Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 59 of 292
Found at i:17468877 original size:53 final size:53
Alignment explanation
Indices: 17468760--17468905 Score: 184
Period size: 53 Copynumber: 2.7 Consensus size: 53
17468750 TAGGGCAAAA
* * * * *
17468760 TGGTAATTTTACCCCACAAAGGTATCTTGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTTGGTAA-TCTACCCTACAAGGGTATTT
* * *
17468814 CGGTATTTCTACCCTACAAGGGTATTTTGGTAATCTATCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTTGGTAATCTACCCTACAAGGGTATTT
* *
17468867 TGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
1 TGGTAATTCTACCCTACAAGGGTATTTTGGTAA-TCTAC
17468906 AACTTATCCA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 47 0.60
54 31 0.40
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (53 bp):
TGGTAATTCTACCCTACAAGGGTATTTTGGTAATCTACCCTACAAGGGTATTT
Found at i:17480065 original size:40 final size:40
Alignment explanation
Indices: 17480007--17480174 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
17479997 TGAATGATAC
** *
17480007 CCGGGCTAATTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
17480047 CCGGGCTAAGACCTGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
17480087 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTAACAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
17480127 CCGGGATAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
17480167 CC-GGCTAA
1 CCGGGCTAA
17480175 ATTCTGAAGA
Statistics
Matches: 103, Mismatches: 23, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
39 6 0.06
40 95 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:17480145 original size:80 final size:80
Alignment explanation
Indices: 17480007--17480174 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
17479997 TGAATGATAC
** * ** * * *
17480007 CCGGGCTAATTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCTGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGAACAAATCCGGGATAAGACCCGAAGGCAATT-
*
17480071 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* *
17480087 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTAACAAATCCGGGATAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGAACAAATCCGGGATAAGACCCGAAGGCAATTG
**
17480152 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
17480167 CC-GGCTAA
1 CCGGGCTAA
17480175 ATTCTGAAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 65 0.88
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGAACAAATCCGGGATAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:17488327 original size:40 final size:40
Alignment explanation
Indices: 17488226--17488396 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
17488216 CATTTGAATG
* *
17488226 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TT
* * *
17488266 ATATCC-GGCTAAGACACGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
* ***
17488305 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
* * * * *
17488345 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
17488385 ATATCC-GGCTAA
1 ATATCCGGGCTAA
17488397 ATTCCGAAGA
Statistics
Matches: 107, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 36 0.34
40 71 0.66
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTT
Found at i:17488395 original size:79 final size:79
Alignment explanation
Indices: 17488226--17488396 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
17488216 CATTTGAATG
* * ** *
17488226 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGCTAAGACACGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGCTAAGACACGAAGGCAT
*
17488291 TCGTGCGAGTTGTT
66 TCGTGCGAGTGGTT
* * * *
17488305 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCC-GGCTAAGACACGAAGGC-
**
17488370 ATT-GTGCTTGTGGTT
64 ATTCGTGCGAGTGGTT
17488385 ATATCC-GGCTAA
1 ATATCCGGGCTAA
17488397 ATTCCGAAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 45 0.58
80 30 0.38
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGCTAAGACACGAAGGCAT
TCGTGCGAGTGGTT
Found at i:17494290 original size:42 final size:41
Alignment explanation
Indices: 17494243--17494360 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 41
17494233 TAGTTATTGA
*
17494243 GATTCCGTGTAAGACCATATCTGGGATATGGCCTCAATATG
1 GATTCCGTGTAAGACCATATCTGGGATATGGCATCAATATG
* * ** * *
17494284 TGATTCCGTATAAGACCATGTCAAGGACATGGCATCGATATG
1 -GATTCCGTGTAAGACCATATCTGGGATATGGCATCAATATG
* * **
17494326 GCATTTCATGTAAGACTTTATCTGGGATATGGCAT
1 G-ATTCCGTGTAAGACCATATCTGGGATATGGCAT
17494361 TGATATGATA
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (41 bp):
GATTCCGTGTAAGACCATATCTGGGATATGGCATCAATATG
Found at i:17499151 original size:38 final size:38
Alignment explanation
Indices: 17499109--17499198 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
17499099 ATGATATAGA
* *
17499109 GTATGAGATAGATGAACCTATGTGGTTGA-CAATATGGT
1 GTATGAAATAGATGAACCTATGTGGATGATCAA-ATGGT
* *
17499147 GTATGAAATAGATGAACTTATGTGGATGATGAAATGGT
1 GTATGAAATAGATGAACCTATGTGGATGATCAAATGGT
17499185 GTAT-AAATTAGATG
1 GTATGAAA-TAGATG
17499199 CAAGGTTGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
37 3 0.07
38 41 0.89
39 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (38 bp):
GTATGAAATAGATGAACCTATGTGGATGATCAAATGGT
Found at i:17502266 original size:16 final size:16
Alignment explanation
Indices: 17502245--17502278 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
17502235 GTGATGATTC
17502245 TAGAATGAAAATGGGA
1 TAGAATGAAAATGGGA
17502261 TAGAATGAAAATGGGA
1 TAGAATGAAAATGGGA
17502277 TA
1 TA
17502279 AAAGTACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (16 bp):
TAGAATGAAAATGGGA
Found at i:17504841 original size:31 final size:31
Alignment explanation
Indices: 17504803--17504866 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17504793 CCTTTTCATA
17504803 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
17504834 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
17504865 TT
1 TT
17504867 ACTGTAAACG
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:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:17505106 original size:23 final size:24
Alignment explanation
Indices: 17505074--17505131 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
17505064 CTGGAGGCCT
17505074 AGCCTCTTTTAATAACCGGGGCA-A
1 AGCC-CTTTTAATAACCGGGGCATA
* *
17505098 AGTCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACCGGGGCATA
17505122 AGCCCTTTTA
1 AGCCCTTTTA
17505132 CACTTCCTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 17 0.57
24 13 0.43
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACCGGGGCATA
Found at i:17505205 original size:20 final size:20
Alignment explanation
Indices: 17505180--17505240 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
17505170 TTATGAATAC
17505180 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17505200 ATCATGTGCATATCATACGT
1 ATCATGTGCATATCATACAT
*
17505220 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
17505240 A
1 A
17505241 CCATATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17505764 original size:8 final size:8
Alignment explanation
Indices: 17505751--17505778 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
17505741 AAATGCCAGA
17505751 ATTTCGGC
1 ATTTCGGC
17505759 ATTTCGGC
1 ATTTCGGC
17505767 ATTTCGGC
1 ATTTCGGC
17505775 ATTT
1 ATTT
17505779 ATCGCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (8 bp):
ATTTCGGC
Found at i:17507090 original size:42 final size:42
Alignment explanation
Indices: 17507039--17507127 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
17507029 ATGGCCTCGG
* *
17507039 TATGTTATTTCATATAAGACCATGT-TAAGGACATGGCATTGA
1 TATGATATTTCATATAAGACCATATCTAA-GACATGGCATTGA
* * *
17507081 TATGATATTTCATGTAAGACCATATCTGAGATATGGCATTGA
1 TATGATATTTCATATAAGACCATATCTAAGACATGGCATTGA
17507123 TATGA
1 TATGA
17507128 AATTATATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 39 0.95
43 2 0.05
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (42 bp):
TATGATATTTCATATAAGACCATATCTAAGACATGGCATTGA
Found at i:17509167 original size:2 final size:2
Alignment explanation
Indices: 17509160--17509197 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
17509150 AGTACATATG
17509160 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17509198 TTAAAGAGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:17510327 original size:25 final size:25
Alignment explanation
Indices: 17510263--17510355 Score: 91
Period size: 25 Copynumber: 3.6 Consensus size: 25
17510253 CATTTCAACC
17510263 CACAGCTCATGTGAGCAGGC-CC-ATTTT
1 CACAGCTCATGTGAGC--GCACCGA--TT
* *
17510290 CACAGTTCGTGTGAGCGCACCGATT
1 CACAGCTCATGTGAGCGCACCGATT
**
17510315 CACAGCTCATGTGAGCATACCGATT
1 CACAGCTCATGTGAGCGCACCGATT
*
17510340 CACAGCTCGTGTGAGC
1 CACAGCTCATGTGAGC
17510356 ATACATGTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
25 40 0.70
26 2 0.04
27 15 0.26
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (25 bp):
CACAGCTCATGTGAGCGCACCGATT
Found at i:17510356 original size:25 final size:25
Alignment explanation
Indices: 17510288--17510359 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
17510278 CAGGCCCATT
* **
17510288 TTCACAGTTCGTGTGAGCGCACCGA
1 TTCACAGCTCGTGTGAGCATACCGA
*
17510313 TTCACAGCTCATGTGAGCATACCGA
