Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 2 of 52
Found at i:178245 original size:13 final size:12
Alignment explanation
Indices: 178216--178259 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
178206 AAATTAAAAA
178216 TAATTTTTATAT
1 TAATTTTTATAT
178228 TAATTTTTATAT
1 TAATTTTTATAT
* *
178240 TAA-ATTTA-AA
1 TAATTTTTATAT
178250 TAATTTTTAT
1 TAATTTTTAT
178260 CATAAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 4 0.15
11 8 0.30
12 15 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TAATTTTTATAT
Found at i:182989 original size:29 final size:29
Alignment explanation
Indices: 182894--183158 Score: 243
Period size: 29 Copynumber: 9.3 Consensus size: 29
182884 TGGGCTTAAT
* * *
182894 GTGTAATTTTAAAAAATTT-AAGATCAAA
1 GTGTAATTTTGAAAAGTTTAAAGGTCAAA
* *
182922 GTGTAATTTTGAAAAGTTTAGATGT-AAA
1 GTGTAATTTTGAAAAGTTTAAAGGTCAAA
* **
182950 GTGTGATTTTGAAAAGTTTAGGGGTCAAA
1 GTGTAATTTTGAAAAGTTTAAAGGTCAAA
* * * *
182979 GTGTGATTTTGAAAAGCTTAAAGGTTAAT
1 GTGTAATTTTGAAAAGTTTAAAGGTCAAA
* * **
183008 GTGCAATTATGAAAAGTTTAGGGGTCAAA
1 GTGTAATTTTGAAAAGTTTAAAGGTCAAA
*** * ** *
183037 ACATGATTTTGAAAAGTTTAAAAATCAAT
1 GTGTAATTTTGAAAAGTTTAAAGGTCAAA
*
183066 GTGCAATTTTGAAAAGTTTAAAGGTCAAA
1 GTGTAATTTTGAAAAGTTTAAAGGTCAAA
* *
183095 ATGTAATTTTGAAAAGTTT-TAGGTCAAA
1 GTGTAATTTTGAAAAGTTTAAAGGTCAAA
* *
183123 GTGTAATTTCGTAAAGTTT--AGGTCAAA
1 GTGTAATTTTGAAAAGTTTAAAGGTCAAA
183150 GTGTAATTT
1 GTGTAATTT
183159 CATAAAGTCT
Statistics
Matches: 189, Mismatches: 46, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
27 17 0.09
28 66 0.35
29 106 0.56
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.36
Consensus pattern (29 bp):
GTGTAATTTTGAAAAGTTTAAAGGTCAAA
Found at i:183159 original size:27 final size:27
Alignment explanation
Indices: 183078--183171 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
183068 GCAATTTTGA
* * *
183078 AAAGTTTAAAGGTCAAAATGTAATTTTGA
1 AAAGTTT--AGGTCAAAGTGTAATTTCGT
183107 AAAGTTTTAGGTCAAAGTGTAATTTCGT
1 AAAG-TTTAGGTCAAAGTGTAATTTCGT
*
183135 AAAGTTTAGGTCAAAGTGTAATTTCAT
1 AAAGTTTAGGTCAAAGTGTAATTTCGT
*
183162 AAAGTCTAGG
1 AAAGTTTAGG
183172 AACTTAGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 31 0.53
28 21 0.36
29 4 0.07
30 3 0.05
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.35
Consensus pattern (27 bp):
AAAGTTTAGGTCAAAGTGTAATTTCGT
Found at i:183581 original size:156 final size:155
Alignment explanation
Indices: 183361--183753 Score: 406
Period size: 156 Copynumber: 2.5 Consensus size: 155
183351 CAATGTCACT
* * * * * * *
183361 TTTATGCCAAA-GAAGTGTATTTAGGATAAGTTTGTCCTTTTACTTATCTTTTTTATGTCTTTTA
1 TTTATGCCAAAGGTA-TGCATTTAGGATAGGTTAGTCATTTT-CTTATCTTTTTTGTGTCCTTTA
* *
183425 GGGTTACTAAGATACTTTCACGTCAAAAATATA-CCTGATAAGCATTTTGGTAATTTCTCTAGAA
64 GGGTTACTAAGATACTTTCACGTCAAAAATATATCCT-AAAAGCATTTTGATAATTTCTCTAGAA
* * *
183489 -TCGAGTCGTAGGTCGTCATAGGGTTGCC
128 CT-GAGTCCTAGGTCGTCACAGGGTCGCC
* *
183517 TTTATGCTAAAGGTATGCATTTAGAATAGGTTAGTCATTTTCCTTATCTTTTTTGTGTCCTTTAG
1 TTTATGCCAAAGGTATGCATTTAGGATAGGTTAGTCATTTT-CTTATCTTTTTTGTGTCCTTTAG
* * * * * * *
183582 GCTTACCT-GGATACTTTCATGTCAAAGATATATCCTAAAAGTATTTTGATAATTTTTTTAGAAC
65 GGTTA-CTAAGATACTTTCACGTCAAAAATATATCCTAAAAGCATTTTGATAATTTCTCTAGAAC
* *
183646 TGAGTCCTAGGTCGTCACCGGGTCGCT
129 TGAGTCCTAGGTCGTCACAGGGTCGCC
* * *
183673 TTTATGCCAAATGTATGCATTTAGGATAGGTTCA-TCCA-TTTATTAT-TTTTTCGTGTCCTTTA
1 TTTATGCCAAAGGTATGCATTTAGGATAGGTT-AGT-CATTTTCTTATCTTTTTTGTGTCCTTTA
* *
183735 GTGTTACCAA-ATACTTTCA
64 GGGTTACTAAGATACTTTCA
183754 TGTTGAAAGT
Statistics
Matches: 197, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
153 10 0.05
154 19 0.10
155 4 0.02
156 153 0.78
157 11 0.06
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (155 bp):
TTTATGCCAAAGGTATGCATTTAGGATAGGTTAGTCATTTTCTTATCTTTTTTGTGTCCTTTAGG
GTTACTAAGATACTTTCACGTCAAAAATATATCCTAAAAGCATTTTGATAATTTCTCTAGAACTG
AGTCCTAGGTCGTCACAGGGTCGCC
Found at i:185628 original size:78 final size:78
Alignment explanation
Indices: 185537--185704 Score: 185
Period size: 80 Copynumber: 2.1 Consensus size: 78
185527 AAAAATTTTG
* * * * *
185537 ATATTTTGAAAGTAAAAATGGGGTTCGAGTA-CTCTAAAAAATTATGGGGTTGAAGTATCGCCGG
1 ATATTTTGGAAGTAAAAACGAGGTTCGAGTACCTCTAAAAAATGATGGGGTTGAAGTATCGCCGA
*
185601 CGGTGAAAATTTCA
66 CGGTGAAAAATT-A
* * * *** *
185615 TTATTTTGGAAGTAAAAACGAGGTTGGAGTATCCTTTTGGAAATGATGGGGTTGAAGTATCTCCG
1 ATATTTTGGAAGTAAAAACGAGGTTCGAGTA-CCTCTAAAAAATGATGGGGTTGAAGTATCGCCG
*
185680 ATGGTGAAAAATTA
65 ACGGTGAAAAATTA
185694 ATATTTTGGAA
1 ATATTTTGGAA
185705 AGAGAAATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
78 26 0.36
79 11 0.15
80 36 0.49
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.32
Consensus pattern (78 bp):
ATATTTTGGAAGTAAAAACGAGGTTCGAGTACCTCTAAAAAATGATGGGGTTGAAGTATCGCCGA
CGGTGAAAAATTA
Found at i:190523 original size:69 final size:69
Alignment explanation
Indices: 190446--190584 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
190436 TGATTATTGT
190446 ATAAAAAATCTAACTATTTTCATACATCCACCGAGACCATCAAACTGGTATTCATTTCTCTTTCT
1 ATAAAAAATCTAACTATTTTCATACATCCACCGAGACCATCAAACTGGTATTCATTTCTCTTTCT
190511 TTGA
66 TTGA
* *
190515 ATAAAAAATCTAACTATTTTTATACATCCACCGAGACCATCAAACTGGTATTTATTTCTCTTTCT
1 ATAAAAAATCTAACTATTTTCATACATCCACCGAGACCATCAAACTGGTATTCATTTCTCTTTCT
190580 TTGA
66 TTGA
190584 A
1 A
190585 AACAATGGTC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (69 bp):
ATAAAAAATCTAACTATTTTCATACATCCACCGAGACCATCAAACTGGTATTCATTTCTCTTTCT
TTGA
Found at i:191072 original size:15 final size:15
Alignment explanation
Indices: 191054--191082 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
191044 TATAAAAACA
191054 TTATATATATATATT
1 TTATATATATATATT
191069 TTATATATATATAT
1 TTATATATATATAT
191083 ATGAATCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATATATATATT
Found at i:192105 original size:20 final size:20
Alignment explanation
Indices: 192057--192133 Score: 118
Period size: 20 Copynumber: 3.8 Consensus size: 20
192047 AAAAATTTTC
**
192057 CAAATGTATCGATACATTTG
1 CAAATGTATCGATACATTCA
*
192077 TAGAATGTATCGATACATTCA
1 CA-AATGTATCGATACATTCA
192098 CAAATGTATCGATACATTCA
1 CAAATGTATCGATACATTCA
192118 CAAATGTATCGATACA
1 CAAATGTATCGATACA
192134 GGGTCCCAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 35 0.67
21 17 0.33
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (20 bp):
CAAATGTATCGATACATTCA
Found at i:192114 original size:41 final size:40
Alignment explanation
Indices: 192057--192133 Score: 118
Period size: 41 Copynumber: 1.9 Consensus size: 40
192047 AAAAATTTTC
***
192057 CAAATGTATCGATACATTTGTAGAATGTATCGATACATTCA
1 CAAATGTATCGATACATTCACA-AATGTATCGATACATTCA
192098 CAAATGTATCGATACATTCACAAATGTATCGATACA
1 CAAATGTATCGATACATTCACAAATGTATCGATACA
192134 GGGTCCCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 14 0.42
41 19 0.58
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (40 bp):
CAAATGTATCGATACATTCACAAATGTATCGATACATTCA
Found at i:192193 original size:19 final size:19
Alignment explanation
Indices: 192169--192236 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
192159 AATTCAACGA
192169 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
192188 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
192203 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
192220 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
192237 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:192207 original size:32 final size:32
Alignment explanation
Indices: 192171--192233 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
192161 TTCAACGATT
*
192171 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
192203 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
192234 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:192208 original size:13 final size:13
Alignment explanation
Indices: 192190--192214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192180 ACATAAGTTT
192190 TGTATCGATACAA
1 TGTATCGATACAA
192203 TGTATCGATACA
1 TGTATCGATACA
192215 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:192294 original size:13 final size:13
Alignment explanation
Indices: 192276--192301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
192266 CATTTTTCTG
192276 TGTATCGATACAT
1 TGTATCGATACAT
192289 TGTATCGATACAT
1 TGTATCGATACAT
192302 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:192298 original size:33 final size:33
Alignment explanation
Indices: 192256--192322 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
192246 GCCAAGGAAA
***
192256 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
192289 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
192322 T
1 T
192323 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:194880 original size:51 final size:51
Alignment explanation
Indices: 194821--194993 Score: 204
Period size: 52 Copynumber: 3.4 Consensus size: 51
194811 TTATTTCTAA
* ***
194821 GGGGATACTCCAACCTCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTCATAATC
* * * * * *
194872 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTC-ATAATC
*
194924 GGGGATACTCCAACAC-CGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAAC-CTCGATTTTATTTCC-AAAATACCAATTTTTCATAATC
*
194976 GAGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
194994 TTATTTCATC
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
51 37 0.37
52 49 0.49
53 15 0.15
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTCATAATC
Found at i:194937 original size:52 final size:52
Alignment explanation
Indices: 194646--194990 Score: 211
Period size: 51 Copynumber: 6.6 Consensus size: 52
194636 TTGAATTGCT
* * * * * * *
194646 CAATTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACAT
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
194697 TAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAAACAC
* * * * * * * * * *
194750 TAATTTCTTCACAATCGGGGACACTCCAACCCCG--TTAATCATCGGAGATACTC
1 CAATTT-TCCATAATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAAACAC
* * * * *
194803 CAACCCCGTTATTTC-TAA--GGGGATACTCCAACCTCGACTTTATTTCC-AAAATAT
1 CAA-----TT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
** * * *
194857 TGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
194908 CAATTTTCCTTTAATCGGGGATACTCCAACACCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
194961 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
194991 TCGTTATTTC
Statistics
Matches: 224, Mismatches: 52, Indels: 35
0.72 0.17 0.11
Matches are distributed among these distances:
48 4 0.02
49 5 0.02
51 73 0.33
52 52 0.23
53 35 0.16
54 25 0.11
55 16 0.07
56 2 0.01
57 6 0.03
58 5 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:195009 original size:28 final size:28
Alignment explanation
Indices: 194973--195054 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
194963 ATTTTTCACA
* *
194973 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
195001 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
195029 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCG-GGG-ATACTCCAACCCCGTTATT
195055 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 42 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:195044 original size:211 final size:211
Alignment explanation
Indices: 194657--195046 Score: 570
Period size: 211 Copynumber: 1.8 Consensus size: 211
194647 AATTCTCCAC
* * **
194657 AATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACATTAATTTTCTATAATCGGGGATACTC
1 AATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* *
194722 CAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGGGGACACTCCAACCCCGTTA
66 CAACACCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
* * * *
194787 ATCATCGGAGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCTCGACTTTATTTCCAA
131 ATCATCGGAGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCTCGACTTTATTTCCAA
194852 AATATTGATTTTTCAT
196 AATATTGATTTTTCAT
* * *
194868 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* *
194933 CCAACACCGATTTTATTTCCAAAAATAC-C-AATTT-TTCACAATCGAGGATACTCCAACCTCGT
65 CCAACACCGATTTTATTTCCAAAAA-ACACTAATTTCTTCACAATCGAGGACACTCCAACCCCGT
* * *
194995 TATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACC
129 TA-ATCATCGGAGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACC
195047 CCGTTATTAT
Statistics
Matches: 158, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
210 27 0.17
211 88 0.56
212 41 0.26
213 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (211 bp):
AATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACACCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
ATCATCGGAGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCTCGACTTTATTTCCAA
AATATTGATTTTTCAT
Found at i:196034 original size:2 final size:2
Alignment explanation
Indices: 196023--196056 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
196013 CGTCGCGACA
196023 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
196057 ACTCAAACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:198582 original size:81 final size:81
Alignment explanation
Indices: 198475--198627 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 81
198465 ATAGGGCTAA
* * ** *
198475 AGTATCTCCCTTTGGAGATATGGGGTTAGAGTATTTTCGAGAATGTAAAGTT-AAGATTTTTTGT
1 AGTATCTCCCTTTGGAGAGATAGGGTTAGAGTATCCTCAAGAATGTAAA-TTCAAGATTTTTTGT
*
198539 TAGAAAAATGGGGTCGG
65 AAGAAAAATGGGGTCGG
* *
198556 AGTATCTCCTTTTGGAGAGATAGGGTTGGAGTATCCTCAAGAATGTAAATTCAAGATTTTTTGTA
1 AGTATCTCCCTTTGGAGAGATAGGGTTAGAGTATCCTCAAGAATGTAAATTCAAGATTTTTTGTA
198621 AGAAAAA
66 AGAAAAA
198628 CGGGCTTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.03
81 61 0.97
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (81 bp):
AGTATCTCCCTTTGGAGAGATAGGGTTAGAGTATCCTCAAGAATGTAAATTCAAGATTTTTTGTA
AGAAAAATGGGGTCGG
Found at i:202228 original size:32 final size:33
Alignment explanation
Indices: 202167--202228 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
202157 CGTCCAGATG
*
202167 TATCGATACATGTAGCTTAGTATCGATACATTA
1 TATCGATACATGTAGCTTAGTATCAATACATTA
* *
202200 TATCGATACATGT-TCTTTGTATCAATACA
1 TATCGATACATGTAGCTTAGTATCAATACA
202229 CCATGAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (33 bp):
TATCGATACATGTAGCTTAGTATCAATACATTA
