418 original size:50 final size:49
Alignment explanation
Indices: 65424298--65424479 Score: 204
Period size: 50 Copynumber: 3.7 Consensus size: 49
65424288 TGAAGCTATC
* * *
65424298 TGATACGCATAGTAGCCTACACTTAATACTACACATGCGA-TCAACAATC
1 TGATACACATAGTAGCCTACACTTAGTACTACACATGCGACTCAAC-ATA
* * * * * * * *
65424347 TGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTCATCATT
1 TGATACACATAGTAGCCTACACTTAGTACTACACATGCGA-CTCAACATA
* *
65424397 TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTA
1 TGATACACATAGTAGCCTACACTTAGTACTACACATGCGACTCAACA-TA
*
65424447 TGATACACGTAGTAGCCTACACTTAGTACTACA
1 TGATACACATAGTAGCCTACACTTAGTACTACA
65424480 TGTGTATTCA
Statistics
Matches: 110, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 37 0.34
50 69 0.63
51 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (49 bp):
TGATACACATAGTAGCCTACACTTAGTACTACACATGCGACTCAACATA
Found at i:65427705 original size:20 final size:20
Alignment explanation
Indices: 65427680--65427766 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
65427670 GTTTTGATAT
65427680 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
*
65427700 ACATGATATGTATAATATGC
1 ACATGATATGTATGATATGC
*
65427720 ATATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
65427740 ACATAAAATGTATGATATGC
1 ACATGATATGTATGATATGC
65427760 ACATGAT
1 ACATGAT
65427767 GTATTCATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 56 0.97
21 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65427707 original size:11 final size:11
Alignment explanation
Indices: 65427689--65427766 Score: 60
Period size: 11 Copynumber: 7.6 Consensus size: 11
65427679 TACATGATTG
65427689 ATATGATATGC
1 ATATGATATGC
*
65427700 ACATGATATG-
1 ATATGATATGC
*
65427710 -TATAATATGC
1 ATATGATATGC
65427720 ATATGATATG-
1 ATATGATATGC
65427730 -TATGATATGC
1 ATATGATATGC
* * *
65427740 ACATAAAATG-
1 ATATGATATGC
65427750 -TATGATATGC
1 ATATGATATGC
*
65427760 ACATGAT
1 ATATGAT
65427767 GTATTCATAA
Statistics
Matches: 50, Mismatches: 11, Indels: 12
0.68 0.15 0.16
Matches are distributed among these distances:
9 22 0.44
11 28 0.56
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.35
Consensus pattern (11 bp):
ATATGATATGC
Found at i:65427725 original size:31 final size:31
Alignment explanation
Indices: 65427687--65427766 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
65427677 TATACATGAT
* *
65427687 TGATATGATATGCACATGATATG-TATAATA
1 TGATATGATATGCACATGATATGACATAAAA
*
65427717 TGCATATGATATG--TATGATATGCACATAAAA
1 TG-ATATGATATGCACATGATATG-ACATAAAA
65427748 TG-TATGATATGCACATGAT
1 TGATATGATATGCACATGAT
65427767 GTATTCATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
29 17 0.41
30 2 0.05
31 22 0.54
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (31 bp):
TGATATGATATGCACATGATATGACATAAAA
Found at i:65427842 original size:25 final size:25
Alignment explanation
Indices: 65427814--65427908 Score: 95
Period size: 26 Copynumber: 3.8 Consensus size: 25
65427804 AGGAAGTGTA
*
65427814 AAAAGGG-TTATGCCCCAGTTTACCG
1 AAAAGGGATT-TGCCCCAGTTTATCG
* **
65427839 AAAAGGGCTTCTGCCCCAGTTTATTA
1 AAAAGGGATT-TGCCCCAGTTTATCG
** *
65427865 AAAAGGCTTTTGCCCTAGTTTATCG
1 AAAAGGGATTTGCCCCAGTTTATCG
65427890 -AAAGGGATTTGCCCCAGTT
1 AAAAGGGATTTGCCCCAGTT
65427909 ATTAAAAGAG
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
24 16 0.28
25 19 0.33
26 22 0.39
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
AAAAGGGATTTGCCCCAGTTTATCG
Found at i:65427892 original size:51 final size:48
Alignment explanation
Indices: 65427812--65427921 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 48
65427802 AGAGGAAGTG
* *
65427812 TAAAAAGGGTTATGCCCCAGTTTACCGAAAAGGGCTTCTGCCCCAGTTTAT
