Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 231 of 438
Found at i:71413318 original size:93 final size:93
Alignment explanation
Indices: 71413206--71413377 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
71413196 CGCCCATAAG
*
71413206 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
71413270 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
*
71413299 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
71413364 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
71413378 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:71413369 original size:46 final size:46
Alignment explanation
Indices: 71413199--71413374 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
71413189 TGTAACCCGC
*
71413199 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* *
71413245 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
71413295 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
71413338 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
71413375 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 62 0.56
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:71418743 original size:29 final size:29
Alignment explanation
Indices: 71418710--71418841 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
71418700 ATGACGAGAT
71418710 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71418739 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * ***
71418768 TGGCACTAAGTGTGTGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
71418797 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
71418826 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71418842 AAATCGAGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71421927 original size:40 final size:40
Alignment explanation
Indices: 71421878--71422105 Score: 370
Period size: 40 Copynumber: 5.7 Consensus size: 40
71421868 GCTACTTGCT
* **
71421878 CAAAGGCCTTCGGGACTTAGCCTAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
71421918 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
71421958 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
71421998 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
71422038 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
71422077 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
71422106 CATCCGAATA
Statistics
Matches: 177, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.19
40 141 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:71424563 original size:40 final size:40
Alignment explanation
Indices: 71424401--71424602 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
71424391 CGAATGATGT
*
71424401 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
71424441 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
71424480 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
71424518 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
71424559 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
71424599 CCGG
1 CCGG
71424603 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:71424565 original size:78 final size:79
Alignment explanation
Indices: 71424400--71424551 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
71424390 TCGAATGATG
* * *
71424400 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
71424465 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
71424480 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
71424543 GTGCAAGTC
65 GTGCAAGTC
71424552 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:71432024 original size:33 final size:34
Alignment explanation
Indices: 71431986--71432057 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 34
71431976 ATACATAGGT
71431986 TCATATATGATC-TTTAACCATACCAATGGCTGA
1 TCATATATGATCGTTTAACCATACCAATGGCTGA
71432019 TCATATATGATCGTTTTAACCATACCAATGGCTGA
1 TCATATATGATCG-TTTAACCATACCAATGGCTGA
71432054 TCAT
1 TCAT
71432058 GTGACCAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 12 0.32
35 25 0.68
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (34 bp):
TCATATATGATCGTTTAACCATACCAATGGCTGA
Found at i:71432713 original size:40 final size:40
Alignment explanation
Indices: 71432668--71432834 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
71432658 CGGAATATAA
*
71432668 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
71432708 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
71432748 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
71432788 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
71432827 CCGGATAT
1 CCGGATAT
71432835 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:71432818 original size:80 final size:79
Alignment explanation
Indices: 71432684--71432834 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
71432674 ATAACCATGT
*
71432684 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
71432749 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
71432764 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
71432827 CCGGATAT
64 CCGGATAT
71432835 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:71438166 original size:40 final size:40
Alignment explanation
Indices: 71438081--71438231 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
71438071 AATTGAATGA
* * * **
71438081 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
71438121 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
71438162 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
71438201 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
71438232 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:71438245 original size:40 final size:40
Alignment explanation
Indices: 71438118--71438247 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
71438108 ATGCTGGAAA
* * *
71438118 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
71438158 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
71438198 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
71438238 TTATATCCGG
1 TTATATCCGG
71438248 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:71446188 original size:40 final size:40
Alignment explanation
Indices: 71446143--71446307 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
71446133 CGGAATATAA
*
71446143 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
71446183 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
71446223 CCGG--ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
71446261 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
71446300 CCGGATAT
1 CCGGATAT
71446308 CATTCAATTC
Statistics
Matches: 101, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
38 30 0.30
39 13 0.13
40 57 0.56
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:71446291 original size:78 final size:77
Alignment explanation
Indices: 71446159--71446306 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 77
71446149 ATAACCATGT
*
71446159 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
71446224 CGGATAGCCACTA
65 CGGATAGCCACTA
* * ** * *
71446237 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
71446300 CCGGATA
64 CCGGATA
71446307 TCATTCAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
77 16 0.26
78 45 0.74
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (77 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATAGCCACTA
Found at i:71448233 original size:12 final size:12
Alignment explanation
Indices: 71448216--71448240 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71448206 GGATTGAGGA
71448216 CTCTTAGATTTT
1 CTCTTAGATTTT
71448228 CTCTTAGATTTT
1 CTCTTAGATTTT
71448240 C
1 C
71448241 GATGAGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.20, G:0.08, T:0.56
Consensus pattern (12 bp):
CTCTTAGATTTT
Found at i:71449233 original size:38 final size:40
Alignment explanation
Indices: 71449188--71449284 Score: 119
Period size: 37 Copynumber: 2.5 Consensus size: 40
71449178 GGACTAGGAT
* *
71449188 CCGAAGGCATTCGTGCGAGTTAATAAA-TCGAGCTAA-TC
1 CCGAAGGCATTCGTGCAAGTTAATAAACCCGAGCTAAGTC
* * * *
71449226 CCGAAGGC-TTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCAAGTTAATAAACCCGAGCTAAGTC
71449265 CCGAAGGCATTCGTGCAAGT
1 CCGAAGGCATTCGTGCAAGT
71449285 CGCTATAACC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
37 15 0.31
38 14 0.29
39 10 0.20
40 10 0.20
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCAAGTTAATAAACCCGAGCTAAGTC
Found at i:71449297 original size:40 final size:40
Alignment explanation
Indices: 71449224--71449349 Score: 109
Period size: 39 Copynumber: 3.2 Consensus size: 40
71449214 ATCGAGCTAA
**
71449224 TCCCGAAGGC-TTTGTGCAAGTTACTA-AACCCGGGTTAAG
1 TCCCGAAGGCATTTGTGCAAGTCGCTATAA-CCGGGTTAAG
* *
71449263 TCCCGAAGGCATTCGTGCAAGTCGCTATAACCGGGCTT-CG
1 TCCCGAAGGCATTTGTGCAAGTCGCTATAACCGGG-TTAAG
* * * * *
71449303 T-CCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAA
1 TCCCGAAGGCATTTGTGCAAGTCGCTATAACCGGGTTAAG
*
71449341 TTCCGAAGG
1 TCCCGAAGG
71449350 TACGTGATTC
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
37 2 0.03
38 3 0.04
39 42 0.59
40 20 0.28
41 4 0.06
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCCGAAGGCATTTGTGCAAGTCGCTATAACCGGGTTAAG
Found at i:71458052 original size:40 final size:40
Alignment explanation
Indices: 71457998--71458223 Score: 379
Period size: 40 Copynumber: 5.7 Consensus size: 40
71457988 GCTACTTGCT
71457998 CAAAT-CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
71458037 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
71458077 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
71458117 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
71458156 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
71458195 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
71458224 CATCCGAATA
Statistics
Matches: 178, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
37 1 0.01
38 17 0.10
39 39 0.22
40 120 0.67
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:71474118 original size:71 final size:71
Alignment explanation
Indices: 71474029--71474192 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
71474019 GAGATGTATC
71474029 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
71474094 AGGACA
66 AGGACA
* *
71474100 CCATGTAGACAATAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
71474165 AGGACA
66 AGGACA