1 TTCACAGCTCGTGTGAGCATACCGA
17510338 TTCACAGCTCGTGTGAGCATAC
1 TTCACAGCTCGTGTGAGCATAC
17510360 ATGTACAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATACCGA
Found at i:17513450 original size:47 final size:47
Alignment explanation
Indices: 17513390--17513519 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
17513380 GTGTGAGGGA
* * *
17513390 TACCTTGATTTGGCTACGAGCCCTGGTATAGGTATTCAGAGG-GGAGT
1 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCAG-GGAGAAGT
* * * *
17513437 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCAGGGAGAAGT
17513484 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACT
17513520 TATAGATTGA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 2 0.03
47 71 0.97
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCAGGGAGAAGT
Found at i:17515804 original size:27 final size:27
Alignment explanation
Indices: 17515774--17515850 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
17515764 TATAAGATAG
17515774 AATGACTATTTTGTC-CTTATGTGGCAA
1 AATGACTATTTTG-CACTTATGTGGCAA
*
17515801 AATGACTGTTTTGCACTTATGTGGCAA
1 AATGACTATTTTGCACTTATGTGGCAA
* *
17515828 AATGACGATTTTGCTCTTATGTG
1 AATGACTATTTTGCACTTATGTG
17515851 ATAAAGTGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (27 bp):
AATGACTATTTTGCACTTATGTGGCAA
Found at i:17515860 original size:27 final size:27
Alignment explanation
Indices: 17515774--17515860 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
17515764 TATAAGATAG
* *
17515774 AATGACTATTTTGTC-CTTATGTGGCAA
1 AATGACGATTTTG-CACTTATGTGACAA
*
17515801 AATGACTG-TTTTGCACTTATGTGGCAA
1 AATGAC-GATTTTGCACTTATGTGACAA
* *
17515828 AATGACGATTTTGCTCTTATGTGATAA
1 AATGACGATTTTGCACTTATGTGACAA
*
17515855 AGTGAC
1 AATGAC
17515861 CGAAATACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
26 2 0.04
27 50 0.96
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (27 bp):
AATGACGATTTTGCACTTATGTGACAA
Found at i:17515882 original size:27 final size:27
Alignment explanation
Indices: 17515866--17516022 Score: 224
Period size: 27 Copynumber: 5.8 Consensus size: 27
17515856 GTGACCGAAA
*
17515866 TACCCCTGTAAGGTAAAATGACTTTAT
1 TACCCCTGTAAGGTAAAATGACTGTAT
*
17515893 TACCCCTGTAGGGTAAAATGACTGTAT
1 TACCCCTGTAAGGTAAAATGACTGTAT
* *
17515920 TACCCCTGTATGGTAAAATGACTATAT
1 TACCCCTGTAAGGTAAAATGACTGTAT
* *
17515947 TACCCCCGTAAGGTAAAATGATTGTAT
1 TACCCCTGTAAGGTAAAATGACTGTAT
* * *
17515974 TACCCCTGTAGGGTAAAATAACTGTAA
1 TACCCCTGTAAGGTAAAATGACTGTAT
*
17516001 TACCCCTGTAAGATAAAATGAC
1 TACCCCTGTAAGGTAAAATGAC
17516023 AGATTTGTTC
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
TACCCCTGTAAGGTAAAATGACTGTAT
Found at i:17515959 original size:81 final size:81
Alignment explanation
Indices: 17515866--17516022 Score: 253
Period size: 81 Copynumber: 1.9 Consensus size: 81
17515856 GTGACCGAAA
* * *
17515866 TACCCCTGTAAGGTAAAATGACTT-TATTACCCCTGTAGGGTAAAATGACTGTATTACCCCTGTA
1 TACCCCCGTAAGGTAAAATGA-TTGTATTACCCCTGTAGGGTAAAATAACTGTAATACCCCTGTA
* *
17515930 TGGTAAAATGACTATAT
65 AGATAAAATGACTATAT
17515947 TACCCCCGTAAGGTAAAATGATTGTATTACCCCTGTAGGGTAAAATAACTGTAATACCCCTGTAA
1 TACCCCCGTAAGGTAAAATGATTGTATTACCCCTGTAGGGTAAAATAACTGTAATACCCCTGTAA
17516012 GATAAAATGAC
66 GATAAAATGAC
17516023 AGATTTGTTC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 2 0.03
81 68 0.97
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (81 bp):
TACCCCCGTAAGGTAAAATGATTGTATTACCCCTGTAGGGTAAAATAACTGTAATACCCCTGTAA
GATAAAATGACTATAT
Found at i:17516202 original size:23 final size:18
Alignment explanation
Indices: 17516154--17516189 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17516144 CTGTACTGGT
17516154 ATGGCTTTAAGCCTACTA
1 ATGGCTTTAAGCCTACTA
17516172 ATGGCTTTAAGCCTACTA
1 ATGGCTTTAAGCCTACTA
17516190 TACTGGCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
ATGGCTTTAAGCCTACTA
Found at i:17516372 original size:18 final size:18
Alignment explanation
Indices: 17516343--17516401 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
17516333 TCTGCTTGCG
17516343 TACTGCACTGATTACTGT
1 TACTGCACTGATTACTGT
* * *
17516361 TACTGTATTGATCA-TGGT
1 TACTGCACTGATTACT-GT
*
17516379 TACTGCACTGATTACTAT
1 TACTGCACTGATTACTGT
17516397 TACTG
1 TACTG
17516402 AAATGGGCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (18 bp):
TACTGCACTGATTACTGT
Found at i:17522117 original size:29 final size:29
Alignment explanation
Indices: 17522082--17522324 Score: 154
Period size: 29 Copynumber: 8.4 Consensus size: 29
17522072 ATCATCGAAC
**
17522082 ATGAAAAAGGATAGCTTCGACTATCGGTT
1 ATGAAAAAGGATAGCTTCGACTATCAATT
* *
17522111 ATGAAAAGGGATAACTTC-AGCTATCAATT
1 ATGAAAAAGGATAGCTTCGA-CTATCAATT
**
17522140 ATGAAAAAGGATAGCTTCGGTTATCAGA-T
1 ATGAAAAAGGATAGCTTCGACTATCA-ATT
* * * *
17522169 ATGAAAAAGGATATCTTTGGCTATCGATT
1 ATGAAAAAGGATAGCTTCGACTATCAATT
* * * * **
17522198 ATGAAAAGGGAT-GGTGACGACCATCAACA
1 ATGAAAAAGGATAGCT-TCGACTATCAATT
* * * * *
17522227 ATGAAAAGGGAT-GGTGACGACCATCAAAT
1 ATGAAAAAGGATAGCT-TCGACTATCAATT
* * *
17522256 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAAGGATAGCTTCGACTATCAATT
* * * *
17522285 ATG-AAAAGGGTAGTTTCGGCTATCGATT
1 ATGAAAAAGGATAGCTTCGACTATCAATT
*
17522313 ATGAAAAGGGAT
1 ATGAAAAAGGAT
17522325 GGTGATGACC
Statistics
Matches: 172, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
28 28 0.16
29 141 0.82
30 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (29 bp):
ATGAAAAAGGATAGCTTCGACTATCAATT
Found at i:17522335 original size:115 final size:116
Alignment explanation
Indices: 17522133--17522358 Score: 350
Period size: 115 Copynumber: 2.0 Consensus size: 116
17522123 AACTTCAGCT
* * *
17522133 ATCAATTATGAAAAAGGATAGCTTCGGTTATCAGATATGAAAAAGGATATCTTTGGCTATCGATT
1 ATCAAATATGAAAAAGGATAGCTTCGGCTATCAGATATGAAAAAGGATATCTTCGGCTATCGATT
17522198 ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACC
66 ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACC
* *
17522249 ATCAAATATGAAAAGGGATAGCTTCGGCTATC-GATTATG-AAAAGGGTAGT-TTCGGCTATCGA
1 ATCAAATATGAAAAAGGATAGCTTCGGCTATCAGA-TATGAAAAAGGATA-TCTTCGGCTATCGA
* *
17522311 TTATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGA
64 TTATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGA
17522359 TGAACTTCGA
Statistics
Matches: 101, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
115 67 0.66
116 34 0.34
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.25
Consensus pattern (116 bp):
ATCAAATATGAAAAAGGATAGCTTCGGCTATCAGATATGAAAAAGGATATCTTCGGCTATCGATT
ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACC
Found at i:17522354 original size:29 final size:29
Alignment explanation
Indices: 17522197--17522361 Score: 140
Period size: 29 Copynumber: 5.7 Consensus size: 29
17522187 GGCTATCGAT
*
17522197 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGATGACCATCAAC
* * *
17522226 AATGAAAAGGGATGGTGACGACCATCAAA
1 TATGAAAAGGGATGGTGATGACCATCAAC
* * * * *
17522255 TATGAAAAGGGATAGCT--TCGGCTATCGAT
1 TATGAAAAGGGAT-GGTGAT-GACCATCAAC
* * * * * *
17522284 TATGAAAAGGG-TAGT-TTCGGCTATCGAT
1 TATGAAAAGGGATGGTGAT-GACCATCAAC
17522312 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGATGACCATCAAC
17522341 TATGAAAAGGGATGGTGATGA
1 TATGAAAAGGGATGGTGATGA
17522362 ACTTCGATTA
Statistics
Matches: 114, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.01
28 24 0.21
29 86 0.75
30 3 0.03
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGATGACCATCAAC
Found at i:17522369 original size:86 final size:88
Alignment explanation
Indices: 17522162--17522408 Score: 222
Period size: 86 Copynumber: 2.8 Consensus size: 88
17522152 AGCTTCGGTT
* * * * * * ** *
17522162 ATCAGATATGAAAAAGGATATCTTTGGCTATCGATT-ATGAAAA-GGGATGGTGACGACCATC-A
1 ATCAAATATGAAAAGGGATAGCTTCGACTATCGATTAATGAAAATGGG-TAGTTTCAACCATCGA
*
17522224 ACAATGAAAAGGGATGGTGACGACC
65 A-TATGAAAAGGGATGGTGACGACC
* ** * *
17522249 ATCAAATATGAAAAGGGATAGCTTCGGCTATCGATT-ATGAAAA-GGGTAGTTTCGGCTATCGAT
1 ATCAAATATGAAAAGGGATAGCTTCGACTATCGATTAATGAAAATGGGTAGTTTCAACCATCGAA
*
17522312 TATGAAAAGGGATGGTGATGACC
66 TATGAAAAGGGATGGTGACGACC
* * *
17522335 ATCAACTATGAAAAGGGAT-GGTGAT-GAACT-TCGATTAATGAAAATGGGTGGTTTCAACCATC
1 ATCAAATATGAAAAGGGATAGCT--TCG-ACTATCGATTAATGAAAATGGGTAGTTTCAACCATC
17522397 GAATATGAAAAG
63 GAATATGAAAAG
17522409 AGACAGTTAC
Statistics
Matches: 134, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
85 2 0.01
86 55 0.41
87 53 0.40
88 24 0.18
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (88 bp):
ATCAAATATGAAAAGGGATAGCTTCGACTATCGATTAATGAAAATGGGTAGTTTCAACCATCGAA
TATGAAAAGGGATGGTGACGACC
Found at i:17522378 original size:30 final size:29
Alignment explanation
Indices: 17522191--17522408 Score: 119
Period size: 29 Copynumber: 7.5 Consensus size: 29
17522181 ATCTTTGGCT
* *
17522191 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGATGAAC
* ** * *
17522220 ATCAACAATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGATGAAC
* * * *
17522249 ATCAAATATGAAAAGGGATAGCT--TCG-GC
1 ATCGATTATGAAAAGGGAT-GGTGAT-GAAC
* * *
17522277 TATCGATTATGAAAAGGG-TAGT-TTCG-GC
1 -ATCGATTATGAAAAGGGATGGTGAT-GAAC
*
17522305 TATCGATTATGAAAAGGGATGGTGATGACC
1 -ATCGATTATGAAAAGGGATGGTGATGAAC
* *
17522335 ATCAACTATGAAAAGGGATGGTGATGAAC
1 ATCGATTATGAAAAGGGATGGTGATGAAC
* * *
17522364 TTCGATTAATGAAAATGGG-TGGT-TTCAACC
