Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 294 of 335
Found at i:88073871 original size:90 final size:88
Alignment explanation
Indices: 88073719--88073892 Score: 246
Period size: 90 Copynumber: 2.0 Consensus size: 88
88073709 TTTGACAACA
* *
88073719 GAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTCGA-TTTT
1 GAAATTGAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACTGCTCGCAATATGAGTCGATTTTT
88073783 TTGA-AAGGCAGAAATTGAAAAACG
66 TTGACAA--CAGAAATTGAAAAACG
* *
88073807 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCA-TCGCTCGCAATATGAGTTGATT
1 GAAATTGAAAATACCTCGGCGTGT--CCTGAGGCTCAACTCACT-GCTCGCAATATGAGTCGATT
88073871 TTTTTGACAACAGAAATTGAAA
63 TTTTTGACAACAGAAATTGAAA
88073893 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
88 23 0.30
89 1 0.01
90 43 0.56
91 8 0.10
92 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (88 bp):
GAAATTGAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACTGCTCGCAATATGAGTCGATTTTT
TTGACAACAGAAATTGAAAAACG
Found at i:88073937 original size:74 final size:75
Alignment explanation
Indices: 88073807--88073949 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 75
88073797 TTGAAAAACG
* * *
88073807 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCATCGCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATATGAGTTGATTT
88073872 TTTTGACAACA
65 TTTTGACAACA
* * * *
88073883 GAAATTGAAATTACCTCAGCGTGT-CTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATATGAGTTGATTTT
88073947 TTT
66 TTT
88073950 TTGAAAGACA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 38 0.63
76 22 0.37
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATATGAGTTGATTTT
TTTGACAACA
Found at i:88073949 original size:76 final size:76
Alignment explanation
Indices: 88073797--88073970 Score: 208
Period size: 76 Copynumber: 2.3 Consensus size: 76
88073787 AAGGCAGAAA
* * * * *
88073797 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCATCGCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATAT
88073862 GAGTTGATTTTT
65 GAGTTGATTTTT
* * * * *
88073874 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CTTGAGGCTCAACTCACCTCTTGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATATG
88073937 AGTTGATTTTTTT
66 AGTTGA--TTTTT
*
88073950 TTGAAAGACAGAAATTAAAAA
1 TTGAAAGACAGAAATTGAAAA
88073971 ACGGAAATTG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
74 31 0.38
76 34 0.41
77 17 0.21
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (76 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATATG
AGTTGATTTTT
Found at i:88074052 original size:167 final size:165
Alignment explanation
Indices: 88073582--88074089 Score: 847
Period size: 164 Copynumber: 3.1 Consensus size: 165
88073572 ACGTGAGCCA
88073582 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAA
* *
88073647 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTT
66 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCGCCGCTCGCAATATGAGTTGATTTTTTT
* *
88073712 GACAACAGAAATTGAAATTACCTCGGCGTGTCCTG
131 GACAACAGAAATTGAAATTACCTCAGCGTGTCTTG
*
88073747 AGGCTCAACTCACTTCTCGCAATATGAGTCGA-TTTTTTGAAAGGCAGAAATTGAAAAACGGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAA
**
88073811 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCATCGCTCGCAATATGAGTTGATTTTTTT
66 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCGCCGCTCGCAATATGAGTTGATTTTTTT
88073876 GACAACAGAAATTGAAATTACCTCAGCGTGTCTTG
131 GACAACAGAAATTGAAATTACCTCAGCGTGTCTTG
* * * *
88073911 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTAAAAAACGGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGA--TTTTTTTGAAAGGCAGAAATTGAAAAACGGA
* *
88073976 AATTGAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCGCCGCTTGCAATACGAGTTGATTTTT
64 AATTGAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCGCCGCTCGCAATATGAGTTGATTTTT
**
88074041 TTTTCAACAGAAATTGAAATTACCTCAGCGTGTCTTG
129 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTG
*
88074078 AGGCTTAACTCA
1 AGGCTCAACTCA
88074090 TTTTGAACAG
Statistics
Matches: 321, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
164 155 0.48
165 31 0.10
167 135 0.42
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (165 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAA
TTGAAAATACCTCGGCGTGTGACCTGAGGCTCGACTCGCCGCTCGCAATATGAGTTGATTTTTTT
GACAACAGAAATTGAAATTACCTCAGCGTGTCTTG
Found at i:88074112 original size:49 final size:49
Alignment explanation
Indices: 88074041--88074141 Score: 175
Period size: 49 Copynumber: 2.1 Consensus size: 49
88074031 GTTGATTTTT
* *
88074041 TTTTCAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTTAACTCA
1 TTTTCAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
*
88074090 TTTTGAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
1 TTTTCAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
88074139 TTT
1 TTT
88074142 CTCGCAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (49 bp):
TTTTCAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
Found at i:88074179 original size:72 final size:72
Alignment explanation
Indices: 88074095--88074235 Score: 273
Period size: 72 Copynumber: 2.0 Consensus size: 72
88074085 ACTCATTTTG
88074095 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
88074160 TTTTGAA
66 TTTTGAA
*
88074167 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
88074232 TTTT
66 TTTT
88074236 TTTTTTGAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:88074306 original size:81 final size:76
Alignment explanation
Indices: 88074095--88074315 Score: 240
Period size: 72 Copynumber: 2.9 Consensus size: 76
88074085 ACTCATTTTG
* * *
88074095 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
88074160 ----TTTTGAA
66 TTTTTTTTGAA
* * * *
88074167 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
88074232 TTTTTTTTTTGAA
66 --TTTTTTTTGAA
* *
88074245 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTC-TCCTCTCGCAATATGAG
1 A-ACAGAAATTGAAAATACCTCA--ACGTG-ACTCGAGGCTCAACTCAT-TTCTCGCAATATGAG
*
88074308 CTG-ATTTT
61 TTGAATTTT
88074316 GAAAAAGTAG
Statistics
Matches: 130, Mismatches: 8, Indels: 16
0.84 0.05 0.10
Matches are distributed among these distances:
72 64 0.49
78 12 0.09
79 20 0.15
80 2 0.02
81 31 0.24
82 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (76 bp):
AACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTTTTTGAA
Found at i:88074450 original size:140 final size:140
Alignment explanation
Indices: 88074240--88075977 Score: 1762
Period size: 140 Copynumber: 12.6 Consensus size: 140
88074230 AATTTTTTTT
*
88074240 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCTCCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
*
88074304 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTTAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
88074369 TTGAACAACATAAA
127 TTGAACAACGTAAA
* *
88074383 TTGAAAACAGAATTTGAAAATACCTCAGCGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
**
88074448 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCATTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
88074513 ACAACGTAAA
131 ACAACGTAAA
* * *
88074523 TTGAAAACTGAAATTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
88074588 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
88074653 ACAACGTAAA
131 ACAACGTAAA
* *
88074663 TTGAAAACAGAAATAGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
88074728 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
88074793 ACAACGTAAA
131 ACAACGTAAA
*
88074803 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
88074868 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
88074933 ACAACGTAAA
131 ACAACGTAAA
88074943 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
88075008 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATT-TT--
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
88075070 ------T---
131 ACAACGTAAA
* * * *
88075071 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * ** * ** * *** * ** *
88075136 TTGATTTTTTTGAAAAA-CAGAAATTGAAAA--TACCTCAGCATGTCTTG-AGGCTCAACTCATT
66 CTGA---TTTTGAAAAAGTAGAAATT-AAAAGGTTCAAC-CCACCTCTCGCAATATGAGTTGA-T
* **
88075197 TCTCAT-AATATGA-GTTGATTTTTTT
125 TCT--TGAACA--ACG-T-A-----AA
* * * * * **
88075222 TTGAAAAACAGAAATTGAAAATTCCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
88075287 GTTGAATTTTG-AAAA-CAGAAATTGAAA--TT--ACCTCAGC-GT-GTC--T-TGAG--G---C
65 GCTG-ATTTTGAAAAAGTAGAAATTAAAAGGTTCAACC-CACCTCTCG-CAATATGAGTTGATTC
* *** *
88075336 -TCAACTCATTTTGAA
127 TTGAA--CAACGTAAA
* * * * * **
88075351 ---C----AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * * * *
88075409 TTGAATTTTGAAAACAGAAATTGAAATTATCTCAACGTGTCTTGAGGCTCAACTCACATCTCACA
66 CTG-ATTTTGAAAA-AG---TAGAAATTA----AAAG-G--TTCA-AC-CCAC-CTC-TCGCA-A
* **** ***
88075474 -AT--G-TGA--GTTGAA-TTTTTTTT
114 TATGAGTTGATTCTTGAACAACGTAAA
*
88075494 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
*
88075558 TGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
88075623 TTGAACAACATAAA
127 TTGAACAACGTAAA
*
88075637 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
88075702 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
88075767 ACAAC----A
131 ACAACGTAAA
* *
88075773 -T--------AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTTTCACAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
88075829 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACACACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
88075894 ACAACGTAAA
131 ACAACGTAAA
88075904 TTGAAAACAGAAATTGAAAATACCTCAGC--G---TGA-GCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
88075963 TTAATTTTGAAAAAG
66 CTGATTTTGAAAAAG
88075978 AAATTGAAAT
Statistics
Matches: 1373, Mismatches: 123, Indels: 207
0.81 0.07 0.12
Matches are distributed among these distances:
121 62 0.05
122 3 0.00
123 1 0.00
127 128 0.09
128 64 0.05
129 8 0.01
130 15 0.01
131 19 0.01
132 1 0.00
133 1 0.00
134 38 0.03
135 7 0.01
136 4 0.00
137 8 0.01
138 3 0.00
139 14 0.01
140 755 0.55
141 3 0.00
142 52 0.04
143 21 0.02
144 5 0.00
145 2 0.00
146 6 0.00
148 12 0.01
149 12 0.01
150 5 0.00
151 23 0.02
152 68 0.05
153 32 0.02
154 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:88074664 original size:54 final size:54
Alignment explanation
Indices: 88074564--88074669 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 54
88074554 GACCTGAGGC
*
88074564 TCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTAGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * * *
88074618 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTAGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
88074670 CAGAAATAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