71474171 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
71474193 AGACAAATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:71476420 original size:24 final size:24
Alignment explanation
Indices: 71476388--71476436 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
71476378 TTAAAGACTA
*
71476388 AATTGATAATTTATCCACTTTTAT
1 AATTAATAATTTATCCACTTTTAT
71476412 AATTAATAATTTATCCACTTTTAT
1 AATTAATAATTTATCCACTTTTAT
71476436 A
1 A
71476437 TACAGTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTAATAATTTATCCACTTTTAT
Found at i:71477221 original size:18 final size:18
Alignment explanation
Indices: 71477198--71477233 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
71477188 ATTTGGTAAG
*
71477198 TTAGATTTGGGTTGTTAA
1 TTAGATTTCGGTTGTTAA
71477216 TTAGATTTCGGTTGTTAA
1 TTAGATTTCGGTTGTTAA
71477234 GACATAGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.25, T:0.50
Consensus pattern (18 bp):
TTAGATTTCGGTTGTTAA
Found at i:71482270 original size:20 final size:20
Alignment explanation
Indices: 71482245--71482282 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71482235 GTTTATTCGC
*
71482245 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
71482265 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
71482283 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:71483940 original size:28 final size:28
Alignment explanation
Indices: 71483908--71483976 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
71483898 GCGTAGATCA
71483908 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
71483936 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
71483964 CGATA-TACCCCTA
1 CGAAATTACCCCTA
71483977 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:71490278 original size:20 final size:20
Alignment explanation
Indices: 71490253--71490290 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71490243 GTTTATTCGC
*
71490253 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
71490273 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
71490291 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:71491950 original size:28 final size:28
Alignment explanation
Indices: 71491918--71491986 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
71491908 GCGTAGATCA
71491918 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
71491946 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
71491974 CGATA-TACCCCTA
1 CGAAATTACCCCTA
71491987 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:71498637 original size:40 final size:40
Alignment explanation
Indices: 71498556--71498737 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
71498546 AAACCAAGTA
* * **
71498556 CCTTCGGGGCTTAG-CCGGATATAGCT-ACTCGCTTAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
71498595 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
71498635 CCTTCGGGACTTAGCCCGGTTATGGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
71498675 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
71498715 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
71498738 CATCCGAATA
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 14 0.11
40 111 0.89
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:71506641 original size:40 final size:40
Alignment explanation
Indices: 71506560--71506741 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
71506550 AAACCAAGTA
** * **
71506560 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTTAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
71506599 CCTTCGGGACTTAGCCCGGTTACAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
71506639 CCTTCGGGACTTAGCCCGGTTATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
**
71506679 CCTTCGGGACTTAGCCCGGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
71506719 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
71506742 CATCCGAATA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.10
40 113 0.90
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:71510565 original size:46 final size:46
Alignment explanation
Indices: 71510512--71510683 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
71510502 TGGGCATCCC
71510512 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
71510558 AACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * * * * *
71510605 AGCTTGTTGAGTTGAGTCCGAGTTCACTTATGAATACGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
71510651 ATCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71510684 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 1 0.01
46 56 0.55
47 26 0.26
48 1 0.01
49 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:71517012 original size:93 final size:93
Alignment explanation
Indices: 71516900--71517069 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
71516890 GCCCATAAGT
71516900 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71516964 ACGAGCTCGGATGTCTAGTTACATCTCTC
65 ACGAGCTCGGATGTCTAGTTACATCTCTC
*
71516993 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
71517058 TGAGTTCGGATG
66 CGAGCTCGGATG
71517070 CCCAAACATC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGTCTAGTTACATCTCTC
Found at i:71517067 original size:46 final size:46
Alignment explanation
Indices: 71516892--71517067 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
71516882 TGTAACCCGC
71516892 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
** * *
71516938 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAT-TCGCAT
* *** *
71516984 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
71517031 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
71517068 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 2 0.02
46 70 0.65
47 36 0.33
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:71519498 original size:30 final size:30
Alignment explanation
Indices: 71519454--71519542 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
71519444 CAAAGATAAT
71519454 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
71519483 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
71519513 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
71519543 CGATATATGC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:71519502 original size:15 final size:15
Alignment explanation
Indices: 71519454--71519533 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
71519444 CAAAGATAAT
*
71519454 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
71519468 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
71519483 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
71519498 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
71519513 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
71519528 AAGAAA
1 AAGAAA
71519534 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:71519542 original size:15 final size:15
Alignment explanation
Indices: 71519465--71519542 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
71519455 AGAAAACCGA
71519465 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
71519480 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
71519494 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
71519509 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
71519525 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
71519540 ATA
1 ATA
71519543 CGATATATGC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:71522583 original size:93 final size:93
Alignment explanation
Indices: 71522471--71522640 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
71522461 GCCCATAAGT
*
71522471 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71522536 CGAGCTCGGATGTCTAGTTACATCTCTC
66 CGAGCTCGGATGTCTAGTTACATCTCTC
*
71522564 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
71522629 TGAGTTCGGATG
66 CGAGCTCGGATG
71522641 CCCAAACATC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGTCTAGTTACATCTCTC
Found at i:71522638 original size:46 final size:46
Alignment explanation
Indices: 71522463--71522638 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
71522453 TGTAACCCGC
*
71522463 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
** * *
71522509 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAT-TCGCAT
* *** *
71522555 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
71522602 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
71522639 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 72 0.67
47 36 0.33
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:71525297 original size:96 final size:95
Alignment explanation
Indices: 71525088--71525321 Score: 281
Period size: 96 Copynumber: 2.5 Consensus size: 95
71525078 TGTGAGTATT
* * * * * *
71525088 GAGATCCTGTTTAAGACCATATCTGGAATATGACATCGGCATCAAGATGAGATCCGTGTAAGACC
1 GAGATCCCGTATAAGACCATGTCTGGGACATGACATCGGCATCAAGATGAGATCCATGTAAGACC
* * *
71525153 ATATCTGGGGTATGGCATCGACATCGATAA
66 ATATCTGAGATATGACATCGACATCGATAA
* * *
71525183 GAGATCTCGTATAAGACCACGTCTGGGACATGACATTGGCATC-AGTATGAGATCCAATGTAAGA
1 GAGATCCCGTATAAGACCATGTCTGGGACATGACATCGGCATCAAG-ATGAGATCC-ATGTAAGA
* * * *
71525247 CCATATCTGAGATATGACATTGGCATTGATAT
64 CCATATCTGAGATATGACATCGACATCGATAA
* *
71525279 GAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATC
1 GAGATCCCGTATAAGACCATGTCTGGGACATGACATCGGCATC
71525322 GTTATGAAAC
Statistics
Matches: 116, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
94 2 0.02
95 44 0.38
96 70 0.60
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (95 bp):
GAGATCCCGTATAAGACCATGTCTGGGACATGACATCGGCATCAAGATGAGATCCATGTAAGACC
ATATCTGAGATATGACATCGACATCGATAA
Found at i:71525328 original size:48 final size:48
Alignment explanation
Indices: 71525087--71525328 Score: 227
Period size: 48 Copynumber: 5.1 Consensus size: 48
71525077 ATGTGAGTAT
* * * * *
71525087 TGAGATCCTGTTTAAGACCATATCTGGAATATGACATCGGCATCAAGA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCGATA
* * * *
71525135 TGAGAT-CCGTGTAAGACCATATCTGGGGTATGGCATCGACATCGATA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCGATA
* * ** * *
71525182 AGAGATCTCGTATAAGACCACGTCTGGGACATGACATTGGCATC-AGTA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCGA-TA
** * * * *
71525230 TGAGATCCAATGTAAGACCATATCTGAGATATGACATTGGCATTGATA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCGATA
* * * * *
