Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 686 of 770
Found at i:216199082 original size:26 final size:26
Alignment explanation
Indices: 216199046--216199155 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
216199036 ACATGAATTC
216199046 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
216199072 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
216199098 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
216199124 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
216199150 TTATCA
1 TTATCA
216199156 ATTTATATCA
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:216205330 original size:26 final size:26
Alignment explanation
Indices: 216205294--216205403 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
216205284 TGATACAAAT
216205294 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
216205320 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
216205346 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
216205372 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
216205398 TGATAA
1 TGATAA
216205404 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:216206887 original size:24 final size:25
Alignment explanation
Indices: 216206859--216206906 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
216206849 CCTATGTATG
216206859 GAAAATTAC-TATTATA-CCCTAGGT
1 GAAAATTACGT-TTATACCCCTAGGT
216206883 GAAAATTACGTTTATACCCCTAGG
1 GAAAATTACGTTTATACCCCTAGG
216206907 GTTAATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (25 bp):
GAAAATTACGTTTATACCCCTAGGT
Found at i:216207046 original size:26 final size:27
Alignment explanation
Indices: 216207004--216207114 Score: 120
Period size: 26 Copynumber: 4.2 Consensus size: 27
216206994 GAGGAAGCGT
*
216207004 TCTGGTGGCTAT-CCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
216207030 TCTGGTGGCTCTG-CACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
216207056 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * * *
216207084 TCTGCTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
216207110 TCTGG
1 TCTGG
216207115 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 41 0.55
27 18 0.24
28 15 0.20
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:216207096 original size:54 final size:52
Alignment explanation
Indices: 216207004--216207114 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 52
216206994 GAGGAAGCGT
* *
216207004 TCTGGTGGCTATCCACAAATATCTGATCTGGTGGCTCTG-CACAAATATCTGA
1 TCTGGTGGCTATCCACAAATATCTGATCTGCTGACTCTGTCAC-AATATCTGA
* * * * *
216207056 TCTGGTGGCTCTGCCACGATTATCTGTATCTGCTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTAT-CCACAAATATCTG-ATCTGCTGACTCTGTCACAATATCTGA
216207110 TCTGG
1 TCTGG
216207115 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
52 11 0.22
53 11 0.22
54 24 0.49
55 3 0.06
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (52 bp):
TCTGGTGGCTATCCACAAATATCTGATCTGCTGACTCTGTCACAATATCTGA
Found at i:216209723 original size:25 final size:23
Alignment explanation
Indices: 216209671--216209725 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
216209661 TATAAATAGT
216209671 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
216209694 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
216209719 AATAGTG
1 AATAGTG
216209726 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:216209844 original size:22 final size:24
Alignment explanation
Indices: 216209786--216209853 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
216209776 ATAGATATAA
* *
216209786 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
216209810 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
216209834 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
216209854 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:216210322 original size:16 final size:16
Alignment explanation
Indices: 216210284--216210322 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
216210274 TCTCCAAAAA
*
216210284 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
216210300 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
216210316 AATAACT
1 AAAAACT
216210323 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:216210515 original size:30 final size:30
Alignment explanation
Indices: 216210480--216210576 Score: 176
Period size: 30 Copynumber: 3.2 Consensus size: 30
216210470 AGGTACAAGT
* *
216210480 GTGGTGGAGCAAGTGTGGCTAATGGAGTAG
1 GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
216210510 GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
1 GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
216210540 GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
1 GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
216210570 GTGGTGG
1 GTGGTGG
216210577 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
GTGGTGGAGCAAGTGTGGCTAGTGGAGTTG
Found at i:216210536 original size:18 final size:18
Alignment explanation
Indices: 216210513--216210566 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
216210503 GGAGTAGGTG
216210513 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
216210531 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
216210543 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
216210561 GTGGAG
1 GTGGAG
216210567 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.19, C:0.07, G:0.50, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:216211475 original size:91 final size:89
Alignment explanation
Indices: 216211262--216211771 Score: 442
Period size: 91 Copynumber: 5.7 Consensus size: 89
216211252 AAAAACAGAA
* ** * *
216211262 ATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 ATTGAAAATACCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
216211326 --AAAACAAAATTTGTAAAACAGAT
65 GCAAAACAAAATTTGAAAAAAAAAT
* * ** * *
216211349 TTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
1 ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
216211414 CAAAGCATAAA-TTGAAAAAAAAAT
66 CAAAACA-AAATTTGAAAAAAAAAT
* *
216211438 CAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
*
216211503 TTTG-ACAAACATAAA-TTGAAAAAAAAGAA
62 TTTGCA-AAACA-AAATTTGAAAAAAAA-AT
* *
216211532 ATTGAAAATATCTCAGCGTGT--CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* *
216211595 GGAAAAACAAAATTTGAAAAACAGAAT
65 -GCAAAACAAAATTTGAAAAA-AAAAT
* * * *
216211622 -TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
1 ATTGAAAATACCTCAGCGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
* *
216211685 TTG-AAACACAGAAA-TTGAAGAACAGAA-
63 TTGCAAA-ACA-AAATTTGAA-AAAAAAAT
* * * * *
216211712 ATGGAAAACACCTCAGC--GT--CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
216211772 TTTGAAAGAC
Statistics
Matches: 361, Mismatches: 39, Indels: 48
0.81 0.09 0.11
Matches are distributed among these distances:
85 5 0.01
86 2 0.01
87 83 0.23
88 1 0.00
89 45 0.12
90 56 0.16
91 112 0.31
92 31 0.09
93 25 0.07
94 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (89 bp):
ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
CAAAACAAAATTTGAAAAAAAAAT
Found at i:216211628 original size:13 final size:14
Alignment explanation
Indices: 216211596--216211628 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
216211586 TGATTTTTTG
216211596 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
216211610 GAAAAACAGAATTT
1 GAAAAACAAAATTT
216211624 GAAAA
1 GAAAA
216211629 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:216211628 original size:181 final size:172
Alignment explanation
Indices: 216211199--216212663 Score: 925
Period size: 148 Copynumber: 8.8 Consensus size: 172
216211189 CGGCATGTGA
* ** * * * * *
216211199 TCCTGA-GCTTAACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTACA-TT-AAAAACAGA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACAAAATTTGAAAAACAGA
* ** * * *
216211261 AATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
65 AATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* ** * *
216211326 -AAAACAAAATTTGTAAAACAGATTTTGAAAATACCTCGGTATGTG
130 GAAAACAAAA-TTGAAAAACAGAAATTGAAAATACCTCAG--CGTG
* * * *
216211371 ACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAGCATAAA-TTGAAAAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA-CA-AAATTTGAAAAACA
* * *
216211435 AATCAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
63 GA--AATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* *
216211500 TTTTTTGACAAACATAAATTGAAAAAAAAGAAATTGAAAATATCTCAGCGTG
125 -TTTTTGA-AAACA-AAATTG-AAAAACAGAAATTGAAAATACCTCAGCGTG
*
216211552 TCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTTGAAAAAC
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-G--AAACAAAATTTGAAAAAC
* * *
216211617 AGAATTTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGAT
62 AGAAATTGAAAATACCTCAGCGTGTGA-TCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * *
216211681 TTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGC--G
125 -TTTTTGAAA-ACA-AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTG
* * * *
216211730 TCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT---------TTTGAAAGACAGAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTGAAAAACAGAA
* * *
216211786 ATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
66 ATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
216211849 ---AC---------AAACAAAAATTGAAATTACCTCA-C--G
131 AAAACAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTG
* * *
216211876 TCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGA--TTT---------TTTGAAAAACAGAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTGAAAAACAGAA
* * * * *
216211930 ATTGAAAATACCTCAACGTGT-CT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT-
66 ATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
216211992 ---------TT-AAAGACAGAAATTGAAAATACCTCAACGTG
131 AAAACAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTG
* *
216212024 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AC----------AAACAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTGAAAAACAGAA
* * * *
216212077 ATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT-
66 ATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
216212139 ---------TTGAAAAACAGAAATTGAAAATACCTCAACGTG
131 AAAACAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTG
* * * *
216212172 TCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTG--AC----------AAACAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTGAAAAACAGAA
* * * *
216212225 ATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
66 ATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* *