54 31 0.70
55 9 0.20
56 4 0.09
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTAGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:88074804 original size:54 final size:54
Alignment explanation
Indices: 88074704--88074809 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
88074694 GACCTGAGGC
*
88074704 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
88074758 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
88074810 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:88074944 original size:54 final size:54
Alignment explanation
Indices: 88074844--88074949 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
88074834 GACCTGAGGC
* *
88074844 TCAACTCACTTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
88074898 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
88074950 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:88075255 original size:77 final size:74
Alignment explanation
Indices: 88075048--88075346 Score: 442
Period size: 77 Copynumber: 4.0 Consensus size: 74
88075038 TCAACCCACC
* *
88075048 TCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCT
1 TCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGCT
**
88075113 CAACTCACC
66 CAACTCATT
*
88075122 TCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGC
1 TCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGC
88075187 TCAACTCATT
65 TCAACTCATT
**
88075197 TCTCATAATATGAGTTGATTTTTTTTTGAAAAACAGAAATTGAAAATT-CCTCAGCATGTCTTGA
1 TCTCGCAATATGAGTTGA--TTTTTTTG-AAAACAGAAATTG-AAATTACCTCAGCATGTCTTGA
*
88075261 GGCTCAACTAATT
62 GGCTCAACTCATT
* *
88075274 TCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCT
1 TCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGCT
88075337 CAACTCATT
66 CAACTCATT
88075346 T
1 T
88075347 TGAACAGAAA
Statistics
Matches: 206, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
71 5 0.02
72 41 0.20
73 5 0.02
74 26 0.13
75 59 0.29
77 66 0.32
78 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (74 bp):
TCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGCT
CAACTCATT
Found at i:88075337 original size:149 final size:148
Alignment explanation
Indices: 88075054--88075346 Score: 448
Period size: 149 Copynumber: 2.0 Consensus size: 148
88075044 CACCTCTCGC
* * *
88075054 AATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTC
1 AATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTA
*
88075119 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGA
66 ACCTCTCGCAATATGAGTTGA-TATTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGA
88075184 GGCTCAACTCATTTCTCAT
130 GGCTCAACTCATTTCTCAT
88075203 AATATGAGTTGATTTTTTTTTGAAAAACAGAAATTGAAAATT-CCTCAGCATGTCTTGAGGCTCA
1 AATATGAGTTGA--TTTTTTTG-AAAACAGAAATTG-AAATTACCTCAGCATGTCTTGAGGCTCA
** * *
88075267 ACTAATTTCTCGCAATATGAGTTGA-ATTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCT
62 ACTAACCTCTCGCAATATGAGTTGATATTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCT
88075330 TGAGGCTCAACTCATTT
127 TGAGGCTCAACTCATTT
88075347 TGAACAGAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
149 59 0.45
150 5 0.04
151 8 0.06
152 55 0.42
153 5 0.04
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (148 bp):
AATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTA
ACCTCTCGCAATATGAGTTGATATTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAG
GCTCAACTCATTTCTCAT
Found at i:88075366 original size:49 final size:49
Alignment explanation
Indices: 88075300--88075395 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
88075290 GAATTTTGAA
*
88075300 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
88075349 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
88075396 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:88075381 original size:121 final size:121
Alignment explanation
Indices: 88075228--88075464 Score: 413
Period size: 121 Copynumber: 2.0 Consensus size: 121
88075218 TTTTTTGAAA
*
88075228 AACAGAAATTGAAAATTCCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATTCCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
*
88075293 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* *
88075349 AACAGAAATTG-AAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAATT-CCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGA
*
88075413 ATTTTGAAAACAGAAATTGAAATTATCTCAACGTGTCTTGAGGCTCAACTCA
65 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
88075465 CATCTCACAA
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
120 5 0.05
121 105 0.95
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (121 bp):
AACAGAAATTGAAAATTCCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:88075429 original size:72 final size:72
Alignment explanation
Indices: 88075349--88075489 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 72
88075339 ACTCATTTTG
** *
88075349 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACATCTCACAATATGAGTTGAA
88075414 TTTTGAA
66 TTTTGAA
* *
88075421 AACAGAAATTGAAATTATCTCAACGTGTCTTGAGGCTCAACTCACATCTCACAATGTGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACATCTCACAATATGAGTTGAA
88075486 TTTT
66 TTTT
88075490 TTTTTTGAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACATCTCACAATATGAGTTGAA
TTTTGAA
Found at i:88075638 original size:54 final size:55
Alignment explanation
Indices: 88075538--88075643 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
88075528 GAACCGAGGC
* *
88075538 TCAACTCACCTCTCGCAATATGAGCTAATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTAATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * *
88075592 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTAATT-TTGAAAAAGCAGAAATTGAAAA
88075644 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTAATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:88075650 original size:13 final size:13
Alignment explanation
Indices: 88075623--88075656 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
88075613 GAGTTGATTC
*
88075623 TTGAACAACATAAA
1 TTGAA-AACAGAAA
88075637 TTGAAAACAGAAA
1 TTGAAAACAGAAA
88075650 TTGAAAA
1 TTGAAAA
88075657 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:88075778 original size:54 final size:55
Alignment explanation
Indices: 88075678--88075783 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
88075668 GACCTGAGGC
* * *
88075678 TCAACTCACCTTTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
88075732 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
88075784 TACCTCAGCG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:88075815 original size:127 final size:127
Alignment explanation
Indices: 88075637--88075910 Score: 496
Period size: 127 Copynumber: 2.2 Consensus size: 127
88075627 ACAACATAAA
* *
88075637 TTGAA-AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGAACAACATAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTTTCACAATATGA
*
88075701 GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
66 GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACACACCTCTCGCAATATGAGTTGATTC
88075763 TTGAACAACATAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTTTCACAATATGA
1 TTGAACAACATAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTTTCACAATATGA
*
88075828 GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACACACTTCTCGCAATATGAGTTGATTC
66 GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACACACCTCTCGCAATATGAGTTGATTC
*
88075890 TTGAACAACGTAAATTGAAAA
1 TTGAACAACATAAATTGAAAA
88075911 CAGAAATTGA
Statistics
Matches: 142, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 5 0.04
127 137 0.96
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (127 bp):
TTGAACAACATAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTTTCACAATATGA
GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACACACCTCTCGCAATATGAGTTGATTC
Found at i:88076023 original size:70 final size:64
Alignment explanation
Indices: 88075904--88076046 Score: 187
Period size: 70 Copynumber: 2.1 Consensus size: 64
88075894 ACAACGTAAA
*
88075904 TTGAAAACAGAAATTGAAAATACCTCAGCGTGAGCTCAACTCACCTCTCGCAATATGAGTTAATT
1 TTGAAAA-AGAAATTGAAAATACCTCAGCGTGAGCTCAACTCACCTCTCGCAATAAGAGTTAATT
* *
88075969 TTGAAAAAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATAAGAGT
1 TTGAAAAAGAAATTGAAAATACCTCAGC--GT---GA-GCTCAACTCACCTCTCGCAATAAGAGT
*
88076034 TGATT
60 TAATT
88076039 TTGAAAAA
1 TTGAAAAA
88076047 AAAAATTAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 2 0.03
69 2 0.03
70 37 0.54
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (64 bp):
TTGAAAAAGAAATTGAAAATACCTCAGCGTGAGCTCAACTCACCTCTCGCAATAAGAGTTAATT
Found at i:88076155 original size:121 final size:122
Alignment explanation
Indices: 88075941--88076178 Score: 363
Period size: 121 Copynumber: 2.0 Consensus size: 122
88075931 GCGTGAGCTC
* * * * *
88075941 AACTCACCTCTCGCAATATGAGTTAATTTTGAAAAAGAAATTGAAATTACCTCAGCGTGTCCCGA
1 AACTCACCTCTCGCAATATGAGTCAATTTTGAAAAAGAAACTAAAAATACCTCAGCGTGCCCCGA
*
88076006 GGCTCAACTCACCTCTCGTAATAAGAGTTGATTTTGAAAAAAAAAATTAAAAGGCTT
66 GGCTCAACTCACCTCTCGCAATAAGAGTTGATTTTGAAAAAAAAAATTAAAAGGCTT
*
88076063 AACTCACCTCTCGCAATATGAGTCAA-TTT-AAAACATAAACTAAAAATACCTCAGCGTGCCCCG
1 AACTCACCTCTCGCAATATGAGTCAATTTTGAAAA-AGAAACTAAAAATACCTCAGCGTGCCCCG
* * *
88076126 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAA
65 AGGCTCAACTCACCTCTCGCAATAAGAGTTGATTTTGAAAAAAAAAATTAAAA
88076179 ATACCTCAAC
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
120 4 0.04
121 76 0.72
122 25 0.24
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (122 bp):
AACTCACCTCTCGCAATATGAGTCAATTTTGAAAAAGAAACTAAAAATACCTCAGCGTGCCCCGA
GGCTCAACTCACCTCTCGCAATAAGAGTTGATTTTGAAAAAAAAAATTAAAAGGCTT
Found at i:88076200 original size:71 final size:70
Alignment explanation
Indices: 88076057--88076231 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
88076047 AAAAATTAAA
* * * * * *
88076057 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
88076121 CCCCG
66 CCCCG
*
88076126 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
88076191 GTCTTG
65 GCCCCG
*
88076197 AGGCTCAACTCA-TCTCTTGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
88076232 CCCTTGAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.07
71 60 0.65
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:88085176 original size:25 final size:25
Alignment explanation
Indices: 88085121--88085176 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
88085111 ATTTGTAATA
*
88085121 ATAATATATACACAATATGGTATTT
1 ATAATATATACACAATATGGTATAT
* * *
88085146 AAAATATATATATATATAT-GTATAT
1 ATAATATATACACA-ATATGGTATAT
88085171 ATAATA
1 ATAATA
88085177 GTATTTAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (25 bp):