71525278 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGTTA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCGATA
71525326 TGA
1 TGA
71525329 AACTTCGTGT
Statistics
Matches: 152, Mismatches: 39, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
47 39 0.26
48 112 0.74
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
TGAGATCCCGTATAAGACCATATCTGGGATATGACATCGGCATCGATA
Found at i:71525353 original size:144 final size:138
Alignment explanation
Indices: 71525099--71525388 Score: 309
Period size: 144 Copynumber: 2.1 Consensus size: 138
71525089 AGATCCTGTT
* **
71525099 TAAGACCATATCTGGAATATGACATCGGCATCAAGATGAGATCCGTGTAAGACCATATCTGGGGT
1 TAAGACCATATCTGGAATATGACATCGGCATCAAGATGAGATCCGTATAAGACCATATCTGGGAC
* *
71525164 ATGGCATCGACATCGATAAGAGATCTCGTATAAGACCACGTCTGGGACATGACATTGGCATC-AG
66 ATGGCATCGACATCGATAAGAAATCTCGTATAAGACCAAGTCTGGG-C-TG---TTGGCATCGA-
71525228 TATGAGATCCAATG
125 TATGAGATCCAATG
* ** * * *
71525242 TAAGACCATATCT-GAGATATGACATTGGCATTGATATGAGGTCCCGTATAAGACCATGTCTGGG
1 TAAGACCATATCTGGA-ATATGACATCGGCATCAAGATGAGAT-CCGTATAAGACCATATCTGGG
* * * * *
71525306 ACATGGCATCGGCATCGTTATGAAA-CTTCGTGTAAGACCATAG-CTGGGCTGTTGGCATCGATG
64 ACATGGCATCGACATCGATAAGAAATC-TCGTATAAGACCA-AGTCTGGGCTGTTGGCATCGATA
*
71525369 TGAGATCCTATG
127 TGAGATCCAATG
71525381 TAAGACCA
1 TAAGACCA
71525389 CGTTTGGGAC
Statistics
Matches: 125, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
139 28 0.22
140 1 0.01
142 4 0.03
143 36 0.29
144 55 0.44
145 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (138 bp):
TAAGACCATATCTGGAATATGACATCGGCATCAAGATGAGATCCGTATAAGACCATATCTGGGAC
ATGGCATCGACATCGATAAGAAATCTCGTATAAGACCAAGTCTGGGCTGTTGGCATCGATATGAG
ATCCAATG
Found at i:71527167 original size:29 final size:29
Alignment explanation
Indices: 71527133--71527198 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
71527123 GACATGGGCA
71527133 CGTGTGACCACACGGCCTACCCGCATAGG
1 CGTGTGACCACACGGCCTACCCGCATAGG
71527162 CGTGTGACCACACGGCCTACCCGCATAGG
1 CGTGTGACCACACGGCCTACCCGCATAGG
71527191 CGTGTGAC
1 CGTGTGAC
71527199 TCCCCAAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (29 bp):
CGTGTGACCACACGGCCTACCCGCATAGG
Found at i:71531413 original size:40 final size:40
Alignment explanation
Indices: 71531368--71531535 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
71531358 CGGAATATAA
71531368 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
71531408 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
71531448 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
71531488 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
71531528 CCGGATAT
1 CCGGATAT
71531536 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:71536443 original size:40 final size:40
Alignment explanation
Indices: 71536398--71536565 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
71536388 CGGAATATAA
71536398 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
71536438 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
71536478 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
71536518 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
71536558 CCGGATAT
1 CCGGATAT
71536566 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:71539825 original size:35 final size:35
Alignment explanation
Indices: 71539774--71539841 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
71539764 GAGGTTTCAC
*
71539774 TCCATACAGCATGTAGACCATTGACATGGTGTCTA
1 TCCATACAGCACGTAGACCATTGACATGGTGTCTA
*
71539809 TCCATAGAGCACGTAGACCATTGACATGGTGTC
1 TCCATACAGCACGTAGACCATTGACATGGTGTC
71539842 GCTCTATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (35 bp):
TCCATACAGCACGTAGACCATTGACATGGTGTCTA
Found at i:71539851 original size:35 final size:35
Alignment explanation
Indices: 71539774--71539853 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
71539764 GAGGTTTCAC
* * *
71539774 TCCATACAGCATGTAGACCATTGACATGGTGTCTA
1 TCCATAGAGCACGTAGACCATTGACATGGTGTCGA
*
71539809 TCCATAGAGCACGTAGACCATTGACATGGTGTCGC
1 TCCATAGAGCACGTAGACCATTGACATGGTGTCGA
*
71539844 TCTATAGAGC
1 TCCATAGAGC
71539854 CTATAGACTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (35 bp):
TCCATAGAGCACGTAGACCATTGACATGGTGTCGA
Found at i:71539861 original size:35 final size:35
Alignment explanation
Indices: 71539787--71539861 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
71539777 ATACAGCATG
* *
71539787 TAGACCATTGACATGGTGTCTATCCATAGAGCACG
1 TAGACCATTGACATGGTGTCGATCCATAGAGCACA
* *
71539822 TAGACCATTGACATGGTGTCGCTCTATAGAGC-CTA
1 TAGACCATTGACATGGTGTCGATCCATAGAGCAC-A
71539857 TAGAC
1 TAGAC
71539862 TGTTTATACG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (35 bp):
TAGACCATTGACATGGTGTCGATCCATAGAGCACA
Found at i:71547428 original size:27 final size:27
Alignment explanation
Indices: 71547092--71547428 Score: 342
Period size: 27 Copynumber: 12.5 Consensus size: 27
71547082 CGTACCTGAA
* * *
71547092 CCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGGTAAAATGACTATTTTG
* * *
71547119 CCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
71547146 CCCTTATGTTGCAAAATGAC-AGTTTTG
1 CCCTTATGTGGTAAAATGACTA-TTTTG
* ** **
71547173 CCCTTATGTTGCGAAATGACTGCTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
*
71547200 CCCTTATGTGTTAAAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
*
71547227 CCCTTATGTGTTAAAATGA-TGATTTTG
1 CCCTTATGTGGTAAAATGACT-ATTTTG
* ** **
71547254 CCCTTATATATTAAAATGAAAATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
*
71547281 CCCTTATGTGAG-AAAATGACAATTTTG
1 CCCTTATGTG-GTAAAATGACTATTTTG
* *
71547308 CCCTTGTGTGGCAAAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
71547335 TCCTTATGTGTTAAAATGAC-AGTTTTG
1 CCCTTATGTGGTAAAATGACTA-TTTTG
*
71547362 CCCTTATGTGGTAAAATGA-TGATTTTT
1 CCCTTATGTGGTAAAATGACT-ATTTTG
* *
71547389 CCCTTATGAGGTAAAATGACTATTTTT
1 CCCTTATGTGGTAAAATGACTATTTTG
71547416 CCCTTATGTGGTA
1 CCCTTATGTGGTA
71547429 GGATGGTTGT
Statistics
Matches: 269, Mismatches: 31, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.01
27 263 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACTATTTTG
Found at i:71547814 original size:18 final size:18
Alignment explanation
Indices: 71547791--71547838 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
71547781 TGCATTCTGT
71547791 ACTGATTACTGCTACTAC
1 ACTGATTACTGCTACTAC
* *
71547809 ACTGATCA-TGGGTACTAC
1 ACTGATTACT-GCTACTAC
71547827 ACTGATTACTGC
1 ACTGATTACTGC
71547839 CACTGCTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (18 bp):
ACTGATTACTGCTACTAC
Found at i:71548478 original size:15 final size:16
Alignment explanation
Indices: 71548458--71548487 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71548448 TGTAGCCTTG
71548458 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
71548473 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
71548488 AACATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:71554137 original size:20 final size:20
Alignment explanation
Indices: 71554112--71554150 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71554102 AGAGACTAAA
* *
71554112 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
71554132 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
71554151 TATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:71565002 original size:30 final size:30
Alignment explanation
Indices: 71564962--71565020 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
71564952 CCTTTTCATA
*
71564962 TTTCATATTTCATAACACTGGGCCGAAGCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCT
**
71564992 TTTCAAATTTCATATTACTGGGCCGAAGC
1 TTTCAAATTTCATAACACTGGGCCGAAGC
71565021 CTTTACTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (30 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCT
Found at i:71565270 original size:24 final size:24
Alignment explanation
Indices: 71565218--71565406 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
71565208 GCTTTATCAT
*
71565218 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
71565243 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
71565267 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
71565290 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
71565314 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
71565338 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
71565362 ATAACTGGGGCATAAG-CC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
71565384 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
71565407 TCACTTCCTC
Statistics
Matches: 151, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
22 19 0.13
23 25 0.17
24 95 0.63
25 12 0.08
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:71565318 original size:71 final size:72
Alignment explanation
Indices: 71565218--71565407 Score: 280
Period size: 71 Copynumber: 2.7 Consensus size: 72
71565208 GCTTTATCAT
* *
71565218 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
71565282 GCCC-TTTA
64 GCCCTTTTA
* * *
71565290 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
71565355 CCTTTTG
66 CCTTTTA
71565362 ATAACTGGGGCATAAG-CC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
71565408 CACTTCCTCC
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
70 26 0.24
71 52 0.48
72 30 0.28
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:71565478 original size:9 final size:9
Alignment explanation
Indices: 71565464--71565520 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
71565454 ATCTCGTGTG
71565464 CATATCATA
1 CATATCATA
*
71565473 CATATCATGTG
1 CATATCA--TA
71565484 CATATCATA
1 CATATCATA
* *
71565493 CATGTCATGTG
1 CATATCA--TA
71565504 CATATCATA
1 CATATCATA
71565513 CATATCAT
1 CATATCAT
71565521 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:71565483 original size:20 final size:20
Alignment explanation
Indices: 71565460--71565522 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
71565450 GAACATCTCG
71565460 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
71565480 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
71565500 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
71565520 TGT
1 TGT
71565523 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:71565605 original size:25 final size:25
Alignment explanation
Indices: 71565559--71565606 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
71565549 ATATATAAAC
* * * *