1 TAAAAAGGCTTATGCCCCAGTTTACCG-AAAGGGATT-TGCCCCAG-TTAT
* * *
65427863 TAAAAAGGCTTTTGCCCTAGTTTATCGAAAGGGATTTGCCCCAGTTAT
1 TAAAAAGGCTTATGCCCCAGTTTACCGAAAGGGATTTGCCCCAGTTAT
65427911 TAAAAGAGGCT
1 TAAAA-AGGCT
65427922 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
48 9 0.17
49 13 0.25
50 8 0.15
51 23 0.43
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (48 bp):
TAAAAAGGCTTATGCCCCAGTTTACCGAAAGGGATTTGCCCCAGTTAT
Found at i:65428178 original size:30 final size:31
Alignment explanation
Indices: 65428130--65428223 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
65428120 CGTTTACAGT
65428130 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
65428161 AAAGGCTTTGG-CCAGTGTTATGAAATATGA
1 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
65428191 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
65428222 AA
1 AA
65428224 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
30 30 0.48
31 32 0.52
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGTTATGAAATATGA
Found at i:65435870 original size:20 final size:20
Alignment explanation
Indices: 65435845--65435891 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
65435835 GTTTTGATAT
65435845 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
65435865 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
65435885 ACATGAT
1 ACATGAT
65435892 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65435996 original size:24 final size:24
Alignment explanation
Indices: 65435964--65436040 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 24
65435954 CACTTTACCG
*
65435964 AAAAGGGCTTTTGCCTAGTTTATT
1 AAAAGGGCTTTTGCCAAGTTTATT
* *
65435988 AAAAGGGCTTTTTTCCAAGTTTATG
1 AAAAGGGC-TTTTGCCAAGTTTATT
* *
65436013 GAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTG-CCAAGTTTATT
65436036 AAAAG
1 AAAAG
65436041 AGGGTAGGTC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
23 11 0.26
24 12 0.28
25 20 0.47
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (24 bp):
AAAAGGGCTTTTGCCAAGTTTATT
Found at i:65436000 original size:25 final size:25
Alignment explanation
Indices: 65435963--65436023 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
65435953 CCACTTTACC
*
65435963 GAAAAGGGC-TTTTGCCTAGTTTAT
1 GAAAAGGGCTTTTTGCCAAGTTTAT
* *
65435987 TAAAAGGGCTTTTTTCCAAGTTTAT
1 GAAAAGGGCTTTTTGCCAAGTTTAT
*
65436012 GGAAAGGGCTTT
1 GAAAAGGGCTTT
65436024 GCCCCAGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 8 0.26
25 23 0.74
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (25 bp):
GAAAAGGGCTTTTTGCCAAGTTTAT
Found at i:65436297 original size:31 final size:31
Alignment explanation
Indices: 65436254--65436317 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
65436244 CGTTTACAGT
65436254 AAAGGCTTCGGCCAAATGTTATGAAATATGA
1 AAAGGCTTCGGCCAAATGTTATGAAATATGA
* * *
65436285 AAAGTCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCAAATGTTATGAAATATGA
65436316 AA
1 AA
65436318 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCAAATGTTATGAAATATGA
Found at i:65437887 original size:40 final size:40
Alignment explanation
Indices: 65437801--65437876 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
65437791 TATATATATA
65437801 TAGCCGAAGCTATCACAAAACGCACACAATGTGCCACATT
1 TAGCCGAAGCTATCACAAAACGCACACAATGTGCCACATT
*
65437841 TAGCCGAAGCTATTC-CAAATCGCACACTAA-GTGCCA
1 TAGCCGAAGCTA-TCACAAAACGCACAC-AATGTGCCA
65437877 TTATTAGCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.18
Consensus pattern (40 bp):
TAGCCGAAGCTATCACAAAACGCACACAATGTGCCACATT
Found at i:65440254 original size:24 final size:24
Alignment explanation
Indices: 65440203--65440370 Score: 266