ATAATATATACACAATATGGTATAT
Found at i:88085679 original size:25 final size:24
Alignment explanation
Indices: 88085643--88085747 Score: 114
Period size: 25 Copynumber: 4.5 Consensus size: 24
88085633 TAGGTGGCTA
88085643 GGGTTAGGTTTTTCTTTTTTTTTT
1 GGGTTAGGTTTTTCTTTTTTTTTT
* **
88085667 AGGTTAGG------TTTTTTTTGG
1 GGGTTAGGTTTTTCTTTTTTTTTT
88085685 GGGTTAGGTTTTTCTTTTTTTTTTT
1 GGGTTAGGTTTTTC-TTTTTTTTTT
88085710 GGGTTAGGTTTTTTCTTTTTTTTTT
1 GGGTTAGG-TTTTTCTTTTTTTTTT
*
88085735 TGGTTAGGTTTTT
1 GGGTTAGGTTTTT
88085748 TTGGGAGGGC
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
18 15 0.23
24 12 0.18
25 33 0.50
26 6 0.09
ACGTcount: A:0.06, C:0.03, G:0.24, T:0.68
Consensus pattern (24 bp):
GGGTTAGGTTTTTCTTTTTTTTTT
Found at i:88085692 original size:42 final size:43
Alignment explanation
Indices: 88085643--88085723 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
88085633 TAGGTGGCTA
88085643 GGGTTAGGTTTTTC-TTTTTTTTTTAGGTTAGGTTTTTTTTGG
1 GGGTTAGGTTTTTCTTTTTTTTTTTAGGTTAGGTTTTTTTTGG
*
88085685 GGGTTAGGTTTTTCTTTTTTTTTTTGGGTTAGGTTTTTT
1 GGGTTAGGTTTTTCTTTTTTTTTTTAGGTTAGGTTTTTT
88085724 CTTTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
42 14 0.38
43 23 0.62
ACGTcount: A:0.06, C:0.02, G:0.26, T:0.65
Consensus pattern (43 bp):
GGGTTAGGTTTTTCTTTTTTTTTTTAGGTTAGGTTTTTTTTGG
Found at i:88085723 original size:18 final size:18
Alignment explanation
Indices: 88085657--88085703 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
88085647 TAGGTTTTTC
88085657 TTTTTTTTTTAGGTTAGG
1 TTTTTTTTTTAGGTTAGG
***
88085675 TTTTTTTTGGGGGTTAGG
1 TTTTTTTTTTAGGTTAGG
88085693 TTTTTCTTTTT
1 TTTTT-TTTTT
88085704 TTTTTTGGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.06, C:0.02, G:0.23, T:0.68
Consensus pattern (18 bp):
TTTTTTTTTTAGGTTAGG
Found at i:88085749 original size:26 final size:26
Alignment explanation
Indices: 88085675--88085748 Score: 116
Period size: 25 Copynumber: 2.9 Consensus size: 26
88085665 TTAGGTTAGG
**
88085675 TTTTTTTTGGGGGTTAGG-TTTTTCT
1 TTTTTTTTTTGGGTTAGGTTTTTTCT
88085700 TTTTTTTTTTGGGTTAGGTTTTTTCT
1 TTTTTTTTTTGGGTTAGGTTTTTTCT
88085726 TTTTTTTTTT-GGTTAGGTTTTTT
1 TTTTTTTTTTGGGTTAGGTTTTTT
88085749 TGGGAGGGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 29 0.63
26 17 0.37
ACGTcount: A:0.04, C:0.03, G:0.22, T:0.72
Consensus pattern (26 bp):
TTTTTTTTTTGGGTTAGGTTTTTTCT
Found at i:88085770 original size:68 final size:66
Alignment explanation
Indices: 88085643--88085770 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 66
88085633 TAGGTGGCTA
* * ***
88085643 GGGTTAGGTTTTTCTTTTTTTTTTAGGTTAGGTTTTTTTTGGGGGTTAGGTTTTTCTTTTTTTTT
1 GGGTTAGGTTTTTCTTTTTTTTTTAGGTTAGGTTTTTTTGGGGGGTTA-GATGGGCTTTTTTTTT
88085708 TT
65 TT
*
88085710 GGGTTAGGTTTTTTCTTTTTTTTTTTGGTTAGGTTTTTTTGGGAGGGCTTA-ATGGGCTTTT
1 GGGTTAGG-TTTTTCTTTTTTTTTTAGGTTAGGTTTTTTTGGG-GGG-TTAGATGGGCTTTT
88085771 GAATTGAGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
67 8 0.15
68 38 0.73
69 3 0.06
70 3 0.06
ACGTcount: A:0.07, C:0.04, G:0.27, T:0.62
Consensus pattern (66 bp):
GGGTTAGGTTTTTCTTTTTTTTTTAGGTTAGGTTTTTTTGGGGGGTTAGATGGGCTTTTTTTTTT
T
Found at i:88090631 original size:79 final size:78
Alignment explanation
Indices: 88090546--88090713 Score: 205
Period size: 79 Copynumber: 2.1 Consensus size: 78
88090536 TTTTTTTATG
* *
88090546 ATAAAAAAAAGAGAATAT-AAAGTATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAA
1 ATAAAAAAAAGAGAATATGAAAGAATAGTTTTAATTAATAAT-AAAACAAAATAGTAT-GGGGAA
*
88090610 TGGTTTTAATTAATA
64 TAGTTTTAATTAATA
* * ** *
88090625 ATAAAAACAAA-ATAGTATGAGGGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGAGT
1 ATAAAAA-AAAGAGAATATGAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGAAT
88090689 AGTTTTAATTAATA
65 AGTTTTAATTAATA
* *
88090703 GTAAAACAAAG
1 ATAAAAAAAAG
88090714 TAGCATGGGG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
77 3 0.04
78 24 0.32
79 27 0.36
80 22 0.29
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.29
Consensus pattern (78 bp):
ATAAAAAAAAGAGAATATGAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGAATA
GTTTTAATTAATA
Found at i:88090701 original size:38 final size:39
Alignment explanation
Indices: 88090572--88090723 Score: 227
Period size: 40 Copynumber: 3.9 Consensus size: 39
88090562 ATAAAGTATG
*
88090572 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTAT-GGGGAATA
88090612 GTTTTAATTAATAATAAAAACAAAATAGTATGAGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATG-GGGAATA
*
88090652 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
* * *
88090690 GTTTTAATTAATAGT-AAAACAAAGTAGCATGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGG
88090724 GGAGTGGAAT
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
38 37 0.35
39 17 0.16
40 52 0.49
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
Found at i:88095082 original size:14 final size:14
Alignment explanation
Indices: 88095063--88095089 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88095053 AAGATATTCT
88095063 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
88095077 TTTTCTAAATAAA
1 TTTTCTAAATAAA
88095090 GTTGAACCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:88095226 original size:15 final size:15
Alignment explanation
Indices: 88095206--88095236 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
88095196 TTTACTTTCC
88095206 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
88095221 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
88095236 A
1 A
88095237 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:88100793 original size:29 final size:29
Alignment explanation
Indices: 88100629--88100792 Score: 256
Period size: 29 Copynumber: 5.7 Consensus size: 29
88100619 GCTTGGAAGG
88100629 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
88100658 TATGGCACTAACTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
88100687 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
88100716 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
88100745 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* *
88100774 CATGGCATTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
88100793 GATCGTTTAT
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 124 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:88112194 original size:205 final size:205
Alignment explanation
Indices: 88111814--88113009 Score: 1895
Period size: 205 Copynumber: 5.8 Consensus size: 205
88111804 TAGGCCGCAG
* *
88111814 CATAACAGATCTGGCCTTCAGATG-TTAT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTCGCCTTCAGATGATT-TCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
* * *
88111877 GTTTACAAGGAGCAAATTGAAGACATAGTTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
65 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
* *
88111942 TAAGATGACTTT-TCGTCTCTGTATTGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGAT
130 TAAGATGA-TTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
88112006 GGAGAGCAGACA
194 GGAGAGCAGACA
* *
88112018 CATAGAAGATCTCACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * *
88112083 TTTACAAAGAGCAAATTGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
*
88112148 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
131 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
88112213 AGAGCAGACA
196 AGAGCAGACA
88112223 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
88112288 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATC
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATC
*
88112352 TAAGATGATTTGTCGTCTCTGTATCGTTAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
130 TAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
88112417 GAGAGCAGACA
195 GAGAGCAGACA
* * *
88112428 CATAGCAGATCTCGCCTTCAAATGATTTCACTGAAGCAGATCCAAAATGGTTTGACATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
**
88112493 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAAAAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
* *
88112558 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATAG
131 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
88112623 AGAGCAGACA
196 AGAGCAGACA
88112633 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
88112698 TTTACAAGGAACAAATCGAAGACATAGCTAATTTGGCTTTCACGTGATTACGA-GAAAGCAAATC
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATC
* * * *
88112762 TAAGATAATTTGTCGTCTCTGTATCATCAGAGAACGAATTGAAGTTTGGCATCTTCACTTTAATG
130 TAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
88112827 GAGAGCAGACA
195 GAGAGCAGACA
* * * * *
88112838 CATAGCAGATCTCACCTTCGGATG-TTT-ATGCTGAAGCGGATCCAAGATGGTTTGGCATCATTT
1 CATAGCAGATCTCGCCTTCAGATGATTTCA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTG
* * * * * * *
88112901 TGCTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAAT
64 TGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAAT
* * * * *
88112965 CTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
129 CTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
88113010 AAATAGATTT
Statistics
Matches: 930, Mismatches: 53, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
203 1 0.00
204 100 0.11
205 829 0.89
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (205 bp):
CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
AGAGCAGACA
Found at i:88113225 original size:133 final size:133
Alignment explanation
Indices: 88113044--88113459 Score: 671
Period size: 133 Copynumber: 3.2 Consensus size: 133
88113034 AGACGGGGGG
* * *
88113044 CAGATCAAAGATAGCAGATATCG-CCTTCCTGAG-TTACAGTGAAGCAGATCGAAGATTTCAGCA
1 CAGATCAAAGATAGCAGATCT-GACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
88113107 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGAAGATTTGGCATCCCTGTGCTTATAG
65 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGAAGATTTGGCATCCCTGTGCTTATAG
88113172 GGAA
130 GGAA
* *
88113176 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCAT
1 CAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
88113241 GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACA-ACAGATTTGGCATCCCTGTGCTTATAG
66 GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGA-AGATTTGGCATCCCTGTGCTTATAG
88113305 GGAA
130 GGAA
* *
88113309 CAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
1 CAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
* * * * *
88113374 GGCATCCCTGTGTTTATAGGGAACAAGTTG-AAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
66 GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGAAGATTTGGCATCCCTGTGCTTATAGG
88113438 GAA
131 GAA
88113441 CAGATCAAAGA-AGCAGATC
1 CAGATCAAAGATAGCAGATC
88113460 GAAGAACTCA
Statistics