216212288 TAGAAACATAAATT-AAAAAAACGAAAATTGAAAATACCTCAGCGTG
130 GA-AAACA-AAATTGAAAAACA-G-AAATTGAAAATACCTCAGCGTG
*
216212334 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGCAGAATTTGTAAGGCAAAA
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-----------TTTG-AA-ACAAAA
* ** *
216212399 ATTGAAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATA
52 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATA
* *
216212462 TGAGTTGATTTTTGAAAAACAGAAATTAAAAGCAAAATTGAAAAACAGAAATTAAAAATACCTCG
117 TGAGTTGATTTTT--------G-----AAAA-CAAAATTGAAAAACAGAAATTGAAAATACCTCA
216212527 GCGTG
168 GCGTG
* * *
216212532 CCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAA-TTGAAAAAAC
1 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA-CA-AAATTTG-AAAAAC
* * * *
216212596 GGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATT
62 AGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
216212661 TTT
127 TTT
216212664 TTGAAAGATA
Statistics
Matches: 1091, Mismatches: 105, Indels: 177
0.79 0.08 0.13
Matches are distributed among these distances:
144 76 0.07
145 20 0.02
146 38 0.03
147 82 0.08
148 171 0.16
149 5 0.00
150 3 0.00
157 2 0.00
160 6 0.01
161 9 0.01
162 56 0.05
163 32 0.03
165 32 0.03
172 8 0.01
173 28 0.03
174 5 0.00
175 4 0.00
176 7 0.01
177 5 0.00
178 87 0.08
180 29 0.03
181 107 0.10
182 18 0.02
183 36 0.03
184 3 0.00
186 13 0.01
187 34 0.03
188 58 0.05
189 43 0.04
197 2 0.00
198 54 0.05
199 9 0.01
200 9 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (172 bp):
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTGAAAAACAGAA
ATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAACAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTG
Found at i:216212107 original size:73 final size:74
Alignment explanation
Indices: 216211705--216212306 Score: 819
Period size: 73 Copynumber: 8.2 Consensus size: 74
216211695 GAAATTGAAG
* * * * *
216211705 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
216211768 TTTTTTTGA-A
65 -TTTTTTGACA
216211778 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
216211843 -TTTTTGACA
65 TTTTTTGACA
* * * *
216211852 AACAAAAATTGAAATTACCTC-AC--GTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
216211914 TTTTTGAAA
66 TTTTTGACA
* *
216211923 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
216211988 TTTTTTA-A
66 TTTTTGACA
216211996 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
216212061 -TTTTTGACA
65 TTTTTTGACA
* * * * *
216212070 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
216212135 TTTTTTGAAA
65 TTTTTTGACA
*
216212145 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
216212209 GTTTTGACA
66 TTTTTGACA
* * * * *
216212218 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
216212283 TTTTTTAGA
66 TTTTTGACA
* *
216212292 AACATAAATTAAAAA
1 AACAGAAATTGAAAA
216212307 AACGAAAATT
Statistics
Matches: 472, Mismatches: 44, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
70 36 0.08
71 27 0.06
72 4 0.01
73 157 0.33
74 144 0.31
75 67 0.14
76 37 0.08
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGACA
Found at i:216212499 original size:99 final size:97
Alignment explanation
Indices: 216212304--216212663 Score: 456
Period size: 99 Copynumber: 3.7 Consensus size: 97
216212294 CATAAATTAA
*
216212304 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
216212368 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAA-AT-TAA-GC-AAAATTG
216212403 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
216212468 GATTTTTGAAAAACAGAAATTAAAAGCAAAATTG
66 GATTTTTGAAAAGCAGAAATT--AAGCAAAATTG
* * * *
216212502 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
216212567 GATTTTTGAAAAGCATAAATT--G----A---
66 GATTTTTGAAAAGCAGAAATTAAGCAAAATTG
* * *
216212590 AAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
216212655 TTGATTTTT
64 TTGATTTTT
216212664 TTGAAAGATA
Statistics
Matches: 238, Mismatches: 16, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
88 24 0.10
90 41 0.17
91 1 0.00
95 1 0.00
99 152 0.64
100 4 0.02
101 15 0.06
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (97 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTAAGCAAAATTG
Found at i:216212513 original size:14 final size:13
Alignment explanation
Indices: 216212476--216212519 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
216212466 TTGATTTTTG
216212476 AAAAACAGAAATT
1 AAAAACAGAAATT
*
216212489 AAAAGCA-AAATT
1 AAAAACAGAAATT
216212501 GAAAAACAGAAATT
1 -AAAAACAGAAATT
216212515 AAAAA
1 AAAAA
216212520 TACCTCGGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 17 0.63
14 5 0.19
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:216212656 original size:90 final size:86
Alignment explanation
Indices: 216212489--216212663 Score: 251
Period size: 90 Copynumber: 2.0 Consensus size: 86
216212479 AACAGAAATT
* * *
216212489 AAAAGCAAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCT
1 AAAAGCAAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTCT
216212554 CGCAATATGAGTTGATTTTTG
66 CGCAATATGAGTTGATTTTTG
* * * *
216212575 AAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCAC
1 AAAAGCA-AAATTG-AAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCAC
216212640 CTCTCGCAATATGAGTTGATTTTT
62 CTCTCGCAATATGAGTTGATTTTT
216212664 TTGAAAGATA
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 7 0.09
87 6 0.08
88 22 0.28
89 1 0.01
90 42 0.54
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (86 bp):
AAAAGCAAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTCT
CGCAATATGAGTTGATTTTTG
Found at i:216223675 original size:40 final size:40
Alignment explanation
Indices: 216223601--216223754 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
216223591 CCGCACCAAG
* * * * * *
216223601 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
216223641 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
** * *
216223681 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * *
216223721 GTCC-TCGGGACTTAGCCCGGATATCACAATTTGC
1 G-CCTTCGGGTCTTAGCCCGGATATAACAACTTGC
216223755 TCATGCACAC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 91 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:216231843 original size:40 final size:40
Alignment explanation
Indices: 216231769--216231922 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
216231759 CCGCACCAAG
* * * * * *
216231769 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
216231809 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
** * *
216231849 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * *
216231889 GTCC-TCGGGACTTAGCCCGGATATCACAATTTGC
1 G-CCTTCGGGTCTTAGCCCGGATATAACAACTTGC
216231923 TCATGCACAC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 91 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:216236565 original size:29 final size:28
Alignment explanation
Indices: 216236523--216236581 Score: 100
Period size: 29 Copynumber: 2.1 Consensus size: 28
216236513 NNNNNNNNNN
*
216236523 CATATATTTCCAGCATGCACACTTAGTGC
1 CATATATTTCCAGCACGCACAC-TAGTGC
216236552 CATATATTTCCAGCACGCACACTAGTGC
1 CATATATTTCCAGCACGCACACTAGTGC
216236580 CA
1 CA
216236582 ATCTCGTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (28 bp):
CATATATTTCCAGCACGCACACTAGTGC
Found at i:216244249 original size:29 final size:28
Alignment explanation
Indices: 216244216--216244288 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
216244206 CCTTCGAGCT
216244216 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
*
216244245 TGCACACTTAGTGCCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
216244273 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
216244289 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:216244277 original size:28 final size:29
Alignment explanation
Indices: 216244158--216244288 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
216244148 TACTCGATTT
** * *
216244158 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
216244187 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
216244216 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
216244245 TGCACACTTAGTGCCATAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
216244273 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
216244289 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 26 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:216251507 original size:42 final size:42
Alignment explanation
Indices: 216251460--216251573 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
216251450 TGAGATTACT
* * *
216251460 TGTAAGACCATATCTGAGATATGGAATTGATACGAGA-CTTCG
1 TGTAAGACCATATCTGAGATATGGCATTGATACGAGATC-CCA
* * * *
216251502 TGTAAGACTATATCTGGGCTATTGGCATTGATATGAGATCCCA
1 TGTAAGACCATATCTGAGATA-TGGCATTGATACGAGATCCCA
*
216251545 TGTAAGACCATATCTGTGATATGGCATTG
1 TGTAAGACCATATCTGAGATATGGCATTG
216251574 GTATGGTGCT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 26 0.43
43 33 0.55
44 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATCTGAGATATGGCATTGATACGAGATCCCA
Found at i:216253642 original size:63 final size:64
Alignment explanation
Indices: 216253496--216253642 Score: 156
Period size: 67 Copynumber: 2.3 Consensus size: 64
216253486 GAGTGCACAT
* * * *
216253496 CATGTGTACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGAC
1 CATGTGTACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGT--AGGAC
216253561 AC
63 AC
* * **
216253563 CATGTAG-ACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGT-GTTCA
1 CATGT-GTACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTAGGACA
216253625 C
64 C
216253626 CATGTGTACAAGAGAGC
1 CATGTGTACAAGAGAGC
216253643 AGAACTATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.28
66 22 0.32
67 24 0.35
68 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
CATGTGTACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTAGGACAC
Found at i:216254726 original size:2 final size:2
Alignment explanation
Indices: 216254719--216254743 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
216254709 TCATGACATG
216254719 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 T
216254744 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:216259471 original size:30 final size:30
Alignment explanation
Indices: 216259435--216259535 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
216259425 GACAAGATTG
* * *
216259435 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
216259465 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
216259493 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