1 ATCGATT-ATGAAAA-GGGATGGTGATGAA-C
*
17522394 ATCGAATATGAAAAG
1 ATCGATTATGAAAAG
17522409 AGACAGTTAC
Statistics
Matches: 154, Mismatches: 25, Indels: 21
0.77 0.12 0.10
Matches are distributed among these distances:
27 1 0.01
28 26 0.17
29 103 0.67
30 21 0.14
31 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATGGTGATGAAC
Found at i:17524315 original size:20 final size:20
Alignment explanation
Indices: 17524290--17524329 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17524280 GTTATAAAGG
17524290 TTAGTTGATTAAGCTTAGCA
1 TTAGTTGATTAAGCTTAGCA
17524310 TTAGTTGATTAAGCTTAGCA
1 TTAGTTGATTAAGCTTAGCA
17524330 AATGTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (20 bp):
TTAGTTGATTAAGCTTAGCA
Found at i:17526335 original size:28 final size:28
Alignment explanation
Indices: 17526303--17526401 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
17526293 GCCATAAGCC
*
17526303 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
17526331 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
17526359 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
17526388 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17526402 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:17529459 original size:14 final size:14
Alignment explanation
Indices: 17529440--17529466 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17529430 GTAGGCCTAA
17529440 GTCAAGATAGGCAG
1 GTCAAGATAGGCAG
17529454 GTCAAGATAGGCA
1 GTCAAGATAGGCA
17529467 AGCCGCGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.33, T:0.15
Consensus pattern (14 bp):
GTCAAGATAGGCAG
Found at i:17530796 original size:199 final size:199
Alignment explanation
Indices: 17530447--17530857 Score: 804
Period size: 199 Copynumber: 2.1 Consensus size: 199
17530437 GAGTTGAAGC
*
17530447 TTTAGTTGCAAGAGTTGTTGGACTGAGGTTTCATTCGACCGAGTATGTCATCATCAGGAGTGCCA
1 TTTACTTG-AAGAGTTGTTGGACTGAGGTTTCATTCGACCGAGTATGTCATCATCAGGAGTGCCA
17530512 GTTCTATTTGTAAAGAAAAAGATGGGACTTTGAGGTTGTACATTGATTATCGCCAGCTGAATAAG
65 GTTCTATTTGTAAAGAAAAAGATGGGACTTTGAGGTTGTACATTGATTATCGCCAGCTGAATAAG
17530577 TTGACCATCAAAAATAAGTATCCACTTCCAAGGGCCTATGATCTATTTGACCAGTTTTGAGGAGC
130 TTGACCATCAAAAATAAGTATCCACTTCCAAGGGCCTATGATCTATTTGACCAGTTTTGAGGAGC
17530642 TTCAG
195 TTCAG
17530647 TTTACTTGAAGAGTTGTTGGACTGAGGTTTCATTCGACCGAGTATGTCATCATCAGGAGTGCCAG
1 TTTACTTGAAGAGTTGTTGGACTGAGGTTTCATTCGACCGAGTATGTCATCATCAGGAGTGCCAG
17530712 TTCTATTTGTAAAGAAAAAGATGGGACTTTGAGGTTGTACATTGATTATCGCCAGCTGAATAAGT
66 TTCTATTTGTAAAGAAAAAGATGGGACTTTGAGGTTGTACATTGATTATCGCCAGCTGAATAAGT
17530777 TGACCATCAAAAATAAGTATCCACTTCCAAGGGCCTATGATCTATTTGACCAGTTTTGAGGAGCT
131 TGACCATCAAAAATAAGTATCCACTTCCAAGGGCCTATGATCTATTTGACCAGTTTTGAGGAGCT
17530842 TCAG
196 TCAG
17530846 TTTACTTGAAGA
1 TTTACTTGAAGA
17530858 TTTATTTGAG
Statistics
Matches: 210, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
199 203 0.97
200 7 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (199 bp):
TTTACTTGAAGAGTTGTTGGACTGAGGTTTCATTCGACCGAGTATGTCATCATCAGGAGTGCCAG
TTCTATTTGTAAAGAAAAAGATGGGACTTTGAGGTTGTACATTGATTATCGCCAGCTGAATAAGT
TGACCATCAAAAATAAGTATCCACTTCCAAGGGCCTATGATCTATTTGACCAGTTTTGAGGAGCT
TCAG
Found at i:17531202 original size:5 final size:5
Alignment explanation
Indices: 17531194--17531220 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17531184 CAAAAATAAA
17531194 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
17531221 GATTTGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:17536055 original size:16 final size:16
Alignment explanation
Indices: 17536034--17536064 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17536024 ATAAATTTGA
17536034 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
17536050 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
17536065 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:17543230 original size:55 final size:54
Alignment explanation
Indices: 17543143--17543396 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 54
17543133 ATTAGGGTTT
*
17543143 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
17543198 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
17543253 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
17543306 AAGGATACCATGTAAGACCATGTCAA-ACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
17543354 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
17543397 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
48 24 0.14
49 15 0.09
51 2 0.01
52 17 0.10
53 32 0.19
54 8 0.05
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:17543612 original size:16 final size:16
Alignment explanation
Indices: 17543591--17543621 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17543581 ATAAATTTGA
17543591 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
17543607 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
17543622 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:17549218 original size:30 final size:30
Alignment explanation
Indices: 17549182--17549263 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
17549172 AATTTCAGGC
* * *
17549182 CTAGGGGTAAAATGGTCATTTTGTTGAAGT
1 CTAGGGGCAAATTGGTCATTTTGTTAAAGT
17549212 CTAGGGGCAAATTGGTCATTTTGTTAAAGT
1 CTAGGGGCAAATTGGTCATTTTGTTAAAGT
*
17549242 CTAGGGGCAAATTGATCATTTT
1 CTAGGGGCAAATTGGTCATTTT
17549264 TCCCAATTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37
Consensus pattern (30 bp):
CTAGGGGCAAATTGGTCATTTTGTTAAAGT
Found at i:17549655 original size:46 final size:45
Alignment explanation
Indices: 17549590--17549964 Score: 176
Period size: 50 Copynumber: 7.9 Consensus size: 45
17549580 TTTGGGTCAC
* * *
17549590 TTATGTGAGCTAGTGTAAGACATGTCTGTGACATGCATCGGCCACA
1 TTATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACA
*
17549636 TTATGAGAGCCAGTATAAGATCATGTCTGGGACATGGCATCG--ACA
1 TTATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACA
* *
17549681 TTGA-GACGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA
1 TT-ATGA-GA--GCCAGTGTAAGACATGTCTGGGACATGCATC-GCCAC-A
* * * *
17549731 -GACGTA-AGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTAC-
1 TTATG-AGAGCCAGTGTAAGACATGTCTGGGACATGCA-TCGCCACA
* * * * * *
17549775 -GA-GATGTGTCAATGTAAGACCATGTCTAGGACATGGCATCGGCACGGA
1 TTATGA-GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCAC--A
* * **
17549823 -TATGCGAGAGCTAGTGCAAGACCATGTCTGGGACATGGCATCGGTACGGA
1 TTAT--GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCAC--A
* *
17549873 -TATGCGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
1 TTAT--GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCAC-A
* * * *
17549923 TGATGATAACCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 TTATGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
17549965 GCATCTTACC
Statistics
Matches: 268, Mismatches: 36, Indels: 48
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 12 0.04
45 24 0.09
46 59 0.22
47 30 0.11
48 19 0.07
49 35 0.13
50 81 0.30
51 6 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
TTATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCACA
Found at i:17549847 original size:50 final size:50
Alignment explanation
Indices: 17549787--17549967 Score: 251
Period size: 50 Copynumber: 3.6 Consensus size: 50
17549777 GATGTGTCAA
17549787 TGTAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAG
* * *
17549837 TGCAAGACCATGTCTGGGACATGGCATCGGTACGGATATGCGAGAGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAG
* * * * *
17549887 TGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATGAT--GATAACCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCAC-GGAT-ATGCGAGAGCTAG
17549936 TGTAAGACCATGTCTAGGACATGGCATCGGCA
1 TGTAAGACCATGTCTAGGACATGGCATCGGCA
17549968 TCTTACCCCA
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
49 37 0.31
50 79 0.67
51 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (50 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAG
Found at i:17549901 original size:100 final size:99
Alignment explanation
Indices: 17549596--17549965 Score: 274
Period size: 94 Copynumber: 3.9 Consensus size: 99
17549586 TCACTTATGT
* * * ** *
17549596 GAGCTAGTGTAAGA-CATGTCT-GTGACAT-GCATCGGCCAC-ATTATGAGAGCCAGTATAAGAT
1 GAGCTAGTGTAAGACCATGTCTAG-GACATGGCATCGGCCTCGATGATGAGAACCAGTGCAAGAC
* ** ** *
17549657 CATGTCTGGGACATGGCATCGACATTGAGA--CGA
65 CATGTCTAGGACATGGCATCGGTACGGATATGCGA
* * * * * *
17549690 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGA-GACGTA-AGCCAGTGTAAGA-
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGATG-AGAACCAGTGCAAGAC
* * * *
17549750 CATGTCTGGGACAT-GCATTGGCTAC-GAGAT--GT
65 CATGTCTAGGACATGGCATCGG-TACGGATATGCGA
* * * * *
17549782 G-TC-AATGTAAGACCATGTCTAGGACATGGCATCGGCAC-GGAT-ATGCGAGAGCTAGTGCAAG
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTCGATGAT--GAGAACCAGTGCAAG
*
17549843 ACCATGTCTGGGACATGGCATCGGTACGGATATGCGA
63 ACCATGTCTAGGACATGGCATCGGTACGGATATGCGA
* * *
17549880 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAACCAGTGTAAGACC
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGATGAGAACCAGTGCAAGACC
17549945 ATGTCTAGGACATGGCATCGG
66 ATGTCTAGGACATGGCATCGG
17549966 CATCTTACCC
Statistics
Matches: 224, Mismatches: 31, Indels: 37