Matches: 267, Mismatches: 13, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
131 9 0.03
132 70 0.26
133 188 0.70
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (133 bp):
CAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
GGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGAAGATTTGGCATCCCTGTGCTTATAGG
GAA
Found at i:88113251 original size:44 final size:43
Alignment explanation
Indices: 88113088--88113451 Score: 290
Period size: 44 Copynumber: 8.3 Consensus size: 43
88113078 TACAGTGAAG
*
88113088 CAGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAA
1 CAGATCGAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * * **
88113131 CA-AGTTGAAAAACAGAAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCG-AAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * * * **
88113176 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAA
1 CAGATCGAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAA
*
88113220 GCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * * *
88113264 CA-AGTTGAAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCG-AAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
88113309 CAGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAA
1 CAGATCGAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAA
* *
88113353 GCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGTTTATAGGGAA
1 -CAGATCGAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * *
88113397 CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAA
*
88113441 CAGATCAAAGA
1 CAGATCGAAGA
88113452 AGCAGATCGA
Statistics
Matches: 252, Mismatches: 49, Indels: 39
0.74 0.14 0.11
Matches are distributed among these distances:
42 4 0.02
43 24 0.10
44 133 0.53
45 87 0.35
46 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
CAGATCGAAGATATCAGATTGGCATCCCTGTGCTTATAGGGAA
Found at i:88114706 original size:38 final size:39
Alignment explanation
Indices: 88114578--88114728 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
88114568 ATAAAGTATG
* *
88114578 GTTTTAATTAATAATAAAAATAAAATAGTATGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
88114617 GTTTTAATTAATAATAAAAACAAAATAGTATGAGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATG-GGGAATA
*
88114657 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
* *
88114695 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGG
88114729 GGAGTGGAAT
Statistics
Matches: 106, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
38 38 0.36
39 47 0.44
40 21 0.20
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.31
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
Found at i:88121010 original size:7 final size:7
Alignment explanation
Indices: 88120998--88121052 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
88120988 AATTTCACTT
88120998 TATATTA
1 TATATTA
88121005 TATATTA
1 TATATTA
*
88121012 TAAAATTA
1 T-ATATTA
*
88121020 TTTTATTA
1 -TATATTA
88121028 TATATTA
1 TATATTA
88121035 T-TATTA
1 TATATTA
88121041 CT-TATTA
1 -TATATTA
88121048 TATAT
1 TATAT
88121053 GTTATTTTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 6 0.15
7 24 0.60
8 9 0.22
9 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATTA
Found at i:88121291 original size:10 final size:11
Alignment explanation
Indices: 88121277--88121328 Score: 67
Period size: 10 Copynumber: 5.1 Consensus size: 11
88121267 TATCGCGAAT
*
88121277 TATAT-TATTT
1 TATATATATTA
88121287 TATATATA-TA
1 TATATATATTA
88121297 TATATATA-TA
1 TATATATATTA
88121307 TATATATA-TA
1 TATATATATTA
88121317 TATATATATTA
1 TATATATATTA
88121328 T
1 T
88121329 TTTAAAAATG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
10 34 0.87
11 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATATATTA
Found at i:88121294 original size:2 final size:2
Alignment explanation
Indices: 88121287--88121325 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
88121277 TATATTATTT
88121287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88121326 TATTTTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88122558 original size:19 final size:17
Alignment explanation
Indices: 88122536--88122577 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
88122526 AAATAATCAG
88122536 AAAATAAAAAATATAAATA
1 AAAATAAAAAA-ATAAA-A
*
88122555 AAAATAAAAAAATTAAA
1 AAAATAAAAAAATAAAA
88122572 AAAATA
1 AAAATA
88122578 TGAAGTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 11 0.50
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATAAAAAAATAAAA
Found at i:88122566 original size:9 final size:9
Alignment explanation
Indices: 88122536--88122575 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
88122526 AAATAATCAG
88122536 AAAATAAAA
1 AAAATAAAA
*
88122545 AATATAAATA
1 AAAATAAA-A
88122555 AAAATAAAA
1 AAAATAAAA
*
88122564 AAATTAAAA
1 AAAATAAAA
88122573 AAA
1 AAA
88122576 TATGAAGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAATAAAA
Found at i:88126202 original size:27 final size:28
Alignment explanation
Indices: 88126165--88126304 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
88126155 AGCATGGCTG
* **
88126165 CCAGA-ACAGATA-ATGTGACAGAGTTA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
88126191 CCAGATACAGATA-ATCGTGGCAGGGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
88126219 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
88126246 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
88126273 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
88126300 CCAGA
1 CCAGA
88126305 ACGCTTCCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.05
27 83 0.81
28 15 0.15
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:88126741 original size:16 final size:15
Alignment explanation
Indices: 88126720--88126749 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
88126710 AAAATACCGA
88126720 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
88126736 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
88126750 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:88127959 original size:26 final size:26
Alignment explanation
Indices: 88127923--88128032 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
88127913 CATGAAATTC
88127923 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88127949 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88127975 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
88128001 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
88128027 TTATCA
1 TTATCA
88128033 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88129272 original size:16 final size:16
Alignment explanation
Indices: 88129245--88129284 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
88129235 ATAAGATATT
88129245 TAATAT-AT-ATAATA
1 TAATATAATAATAATA
*
88129259 TATTATAATAATAATA
1 TAATATAATAATAATA
88129275 TAATATAATA
1 TAATATAATA
88129285 GTTAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 5 0.23
15 2 0.09
16 15 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAATAATAATA
Found at i:88129277 original size:5 final size:5
Alignment explanation
Indices: 88129245--88129284 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
88129235 ATAAGATATT
*
88129245 TAATA T-ATA TAATA TATTA TAATAA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAAT-A TAATA TAATA TAATA
88129285 GTTAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.71
6 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:88129277 original size:21 final size:18
Alignment explanation
Indices: 88129234--88129281 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 18
88129224 ATATTTTAAG
*
88129234 TATAAGATATTTAATATA
1 TATAATATATTTAATATA
88129252 TATAATATATTATAATAATAA
1 TATAATATATT-TAAT-AT-A
88129273 TATAATATA
1 TATAATATA
88129282 ATAGTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 4 0.15
20 2 0.08
21 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TATAATATATTTAATATA
Found at i:88129346 original size:33 final size:28
Alignment explanation
Indices: 88129301--88129375 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 28
88129291 ATAAATAAAA
*
88129301 GAAACAAAATAGAAACATAAAGAACAAAGAAT
1 GAAAGAAAATAGAAACA-AAAGAA-AAAG--T
*
88129333 GAAAAGAAAATAGAAAGAAAAGAAAAAGT
1 G-AAAGAAAATAGAAACAAAAGAAAAAGT
88129362 GAAAGAAAA-AGAAA
1 GAAAGAAAATAGAAA
88129376 GGAAAAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.12
28 8 0.20
29 2 0.05
31 4 0.10
32 7 0.17
33 14 0.35
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.07
Consensus pattern (28 bp):
GAAAGAAAATAGAAACAAAAGAAAAAGT
Found at i:88129360 original size:11 final size:11
Alignment explanation
Indices: 88129334--88129382 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
88129324 ACAAAGAATG
*
88129334 AAAAGAAAATA
1 AAAAGAAAAGA
*
88129345 GAAAGAAAAGA
1 AAAAGAAAAGA
*
88129356 AAAAGTGAAAGA
1 AAAAG-AAAAGA
*
88129368 AAAAGAAAGGA
1 AAAAGAAAAGA
88129379 AAAA
1 AAAA
88129383 TAGGGTTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:88129365 original size:17 final size:17
Alignment explanation
Indices: 88129306--88129375 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 17
88129296 TAAAAGAAAC
*
88129306 AAAATAGAAACATAAAGA
1 AAAATAGAAAGA-AAAGA
* *
88129324 ACAA-AGAATGAAAAG-
1 AAAATAGAAAGAAAAGA
88129339 AAAATAGAAAGAAAAGA
1 AAAATAGAAAGAAAAGA
88129356 AAAAGT-GAAAGAAAAAGA
1 AAAA-TAGAAAG-AAAAGA
88129374 AA
1 AA
88129376 GGAAAAATAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.07
16 14 0.33
17 14 0.33
18 12 0.28
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAATAGAAAGAAAAGA
Found at i:88130235 original size:6 final size:6
Alignment explanation
Indices: 88130224--88130262 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
88130214 TGTGTACCGA
* *
88130224 TACTGT TACTGT TACTAT TACTGT TAATGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
88130263 AGTGCATTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:88131027 original size:12 final size:12
Alignment explanation
Indices: 88131010--88131037 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
88131000 TTTTGAGTCT
88131010 ACACGGCATGTC
1 ACACGGCATGTC
88131022 ACACGGCATGTC
1 ACACGGCATGTC
88131034 ACAC
1 ACAC
88131038 CAGGTGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.36, G:0.21, T:0.14
Consensus pattern (12 bp):
ACACGGCATGTC
Found at i:88132524 original size:93 final size:93
Alignment explanation
Indices: 88132412--88132582 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
88132402 GCCCATAAGT
* *
88132412 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
88132477 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
88132505 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
88132570 CGAGTTCGGATGC