Period size: 24 Copynumber: 7.0 Consensus size: 24
65440193 GCTTTATCAT
*
65440203 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
65440228 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
65440252 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
65440276 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65440300 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65440324 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65440348 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
65440371 GCACTTCCAC
Statistics
Matches: 133, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
24 121 0.91
25 12 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:65440448 original size:20 final size:20
Alignment explanation
Indices: 65440420--65440486 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
65440410 TTATGAATAC
*
65440420 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
65440440 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* * *
65440460 GTCATGTACATATAATACAT
1 ATCATGTGCATATCATACAT
*
65440480 ACCATGT
1 ATCATGT
65440487 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:65440551 original size:25 final size:25
Alignment explanation
Indices: 65440523--65440570 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65440513 ACATATAAAC
* * *
65440523 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
65440548 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
65440571 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:65451166 original size:42 final size:43
Alignment explanation
Indices: 65451062--65451218 Score: 133
Period size: 42 Copynumber: 3.7 Consensus size: 43
65451052 TAAATTATCG
** * *
65451062 TATAAGACTGTGTCTGGGACA-CTGGCATCGAT-TTGAAATTTACG
1 TATAAGACCATGTCTGGGACATC-GGCATCGATACTG-AA-TTACA
* * * *
65451106 TGTAAGACCATGTTTGGGACATCGGCATCG-TATCTG-TTTTCA
1 TATAAGACCATGTCTGGGACATCGGCATCGATA-CTGAATTACA
**
65451148 TATAAGACCATGTCTGGGACAGAGGCATCGATACTGAATTACA
1 TATAAGACCATGTCTGGGACATCGGCATCGATACTGAATTACA
* * *
65451191 TGTAAGACCACGTCTGGGACGTCGGCAT
1 TATAAGACCATGTCTGGGACATCGGCAT
65451219 TGTACTTGTC
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 32 0.36
43 30 0.34
44 24 0.27
45 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
TATAAGACCATGTCTGGGACATCGGCATCGATACTGAATTACA
Found at i:65451963 original size:206 final size:206
Alignment explanation
Indices: 65451609--65451989 Score: 708
Period size: 206 Copynumber: 1.8 Consensus size: 206
65451599 TTATCATCAC
*
65451609 ACCATTAAACTCTTTTTGGTACTTTAAAAAATGTACATAATTATTTATGACATGTATAAGCTAGA
1 ACCATTAAACTCTTTTTGGTACTTTAAAAAATGTACATAATTATGTATGACATGTATAAGCTAGA
*
65451674 ATGAATTAGTTGATATGTATGTGCAAGTTATGCTATTTGAATTGGCTAGCAAATGATATATTTGT
66 ATGAATTAGTTGATATGTATGTGCAAGTTATGCTATTTGAATTGGCTAGCAAATGATATATTTAT
65451739 GTATTGTTTTGGTGTATGTCTTAAAATGCTATGTTCTAATGTGTTTTGGTCATATTTGAGAAATG
131 GTATTGTTTTGGTGTATGTCTTAAAATGCTATGTTCTAATGTGTTTTGGTCATATTTGAGAAATG
65451804 AATTGGTTGGA
196 AATTGGTTGGA
* **
65451815 ACCATTAAACTCTTTTTGGTACTTTAAAAAATGTACATAATTATGTATGGCATGTATAAGCTTTA
1 ACCATTAAACTCTTTTTGGTACTTTAAAAAATGTACATAATTATGTATGACATGTATAAGCTAGA
65451880 ATGAATTAGTTGATATGTATGTGCAAGTTATGCTATTTGAATTGGCTAGCAAATGATATATTTAT
66 ATGAATTAGTTGATATGTATGTGCAAGTTATGCTATTTGAATTGGCTAGCAAATGATATATTTAT
*
65451945 GTATTGTTTTGGTGTATGTCTTAAAATGTTATGTTCTAATGTGTT
131 GTATTGTTTTGGTGTATGTCTTAAAATGCTATGTTCTAATGTGTT
65451990 GGTATACTTG
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
206 169 1.00
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (206 bp):
ACCATTAAACTCTTTTTGGTACTTTAAAAAATGTACATAATTATGTATGACATGTATAAGCTAGA