71565559 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
71565584 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
71565607 CATGTTATAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:71566807 original size:27 final size:27
Alignment explanation
Indices: 71566777--71566862 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
71566767 TACCATACAG
* *
71566777 GGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
** * * *
71566804 GGGTATTGCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
71566831 GGGTATTTTAGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
71566858 GGGTA
1 GGGTA
71566863 AAACAGTAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:71566870 original size:27 final size:27
Alignment explanation
Indices: 71566841--71567268 Score: 486
Period size: 27 Copynumber: 15.8 Consensus size: 27
71566831 GGGTATTTTA
* * *
71566841 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
71566868 GTAATTCTGTAAATCAAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
71566895 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
71566922 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
71566949 GTAATTCTGTAAATCGAGGGTAAAAATA
1 GTAATTCTGTAAATCGAGGGT-AAAACG
* *
71566977 GTAATTTTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
71567004 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
71567031 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
71567058 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
71567085 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
71567112 GTAATTTTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
71567139 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* * *
71567166 GTAATTCTTTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
71567193 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
71567220 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
71567247 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
71567269 CTTTGGTAAT
Statistics
Matches: 347, Mismatches: 45, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.01
27 319 0.92
28 25 0.07
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:71567315 original size:54 final size:54
Alignment explanation
Indices: 71567257--71567363 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
71567247 ATAATTCTGT
* * *
71567257 AAATCGGGGGTACTTT-GGTAATTTTAC-AAGTCAAAGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAAACT-AAAGGTATTTCAGTAATTTTAC
* * *
71567311 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACTAAAGGTATTTCAGTAATTTTA
71567364 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 3 0.07
54 39 0.87
55 3 0.07
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACTAAAGGTATTTCAGTAATTTTAC
Found at i:71567322 original size:27 final size:27
Alignment explanation
Indices: 71567274--71567363 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
71567264 GGGTACTTTG
* *
71567274 GTAATTTTACAAGTCAAAGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTCA
*
71567301 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTCA
* *
71567328 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATC-AAGGGTATTTCA
71567355 GTAATTTTA
1 GTAATTTTA
71567364 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCAAGGGTATTTCA
Found at i:71567377 original size:27 final size:27
Alignment explanation
Indices: 71567274--71567378 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
71567264 GGGTACTTTG
* *
71567274 GTAATTTTACAAGTCAAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
71567301 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
71567328 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
71567355 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
71567379 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:71569760 original size:24 final size:24
Alignment explanation
Indices: 71569722--71569897 Score: 275
Period size: 24 Copynumber: 7.4 Consensus size: 24
71569712 TTGGAGGCCT
*
71569722 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
71569747 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
71569771 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
*
71569794 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
71569818 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
71569842 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
71569866 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
71569889 AGCCCTTTT
1 AGCCCTTTT
71569898 TCACTTCCTC
Statistics
Matches: 142, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 43 0.30
24 95 0.67
25 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:71569783 original size:47 final size:47
Alignment explanation
Indices: 71569729--71569897 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
71569719 CCTAGCCTCT
* *
71569729 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
71569776 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
71569823 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
71569871 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
71569898 TCACTTCCTC
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 70 0.61
48 45 0.39
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:71569812 original size:71 final size:72
Alignment explanation
Indices: 71569722--71569898 Score: 286
Period size: 71 Copynumber: 2.5 Consensus size: 72
71569712 TTGGAGGCCT
*
71569722 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC-TTTAATAACT
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACT
*
71569786 GGGGCGTA
65 GGGGCATA
* * *
71569794 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTG
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTG
71569859 GGGCATA
66 GGGCATA
71569866 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
71569899 CACTTCCTCC
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
71 72 0.74
72 25 0.26
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (72 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTAATAACTG
GGGCATA
Found at i:71569970 original size:9 final size:9
Alignment explanation
Indices: 71569956--71570012 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
71569946 ATCTCGTGTG
71569956 CATATCATA
1 CATATCATA
*
71569965 CATATCATGTG
1 CATATCA--TA
71569976 CATATCATA
1 CATATCATA
* *
71569985 CATGTCATGTG
1 CATATCA--TA
71569996 CATATCATA
1 CATATCATA
71570005 CATATCAT
1 CATATCAT
71570013 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:71569975 original size:20 final size:20
Alignment explanation
Indices: 71569952--71570014 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
71569942 GAACATCTCG
71569952 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
71569972 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
71569992 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
71570012 TGT
1 TGT
71570015 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:71571368 original size:27 final size:27
Alignment explanation
Indices: 71571339--71571711 Score: 457
Period size: 27 Copynumber: 13.8 Consensus size: 27
71571329 GGGTATTTTA
* *
71571339 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
71571366 GTAATTCTGTAAATCAAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
71571393 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
71571420 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
71571447 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
71571474 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
71571501 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
71571528 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
71571555 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
71571582 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
71571609 ATAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
71571636 ATAATTATGTAAATC-AGGGGTAAAA-G
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
71571662 GATAATTATGTAAATCGGGGGTAAAACG
1 G-TAATTCTGTAAATCGAGGGTAAAACG
* *
71571690 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
71571712 CTTTGGTAAT
Statistics
Matches: 300, Mismatches: 38, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
26 4 0.01
27 293 0.98
28 3 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:71571765 original size:27 final size:26
Alignment explanation
Indices: 71571717--71571806 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
71571707 GGGTACTTTG
*
71571717 GTAATTTTACAAGCCGAAGGTATTTCA
1 GTAATTTTACAA-ACGAAGGTATTTCA
*
71571744 GTAATTTTACAAATCGATGGTATTTCA
1 GTAATTTTACAAA-CGAAGGTATTTCA
* * *
71571771 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACGAA-GGTATTTCA
71571798 GTAATTTTA
1 GTAATTTTA
71571807 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAAACGAAGGTATTTCA
Found at i:71571820 original size:27 final size:27
Alignment explanation
Indices: 71571717--71571821 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
71571707 GGGTACTTTG
* *
71571717 GTAATTTTACAAGCCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
71571744 GTAATTTTACAAATCGATG-GTATTTCA
1 GTAATTTTACAAA-CTAAGAGTATTTCA
* * *
71571771 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
71571798 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
71571822 CTAAACATAG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.05
27 56 0.85
28 7 0.11
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:71587621 original size:34 final size:35
Alignment explanation
Indices: 71587560--71587647 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 35
71587550 AATATGCACA
* *
71587560 TTCAAAATAACTTCACATAAAACCGAATATAT-ATG
1 TTCAATATAACTTCACATAAAACCGAATA-ATCAAG
** *
71587595 TTCAATATAA-TTCACATGTAATCGAATAATCAAG
1 TTCAATATAACTTCACATAAAACCGAATAATCAAG
71587629 TTCAATATAAGCTT-ACATA
1 TTCAATATAA-CTTCACATA
71587648 TACGTACCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
33 2 0.05
34 27 0.61
35 13 0.30
36 2 0.05
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (35 bp):
TTCAATATAACTTCACATAAAACCGAATAATCAAG
Found at i:71592518 original size:46 final size:46
Alignment explanation
Indices: 71592408--71592575 Score: 177
Period size: 46 Copynumber: 3.6 Consensus size: 46
71592398 GGGTAAGGTA
* * *
71592408 CCGATGCCATGTCTCAGACATGGTCTTACACTGA--TACATCTCGCAG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGACTTACGTCTC-AAG