Found at i:204587 original size:79 final size:79
Alignment explanation
Indices: 204498--204909 Score: 621
Period size: 79 Copynumber: 5.2 Consensus size: 79
204488 AAAATAAAAT
* **
204498 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
204563 CCTCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * *
204577 CGGGGTTAGAGTATCTCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
204642 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * *
204656 CGAGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
204721 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
*
204735 CGGGGTTGGAGTAT-CCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
204799 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * * * *
204813 CGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAGCCGGTGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
204878 CCCCTC-AGAAATAA
66 CCCCTCGA-AAATAA
204892 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
204910 AATGATTAAC
Statistics
Matches: 307, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
78 75 0.24
79 232 0.76
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:204827 original size:157 final size:157
Alignment explanation
Indices: 204501--204908 Score: 638
Period size: 157 Copynumber: 2.6 Consensus size: 157
204491 ATAAAATCGG
* ** * *
204501 GGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAAGGTTGGAGTATCCT
1 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCC
* * *
204566 CTCGAAAATAACGGGGTTAGAGTATCTCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGA
66 CTCGGAAATAACGGGGTTGGAGTATC-CCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGA
*
204631 GGTTGGAGTATCCCCTCGGAAATAACGA
130 GGTTGGAGTATCCCCTCGAAAATAACGA
* *
204659 GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCC
* *
204724 CTCGGAAATAACGGGGTTGGAGTATCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGG
66 CTCGGAAATAACGGGGTTGGAGTATCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAG
204789 GTTGGAGTATCCCCTCGAAAATAACG-
131 GTTGGAGTATCCCCTCGAAAATAACGA
* * *
204815 GGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAGCCGGTGTTAGAGTATCC
1 GG-TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCC
*
204880 CCTCAGAAATAACGGGGTTGGAGTATCCC
65 CCTCGGAAATAACGGGGTTGGAGTATCCC
204909 CAATGATTAA
Statistics
Matches: 230, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
156 2 0.01
157 146 0.63
158 82 0.36
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (157 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCC
CTCGGAAATAACGGGGTTGGAGTATCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAG
GTTGGAGTATCCCCTCGAAAATAACGA
Found at i:206201 original size:14 final size:14
Alignment explanation
Indices: 206182--206289 Score: 68
Period size: 14 Copynumber: 7.7 Consensus size: 14
206172 TTCATTTTTT
206182 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
206196 ATTCCATG-CCTTC
1 ATTCCATGCCCATC
*
206209 ATT---TG--TAT-
1 ATTCCATGCCCATC
206217 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
206231 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCC--CA----T-C
206252 ATTCCATGCCCATC
1 ATTCCATGCCCATC
206266 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
206280 ATTCTATGCC
1 ATTCCATGCC
206290 TTCATTTTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
8 3 0.04
9 1 0.01
10 2 0.03
11 2 0.03
13 9 0.12
14 41 0.55
15 1 0.01
16 2 0.03
19 2 0.03
20 1 0.01
21 10 0.14
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.38
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:206227 original size:35 final size:34
Alignment explanation
Indices: 206153--206275 Score: 219
Period size: 35 Copynumber: 3.6 Consensus size: 34
206143 TTTCACCTTT
*
206153 ATGCCCATCATTCCATGCCTTCATTTTTTATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTATATTCC
206187 ATGCCCATCATTCCATGCCTTCATTTGTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTT-TATATTCC
206222 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCA-TTTTATATTCC
206257 ATGCCCATCATTCCATGCC
1 ATGCCCATCATTCCATGCC
206276 CATCATTCTA
Statistics
Matches: 86, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
34 26 0.30
35 57 0.66
36 3 0.03
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (34 bp):
ATGCCCATCATTCCATGCCTTCATTTTATATTCC
Found at i:206270 original size:49 final size:49
Alignment explanation
Indices: 206217--206324 Score: 207
Period size: 49 Copynumber: 2.2 Consensus size: 49
206207 TCATTTGTAT
206217 ATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATC
*
206266 ATTCCATGCCCATCATTCTATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATC
206315 ATTCCATGCC
1 ATTCCATGCC
206325 TTTATTTTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.20, C:0.34, G:0.06, T:0.39
Consensus pattern (49 bp):
ATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATC
Found at i:206277 original size:84 final size:83
Alignment explanation
Indices: 206182--206337 Score: 276
Period size: 84 Copynumber: 1.9 Consensus size: 83
206172 TTCATTTTTT
206182 ATTCCATGCCCATCATTCCATGCCTTCATTTGTATATTCCATGCCCATCATTCCATGCCTTCATT
1 ATTCCATGCCCATCATTCCATGCCTTCATTTGTATATTCCATGCCCATCATTCCATGCCTTCATT
206247 TTTATATTCCATGCCCATC
66 TTT-TATTCCATGCCCATC
* * *
206266 ATTCCATGCCCATCATTCTATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTTATT
1 ATTCCATGCCCATCATTCCATGCCTTCATTTGTATATTCCATGCCCATCATTCCATGCCTTCATT
206331 TTTTATT
66 TTTTATT
206338 ATTATTGTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 4 0.06
84 65 0.94
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (83 bp):
ATTCCATGCCCATCATTCCATGCCTTCATTTGTATATTCCATGCCCATCATTCCATGCCTTCATT
TTTTATTCCATGCCCATC
Found at i:206305 original size:35 final size:34
Alignment explanation
Indices: 206266--206337 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 34
206256 CATGCCCATC
*
206266 ATTCCATGCCCATCATTCTATGCCTTCATTTTTAT
1 ATTCCATGCCCATCATTCCATGCCTTCATTTTT-T
*
206301 ATTCCATGCCCATCATTCCATGCCTTTATTTTTT
1 ATTCCATGCCCATCATTCCATGCCTTCATTTTTT
206335 ATT
1 ATT
206338 ATTATTGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.19, C:0.28, G:0.06, T:0.47
Consensus pattern (34 bp):
ATTCCATGCCCATCATTCCATGCCTTCATTTTTT
Found at i:206379 original size:6 final size:6
Alignment explanation
Indices: 206345--206372 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
206335 ATTATTATTG
206345 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
206373 TGATTTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:206848 original size:40 final size:41
Alignment explanation
Indices: 206803--206906 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
206793 TCCCACTTTT
* *
206803 TTGAGGACAAAGAAAAAGAGGATGAA-ATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAGGA-AAAGAAAGTGTCCTGCTCC
* * *
206843 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAGAGGAAAA-GAAAGTGTCCTGCTCC
206885 TTGAGGACAAAGTGAAAAAGAG
1 TTGAGGACAAA--GAAAAAGAG
206907 TACGTCTCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.04
40 20 0.38
41 3 0.06
42 20 0.38
44 7 0.13
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.16
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAAGAGGAAAAGAAAGTGTCCTGCTCC
Found at i:207008 original size:119 final size:117
Alignment explanation
Indices: 206799--207014 Score: 262
Period size: 119 Copynumber: 1.8 Consensus size: 117
206789 GGTGTCCCAC
* * * *
206799 TTTTTTGAGGACAAAGAAAAAGAGGATGAAATAGGTCCTGCTCCTTGAGGACAAAGGAAAAGAAG
1 TTTTTCGAGGACAAAGAAAAAGAGGATGAAATACGTCCTGCTCCTTAAGGACAAAAGAAAAGAAG
206864 AAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCTCA
66 AAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCTCA
* *
206916 TTTTTCGAGGACCAAGGAAAAAG-GGAAATGAAATACTTCCTGCT-CTCTAAGGACAAAAGAAAA
1 TTTTTCGAGGA-CAAAGAAAAAGAGG--ATGAAATACGTCCTGCTCCT-TAAGGACAAAAGAAAA
* *
206979 -AGGAAAA-TAAAGTGCGTCCTGC-TCTTTGAGGACAAA
62 GAAGAAAAGGAAAGT--GTCCTGCTTC-TTGAGGACAAA
207015 AGAGAAAAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
117 17 0.20
118 20 0.24
119 47 0.56
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (117 bp):
TTTTTCGAGGACAAAGAAAAAGAGGATGAAATACGTCCTGCTCCTTAAGGACAAAAGAAAAGAAG
AAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACGTCTCA
Found at i:207072 original size:40 final size:40
Alignment explanation
Indices: 206956--207096 Score: 147
Period size: 40 Copynumber: 3.4 Consensus size: 40
206946 AAATACTTCC
* * * * * * *
206956 TGCTCTCTAAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCC
1 TGCTCTTTGAGGACAAAAG-AGAAGGGAAA-GAAGTGTGTCT
206998 TGCTCTTTGAGGACAAAAGAGAAAAGAATGGAAAGAAGTGTGTCT
1 TGCTCTTTGAGGACAAAAGAG--AAG---GGAAAGAAGTGTGTCT
207043 TGCTCTTTGAGGACAAAAGAGAAGGGAAAGAAGTGTGTCT
1 TGCTCTTTGAGGACAAAAGAGAAGGGAAAGAAGTGTGTCT
*
207083 TACTCTTTGAGGAC
1 TGCTCTTTGAGGAC
207097 TCAAAAGTGC
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
40 29 0.34
41 1 0.01
42 17 0.20
43 6 0.07
45 29 0.34
46 4 0.05
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (40 bp):
TGCTCTTTGAGGACAAAAGAGAAGGGAAAGAAGTGTGTCT
Found at i:207169 original size:61 final size:59
Alignment explanation
Indices: 207085--207328 Score: 247
Period size: 61 Copynumber: 4.2 Consensus size: 59
207075 GTGTGTCTTA
* * * *
207085 CTCTTTGAGGACTCAAAAGTGCCACGAACTCGTGTGGTCTTTGGAAAGAAAAGGCGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-GAAA-AAAAGGCGTCCTG
* * * * *
207146 CACTTTGAGGACTG-AAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCTG
1 CTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTG-AAAAA-AAGGCGTCCTG
* *
207207 CTCTTTGAGGACTGAAAAGTGCAACCAACTTGTATGGGCTTT----AAAAGGCGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAGGCGTCCTG
* *
207262 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTG----AATGGCGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAGGCGTCCTG
*
207316 TTCTTTGAGGACT
1 CTCTTTGAGGACT
207329 AAAGGGTGAA
Statistics
Matches: 158, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
54 48 0.30
55 22 0.14
56 2 0.01
60 7 0.04
61 75 0.47
62 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (59 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAGGCGTCCTG
Found at i:207218 original size:122 final size:115
Alignment explanation
Indices: 207085--207303 Score: 285
Period size: 122 Copynumber: 1.8 Consensus size: 115
207075 GTGTGTCTTA
* * * *
207085 CTCTTTGAGGACTCAAAAGTGCCACGAACTCGTGTGGTCTTTGGAAAGAAAAGGCGTCCTGCACT
1 CTCTTTGAGGACTCAAAAGTGCAACCAACTCGTATGGGCTTT------AAAAGGCGTCCTGCACT
207150 TTGAGGACTGAAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCTG
60 TTGAGGACT-AAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCTG
* * *
207207 CTCTTTGAGGACTGAAAAGTGCAACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
1 CTCTTTGAGGACTCAAAAGTGCAACCAACTCGTATGGGCTTTAAAAGGCGTCCTGCACTTTGAGG
* * *
207272 ACTAAAGGTGCCACCAACTTGTGTGGGCTTTG
66 ACTAAAGATGCCACCAACTAGTGTGGGATTTG
207304 AATGGCGTCC
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
115 26 0.30
116 25 0.29
122 36 0.41
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (115 bp):
CTCTTTGAGGACTCAAAAGTGCAACCAACTCGTATGGGCTTTAAAAGGCGTCCTGCACTTTGAGG
ACTAAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCTG
Found at i:207302 original size:54 final size:55
Alignment explanation
Indices: 207133--207333 Score: 235
Period size: 54 Copynumber: 3.6 Consensus size: 55
207123 CTTTGGAAAG
* * * *
207133 AAAAGGCGTCCTGCACTTTGAGGACTGAAAGATGCCACCAACTAGTGTGGGATTT
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
207188 GCAAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAAAGTGCAACCAACTTGTATGGGCTTT
1 ---AAAAG---GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
207249 AAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
207303 GAATGGCGTCCTGTTCTTTGAGGACT-AAAGG
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
207334 GTGAAAGGAG
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
54 53 0.42
55 20 0.16
58 10 0.08
61 42 0.34
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (55 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:207415 original size:94 final size:94
Alignment explanation
Indices: 207254--207428 Score: 255
Period size: 94 Copynumber: 1.9 Consensus size: 94
207244 GCTTTAAAAG
* * ** * *
207254 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAATGGCGTCCTGTTC
1 GCGTCCCGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGCTC
207319 TTTGAGGACT-AAAGGGTGAAAGGAGAGA
66 TTTGAGGACTGAAAGGGTGAAAGGAGAGA
*
207347 GCGTCCCGCTCTTTGAGGACTAGGAA-GTGCTACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGC
1 GCGTCCCGCTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGC
207411 TCTTTGAGGACTGAAAGG
64 TCTTTGAGGACTGAAAGG
207429 TGCCACCAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
93 21 0.29
94 44 0.61
95 7 0.10
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (94 bp):
GCGTCCCGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGCTC
TTTGAGGACTGAAAGGGTGAAAGGAGAGA
Found at i:207419 original size:55 final size:55
Alignment explanation
Indices: 207349--207537 Score: 238
Period size: 55 Copynumber: 3.3 Consensus size: 55
207339 AGGAGAGAGC
* *
207349 GTCCCGCTCTTTGAGGACTAGGAA-GTGCTACCAACTTGTGTGGGCTTTAAAAAGA
1 GTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
* *
207404 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAAAGAAA
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAAG--A
* * *
207463 GCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 G--TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
207519 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
207538 AAAGGGTGAA
Statistics
Matches: 118, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
54 21 0.18
55 40 0.34
56 1 0.01
57 6 0.05
58 4 0.03
59 2 0.02
60 26 0.22
61 18 0.15
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA
Found at i:207480 original size:209 final size:209
Alignment explanation
Indices: 207138--208946 Score: 1690
Period size: 209 Copynumber: 8.7 Consensus size: 209
207128 GAAAGAAAAG
* * * * *
207138 GCGTCCTGCACTTTGAGGACT-GAAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
1 GCGTCCTGCTCTTTGAGGACTAGGAAG-TGCCACCAACTTGTGTGGGCTTT---AAAAG-GAG--
* * *
207202 TCCTGCTCTTTGAGGACTGAAAAGTGCAACCAACTTGTATGGGCTTT---AAAAG---GCGTCCT