ATGAATTAGTTGATATGTATGTGCAAGTTATGCTATTTGAATTGGCTAGCAAATGATATATTTAT
GTATTGTTTTGGTGTATGTCTTAAAATGCTATGTTCTAATGTGTTTTGGTCATATTTGAGAAATG
AATTGGTTGGA
Found at i:65454772 original size:42 final size:42
Alignment explanation
Indices: 65454651--65454870 Score: 154
Period size: 42 Copynumber: 5.1 Consensus size: 42
65454641 GTCCAACTAT
* * * * *
65454651 GGTCTTACACGAAGTCTCACATCGATGGCATTTCCCAGACAT
1 GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAC
* * **
65454693 GGTCTTATACGAAATCACATATCGATGCCGCATCCCAGACAC
1 GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAC
* * * * * *
65454735 GGTCTTACACGAAATCTCATACCGAAGTCATACCCCAGATAT
1 GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAC
* * * *
65454777 AGTCTTACAC-ATAATCCCATATCGATGACGATGCCATATCCCAGATAT
1 GGTCTTACACGA-AATCTC--AT--AT--CGATGCCATATCCCAGACAC
* ** * *
65454825 GGTTTTACACGGGATCTCATATCGATGCCATGTCCCAGACAT
1 GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAC
65454867 GGTC
1 GGTC
65454871 AATGCCATAG
Statistics
Matches: 137, Mismatches: 33, Indels: 16
0.74 0.18 0.09
Matches are distributed among these distances:
41 1 0.01
42 100 0.73
44 4 0.03
46 3 0.02
48 29 0.21
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAATCTCATATCGATGCCATATCCCAGACAC
Found at i:65457164 original size:40 final size:40
Alignment explanation
Indices: 65457115--65457207 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
65457105 ACATATATAT
*
65457115 ATATGTAGCCGATGCTATCACAAA-TCGCACACCAAGTGCC
1 ATATTTAGCCGATGCTATCACAAACT-GCACACCAAGTGCC
* ** *
65457155 ATATTTAGCCGAAGCTATTTCAAACTGCACACTAAGTGCC
1 ATATTTAGCCGATGCTATCACAAACTGCACACCAAGTGCC
65457195 AT-TCTTAGCCGAT
1 ATAT-TTAGCCGAT
65457208 ATGTCGTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.02
40 43 0.96
41 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (40 bp):
ATATTTAGCCGATGCTATCACAAACTGCACACCAAGTGCC
Found at i:65459403 original size:40 final size:40
Alignment explanation
Indices: 65459358--65459525 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
65459348 CGGAATATAA
65459358 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
65459398 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65459438 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
65459478 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
65459518 CCGGATAT
1 CCGGATAT
65459526 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65459508 original size:80 final size:80
Alignment explanation
Indices: 65459374--65459523 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
65459364 ATAACCACGT
* *
65459374 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
65459439 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
65459454 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
65459517 CCCGGAT
64 CCCGGAT
65459524 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:65467405 original size:40 final size:40
Alignment explanation
Indices: 65467360--65467526 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
65467350 CGGAATATAA
65467360 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
65467400 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
65467440 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
65467480 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
65467519 CCGGATAT
1 CCGGATAT
65467527 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 88 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65467510 original size:80 final size:79
Alignment explanation
Indices: 65467376--65467524 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
65467366 ATAACCACGT
*
65467376 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