0.77 0.11 0.13
Matches are distributed among these distances:
90 8 0.04
91 14 0.06
92 21 0.09
93 17 0.08
94 60 0.27
95 20 0.09
96 10 0.04
98 2 0.01
99 36 0.16
100 34 0.15
101 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (99 bp):
GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGATGAGAACCAGTGCAAGACC
ATGTCTAGGACATGGCATCGGTACGGATATGCGA
Found at i:17557424 original size:40 final size:40
Alignment explanation
Indices: 17557364--17557588 Score: 303
Period size: 40 Copynumber: 5.7 Consensus size: 40
17557354 CTAACGGGGT
* * * * *
17557364 TAAGTCCCGAAGACAATTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
17557404 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
17557444 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
17557484 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
17557524 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
** * *
17557564 TAACACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
17557589 GGTTATATCC
Statistics
Matches: 171, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 11 0.06
40 160 0.94
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:17565747 original size:79 final size:79
Alignment explanation
Indices: 17565609--17565810 Score: 291
Period size: 79 Copynumber: 2.5 Consensus size: 79
17565599 CTAACGGGGT
* * * *
17565609 TAAGTCTCGAAGACAATTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTC-CGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
17565674 TTACTA-ATTCCGGGC
65 TTACTATA-TCCGGGC
*
17565689 TAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
1 TAAGTCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
17565754 TACTATATCCGGGC
66 TACTATATCCGGGC
* *
17565768 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGCTAA
1 TAAGT-CCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAA
17565811 CACCCAACGG
Statistics
Matches: 111, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
79 73 0.66
80 38 0.34
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
TAAGTCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
TACTATATCCGGGC
Found at i:17565810 original size:40 final size:40
Alignment explanation
Indices: 17565609--17565789 Score: 285
Period size: 40 Copynumber: 4.5 Consensus size: 40
17565599 CTAACGGGGT
* * * * * *
17565609 TAAGTCTCGAAGACAATTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
17565649 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
17565689 TAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
17565728 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
17565768 TAAGTCCCGAAGGCATTTGTGC
1 TAAGTCCCGAAGGCATTTGTGC
17565790 TAGTGACCAT
Statistics
Matches: 133, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 41 0.31
40 92 0.69
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:17565827 original size:79 final size:80
Alignment explanation
Indices: 17565609--17565857 Score: 258
Period size: 79 Copynumber: 3.1 Consensus size: 80
17565599 CTAACGGGGT
* * * * ** ** *
17565609 TAAGTCTCGAAGACAATTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACCAATTCCGGGCTAACACCCGAAGGCACTTGTGCGAG
17565674 TTACTA-ATTCCGGGC
66 TTACTATA-TCCGGGC
* * ** *
17565689 TAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACCAATTCCGGGCTAACACCCGAAGGCACTTGTGCGAG
17565753 TTACTATATCCGGGC
66 TTACTATATCCGGGC
*
17565768 TAAGTCCCGAAGGCATTTGTGCTAGTGACC-ATATCCGGGCTAACACCC-AACGGC-CTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACCAAT-TCCGGGCTAACACCCGAA-GGCACTTGTGCG
***
17565830 AGTGGTTATATCC-GGC
64 AGTTACTATATCCGGGC
*
17565846 TAAATCCCGAAG
1 TAAGTCCCGAAG
17565858 ATAATGGGTT
Statistics
Matches: 149, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
78 14 0.09
79 92 0.62
80 43 0.29
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACCAATTCCGGGCTAACACCCGAAGGCACTTGTGCGAG
TTACTATATCCGGGC
Found at i:17569429 original size:95 final size:94
Alignment explanation
Indices: 17569294--17569482 Score: 265
Period size: 95 Copynumber: 2.0 Consensus size: 94
17569284 GGGAAATCTT
* * * *
17569294 ACACATATCGATGCTGATGCCATATCCCAGATATGTTCTTACAC-AGGCTTTCATATATCGAGGC
1 ACACATATCGAAGCCGATGCCATATCCCAGACATGGTCTTACACTA-GCTTTCATATATCGAGGC
17569358 CGATGCCATGTCCCAGACATGGTCTTACACTG
65 CGATG-CATGTCCCAGACAT-GTCTTACACTG
* * *
17569390 ACACATATC-AAGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCC
1 ACACATATCGAAGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTTTCATATATCGAGGCC
*
17569454 GATGCGTGTCCCAGACATGTCTTACACTG
66 GATGCATGTCCCAGACATGTCTTACACTG
17569483 GCTTATATAA
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
93 11 0.13
94 13 0.15
95 50 0.60
96 10 0.12
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (94 bp):
ACACATATCGAAGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTTTCATATATCGAGGCC
GATGCATGTCCCAGACATGTCTTACACTG
Found at i:17571120 original size:20 final size:23
Alignment explanation
Indices: 17571076--17571123 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
17571066 AAAAGCGAAC
17571076 TAAATAAAAAAGCTATATTAGTAT
1 TAAATAAAAAA-CTATATTAGTAT
17571100 TAAATAAAAAA-TA-ATTA-TAT
1 TAAATAAAAAACTATATTAGTAT
17571120 TAAA
1 TAAA
17571124 ATTAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.29
21 4 0.17
22 2 0.08
24 11 0.46
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (23 bp):
TAAATAAAAAACTATATTAGTAT
Found at i:17571249 original size:21 final size:22
Alignment explanation
Indices: 17571225--17571271 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
17571215 TTTTGATATC
*
17571225 AAACTAATTGAAATGCTAA-CA
1 AAACTAATTGAAATGCGAACCA
17571246 AAACTAATTGAAATGCGAACCA
1 AAACTAATTGAAATGCGAACCA
17571268 AAAC
1 AAAC
17571272 AGCTCTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.53, C:0.17, G:0.11, T:0.19
Consensus pattern (22 bp):
AAACTAATTGAAATGCGAACCA
Found at i:17571919 original size:96 final size:97
Alignment explanation
Indices: 17571803--17572006 Score: 265
Period size: 96 Copynumber: 2.1 Consensus size: 97
17571793 GTTTTTAAAT
* * * *
17571803 TTTAGGG-TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGTGTTTA-TTAATTAAATTAATTA
1 TTTAGGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAG-GATTACTTAAGTAAATTAATTA
* *
17571866 CT-AATTTTAAAAAA-TTAGATTATGG-TTTAGTG
65 -TAAATTTAAAAAAACTTAGATTA-GGATTTAGGG
* *
17571898 TTTATGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGATTACTTAAGTAAATTAATTAT
17571963 AAATTTAAAAAAACTTAGATTAGGATTTTAGGG
66 AAATTTAAAAAAACTTAGATTAGGA-TTTAGGG
17571996 TTTAGGGTTTT
1 TTTAGGGTTTT
17572007 AGGGTATTTA
Statistics
Matches: 94, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
95 11 0.12
96 59 0.63
97 8 0.09
98 16 0.17
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.42
Consensus pattern (97 bp):
TTTAGGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGATTACTTAAGTAAATTAATTAT
AAATTTAAAAAAACTTAGATTAGGATTTAGGG
Found at i:17572006 original size:15 final size:15
Alignment explanation
Indices: 17571982--17572011 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17571972 AAAACTTAGA
17571982 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
17571997 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
17572012 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:17572318 original size:125 final size:126
Alignment explanation
Indices: 17572094--17572379 Score: 459
Period size: 125 Copynumber: 2.3 Consensus size: 126
17572084 AAAAGCTTCT
* * *
17572094 ACGTGGACGCTCTTTTGCTACAGTAGTCTTTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
17572159 ATAGTGGTAAAAACGCTTCAAGCAGGATGTATTTTCAGC-AAATTACTGGAAGAAGCTCCC
66 ATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
17572219 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
*
17572284 ATAGT-GTCAAAAACGCTTCAAGCATGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
*
17572345 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAA
17572380 TAACTTGGGC
Statistics
Matches: 148, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
124 2 0.01
125 94 0.64
126 52 0.35
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:17574742 original size:115 final size:116
Alignment explanation
Indices: 17574568--17574949 Score: 667
Period size: 116 Copynumber: 3.3 Consensus size: 116
17574558 TTTATATTTT
* * * *
17574568 ATTACATAAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
17574633 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
17574684 ATCACATGAAATAATAT-AAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
17574748 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
17574799 ATTACATGAAATAATATAAAAATATTCAAAATGTTGTCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
17574864 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
17574915 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
17574950 TGTACAAATA
Statistics
Matches: 254, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
115 108 0.43
116 146 0.57
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:17575362 original size:18 final size:18
Alignment explanation
Indices: 17575335--17575372 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17575325 AGAAAAAGAA
*
17575335 ACATATAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