216259522 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
216259536 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:216259547 original size:29 final size:28
Alignment explanation
Indices: 216259464--216259539 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
216259454 AAAATTGTAC
* *
216259464 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
216259492 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
216259521 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
216259540 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:216264345 original size:16 final size:16
Alignment explanation
Indices: 216264326--216264356 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
216264316 CTTCTTCACT
216264326 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
216264342 TACTTACTTACTTAA
1 TACTCACTTACTTAA
216264357 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:216264362 original size:20 final size:20
Alignment explanation
Indices: 216264323--216264362 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
216264313 AAACTTCTTC
* *
216264323 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
216264343 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
216264363 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:216264738 original size:55 final size:53
Alignment explanation
Indices: 216264548--216264801 Score: 234
Period size: 53 Copynumber: 4.8 Consensus size: 53
216264538 ACACGGGTAC
* * * * *
216264548 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
216264597 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
216264650 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
216264705 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
** * * *
216264758 CCTTACCAATTTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
216264802 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 39 0.23
55 41 0.24
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:216264739 original size:108 final size:109
Alignment explanation
Indices: 216264595--216264794 Score: 314
Period size: 108 Copynumber: 1.8 Consensus size: 109
216264585 ATCCTTTTGA
* *
216264595 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
216264658 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
216264703 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
**
216264768 TTCATGCCTTGGCATGGTCTTACATGG
66 GCCATGCCTTGGCATGGTCTTACATGG
216264795 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 33 0.40
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:216272042 original size:16 final size:16
Alignment explanation
Indices: 216272023--216272053 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
216272013 CTTCTTCACT
216272023 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
216272039 TACTTACTTACTTAA
1 TACTCACTTACTTAA
216272054 TCAATTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:216272169 original size:23 final size:24
Alignment explanation
Indices: 216272131--216272175 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
216272121 TTTGCTCTTC
*
216272131 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
216272155 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
216272176 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:216272428 original size:54 final size:53
Alignment explanation
Indices: 216272289--216272495 Score: 204
Period size: 54 Copynumber: 3.8 Consensus size: 53
216272279 ATCCTTTTGA
* *
216272289 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
216272342 AACTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG-CTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* ***
216272395 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * * *
216272448 AAACCTTACCAATTTCCATGCCTTGGCATGGTCTTATATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
216272496 ACACCCTAAT
Statistics
Matches: 125, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
52 7 0.06
53 41 0.33
54 42 0.34
55 35 0.28
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:216275491 original size:16 final size:16
Alignment explanation
Indices: 216275472--216275502 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
216275462 CTTCTTCACT
216275472 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
216275488 TACTTACTTACTTAA
1 TACTCACTTACTTAA
216275503 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:216275508 original size:20 final size:20
Alignment explanation
Indices: 216275469--216275508 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
216275459 AAACTTCTTC
* *
216275469 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
216275489 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
216275509 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:216275768 original size:49 final size:51
Alignment explanation
Indices: 216275694--216275946 Score: 219
Period size: 49 Copynumber: 4.8 Consensus size: 51
216275684 ACACGGGTAC
* * *
216275694 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT-TT-GAAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCTTAGAAA
* *
216275743 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT--CTTA-GAAA
* * * * *
216275796 CTCACCAATG-CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCTTATAGTAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TT-C-T-TAGAAA
* * * * *
216275849 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT--CTTAGAAA
* *
216275902 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACC-ATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
216275947 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 26, Indels: 22
0.77 0.12 0.10
Matches are distributed among these distances:
49 39 0.24
51 3 0.02
52 30 0.18
53 27 0.16
54 31 0.19
55 34 0.21
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (51 bp):
CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTCTTAGAAA
Found at i:216278563 original size:6 final size:6
Alignment explanation
Indices: 216278540--216278661 Score: 79
Period size: 6 Copynumber: 19.8 Consensus size: 6
216278530 TATCAAAACT
* * * *
216278540 AGAATC AAAATG AAAATC AGAATC AGAATC A-AGTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * *
216278589 AGAATC AGAATT AGAATT AG-GTGAC AGAATT AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
216278638 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
216278662 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 7 0.08
8 4 0.04
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:216278581 original size:19 final size:19
Alignment explanation
Indices: 216278557--216278626 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
216278547 AAATGAAAAT
216278557 CAGAATCAGAATCAAGTGA
1 CAGAATCAGAATCAAGTGA
*
216278576 CAGAATCAGAATC-AG-AA
1 CAGAATCAGAATCAAGTGA
* * *
216278593 TCAGAATTAGAATTAGGTGA
1 -CAGAATCAGAATCAAGTGA
*
216278613 CAGAATTAGAATCA
1 CAGAATCAGAATCA
216278627 GAATCAGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
19 27 0.64
20 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATCAAGTGA
Found at i:216278592 original size:31 final size:31
Alignment explanation
Indices: 216278554--216278661 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 31
216278544 TCAAAATGAA
216278554 AATCAGAATCAGAATCAAGTGACAGAATCAG
1 AATCAGAATCAGAATCAAGTGACAGAATCAG
* *
216278585 AATCAGAATCAGAATTAGAATTAGGTGACAGAATTAG
1 AATCAGAATCAGAA-T--CA--A-GTGACAGAATCAG
* * * *
216278622 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAAGTGACAGAATCAG
216278653 AATCAGAAT
1 AATCAGAAT
216278662 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
31 33 0.52
32 1 0.02
34 2 0.03
36 2 0.03
37 25 0.40
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATCAAGTGACAGAATCAG
Found at i:216278661 original size:37 final size:37
Alignment explanation
Indices: 216278540--216278661 Score: 130
Period size: 37 Copynumber: 3.5 Consensus size: 37
216278530 TATCAAAACT
* * *
216278540 AGAATCAAAATGAAAATCAGAATCAGAATCAAGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
216278577 AGAATCAGAATCAGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
216278614 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
216278645 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
216278662 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
31 26 0.38
32 1 0.01
36 1 0.01
37 41 0.59
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:216278855 original size:29 final size:27
Alignment explanation
Indices: 216278798--216278861 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
216278788 GTTACAAAGT
* *
216278798 CACCAGATACAGATATTGTGGCTAGGC
1 CACCAGATACAGATATTGTGGCGAAGC
216278825 CACCAGA-ACAGATATATATGTGGCGAAGC
1 CACCAGATACAG--ATAT-TGTGGCGAAGC
*
216278854 CACTAGAT
1 CACCAGAT
216278862 TGCAGCGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.13
27 7 0.23
28 4 0.13
29 15 0.50
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCGAAGC
Found at i:216278935 original size:67 final size:68
Alignment explanation
Indices: 216278807--216278946 Score: 192
Period size: 67 Copynumber: 2.1 Consensus size: 68
216278797 TCACCAGATA
* * * *
216278807 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACTAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGA-ATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
*
216278872 CTGC
65 CTAC
* * *
216278876 CAGATATTGTGACGAAGTCACCAGAACAG-ATATATGTGGCGAGGCCACCGGATTGCAGCGAGGC
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
216278940 TAC
66 TAC
216278943 CAGA
1 CAGA
216278947 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 38 0.60
69 25 0.40
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
TAC
Found at i:216279193 original size:27 final size:27
Alignment explanation
Indices: 216279163--216279349 Score: 223
Period size: 27 Copynumber: 6.9 Consensus size: 27
216279153 TAACACCCTA
* * *
216279163 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
216279190 AGGGTAAAACT-GTAATTCTGTAAATCG
1 AGGGTAAAA-TAGTAATTCTGTAAATCG
*
216279217 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
216279244 AGGGTAAAATAGTAATTTTGTAAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
216279271 AGGGTAAAATAGTAATTCTGTTAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * * *
216279298 AGGGTAAAACAGTAATTTTGTAAGTCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
* ** *
216279325 AAGGTAAAACGGTAATTCTATAAAT
1 AGGGTAAAATAGTAATTCTGTAAAT
216279350 TAGGGTACTT
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