65467441 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
65467456 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
65467519 CCGGAT
64 CCGGAT
65467525 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:65470935 original size:25 final size:25
Alignment explanation
Indices: 65470903--65471030 Score: 105
Period size: 25 Copynumber: 4.9 Consensus size: 25
65470893 TATCAAAACT
65470903 AGAATCAGAATTAGAATCAGGTGACAGAATC
1 AGAATCAGAATTAGAATCAGGT----G-A-C
*
65470934 AGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATTAGAATCAGGTGAC
* *
65470959 AGAATCAGAA-TCGATATCAGGTAAC
1 AGAATCAGAATTAGA-ATCAGGTGAC
* * *
65470984 AGAATCAGAATCAGAATTAGGTTAC
1 AGAATCAGAATTAGAATCAGGTGAC
* * *
65471009 AGAATTAGAATCAGTATCAGGT
1 AGAATCAGAATTAGAATCAGGT
65471031 AATAGAATAA
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.04
25 56 0.67
26 3 0.04
27 1 0.01
31 21 0.25
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.23
Consensus pattern (25 bp):
AGAATCAGAATTAGAATCAGGTGAC
Found at i:65470939 original size:31 final size:31
Alignment explanation
Indices: 65470903--65471003 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
65470893 TATCAAAACT
65470903 AGAATCAGAATTAGAATCAGGTGACAGAATC
1 AGAATCAGAATTAGAATCAGGTGACAGAATC
*
65470934 AGAATCAGAATTAGAATTAGGTGACAGAATC
1 AGAATCAGAATTAGAATCAGGTGACAGAATC
*
65470965 AGAATC-G-A-T---ATCAGGTAACAGAATC
1 AGAATCAGAATTAGAATCAGGTGACAGAATC
65470990 AGAATCAGAATTAG
1 AGAATCAGAATTAG
65471004 GTTACAGAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
25 20 0.32
26 1 0.02
27 1 0.02
28 2 0.03
29 1 0.02
30 1 0.02
31 36 0.58
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATTAGAATCAGGTGACAGAATC
Found at i:65471027 original size:50 final size:50
Alignment explanation
Indices: 65470908--65471050 Score: 168
Period size: 50 Copynumber: 2.9 Consensus size: 50
65470898 AAACTAGAAT
*
65470908 CAGAATTAGAATCAGGTGA-CA-G-AATCAGAATCAGAATTAGAATTAGGTGA
1 CAGAATTAGAATCA-GT-ATCAGGTAA-CAGAATCAGAATCAGAATTAGGTGA
* *
65470958 CAGAATCAGAATC-GATATCAGGTAACAGAATCAGAATCAGAATTAGGTTA
1 CAGAATTAGAATCAG-TATCAGGTAACAGAATCAGAATCAGAATTAGGTGA
* * *
65471008 CAGAATTAGAATCAGTATCAGGTAATAGAATAAGAACCAGAAT
1 CAGAATTAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
65471051 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
48 2 0.02
49 3 0.04
50 73 0.90
51 3 0.04
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (50 bp):
CAGAATTAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATTAGGTGA
Found at i:65471037 original size:25 final size:25
Alignment explanation
Indices: 65470933--65471043 Score: 116
Period size: 25 Copynumber: 4.4 Consensus size: 25
65470923 GTGACAGAAT
* * * *
65470933 CAGAATCAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAGTATCAGGTAA
65470958 CAGAATCAGAATC-GATATCAGGTAA
1 CAGAATCAGAATCAG-TATCAGGTAA
* * *
65470983 CAGAATCAGAATCAGAATTAGGTTA
1 CAGAATCAGAATCAGTATCAGGTAA
*
65471008 CAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAA
* *
65471033 TAGAATAAGAA
1 CAGAATCAGAA
65471044 CCAGAATGTG
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
24 1 0.01
25 69 0.97
26 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.23
Consensus pattern (25 bp):
CAGAATCAGAATCAGTATCAGGTAA
Found at i:65472757 original size:36 final size:36
Alignment explanation
Indices: 65472710--65472795 Score: 138
Period size: 36 Copynumber: 2.3 Consensus size: 36
65472700 TACGAAGTCT
65472710 TACCCGGACATAATCTCCACACGTAGTCATC-GGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65472745 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65472782 TCACCCGGAACATA
1 T-ACCCGG-ACATA
65472796 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