59 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCGTCCT
* *
207261 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAATGGCGTCCTGTTCTTTGAGG
124 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
207326 ACTAAAGGGTGAAAGGAGAGA
189 ACTAAAGGGTGAAAGGAGAGA
* * *
207347 GCGTCCCGCTCTTTGAGGACTAGGAAGTGCTACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* *
207412 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAAAGAAAGCATCCTGCTCTTT
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCGTCCTGCTCTTT
*
207477 GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAG
131 GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAG
207542 GGTGAAAGGAGAGA
196 GGTGAAAGGAGAGA
207556 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
*
207621 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTGCTCTTT
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCGTCCTGCTCTTT
* * * *
207686 GAGGACTGAAGATACCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAATAAAG
131 GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAG
*
207751 GGTGAAAAGAGAGA
196 GGTGAAAGGAGAGA
*
207765 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGTGCTTTAAAAGGAGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* * * *
207830 TTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTT-AAAAGGAGAAGGCGTCCTGCTCTT
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-AAGAAAGCGTCCTGCTCTT
* * * * * *
207894 TTAGGACTAAAGGGTG-----AA-------GGG---AGAGA-GCATCCTACCCTTTGAGGACT-A
130 TGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAA
* * *
207942 AGAAGTGCCACCAACTTGTATGGGCTTTAAAA
194 AG-GGTG--A--AA---G---GAG-----AGA
* * * * * *
207974 GGAGTCCTGCTCTTTGAGGACTCA--AGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTA
1 -GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
* * *
208037 CTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTACTCT
64 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCGTCCTGCTCT
* * * *
208102 TTAAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAA
129 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAA
208167 AGGGTGAAAGGAGAGA
194 AGGGTGAAAGGAGAGA
* * * *
208183 GCATCCTGCTTTTTGAGGACTAAGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
*
208248 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG---AATG---GCGTCCTGCTCTTT
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCGTCCTGCTCTTT
* *
208307 GAGGACTAAAGGGTG--A--AA--------GG---AGAGA-GCGTCCTGCTCTTTGAGGACT-AA
131 GAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAA
* * *
208355 GAAGTGCCACCAACTTGTGTGGGCTTTAAAA
195 G-GGTG--A--AA-----G-GAG-----AGA
* * *
208386 GGAGTCCTGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
1 -GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
* * **
208450 CTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAGGGCGTCCTGCTC
64 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-AAGAAAGCGTCCTGCTC
* *
208514 TTTGAGGACTAAAGGGTG-----AA-------GGG---AGAGA-GCGTCCTGCTCTTTGAGGACT
128 TTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
* ** * *
208563 AGGAAGTGCCACTAACTTGTGTGGGCTTTAAAA
192 A--AAGGGTGA--AA-----G-GAG-----AGA
* * * * *
208596 TGAGTCCTGCTCTTTGAGGA-T-TGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTG
1 -GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTG
** * *
208659 CTCTTTGAATACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAACATCCTGCTCT
64 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCGTCCTGCTCT
* * * *
208724 TTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCTTGGTCTTTGAGGACTAA
129 TTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAA
208789 AGGGTGAAAGGAGAGA
194 AGGGTGAAAGGAGAGA
* * * *
208805 GCATCCTGCTCTTTGAGGACTAGGAAATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* * *
208870 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAATGCGTCCTACTCTT
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-AAGAAAGCGTCCTGCTCTT
208934 TGAGGACTAAAGG
130 TGAGGACTAAAGG
208947 GTGAAAGGAG
Statistics
Matches: 1358, Mismatches: 145, Indels: 194
0.80 0.09 0.11
Matches are distributed among these distances:
187 3 0.00
188 23 0.02
189 3 0.00
190 1 0.00
192 4 0.00
193 3 0.00
194 20 0.01
195 3 0.00
196 1 0.00
197 1 0.00
198 7 0.01
200 2 0.00
202 1 0.00
203 68 0.05
204 99 0.07
205 4 0.00
206 13 0.01
207 2 0.00
208 51 0.04
209 833 0.61
210 136 0.10
211 1 0.00
212 1 0.00
213 7 0.01
214 4 0.00
215 1 0.00
217 1 0.00
220 8 0.01
222 6 0.00
223 6 0.00
224 42 0.03
225 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (209 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCGTCCTGCTCTTT
GAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAG
GGTGAAAGGAGAGA
Found at i:207611 original size:94 final size:94
Alignment explanation
Indices: 207466--207637 Score: 294
Period size: 94 Copynumber: 1.8 Consensus size: 94
207456 AAAGAAAGCA
* *
207466 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTT
207531 GAGGACT-AAAGGGTGAAAGGAGAGAGCG
66 GAGGACTGAAAGGGTGAAAGGAGAGAGCG
207559 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
1 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
207623 TTGAGGACTGAAAGG
64 TTGAGGACTGAAAGG
207638 TGCCACCAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
93 18 0.24
94 48 0.65
95 8 0.11
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (94 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTT
GAGGACTGAAAGGGTGAAAGGAGAGAGCG
Found at i:207623 original size:55 final size:54
Alignment explanation
Indices: 207558--207744 Score: 241
Period size: 55 Copynumber: 3.3 Consensus size: 54
207548 AGGAGAGAGC
207558 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
207613 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAA
1 GTCCTGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTT---AAAAG-GA
* * *
207672 GCATCCTGCTCTTTGAGGACT-GAAGATACCACCAACTTGTGTGGGCTTTGAAAGGC
1 G--TCCTGCTCTTTGAGGACTGGAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGA
207728 GTCCTGCTCTTTGAGGA
1 GTCCTGCTCTTTGAGGA
207745 ATAAAGGGTG
Statistics
Matches: 117, Mismatches: 7, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
54 19 0.16
55 43 0.37
56 1 0.01
57 4 0.03
58 5 0.04
59 3 0.03
60 24 0.21
61 18 0.15
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (54 bp):
GTCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:207807 original size:154 final size:148
Alignment explanation
Indices: 207613--208044 Score: 551
Period size: 155 Copynumber: 2.8 Consensus size: 148
207603 TTTAAAAGGA
* *
207613 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATC
1 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT---AAAAG-GAG--TC
* *
207677 CTGCTCTTTGAGGACTGAAGATACCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
59 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
207742 GGAATAAAGGGTGAAAAGAGAGAGC
124 GGAATAAAGGGTGAAAAGAGAGAGC
* *
207767 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGTGCTTTAAAAGGAGTCCTGCTTT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
* *
207832 TTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTTA
66 TTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGA
* **
207897 GGACTAAAGGGTGAAGGGAGAGAGC
124 GGAATAAAGGGTGAAAAGAGAGAGC
* * * * *
207922 ATCCTACCCTTTGAGGACTAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
* * * *
207987 TTGAGGACTCAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGA
66 TTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
208045 AGACTGAAAG
Statistics
Matches: 246, Mismatches: 24, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
148 34 0.14
149 26 0.11
150 2 0.01
151 5 0.02
154 69 0.28
155 110 0.45
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (148 bp):
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
TTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAATAA
AGGGTGAAAAGAGAGAGC
Found at i:207820 original size:94 final size:93
Alignment explanation
Indices: 207660--207838 Score: 261
Period size: 94 Copynumber: 1.9 Consensus size: 93
207650 GTGTGGGCTT
*
207660 TGAAAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAGATACCACCAACTTGTGTGGGCTTTGAAA
1 TGAAAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAGATACCACCAACTTGTGTGGGCTTTAAAA
*
207725 GGCGTCCTGCTCTTTGAGGAATAAAGGG
66 GGAGTCCTGCTCTTTGAGGAATAAAGGG
* * * * *
207753 TGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAG-TGCCACCAACTTGTGTGTGCTTTAA
1 TGAAAAAAGAAAGCATCCTGCTCTTTGAGGACT--GAAGATACCACCAACTTGTGTGGGCTTTAA
*
207817 AAGGAGTCCTGCTTTTTGAGGA
64 AAGGAGTCCTGCTCTTTGAGGA
207839 CTGAAAGGTG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
93 30 0.39
94 42 0.55
95 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (93 bp):
TGAAAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAGATACCACCAACTTGTGTGGGCTTTAAAA
GGAGTCCTGCTCTTTGAGGAATAAAGGG
Found at i:207827 original size:55 final size:55
Alignment explanation
Indices: 207767--207877 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
207757 AAGAGAGAGC
* * *
207767 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGTGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
*
207822 GTCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
207877 G
1 G
207878 AAGGCGTCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 3 0.06
55 48 0.94
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGA
Found at i:208013 original size:54 final size:54
Alignment explanation
Indices: 207923--208169 Score: 271
Period size: 54 Copynumber: 4.4 Consensus size: 54
207913 GGAGAGAGCA
* * *
207923 TCCTACCCTTTGAGGACTAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAG
1 TCCTACTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
* * * * *
207978 TCCTGCTCTTTGAGGACTCAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
* *
208032 TCCTACTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAG
1 TCCTACTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT---AAAAG-GAG
* * * *
208091 CATCCTACTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCA-
1 --TCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AG
*
208147 TCCTGCTCTTTGAGGACTAAAGG
1 TCCTACTCTTTGAGGACTAAAGG
208170 GTGAAAGGAG
Statistics
Matches: 160, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
54 65 0.41
55 43 0.27
57 5 0.03
58 4 0.03
59 1 0.01
60 26 0.16
61 16 0.10
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (54 bp):
TCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
Found at i:208137 original size:115 final size:108
Alignment explanation
Indices: 207920--208169 Score: 311
Period size: 115 Copynumber: 2.2 Consensus size: 108
207910 AAGGGAGAGA
* * * *
207920 GCATCCTACCCTTTGAGGACTAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAGTCCTGCT
1 GCATCCTACTCTTTGAGGACTAA-AGGTGCCACCAACTTGTATGGGCTTTAAAAGAAGTCCTACT
* * *
207985 CTTTGAGGACTCAAGGTGCCACTAACTTGTGTGGGCTTTGAAAG
65 CTTTAAGGACTCAAGGTGCCACCAACTTGTGTAGGCTTTGAAAG
** * *
208029 GTGTCCTACTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCAT
1 GCATCCTACTCTTTGAGGACT-AAAGGTGCCACCAACTTGTATGGGCTTT---AAAAG-AAG--T
*
208094 CCTACTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAG
59 CCTACTCTTTAAGGACTCAAGGTGCCACCAACTTGTGTAGGCTTTGAAAG
*
208144 GCATCCTGCTCTTTGAGGACTAAAGG
1 GCATCCTACTCTTTGAGGACTAAAGG
208170 GTGAAAGGAG
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
109 41 0.35
110 2 0.02
112 5 0.04
113 2 0.02
114 5 0.04
115 63 0.53
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (108 bp):
GCATCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAGTCCTACTC
TTTAAGGACTCAAGGTGCCACCAACTTGTGTAGGCTTTGAAAG
Found at i:208227 original size:94 final size:94
Alignment explanation
Indices: 208089--208264 Score: 268
Period size: 94 Copynumber: 1.9 Consensus size: 94
208079 GAAAAAAGAA
*
208089 AGCATCCTACTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCA-TCCTGC
1 AGCATCCTACTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGG-AGTCCTGC
208153 TCTTTGAGGACT-AAAGGGTGAAAGGAGAG
65 TCTTTGAGGACTGAAAGGGTGAAAGGAGAG
* * *
208182 AGCATCCTGCTTTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGTCCTG
1 AGCATCCTACTCTTTAAGGACTGAAG--GTGCCACCAACTTGTGTAGGCTTTAAAAGGAGTCCTG
208246 CTCTTTGAGGACTGAAAGG
64 CTCTTTGAGGACTGAAAGG
208265 TGCCACCAAC
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 3 0.04
93 20 0.27
94 47 0.63
95 5 0.07
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (94 bp):
AGCATCCTACTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAGGGTGAAAGGAGAG
Found at i:208247 original size:55 final size:54
Alignment explanation
Indices: 208186--208316 Score: 190
Period size: 55 Copynumber: 2.4 Consensus size: 54
208176 GGAGAGAGCA
*
208186 TCCTGCTTTTTGAGGACTAAGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAG
1 TCCTGCTCTTTGAGGACTAA-AAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAG
* * * * *
208241 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAATGGCG
1 TCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAG
208296 TCCTGCTCTTTGAGGACTAAA
1 TCCTGCTCTTTGAGGACTAAA
208317 GGGTGAAAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
54 3 0.04
55 64 0.93
56 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAG
Found at i:208399 original size:55 final size:55
Alignment explanation
Indices: 208334--208499 Score: 298
Period size: 55 Copynumber: 3.0 Consensus size: 55
208324 AGGAGAGAGC
* *
208334 GTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGATTGAA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
208389 GTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
208444 GTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
208499 G
1 G
208500 AGGGCGTCCT
Statistics
Matches: 108, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
55 106 0.98
56 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:208468 original size:26 final size:26
Alignment explanation
Indices: 208383--208468 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
208373 GTGGGCTTTA
208383 AAAGGAGTCCTGCTCTTTGAGGATTG
1 AAAGGAGTCCTGCTCTTTGAGGATTG
* ** * * * *
208409 AAAGGTG-CCACCAACTTGTGTGGGCTTTA
1 AAAGGAGTCCTGC-TCTT-TG-AGG-ATTG
208438 AAAGGAGTCCTGCTCTTTGAGGATTG
1 AAAGGAGTCCTGCTCTTTGAGGATTG
208464 AAAGG
1 AAAGG
208469 TGCCACCAAC
Statistics