71592454 CCGATGCATGTCCCAGACAT-GTCTTACACTGACTTACGTCTCAAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTGACTTACGTCTCAA-G
* *
71592500 CCAATGCATGTCCTAGACAT-GTCTTACACTAGCACTT--GTCTCAATG
1 CCGATGCATGTCCCAGACATGGTCTTACACT-G-ACTTACGTCTCAA-G
*
71592546 CCGATGCCTTGTCCCAGACATGGTCTTACA
1 CCGATG-CATGTCCCAGACATGGTCTTACA
71592576 TTAGCTCTCA
Statistics
Matches: 106, Mismatches: 9, Indels: 12
0.83 0.07 0.09
Matches are distributed among these distances:
44 12 0.11
45 14 0.13
46 55 0.52
47 13 0.12
48 12 0.11
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGACTTACGTCTCAAG
Found at i:71598458 original size:27 final size:27
Alignment explanation
Indices: 71598037--71598458 Score: 501
Period size: 27 Copynumber: 15.6 Consensus size: 27
71598027 AAAGTACTCC
*
71598037 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
71598064 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
* ** *
71598091 TGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
**
71598118 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
71598145 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
**
71598172 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
71598199 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
71598226 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* * *
71598253 CGATTTATAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACTGTTTTACCCT
* * * *
71598280 CAATTTACATAATTACCGTTTTACCCC
1 CGATTTACAGAATTACTGTTTTACCCT
* *
71598307 CGATTTACATAATTA-TCATTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
*
71598334 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* **
71598361 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
71598388 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
**
71598415 TAATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
71598442 CGATTTACAAAATTACT
1 CGATTTACAGAATTACT
71598459 AAAATACCCT
Statistics
Matches: 341, Mismatches: 46, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.01
27 335 0.98
28 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:71598494 original size:81 final size:81
Alignment explanation
Indices: 71598101--71598501 Score: 266
Period size: 81 Copynumber: 5.0 Consensus size: 81
71598091 TGATTTGTAA
* * * *** * ** *
71598101 AATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTC-AGTTTACAGAATTACTATT
1 AATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGTA
* *
71598165 TTACCCTCGATTTACAG
65 ATACCCTCAATTTACAG
* * * ****** * * * **
71598182 AATTACCATTTTACCCTCAGTTTACAGAATTATTGTTTTACCCTTGATTTACAGAATTACTGTTT
1 AATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGTAA
* *
71598247 TACCCTCGATTTATAG
66 TACCCTCAATTTACAG
* * **** * * * * * **
71598263 AATTACCGTTTTACCCCCAATTTACATAATTACCGTTTTACCCCCGATTTACATAATTATCATTT
1 AATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGTAA
*
71598328 TACCCTCGATTTACAG
66 TACCCTCAATTTACAG
* *** * **
71598344 AATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTT
1 AATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGTAA
*
71598409 TACCCTTAATTTACAG
66 TACCCTCAATTTACAG
* * * * * *
71598425 AATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGTA
1 AATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAG-AATTACCGTA
71598489 ATACCCTCAATTT
65 ATACCCTCAATTT
71598502 GTAAAACTAC
Statistics
Matches: 270, Mismatches: 48, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
80 1 0.00
81 268 0.99
82 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACCGTAA
TACCCTCAATTTACAG
Found at i:71599797 original size:9 final size:9
Alignment explanation
Indices: 71599785--71599861 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
71599775 TTTGATAAAC
71599785 ATGATATGT
1 ATGATATGT
*
71599794 ATGATATGCAC
1 ATGATATG--T
71599805 ATGATATGT
1 ATGATATGT
*
71599814 ATGATATGCAC
1 ATGATATG--T
*
71599825 ATGACATGT
1 ATGATATGT
*
71599834 ATGATATGCAC
1 ATGATATG--T
71599845 ATGATATGT
1 ATGATATGT
71599854 ATGATATG
1 ATGATATG
71599862 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:71599810 original size:11 final size:11
Alignment explanation
Indices: 71599794--71599865 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
71599784 CATGATATGT
71599794 ATGATATGCAC
1 ATGATATGCAC
*
71599805 ATGATATG--T
1 ATGATATGCAC
71599814 ATGATATGCAC
1 ATGATATGCAC
* *
71599825 ATGACATG--T
1 ATGATATGCAC
71599834 ATGATATGCAC
1 ATGATATGCAC
*
71599845 ATGATATG--T
1 ATGATATGCAC
71599854 ATGATATGCAC
1 ATGATATGCAC
71599865 A
1 A
71599866 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:71599873 original size:20 final size:20
Alignment explanation
Indices: 71599783--71599865 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
71599773 ATTTTGATAA
71599783 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71599803 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71599823 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
71599843 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71599863 ACA
1 ACA
71599866 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71599975 original size:24 final size:24
Alignment explanation
Indices: 71599919--71600108 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
71599909 GAGGAAGTGA
71599919 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
71599942 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
71599966 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
71599990 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
71600014 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
71600038 AAAA-GGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
71600061 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
71600085 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
71600109 ATGATAAAGC
Statistics
Matches: 153, Mismatches: 10, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
23 43 0.28
24 99 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:71599988 original size:47 final size:47
Alignment explanation
Indices: 71599919--71600087 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
71599909 GAGGAAGTGA
71599919 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
71599966 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* * *
71600014 AAAAGGGCTTACGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
71600061 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
71600088 AGAGGCTAGG
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
47 69 0.61
48 45 0.39
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:71600046 original size:71 final size:71
Alignment explanation
Indices: 71599918--71600108 Score: 278
Period size: 71 Copynumber: 2.7 Consensus size: 71
71599908 GGAGGAAGTG
* *
71599918 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
71599983 AGTTAT
66 AGTTAT
* *
71599989 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAA-GGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
71600053 CAGTTAT
65 CAGTTAT
* *
71600060 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
71600109 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
71 72 0.66
72 37 0.34
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:71600337 original size:31 final size:31
Alignment explanation
Indices: 71600302--71600365 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71600292 CGTTTACCGT
*
71600302 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
71600333 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71600364 AA
1 AA
71600366 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71604020 original size:44 final size:45
Alignment explanation
Indices: 71603951--71604063 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 45
71603941 GGGTAAGGTA
*
71603951 CCGATGCCATGT-CCAAACATGGTCTTACACTGAC-ACATCTCGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTCG-AGG
* *
71603996 CCGATGCATGTCCCAGACATGTCTTACACTGACTTGCGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGAC-TACATCTCGAGG
*
71604042 TCGATGCATGTCCCAGACATGT
1 CCGATGCATGTCCCAGACATGT
71604064 AATCTCAATG
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
44 18 0.30
45 14 0.23
46 28 0.47
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGACTACATCTCGAGG
Found at i:71605753 original size:36 final size:36
Alignment explanation
Indices: 71605706--71605776 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
71605696 TGGTTTTTAT
*
71605706 AATATGTTGAAATGAAATATGCATGATTTATGACTC
1 AATATGTTGAAATGAAATATGCATGATATATGACTC
* *
71605742 AATATGTTGAAATGGACTATGCATGATATATGACT
1 AATATGTTGAAATGAAATATGCATGATATATGACT
71605777 AAATTAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (36 bp):
AATATGTTGAAATGAAATATGCATGATATATGACTC
Found at i:71612331 original size:14 final size:13
Alignment explanation
Indices: 71612322--71612354 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
71612312 AAATATTTAC
71612322 TATGATATATATA
1 TATGATATATATA
71612335 TAT-ATATATATA
1 TATGATATATATA
71612347 TAT-ATATA
1 TATGATATA
71612355 CGTGAGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 17 0.85
13 3 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (13 bp):
TATGATATATATA
Found at i:71612333 original size:2 final size:2
Alignment explanation
Indices: 71612326--71612354 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
71612316 ATTTACTATG
71612326 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71612355 CGTGAGGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71626626 original size:46 final size:47
Alignment explanation
Indices: 71626482--71626794 Score: 193
Period size: 47 Copynumber: 6.7 Consensus size: 47
71626472 TTTGTGTGCT
* * *
71626482 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-A-TTGTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT-AGAGCC
* * * * *
71626528 AATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAGCC
*
71626576 AGTGTAAGACTTGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
* * * *
71626622 AGTGTAAGACATGTCTGGTACTTGCATCAG-CTAC-ATGATGT---GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGA-GATGTAGAGCC
* * * * * * * *
71626666 AATGTAAGACTATG-CTGGGATATGGCATCGACATGGATACGTGAGAGTC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGATGT-AGAGCC
* * *