66 CGAGTTCGGATGC
88132583 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88132579 original size:46 final size:46
Alignment explanation
Indices: 88132404--88132579 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
88132394 TGTAACCCGC
* * *
88132404 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
88132450 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
88132500 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
88132543 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
88132580 TGCTCAACCA
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:88138360 original size:20 final size:20
Alignment explanation
Indices: 88138315--88138368 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
88138305 TCATATTTAA
*
88138315 AAATATATATTTAATATATAT
1 AAATA-ATATTTAAAATATAT
*
88138336 GAATAATATTTACAAATAT-T
1 AAATAATATTTA-AAATATAT
*
88138356 AAATAAAATTTAA
1 AAATAATATTTAA
88138369 CTATGAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 18 0.64
21 9 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATAATATTTAAAATATAT
Found at i:88138874 original size:19 final size:19
Alignment explanation
Indices: 88138850--88138888 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
88138840 TATTGATGCA
88138850 GAACCATTCAAGCAAAATG
1 GAACCATTCAAGCAAAATG
88138869 GAACCATTCAAGCAAAATG
1 GAACCATTCAAGCAAAATG
88138888 G
1 G
88138889 GCTAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (19 bp):
GAACCATTCAAGCAAAATG
Found at i:88141580 original size:21 final size:21
Alignment explanation
Indices: 88141556--88141600 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
88141546 TCTGATTTTT
88141556 TCAAG-AGAAAAAGGCTGAAAA
1 TCAAGAAGAAAAA-GCTGAAAA
*
88141577 TCAAGAAGAAAAAGTTGAAAA
1 TCAAGAAGAAAAAGCTGAAAA
88141598 TCA
1 TCA
88141601 GACTAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.58, C:0.09, G:0.20, T:0.13
Consensus pattern (21 bp):
TCAAGAAGAAAAAGCTGAAAA
Found at i:88142227 original size:8 final size:9
Alignment explanation
Indices: 88142209--88142330 Score: 63
Period size: 9 Copynumber: 12.9 Consensus size: 9
88142199 CTTGATTATT
88142209 TAAAAATTA
1 TAAAAATTA
88142218 TAAAAATATAA
1 TAAAAAT-T-A
*
88142229 AAAAAATT-
1 TAAAAATTA
88142237 TAAAAATT-
1 TAAAAATTA
*
88142245 TAAAAAAATA
1 T-AAAAATTA
88142255 TAAACATATTA
1 TAAA-A-ATTA
88142266 TTAAAAA-TA
1 -TAAAAATTA
* *
88142275 AAAAGAAGTA
1 TAAA-AATTA
*
88142285 TAAAACTTTA
1 TAAAA-ATTA
* *
88142295 TGAAAATCA
1 TAAAAATTA
88142304 TAAAAAATTA
1 T-AAAAATTA
88142314 -ATAAAATTA
1 TA-AAAATTA
88142323 TAAAAATT
1 TAAAAATT
88142331 CAAGAATTGG
Statistics
Matches: 87, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
8 12 0.14
9 37 0.43
10 23 0.26
11 11 0.13
12 4 0.05
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:88142240 original size:19 final size:20
Alignment explanation
Indices: 88142210--88142252 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
88142200 TTGATTATTT
88142210 AAAAATTATAAAAATATAAA
1 AAAAATTATAAAAATATAAA
*
88142230 AAAAATT-TAAAAATTTAAA
1 AAAAATTATAAAAATATAAA
88142249 AAAA
1 AAAA
88142253 TATAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATTATAAAAATATAAA
Found at i:88142276 original size:28 final size:29
Alignment explanation
Indices: 88142203--88142330 Score: 88
Period size: 28 Copynumber: 4.4 Consensus size: 29
88142193 TCTATACTTG
*
88142203 ATTATTTAAAAATTATAAAAATATAAAAAA
1 ATTA-TTAAAAATTAAAAAAATATAAAAAA
* * *
88142233 AAT-TTAAAAATTTAAAAAAATATAAACAT
1 ATTATTAAAAA-TTAAAAAAATATAAAAAA
*
88142262 ATTATTAAAAA-TAAAAAGAAGTAT-AAAAC
1 ATTATTAAAAATTAAAAA-AA-TATAAAAAA
* * * *
88142291 TTTA-TGAAAATCATAAAAAAT-TAATAAA
1 ATTATTAAAAATTA-AAAAAATATAAAAAA
88142319 ATTA-TAAAAATT
1 ATTATTAAAAATT
88142331 CAAGAATTGG
Statistics
Matches: 76, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
27 1 0.01
28 31 0.41
29 28 0.37
30 16 0.21
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (29 bp):
ATTATTAAAAATTAAAAAAATATAAAAAA
Found at i:88142301 original size:48 final size:49
Alignment explanation
Indices: 88142214--88142328 Score: 119
Period size: 48 Copynumber: 2.4 Consensus size: 49
88142204 TTATTTAAAA
*
88142214 ATTATAAAAATATAAAAAAAATTTAAAAATTTAAAAAAAT-ATAAACAT
1 ATTATAAAAATATAAAAAAAATATAAAAATTTAAAAAAATCATAAACAT
* * * ** *
88142262 ATTATTAAAAATA-AAAAGAAGTATAAAACTTTATGAAAATCATAAA-AA
1 ATTA-TAAAAATATAAAAAAAATATAAAAATTTAAAAAAATCATAAACAT
*
88142310 ATTAATAAAATTATAAAAA
1 ATT-ATAAAAATATAAAAA
88142329 TTCAAGAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
48 36 0.67
49 18 0.33
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (49 bp):
ATTATAAAAATATAAAAAAAATATAAAAATTTAAAAAAATCATAAACAT
Found at i:88142801 original size:23 final size:23
Alignment explanation
Indices: 88142751--88142884 Score: 114
Period size: 23 Copynumber: 5.9 Consensus size: 23
88142741 ATGAATGAAG
* * **
88142751 ATGAACAGGAAATATTATCTGGT
1 ATGAACAGTAAATATTCTCTGAC
*
88142774 GTGAACAGTAAATATTCTCTGAC
1 ATGAACAGTAAATATTCTCTGAC
*
88142797 ATGAACAATAGAA-A-TCTCTGAC
1 ATGAACAGTA-AATATTCTCTGAC
* *
88142819 A-GAAACAGT-AAGATTCTCTAAC
1 ATG-AACAGTAAATATTCTCTGAC
* *
88142841 ATGAATAGTAAATATTCTCTTAC
1 ATGAACAGTAAATATTCTCTGAC
* *
88142864 ATGAATAGTGAATATTCTCTG
1 ATGAACAGTAAATATTCTCTG
88142885 TAGTTTGTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 27 0.30
23 58 0.64
24 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (23 bp):
ATGAACAGTAAATATTCTCTGAC
Found at i:88148180 original size:22 final size:22
Alignment explanation
Indices: 88148155--88148197 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
88148145 TGCGTCGGAG
88148155 TTAACCTATTTGCTCCTAGTTT
1 TTAACCTATTTGCTCCTAGTTT
88148177 TTAACCTATTTGCTCCTAGTT
1 TTAACCTATTTGCTCCTAGTT
88148198 CCCCAGCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (22 bp):
TTAACCTATTTGCTCCTAGTTT
Found at i:88150339 original size:29 final size:29
Alignment explanation
Indices: 88150306--88150364 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
88150296 CAACAGAAAG
88150306 AAAAATATATATACATGTATATCTTTGAA
1 AAAAATATATATACATGTATATCTTTGAA
88150335 AAAAATATATATACATGTATATCTTTGAA
1 AAAAATATATATACATGTATATCTTTGAA
88150364 A
1 A
88150365 GTAAGCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (29 bp):
AAAAATATATATACATGTATATCTTTGAA
Found at i:88152563 original size:51 final size:51
Alignment explanation
Indices: 88152508--88152604 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
88152498 TTTAATAGAA
* * * *
88152508 AAGTGACTTGTCACGTTAAATTTTTATATCAATTTATCGCCTTAAATGGGG
1 AAGTGACTTGTCACATTAAATTTGTATACCAATTTATCACCTTAAATGGGG
88152559 AAGTGACTTGTCACATTAAATTTGTATACCAATTTATCACCTTAAA
1 AAGTGACTTGTCACATTAAATTTGTATACCAATTTATCACCTTAAA
88152605 GTTGAGATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (51 bp):
AAGTGACTTGTCACATTAAATTTGTATACCAATTTATCACCTTAAATGGGG
Found at i:88152851 original size:18 final size:18
Alignment explanation
Indices: 88152828--88152866 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
88152818 TCCTGTTTGT
88152828 AACAAAATTTAAACGTTG
1 AACAAAATTTAAACGTTG
88152846 AACAAAATTTAAACGTTG
1 AACAAAATTTAAACGTTG
88152864 AAC
1 AAC
88152867 CTCCTGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (18 bp):
AACAAAATTTAAACGTTG
Found at i:88158396 original size:18 final size:18
Alignment explanation
Indices: 88158370--88158407 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
88158360 TGAATTTCAC
88158370 AATTCGAAT-ATCTCAAAT
1 AATTCGAATAAT-TCAAAT
*
88158388 AATTTGAATAATTCAAAT
1 AATTCGAATAATTCAAAT
88158406 AA
1 AA
88158408 CAGATTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTCGAATAATTCAAAT
Found at i:88158512 original size:19 final size:18
Alignment explanation
Indices: 88158490--88158530 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
88158480 AACTATGAAA
*
88158490 AAAATTCAAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
*
88158509 AAAATTTAAAATATTTAT
1 AAAATTCAAAATATTTAT
88158527 AAAA
1 AAAA
88158531 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:88158540 original size:9 final size:9
Alignment explanation
Indices: 88158502--88158606 Score: 60
Period size: 9 Copynumber: 11.7 Consensus size: 9
88158492 AATTCAAAAT
*
88158502 AATTTTTAA
1 AATTTTAAA
88158511 AA-TTTAAA
1 AATTTTAAA
88158519 ATATTTATAAA
1 A-ATTT-TAAA
88158530 AATTTTAAA
1 AATTTTAAA
88158539 AA--TT--A
1 AATTTTAAA
*
88158544 TATTTTAAA
1 AATTTTAAA
*
88158553 ATTTTTATAAA
1 A-ATTT-TAAA
*
88158564 AATTCTAAA
1 AATTTTAAA
88158573 AATTATATAAA
1 AATT-T-TAAA
*
88158584 AAATTT-AA
1 AATTTTAAA
*
88158592 GATTTTAAA
1 AATTTTAAA
88158601 AATTTT
1 AATTTT
88158607 CTAAAATAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
5 2 0.03
7 4 0.05
8 12 0.16
9 26 0.36
10 12 0.16
11 17 0.23
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (9 bp):
AATTTTAAA
Found at i:88158553 original size:34 final size:34
Alignment explanation
Indices: 88158513--88158580 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
88158503 ATTTTTAAAA
*
88158513 TTTAAAATATTTATAAAAATTTTAAAAATTATAT
1 TTTAAAATATTTATAAAAATTCTAAAAATTATAT
*
88158547 TTTAAAATTTTTATAAAAATTCTAAAAATTATAT
1 TTTAAAATATTTATAAAAATTCTAAAAATTATAT
88158581 AAAAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (34 bp):
TTTAAAATATTTATAAAAATTCTAAAAATTATAT
Found at i:88158564 original size:24 final size:24
Alignment explanation
Indices: 88158519--88158564 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
88158509 AAAATTTAAA
88158519 ATATTTATAAAAATTTTAAAAATT
1 ATATTTATAAAAATTTTAAAAATT
*
88158543 ATATTT-TAAAATTTTTATAAAA
1 ATATTTATAAAAATTTTA-AAAA
88158565 ATTCTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATTTATAAAAATTTTAAAAATT
Found at i:88159732 original size:42 final size:42
Alignment explanation
Indices: 88159666--88159780 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
88159656 CTTCGTTTTC
* * *
88159666 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTC-ACATAA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCTAC-T-A
* *
88159709 T-GATGACATAGTCCAGCTATGGTCTTACACATATTCTTCTA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCTACTA
*
88159750 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGTCCAGCTATGGTCTTACAC
88159781 GAATCACATA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.03
42 59 0.94
43 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCTACTA
Found at i:88159855 original size:47 final size:46
Alignment explanation
Indices: 88159752--88159874 Score: 165
Period size: 47 Copynumber: 2.7 Consensus size: 46
88159742 TTCTTCTATC
* * * * *
88159752 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACT
* * *
88159798 AATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACT
1 GATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACACT
88159845 GATGCCATATCCCAGATATGGTCTTATACG
1 GATGCCATATCCCAGATATGGTCTTATACG
88159875 GAAATCACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
46 26 0.39
47 41 0.61
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACT
Found at i:88159964 original size:31 final size:31
Alignment explanation
Indices: 88159923--88159984 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
88159913 CACTGATCAA
*
88159923 GATCAAGTAGCCAAAGCTACCATTTTTCACT
1 GATCAAGTAGCCAAAGCTACCACTTTTCACT
* *
88159954 GATCAGGTAGCCAGAGCTACCACTTTTCACT
1 GATCAAGTAGCCAAAGCTACCACTTTTCACT
88159985 ACCACTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (31 bp):
GATCAAGTAGCCAAAGCTACCACTTTTCACT
Found at i:88159988 original size:13 final size:13
Alignment explanation
Indices: 88159970--88159997 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
88159960 GTAGCCAGAG
88159970 CTACCACTTTTCA
1 CTACCACTTTTCA
88159983 CTACCACTTTTCA
1 CTACCACTTTTCA
88159996 CT
1 CT
88159998 GATCAGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (13 bp):
CTACCACTTTTCA
Found at i:88160002 original size:44 final size:44
Alignment explanation
Indices: 88159939--88160028 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 44
88159929 GTAGCCAAAG
*
88159939 CTACCATTTTTCACTGATCAGGTAGCC-AGAGCTACCACTTTTCA
1 CTACCACTTTTCACTGATCAGGTAGCCGA-AGCTACCACTTTTCA
*
88159983 CTACCACTTTTCACTGATCAGGTAGCCGAAGCTACCATTTTTCA
1 CTACCACTTTTCACTGATCAGGTAGCCGAAGCTACCACTTTTCA
88160027 CT
1 CT
88160029 GATCAAGTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (44 bp):
CTACCACTTTTCACTGATCAGGTAGCCGAAGCTACCACTTTTCA
Found at i:88160025 original size:31 final size:31
Alignment explanation
Indices: 88159983--88160090 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
88159973 CCACTTTTCA
88159983 CTACCACTTTTCACTGATCAGGTAGCCGAAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
* * *
88160014 CTACCATTTTTCACTGATCAAGTAGCCGGAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
*
88160045 CTACCACTTTTCACTGATCAGGTAGCAGAAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
88160076 CTACCACTTTTCACT
1 CTACCACTTTTCACT
88160091 TGTCATTTGT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (31 bp):
CTACCACTTTTCACTGATCAGGTAGCCGAAG
Found at i:88160169 original size:50 final size:50
Alignment explanation
Indices: 88160066--88160242 Score: 293
Period size: 50 Copynumber: 3.5 Consensus size: 50
88160056 CACTGATCAG
* * *
88160066 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
88160117 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
88160167 GTAGCCGAAGCTA-CTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATC-ACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
88160217 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
88160243 GTTGCCATGG
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
49 1 0.01
50 94 0.79
51 24 0.20
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:88160379 original size:14 final size:15
Alignment explanation
Indices: 88160360--88160388 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
88160350 TTTTATCATC
88160360 AACACAT-ATGAAAT
1 AACACATCATGAAAT
88160374 AACACATCATGAAAT
1 AACACATCATGAAAT
88160389 TCATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (15 bp):
AACACATCATGAAAT
Found at i:88165254 original size:19 final size:19
Alignment explanation
Indices: 88165231--88165282 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
88165221 AAATTATGAA
88165231 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
88165250 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
88165269 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
88165283 TTATATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 17 0.59
20 8 0.28
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:88165305 original size:9 final size:9
Alignment explanation
Indices: 88165291--88165336 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
88165281 ATTTATATTT
*
88165291 TAAAAAATA
1 TAAAAAATC
*
88165300 TAAAAATTC
1 TAAAAAATC
88165309 TAAAAAATTC
1 TAAAAAA-TC
88165319 TAAAAAATTC
1 TAAAAAA-TC
88165329 TAAAAAAT
1 TAAAAAAT
88165337 ATATAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 14 0.42
10 19 0.58
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (9 bp):
TAAAAAATC
Found at i:88165314 original size:10 final size:10
Alignment explanation
Indices: 88165301--88165346 Score: 74
Period size: 10 Copynumber: 4.5 Consensus size: 10
88165291 TAAAAAATAT
88165301 AAAAATTCTA
1 AAAAATTCTA
88165311 AAAAATTCTA
1 AAAAATTCTA
88165321 AAAAATTCTA
1 AAAAATTCTA
*
88165331 AAAAATATATA
1 AAAAAT-TCTA
88165342 AAAAA
1 AAAAA
88165347 GTTAAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:88165324 original size:20 final size:21
Alignment explanation
Indices: 88165292--88165346 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
88165282 TTTATATTTT
88165292 AAAAA-ATAT-AAAAATTCTA
1 AAAAATATATAAAAAATTCTA
*
88165311 AAAAAT-TCTAAAAAATTCTA
1 AAAAATATATAAAAAATTCTA
88165331 AAAAATATATAAAAAA
1 AAAAATATATAAAAAA
88165347 GTTAAGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.23
20 16 0.52
21 8 0.26
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAATATATAAAAAATTCTA
Found at i:88168197 original size:13 final size:13
Alignment explanation
Indices: 88168181--88168240 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
88168171 ACCACCCTTT
88168181 TTGGCCACCCACC
1 TTGGCCACCCACC
*
88168194 TTGGCCACCTA-C
1 TTGGCCACCCACC
*** ***
88168206 TCCACCACCCTTG
1 TTGGCCACCCACC
88168219 TTGGCCACCCACC
1 TTGGCCACCCACC
88168232 TTGGCCACC
1 TTGGCCACC
88168241 TAAACCACCC
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
12 7 0.21
13 26 0.79
ACGTcount: A:0.15, C:0.50, G:0.15, T:0.20
Consensus pattern (13 bp):
TTGGCCACCCACC
Found at i:88168251 original size:22 final size:22
Alignment explanation
Indices: 88168223--88168272 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
88168213 CCCTTGTTGG
88168223 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
88168245 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
88168267 CCACCC
1 CCACCC
88168273 CAACCACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.54, G:0.08, T:0.12
Consensus pattern (22 bp):
CCACCCACCTTGGCCACCTAAA
Found at i:88168256 original size:38 final size:38
Alignment explanation
Indices: 88168153--88168242 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
88168143 TAAATAAAAA
*
88168153 ACCTTGGCCACCTACTCCACCACCCTTTTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
88168191 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
88168229 ACCTTGGCCACCTA
1 ACCTTGGCCACCTA
88168243 AACCACCCAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (38 bp):
ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
Found at i:88168609 original size:12 final size:12
Alignment explanation
Indices: 88168576--88168661 Score: 70
Period size: 12 Copynumber: 7.1 Consensus size: 12
88168566 GAGAGCTTTG
88168576 TTTTATTATT-T
1 TTTTATTATTAT
88168587 TTTTATT-TTAT
1 TTTTATTATTAT
*
88168598 TTTTACTATTAT
1 TTTTATTATTAT
*
88168610 TTATATTATTAT
1 TTTTATTATTAT
*
88168622 TGTTATT-TCTCAT
1 TTTTATTAT-T-AT
*
88168635 GTATATATTATTAT
1 -T-TTTATTATTAT
*
88168649 TTATATTATTAT
1 TTTTATTATTAT
88168661 T
1 T
88168662 ATATTATATA
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
10 2 0.03
11 15 0.25
12 32 0.52
13 3 0.05
14 3 0.05
15 5 0.08
16 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:88168619 original size:3 final size:3
Alignment explanation
Indices: 88168578--88168668 Score: 50
Period size: 3 Copynumber: 30.3 Consensus size: 3
88168568 GAGCTTTGTT
* * *
88168578 TTA TTA TT- TTT TTA TT- TTA TTT TTA CTA TTA TT- TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
88168621 TTG TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA
1 TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
88168665 TTA T
1 TTA T
88168669 ATATGCCCTC
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
2 9 0.13
3 51 0.74
4 7 0.10
5 2 0.03
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:88168896 original size:12 final size:11
Alignment explanation
Indices: 88168875--88168935 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 11
88168865 ATATTACTAT
88168875 TATTAT-TATA
1 TATTATGTATA
88168885 TATTAGTGTATA
1 TATTA-TGTATA
*
88168897 TTTTTATGTATA
1 -TATTATGTATA
*
88168909 TATATATATATA
1 TAT-TATGTATA
*
88168921 TATATATTTATA
1 TAT-TATGTATA
88168933 TAT
1 TAT
88168936 AGTATTGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
10 5 0.12
11 3 0.07
12 31 0.72
13 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (11 bp):
TATTATGTATA
Found at i:88168912 original size:2 final size:2
Alignment explanation
Indices: 88168905--88168936 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
88168895 TATTTTTATG
*
88168905 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88168937 GTATTGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:88171516 original size:19 final size:19
Alignment explanation
Indices: 88171494--88171540 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
88171484 CTTCCTTTCT
88171494 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
88171513 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
88171532 TTTGCATTA
1 TTTGCATTA
88171541 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:88174324 original size:6 final size:6
Alignment explanation
Indices: 88174313--88174338 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
88174303 GGAGTTCTAT
88174313 GGCAAA GGCAAA GGCAAA GGCAAA GG
1 GGCAAA GGCAAA GGCAAA GGCAAA GG
88174339 AAAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.38, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:88175606 original size:61 final size:62
Alignment explanation
Indices: 88175530--88175648 Score: 188
Period size: 65 Copynumber: 1.9 Consensus size: 62
88175520 GTAACGCATC
*
88175530 TAGTTAGGAGCATTTGATTCA-TT-TCATAACATCCTAATTATTTGACATAAAGCATCACATT
1 TAGTTAGGAGCATTTGATTCATTTATCATAACATCCTAATCATTTGACAT-AAGCATCACATT
88175591 TAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATCATTTGACATAAGCAT
1 TAGTTAGGAGCATTTGATTCATTT--ATCATAACATCCTAATCATTTGACATAAGCAT
88175649 AGATACATGG
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
61 21 0.40
62 2 0.04
64 6 0.11
65 24 0.45
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (62 bp):
TAGTTAGGAGCATTTGATTCATTTATCATAACATCCTAATCATTTGACATAAGCATCACATT
Found at i:88175954 original size:68 final size:67
Alignment explanation
Indices: 88175837--88176031 Score: 243