27 138 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
AGGGTAAAATAGTAATTCTGTAAATCG
Found at i:216279276 original size:81 final size:81
Alignment explanation
Indices: 216279163--216279349 Score: 259
Period size: 81 Copynumber: 2.3 Consensus size: 81
216279153 TAACACCCTA
* *
216279163 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACT-GTAATTCTGTAAATCGAGGGTAAAAC
1 AGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAA-TAGTAATTCTGTAAATCGAGGGTAAAAC
216279227 AGTAATTCTGTAAATCG
65 AGTAATTCTGTAAATCG
* *
216279244 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTTAATCGAGGGTAAAACA
1 AGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACA
* * *
216279309 GTAATTTTGTAAGTCA
66 GTAATTCTGTAAATCG
* ** *
216279325 AAGGTAAAACGGTAATTCTATAAAT
1 AGGGTAAAATAGTAATTTTATAAAT
216279350 TAGGGTACTT
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 92 0.99
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (81 bp):
AGGGTAAAATAGTAATTTTATAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACA
GTAATTCTGTAAATCG
Found at i:216279404 original size:27 final size:27
Alignment explanation
Indices: 216279363--216279422 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
216279353 GGTACTTTGG
216279363 TAATTTTACACGTCGAGGATATTTCAA
1 TAATTTTACACGTCGAGGATATTTCAA
* * *
216279390 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACACGTCGAGGATATTTCAA
216279417 TAATTT
1 TAATTT
216279423 CACAAATCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (27 bp):
TAATTTTACACGTCGAGGATATTTCAA
Found at i:216279436 original size:27 final size:27
Alignment explanation
Indices: 216279406--216279610 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
216279396 TACAGGTCGA
** * *
216279406 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
216279433 GGGTATTTTGGTAAATTTACAAACTAT
1 GGGTATTTTGGTAATTTTACAAACCAG
*
216279460 GGGTATTTTGATAATTTTACAAACCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
216279486 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
216279513 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
216279540 GGGTATTTTAGTAACTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
216279567 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
216279594 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
216279611 GGTAAACTAA
Statistics
Matches: 153, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 25 0.16
27 128 0.84
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:216279518 original size:80 final size:80
Alignment explanation
Indices: 216279405--216279607 Score: 273
Period size: 80 Copynumber: 2.5 Consensus size: 80
216279395 TTACAGGTCG
** * * * *
216279405 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAAATTTACAAACTATGGGTATTTT-
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAAATTTACAAACAAAGGGTATTTTA
*
216279469 GATAATTTTACAAACC
66 G-TAACTTTACAAACC
* *
216279485 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTA
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAAATTTACAAACAAAGGGTATTTTA
216279550 GTAACTTTACAAACC
66 GTAACTTTACAAACC
** *
216279565 AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAA
1 A-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAA
216279608 TTTGGTAAAC
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 70 0.64
81 39 0.36
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAAATTTACAAACAAAGGGTATTTTA
GTAACTTTACAAACC
Found at i:216279520 original size:134 final size:134
Alignment explanation
Indices: 216279351--216279610 Score: 292
Period size: 134 Copynumber: 1.9 Consensus size: 134
216279341 TCTATAAATT
*** ** *
216279351 AGGGTACTTTGGTAATTTTACACGTCGAGGATATTTCAATAATTTTACAGGTC-GAGGGTATTTC
1 AGGGTACTTTGGTAATTTTACAAACCGAGGATATTTCAATAATTTTACA-AACAAAGGGTATTTC
* * *
216279415 AGTAA-TTTCACAAATCAGGGGTATTTTGGTAAATTTACAAACTATGGGTATTTTGATAATTTTA
65 AGTAACTTT-ACAAACCAGGGGTATTTTGGTAAATTTACAAACCAAGGGTATTTTGATAATTTTA
216279479 CAAACC
129 CAAACC
* * *** * *
216279485 AGGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTT
1 AGGGTACTTTGGTAATTTTACAAACCGA-GGATATTTCAATAATTTTACAAACAAAGGGTATTTC
* ** *
216279549 AGTAACTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
65 AGTAACTTTACAAACCAGGGGTATTTTGGTAAATTTACAAACCAAGGGTATTTTGATAATTT
216279611 GGTAAACTAA
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
133 2 0.02
134 98 0.95
135 3 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (134 bp):
AGGGTACTTTGGTAATTTTACAAACCGAGGATATTTCAATAATTTTACAAACAAAGGGTATTTCA
GTAACTTTACAAACCAGGGGTATTTTGGTAAATTTACAAACCAAGGGTATTTTGATAATTTTACA
AACC
Found at i:216281878 original size:40 final size:39
Alignment explanation
Indices: 216281827--216282017 Score: 165
Period size: 40 Copynumber: 4.8 Consensus size: 39
216281817 GGATATAACG
* *
216281827 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACGAATGCCTTCGGGACTAAGCCCGGTT-TAGTA
216281867 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGAC-TAAGCCC-GGTTTAGTA
* * *
216281907 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTAAGCCCGG-TTTAGTA
** * * * *
216281946 ACTCTTACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTAAGCCCGG-TTTAGTA
* * *
216281986 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTAAGCCCGG
216282018 ACATCATTCA
Statistics
Matches: 126, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
38 6 0.05
39 25 0.20
40 83 0.66
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
ACTCGCACGAATGCCTTCGGGACTAAGCCCGGTTTAGTA
Found at i:216281948 original size:79 final size:81
Alignment explanation
Indices: 216281827--216282018 Score: 214
Period size: 79 Copynumber: 2.4 Consensus size: 81
216281817 GGATATAACG
* * **
216281827 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-C
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATC
* *
216281890 TTAACCCGGGTTTAGTA
65 TTAACCCGGATATAGTA
* **
216281907 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCTTACGAATGCCTTCGGATCT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCT
** *
216281970 TAGTCCGGATATAGTC
66 TAACCCGGATATAGTA
*
216281986 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
216282019 CATCATTCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.55
80 40 0.42
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (81 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCT
TAACCCGGATATAGTA
Found at i:216283657 original size:29 final size:29
Alignment explanation
Indices: 216283625--216283702 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
216283615 ATACCCTCCG
** *
216283625 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
216283654 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
216283683 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
216283703 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:216300194 original size:43 final size:43
Alignment explanation
Indices: 216300125--216300246 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 43
216300115 AGCTCGTACA
* * * * *
216300125 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACTTATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAATTAACG
* * * *
216300167 ATGCTAATGTCCCAGACAGGGTCTTACAAGAAATCAATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAATTAACG
* *
216300210 ATGCCAATGTCCCAGACATGATCTGACATGTAATCAA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAA
216300247 ATCTCAATAA
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 4 0.06
43 60 0.94
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAATTAACG
Found at i:216305598 original size:18 final size:18
Alignment explanation
Indices: 216305575--216305610 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
216305565 AAAGTAAGCC
216305575 ATGTTCCAAAAAATCATT
1 ATGTTCCAAAAAATCATT
216305593 ATGTTCCAAAAAATCATT
1 ATGTTCCAAAAAATCATT
216305611 TTTCAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
ATGTTCCAAAAAATCATT
Found at i:216306611 original size:22 final size:23
Alignment explanation
Indices: 216306586--216306630 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
216306576 AATATATATA
*
216306586 TATATATGT-TTACAAAATAAAC
1 TATAAATGTATTACAAAATAAAC
*
216306608 TATAAATGTAATTGCAAAATAAA
1 TATAAATGT-ATTACAAAATAAA
216306631 TTAAGCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (23 bp):
TATAAATGTATTACAAAATAAAC
Found at i:216308966 original size:21 final size:20
Alignment explanation
Indices: 216308942--216308981 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
216308932 CATGTATCTT
216308942 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
216308963 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
216308982 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:216308989 original size:20 final size:21
Alignment explanation
Indices: 216308947--216308989 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
216308937 ATCTTAATGA
*
216308947 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
216308968 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
216308988 TT
1 TT
216308990 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:216309514 original size:41 final size:42
Alignment explanation
Indices: 216309469--216309658 Score: 144
Period size: 41 Copynumber: 4.5 Consensus size: 42
216309459 ATTTCAGATA
216309469 TATATATATGGCACTTA-TGTGTGATTCGAGATAGCTTCGGC
1 TATATATATGGCACTTAGTGTGTGATTCGAGATAGCTTCGGC
* * * *
216309510 TATATATATATATGGCACTTAGTGTGCGGTTCGAAATAGCTTCAGC
1 ----TATATATATGGCACTTAGTGTGTGATTCGAGATAGCTTCGGC
* **
216309556 TAT-T-TGTGGCACTTAGTGTGTGAGACTGAGATAGCTTCGGC
1 TATATATATGGCACTTAGTGTGTGATTC-GAGATAGCTTCGGC
* * *
216309597 TATGA-A-A-GGCACTTAGTGTGCGAGATT-AAAATAGCTTCGGC
1 TAT-ATATATGGCACTTAGTGT--GTGATTCGAGATAGCTTCGGC
* *
216309638 TATGT-TTTGGCACTTAGTGTG
1 TATATATATGGCACTTAGTGTG
216309659 CAAGAATTTG
Statistics
Matches: 116, Mismatches: 19, Indels: 25
0.73 0.12 0.16
Matches are distributed among these distances:
40 18 0.16
41 43 0.37
42 15 0.13
43 3 0.03
45 17 0.15
46 20 0.17
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (42 bp):
TATATATATGGCACTTAGTGTGTGATTCGAGATAGCTTCGGC
Found at i:216309529 original size:45 final size:46
Alignment explanation
Indices: 216309466--216309558 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
216309456 GACATTTCAG
* * *
216309466 ATATATATATATGGCACTTA-TGTGTGATTCGAGATAGCTTCGGCT
1 ATATATATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCAGCT
*
216309511 ATATATATATATGGCACTTAGTGTGCGGTTCGAAATAGCTTCAGCT
1 ATATATATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCAGCT
216309557 AT
1 AT