17575353 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
17575371 AC
1 AC
17575373 GTACCTGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.18
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:17575467 original size:30 final size:30
Alignment explanation
Indices: 17575433--17575491 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17575423 TGTTGGGTCC
*
17575433 GGTGACTGTGTAGGT-CCTGTTGCTGGGCCG
1 GGTGACTGTGTAGGTGCC-GTTGATGGGCCG
* *
17575463 GGTGATTGTGTGGGTGCCGTTGATGGGCC
1 GGTGACTGTGTAGGTGCCGTTGATGGGCC
17575492 TGCGTCGTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.07, C:0.17, G:0.46, T:0.31
Consensus pattern (30 bp):
GGTGACTGTGTAGGTGCCGTTGATGGGCCG
Found at i:17577132 original size:15 final size:15
Alignment explanation
Indices: 17577112--17577142 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17577102 TTTTTATTTT
*
17577112 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
17577127 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
17577142 A
1 A
17577143 GCTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:17577192 original size:11 final size:11
Alignment explanation
Indices: 17577169--17577220 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
17577159 TAACTAGAGT
*
17577169 TTTGAGAGGAA
1 TTTGAGAGAAA
*
17577180 TTTAAGAGAAA
1 TTTGAGAGAAA
17577191 TTTGAGAG--A
1 TTTGAGAGAAA
17577200 TTTGAGAGAAA
1 TTTGAGAGAAA
17577211 TTTGAGAGAA
1 TTTGAGAGAA
17577221 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:17577202 original size:20 final size:20
Alignment explanation
Indices: 17577169--17577219 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
17577159 TAACTAGAGT
17577169 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGA-G-ATTTAAGAGAAA
*
17577191 TTTGAGAGATTTGAGAGAAA
1 TTTGAGAGATTTAAGAGAAA
17577211 TTTGAGAGA
1 TTTGAGAGA
17577220 ATATTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 20 0.71
21 1 0.04
22 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (20 bp):
TTTGAGAGATTTAAGAGAAA
Found at i:17577232 original size:31 final size:31
Alignment explanation
Indices: 17577169--17577232 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
17577159 TAACTAGAGT
* *
17577169 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
17577200 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
17577231 TT
1 TT
17577233 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:17578758 original size:16 final size:16
Alignment explanation
Indices: 17578739--17578792 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
17578729 TGGGTGGGAA
*
17578739 GAAAATTGGAAAGATG
1 GAAAATTAGAAAGATG
* *
17578755 GAAAA-TCGAAAGGGTG
1 GAAAATTAGAAA-GATG
17578771 GAAAATTAGAAAGATG
1 GAAAATTAGAAAGATG
17578787 GAAAAT
1 GAAAAT
17578793 ATAAATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 22 0.69
17 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.30, T:0.17
Consensus pattern (16 bp):
GAAAATTAGAAAGATG
Found at i:17582476 original size:113 final size:112
Alignment explanation
Indices: 17582275--17582503 Score: 302
Period size: 112 Copynumber: 2.0 Consensus size: 112
17582265 GTTCTAATTC
* * *
17582275 CAAAATTTATCCCCCTACTTTATGAAAATTGAGAAGTTAGCCTCTTTATTGTTTTTTTACCTAAA
1 CAAAATTGATCCCCCTACTTTATGAAAATTGAAAAGTTA-CATCTTTATTGTTTTTTTACCTAAA
17582340 TGCTCAAGTTGTTATTTCTC-TTTTTTTTGCAAAACAATGTCTAACTA
65 TGCTCAAGTTGTTATTTCTCTTTTTTTTTGCAAAACAATGTCTAACTA
* *
17582387 CAAAATTGGTCCCTCTACTTTATGAAAATTGAAAAGTTA-ATACTTATATTGTTTTTTTTTA-CT
1 CAAAATTGATCCCCCTACTTTATGAAAATTGAAAAGTTACAT-CTT-TATTG--TTTTTTTACCT
* *
17582450 AAATGCTCAAGTTGTTGTTTCTCTTTTTTTTTTTTTCAAAACAATGTCTAACTA
62 AAATGCTCAAGTTGTTATTTCTC---TTTTTTTTTGCAAAACAATGTCTAACTA
17582504 TACTTTATGA
Statistics
Matches: 102, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
110 1 0.01
111 3 0.03
112 40 0.39
113 24 0.24
114 8 0.08
117 26 0.25
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.46
Consensus pattern (112 bp):
CAAAATTGATCCCCCTACTTTATGAAAATTGAAAAGTTACATCTTTATTGTTTTTTTACCTAAAT
GCTCAAGTTGTTATTTCTCTTTTTTTTTGCAAAACAATGTCTAACTA
Found at i:17582584 original size:101 final size:100
Alignment explanation
Indices: 17582402--17582599 Score: 326
Period size: 102 Copynumber: 2.0 Consensus size: 100
17582392 TTGGTCCCTC
* *
17582402 TACTTTATGAAAATTGAAAAGTTAATACTTATATTGTTTTTTTTTACTAAATGCTCAAGTTGTTG
1 TACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTTTACTAAATGCTCAAGTTGTTA
* *
17582467 TTTCTCTTTTTTTTTTTTTCAAAACAATGTCTAACTA
66 TTTCTC--TTCTTCTTTTTCAAAACAATGTCTAACTA
*
17582504 TACTTTATGAAAATTGAAAAGTTAGTACCTATATTG-TTTTTTTTACTAAATGCTCAAGTTGTTA
1 TACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTTTACTAAATGCTCAAGTTGTTA
17582568 TTTCTCTTCTTCTTTTTCAAAACAATGTCTAA
66 TTTCTCTTCTTCTTTTTCAAAACAATGTCTAA
17582600 GTACATAATC
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
99 24 0.26
101 33 0.36
102 34 0.37
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (100 bp):
TACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTTTACTAAATGCTCAAGTTGTTA
TTTCTCTTCTTCTTTTTCAAAACAATGTCTAACTA
Found at i:17583542 original size:2 final size:2
Alignment explanation
Indices: 17583535--17583575 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
17583525 ATCTTAAGGA
17583535 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17583576 ATAGTTCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17583975 original size:2 final size:2
Alignment explanation
Indices: 17583931--17583965 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17583921 ATTGATTATT
17583931 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17583966 TAAAATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17592334 original size:33 final size:33
Alignment explanation
Indices: 17592292--17592358 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
17592282 ACAACAAGGT
17592292 AAGTTTGATCATATGAATATGTGATACTATTTC
1 AAGTTTGATCATATGAATATGTGATACTATTTC
17592325 AAGTTTGATCATATGAATATGTGATACTATTTC
1 AAGTTTGATCATATGAATATGTGATACTATTTC
17592358 A
1 A
17592359 TACATATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (33 bp):
AAGTTTGATCATATGAATATGTGATACTATTTC
Found at i:17593407 original size:28 final size:27
Alignment explanation
Indices: 17593351--17593409 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
17593341 ATAAAAAAAT
* *
17593351 TAAAATAAATAATCAAGATATATAGAA
1 TAAAATAAAAAATCAAGATATATACAA
*
17593378 TAAAATAATAAAATCAAAGAT-TGTACAA
1 TAAAATAA-AAAATC-AAGATATATACAA
17593406 TAAA
1 TAAA
17593410 GAATATAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 14 0.52
29 5 0.19
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (27 bp):
TAAAATAAAAAATCAAGATATATACAA
Found at i:17593808 original size:17 final size:17
Alignment explanation
Indices: 17593779--17593811 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17593769 TTGCTGACAT
17593779 AAACTCTTAAATAATTG
1 AAACTCTTAAATAATTG
17593796 AAACTACTT-AATAATT
1 AAACT-CTTAAATAATT
17593812 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (17 bp):
AAACTCTTAAATAATTG
Found at i:17594526 original size:31 final size:31
Alignment explanation
Indices: 17594485--17594546 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
17594475 CTGAAGTGTT
* *
17594485 TGAATGGAATTCAAACTGAGTAGTTAGGGGA
1 TGAATAGAATTCAAACTGAGTAGTTAAGGGA
*
17594516 TGAATAGAATTCGAACTGAGTAGTTAAGGGA
1 TGAATAGAATTCAAACTGAGTAGTTAAGGGA
17594547 GGTATGATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.26
Consensus pattern (31 bp):
TGAATAGAATTCAAACTGAGTAGTTAAGGGA
Found at i:17596046 original size:27 final size:27
Alignment explanation
Indices: 17595988--17596144 Score: 194
Period size: 27 Copynumber: 5.9 Consensus size: 27
17595978 CCCAATATGA
*
17595988 TAAAATGACTGTTTTG-CATT-TGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
17596013 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
17596040 TAAAATGATTGTTTTGCCCTT-TGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
17596066 TAAAATGTCTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
17596093 TAAAATGACTATTTTGCCCTTATATGC
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * * *
17596120 TAAGATGATTGTTTGGCCCCTATGT
1 TAAAATGACTGTTTTGCCCTTATGT
17596145 AAGGTATATT
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
25 16 0.14
26 27 0.24
27 70 0.62
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:17596078 original size:53 final size:53
Alignment explanation
Indices: 17595988--17596113 Score: 200
Period size: 53 Copynumber: 2.4 Consensus size: 53
17595978 CCCAATATGA
* *
17595988 TAAAATGACTGTTTTG-CATTTGTGGTAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTTGTGGTAAAATGACTGTTTTGCCCTTATGAGG
* *
17596040 TAAAATGATTGTTTTGCCCTTTGTGGTAAAATGTCTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTTGTGGTAAAATGACTGTTTTGCCCTTATGAGG
*
17596093 TAAAATGACTATTTTGCCCTT
1 TAAAATGACTGTTTTGCCCTT
17596114 ATATGCTAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
52 15 0.22
53 52 0.78
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (53 bp):
TAAAATGACTGTTTTGCCCTTTGTGGTAAAATGACTGTTTTGCCCTTATGAGG
Found at i:17596108 original size:80 final size:78
Alignment explanation
Indices: 17595988--17596138 Score: 212