71626715 AGTGTAAGACCATGTCTGGGACATGGCATC-GACT-TA-ACGTAAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGT-AGAGCC
*
71626762 AGTGTAAGACCATGTCTGGAACATGACATCGGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC
71626795 ATTATACCCT
Statistics
Matches: 209, Mismatches: 39, Indels: 36
0.74 0.14 0.13
Matches are distributed among these distances:
44 17 0.08
45 14 0.07
46 60 0.29
47 64 0.31
48 22 0.11
49 16 0.08
50 16 0.08
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
Found at i:71626734 original size:140 final size:140
Alignment explanation
Indices: 71626482--71626745 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 140
71626472 TTTGTGTGCT
71626482 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTGAGAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGT-AGAGCCAATGTAAGACCATGTCTGG
* * *
71626547 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACTTGTCTGGGACAT-GCATCGGCCTCG
65 GACATGGCATCGACATGGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
71626611 AGATGTAAGCC
130 AGATGTAAGCC
* * * * * *
71626622 AGTGTAAGACATGTCTGGTACTTGCATCAGCTACA-TG-ATGTGTCAATGTAAGACTATG-CTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTA-GAGCCAATGTAAGACCATGTCTGG
* *
71626684 GATATGGCATCGACATGGATACGTGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCG
65 GACATGGCATCGACATGGAGAC--GAGAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCG
71626746 ACTTAACGTA
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
137 23 0.21
138 17 0.16
139 16 0.15
140 45 0.42
141 6 0.06
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTAGAGCCAATGTAAGACCATGTCTGGG
ACATGGCATCGACATGGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGA
GATGTAAGCC
Found at i:71626762 original size:140 final size:139
Alignment explanation
Indices: 71626482--71626791 Score: 337
Period size: 140 Copynumber: 2.2 Consensus size: 139
71626472 TTTGTGTGCT
71626482 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTGAGAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGT-AGAGCCAATGTAAGACCATGTCTGG
* * * *
71626547 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACTTGTCTGGGACATGCATCGGCCTCGA
65 GACATGGCATCGACATGGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGA
*
71626612 GATGTAAGCC
130 GACGTAAGCC
* * * * * *
71626622 AGTGTAAGACATGTCTGGTACTTGCATCAGCTACA-TG-ATGTGTCAATGTAAGACTATG-CTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTA-GAGCCAATGTAAGACCATGTCTGG
* *
71626684 GATATGGCATCGACATGGATACGTGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GA
65 GACATGGCATCGACATGGAGAC--GAGAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGA
*
71626747 CT-TA-ACGTAAGAGCC
125 CTCGAGACGT-A-AGCC
*
71626762 AGTGTAAGACCATGTCTGGAACATGACATC
1 AGTGTAAGA-CATGTCTGGGACATG-CATC
71626792 GGCATTATAC
Statistics
Matches: 144, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
137 23 0.16
138 20 0.14
139 18 0.12
140 61 0.42
141 18 0.12
142 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTAGAGCCAATGTAAGACCATGTCTGGG
ACATGGCATCGACATGGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAG
ACGTAAGCC
Found at i:71638810 original size:57 final size:58
Alignment explanation
Indices: 71638716--71638865 Score: 151
Period size: 57 Copynumber: 2.6 Consensus size: 58
71638706 AATCATATGA
** * * * ** *
71638716 CAAGATTACTTGTCCAAGCTAAATCCTCTTTCCAACATATGTTCATA-AGAGCTTA-AT
1 CAAGATTACCAGTCCAGGCTAAATCCTATCTATAACATATGCTCA-AGAGAGCTTATAT
* *
71638773 CAAGATTACCCGTCCAGGCTAAATCCTATCTATAACATATGCTCAAGAGGGCTTATAT
1 CAAGATTACCAGTCCAGGCTAAATCCTATCTATAACATATGCTCAAGAGAGCTTATAT
* * * *
71638831 CAGGATTACCAATCTAGGCTAAATCCTTTCTATAA
1 CAAGATTACCAGTCCAGGCTAAATCCTATCTATAA
71638866 TGAGGTCAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
56 1 0.01
57 44 0.57
58 32 0.42
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (58 bp):
CAAGATTACCAGTCCAGGCTAAATCCTATCTATAACATATGCTCAAGAGAGCTTATAT
Found at i:71638856 original size:58 final size:57
Alignment explanation
Indices: 71638749--71638865 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 57
71638739 TCCTCTTTCC
* **
71638749 AACATATGTTCATAAGAGCTTAATCAAGATTACCCGTCCAGGCTAAATCCTATCTAT
1 AACATATGCTCATAAGAGCTTAATCAAGATTACCAATCCAGGCTAAATCCTATCTAT
* * * *
71638806 AACATATGCTCA-AGAGGGCTTATATCAGGATTACCAATCTAGGCTAAATCCTTTCTAT
1 AACATATGCTCATA-AGAGCTTA-ATCAAGATTACCAATCCAGGCTAAATCCTATCTAT
71638864 AA
1 AA
71638866 TGAGGTCAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 1 0.02
57 18 0.35
58 32 0.63
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (57 bp):
AACATATGCTCATAAGAGCTTAATCAAGATTACCAATCCAGGCTAAATCCTATCTAT
Found at i:71642561 original size:46 final size:48
Alignment explanation
Indices: 71642473--71642641 Score: 154
Period size: 46 Copynumber: 3.6 Consensus size: 48
71642463 GTAGGGTGTC
* * *
71642473 GATGCCATATCCCAGACATGGTCTTACACTAAC-TATCATCTTGTA-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTA-CGTCTTG-AGGCT
* *
71642521 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTTGAGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTTGAGGCT
* *** * *
71642567 GATG-CATGTCCC-GAACAT-GTCTTACGCTAGCACCCGTCTTGATGCC
1 GATGCCATGTCCCAG-ACATGGTCTTACACTAGCTTACGTCTTGAGGCT
*
71642613 GATGCCATTTCCCAGACATGGTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
71642642 AGGCTCTCAT
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.02
46 59 0.59
47 26 0.26
48 13 0.13
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTTGAGGCT
Found at i:71645630 original size:56 final size:54
Alignment explanation
Indices: 71645512--71645644 Score: 194
Period size: 56 Copynumber: 2.4 Consensus size: 54
71645502 TCCCAAACAG
* * * *
71645512 GGTCTTACTCGTAAACACATATCAGAATCACATATTTGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATATGCCAACGTATTAAACGT
*
71645566 GGTCTTACTCGCACACACATATCAGAATCATATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATAT--ATGCCAACGTATTAAACGT
*
71645622 GGTCTTACTCCCACACACATATC
1 GGTCTTACTCGCACACACATATC
71645645 GTACAATGCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
54 32 0.45
56 39 0.55
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (54 bp):
GGTCTTACTCGCACACACATATCAGAATCACATATATGCCAACGTATTAAACGT
Found at i:71645716 original size:43 final size:42
Alignment explanation
Indices: 71645650--71645943 Score: 216
Period size: 43 Copynumber: 7.0 Consensus size: 42
71645640 ATATCGTACA
* *
71645650 ATGCCAAC-GTCCTAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTGTCCCAGACG-GGTCTTACACGTAATCACATATCG
* * *
71645693 ATGCCACTGTCCTAGACAGGGTCTTACAC-AAATCAAATAT-G
1 ATGCCACTGTCCCAGAC-GGGTCTTACACGTAATCACATATCG
* ** *
71645734 ATGTCGA-TGTCCCAGACCTAGTTTTACACGTAATCACATATCG
1 ATG-CCACTGTCCCAGA-CGGGTCTTACACGTAATCACATATCG
* *
71645777 ATGCCAAC-ATCCCAGACGTGGTCTTACACG-AATCAAATAT-G
1 ATGCC-ACTGTCCCAGACG-GGTCTTACACGTAATCACATATCG
* * *
71645818 ATGTCGA-TGTCCCAGACATGGTTTTACACGTAATCACATATCG
1 ATG-CCACTGTCCCAGAC-GGGTCTTACACGTAATCACATATCG
*
71645861 ATGCCAAC-GTCCCAGACGTGGTCTTACACG-AATCAAATA-CG
1 ATGCC-ACTGTCCCAGACG-GGTCTTACACGTAATCACATATCG
*** *
71645902 ATTTTGA-TGTCCCAGACATGGTCTTACACGTAATCACATATC
1 A-TGCCACTGTCCCAGAC-GGGTCTTACACGTAATCACATATC
71645944 AAAAATCCTA
Statistics
Matches: 199, Mismatches: 30, Indels: 44
0.73 0.11 0.16
Matches are distributed among these distances:
41 67 0.34
42 62 0.31
43 69 0.35
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACGGGTCTTACACGTAATCACATATCG
Found at i:71645761 original size:41 final size:41
Alignment explanation
Indices: 71645658--71645942 Score: 250
Period size: 41 Copynumber: 6.8 Consensus size: 41
71645648 CAATGCCAAC
* * * *
71645658 GTCCTAGACGTGGTCTTACATGTAATCACATATCGATG-CCACT
1 GTCCCAGACGTGGTCTTACACG-AATCAAATAT-GATGTCGA-T
* *
71645701 GTCCTAGACAG-GGTCTTACACAAATCAAATATGATGTCGAT
1 GTCCCAGAC-GTGGTCTTACACGAATCAAATATGATGTCGAT
* * * * * * *
71645742 GTCCCAGACCTAGTTTTACACGTAATCACATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACG-AATCAAATAT-GATGTCGAT
*
71645785 ATCCCAGACGTGGTCTTACACGAATCAAATATGATGTCGAT
1 GTCCCAGACGTGGTCTTACACGAATCAAATATGATGTCGAT
* * * * * *
71645826 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACG-AATCAAATAT-GATGTCGAT
* * *
71645869 GTCCCAGACGTGGTCTTACACGAATCAAATACGATTTTGAT
1 GTCCCAGACGTGGTCTTACACGAATCAAATATGATGTCGAT
* *
71645910 GTCCCAGACATGGTCTTACACGTAATCACATAT
1 GTCCCAGACGTGGTCTTACACG-AATCAAATAT
71645943 CAAAAATCCT
Statistics
Matches: 194, Mismatches: 40, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
41 71 0.37
42 54 0.28
43 68 0.35
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (41 bp):
GTCCCAGACGTGGTCTTACACGAATCAAATATGATGTCGAT
Found at i:71645777 original size:84 final size:84
Alignment explanation
Indices: 71645658--71645943 Score: 423
Period size: 84 Copynumber: 3.4 Consensus size: 84
71645648 CAATGCCAAC
* * * * *
71645658 GTCCTAGACGTGGTCTTACATGTAATCACATATCGATGCC-ACTGTCCTAGACAG-GGTCTTACA
1 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACA
*
71645721 CAAATCAAATATGATGTCGAT
64 CGAATCAAATATGATGTCGAT
* * *
71645742 GTCCCAGACCTAGTTTTACACGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACG
1 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
71645807 AATCAAATATGATGTCGAT
66 AATCAAATATGATGTCGAT
71645826 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
1 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
* * *
71645891 AATCAAATACGATTTTGAT
66 AATCAAATATGATGTCGAT
*
71645910 GTCCCAGACATGGTCTTACACGTAATCACATATC
1 GTCCCAGACATGGTTTTACACGTAATCACATATC
71645944 AAAAATCCTA
Statistics
Matches: 185, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
83 1 0.01
84 182 0.98
85 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (84 bp):
GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
AATCAAATATGATGTCGAT
Found at i:71648507 original size:24 final size:24
Alignment explanation
Indices: 71648475--71648524 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
71648465 TGCTTGTGTT
71648475 TAAGTTCGGTAATGCCTTTTATCC
1 TAAGTTCGGTAATGCCTTTTATCC
71648499 TAAGTTCGGTAATGCCTTTTATCC
1 TAAGTTCGGTAATGCCTTTTATCC
71648523 TA
1 TA
71648525 TCCCAACGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (24 bp):
TAAGTTCGGTAATGCCTTTTATCC
Found at i:71655486 original size:6 final size:6
Alignment explanation
Indices: 71655475--71655635 Score: 156
Period size: 6 Copynumber: 26.8 Consensus size: 6