216309559 TTGTGGCACT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 20 0.47
46 23 0.53
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (46 bp):
ATATATATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCAGCT
Found at i:216325446 original size:40 final size:39
Alignment explanation
Indices: 216325335--216325485 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
216325325 TATAATCAGT
* * *
216325335 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
216325375 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
216325415 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
216325455 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
216325486 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:216325469 original size:80 final size:79
Alignment explanation
Indices: 216325335--216325485 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
216325325 TATAATCAGT
*
216325335 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
216325400 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
216325415 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
216325478 CCGGATAT
64 CCGGATAT
216325486 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:216326328 original size:17 final size:19
Alignment explanation
Indices: 216326305--216326350 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
216326295 AAGAAGCATG
216326305 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
216326323 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
216326341 AATCATGCTC
1 AATCATGCTC
216326351 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:216327718 original size:30 final size:30
Alignment explanation
Indices: 216327674--216327762 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
216327664 CAAAGATAAC
216327674 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
216327703 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
216327733 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
216327763 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:216327722 original size:15 final size:15
Alignment explanation
Indices: 216327674--216327753 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
216327664 CAAAGATAAC
*
216327674 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
216327688 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
216327703 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
216327718 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
216327733 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
216327748 AAGAAA
1 AAGAAA
216327754 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:216327762 original size:15 final size:15
Alignment explanation
Indices: 216327685--216327762 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
216327675 AGAAAACCGA
216327685 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
216327700 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
216327714 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
216327729 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
216327745 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
216327760 ATA
1 ATA
216327763 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:216330820 original size:93 final size:93
Alignment explanation
Indices: 216330708--216330879 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
216330698 GCCCATAAGT
* *
216330708 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
216330773 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
216330801 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
216330866 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
216330880 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:216330875 original size:46 final size:46
Alignment explanation
Indices: 216330700--216330875 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
216330690 TGTAACCCGC
* * *
216330700 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
216330746 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
216330796 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
216330839 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
216330876 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, 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 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:216332418 original size:14 final size:14
Alignment explanation
Indices: 216332399--216332428 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
216332389 CACATTCCGA
216332399 CTAGACTCGATAAG
1 CTAGACTCGATAAG
216332413 CTAGACTCGATAAG
1 CTAGACTCGATAAG
216332427 CT
1 CT
216332429 TCAATTCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (14 bp):
CTAGACTCGATAAG
Found at i:216348544 original size:29 final size:29
Alignment explanation
Indices: 216348511--216348670 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
216348501 GTGACGAGAT
216348511 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
216348540 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
216348569 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
216348598 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
216348627 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
216348656 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
216348671 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:216356586 original size:29 final size:29
Alignment explanation
Indices: 216356553--216356712 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
216356543 GTGACGAGAT
216356553 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
216356582 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
216356611 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
216356640 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
216356669 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
216356698 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
216356713 GAAATGAGTA
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:216364829 original size:28 final size:27
Alignment explanation
Indices: 216364766--216364835 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
216364756 ATAGTGAGTC
216364766 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
216364793 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
216364821 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
216364836 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:216372816 original size:28 final size:27
Alignment explanation
Indices: 216372753--216372822 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
216372743 ATAGTGAGTC
216372753 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
216372780 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
216372808 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
216372823 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:216376607 original size:40 final size:40
Alignment explanation
Indices: 216376488--216376906 Score: 656
Period size: 40 Copynumber: 10.7 Consensus size: 40
216376478 CCAGCATGAT
*** *
216376488 TGCTCTTCGGGACCCAG-CCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
* *
216376527 TGCTCTTCGGGATTTAG-CCCGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
*
216376566 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
*
216376606 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
216376646 TGCTC-TCGGGATTTAG-CCGGATATATCACTAGCAC-AA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
*
216376683 TGCTCTTC-GGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
216376722 TGCTCTTC-GGATTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
* *
216376761 TGCTCTTCGGGATTTAG-CCGGATACATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
216376800 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
*
216376840 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
* *
216376880 TGCTCTTCGGGATTTAGCCCGGCTATA
1 TGCTCTTCGGGATTTAGTCCGGATATA
216376907 CAACTCTCAA
Statistics
Matches: 356, Mismatches: 18, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
37 15 0.04
38 38 0.11
39 148 0.42
40 155 0.44
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
Found at i:216379165 original size:2 final size:2
Alignment explanation
Indices: 216379158--216379186 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
216379148 TTTGGCCACA
216379158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
216379187 CATCTCATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:216379255 original size:46 final size:46
Alignment explanation
Indices: 216379188--216379321 Score: 137
Period size: 46 Copynumber: 2.9 Consensus size: 46
216379178 ATATATATAC
* * *
216379188 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * *
216379234 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATATAT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * * *
216379280 A-CAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 ATC-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACA
216379322 CATACGCATG
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 6 0.08
46 43 0.59
47 24 0.33
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (46 bp):
ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
Found at i:216379313 original size:47 final size:47
Alignment explanation
Indices: 216379251--216379511 Score: 436
Period size: 47 Copynumber: 5.6 Consensus size: 47
216379241 ACACATTTCG
* * * *
216379251 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216379298 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216379345 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216379392 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
216379439 CATTGGCCATTCGGCCTTATCACACAT--ACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216379484 CATTGGCCATTCGGCCTTATCACGCATA
1 CATTGGCCATTCGGCCTTATCACACATA
216379512 TATATACAGG
Statistics
Matches: 206, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
45 43 0.21
47 163 0.79
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
Found at i:216383080 original size:40 final size:40
Alignment explanation
Indices: 216382961--216383458 Score: 815
Period size: 40 Copynumber: 12.6 Consensus size: 40
216382951 CCAGCATGAT
***
216382961 TGCTCTTCGGGACCCAG-CCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
*
216383000 TGCTCTTCGGGATTTAG-CCCGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
216383039 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
216383079 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
*