Period size: 80 Copynumber: 1.9 Consensus size: 78
17595978 CCCAATATGA
* * * *
17595988 TAAAATGACTGTTTTGCATTTGTGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGATTGTT
1 TAAAATGACTGTTTTGCATTTGAGGTAAAATGACTATTTTGCCCTTATATGCTAAAATGATTGTT
*
17596053 TTGCCCTTTGTGG
66 TGGCCCTTTGTGG
* * *
17596066 TAAAATGTCTGTTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATATGCTAAGATGATTG
1 TAAAATGACTGTTTTG-CATT-TGAGGTAAAATGACTATTTTGCCCTTATATGCTAAAATGATTG
17596131 TTTGGCCC
64 TTTGGCCC
17596139 CTATGTAAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 15 0.24
79 3 0.05
80 45 0.71
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (78 bp):
TAAAATGACTGTTTTGCATTTGAGGTAAAATGACTATTTTGCCCTTATATGCTAAAATGATTGTT
TGGCCCTTTGTGG
Found at i:17598686 original size:40 final size:40
Alignment explanation
Indices: 17598603--17598822 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
17598593 ACCCAAGTAT
** * *
17598603 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17598641 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17598681 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
17598721 CTTCGGGTCTTAGCCCAGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * * *
17598761 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
17598801 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
17598823 CATTCGAATA
Statistics
Matches: 154, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 123 0.80
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:17606473 original size:40 final size:40
Alignment explanation
Indices: 17606390--17606609 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
17606380 ACCCAAGTAT
** * *
17606390 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17606428 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17606468 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
17606508 CTTCGGGTCTTAGCCCAGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * * *
17606548 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
17606588 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
17606610 CATTCGAATA
Statistics
Matches: 154, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 123 0.80
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:17618423 original size:48 final size:48
Alignment explanation
Indices: 17618365--17618550 Score: 205
Period size: 48 Copynumber: 3.9 Consensus size: 48
17618355 ATTGGGTTGA
* *
17618365 TGAGATCCCATATAAGACCATATCTGGGATATGGCATTGGCATCAATG
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCAATG
* * * ** *
17618413 TGAGATCCCATGTAAGACCATGTCTGGCACATGGCTTTGGCATCGTTA
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCAATG
* * * *
17618461 AGTGATCCCATGTAAGACCATGTCAGGGACATGGCATTGGCATCGATATG
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC-A-ATG
* * *
17618511 TG-G-TCCCTTGTAAGACCATATCCGGGATATGGCATTGGCA
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
17618551 CCCTACCATG
Statistics
Matches: 115, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
48 112 0.97
49 1 0.01
50 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCAATG
Found at i:17618543 original size:96 final size:96
Alignment explanation
Indices: 17618368--17618550 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 96
17618358 GGGTTGATGA
* *
17618368 GATCCCATATAAGACCATATCTGGGATATGGCATTGGCATCAATGTGAGATCCCATGTAAGACCA
1 GATCCCATATAAGACCATATCAGGGACATGGCATTGGCATCAATGTGAGATCCCATGTAAGACCA
* * *
17618433 TGTCTGGCACATGGCTTTGGCATCGTTAAGT
66 TATCCGGCACATGGCATTGGCATCGTTAAGT
* * *
17618464 GATCCCATGTAAGACCATGTCAGGGACATGGCATTGGCATCGATATGTG-G-TCCCTTGTAAGAC
1 GATCCCATATAAGACCATATCAGGGACATGGCATTGGCATC-A-ATGTGAGATCCCATGTAAGAC
* *
17618527 CATATCCGGGATATGGCATTGGCA
64 CATATCCGGCACATGGCATTGGCA
17618551 CCCTACCATG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
96 68 0.91
97 2 0.03
98 5 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (96 bp):
GATCCCATATAAGACCATATCAGGGACATGGCATTGGCATCAATGTGAGATCCCATGTAAGACCA
TATCCGGCACATGGCATTGGCATCGTTAAGT
Found at i:17619729 original size:20 final size:20
Alignment explanation
Indices: 17619704--17619770 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
17619694 CGGGCTAGGG
17619704 ACACGGGTGTGTCCCAAGCC
1 ACACGGGTGTGTCCCAAGCC
17619724 ACACGGGTGTGTCCCAAGCC
1 ACACGGGTGTGTCCCAAGCC
*
17619744 ACACGGGTGTGTCCCAAGCT
1 ACACGGGTGTGTCCCAAGCC
17619764 ACACGGG
1 ACACGGG
17619771 CGTCTGTGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (20 bp):
ACACGGGTGTGTCCCAAGCC
Found at i:17635648 original size:19 final size:20
Alignment explanation
Indices: 17635605--17635650 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
17635595 GTGTCATGCT
*
17635605 CGTGTGAGGGTGCTCAGGCC
1 CGTGTGAGGGTGCTCAAGCC
17635625 CGTGTGAGGGTGCTCAAG-C
1 CGTGTGAGGGTGCTCAAGCC
17635644 CGTGTGA
1 CGTGTGA
17635651 AATTCTGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.13, C:0.22, G:0.43, T:0.22
Consensus pattern (20 bp):
CGTGTGAGGGTGCTCAAGCC
Found at i:17637564 original size:23 final size:21
Alignment explanation
Indices: 17637531--17637577 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
17637521 ATAAGTCTTC
17637531 AAAAATAAATA-AAATAAAAAT
1 AAAAATAAATAGAAAT-AAAAT
*
17637552 AAAAATAGTAATAGCAATAAAAT
1 AAAAATA--AATAGAAATAAAAT
17637575 AAA
1 AAA
17637578 TGGACTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
23 12 0.55
24 3 0.14
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAATAAATAGAAATAAAAT
Found at i:17645836 original size:48 final size:46
Alignment explanation
Indices: 17645774--17645911 Score: 168
Period size: 48 Copynumber: 2.9 Consensus size: 46
17645764 TGGGTTGATG
* * * *
17645774 AGATCCCTTTTAAGACCATCTCTGGGATATGGCATTGGCATCAATATA
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-AT-TA
* * * *
17645822 AGATCCCATGTAAGACCATGTTTGGGACACGACTTTGGCATCATTA
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTA
17645868 ATTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
1 A--GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
17645912 GATCTGAGAC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
46 3 0.04
47 2 0.03
48 71 0.93
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (46 bp):
AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTA
Found at i:17652251 original size:29 final size:29
Alignment explanation
Indices: 17652218--17652291 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
17652208 CCTTCGAGCT
17652218 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
17652247 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
17652276 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
17652292 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:17652252 original size:58 final size:58
Alignment explanation
Indices: 17652159--17652291 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
17652149 ATACTCGATT
* * * * *
17652159 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
17652217 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
17652275 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
17652292 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:17660082 original size:29 final size:29
Alignment explanation
Indices: 17660049--17660122 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
17660039 CCTTCGAGCT
17660049 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
17660078 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
17660107 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
17660123 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:17660083 original size:58 final size:58
Alignment explanation
Indices: 17659990--17660122 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
17659980 ATACTCGATT
* * * * *
17659990 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
17660048 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
17660106 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
17660123 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:17663643 original size:9 final size:9
Alignment explanation
Indices: 17663629--17663665 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
17663619 ATATGAATTA
17663629 AATTGAATG
1 AATTGAATG
17663638 AATTGAATG
1 AATTGAATG
17663647 AATTGAATG
1 AATTGAATG
17663656 AATTGAATG
1 AATTGAATG
17663665 A
1 A
17663666 TTAAATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (9 bp):
AATTGAATG
Found at i:17663644 original size:5 final size:5
Alignment explanation
Indices: 17663622--17663663 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
17663612 TATGTGTATA
*
17663622 TGAAT TAAAT TGAA- TGAAT TGAA- TGAAT TGAA- TGAAT TGAAT
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
17663664 GATTAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 12 0.38
5 20 0.62
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (5 bp):
TGAAT
Found at i:17678236 original size:17 final size:17
Alignment explanation
Indices: 17678192--17678228 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
17678182 CGCTCTAGAG
17678192 TTAGATATGAGCAAAGC
1 TTAGATATGAGCAAAGC
17678209 TTAGATATGAGCAAAGC
1 TTAGATATGAGCAAAGC
17678226 TTA
1 TTA
17678229 TGATTGAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (17 bp):