Period size: 68 Copynumber: 2.9 Consensus size: 67
88175827 ATTACAAATT
* *
88175837 TCTTTT-TCCCTGAAATGGCATTAGAGTGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA-A
1 TCTTTTCTTCCTGAAATGGCATTGGAGTGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCACA
88175900 AGGA
66 A--A
** *
88175904 TCTTTTCTTCCTGAAATGGTGTTGGAGTGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTTTTCTTCCTGAAATGGCATTGGAGTGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA-C
88175969 AAA
65 AAA
* * * * *
88175972 CCTCTTCTT-CTAGAAATGGCATTGGAGCGGCTAAAAGTCACAGCAGATCTCCTTAAAGTT
1 TCTTTTCTTCCT-GAAATGGCATTGGAGTGGCTAAAAGCCACAGCAGATCTCCTTGAAGTT
88176032 CTAGCGGAAG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
67 8 0.07
68 101 0.91
70 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (67 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGTGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCACA
AA
Found at i:88176195 original size:44 final size:44
Alignment explanation
Indices: 88176089--88177078 Score: 575
Period size: 44 Copynumber: 22.6 Consensus size: 44
88176079 GGAGCAGACT
* * * *
88176089 GAAGATAGCAGATTTGACATTCCTGTGCTTACAGTGAAGC-AGATC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAG-TC
** *
88176134 GAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTT
1 GAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* * * * *
88176177 GAAAACATCAAATTTGGCATCCCTGTGCTTATAGGGAACAAGTT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* * * ***
88176221 GAA-AGCAGCAGATTTGACATCCCTGTGCTTATAGAGAATGGGTC
1 GAAGA-TAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* ** * * *
88176265 GAAGATAGCAGATCTAACATTCCTGTGCTTACAGTGAAGC-AGATC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAG-TC
** * * *
88176310 GAAGATTTCAG-TATGGCATCCCTGTGCTTATGGGGAACAAGTT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* *
88176353 GAAAATATCAGATTTGGCATCCCTGTGCTTATAGGGAACGAA-TC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC-AAGTC
* * * * * * *
88176397 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAAATC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAGTC
** *
88176442 GAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTT
1 GAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* *
88176485 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC-AGATC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TC
* * * * * * **
88176529 GAAGGTAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TC
** * *
88176574 GAAGATTTCAGCA--TGGCATCCCTGTGCTTATAAGGAACAAGTT
1 GAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* *
88176617 GAA-AGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC-GGATC
1 GAAGA-TAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TC
* * * * * **
88176661 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TC
** * * *
88176706 GAAGATTTCAGCA--TAGCATCCCGGTGCTTATAGGGAACAAGTT
1 GAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* *
88176749 GAAAGCA-A-CAGATTTAGCATCCCTGTGCTTATAGGGAAC-GGATC
1 G-AAG-ATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TC
* * * * *
88176793 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGC-AGATC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAG-TC
* ** * *
88176838 CAAGATTTCAGCA--TGGAATCCCTGTGCTTATAGGGAACAAGTT
1 GAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* * * *
88176881 GAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAAC-GGATC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TC
* * * * * * **
88176925 GAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAAGTAGATC
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TC
** * * *
88176970 GAAGATTTCAGCA--TGACAT-CTTGTGCTTATAGGGAACAAGTT
1 GAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* * * *
88177012 GAAAATA-CTTA-ATTT---AACCCTGTGTTTATAGGGAACAAATC
1 GAAGATAGC--AGATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
* * *
88177053 AAAGATAACAGATTTGGCATCTCTGT
1 GAAGATAGCAGATTTGGCATCCCTGT
88177079 AGTGGCGGAA
Statistics
Matches: 729, Mismatches: 165, Indels: 103
0.73 0.17 0.10
Matches are distributed among these distances:
40 2 0.00
41 30 0.04
42 14 0.02
43 80 0.11
44 509 0.70
45 88 0.12
46 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGTC
Found at i:88176332 original size:132 final size:132
Alignment explanation
Indices: 88176191--88177016 Score: 1384
Period size: 132 Copynumber: 6.3 Consensus size: 132
88176181 ACATCAAATT
* * *
88176191 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGACATCCCTGTGCTTATAGA
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
* * * *
88176256 GAATGGGTCGAAGATAGCAGATCTAACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
*
88176321 TA
131 CA
* * *
88176323 TGGCATCCCTGTGCTTATGGGGAACAAGTTGAAAATATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
88176388 GAACGAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAAATCGAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
88176453 CA
131 CA
88176455 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
88176520 GAACAGATCGAAGGTAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
88176585 CA
131 CA
* *
88176587 TGGCATCCCTGTGCTTATAAGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
88176652 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
88176717 CA
131 CA
* * * * *
88176719 TAGCATCCCGGTGCTTATAGGGAACAAGTTGAAAGCAACAGATTTAGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
88176784 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCCAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
88176849 CA
131 CA
* *
88176851 TGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
*
88176916 GAACGGATCGAAGATAGCAGATCTGACATTCTTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
88176981 CA
131 CA
* *
88176983 TGACAT-CTTGTGCTTATAGGGAACAAGTTGAAAA
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
88177017 TACTTAATTT
Statistics
Matches: 651, Mismatches: 43, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
131 27 0.04
132 624 0.96
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
CA
Found at i:88177587 original size:44 final size:44
Alignment explanation
Indices: 88177054--88177576 Score: 739
Period size: 44 Copynumber: 12.0 Consensus size: 44
88177044 GAACAAATCA
* * *
88177054 AAGATAACAGATTTGGCATCTCTGTAGTGGCGGAAAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* *
88177098 AAGATAACAGATTTGGCATCTCTGTAGCGACGGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * *
88177142 AAGGTAACAAAATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCG
1 AAGATAAC-AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * *
88177187 AAAACAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
88177231 AAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * * *
88177275 AAGAT---A-ATTTGGCATCTCTGTAGCGACAGAGAGCATATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
88177315 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATTG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
*
88177359 AAAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
88177403 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * * *
88177447 AATATAGCAGATTTGGCGTCTCTGTAGCGGCGAAAAGCAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
* * * * *
88177491 AAGATAGCAGATTTGGCGTCTCTCTAGCGGTGGGGAGTAGATCG
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
** *
88177535 AAGATAACAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGAT
1 AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGAT
88177577 AAAAAATAAC
Statistics
Matches: 426, Mismatches: 48, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
40 36 0.08
41 1 0.00
43 1 0.00
44 351 0.82
45 37 0.09
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (44 bp):
AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCG
Found at i:88177970 original size:13 final size:13
Alignment explanation
Indices: 88177954--88178013 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
88177944 ACCACCTTTT
88177954 TTGGCCACCCACC
1 TTGGCCACCCACC
*
88177967 TTGGCCACCTA-C
1 TTGGCCACCCACC
*** ***
88177979 TCCACCACCCTTG
1 TTGGCCACCCACC
88177992 TTGGCCACCCACC
1 TTGGCCACCCACC
88178005 TTGGCCACC
1 TTGGCCACC
88178014 TAAACCACCC
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
12 7 0.21
13 26 0.79
ACGTcount: A:0.15, C:0.50, G:0.15, T:0.20
Consensus pattern (13 bp):
TTGGCCACCCACC
Found at i:88178022 original size:38 final size:38
Alignment explanation
Indices: 88177926--88178015 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
88177916 TAAATAAAAA
* *
88177926 ACCTTGGCCACCTACTCCACCACCTTTTTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
88177964 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
88178002 ACCTTGGCCACCTA
1 ACCTTGGCCACCTA
88178016 AACCACCCAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.17, C:0.48, G:0.12, T:0.23
Consensus pattern (38 bp):
ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
Found at i:88178024 original size:22 final size:22
Alignment explanation
Indices: 88177996--88178040 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
88177986 CCCTTGTTGG
88177996 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
88178018 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
88178040 C
1 C
88178041 TACTCCAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.51, G:0.09, T:0.13
Consensus pattern (22 bp):
CCACCCACCTTGGCCACCTAAA
Found at i:88178029 original size:38 final size:37
Alignment explanation
Indices: 88177926--88178029 Score: 154
Period size: 38 Copynumber: 2.7 Consensus size: 37
88177916 TAAATAAAAA
*
88177926 ACCTTGGCCACCTACTCCACCACCTTTTTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACC-TTGTTGGCCACCC
88177964 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCA-CCTTGTTGGCCACCC
**
88178002 ACCTTGGCCACCTAAACCACCCACCTTG
1 ACCTTGGCCACCTACTCCA-CCACCTTG
88178030 GCCACCTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
38 56 0.92
39 5 0.08
ACGTcount: A:0.18, C:0.48, G:0.12, T:0.22
Consensus pattern (37 bp):
ACCTTGGCCACCTACTCCACCACCTTGTTGGCCACCC
Found at i:88178395 original size:3 final size:3
Alignment explanation
Indices: 88178351--88178444 Score: 56
Period size: 3 Copynumber: 31.3 Consensus size: 3
88178341 AAGCTTTGTT
* * * *
88178351 TTA TTA TT- TTT TTA TT- TTA TCA TTT TTA CTA TTA TT- TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
88178394 TTA TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA
88178439 -TA TTA T
1 TTA TTA T
88178445 ATATGCCCTC
Statistics
Matches: 72, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
2 9 0.12
3 54 0.75
4 7 0.10