36 32 0.68
37 10 0.21
38 5 0.11
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:65472933 original size:49 final size:49
Alignment explanation
Indices: 65472864--65473449 Score: 376
Period size: 49 Copynumber: 11.4 Consensus size: 49
65472854 TTTACCACAT
*
65472864 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
65472913 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
65472962 ATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
65473011 ATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * * *
65473060 ATATACATATACTTTCGCATTCACCACATCGGCCTAATATACTTTCGCATTCACCAC
1 ATATACATACACTTTCACATTCATCACATCGGCC--AT-TA----GGCCTT-ATCAC
*** * * * * * *
65473117 ATCGGCCATTAGGC-CTTATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGC-
1 AT-ATACA-TA--CACTT-TCACAT-T-CAT-CAC-ATCG-----GCCA-TTAGGCC-TTA-TCA
65473180 C
49 C
* * * * * ** *
65473181 TTATCACATATAC-AT-ACATT-TTCGCATTCATCGCA-TCGGCCATTAGGCCTCATCAC
1 ATAT-ACATACACTTTCACATTCATCACA-TCGGC-CATTAGGCC--T-----T-ATCAC
* *
65473237 ATATATATACA-TTTCGCATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * * *
65473285 ATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
65473334 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
65473383 ATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
65473432 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
65473450 GAATCTTGAT
Statistics
Matches: 435, Mismatches: 60, Indels: 84
0.75 0.10 0.15
Matches are distributed among these distances:
48 15 0.03
49 323 0.74
50 2 0.00
51 4 0.01
52 2 0.00
54 1 0.00
55 13 0.03
56 22 0.05
57 10 0.02
58 3 0.01
59 6 0.01
60 4 0.01
61 5 0.01
62 2 0.00
63 4 0.01
64 9 0.02
65 6 0.01
68 2 0.00
70 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:65473010 original size:98 final size:98
Alignment explanation
Indices: 65472844--65473449 Score: 509
Period size: 98 Copynumber: 5.9 Consensus size: 98
65472834 ATTCACATTA
* * * * * *
65472844 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATACATAT--ACTTTCGCATTCATCACATCGGCCATTAGGCCTCA
65472909 TCACATATACATACACTTTCACATTCACCACATCG
64 TCACATATACATACACTTTCACATTCACCACATCG
* *
65472944 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
65473009 ACATATACATATACTTTCGCATTCACCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* *
65473042 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAATATACTTTCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCC--AT-TA----GG
* * *** *
65473107 CATTCACCACATCGGCCATTAGGC-CTTATCACATATACATATACTTTCGCATTC-
59 C-CTCATCACAT-ATACA-TA--CACTT-TCACAT-T-C----AC---CACA-TCG
* * * * * *
65473161 ACCACATCGGCCATTAGGC-CTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATT
1 GCCA-TTAGGCC-TTA-TCACATAT-AC--AT--ATAC--TTTCGCATTCATCACATCGGCCATT
* * *
65473225 AGGCCTCATCACATATATATACA-TTTCGCATTCATCACATCG
56 AGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
65473267 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* * *
65473332 ACATATATATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* * * *
65473365 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
65473430 ACATATATATACATTTTCAC
66 ACATATACATACACTTTCAC
65473450 GAATCTTGAT
Statistics
Matches: 421, Mismatches: 48, Indels: 76
0.77 0.09 0.14
Matches are distributed among these distances:
97 47 0.11
98 217 0.52
99 2 0.00
100 25 0.06
101 4 0.01
103 3 0.01
104 7 0.02
105 9 0.02
106 14 0.03
107 2 0.00
108 2 0.00
109 4 0.01
110 5 0.01
111 1 0.00
112 1 0.00
113 1 0.00
114 1 0.00
115 5 0.01
116 5 0.01
118 2 0.00
119 7 0.02
120 15 0.04
121 9 0.02
122 3 0.01
124 2 0.00
125 2 0.00
126 6 0.01
128 20 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCG
Done.