Matches: 41, Mismatches: 14, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.39
27 4 0.10
28 4 0.10
29 11 0.27
30 3 0.07
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (26 bp):
AAAGGAGTCCTGCTCTTTGAGGATTG
Found at i:208610 original size:55 final size:55
Alignment explanation
Indices: 208544--208786 Score: 258
Period size: 54 Copynumber: 4.3 Consensus size: 55
208534 GGGAGAGAGC
* *
208544 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACTAACTTGTGTGGGCTTTAAAATGA
1 GTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
208599 GTCCTGCTCTTTGAGGA-TTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGT
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
** * *
208653 GTCCTGCTCTTTGAATACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAA
1 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT---AAAAG--GA
* * * *
208713 CATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGC
1 -GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
208768 GTCTTGGTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
208787 AAAGGGTGAA
Statistics
Matches: 157, Mismatches: 23, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
53 3 0.02
54 60 0.38
55 44 0.28
57 4 0.03
58 4 0.03
60 26 0.17
61 16 0.10
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:208654 original size:622 final size:624
Alignment explanation
Indices: 207349--210734 Score: 2452
Period size: 622 Copynumber: 5.3 Consensus size: 624
207339 AGGAGAGAGC
* * * * * * *
207349 GTCCCGCTCTTTGAGGACTAGGAA-GTGCTACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGCTC
1 GTCCTGCTCTTTGAGGA-T-TGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTC
* *
207413 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTGAAAAAAGAAAGCATCCTGCTCTTTG
64 TTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTGCTCTTTG
*
207478 AGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
129 AGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
*
207543 GTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAA
194 GTGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAA
*
207608 AAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAG
259 AAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG---AATG---G
* * * * ** ** * ** **
207673 CATCCTGCTCTTTGAGGACTGAA-GAT-ACCACCA-A-CTTGT-GTGGGCTTT---GA--AAGGC
318 CGTCCTGCTCTTTGAGGACTAAAGGGTGA-AAGGAGAGAGTGTCCTGCTCTTTGAGGACTAAGAA
** * * ** *
207728 GT-CCTGC-TCTTTGAGGAATAAAGGG-TGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGGA
382 GTGCCACCAAC-TTG-TG--T---GGGCTTTAAA-AGAGA-CGTCCTGCTCTTTGAGGACTAGAA
* *
207790 AGTGCCACCAACTTGTGTGTGCTTTAAAAGGAGTCCTGCTTTTTGAGGACTGAAAGGTGCCACCA
438 AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCA
*
207855 ACTTGTATGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTTAGGACTAAAGGGTGAAGGGAGAGA
503 ACTTGTATGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAGGGAGAGA
207920 GCATCCTACCCTTTGAGGACTAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGA
568 GCATCCTACCCTTTGAGGACTAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGA
* * *
207977 GTCCTGCTCTTTGAGGACTCAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTT
1 GTCCTGCTCTTTGAGGATTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
208042 TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTACTCTTTAAG
66 TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTGCTCTTTGAG
*
208107 GACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTAAAGGGT
131 GACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGT
* * *
208172 GAAAGGAGAGAGCATCCTGCTTTTTGAGGACTAAGAAGTGCCACCAACTTGTGTAGGCTTTAAAA
196 GAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
208237 GGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAATGGCGTCCTGC
261 GGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAATGGCGTCCTGC
*
208302 TCTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCA
326 TCTTTGAGGACTAAAGGGTGAAAGGAGAGAGTGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCA
*
208367 ACTTGTGTGGGCTTTAAAAG-GA-GTCCTGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTG
391 ACTTGTGTGGGCTTTAAAAGAGACGTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTG
* *
208429 TGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
455 TGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAA
* * * *
208494 AAGGAGAGGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAG
520 AAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCATCCTACCCTTTGAG
* * * *
208559 GACTAGGAAGTGCCACTAACTTGTGTGGGCTTTAAAATGA
585 GACTAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGA
208599 GTCCTGCTCTTTGAGGATTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 GTCCTGCTCTTTGAGGATTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
208664 TGAATACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAACATCCTGCTCTTTGAG
66 TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTGCTCTTTGAG
* *
208729 GACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCTTGGTCTTTGAGGACTAAAGGGT
131 GACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGT
* *
208794 GAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAATACCACCAACTTGTGTGGGCTTTAAAA
196 GAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
*
208859 GAAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAT-GC
261 GGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-------GAATGGC
* *
208923 GTCCTACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGTGTCCTGCTCTTTGAGGACTAGGAAGT
319 GTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGTGTCCTGCTCTTTGAGGACTAAGAAGT
* *
208988 GCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCCTGATCTTTGAGGACTA-AAGGGTG--
384 GCCACCAACTTGTGTGGGCTTT-AAAAGAG-A--CGTCCTGCTCTTTGAGGACTAGAA-AGTGCC
* * * *
209050 ---AA---G-G-GAG-----AGA-GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTG
444 ACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTG
* *
209100 TGTGGGCTTTAAAA-G-G-A---GTCCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTCTG
508 TATGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTG-----AA-------G
* * * * * *
209158 GGCTTTAAAAGGAAAAGGCATCCTGCTCTTTAAGGACTGAA-AAGTGCCACCAACTTGTTTTGGC
561 GG-------A-G-AGA-GCATCCTACCCTTTGAGGACT-AAGAAGTGCCACCAACTTGTATGGGC
* * *
209222 CTTGAAAGGC
615 TTTAAAAGGA
* ** * * * *
209232 GTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCGTCT
1 GTCCTGCTCTTTGAGGATTG-AAGGTGCCACTAACTTGTGTGGGCTTT-----G-AAAGGTGTCC
* * * * *
209297 TGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTG---AAAG---GCTTCCCGCT
59 TGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTGCT
** * * *
209356 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGAC
124 CTTTGAGGACT-GAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
* * **
209421 TGAATGGTGCCACCTACTTGTGTGGGCTTTATAAGGA-AAAGGTGTCCTGCTCTTTGAGGACT-G
188 T--A-------A---A-------GGG--TGA-AAGGAGAGA-GCATCCTGCTCTTTGAGGACTAG
*
209484 AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAGGGCGTCCTGCTCTTTGAGGACT-AAAG
230 -GAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G-GA----GTCCTGCTCTTTGAGGACTGAAA-
* * * **
209548 GGTG-----AA---G-G-GAG---AG-A--GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACTA
287 GGTGCCACCAACTTGTGTGGGCTTTGAATGGCGTCCTGCTCTTTGAGGACTA--AAGGGTGA--A
* * * * * * * *
209597 ACTTGTGTGGGCTTTAAAATGAGTCCTGTTTTTTAAGGA-T-TGAAGGTGCCACTAACTTGTGTG
348 A-----G-GAG-----AGA-GTGTCCTGCTCTTTGAGGACTAAGAA-GTGCCACCAACTTGTGTG
* * * *
209660 GGCTTTGAAAG-G-TGTCCTGCTCTTTGAAGACT-GAAAGGTGCCACCAACTTGTATGGGCTTTG
400 GGCTTTAAAAGAGACGTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTT-
* *
209722 AAAAAAGAAAGCATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-----
463 --AAAAG-GAG--TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAG
* * * * *
209781 GA-AAGGCGTCTTGCTCTTTGAGGAGTAAAGGGTGAAAGGAGAGAGCATCCTGCTCTTTGAGGAC
523 GAGAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCATCCTACCCTTTGAGGAC
* * * * *
209845 TAGGAAATACCACCAACTTGTGTGGGCTTTAAAAGAA
588 TAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGA
* * *
209882 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTCC
1 GTCCTGCTCTTTGAGGATTG-AAGGTGCCACTAACTTGTGTGGGCTTTGAAA-G-G--T--GTCC
* * * **
209947 TACTCTTTGAGGACT-AAAGGGTG--A--AA---------G----G-----AGAGAGTGTCCTGC
59 TGCTCTTTGAAGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTGC
* *
209989 TCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCCTGATCT
123 TCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTAGGCTTT-----GA-AAGGCGTCCTGCTCT
* *
210053 TTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACT
180 TTGAGGACTAAAGGGTGAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACT
*
210118 TGTGTGGGCTTTAAAAGGAGTCATGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCT
245 TGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCT
* * *
210182 TTGAAAGGCGTCCTGCTCTTTGAGGACGAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA
310 TTGAATGGCGTCCTGCTCTTTGAGGACTAAAGGGTG--A--AA--------GG-------A-G-A
* * * * *
210247 AAG-GCATCCTGCTCTTTGAGGACTGAA-AAGTGCCACCAACTTGTTTTGGCCTTGAAAG-G-CG
354 GAGTG--TCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGACG
* * *
210308 TCCTGCTCTTTGAGGACT-GAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCGTCT
416 TCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG---A---GTCC
* * * *
210372 TGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTT-----GA-AAGGCTTCCTGCT
474 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAGAAGGCGTCCTGCT
**** * * * * *
210431 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAGGAC
539 CTTTGAGGACT---AAA-G-GGTGAA---G-G-GAG-----AGA-GCATCCTACCCTTTGAGGAC
* *
210496 T--GAATGGTGCCACCTACTTGTGTGGGCTTTAAAAGGAAAA
588 TAAGAA--GTGCCACCAACTTGTATGGGCTTTAAAAGG---A
* * * *
210536 GGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
1 ---GTCCTGCTCTTTGAGGATTG-AAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGC
* * * *
210601 TCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGG-TTT--TAAAAG---GCGTCCTGCTCT
62 TCTTTGAAGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTGCTCT
* * *
210659 TTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTAA
126 TTGAGGACTGAA-GGTGCCACCAACTTGTGTAGGCTTT-----G-AAAGGCGTCCTGCTCTTTGA
*
210724 GGACTGAAGGG
184 GGACTAAAGGG
210735 CTAAAAGAGG
Statistics
Matches: 2265, Mismatches: 240, Indels: 467
0.76 0.08 0.16
Matches are distributed among these distances:
611 8 0.00
612 41 0.02
616 7 0.00
617 2 0.00
618 101 0.04
619 11 0.00
620 1 0.00
621 31 0.01
622 489 0.22
623 5 0.00
624 10 0.00
625 16 0.01
626 7 0.00
627 298 0.13
628 106 0.05
629 12 0.01
630 10 0.00
631 17 0.01
632 4 0.00
633 83 0.04
634 189 0.08
635 107 0.05
636 1 0.00
637 7 0.00
638 4 0.00
639 3 0.00
640 73 0.03
641 21 0.01
642 1 0.00
643 6 0.00
644 5 0.00
645 5 0.00
646 3 0.00
647 1 0.00
648 1 0.00
649 7 0.00
650 134 0.06
651 70 0.03
652 1 0.00
653 7 0.00
654 6 0.00
655 13 0.01
656 32 0.01
657 117 0.05
658 4 0.00
659 1 0.00
660 4 0.00
662 3 0.00
663 23 0.01
664 1 0.00
665 2 0.00
667 79 0.03
668 4 0.00
670 5 0.00
671 44 0.02
672 22 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (624 bp):
GTCCTGCTCTTTGAGGATTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATCCTGCTCTTTGAG
GACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGT
GAAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
GGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAATGGCGTCCTGC
TCTTTGAGGACTAAAGGGTGAAAGGAGAGAGTGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCA
ACTTGTGTGGGCTTTAAAAGAGACGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGT
GGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAA
AGGAGAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCATCCTACCCTTTGAGG
ACTAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGA
Found at i:208753 original size:60 final size:57
Alignment explanation
Indices: 208545--208764 Score: 238
Period size: 55 Copynumber: 3.9 Consensus size: 57
208535 GGAGAGAGCG
* * *
208545 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACTAACTTGTGTGGGCTTT--AAAATGA-G
1 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGACA
* * ***
208600 TCCTGCTCTTTGAGGATTGAAGGTGCCACTAACTTGTGTGGGCTTTG---AAAGGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGACA
**
208654 TCCTGCTCTTTGAATACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAACA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAG---ACA
*
208715 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
208765 GGCGTCTTGG
Statistics
Matches: 142, Mismatches: 13, Indels: 15
0.84 0.08 0.09
Matches are distributed among these distances:
53 6 0.04
54 41 0.29
55 44 0.31
58 4 0.03
60 30 0.21
61 17 0.12
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (57 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGACA
Found at i:208873 original size:55 final size:54
Alignment explanation
Indices: 208808--208914 Score: 171
Period size: 55 Copynumber: 1.9 Consensus size: 54
208798 GGAGAGAGCA
208808 TCCTGCTCTTTGAGGACTAGGAAA-TACCACCAACTTGTGTGGGCTTTAAAAGAAG
1 TCCTGCTCTTTGAGGACT--GAAAGTACCACCAACTTGTGTGGGCTTTAAAAGAAG
*
208863 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 TCCTGCTCTTTGAGGACTGAAA-GTACCACCAACTTGTGTGGGCTTTAAAAG
208915 GAGAATGCGT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
53 4 0.08
55 45 0.92
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTACCACCAACTTGTGTGGGCTTTAAAAGAAG
Found at i:208873 original size:94 final size:94
Alignment explanation
Indices: 208713--208886 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 94
208703 AAAAAGAAAA
* * * ** * *
208713 CATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCTTGGTCT
1 CATCCTGCTCTTTGAGGACTGAAGATACCACCAACTTGTGTAGGCTTTAAAAGAAGTCCTGCTCT
208778 TTGAGGACT-AAAGGGTGAAAGGAGAGAG
66 TTGAGGACTGAAAGGGTGAAAGGAGAGAG
*
208806 CATCCTGCTCTTTGAGGACTAGGAA-ATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCT
1 CATCCTGCTCTTTGAGGACT--GAAGATACCACCAACTTGTGTAGGCTTTAAAAGAAGTCCTGCT
208870 CTTTGAGGACTGAAAGG
64 CTTTGAGGACTGAAAGG
208887 TGCCACCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
93 20 0.29
94 42 0.60
95 8 0.11
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (94 bp):