71655465 AACCAAAATG
*
71655475 AGAATC AGAATC AGAATC -GTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
71655522 AGTAA-C AGAATC AAAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
71655571 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
71655619 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
71655636 TACGTGACAG
Statistics
Matches: 129, Mismatches: 12, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
5 12 0.09
6 109 0.84
7 6 0.05
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:71655490 original size:30 final size:30
Alignment explanation
Indices: 71655475--71655660 Score: 235
Period size: 30 Copynumber: 6.4 Consensus size: 30
71655465 AACCAAAATG
*
71655475 AGAATCAGAATCAGAA-TCGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
71655504 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
71655534 AAAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
71655559 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
71655589 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
71655619 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
71655650 AGGATCAGAAT
1 AGAATCAGAAT
71655661 ATGAATGCAA
Statistics
Matches: 137, Mismatches: 9, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
24 2 0.01
25 18 0.13
26 1 0.01
27 1 0.01
28 2 0.01
29 15 0.11
30 75 0.55
31 23 0.17
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:71655595 original size:85 final size:84
Alignment explanation
Indices: 71655475--71655660 Score: 327
Period size: 85 Copynumber: 2.2 Consensus size: 84
71655465 AACCAAAATG
71655475 AGAATCAGAATCAGAATCGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAAATC
1 AGAATCAGAATCAGAATCGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAAATC
*
71655540 AGAATCAGAATTAGGTGAC
66 AGAATCAGAATTACGTGAC
* *
71655559 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATC-GTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAAAT
71655624 CAGAATCAGAATTACGTGAC
65 CAGAATCAGAATTACGTGAC
*
71655644 AGAATCAGGATCAGAAT
1 AGAATCAGAATCAGAAT
71655661 ATGAATGCAA
Statistics
Matches: 97, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 18 0.19
85 79 0.81
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (84 bp):
AGAATCAGAATCAGAATCGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAAAATC
AGAATCAGAATTACGTGAC
Found at i:71655826 original size:27 final size:26
Alignment explanation
Indices: 71655779--71655851 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
71655769 GCATGGCTGT
* * *
71655779 CAGAACAGATATCGTGACAGAGTCAC
1 CAGAACAGATATTGTGGCAGAGCCAC
*
71655805 TAGATACAGATATTGTGGCAGAGCCAC
1 CAGA-ACAGATATTGTGGCAGAGCCAC
*
71655832 CAGAATCAGATAATGTGGCA
1 CAGAA-CAGATATTGTGGCA
71655852 AACCCACCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGAACAGATATTGTGGCAGAGCCAC
Found at i:71656064 original size:22 final size:22
Alignment explanation
Indices: 71656016--71656073 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
71656006 GTAAATACGT
*
71656016 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
71656038 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
71656060 TTGGCACAGAGCCA
1 TTGGCACAAAGCCA
71656074 CTAATAACGG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:71656226 original size:26 final size:26
Alignment explanation
Indices: 71656162--71656241 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
71656152 TCGATCGGTC
** *
71656162 AACAGATATTGTGATAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAA
*
71656188 ATACAGATATTGTGGCAGAG-CACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAA
*
71656214 AACAGATATTTGTGGCATAGCCACCAA
1 AACAGATA-TTGTGGCAGAGCCACCAA
71656241 A
1 A
71656242 CGCTTCCTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 7 0.15
26 17 0.37
27 22 0.48
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAA
Found at i:71656470 original size:27 final size:27
Alignment explanation
Indices: 71656440--71656635 Score: 241
Period size: 27 Copynumber: 7.3 Consensus size: 27
71656430 GGGGCAAAAT
* *
71656440 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71656467 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71656494 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
71656521 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
71656548 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
71656575 AGTAATTCTACCCTA-TAGGGCTATTTT
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
71656602 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71656629 AGTAATT
1 GGTAATT
71656636 TCACAATCAA
Statistics
Matches: 142, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.03
27 135 0.95
28 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:71656670 original size:27 final size:27
Alignment explanation
Indices: 71656640--71657132 Score: 566
Period size: 27 Copynumber: 18.3 Consensus size: 27
71656630 GTAATTTCAC
* * *
71656640 AATCAAGGGTAAAACGGCAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
71656667 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
71656694 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
71656721 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
71656748 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
71656775 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
71656802 AA-CTGAGGGTAAAACAATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** *
71656829 AATCGAGGGTAAAATAGTAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTCTATA
* **
71656855 AACCTGAGGGTAAAACGGTAATTCGGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
71656883 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
71656910 AATAGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
**
71656937 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
71656964 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
71656991 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
71657018 AA-CTGAGGGTAAAATGGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTATA
*
71657045 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
71657072 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
71657099 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
71657126 AATCGAG
1 AATCGAG
71657133 AGTACTTTGG
Statistics
Matches: 403, Mismatches: 51, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.02
27 387 0.96
28 8 0.02
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:71657153 original size:108 final size:108
Alignment explanation
Indices: 71656640--71657127 Score: 653
Period size: 108 Copynumber: 4.5 Consensus size: 108
71656630 GTAATTTCAC
* * * *
71656640 AATCAAGGGTAAAACGGCAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
* * * * * *
71656705 AACCAGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTACA
66 AAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
* *
71656748 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
** * * *
71656813 AAACAATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT-
66 AAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
* * *
71656855 AACCTGAGGGTAAAACGGTAATTCGGTAAATCGAGGGTAAAACGGTAATT-T-TACAAATAGAGG
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA-AACT-GAGG
*
71656918 GTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATA
63 GTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
*
71656964 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
* * *
71657028 AAAATGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
65 AAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
* *
71657072 AATCGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAA
71657128 TCGAGAGTAC
Statistics
Matches: 338, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
106 2 0.01
107 8 0.02
108 319 0.94
109 7 0.02
110 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.26
Consensus pattern (108 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
Found at i:71659161 original size:6 final size:6
Alignment explanation
Indices: 71659146--71659301 Score: 144
Period size: 6 Copynumber: 25.8 Consensus size: 6
71659136 AACCAAAATG
* *
71659146 AGAATC AGAATT AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
71659194 AGTAA-C AGAATC AGAATC AGAATT AGAATT AG-TTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
71659243 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
71659291 AGAATC AGAAT
1 AGAATC AGAAT
71659302 TACGTGACAG
Statistics
Matches: 125, Mismatches: 12, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
5 10 0.08
6 105 0.84
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:71659180 original size:30 final size:30
Alignment explanation
Indices: 71659146--71659301 Score: 207
Period size: 30 Copynumber: 5.4 Consensus size: 30
71659136 AACCAAAATG
* *
71659146 AGAATCAGAATTAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
71659176 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
* *
71659206 AGAATCAGAATTAGAATTAGT---TG-A-C
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
71659231 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
71659261 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
71659291 AGAATCAGAAT
1 AGAATCAGAAT
71659302 TACGTGACAG
Statistics
Matches: 110, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
25 20 0.18
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.02
30 84 0.76
31 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.22
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:71659303 original size:24 final size:24
Alignment explanation
Indices: 71659146--71659326 Score: 137
Period size: 30 Copynumber: 6.7 Consensus size: 24
71659136 AACCAAAATG
* *
71659146 AGAATCAGAATTAGAATCAGTAAC
1 AGAATCAGAATCAGAATTAGTAAC
71659170 AGAATCAGAATCAGAATCAATATTAGTAAC
1 AGAATCAGAATCAG-----A-ATTAGTAAC
71659200 AGAATCAGAATCAGAATTAGAATTAGTTGAC
1 AGAATCAGAATCAGAATTAG---TA----AC
*
71659231 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATTAGTAAC
71659255 AGAATCAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAG----A--ATTAGTAAC
*
71659285 AGAATCAGAATCAGAATTACGTGAC
1 AGAATCAGAATCAGAATTA-GTAAC
*
71659310 AGAATCAGTATCAGAAT
1 AGAATCAGAATCAGAAT
71659327 GTGAATGCAA
Statistics
Matches: 131, Mismatches: 6, Indels: 39
0.74 0.03 0.22
Matches are distributed among these distances:
24 38 0.29