TTAGATATGAGCAAAGC
Found at i:17680468 original size:16 final size:16
Alignment explanation
Indices: 17680447--17680481 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
17680437 ATATATCATG
17680447 TGTGACTTGTATGGAT
1 TGTGACTTGTATGGAT
17680463 TGTGACTTGTATGGAT
1 TGTGACTTGTATGGAT
17680479 TGT
1 TGT
17680482 AACACCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.06, G:0.31, T:0.46
Consensus pattern (16 bp):
TGTGACTTGTATGGAT
Found at i:17682088 original size:8 final size:8
Alignment explanation
Indices: 17682075--17682114 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
17682065 TACAATACAA
*
17682075 ATTCAACC
1 ATTCAATC
17682083 ATTCAATC
1 ATTCAATC
17682091 ATTCAATC
1 ATTCAATC
*
17682099 ATTCATTTC
1 ATTCA-ATC
17682108 ATTCAAT
1 ATTCAAT
17682115 TTAATCCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (8 bp):
ATTCAATC
Found at i:17705800 original size:48 final size:47
Alignment explanation
Indices: 17705721--17706099 Score: 305
Period size: 48 Copynumber: 7.9 Consensus size: 47
17705711 TATTTGGGTG
* * * *
17705721 ATATGTGTGCTAGTGTAAGACTATGTTTGGGACATGGCATCAGCCAC
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * *
17705768 ATTATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCAC
1 A-TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * *
17705816 ATTATGAGAGCCAGTGTAAGACCATGTCTTGGACATGGAATC-GACATTG
1 A-TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA--C
* * * * * *
17705865 AGACGAGAGATAGTGTAAGACCATGTCTGGGGCATGGCATTGGCCTTGAC
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC---AC
* * * *
17705915 ACA--TGAGCTAATGTAAGACCATGTTTGGGACATGGCATCGGCCTC
1 ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * *
17705960 GACATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC
1 -ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * * * *
17706008 GACATGTAAGCCAATGTAAGACCATGTTTGGGACATGACATCGTCCTC
1 -ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * **
17706056 GATATGTGAGCCAGTGTAAAACCATGTCTAAGACATGGCATCGG
1 -ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
17706100 TAATTTACCC
Statistics
Matches: 275, Mismatches: 47, Indels: 19
0.81 0.14 0.06
Matches are distributed among these distances:
45 1 0.00
46 3 0.01
47 4 0.01
48 261 0.95
49 3 0.01
50 2 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (47 bp):
ATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:17706050 original size:96 final size:96
Alignment explanation
Indices: 17705734--17706099 Score: 364
Period size: 96 Copynumber: 3.8 Consensus size: 96
17705724 TGTGTGCTAG
* * * * *
17705734 TGTAAGACTATGTTTGGGACATGGCATCAGCCAC-ATTATGTGTGCTAGTGTAAGACCATGTCTG
1 TGTAAGACCATGTTTGGGACATGACATCGGCCTCGA-TATGTGAGCTAGTGTAAGACCATGTCTG
* * * * *
17705798 GGACATGGCGTTGGCCAC-ATTATG-AGAGCCAG
65 GGACATGGCATCGGCCTCGA-CATGTA-AGCCAA
* * * * * * *
17705830 TGTAAGACCATGTCTT-GGACATGGA-ATCGACATTGAGACGAGAGATAGTGTAAGACCATGTCT
1 TGTAAGACCATGT-TTGGGACAT-GACATCGGCCTCGATATGTGAGCTAGTGTAAGACCATGTCT
* * * ** * *
17705893 GGGGCATGGCATTGGCCTTGACACATGAGCTAA
64 GGGACATGGCATCGGCCTCGACATGTAAGCCAA
* * *
17705926 TGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGGACATGACATCGGCCTCGATATGTGAGCTAGTGTAAGACCATGTCTGG
17705991 GACATGGCATCGGCCTCGACATGTAAGCCAA
66 GACATGGCATCGGCCTCGACATGTAAGCCAA
* * * **
17706022 TGTAAGACCATGTTTGGGACATGACATCGTCCTCGATATGTGAGCCAGTGTAAAACCATGTCTAA
1 TGTAAGACCATGTTTGGGACATGACATCGGCCTCGATATGTGAGCTAGTGTAAGACCATGTCTGG
17706087 GACATGGCATCGG
66 GACATGGCATCGG
17706100 TAATTTACCC
Statistics
Matches: 217, Mismatches: 46, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
95 3 0.01
96 209 0.96
97 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (96 bp):
TGTAAGACCATGTTTGGGACATGACATCGGCCTCGATATGTGAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGGCCTCGACATGTAAGCCAA
Found at i:17708577 original size:25 final size:28
Alignment explanation
Indices: 17708526--17708577 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
17708516 CAAAACCAAA
* *
17708526 AATATTTTCTTTACTTTTAATGGGAAAT
1 AATATTTTCTCTACTTTTAATGAGAAAT
17708554 AATATTTTCTCT-C-TTTAAT-AGAAA
1 AATATTTTCTCTACTTTTAATGAGAAA
17708578 CCGACAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 4 0.18
26 6 0.27
27 1 0.05
28 11 0.50
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.48
Consensus pattern (28 bp):
AATATTTTCTCTACTTTTAATGAGAAAT
Found at i:17713410 original size:15 final size:12
Alignment explanation
Indices: 17713372--17713413 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 12
17713362 GTTAATTTAA
17713372 TTTAAAATTATT
1 TTTAAAATTATT
17713384 TTTAAAATTATT
1 TTTAAAATTATT
17713396 TTTATAGATATTATT
1 TTTA-A-A-ATTATT
17713411 TTT
1 TTT
17713414 GTTAAGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.59
13 1 0.04
14 1 0.04
15 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TTTAAAATTATT
Found at i:17721321 original size:70 final size:70
Alignment explanation
Indices: 17721181--17721319 Score: 217
Period size: 70 Copynumber: 2.0 Consensus size: 70
17721171 ATTAATTTAG
17721181 TTTAGGTATTATTAAAAAAAATTAAATAAGTTCAAACGGGAATAAAGTTAAACATTTATTATTTA
1 TTTAGGTATTATTAAAAAAAATTAAATAAGTTCAAACGGGAATAAAGTTAAACATTTATTATTTA
17721246 AAAAA
66 AAAAA
* * * * * *
17721251 TTTATGTATTATTAAAAAGAATTAAATAAGTTTAAACTGTAATAGAGTT-AACATTTATTATTTA
1 TTTAGGTATTATTAAAAAAAATTAAATAAGTTCAAACGGGAATAAAGTTAAACATTTATTATTTA
17721315 AAAAA
66 AAAAA
17721320 ATCATTTATT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 20 0.32
70 43 0.68
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (70 bp):
TTTAGGTATTATTAAAAAAAATTAAATAAGTTCAAACGGGAATAAAGTTAAACATTTATTATTTA
AAAAA
Found at i:17721342 original size:69 final size:70
Alignment explanation
Indices: 17721186--17721344 Score: 212
Period size: 69 Copynumber: 2.3 Consensus size: 70
17721176 TTTAGTTTAG
*
17721186 GTATTATTAAAAAAAATTAAATAAGTTCAAACGGGAATAAAGTTAAACATTTATTATTTAAAAAA
1 GTATTATTAAAAAGAATTAAATAAGTTCAAACGGGAATAAAGTTAAACATTTATTATTTAAAAAA
* *
17721251 TTTAT
66 ATCAT
* * * *
17721256 GTATTATTAAAAAGAATTAAATAAGTTTAAACTGTAATAGAGTT-AACATTTATTATTTAAAAAA
1 GTATTATTAAAAAGAATTAAATAAGTTCAAACGGGAATAAAGTTAAACATTTATTATTTAAAAAA
17721320 ATCAT
66 ATCAT
* * * *
17721325 TTATTGTTTAATAGAATTAA
1 GTATTATTAAAAAGAATTAA
17721345 TATTTTTAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
69 39 0.50
70 39 0.50
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (70 bp):
GTATTATTAAAAAGAATTAAATAAGTTCAAACGGGAATAAAGTTAAACATTTATTATTTAAAAAA
ATCAT
Found at i:17721771 original size:22 final size:20
Alignment explanation
Indices: 17721739--17721789 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
17721729 TTTTCAAATT
*
17721739 TTAAAATTTAAGTTTATTTG
1 TTAAAATTTAAATTTATTTG
*
17721759 TTAACAATGTTAAATTTTTTTG
1 TTAA-AAT-TTAAATTTATTTG
17721781 TT-AAATTTA
1 TTAAAATTTA
17721790 TTGGTGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.11
20 7 0.26
21 4 0.15
22 13 0.48
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (20 bp):
TTAAAATTTAAATTTATTTG
Found at i:17722941 original size:12 final size:11
Alignment explanation
Indices: 17722922--17722952 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
17722912 TGTATAAAAC
17722922 TTATTTTATTA
1 TTATTTTATTA
17722933 TTAATTTTATTA
1 TT-ATTTTATTA
17722945 TTATTTTA
1 TTATTTTA
17722953 AAGACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:17722969 original size:30 final size:31
Alignment explanation
Indices: 17722933--17722993 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
17722923 TATTTTATTA
17722933 TTAATTTTATT-ATTATTTTAAAGACATTTG
1 TTAATTTTATTAATTATTTTAAAGACATTTG
* * *
17722963 TTAATTTTTTTAATTATTTTAGAGGCATTTG
1 TTAATTTTATTAATTATTTTAAAGACATTTG
17722994 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (31 bp):
TTAATTTTATTAATTATTTTAAAGACATTTG
Found at i:17723140 original size:10 final size:11
Alignment explanation
Indices: 17723114--17723147 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
17723104 TTTATATATT
17723114 TAAAAATAATA
1 TAAAAATAATA
*
17723125 TAAAAATAGTA
1 TAAAAATAATA
17723136 TAAAAATTAATA
1 TAAAAA-TAATA
17723148 CGAGTGGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:17725600 original size:27 final size:27
Alignment explanation
Indices: 17725542--17725626 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
17725532 TGTCCCGGTG
* * *
17725542 GACTATCCTGTATTTAATGTCCCAAAA
1 GACTACCCCGTATTTAATGTCCCAACA
* * *
17725569 AACTACCCCGTGTTTAATGTCCCGACA
1 GACTACCCCGTATTTAATGTCCCAACA
* * *
17725596 GACTACCACGTATTTATTGTCTCAACA
1 GACTACCCCGTATTTAATGTCCCAACA
17725623 GACT
1 GACT
17725627 CTCTCCATGT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (27 bp):
GACTACCCCGTATTTAATGTCCCAACA
Found at i:17730543 original size:40 final size:40
Alignment explanation
Indices: 17730476--17730627 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
17730466 AAATTGAATG
* * * * *
17730476 ATATCCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
17730516 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
17730556 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
17730596 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
17730628 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:17730641 original size:40 final size:40