CATCCTGCTCTTTGAGGACTGAAGATACCACCAACTTGTGTAGGCTTTAAAAGAAGTCCTGCTCT
TTGAGGACTGAAAGGGTGAAAGGAGAGAG
Found at i:209035 original size:100 final size:100
Alignment explanation
Indices: 208862--209113 Score: 427
Period size: 100 Copynumber: 2.5 Consensus size: 100
208852 TTTAAAAGAA
* * *
208862 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTC
1 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTC
*
208926 CTACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGT
65 CTACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
208962 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
*
209027 TGA-TCTTTGAGGACTAAAGGGTGAAGGGAGAGAGC
66 T-ACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
209062 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
209114 GGAGTCCTGC
Statistics
Matches: 145, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
100 141 0.97
101 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (100 bp):
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
TACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
Found at i:209062 original size:518 final size:522
Alignment explanation
Indices: 208444--209482 Score: 1350
Period size: 518 Copynumber: 2.0 Consensus size: 522
208434 TTTAAAAGGA
* * *
208444 GTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAGGGCGTCC
1 GTCCTGCTCTTTGAGGATAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
*
208509 TGCTCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCA
66 TGATCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCA
* * * * *
208574 CTAACTTGTGTGGGCTTTAAAATGAGTCCTGCTCTTTGAGGATTGAAGGTGCCACTAACTTGTGT
131 CCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTCT
** * * *
208639 GGGCTTT-G-AAAGGTGTCCTGCTCTTTGAA-TACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
196 GGGCTTTAGAAAAGGCATCCTGCTCTTT-AAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTT
**
208701 GAAAAAAGAAAACATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTAGGCTTT-G-A
260 G---AAAG---ACATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTAGAA
* * * * *
208763 AAGGCGTCTTGGTCTTTGAGGACT-AAAGGGT-GA-AA-GG-AGAGA-GCATCCTGCTCTTTGAG
319 AAGGCGTCTTGCTCTTTGAGGACTGAAA-AGTACACAATGGTAGAAAGGCATCCCGCTCTTTGAG
208822 GACTAGG-AAATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCTCTTTGAGGACTGAAAG
383 GACT-GGAAAATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCTCTTTGAGGACTGAAAG
* *
208886 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTCCTACTCTTTGAGGACTAAAGGGTGA
447 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAGGGTGA
208951 AAGGAGAGAGT
512 AAGGAGAGAGT
*
208962 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTC
1 GTCCTGCTCTTTGAGGA-TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTC
209026 CTGATCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCC
65 CTGATCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCC
209091 ACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTC
130 ACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTC
* *
209156 TGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTTTTGG
195 TGGGCTTT---A-GAAAAGGCATCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGG
* * * *
209221 CCTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGG
256 CCTTGAAAGACATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTT---A-G
* *
209286 AAAAGGCGTCTTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTGAAAGGCTTC
317 AAAAGGCGTCTTGCTCTTTGAGGACTGAAAAGTA-CA-CAA------T-GG--TAGAAAGGCATC
* ** *
209351 CCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTG
371 CCGCTCTTTGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCTCTTTG
* * * * *
209416 AGGACTGAATGGTGCCACCTACTTGTGTGGGCTTTATAAGGAAAAGGTGTCCTGCTCTTTGAGGA
436 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGAGGA
209481 CT
501 CT
209483 GAAAAGTGCC
Statistics
Matches: 447, Mismatches: 41, Indels: 43
0.84 0.08 0.08
Matches are distributed among these distances:
518 207 0.46
519 27 0.06
521 4 0.01
523 3 0.01
524 46 0.10
525 26 0.06
526 3 0.01
527 1 0.00
529 2 0.00
537 2 0.00
540 5 0.01
541 121 0.27
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (522 bp):
GTCCTGCTCTTTGAGGATAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
TGATCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCA
CCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTCT
GGGCTTTAGAAAAGGCATCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTTG
AAAGACATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTAGAAAAGGCGT
CTTGCTCTTTGAGGACTGAAAAGTACACAATGGTAGAAAGGCATCCCGCTCTTTGAGGACTGGAA
AATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCA
ACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
GT
Found at i:209249 original size:55 final size:55
Alignment explanation
Indices: 209060--209517 Score: 508
Period size: 55 Copynumber: 8.0 Consensus size: 55
209050 AAGGGAGAGA
* *
209060 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
209115 GAGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTCTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* * * * *
209175 GCATCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTTTTGGCCTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
209230 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* *
209291 GCGTCTTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
209346 GCTTCCCGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* ** *
209401 GCGTCTTGCTCTTTGAGGACTGAATGGTGCCACCTACTTGTGTGGGCTTTATAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TT-T---G-AAAG
* *
209462 GTGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
209517 G
1 G
209518 AGAGGGCGTC
Statistics
Matches: 340, Mismatches: 41, Indels: 44
0.80 0.10 0.10
Matches are distributed among these distances:
54 27 0.08
55 157 0.46
56 9 0.03
57 1 0.00
59 1 0.00
60 26 0.08
61 119 0.35
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:209310 original size:116 final size:116
Alignment explanation
Indices: 209060--209543 Score: 624
Period size: 116 Copynumber: 4.2 Consensus size: 116
209050 AAGGGAGAGA
* * *
209060 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
** *
209124 TCTTTGAGGACTG-AAGGTGCCACCAACTTGTCTGGGCTTTAAAAGGAAAAG
65 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * * *
209175 GCATCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTTTTGGCCTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
209240 CTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAG
66 CTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
209291 GCGTCTTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTGAAAGGCTTCCCGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
209356 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------AAAAG
66 CTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* ** * *
209401 GCGTCTTGCTCTTTGAGGACTGAATGGTGCCACCTACTTGTGTGGGCTTTATAAGGAAAAGGTGT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TT-T---G-AAAGGCGT
* * *
209466 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAGG
60 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
209523 GCGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
209544 AAAGGGTGAA
Statistics
Matches: 320, Mismatches: 35, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
110 48 0.15
111 2 0.01
112 1 0.00
115 68 0.21
116 178 0.56
122 23 0.07
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (116 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
CTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:209419 original size:171 final size:170
Alignment explanation
Indices: 209060--210702 Score: 673
Period size: 171 Copynumber: 9.7 Consensus size: 170
209050 AAGGGAGAGA
*
209060 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG---A--GT
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGGT
* * *
209119 CCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTCTGGGCTTTAAAAGGAAAAGGCATCCTG
65 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCCG
* * *
209183 CTCTTTAAGGACTGAAAAGTGCCACCAACTTGTTTTGGCCTTGAAAG
124 CTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAG
* *
209230 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG-GT
* * *
209295 CTTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTGAAAGGCTTCCCGCTCTTT
65 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCCGCTCTTT
* *
209360 GAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAG
130 AAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAG
* ** * *
209401 GCGTCTTGCTCTTTGAGGACTGAATGGTGCCACCTACTTGTGTGGGCTTTATAAGGAAAAGGTGT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG-GT
* * *
209466 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAGGGCGTCCTG
65 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCATCCCG
* * * *
209531 CTCTTTGAGGACT-AAAGGGTG-----AA---G-G-GAG-----AGA-
124 CTCTTTAAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCCTTAAAAG
* * *
209562 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACTAACTTGTGTGGGCTTTAAAATG---A--GT
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGGT
* * * * * * ** *
209621 CCTGTTTTTTAAGGATTG-AAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTT
65 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCCGCTCTTT
* * *
209685 GAA-GACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAAAG
130 -AAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTT---AAAAG
* *
209729 AAAGCATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGG
1 ---GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
* * * ** ** * ** **
209787 CGTCTTGCTCTTTGAGGAGT-AAAGGGTGAAAGGAGAGAGCAT-CCTGCTCTTTGAGGACTAGGA
63 -GTCCTGCTCTTTGAGGACTGAAA-AGTGCCA--CCA-A-CTTGTGTGGGCTTTGA--A--AGG-
* * ** * * * ** * * * *
209850 AATACCAC-CAACTTGTGTGGGCTTTAAAAGAAGTCCTGC-TCTT-TG-AGGAC-TGAAAG
117 CAT-CC-CGC-TCTT-TAAGGAC-TGAAAAG-TG-CCACCAACTTGTGTGGGCCTTAAAAG
* ** * * * * ** * * * * * *
209906 GTG-CCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTCCTACTCTTTGAGGACTAAAGGGTG
1 GCGTCCTGC-TCTT-TGAGGAC--TGAAA--AG--TGCCACCAACT-TGTGTGGGCT-----TTA
* * *
209970 AAAGGAGAGAGTGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
52 AAAGGA-AAAGGGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT----
* * * * * * *
210034 AGAGAAGGCGTCCTGATCTTTGAGGACT-AAAGGGTG-----AA---G-G-GAG-----AGA-
111 -GA-AAGGCATCCCGCTCTTTAAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCCTTAAAAG
*
210080 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG---A--GT
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGGT
* * * *
210139 CATGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
65 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCCGCTCTTT
* *
210203 GAGGAC-GAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
130 AAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCCTT------AAAAG
* * * *
210250 GCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTTTTGGCCTT-----G-AAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG-GT
* * * **
210309 CCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCGTCTTG
65 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCCG
* * * *
210374 CTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTGAAAG
124 CTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAG
* *
210421 GCTTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGG--CA---T
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGGT
* ** * * *
210480 CTTGCTCTTTGAGGACTGAATGGTGCCACCTACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
65 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCATCCCG
* * *
210545 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
124 CTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAG
* *
210592 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGTTTTAAAA-G----GCGT
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGGT
* *
210651 CCTGCTCTTTGAGGACT-AAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
65 CCTGCTCTTTGAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCTTTGAAAGG
210703 AAAAGGCGTC
Statistics
Matches: 1139, Mismatches: 183, Indels: 307
0.70 0.11 0.19
Matches are distributed among these distances:
148 51 0.04
149 8 0.01
153 4 0.00
154 50 0.04
155 34 0.03
156 2 0.00
157 2 0.00
158 5 0.00
160 1 0.00
161 52 0.05
162 2 0.00
164 1 0.00
165 6 0.01
166 10 0.01
167 11 0.01
168 1 0.00
169 45 0.04
170 142 0.12
171 417 0.37
172 14 0.01
173 18 0.02
174 11 0.01
175 15 0.01
176 23 0.02
177 101 0.09
178 8 0.01
179 5 0.00
180 5 0.00
181 5 0.00
182 14 0.01
183 11 0.01
184 3 0.00
187 4 0.00
188 3 0.00
189 5 0.00
190 5 0.00
191 9 0.01
192 2 0.00
193 4 0.00
194 22 0.02
195 6 0.01
196 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (170 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGGTC
CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCCGCTCTTTA
AGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAG
Found at i:209647 original size:54 final size:54
Alignment explanation
Indices: 209588--209780 Score: 190
Period size: 54 Copynumber: 3.4 Consensus size: 54
209578 GGACTAGGAA
* * *
209588 GTGCCACTAACTTGTGTGGGCTTTAAAATGAGTCCTGTTTTTTAAGGATTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGTTTTTTAAGGACTGAAG
* * * * * *
209642 GTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAA-GACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTG-TTTTTTAAGGACTG-AAG
* * * *
209697 GTGCCACCAACTTGTATGGGCTTTGAAAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTT--AAAAAG--AG--TCCTGTTTTTTAAGGACTGAAG
209757 GTGCCACCAACTTGTGTGGGCTTT
1 GTGCCACCAACTTGTGTGGGCTTT
209781 GAAAGGCGTC
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
54 38 0.34
55 31 0.27
57 4 0.04
59 1 0.01
60 29 0.26
61 10 0.09
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (54 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTGTTTTTTAAGGACTGAAG
Found at i:209720 original size:209 final size:208
Alignment explanation
Indices: 209353--210592 Score: 646
Period size: 209 Copynumber: 5.8 Consensus size: 208
209343 AAGGCTTCCC
* * *
209353 GCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGA
1 GCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGTCCTGCTCTTTGA
*