216383119 TGCTC-TCGGGATTTAGTCCGGATACATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
216383158 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* * *
216383198 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
216383238 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
216383278 TGCTCTTCGGGATTTAG-CCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
216383317 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
*
216383357 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
216383397 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
216383437 TGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGATTTAGTCCGG
216383459 CTATACAACT
Statistics
Matches: 432, Mismatches: 24, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
39 127 0.29
40 305 0.71
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
Found at i:216383171 original size:119 final size:120
Alignment explanation
Indices: 216382961--216383458 Score: 833
Period size: 119 Copynumber: 4.2 Consensus size: 120
216382951 CCAGCATGAT
*** *
216382961 TGCTCTTCGGGACCCAG-CCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAG-CCCGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
* *
216383024 CATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
*
216383079 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTC-TCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
* * *
216383143 CATCACTAGCACAAATGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
* *
216383198 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACAAATGCTCTTCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
216383263 CATCACTAGCACGAATGCTCTTCGGGATTTAG-CCGGATATATCACTAGCACAAA
66 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
*
216383317 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
*
216383382 TATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
66 CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
*
216383437 TGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGATTTAGCCCGG
216383459 CTATACAACT
Statistics
Matches: 357, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
118 25 0.07
119 240 0.67
120 92 0.26
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (120 bp):
TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATA
CATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
Found at i:216383249 original size:159 final size:159
Alignment explanation
Indices: 216382961--216383455 Score: 868
Period size: 159 Copynumber: 3.1 Consensus size: 159
216382951 CCAGCATGAT
*** * *
216382961 TGCTCTTCGGGACCCAGCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAG-CCCGATAC
1 TGCTCTTCGGGATTTAGCCGGATACATCACTAGCACAAATGCTCTTCGGGATTTAGTCCGGATAC
216383025 ATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGG
66 ATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGG
216383090 ATTTAGTCCGGATACATCACTAGCACGAA
131 ATTTAGTCCGGATACATCACTAGCACGAA
216383119 TGCTC-TCGGGATTTAGTCCGGATACATCACTAGCACAAATGCTCTTCGGGATTTAGTCCGGATA
1 TGCTCTTCGGGATTTAG-CCGGATACATCACTAGCACAAATGCTCTTCGGGATTTAGTCCGGATA
*
216383183 CATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACAAATGCTCTTCGG
65 CATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGG
216383248 GATTTAGTCCGGATACATCACTAGCACGAA
130 GATTTAGTCCGGATACATCACTAGCACGAA
*
216383278 TGCTCTTCGGGATTTAGCCGGATATATCACTAGCACAAATGCTCTTCGGGATTTAGTCCGGATAC
1 TGCTCTTCGGGATTTAGCCGGATACATCACTAGCACAAATGCTCTTCGGGATTTAGTCCGGATAC
*
216383343 ATCACTAGCACGAATGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAATGCTCTTCGGG
66 ATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGG
* *
216383408 ATTTAGTCCGGATATATCACTAGCACAAA
131 ATTTAGTCCGGATACATCACTAGCACGAA
*
216383437 TGCTCTTCGGGACTTAGCC
1 TGCTCTTCGGGATTTAGCC
216383456 CGGCTATACA
Statistics
Matches: 322, Mismatches: 12, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
157 8 0.02
158 43 0.13
159 260 0.81
160 11 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (159 bp):
TGCTCTTCGGGATTTAGCCGGATACATCACTAGCACAAATGCTCTTCGGGATTTAGTCCGGATAC
ATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGG
ATTTAGTCCGGATACATCACTAGCACGAA
Found at i:216385724 original size:2 final size:2
Alignment explanation
Indices: 216385717--216385747 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
216385707 TTTGGCCACA
216385717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
216385748 CATCTCATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:216385816 original size:46 final size:46
Alignment explanation
Indices: 216385749--216385882 Score: 137
Period size: 46 Copynumber: 2.9 Consensus size: 46
216385739 ATATATATAC
* * *
216385749 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * *
216385795 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATATAT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * * *
216385841 A-CAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 ATC-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACA
216385883 CATACGCATG
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 6 0.08
46 43 0.59
47 24 0.33
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (46 bp):
ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
Found at i:216385874 original size:47 final size:47
Alignment explanation
Indices: 216385812--216386027 Score: 369
Period size: 47 Copynumber: 4.6 Consensus size: 47
216385802 ACACATTTCG
* * * *
216385812 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216385859 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216385906 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
216385953 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216386000 CATTGGCCATTCGGCCTTATCACGCATA
1 CATTGGCCATTCGGCCTTATCACACATA
216386028 TATATACAGG
Statistics
Matches: 162, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 162 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
Found at i:216385915 original size:94 final size:94
Alignment explanation
Indices: 216385812--216386053 Score: 376
Period size: 94 Copynumber: 2.5 Consensus size: 94
216385802 ACACATTTCG
*
216385812 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
216385877 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATACACATGTTCACATTCATCA
* * **
216385906 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
216385971 ATCACACATACACATGTTCACATTCATCA
66 ATCACACATACACATGTTCACATTCATCA
* *
216386000 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACAT
1 CATTGGCCATTCGGCC-T-T-AC-CACATATATACATGTTCACATTCATCACAT
216386054 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 104 0.79
95 1 0.01
96 1 0.01
97 1 0.01
98 25 0.19
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACACATGTTCACATTCATCA
Found at i:216389546 original size:40 final size:40
Alignment explanation
Indices: 216389478--216389937 Score: 780
Period size: 40 Copynumber: 11.6 Consensus size: 40
216389468 CCAGCATGAT
***
216389478 TGCTCTTCGGGACCCAG-CCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
*
216389517 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
216389557 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
216389597 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
216389637 TGCTC-TCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
216389676 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
216389716 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* * *
216389756 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
216389796 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
*
216389836 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
216389876 TGCTCTTCGGGATTTAGTCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
* *
216389916 TGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGATTTAGTCCGG
216389938 CTATACAACT
Statistics
Matches: 403, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 53 0.13
40 350 0.87
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGATTTAGTCCGGATACATCACTAGCACGAA
Found at i:216392203 original size:2 final size:2
Alignment explanation
Indices: 216392196--216392226 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
216392186 TTTGGCCACA
216392196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
216392227 CATCTCATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:216392295 original size:46 final size:46
Alignment explanation
Indices: 216392228--216392361 Score: 137
Period size: 46 Copynumber: 2.9 Consensus size: 46
216392218 ATATATATAC
* * *
216392228 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * *
216392274 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATATAT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * * *
216392320 A-CAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 ATC-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACA
216392362 CATACGCATG
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 6 0.08
46 43 0.59
47 24 0.33
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (46 bp):
ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
Found at i:216392353 original size:47 final size:47
Alignment explanation
Indices: 216392291--216392506 Score: 369
Period size: 47 Copynumber: 4.6 Consensus size: 47
216392281 ACACATTTCG
* * * *
216392291 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216392338 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216392385 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
216392432 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
216392479 CATTGGCCATTCGGCCTTATCACGCATA
1 CATTGGCCATTCGGCCTTATCACACATA
216392507 TATATACAGG
Statistics
Matches: 162, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 162 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
Found at i:216392394 original size:94 final size:94
Alignment explanation
Indices: 216392291--216392532 Score: 376
Period size: 94 Copynumber: 2.5 Consensus size: 94
216392281 ACACATTTCG
*
216392291 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
216392356 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATACACATGTTCACATTCATCA
* * **
216392385 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
216392450 ATCACACATACACATGTTCACATTCATCA
66 ATCACACATACACATGTTCACATTCATCA
* *
216392479 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACAT
1 CATTGGCCATTCGGCC-T-T-AC-CACATATATACATGTTCACATTCATCACAT
216392533 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 104 0.79
95 1 0.01
96 1 0.01
97 1 0.01
98 25 0.19
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACACATGTTCACATTCATCA
Found at i:216396000 original size:40 final size:40
Alignment explanation
Indices: 216395975--216396495 Score: 902
Period size: 40 Copynumber: 13.1 Consensus size: 40
216395965 GGACCCAGCT
216395975 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAG-C
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
* *
216396014 CCGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
*
216396054 CGGATATATCACTAGCACGAATGCTCTTCGGGATTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
216396094 CGGATACATCACTAGCACGAATGCTC-TCGGGATTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
*
216396133 CGGATACATCACTAGCACAAATGCTCTTCGGGATTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
216396173 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
*
216396213 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
*
216396253 CGGATACATCACTAGCACAAATGCTCTTCGGGATTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
*
216396293 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
* *
216396333 CGGATATATCACTAGCACAAATGCTCTTCGGGATTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
216396373 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
*
216396413 CGGATATATCACTAGCACGAATGCTCTTCGGGATTTAGTC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
* * * *
216396453 CGGATATATCACTAGCACAAATGCTCTTCGGGACTTAGCC
1 CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
216396493 CGG
1 CGG
216396496 CTATACAACT
Statistics
Matches: 459, Mismatches: 21, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 75 0.16
40 384 0.84
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTC
Found at i:216398843 original size:46 final size:46
Alignment explanation
Indices: 216398776--216398941 Score: 138
Period size: 46 Copynumber: 3.8 Consensus size: 46
216398766 ATATATATAC
* * *
216398776 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* *
216398822 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATA--T
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * *
216398866 A---CATACA-TTCATCACATT-GCCATTCGGCCTTATCACACATC-
1 ATCTCATACACATC-TCACATTAGCCATTCGGCCTTACCACATATCT
* *
216398907 ATGT--T-CACATTCATCACATTGGCCATTCGGCCTTA
1 ATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA
216398942 TCACCATACG
Statistics
Matches: 100, Mismatches: 11, Indels: 20
0.76 0.08 0.15
Matches are distributed among these distances:
40 20 0.20
41 15 0.15
42 1 0.01
43 10 0.10
44 16 0.16
46 38 0.38
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (46 bp):
ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
Found at i:216399015 original size:47 final size:47
Alignment explanation
Indices: 216398870--216399089 Score: 380
Period size: 47 Copynumber: 4.8 Consensus size: 47
216398860 ACATATACAT
216398870 ACATTCATCACATT-GCCATTCGGCCTTATCACACAT---CATGTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
216398913 ACATTCATCACATTGGCCATTCGGCCTTATCAC-CATACGCATGTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
216398959 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
*
216399006 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
*
216399053 ACATTCATCACATTGGCCATTC-GCCTTATCACGCATA
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATA
216399090 TATATACAGG
Statistics
Matches: 170, Mismatches: 2, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
43 17 0.10
44 18 0.11
46 54 0.32
47 81 0.48
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.30
Consensus pattern (47 bp):
ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
Found at i:216399025 original size:93 final size:92
Alignment explanation
Indices: 216398870--216399089 Score: 376
Period size: 93 Copynumber: 2.4 Consensus size: 92
216398860 ACATATACAT
216398870 ACATTCATCACATT-GCCATTCGGCCTTATCACACAT-CATGTTCACATTCATCACATTGGCCAT
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACATGTTCACATTCATCACATTGGCCAT
*
216398933 TCGGCCTTATCAC-CATACGCATGTTC
66 TCGGCCTTATCACACATACACATGTTC
216398959 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATA--CATGTTCACATTCATCACATTGGCC
216399024 ATTCGGCCTTATCACACATACACATGTTC
64 ATTCGGCCTTATCACACATACACATGTTC
*
216399053 ACATTCATCACATTGGCCATTC-GCCTTATCACGCATA
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATA
216399090 TATATACAGG
Statistics
Matches: 124, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
89 14 0.11
90 22 0.18
93 54 0.44
94 34 0.27
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.30
Consensus pattern (92 bp):
ACATTCATCACATTGGCCATTCGGCCTTATCACACATACATGTTCACATTCATCACATTGGCCAT
TCGGCCTTATCACACATACACATGTTC
Found at i:216399039 original size:22 final size:22
Alignment explanation
Indices: 216398919--216398992 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
216398909 GTTCACATTC
216398919 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
216398941 ATCACCATACG-CATGTTC-ACATT
1 ATCA-CATTGGCCA--TTCGGCCTT
216398964 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
216398987 ATCACA
1 ATCACA
216398993 CATACGCATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
22 15 0.39
23 14 0.37
24 9 0.24
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:216403959 original size:92 final size:93
Alignment explanation
Indices: 216403848--216404018 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
216403838 CGCCCATAAG
* *
216403848 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
216403913 ACGA-TTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
216403940 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
216404005 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
216404019 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 66 0.88
93 9 0.12
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:216404015 original size:46 final size:46
Alignment explanation
Indices: 216403841--216404015 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
216403831 TGTAACCCGC
* * *
216403841 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
216403887 CCATAAGTGAACTCGGACTCAACTCAACGA-TTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
216403936 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
216403979 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
216404016 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 6 0.06
46 80 0.73
47 8 0.07
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:216414972 original size:93 final size:93
Alignment explanation
Indices: 216414860--216415031 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
216414850 CGCCCATAAG
* *
216414860 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
216414925 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
216414953 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
216415018 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
216415032 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:216415028 original size:46 final size:46
Alignment explanation
Indices: 216414853--216415028 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
216414843 TGTAACCCGC
* * *
216414853 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
216414899 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
216414949 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
216414992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
216415029 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 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 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:216419085 original size:27 final size:26
Alignment explanation
Indices: 216419048--216419159 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
216419038 AGCATGGCTG
* *
216419048 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
216419074 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
216419102 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
216419129 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
216419156 CCAG
1 CCAG
216419160 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:216419140 original size:54 final size:54
Alignment explanation
Indices: 216419048--216419159 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
216419038 AGCATGGCTG
* *
216419048 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
216419102 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
216419156 CCAG
1 CCAG
216419160 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:216419312 original size:28 final size:28
Alignment explanation
Indices: 216419265--216419325 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
216419255 AAATTAACCC
*
216419265 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
216419293 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
216419321 TAGGG
1 TAGGG
216419326 ATATTCTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:216426924 original size:27 final size:27
Alignment explanation
Indices: 216426893--216426996 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
216426883 TTGCCAGAAT
* *
216426893 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
216426920 AGAT-ATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
*
216426946 AGAAATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
216426973 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAGAGCCACCAG
216426997 GACGCTTCCC
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
26 8 0.12
27 57 0.85
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:216427144 original size:28 final size:28
Alignment explanation
Indices: 216427097--216427161 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
216427087 AAATTAACCC
*
216427097 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
216427125 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
*
216427153 TAAGGGTAT
1 TAGGGGTAT
216427162 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:216431196 original size:13 final size:13
Alignment explanation
Indices: 216431178--216431202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
216431168 TATTTTCCAA
216431178 TATATATATATAT
1 TATATATATATAT
216431191 TATATATATATA
1 TATATATATATA
216431203 AACCTCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:216434565 original size:43 final size:43
Alignment explanation
Indices: 216434458--216434541 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
216434448 AAATTGATTA
* *
216434458 ACAATGCCAATGTCCTAGACATGATCTTACATGTAATCTCAAT
1 ACAACGCCAATGTCCTAGACATGATCTTACATGTAATCACAAT
*
216434501 ACAACGCCAATGTCCTAGACATGGTCTTACATGTAATCACA
1 ACAACGCCAATGTCCTAGACATGATCTTACATGTAATCACA