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:88178395 original size:12 final size:12
Alignment explanation
Indices: 88178361--88178444 Score: 66
Period size: 12 Copynumber: 6.8 Consensus size: 12
88178351 TTATTATTTT
* *
88178361 TTTATTTTATCA
1 TTTATATTATTA
* *
88178373 TTTTTACTATTA
1 TTTATATTATTA
88178385 TTTATATTATTA
1 TTTATATTATTA
88178397 -TTATTATT-TCTCA
1 TTTA-TATTAT-T-A
88178410 TGTATATATTATTA
1 T-T-TATATTATTA
88178424 TTTATATTATTA
1 TTTATATTATTA
88178436 -TTATATTAT
1 TTTATATTAT
88178445 ATATGCCCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
11 13 0.22
12 33 0.56
13 2 0.03
14 2 0.03
15 6 0.10
16 3 0.05
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:88178419 original size:21 final size:18
Alignment explanation
Indices: 88178352--88178448 Score: 90
Period size: 18 Copynumber: 5.2 Consensus size: 18
88178342 AGCTTTGTTT
*
88178352 TATTATT-TTTTTATTTTA
1 TATTATTATTATTA-TTTA
* *
88178370 TCATTTTTACTATTATTTA
1 T-ATTATTATTATTATTTA
*
88178389 TATTATTATTATTATTTC
1 TATTATTATTATTATTTA
88178407 TCATGTATATATTATTATTTA
1 T-AT-TAT-TATTATTATTTA
88178428 TATTATTATTA-TATTATA
1 TATTATTATTATTATT-TA
88178446 TAT
1 TAT
88178449 GCCCTCTCCA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.06
18 26 0.39
19 15 0.23
20 9 0.14
21 12 0.18
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TATTATTATTATTATTTA
Found at i:88178741 original size:39 final size:40
Alignment explanation
Indices: 88178697--88178836 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 40
88178687 ATATATATAT
*
88178697 ATATTTATATATAGTA-TTGTTTTTTATTACTTTAATTTA
1 ATATTTATATATAGTAGTTGTTTTTTATTACTATAATTTA
* * *
88178736 ATATTTTTAT-TA-TATTTGCTTTTTGTATTTCTAT-ATTTA
1 ATATTTATATATAGTAGTTG-TTTTT-TATTACTATAATTTA
* * *
88178775 TTATTATTATTATATAGTAGTGTGTATTTCTATTA-TATATATATA
1 ATA-T-TTA-TATATAGTAGT-TGT-TTTTTATTACTATA-ATTTA
88178820 TATATTTATATATAGTA
1 -ATATTTATATATAGTA
88178837 TTATTGTTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
37 2 0.03
38 5 0.06
39 21 0.27
40 8 0.10
41 2 0.03
42 3 0.04
43 14 0.18
44 11 0.14
45 10 0.13
46 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (40 bp):
ATATTTATATATAGTAGTTGTTTTTTATTACTATAATTTA
Found at i:88180183 original size:24 final size:24
Alignment explanation
Indices: 88180149--88180201 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
88180139 ATTCGTAAGT
** *
88180149 TAAATAAATTATGTTAATAAATGC
1 TAAATAAATTATACTAATAAATAC
*
88180173 TAAATATATTATACTAATAAATAC
1 TAAATAAATTATACTAATAAATAC
88180197 TAAAT
1 TAAAT
88180202 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
TAAATAAATTATACTAATAAATAC
Found at i:88181258 original size:20 final size:20
Alignment explanation
Indices: 88181235--88181274 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
88181225 TTAAATTCTA
88181235 AAAGATAAATAGAAA-TAAAT
1 AAAGATAAATA-AAATTAAAT
88181255 AAAGATAAATAAAATTAAAT
1 AAAGATAAATAAAATTAAAT
88181275 CCTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAATTAAAT
Found at i:88183845 original size:9 final size:9
Alignment explanation
Indices: 88183810--88184024 Score: 68
Period size: 9 Copynumber: 22.9 Consensus size: 9
88183800 TAGTTTTTTT
*
88183810 TAATTTTTA
1 TAATTTTAA
*
88183819 TAAGTTTATA
1 TAATTTTA-A
88183829 TCAATTTTAA
1 T-AATTTTAA
88183839 TAATTTTAA
1 TAATTTTAA
*
88183848 T-TTTTTAA
1 TAATTTTAA
88183856 TAATTTTATA
1 TAATTTTA-A
* *
88183866 CAATGTTTAT
1 TAAT-TTTAA
*
88183876 TATCTTTTAA
1 TA-ATTTTAA
* *
88183886 GAATTCTAATTA
1 TAATT-T--TAA
88183898 TAATTTTTTAA
1 TAA--TTTTAA
* *
88183909 T-AGTTTAT
1 TAATTTTAA
*
88183917 TAGATTTTTA
1 TA-ATTTTAA
*
88183927 T-ATTTTTA
1 TAATTTTAA
88183935 TAATATTT-A
1 TAAT-TTTAA
*
88183944 TAAGTTTTTA
1 TAA-TTTTAA
88183954 TAA-TTTATA
1 TAATTTTA-A
88183963 TAATTTTAA
1 TAATTTTAA
88183972 TAAGTTTGT-A
1 TAA-TTT-TAA
88183982 TCAATTTTAA
1 T-AATTTTAA
* **
88183992 CAATTCAAA
1 TAATTTTAA
88184001 TAATTTTAA
1 TAATTTTAA
88184010 T-A-TTTAA
1 TAATTTTAA
*
88184017 TATTTTTA
1 TAATTTTA
88184025 TTTTTTATAA
Statistics
Matches: 153, Mismatches: 28, Indels: 50
0.66 0.12 0.22
Matches are distributed among these distances:
7 6 0.04
8 24 0.16
9 57 0.37
10 42 0.27
11 17 0.11
12 4 0.03
13 1 0.01
14 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (9 bp):
TAATTTTAA
Found at i:88183942 original size:19 final size:19
Alignment explanation
Indices: 88183929--88183974 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
88183919 GATTTTTATA
88183929 TTTTTATAATATTTATAAG
1 TTTTTATAATATTTATAAG
88183948 TTTTTATAAT-TTATATAA-
1 TTTTTATAATATT-TATAAG
*
88183966 TTTTAATAA
1 TTTTTATAA
88183975 GTTTGTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTTATAATATTTATAAG
Found at i:88183943 original size:28 final size:28
Alignment explanation
Indices: 88183895--88183989 Score: 106
Period size: 28 Copynumber: 3.4 Consensus size: 28
88183885 AGAATTCTAA
*
88183895 TTATAATTTTT-TAATAGTTTATTAGATTT
1 TTATAATTTTTATAATA-TTTATAAG-TTT
88183924 TTAT-ATTTTTATAATATTTATAAGTTT
1 TTATAATTTTTATAATATTTATAAGTTT
*
88183951 TTATAATTTATATAAT-TTTAATAAGTTT
1 TTATAATTTTTATAATATTT-ATAAGTTT
*
88183979 GTATCAATTTT
1 TTAT-AATTTT
88183990 AACAATTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.17
28 34 0.59
29 14 0.24
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (28 bp):
TTATAATTTTTATAATATTTATAAGTTT
Found at i:88183945 original size:17 final size:16
Alignment explanation
Indices: 88183922--88183970 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 16
88183912 TTTATTAGAT
88183922 TTTTATATTTTTATAA
1 TTTTATATTTTTATAA
88183938 TATTTATAAGTTTTTATAA
1 T-TTTAT-A-TTTTTATAA
*
88183957 TTTATATAATTTTA
1 TTT-TATATTTTTA
88183971 ATAAGTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 10 0.36
18 4 0.14
19 13 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTTATATTTTTATAA
Found at i:88187164 original size:16 final size:17
Alignment explanation
Indices: 88187135--88187173 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
88187125 TTCTATTTTT
* *
88187135 TATAATATATAAAT-TA
1 TATAAAATAAAAATATA
88187151 TATAAAATAAAAATATA
1 TATAAAATAAAAATATA
88187168 TATAAA
1 TATAAA
88187174 TATATAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAATAAAAATATA
Found at i:88187174 original size:10 final size:10
Alignment explanation
Indices: 88187139--88187179 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
88187129 ATTTTTTATA
88187139 ATATATAAAT
1 ATATATAAAT
88187149 -TATATAAA-
1 ATATATAAAT
88187157 ATA-A-AAAT
1 ATATATAAAT
88187165 ATATATAAAT
1 ATATATAAAT
88187175 ATATA
1 ATATA
88187180 ATGGGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
7 3 0.11
8 4 0.15
9 11 0.41
10 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATATAAAT
Found at i:88200889 original size:40 final size:40
Alignment explanation
Indices: 88200834--88200914 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
88200824 GACCAAGAAC
88200834 AAGGGTTAAGGGCATGTTGAACACATTAATTTGATTTGAA
1 AAGGGTTAAGGGCATGTTGAACACATTAATTTGATTTGAA
88200874 AAGGGTTAAGGGCATGTTGAACACATTAATTTGATTTGAA
1 AAGGGTTAAGGGCATGTTGAACACATTAATTTGATTTGAA
88200914 A
1 A
88200915 TATTTTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (40 bp):
AAGGGTTAAGGGCATGTTGAACACATTAATTTGATTTGAA
Found at i:88208102 original size:20 final size:21
Alignment explanation
Indices: 88208058--88208101 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
88208048 ATTACATTTG
*
88208058 AAAA-TAAATTAAAAAATAAA
1 AAAATTAAAATAAAAAATAAA
88208078 AAAATTAAAATAAAAAATAAA
1 AAAATTAAAATAAAAAATAAA
88208099 AAA
1 AAA
88208102 TATTGATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAATTAAAATAAAAAATAAA
Found at i:88210519 original size:22 final size:22
Alignment explanation
Indices: 88210488--88210539 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
88210478 GGGAGGTCAA
*
88210488 ACGCCCGTGTAAAGAGGGGCAC
1 ACGCCCGTGTAAAGAGAGGCAC
* **
88210510 ACGCCTGTGTGGAGAGAGGCAC
1 ACGCCCGTGTAAAGAGAGGCAC
*
88210532 ACGACCGT
1 ACGCCCGT
88210540 ATAATTGAGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.37, T:0.12
Consensus pattern (22 bp):
ACGCCCGTGTAAAGAGAGGCAC
Found at i:88211621 original size:44 final size:44
Alignment explanation
Indices: 88211556--88211993 Score: 319
Period size: 44 Copynumber: 9.7 Consensus size: 44
88211546 GTCATCATGG
* *
88211556 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* * * * * *
88211600 CAAATCTTATCTCCTTAAAGTTATAGTGGAGCATATTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* * * * *
88211644 CAAATCTTATATCCCTAAAGTTGTAGTTGAACAAATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
*
88211688 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* *
88211732 CAAATCTTATCTCGCTGAAGTTGTAGTGGAGCAAATTGAAG-TGA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCT-A
* * * * * *
88211776 CAAATCCTATAC-CTCTGAAGTTGTAGTGG-GTCGGGTTAAATCTA
1 CAAATCTTAT-CTCCCTGAAGTTGTAGTGGAG-CAGATTGAAGCTA
* * * * *
88211820 CCATAGCGAGTCTTATTTCCCTGGAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 -CA-A---A-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT---G----AAGCTA
* * * * *
88211877 CAAATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* * * * * *
88211921 CAAGTCTTATCTGCTTGAAGTTGTAGTGGAGTAGATTAAAACTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* *
88211965 -AAATTCCTATAC-CCCTGAAGTTGCAGTGG
1 CAAA-TCTTAT-CTCCCTGAAGTTGTAGTGG
88211994 GTTAGAACGA
Statistics
Matches: 311, Mismatches: 62, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
43 4 0.01
44 242 0.78
45 5 0.02
46 1 0.00
49 1 0.00
50 23 0.07
51 27 0.09
52 1 0.00
55 1 0.00
56 2 0.01
57 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
Found at i:88211797 original size:132 final size:132
Alignment explanation
Indices: 88211556--88211802 Score: 381
Period size: 132 Copynumber: 1.9 Consensus size: 132
88211546 GTCATCATGG
*
88211556 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCTTATCTCCTTAAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCTTAAAGT
* *
88211621 TATAGTGGAGCATATTAAAGCCACAAATCTTATATCCCTAAAGTTGTAGTTGAACAAATTGAAGC
66 TATAGTGGAGCAAATTAAAGCCACAAATCCTATATCCCTAAAGTTGTAGTTGAACAAATTGAAGC
88211686 TA
131 TA
*
88211688 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCGC-TGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTC-CTTAAAG
* * ** *
88211752 TTGTAGTGGAGCAAATTGAAGTGACAAATCCTATA-CCTCTGAAGTTGTAGT
65 TTATAGTGGAGCAAATTAAAGCCACAAATCCTATATCC-CTAAAGTTGTAGT
88211803 GGGTCGGGTT
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
131 2 0.02
132 101 0.97
133 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (132 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCTTAAAGT
TATAGTGGAGCAAATTAAAGCCACAAATCCTATATCCCTAAAGTTGTAGTTGAACAAATTGAAGC
TA
Done.