209417 GGACTGAATGGTGCCACCT-ACTTGTGTGGGCTTTATAAGGAAAAGGTGTCCTGCTCTTTGAGGA
64 GGATTGAA-GGTGCCA-CTAACTTGTGTGGGC-TT-T---G-AAAGGTGTCCTGCTCTTTGAGGA
* **
209481 CTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAGGGCGTCCTGCTCTTTGAGGACTAA
121 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAA
209546 AGGGTGAAGGGAGAGAGCGTCCT
186 AGGGTGAAGGGAGAGAGCGTCCT
* * * *
209569 GCTCTTTGAGGACTAGGAAGTGCCACTAACTTGTGTGGGCTTTAAAATGAGTCCTGTTTTTTAAG
1 GCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGTCCTGCTCTTTGAG
*
209634 GATTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAAGACTGAAAGGT
65 GATTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGT
* * * *
209699 GCCACCAACTTGTATGGGCTTTGAAAA-AAGAAAGCATCCTGCTCTTTGAGGACTGAA-GGTGCC
130 GCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTG--
* * *
209762 ACCAACTTGTGTGGGCTTTGAAAGGCGTCTT
192 ---AA-------GGG---AGAGA-GCGTCCT
* * ** * *
209793 GCTCTTTGAGGAGTA--AAGGGTGA--AA-----G-GAG-----AGAGCA-TCCTGCTCTTTGAG
1 GCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-AGTCCTGCTCTTTGAG
* * * * * **
209842 GACTAGGAA-ATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCTCTTTGAGGACTGAAAG
65 GA-T-TGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAG
* *
209906 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTCCTACTCTTTGAGGACTAAAGGGTGA
128 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTGA
* *
209971 AAGGAGAGAGTGTCCT
193 AGGGAGAGAGCGTCCT
*** *
209987 GCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAG-AAGGCGTC-CTGA
1 GCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGTCCTGC-TCTTTGA
*** *** ** * * *
210050 TCTTTG-A-G-G--ACTAAAGGGTGAAGG----GAGAGAGCGTCCTGCTCTTTGAGGACTAGGAA
64 GGATTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAG-GTGTCCTGCTCTTTGAGGACT-GAAA
* *
210106 -GTGCCACCAACTTGTGTGGGCTTTAAAA-G-G--A--GTCATGCTCTTTGAGGACTGAA-GGTG
127 GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTG
* *
210163 CCACCAACTTGTGTGGGCTTTGAAAGGCGTCCT
192 -----AA-------GGG---AGAGA-GCGTCCT
* *
210196 GCTCTTTGAGGACGA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
1 GCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAA-G---A-G--TCCTGCT
* * * * * * *
210260 CTTTGAGGACTGAAAAGTGCCACCAACTTGTTTTGGCCTTGAAAGGCGTCCTGCTCTTTGAGGAC
58 CTTTGAGGATTG-AAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGAC
** * *
210325 TGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGA-AAAGGCGTCTTGCTCTTTGAGGACTGA
122 TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA-GCGTCCTGCTCTTTGAGGACT--
* * * * *
210389 AAAGTACCACCAACTTGTG-TGGGCTTTGAAAGGCTTCCT
184 AAAG-----------GGTGAAGGG---AGAGA-GCGTCCT
* *
210428 GCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG-GCATCTTGCTCTTTG
1 GCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGAG--TCCTGCTCTTTG
* *
210491 AGGACTGAATGGTGCCACCT-ACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGG
63 AGGATTGAA-GGTGCCA-CTAACTTGTGTGGGCTTT-----G-AAAGGTGTCCTGCTCTTTGAGG
* *
210555 ACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
120 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
210593 CGTCCTGCTC
Statistics
Matches: 791, Mismatches: 121, Indels: 208
0.71 0.11 0.19
Matches are distributed among these distances:
193 4 0.01
194 38 0.05
195 3 0.00
196 5 0.01
198 7 0.01
199 4 0.01
200 47 0.06
201 3 0.00
203 10 0.01
204 2 0.00
205 4 0.01
206 1 0.00
207 1 0.00
208 32 0.04
209 227 0.29
210 17 0.02
212 1 0.00
213 4 0.01
214 6 0.01
215 22 0.03
216 67 0.08
217 2 0.00
218 1 0.00
219 1 0.00
220 6 0.01
222 13 0.02
223 3 0.00
224 23 0.03
225 49 0.06
226 44 0.06
227 1 0.00
228 1 0.00
231 20 0.03
232 115 0.15
233 4 0.01
245 3 0.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (208 bp):
GCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGTCCTGCTCTTTGAGG
ATTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTG
CCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAAAGGGTGAAGG
GAGAGAGCGTCCT
Found at i:209783 original size:115 final size:109
Alignment explanation
Indices: 209562--209801 Score: 302
Period size: 115 Copynumber: 2.1 Consensus size: 109
209552 AAGGGAGAGA
* * * * * *
209562 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACTAACTTGTGTGGGCTTTAAAATGAGTCCTGTT
1 GCGTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTATGGGCTTTAAAAAGAGTCCTGCT
* * *
209627 TTTTAAGGATTGAAGGTGCCACTAACTTGTGTGGGCTTTGAAAG
66 CTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
209671 GTGTCCTGCTCTTTGAAGACT-GAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAAAGAAAGCA
1 GCGTCCTGCTCTTTGAAGACTAGAAA-GTGCCACCAACTTGTATGGGCTTT--AAAAAG--AG--
*
209735 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
59 TCCTGCTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
209786 GCGTCTTGCTCTTTGA
1 GCGTCCTGCTCTTTGA
209802 GGAGTAAAGG
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
108 3 0.03
109 41 0.37
111 5 0.05
113 2 0.02
115 60 0.54
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (109 bp):
GCGTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTATGGGCTTTAAAAAGAGTCCTGCT
CTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:209893 original size:55 final size:54
Alignment explanation
Indices: 209828--209934 Score: 171
Period size: 55 Copynumber: 1.9 Consensus size: 54
209818 GGAGAGAGCA
209828 TCCTGCTCTTTGAGGACTAGGAAA-TACCACCAACTTGTGTGGGCTTTAAAAGAAG
1 TCCTGCTCTTTGAGGACT--GAAAGTACCACCAACTTGTGTGGGCTTTAAAAGAAG
*
209883 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 TCCTGCTCTTTGAGGACTGAAA-GTACCACCAACTTGTGTGGGCTTTAAAAG
209935 GAGAATGCGT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
53 4 0.08
55 45 0.92
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTACCACCAACTTGTGTGGGCTTTAAAAGAAG
Found at i:209977 original size:155 final size:150
Alignment explanation
Indices: 209674--210066 Score: 488
Period size: 155 Copynumber: 2.5 Consensus size: 150
209664 TTGAAAGGTG
* *
209674 TCCTGCTCTTTGAAGACT--GAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAAAGAAAGCATC
1 TCCTGCTCTTTGAGGACTAGGAAA--TGCCACCAACTTGTGTGGGCTTT---AAAAGAAAG-ATC
* *
209737 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGA
60 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGA
*
209802 GGAGTAAAGGGTGAAAGGAGAGAGCA
125 GGACTAAAGGGTGAAAGGAGAGAGCA
*
209828 TCCTGCTCTTTGAGGACTAGGAAATACCACCAACTTGTGTGGGCTTTAAAAG-AAG-TCCTGCTC
1 TCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGATCCTGCTC
*
209891 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTCCTACTCTTTG
66 TTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTACTCTTTG
**
209956 AGGACTAAAGGGTGAAAGGAGAGAGTG
124 AGGACTAAAGGGTGAAAGGAGAGAGCA
* *
209983 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTT-AAAAGA-AA-G-ATCCT
* *
210048 GATCTTTGAGGACTAAAGG
62 GCTCTTTGAGGACTGAAGG
210067 GTGAAGGGAG
Statistics
Matches: 211, Mismatches: 13, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
148 19 0.09
149 27 0.13
150 3 0.01
151 5 0.02
154 40 0.19
155 84 0.40
156 9 0.04
158 2 0.01
159 1 0.00
160 4 0.02
161 17 0.08
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (150 bp):
TCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGATCCTGCTC
TTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTA
AAGGGTGAAAGGAGAGAGCA
Found at i:210055 original size:100 final size:100
Alignment explanation
Indices: 209882--210133 Score: 427
Period size: 100 Copynumber: 2.5 Consensus size: 100
209872 TTTAAAAGAA
* * *
209882 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTC
1 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTC
*
209946 CTACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGT
65 CTACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
209982 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
*
210047 TGA-TCTTTGAGGACTAAAGGGTGAAGGGAGAGAGC
66 T-ACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
210082 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
210134 GGAGTCATGC
Statistics
Matches: 145, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
100 141 0.97
101 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (100 bp):
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
TACTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
Found at i:210097 original size:518 final size:522
Alignment explanation
Indices: 209462--210476 Score: 1102
Period size: 518 Copynumber: 1.9 Consensus size: 522
209452 TAAGGAAAAG
* * *
209462 GTGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAGGGCG
1 GTGTCCTGCTCTTTGAGGA-TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCG
*
209526 TCCTGCTCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTG
65 TCCTGATCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTG
* * * * * * *
209591 CCACTAACTTGTGTGGGCTTTAAAATGAGTCCTGTTTTTTAAGGATTGAAGGTGCCACTAACTTG
130 CCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTG
* ** * *
209656 TGTGGGCTTT-G-AAAGGTGTCCTGCTCTTTGAA-GACTGAAAGGTGCCACCAACTTGTATGGGC
195 TCTGGGCTTTAGAAAAGGCATCCTGCTCTTT-AAGGACTGAAAAGTGCCACCAACTTGTGTGGGC
* ** *
209718 TTTGAAAAAAGAAAGCATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-
259 CTTG---AAAG--A-CATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTA
* * * * *
209781 G-AAAGGCGTCTTGCTCTTTGAGGAGT-AAAGGGT-GA-AA-GG-AGAGA-GCATCCTGCTCTTT
318 GAAAAGGCGTCTTGCTCTTTGAGGACTGAAA-AGTACACAATGGTAGAAAGGCATCCCGCTCTTT
209839 GAGGACTAGG-AAATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCTCTTTGAGGACTGA
382 GAGGACT-GGAAAATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCTCTTTGAGGACTGA
* *
209903 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTCCTACTCTTTGAGGACTAAAGGG
446 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAGGG
209968 TGAAAGGAGAGA
511 TGAAAGGAGAGA
*
209980 GTGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCG
1 GTGTCCTGCTCTTTGAGGA-TAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCG
210044 TCCTGATCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTG
65 TCCTGATCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTG
*
210109 CCACCAACTTGTGTGGGCTTTAAAAGGAGTCATGCTCTTTGAGGACTGAAGGTGCCACCAACTTG
130 CCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTG
* * *
210174 TGTGGGCTTT-G-AAAGGCGTCCTGCTCTTTGAGGAC-GAAAAGGTGCCACCAACTTGTGTGGGC
195 TCTGGGCTTTAGAAAAGGCATCCTGCTCTTTAAGGACTGAAAA-GTGCCACCAACTTGTGTGGGC
* * * * * *
210236 TTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTTTTGGCCTT-
259 CTT-----G-AAAGACATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTA
* * *
210300 G-AAAGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAA
318 GAAAAGGCGTCTTGCTCTTTGAGGACTGAAAAGT-ACA-CAA------T-GG---T---A-G-AA
* ** * ***
210364 AGGCGTCTTGCTCTTTGAGGACT-GAAAAGTACCACCAACTTGTGTGGGCTTTGAAAGGCTTCCT
366 AGGCATCCCGCTCTTTGAGGACTGGAAAA-TACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCT
*
210428 GCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGG
430 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
210477 CATCTTGCTC
Statistics
Matches: 428, Mismatches: 34, Indels: 47
0.84 0.07 0.09
Matches are distributed among these distances:
517 5 0.01
518 253 0.59
519 51 0.12
520 3 0.01
521 6 0.01
523 3 0.01
531 2 0.00
538 1 0.00
539 2 0.00
540 5 0.01
541 93 0.22
542 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (522 bp):
GTGTCCTGCTCTTTGAGGATAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGT
CCTGATCTTTGAGGACTAAAGGGTGAAGGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGC
CACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGT
CTGGGCTTTAGAAAAGGCATCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCT
TGAAAGACATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTAGAAAAGGC
GTCTTGCTCTTTGAGGACTGAAAAGTACACAATGGTAGAAAGGCATCCCGCTCTTTGAGGACTGG
AAAATACCACCAACTTGTGTGGGCTTTAAAAGAAGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
CAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAGGGTGAAAGGAGA
GA
Found at i:210237 original size:55 final size:55
Alignment explanation
Indices: 210080--210731 Score: 785
Period size: 55 Copynumber: 11.4 Consensus size: 55
210070 AAGGGAGAGA
* *
210080 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
210135 GAGTCATGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
210189 GCGTCCTGCTCTTTGAGGAC-GAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* * * *
210250 GCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTTTTGGCCTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
210305 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* *
210366 GCGTCTTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
210421 GCTTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * ** *
210476 GCATCTTGCTCTTTGAGGACTGAATGGTGCCACCTACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
210537 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
210592 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGTTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
210647 GCGTCCTGCTCTTTGAGGACT-AAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
*
210708 GCGTCCTGCTCTTTAAGGACTGAA
1 GCGTCCTGCTCTTTGAGGACTGAA
210732 GGGCTAAAAG
Statistics
Matches: 520, Mismatches: 43, Indels: 61
0.83 0.07 0.10
Matches are distributed among these distances:
53 4 0.01
54 52 0.10
55 275 0.53
56 13 0.03
60 2 0.00
61 167 0.32
62 7 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:210317 original size:116 final size:116
Alignment explanation
Indices: 210080--210731 Score: 848
Period size: 116 Copynumber: 5.7 Consensus size: 116
210070 AAGGGAGAGA
*
210080 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG---A---G
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
210138 TCATGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
65 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
210189 GCGTCCTGCTCTTTGAGGAC-GAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 GCGTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
210253 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTTTTGGCCTTGAAAG
65 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
210305 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
210370 CTTGCTCTTTGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTGAAAG
66 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
210421 GCTTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* ** *
210479 TCTTGCTCTTTGAGGACTGAATGGTGCCACCTACTTGTGTGGGCTTTAAAAGGAAAAG
65 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
210537 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
210596 CCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGTTTTAAAAG
66 CCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
210647 GCGTCCTGCTCTTTGAGGACT-AAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 GCGTCCTGCTCTTTGAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
210711 TCCTGCTCTTTAAGGACTGAA
65 TCCTGCTCTTTGAGGACTGAA
210732 GGGCTAAAAG
Statistics
Matches: 484, Mismatches: 32, Indels: 48
0.86 0.06 0.09
Matches are distributed among these distances:
108 2 0.00
109 54 0.11
110 99 0.20
112 1 0.00
115 28 0.06
116 287 0.59
117 13 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (116 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:210703 original size:171 final size:170
Alignment explanation
Indices: 210080--210731 Score: 944
Period size: 171 Copynumber: 3.8 Consensus size: 170
210070 AAGGGAGAGA
* * *
210080 GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCATGC
1 GCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
*
210144 TCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTT
65 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
210203 GAGGAC-GAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
130 GAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* * * * *
210250 GCATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTTTTGGCCTTGAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
** * *
210314 TCTTTGAGGACTGAAAAATGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTT
65 TCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTT
*
210379 TGAGGACTGAAAAGTACCACCAACTTGTGTGGGCTTTGAAAG
129 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
210421 GCTTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCT
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* *
210486 CTTTGAGGACTGAATGGTGCCACCTACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
66 CTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
210551 GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
130 GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
210592 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGTTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
210657 CTTTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
66 CTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
*
210722 AAGGACTGAA
130 GAGGACTGAA
210732 GGGCTAAAAG
Statistics
Matches: 435, Mismatches: 35, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
168 1 0.00
169 2 0.00
170 65 0.15
171 309 0.71
172 6 0.01
176 1 0.00
177 46 0.11
178 5 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (170 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTG
AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:213144 original size:13 final size:13
Alignment explanation
Indices: 213126--213151 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
213116 CATTTTATAG
213126 TGTATCGATACAT
1 TGTATCGATACAT
213139 TGTATCGATACAT
1 TGTATCGATACAT
213152 ACTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:215197 original size:21 final size:21
Alignment explanation
Indices: 215166--215217 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
215156 ACGGCTAGTG
*
215166 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGG-TGCCCGGTCGCGACC
*
215188 TGGGGGTG-CCGGTCGTGACC
1 TGGGGGTGCCCGGTCGCGACC
215208 TGGTGGGTGC
1 TGG-GGGTGC
215218 TGCCTAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.04, C:0.25, G:0.50, T:0.21
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:215672 original size:13 final size:13
Alignment explanation
Indices: 215654--215692 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
215644 ATAATCCCCC
*
215654 TGTATCGATACAG
1 TGTATCGATACAA
215667 TGTATCGATACAA
1 TGTATCGATACAA
215680 TGTATCGATACAA
1 TGTATCGATACAA
215693 ATAATGCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:220748 original size:20 final size:20
Alignment explanation
Indices: 220715--220790 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
220705 TTTTTACCTT
*
220715 AATGTATCGATACATTTTTC
1 AATGTATTGATACATTTTTC
* * * *
220735 AATATATTGATACATGTATG
1 AATGTATTGATACATTTTTC
* * *
220755 AATGTATTGATATATTCTGC
1 AATGTATTGATACATTTTTC
*
220775 AATGTATCGATACATT
1 AATGTATTGATACATT
220791 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
AATGTATTGATACATTTTTC
Found at i:220787 original size:40 final size:39
Alignment explanation
Indices: 220715--220793 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
220705 TTTTTACCTT
* * *
220715 AATGTATCGATACATTTTTCAATATATTGATACATGTATG
1 AATGTATCGATACATTCTGCAATATATCGATACAT-TATG
* * *
220755 AATGTATTGATATATTCTGCAATGTATCGATACATTATG
1 AATGTATCGATACATTCTGCAATATATCGATACATTATG
220794 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (39 bp):
AATGTATCGATACATTCTGCAATATATCGATACATTATG
Found at i:225161 original size:13 final size:13
Alignment explanation
Indices: 225143--225168 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
225133 CATTTTATGG
225143 TGTATCGATACAT
1 TGTATCGATACAT
225156 TGTATCGATACAT
1 TGTATCGATACAT
225169 ACTATGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:225165 original size:33 final size:32
Alignment explanation
Indices: 225123--225186 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
225113 TACAAGCCAA
**
225123 TGTATCGATACATTTTATGGTGTATCGATACAT
1 TGTATCGATACATACTAT-GTGTATCGATACAT
225156 TGTATCGATACATACTATGTGTATCGATACA
1 TGTATCGATACATACTATGTGTATCGATACA
225187 AGTTTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATACTATGTGTATCGATACAT
Found at i:230135 original size:51 final size:52
Alignment explanation
Indices: 230034--230154 Score: 138
Period size: 51 Copynumber: 2.3 Consensus size: 52
230024 GAGATAACAA
* * * *
230034 CGGGGCTAGAGTATCCTCGATTATCGAAAAATGGTCTTCTAAAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATCGAAAAATGATCTTCTAAAAAATAAAAC
* * * *
230086 TGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATTATCGAAAAA-TGATCTTCTAAAAAATAAAAC
*
230137 CGGGGTTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
230155 TCGAAAATAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
51 32 0.55
52 26 0.45
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (52 bp):
CGGGGTTAGAGTATCCCCGATTATCGAAAAATGATCTTCTAAAAAATAAAAC
Found at i:230177 original size:79 final size:78
Alignment explanation
Indices: 230087--230499 Score: 630
Period size: 79 Copynumber: 5.2 Consensus size: 78
230077 AAATAAAATT
*
230087 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
230152 CCCTCGAAAATAAC
66 CCCTC-AAAATAAC
*
230166 GGGGTTGGAGTATCCCCGATTATGAAAAATT-AGTGTTTTAGAAATAAAACCGGGTTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACCGGGGTTGGAGTAT
230230 CCCCTCAGAAATAAC
65 CCCCTCA-AAATAAC
* * *
230245 GAGGTTGGAGTATCCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACTGAGGTTGGAGTAT
1 GGGGTTGGAGTATCCCC-GATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
230310 CCCCTCGGAAATAAT
65 CCCCTC-AAAATAAC
* * * *
230325 GGGGTTTGAGTATCCCCGATTATGAAAAATTGATGTTTTAGTAATAAAACCAGGGTTGAAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
230390 CCCTCAAAAATAAC
66 CCCTC-AAAATAAC
* * *
230404 GGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAGCCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
230469 CCCTCAGAAATAAC
66 CCCTCA-AAATAAC
230483 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
230500 AATGATTAAC
Statistics
Matches: 302, Mismatches: 26, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
78 3 0.01
79 229 0.76
80 69 0.23
81 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCAAAATAAC
Found at i:230304 original size:159 final size:157
Alignment explanation
Indices: 230088--230499 Score: 650
Period size: 159 Copynumber: 2.6 Consensus size: 157
230078 AATAAAATTG
*
230088 GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
230153 CCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AGTGTTTTAGAAATAAAACC
66 CCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACC
* *
230217 -GGGTTTGGAGTATCCCCTCAGAAATAAC
130 AGGG-TTGAAGTATCCCCTCAAAAATAAC
* *
230245 GAGGTTGGAGTATCCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACTGAGGTTGGAGTAT
1 G-GGTTGGAGTATCCCC-GATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* * * *
230310 CCCCTCGGAAATAATGGGGTTTGAGTATCCCCGATTATGAAAAATTGATGTTTTAGTAATAAAAC
64 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
230375 CAGGGTTGAAGTATCCCCTCAAAAATAAC
129 CAGGGTTGAAGTATCCCCTCAAAAATAAC
* *
230404 GGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAGCCGGGGTTGGAGTATC
1 GGG-TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
230469 CCCTC-AGAAATAACGGGGTTGGAGTATCCCC
65 CCCTCGA-AAATAACGGGGTTGGAGTATCCCC
230500 AATGATTAAC
Statistics
Matches: 233, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
157 1 0.00
158 87 0.37
159 141 0.61
160 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (157 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
CCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCA
GGGTTGAAGTATCCCCTCAAAAATAAC
Found at i:231758 original size:28 final size:28
Alignment explanation
Indices: 231726--231841 Score: 106
Period size: 35 Copynumber: 3.7 Consensus size: 28
231716 CTCATTTTCG
*
231726 TCCATGCTTTCATTTTTATGCCCATCAT
1 TCCATGCCTTCATTTTTATGCCCATCAT
231754 TCCATGCCTTCATTTTTTATTCCATGCCCATCAT
1 TCCATGCCTTCA---TTT-TT--ATGCCCATCAT
231788 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCA---TT-T-TT--ATGCCCATCAT
231823 TCCATGCCTTCATTTTTAT
1 TCCATGCCTTCATTTTTAT
231842 ATTCCATGCC
Statistics
Matches: 80, Mismatches: 1, Indels: 14
0.84 0.01 0.15
Matches are distributed among these distances:
28 13 0.16
30 2 0.03
31 4 0.05
32 4 0.05
34 28 0.35
35 29 0.36
ACGTcount: A:0.18, C:0.30, G:0.06, T:0.46
Consensus pattern (28 bp):
TCCATGCCTTCATTTTTATGCCCATCAT
Found at i:231817 original size:35 final size:35
Alignment explanation
Indices: 231743--232053 Score: 554
Period size: 35 Copynumber: 8.9 Consensus size: 35
231733 TTTCATTTTT
231743 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
231777 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
231812 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* *
231847 ATGCCCATCACTCCATGCCCTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
231882 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
231917 ATGCCCATCATTCCATGCATTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
231952 ATGTCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* *
231987 ATGCCCATCATTCCATGCTTTCATTTTTATATTCA
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
232022 ATGCCCATCATTCCATGCCTTCATTTTT-TATT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATT
232054 ATTATTTTTT
Statistics
Matches: 265, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
34 32 0.12
35 233 0.88
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:234401 original size:16 final size:16
Alignment explanation
Indices: 234380--234414 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
234370 AAGTAATGGA
*
234380 AAAGGAAAACTTTAGT
1 AAAGGAAAACCTTAGT
234396 AAAGGAAAACCTTAGT
1 AAAGGAAAACCTTAGT
234412 AAA
1 AAA
234415 TTTGATGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (16 bp):
AAAGGAAAACCTTAGT
Found at i:236470 original size:22 final size:22
Alignment explanation
Indices: 236442--236494 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
236432 GATGACCAAA
236442 TATGTTTTTAATGCCTATAATG
1 TATGTTTTTAATGCCTATAATG
236464 TATGTTTTTAATGCCTATAATG
1 TATGTTTTTAATGCCTATAATG
*
236486 CATGTTTTT
1 TATGTTTTT
236495 GGTCATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.53
Consensus pattern (22 bp):
TATGTTTTTAATGCCTATAATG
Found at i:239420 original size:13 final size:13
Alignment explanation
Indices: 239402--239426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
239392 ATGTTGCTTA
239402 GTATCGATACATT
1 GTATCGATACATT
239415 GTATCGATACAT
1 GTATCGATACAT
239427 GTTTTTTGAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:240300 original size:22 final size:22
Alignment explanation
Indices: 240264--240316 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
240254 TTTGAGCTTA
* *
240264 TAATAACATAATAGTATATGAT
1 TAATAACATAATAGTAAATAAT
* *
240286 TAATAATATATTAGTAAATAAT
1 TAATAACATAATAGTAAATAAT
240308 TAATAACAT
1 TAATAACAT
240317 GTAAAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (22 bp):
TAATAACATAATAGTAAATAAT
Found at i:240438 original size:22 final size:22
Alignment explanation
Indices: 240412--240467 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
240402 ATAAAATAGC
*
240412 ATAATAGTAAATGATT-GATAAA
1 ATAATAGTAAATAATTAG-TAAA
* *
240434 ATAATAATAAATAATTAGTAAT
1 ATAATAGTAAATAATTAGTAAA
240456 ATAATAGTAAAT
1 ATAATAGTAAAT
240468 TTTGTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (22 bp):
ATAATAGTAAATAATTAGTAAA
Found at i:242897 original size:18 final size:18
Alignment explanation
Indices: 242857--242897 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
242847 TACGGTTGCA
*
242857 TATATATTTTTTATCGCT
1 TATATATTTTTTATCGAT
242875 T-TATATTTTATTAT-GAT
1 TATATATTTT-TTATCGAT
242892 TATATA
1 TATATA
242898 ATAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
TATATATTTTTTATCGAT
Found at i:243527 original size:2 final size:2
Alignment explanation
Indices: 243520--243562 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
243510 ATCTGTAGCA
** *
243520 AT AT AT AT AT AT AT AT AT AT AT GC AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
243562 A
1 A
243563 ATCTGCTTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:248085 original size:16 final size:15
Alignment explanation
Indices: 248064--248106 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
248054 AGACTATGAA
*
248064 AAAAATTGCATTATAT
1 AAAAATTGC-TAATAT
248080 AAAAATATGCTAATAT
1 AAAAAT-TGCTAATAT
*
248096 AAATATTGCTA
1 AAAAATTGCTA
248107 TATCTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 16 0.67
17 3 0.12