25 21 0.16
26 1 0.01
27 2 0.02
28 3 0.02
29 1 0.01
30 44 0.34
31 21 0.16
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (24 bp):
AGAATCAGAATCAGAATTAGTAAC
Found at i:71659326 original size:85 final size:84
Alignment explanation
Indices: 71659146--71659303 Score: 271
Period size: 85 Copynumber: 1.9 Consensus size: 84
71659136 AACCAAAATG
*
71659146 AGAATCAGAATTAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
* *
71659211 CAGAATTAGAATTAGTTGAC
66 CAGAATTAGAATCAGAT-AC
*
71659231 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
71659296 CAGAATTA
66 CAGAATTA
71659304 CGTGACAGAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (84 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATTAGAATCAGATAC
Found at i:71659492 original size:27 final size:26
Alignment explanation
Indices: 71659446--71659517 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
71659436 CATGGCAGCT
* * *
71659446 AGAACAGATATCGTGACAGAGTCACC
1 AGAACAGATATTGTGGCAGAGCCACC
71659472 AGATACAGATATTGTGGCAGAGCCACC
1 AGA-ACAGATATTGTGGCAGAGCCACC
*
71659499 AGAATCAGATAATGTGGCA
1 AGAA-CAGATATTGTGGCA
71659518 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.10
27 36 0.90
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACC
Found at i:71659524 original size:27 final size:27
Alignment explanation
Indices: 71659468--71659525 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
71659458 GTGACAGAGT
* * *
71659468 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
71659495 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
71659522 CACC
1 CACC
71659526 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:71659730 original size:22 final size:22
Alignment explanation
Indices: 71659682--71659733 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
71659672 GTAAATACGT
*
71659682 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
71659704 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
71659726 TTGGCACA
1 TTGGCACA
71659734 GAGCTATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:71659872 original size:27 final size:26
Alignment explanation
Indices: 71659828--71659910 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
71659818 TCGATCGGTC
* * *
71659828 AACAGATATTGTGACAGAGTCACCAA
1 AACAAATATTGTGGCAGAGCCACCAA
*
71659854 ATACAAATATTGTGGCAGAGCCACCAG
1 A-ACAAATATTGTGGCAGAGCCACCAA
* *
71659881 AACAGATATTTGTGGCATAGCCACCAA
1 AACAAATA-TTGTGGCAGAGCCACCAA
71659908 AAC
1 AAC
71659911 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (26 bp):
AACAAATATTGTGGCAGAGCCACCAA
Found at i:71660139 original size:27 final size:27
Alignment explanation
Indices: 71660109--71660211 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
71660099 GGGGCAAAAT
* * *
71660109 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71660136 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71660163 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
71660190 GATAATTCTACCCTACAGGGGT
1 GGTAATTCTACCCTACAAGGGT
71660212 GGTGACAGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:71662253 original size:29 final size:29
Alignment explanation
Indices: 71662196--71662354 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
71662186 GTGACGAGAT
71662196 TGGCACTAAGTGTGC-TGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
71662224 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
71662253 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
71662282 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
71662311 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
71662340 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
71662355 GAAATCGAGT
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
28 17 0.15
29 92 0.84
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:71670380 original size:29 final size:29
Alignment explanation
Indices: 71670347--71670506 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
71670337 GTGACGAGAT
71670347 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
71670376 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
71670405 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
71670434 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
71670463 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
71670492 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
71670507 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:71674720 original size:30 final size:30
Alignment explanation
Indices: 71674705--71674888 Score: 235
Period size: 30 Copynumber: 6.4 Consensus size: 30
71674695 AACCAAAATG
*
71674705 AGAATCAGAATCAGAA-TCGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
71674734 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
71674764 A-AATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
71674788 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
71674818 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
71674848 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
71674879 AG-ATCAGAAT
1 AGAATCAGAAT
71674889 ATGAATGCAA
Statistics
Matches: 137, Mismatches: 6, Indels: 23
0.83 0.04 0.14
Matches are distributed among these distances:
24 4 0.03
25 17 0.12
26 1 0.01
28 2 0.01
29 30 0.22
30 71 0.52
31 12 0.09
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:71674810 original size:54 final size:54
Alignment explanation
Indices: 71674705--71674861 Score: 210
Period size: 54 Copynumber: 2.8 Consensus size: 54
71674695 AACCAAAATG
*
71674705 AGAATCAGAATCAGAA-TCGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATCAGAATCAGAATC------AGTAACAGAATC
*
71674764 A-AATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATCAGAATCAGAATCAGTAACAGAATC
*
71674818 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATTAGTAACAGAATCAGAATCAGAATCAG
71674862 AATTACGTGA
Statistics
Matches: 91, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
54 37 0.41
55 16 0.18
58 14 0.15
59 2 0.02
60 22 0.24
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (54 bp):
AGAATCAGAATCAGAATTAGTAACAGAATCAGAATCAGAATCAGTAACAGAATC
Found at i:71674881 original size:6 final size:6
Alignment explanation
Indices: 71674705--71674864 Score: 156
Period size: 6 Copynumber: 26.8 Consensus size: 6
71674695 AACCAAAATG
*
71674705 AGAATC AGAATC AGAATC -GTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
71674752 AGTAA-C AGAATC A-AATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
71674800 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
71674848 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
71674865 TACGTGACAG
Statistics
Matches: 129, Mismatches: 10, Indels: 30
0.76 0.06 0.18
Matches are distributed among these distances:
5 17 0.13
6 104 0.81
7 6 0.05
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:71675067 original size:27 final size:27
Alignment explanation
Indices: 71675005--71675069 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
71674995 AGCATGGCGT
*
71675005 CAGAA-CAGATATCGTGACAGAGTCAC
1 CAGAATCAGATATCGTGACAGAGCCAC
* * *
71675031 TAG-ATACAGATATTGTGGCAGAGCCAC
1 CAGAAT-CAGATATCGTGACAGAGCCAC
71675058 CAGAATCAGATA
1 CAGAATCAGATA
71675070 ATGGCAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 2 0.06
27 26 0.84
28 2 0.06
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGAATCAGATATCGTGACAGAGCCAC
Found at i:71675288 original size:22 final size:22
Alignment explanation
Indices: 71675240--71675297 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
71675230 GTAAATACGT
*
71675240 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
71675262 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
71675284 TTGGCACAGAGCCA
1 TTGGCACAAAGCCA
71675298 CTAATAACGG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:71675450 original size:26 final size:26
Alignment explanation
Indices: 71675386--71675465 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
71675376 TCGATCGGTC
** *
71675386 AACAGATATTGTGATAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAA
*
71675412 ATACAGATATTGTGGCAGAG-CACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAA
*
71675438 AACAGATATTTGTGGCATAGCCACCAA
1 AACAGATA-TTGTGGCAGAGCCACCAA
71675465 A
1 A
71675466 CGCTTCCTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 7 0.15
26 17 0.37
27 22 0.48
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAA
Found at i:71675711 original size:53 final size:52
Alignment explanation
Indices: 71675664--71675856 Score: 192
Period size: 53 Copynumber: 3.7 Consensus size: 52
71675654 AGGGGCAAAA
* *
71675664 TGGTAATTTTACCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATT
1 TGGTAATTTTACCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGAATT
* * *
71675716 TCGGT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGTATTT
1 T-GGTAATTT-TACCC-ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGAATT
* * * * * **
71675770 TGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGCTATT
1 TGGTAATTTTA-CCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGAATT
* * *
71675823 TGGAAATTCTACCCTAC-AGGGTATTTCAGTAATT
1 TGGTAATTTTACCC-ACAAGGGTATTTCGGTAATT
71675857 TCACAATCAA
Statistics
Matches: 118, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 24 0.20
53 55 0.47
54 39 0.33
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (52 bp):
TGGTAATTTTACCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGAATT
Found at i:71675720 original size:27 final size:27
Alignment explanation
Indices: 71675665--71675856 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
71675655 GGGGCAAAAT
* *
71675665 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71675691 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71675718 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
71675745 GATAATTCTACCCTAC-AGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
71675771 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
71675798 AGTAATTCTACCCTA-TAGGGCTATTT-
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
71675824 GGAAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
71675850 AGTAATT
1 GGTAATT
71675857 TCACAATCAA
Statistics
Matches: 142, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 5 0.04
26 60 0.42
27 77 0.54
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Done.