216434542 TATCGTAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (43 bp):
ACAACGCCAATGTCCTAGACATGATCTTACATGTAATCACAAT
Found at i:216436397 original size:27 final size:28
Alignment explanation
Indices: 216436340--216436409 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
216436330 AAATTTGTAC
**
216436340 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
216436368 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
216436395 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
216436410 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:216436418 original size:27 final size:27
Alignment explanation
Indices: 216436340--216436421 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
216436330 AAATTTGTAC
* *
216436340 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
216436368 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
216436395 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
216436422 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:216444329 original size:27 final size:28
Alignment explanation
Indices: 216444272--216444341 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
216444262 AAATTTGTAC
**
216444272 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
216444300 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
216444327 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
216444342 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:216444350 original size:27 final size:27
Alignment explanation
Indices: 216444272--216444353 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
216444262 AAATTTGTAC
* *
216444272 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
216444300 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
216444327 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
216444354 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:216449203 original size:40 final size:40
Alignment explanation
Indices: 216449144--216449351 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
216449134 CAATTGAATG
* * * *
216449144 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
216449184 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
216449224 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
216449264 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
216449304 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
216449344 ATATCCGG
1 ATATCCGG
216449352 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:216449282 original size:80 final size:80
Alignment explanation
Indices: 216449146--216449351 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
216449136 ATTGAATGAT
* * ** * * *
216449146 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
216449210 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
216449226 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
216449291 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
216449306 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
216449352 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:216459334 original size:25 final size:25
Alignment explanation
Indices: 216459310--216459357 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
216459300 ATGTGGAATA
*
216459310 ATGTATAGAATACA-ATATTAAAAT
1 ATGTACAGAATACACATATTAAAAT
* *
216459334 ATTTACATAATACACATATTAAAA
1 ATGTACAGAATACACATATTAAAA
216459358 ATAACTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (25 bp):
ATGTACAGAATACACATATTAAAAT
Found at i:216459368 original size:25 final size:24
Alignment explanation
Indices: 216459318--216459370 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
216459308 TAATGTATAG
**
216459318 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
216459342 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
216459367 AATA
1 AATA
216459371 ATATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:216461272 original size:13 final size:13
Alignment explanation
Indices: 216461254--216461278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
216461244 TTTGAAACAT
216461254 AGAAATTAAAAGC
1 AGAAATTAAAAGC
216461267 AGAAATTAAAAG
1 AGAAATTAAAAG
216461279 GCTCAACTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:216461351 original size:68 final size:66
Alignment explanation
Indices: 216461269--216461466 Score: 290
Period size: 67 Copynumber: 2.9 Consensus size: 66
216461259 TTAAAAGCAG
* *
216461269 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAATATGAGTTAAT--TTTGAAAAGTAGATTTTGAAAA
216461334 ACGA
63 ACGA
*
216461338 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAAT-TTTGAAAAGTAGATTTTGAAAAAC
216461403 GA
65 GA
* * *
216461405 AAATTAAAGGCTCAACTCACCTTTCGCAATATGAATTAACTTTTGAAAA-TAGAATTTGAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAA-TTTTGAAAAGTAGATTTTGAAAA
216461467 TACCTTAGCG
Statistics
Matches: 120, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
66 12 0.10
67 69 0.57
68 34 0.28
69 5 0.04
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (66 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTGAAAAGTAGATTTTGAAAAACG
A
Found at i:216461410 original size:67 final size:66
Alignment explanation
Indices: 216461225--216461466 Score: 283
Period size: 67 Copynumber: 3.6 Consensus size: 66
216461215 CAACATATTC
* * * *
216461225 CTCGCAATATGGGTTGATTTTTGAAACATAGAAATT-AAAAGC-AGAAATTAAAAGGCTCAACTC
1 CTCGCAATATGAGTTGATCTTTGAAA-ATAGAATTTGAAAAACGA-AAATT-AAAGGCTCAACTC
216461288 ACCT
63 ACCT
* * * * *
216461292 CTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAACGAAAATTAAAGGCTCAACTCA
1 CTCGCAATATGAGTTGAT-CTTTGAAAA-TAGAATTTGAAAAACGAAAATTAAAGGCTCAACTCA
216461357 CCT
64 CCT
*
216461360 CTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAACGAAAATTAAAGGCTCAACTCAC
1 CTCGCAATATGAGTTGATCTTTGAAAA-TAGAATTTGAAAAACGAAAATTAAAGGCTCAACTCAC
216461425 CT
65 CT
* * *
216461427 TTCGCAATATGAATT-AACTTTTGAAAATAGAATTTGAAAA
1 CTCGCAATATGAGTTGATC-TTTGAAAATAGAATTTGAAAA
216461467 TACCTTAGCG
Statistics
Matches: 154, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
66 14 0.09
67 84 0.55
68 46 0.30
69 9 0.06
70 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.29
Consensus pattern (66 bp):
CTCGCAATATGAGTTGATCTTTGAAAATAGAATTTGAAAAACGAAAATTAAAGGCTCAACTCACC
T
Found at i:216461648 original size:71 final size:71
Alignment explanation
Indices: 216461412--216461663 Score: 290
Period size: 74 Copynumber: 3.5 Consensus size: 71
216461402 CGAAAATTAA
* * * * * *
216461412 AGGCTCAACTCACCTTTCGCAATATGAATTAACTTTTGAAAATAGAATTTGAAAATACCTTAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAA-TTGAAATTACCTCAGCG
* *
216461477 TGCCGCA
65 TGCCCCG
* * *
216461484 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAG
216461549 CGTGCCCCG
63 CGTGCCCCG
* * * *
216461558 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCG
* **
216461622 TGTCTTG
65 TGCCCCG
216461629 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
216461664 CTTGGAAACA
Statistics
Matches: 154, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
71 54 0.35
72 34 0.22
73 3 0.02
74 60 0.39
75 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTGAAATTACCTCAGCGT
GCCCCG
Found at i:216461748 original size:87 final size:85
Alignment explanation
Indices: 216461602--216461759 Score: 253
Period size: 87 Copynumber: 1.8 Consensus size: 85
216461592 TTTGAAACAT
* * *
216461602 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TT
216461667 GGAAACATGAACTAAAAAGCAG
65 -GAAACATGAACTAAAAAGCAG
* *
216461689 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
216461754 AAACAT
66 AAACAT
216461760 AAATTGAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
85 7 0.11
86 2 0.03
87 57 0.86
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (85 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAACATGAACTAAAAAGCAG
Found at i:216461805 original size:71 final size:71
Alignment explanation
Indices: 216461689--216461982 Score: 228
Period size: 71 Copynumber: 3.9 Consensus size: 71
216461679 TAAAAAGCAG
* * *
216461689 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
216461754 AAACAT
66 AAACAT
* * *
216461760 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT-T
216461825 TGGAAAACAT
64 T-G-AAACAT
* * ** * ** * * * * *
216461835 GAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATA
1 AAATTGAAAA-T---ACCTCAACGTGCC-CTGAG-G--CTCA-ACTC-A--C-C-TCTCGCAATA
*
216461900 TGAGTTGATTTTTGAAACAT
52 TGAGCTGATTTTTGAAACAT
* * *
216461920 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
216461983 CTTGGAAAAC
Statistics
Matches: 167, Mismatches: 38, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
71 74 0.44
72 4 0.02
73 3 0.02
74 1 0.01
75 14 0.08
76 4 0.02
77 3 0.02
79 7 0.04
80 4 0.02
81 7 0.04
83 3 0.02
84 4 0.02
85 14 0.08
86 1 0.01
87 3 0.02
88 4 0.02
89 17 0.10
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:216461914 original size:160 final size:160
Alignment explanation
Indices: 216461532--216462073 Score: 998
Period size: 160 Copynumber: 3.4 Consensus size: 160
216461522 ATTTAATAGG
* * * *
216461532 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
216461597 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
216461661 TTTCTTGG-AAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGTAGA
216461690 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
216461755 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
216461820 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAATTAAAAAGTAGA
216461850 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
216461915 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
216461980 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAATTAAAAAGTAGA
*
216462010 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
216462074 GAAAAAACAA
Statistics
Matches: 374, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
158 124 0.33
159 8 0.02
160 242 0.65
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGTAGA
Found at i:216475142 original size:15 final size:15
Alignment explanation
Indices: 216475122--216475190 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
216475112 GTATCTTGGG
216475122 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
216475137 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
216475152 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
216475167 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
216475182 TTTCTTTAT
1 TTTCTTTAT
216475191 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Done.