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (15 bp):
AAAAATTGCTAATAT
Found at i:248427 original size:16 final size:16
Alignment explanation
Indices: 248403--248452 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
248393 GAACTAATAA
*
248403 TATAATATAAAATATT
1 TATATTATAAAATATT
* *
248419 TATATTATAAAAAACT
1 TATATTATAAAATATT
248435 TAT-TTATAAAAT-TT
1 TATATTATAAAATATT
248449 TATA
1 TATA
248453 CTTGAACATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 4 0.14
15 8 0.29
16 16 0.57
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TATATTATAAAATATT
Found at i:249320 original size:17 final size:17
Alignment explanation
Indices: 249298--249331 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
249288 AATACCGATA
* *
249298 GAATATTTGAGTTTATT
1 GAATATCTGAATTTATT
249315 GAATATCTGAATTTATT
1 GAATATCTGAATTTATT
249332 AAATTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (17 bp):
GAATATCTGAATTTATT
Found at i:250830 original size:24 final size:25
Alignment explanation
Indices: 250779--250830 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
250769 AAATAGAGAG
*
250779 AAGCAAAGAGATCTGCCGAAAACTGA
1 AAGCAAAGAGATCTGCC-AAAACAGA
250805 AAGCAAAGAGATCTGCC-AAACAGA
1 AAGCAAAGAGATCTGCCAAAACAGA
250829 AA
1 AA
250831 AACCAGCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.32
26 17 0.68
ACGTcount: A:0.50, C:0.19, G:0.21, T:0.10
Consensus pattern (25 bp):
AAGCAAAGAGATCTGCCAAAACAGA
Found at i:254464 original size:109 final size:109
Alignment explanation
Indices: 254268--254488 Score: 325
Period size: 109 Copynumber: 2.0 Consensus size: 109
254258 GGATAAGTCT
* * *
254268 TGTTCCCTTTTCAATTTATTGTTCCTTTATGGTTAAACAAACAATAAGTATATTTGCATCCCTGT
1 TGTTCCCTTTTCAATTTATTGTTCCTTTATGGTGAAACAAACAATAAGTATATCTGCATCCCTCT
* *
254333 TAGATCCGTGTCTTGTTTTTACCTTCTTGATTTTGTGAGGTGCA
66 TAGATCCGTGTCTTGTTATTACCTTCTTGATTTTGTGACGTGCA
* * *** * *
254377 TGTTCCTTTTTTAATTTATTGTTCCTTTATGGTGAAACAATGGATAAGTATCTCTGCATCCTTCT
1 TGTTCCCTTTTCAATTTATTGTTCCTTTATGGTGAAACAAACAATAAGTATATCTGCATCCCTCT
*
254442 TAGATCTGTGTCTTGTTATTACCTTCTTGATTTTGTGACGTGCA
66 TAGATCCGTGTCTTGTTATTACCTTCTTGATTTTGTGACGTGCA
254486 TGT
1 TGT
254489 ACTGGATTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 99 1.00
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (109 bp):
TGTTCCCTTTTCAATTTATTGTTCCTTTATGGTGAAACAAACAATAAGTATATCTGCATCCCTCT
TAGATCCGTGTCTTGTTATTACCTTCTTGATTTTGTGACGTGCA
Found at i:261154 original size:2 final size:2
Alignment explanation
Indices: 261147--261186 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
261137 AGGTACCACT
* *
261147 TC TC TC TC TC GC TC TC TC TC TG TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
261187 ATCATGAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.05, T:0.47
Consensus pattern (2 bp):
TC
Found at i:261766 original size:203 final size:203
Alignment explanation
Indices: 261417--261823 Score: 769
Period size: 203 Copynumber: 2.0 Consensus size: 203
261407 GACAGAAAGC
*
261417 TATTAAACTTTACTAACATTTTAATTTCTTTATAGGTGGTGGAAAGGGTCTTAGGATGGATTATG
1 TATTAAACTTTAATAACATTTTAATTTCTTTATAGGTGGTGGAAAGGGTCTTAGGATGGATTATG
261482 AAGCTCTTCCCAGGTGGGCCATCAAGACGAAGAATGAACAAGCGACTTTCATACTGAAACCAGAT
66 AAGCTCTTCCCAGGTGGGCCATCAAGACGAAGAATGAACAAGCGACTTTCATACTGAAACCAGAT
*
261547 AGATGTATCTCGGCAAGAGAGATCTACACTCTCATATGCTTCATTTTGGGTTTGCCTTCCCTTGT
131 AGATGTATCTCGGCAAGAGAGATCTACACTCTCATATGCTTCATTTCGGGTTTGCCTTCCCTTGT
261612 TTTGGTGA
196 TTTGGTGA
261620 TATTAAACTTTAATAACATTTTAATTTCTTTATAGGTGGTGGAAAGGGTCTTAGGATGGATTATG
1 TATTAAACTTTAATAACATTTTAATTTCTTTATAGGTGGTGGAAAGGGTCTTAGGATGGATTATG
261685 AAGCTCTTCCCAGGTGGGCCATCAAGACGAAGAATGAACAAGCGACTTTCATACTGAAACCAGAT
66 AAGCTCTTCCCAGGTGGGCCATCAAGACGAAGAATGAACAAGCGACTTTCATACTGAAACCAGAT
* * *
261750 AGATGTATCTCGGCAAGAGAGGTCTACACTTTCATATGCTTTATTTCGGGTTTGCCTTCCCTTGT
131 AGATGTATCTCGGCAAGAGAGATCTACACTCTCATATGCTTCATTTCGGGTTTGCCTTCCCTTGT
261815 TTTGGTGA
196 TTTGGTGA
261823 T
1 T
261824 GCGAGGGAGG
Statistics
Matches: 199, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
203 199 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (203 bp):
TATTAAACTTTAATAACATTTTAATTTCTTTATAGGTGGTGGAAAGGGTCTTAGGATGGATTATG
AAGCTCTTCCCAGGTGGGCCATCAAGACGAAGAATGAACAAGCGACTTTCATACTGAAACCAGAT
AGATGTATCTCGGCAAGAGAGATCTACACTCTCATATGCTTCATTTCGGGTTTGCCTTCCCTTGT
TTTGGTGA
Found at i:262778 original size:21 final size:21
Alignment explanation
Indices: 262754--262811 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
262744 ATTAACAGTA
*
262754 ATAACGGTAAAATTAATTATT
1 ATAACAGTAAAATTAATTATT
*
262775 ATAATAGTAAAATTAATTATT
1 ATAACAGTAAAATTAATTATT
* * *
262796 AAAATAATAAAATTAA
1 ATAACAGTAAAATTAA
262812 AATCAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
ATAACAGTAAAATTAATTATT
Found at i:263031 original size:23 final size:23
Alignment explanation
Indices: 262987--263029 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
262977 TGACTGTGAC
262987 AAAGTGAATTATAATAAGAAAGT
1 AAAGTGAATTATAATAAGAAAGT
* *
263010 AAAGTTAATTATGAT-AGAAA
1 AAAGTGAATTATAATAAGAAA
263030 AGGGAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (23 bp):
AAAGTGAATTATAATAAGAAAGT
Found at i:264166 original size:2 final size:2
Alignment explanation
Indices: 264159--264198 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
264149 ATTAATCCCG
* *
264159 TA TA TA TA TA TA TG TA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
264199 GAAAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:264331 original size:12 final size:13
Alignment explanation
Indices: 264303--264335 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
264293 TATGATATAT
264303 ATTTTTATTAGTTA
1 ATTTTT-TTAGTTA
264317 ATTTTTTTA-TTA
1 ATTTTTTTAGTTA
264329 ATTTTTT
1 ATTTTTT
264336 ATATACTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 3 0.16
14 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
ATTTTTTTAGTTA
Found at i:264785 original size:3 final size:3
Alignment explanation
Indices: 264777--264802 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
264767 ACCCATCGTC
264777 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
264803 CTCAAAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:268242 original size:14 final size:14
Alignment explanation
Indices: 268223--268253 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
268213 ATGGATAAGT
268223 TTATAGGCACAATA
1 TTATAGGCACAATA
268237 TTATAGGCACAATA
1 TTATAGGCACAATA
268251 TTA
1 TTA
268254 CGTTAGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (14 bp):
TTATAGGCACAATA
Found at i:269575 original size:30 final size:30
Alignment explanation
Indices: 269541--269603 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
269531 CAGCAGTGAA
* * *
269541 TTTGCTTTCATTTATTTTATGATTGCAATG
1 TTTGCTTTCATTCATTTCATAATTGCAATG
269571 TTTGCTTTCATTCATTTCATAATTGCAATG
1 TTTGCTTTCATTCATTTCATAATTGCAATG
269601 TTT
1 TTT
269604 TCAATATGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.56
Consensus pattern (30 bp):
TTTGCTTTCATTCATTTCATAATTGCAATG
Found at i:269837 original size:2 final size:2
Alignment explanation
Indices: 269826--269858 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
269816 TCTTGGTGTG
*
269826 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
269859 TAAAGTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:281884 original size:2 final size:2
Alignment explanation
Indices: 281877--281913 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
281867 ATTAAATCAG
281877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
281914 TGGATAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:282309 original size:18 final size:18
Alignment explanation
Indices: 282286--282325 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
282276 GATTGGTCTC
282286 TATAGTTTACTTAATACA
1 TATAGTTTACTTAATACA
* *
282304 TATAGTTTATTTAATATA
1 TATAGTTTACTTAATACA
282322 TATA
1 TATA
282326 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (18 bp):
TATAGTTTACTTAATACA
Found at i:282324 original size:2 final size:2
Alignment explanation
Indices: 282317--282352 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
282307 AGTTTATTTA
282317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
282353 GAATGGTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:291191 original size:14 final size:15
Alignment explanation
Indices: 291172--291210 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
291162 AAGGTAATAG
291172 TATAATTATTTTT-T
1 TATAATTATTTTTAT
291186 TATAATT-TTTTTAT
1 TATAATTATTTTTAT
291200 TATAATTATTT
1 TATAATTATTT
291211 AATTAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.22
14 15 0.65
15 3 0.13
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATAATTATTTTTAT
Found at i:291215 original size:14 final size:14
Alignment explanation
Indices: 291172--291215 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
291162 AAGGTAATAG
*
291172 TATAATTATTTTTT
1 TATAATTATTTTAT
*
291186 TATAATTTTTTTAT
1 TATAATTATTTTAT
*
291200 TATAATTATTTAAT
1 TATAATTATTTTAT
291214 TA
1 TA
291216 ATTATGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATAATTATTTTAT
Found at i:293561 original size:16 final size:16
Alignment explanation
Indices: 293532--293571 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
293522 ATATATCAAA
293532 ATATTAATAAATTTTT
1 ATATTAATAAATTTTT
* *
293548 ATATTTATATATTTTT
1 ATATTAATAAATTTTT
293564 ATAATTAA
1 AT-ATTAA
293572 ATTATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTAATAAATTTTT
Found at i:293883 original size:2 final size:2
Alignment explanation
Indices: 293876--293905 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
293866 TATTCTTAAA
293876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
293906 TCAGGGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:295888 original size:6 final size:6
Alignment explanation
Indices: 295879--295913 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
295869 AATTAAATTT
*
295879 AAAAA- AAAAAG GAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
295914 TAATATATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:296553 original size:2 final size:2
Alignment explanation
Indices: 296546--296577 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
296536 GTTGAAAAGA
296546 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
296578 CACACAGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:300688 original size:17 final size:18
Alignment explanation
Indices: 300666--300707 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
300656 TTTTAGAAAA
300666 TTTAAATATATAAT-ATC
1 TTTAAATATATAATAATC
*
300683 TTTAAA-ATATAATAATT
1 TTTAAATATATAATAATC
300700 TTTAAATA
1 TTTAAATA
300708 ATTTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 14 0.64
18 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTAAATATATAATAATC
Found at i:301380 original size:15 final size:15
Alignment explanation
Indices: 301360--301401 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
301350 ATATAAATTT
301360 ATTATTAAAATATAA
1 ATTATTAAAATATAA
*
301375 ATTATT-ATA-ATAA
1 ATTATTAAAATATAA
301388 ATTATGTAAAATAT
1 ATTAT-TAAAATAT
301402 TTTTATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 9 0.41
14 3 0.14
15 8 0.36
16 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATTAAAATATAA
Found at i:301389 original size:19 final size:19
Alignment explanation
Indices: 301349--301389 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
301339 ATATAAAAAT
*
301349 AATATAAATTTATTATTAA
1 AATATAAATTTATTATAAA
301368 AATATAAA-TTATTATAATA
1 AATATAAATTTATTATAA-A
301387 AAT
1 AAT
301390 TATGTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATATAAATTTATTATAAA
Found at i:301942 original size:5 final size:5
Alignment explanation
Indices: 301930--301983 Score: 81
Period size: 5 Copynumber: 10.8 Consensus size: 5
301920 TAATAATCAT
* * *
301930 ATATA ACATA ACATA ACATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
301980 ATAT
1 ATAT
301984 TGCAATGTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:304820 original size:26 final size:26
Alignment explanation
Indices: 304791--304856 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
304781 AGAAGCATCC
**
304791 AAAAATTCAAAAACA-ATTATAATCAT
1 AAAAATTCAAAAACACATT-TAAAAAT
* * *
304817 AAAATTTTAAAAATACATTTAAAAAT
1 AAAAATTCAAAAACACATTTAAAAAT
304843 AAAAATATCAAAAA
1 AAAAAT-TCAAAAA
304857 TTTAAAACTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (26 bp):
AAAAATTCAAAAACACATTTAAAAAT
Found at i:304895 original size:17 final size:16
Alignment explanation
Indices: 304841--304927 Score: 65
Period size: 17 Copynumber: 5.4 Consensus size: 16
304831 ACATTTAAAA
304841 ATAAAAATATCAAAAATT
1 ATAAAAAT-T-AAAAATT
* *
304859 -TAAAACTAAAAAATT
1 ATAAAAATTAAAAATT
304874 AATAAAAATTAAAAA-T
1 -ATAAAAATTAAAAATT
*
304890 AT-ATAATT-AAAATCT
1 ATAAAAATTAAAAAT-T
* *
304905 GTAAAAAATAAAAATT
1 ATAAAAATTAAAAATT
304921 ATAAAAA
1 ATAAAAA
304928 ATCTAGAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
13 4 0.07
14 5 0.09
15 11 0.20
16 12 0.22
17 22 0.41
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (16 bp):
ATAAAAATTAAAAATT
Found at i:304897 original size:24 final size:25
Alignment explanation
Indices: 304833--304899 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
304823 TTAAAAATAC
304833 ATTTAAAAAT-AAAAA-T-ATCAAAA
1 ATTTAAAAATAAAAAATTAAT-AAAA
*
304856 ATTTAAAACTAAAAAATTAATAAAA
1 ATTTAAAAATAAAAAATTAATAAAA
* *
304881 A-TTAAAAATATATAATTAA
1 ATTTAAAAATAAAAAATTAA
304900 AATCTGTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 9 0.24
24 20 0.54
25 6 0.16
26 2 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (25 bp):
ATTTAAAAATAAAAAATTAATAAAA
Found at i:304910 original size:30 final size:27
Alignment explanation
Indices: 304876--304939 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
304866 AAAAAATTAA
*
304876 TAAAAATTAAAAATATATAATTAAAATCTG
1 TAAAAAATAAAAAT-TATAA--AAAATCTG
304906 TAAAAAATAAAAATTATAAAAAATCTAG
1 TAAAAAATAAAAATTATAAAAAATCT-G
304934 -AAAAAA
1 TAAAAAA
304940 GGAAAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 13 0.41
28 1 0.03
29 5 0.16
30 13 0.41
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (27 bp):
TAAAAAATAAAAATTATAAAAAATCTG
Done.