Alignment explanation
Indices: 17730514--17730643 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
17730504 ATGCTGGAAA
* * *
17730514 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
17730554 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
17730594 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
17730634 TTATATCCGG
1 TTATATCCGG
17730644 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:17735385 original size:46 final size:46
Alignment explanation
Indices: 17735259--17735470 Score: 193
Period size: 46 Copynumber: 4.5 Consensus size: 46
17735249 TGGGCTAGTA
* * * ** * *
17735259 AAGACATGTCTGGGACATGCATCGACCAC-ATTATAAGAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGTGCTAGTGT
* *
17735305 AAGATTATGTCTGGGACATGGCATCGGCATCGAGACGAGTGCTAGTGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGTGCTAGTGT
17735353 AAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAG-GC-AGTGT
1 AAGACATGTCTGGGACATGCATCGGCCTCGAGACG--AGTGCTAGTGT
* *
17735399 AAGACATGTCTGGGACATGCATCGG-CTACGAAATGA-TAG-TCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGT-GCT-AGTGT
17735445 AAGAGCATGTCTGGGACATGGCATCG
1 AAGA-CATGTCTGGGACAT-GCATCG
17735471 ACTTGGGATA
Statistics
Matches: 141, Mismatches: 13, Indels: 22
0.80 0.07 0.12
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 64 0.45
47 42 0.30
48 30 0.21
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGTGCTAGTGT
Found at i:17745206 original size:12 final size:12
Alignment explanation
Indices: 17745189--17745214 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17745179 CTGGAAAACT
17745189 GCAACCACATTC
1 GCAACCACATTC
17745201 GCAACCACATTC
1 GCAACCACATTC
17745213 GC
1 GC
17745215 CTTTCCCGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.42, G:0.12, T:0.15
Consensus pattern (12 bp):
GCAACCACATTC
Found at i:17749979 original size:27 final size:28
Alignment explanation
Indices: 17749949--17750018 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
17749939 ATAATAAGTC
*
17749949 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
17749976 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
17750004 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17750019 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17757896 original size:27 final size:28
Alignment explanation
Indices: 17757866--17757935 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
17757856 ATAATAAGTC
*
17757866 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
17757893 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
17757921 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17757936 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17760534 original size:40 final size:40
Alignment explanation
Indices: 17760476--17760660 Score: 205
Period size: 39 Copynumber: 4.7 Consensus size: 40
17760466 ATTCAAAACA
* * ***
17760476 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
17760516 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * ** *
17760556 CCTTCGGG-CTTAGCCCGGATATCATAGCTTGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
17760595 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
17760634 CCTTCGGG-CTTAGCCCGGATATCACAA
1 CCTTCGGGACTTAGCCCGGATATCACAA
17760661 TTCGCACATT
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:17760590 original size:39 final size:38
Alignment explanation
Indices: 17760507--17760668 Score: 225
Period size: 39 Copynumber: 4.1 Consensus size: 38
17760497 ATGGTAACCC
* * *
17760507 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTC
1 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCAC-ACTT
*
17760547 GCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTT
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACA-CTT
*
17760586 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACACTT
*
17760624 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCACACTT
17760663 CGCACA
1 -GCACA
17760669 TTCATTCACA
Statistics
Matches: 114, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
38 3 0.03
39 95 0.83
40 16 0.14
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGCTTAGCCCGGATATCACACTT
Found at i:17760632 original size:78 final size:79
Alignment explanation
Indices: 17760507--17760657 Score: 268
Period size: 78 Copynumber: 1.9 Consensus size: 79
17760497 ATGGTAACCC
17760507 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
17760572 GGATATCATAGCTT
66 GGATATCATAGCTT
* * *
17760586 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
17760650 GGATATCA
66 GGATATCA
17760658 CAATTCGCAC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
78 53 0.77
79 16 0.23
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCATAGCTT
Found at i:17767278 original size:16 final size:16
Alignment explanation
Indices: 17767259--17767290 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17767249 AATTGTTTTA
17767259 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
17767275 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
17767291 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:17767593 original size:50 final size:50
Alignment explanation
Indices: 17767501--17767880 Score: 354
Period size: 50 Copynumber: 7.5 Consensus size: 50
17767491 TTGGTATGCA
* *** * *
17767501 TAGTAGCTTGCACTTAGTACTACACATACGACCTATCAATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
* * * *
17767551 TAGTAGCCTGCACTTAGTACTACATACGTGACTTATCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
* * * * * *
17767601 TAGTAGCCTGCACTTGGTACTACACACGTGATCGAAGTTAA-C-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAATCTGA-TACACG
* * *
17767652 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
* ** * *
17767702 TAGTAGCCTACACTTAGTACTACACACGTGATCAAAACTATC-GAGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAATCTGA-TACACG
* * * * *
17767753 TAGTAGCTTGCACTTAGTACTGCACATGTGACCTAACAATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
* * * *
17767803 TAGTAGCCTGCACTTAGTACTACACACATGACCTAA-AACTGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA---TCTGATACACG
*
17767855 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
17767881 TGTGTTCTCA
Statistics
Matches: 267, Mismatches: 52, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
49 3 0.01
50 154 0.58
51 78 0.29
52 32 0.12
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACG
Found at i:17767683 original size:101 final size:101
Alignment explanation
Indices: 17767551--17767884 Score: 427
Period size: 101 Copynumber: 3.3 Consensus size: 101
17767541 CTGATACATG
* * * *
17767551 TAGTAGCCTGCACTTAGTACTACATACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * ** *
17767616 GGTACTACACACGTGATCGAAGTTAACGAGTACGCA
66 AGTACTACACACGTGATCAAAACTAACGAGTACACA
* *
17767652 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
*
17767717 AGTACTACACACGTGATCAAAACTATCGAGTACACA
66 AGTACTACACACGTGATCAAAACTAACGAGTACACA
* * * * *
17767753 TAGTAGCTTGCACTTAGTACTGCACATGTGACCTAACAATTTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * ** * *
17767818 AGTACTACACACATGACCTAAAACTGTCTTA-AACACA
66 AGTACTACACACGTGATC-AAAACTAAC-GAGTACACA
*
17767855 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
17767885 TTCTCACAAC
Statistics
Matches: 204, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
101 163 0.80
102 40 0.20
103 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAACTAACGAGTACACA
Found at i:17767807 original size:151 final size:150
Alignment explanation
Indices: 17767499--17767880 Score: 403
Period size: 151 Copynumber: 2.5 Consensus size: 150
17767489 CTTTGGTATG
* * * *
17767499 CATAGTAGCTTGCACTTAGTACTACACATACGACCTATCAATCTGATACATGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATATGACCTAACAATCTGATACACGTAGTAGCCTGCAC
* ** * * *
17767564 TTAGTACTACATACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTGGTACTACACACG
66 TTAGTACTACACACGTGACAAAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
* * * *
17767629 TGATCGAAGTTAACGAGTACG
131 TGACCAAAATT-ACGAGTACA
* * * *
17767650 CATAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACACATATGACCTAACAATCTGATACACGTAGTAGCCTGCAC
* * *
17767715 TTAGTACTACACACGTGATCAAAACTATC-GAGTACACATAGTAGCTTGCACTTAGTACTGCACA
66 TTAGTACTACACACGTGA-CAAAACCATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACA
* *
17767779 TGTGACCTAACAATT-TG-GTACA
129 CGTGACC-AA-AATTACGAGTACA
* * * * *
17767801 CGTAGTAGCCTGCACTTAGTACTACACACATGACCTAA-AACTGTCTTAAACACATAGTAGCCTG
1 CATAGTAGCCTGCACTTAGTACTACACATATGACCTAACAA---TCTGATACACGTAGTAGCCTG
*
17767865 CACATAGTACTACACA
63 CACTTAGTACTACACA
17767881 TGTGTTCTCA
Statistics
Matches: 191, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
150 1 0.01
151 114 0.60
152 40 0.21
153 33 0.17
154 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (150 bp):
CATAGTAGCCTGCACTTAGTACTACACATATGACCTAACAATCTGATACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGACAAAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
TGACCAAAATTACGAGTACA
Found at i:17768266 original size:19 final size:20
Alignment explanation
Indices: 17768236--17768282 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17768226 AAGAACATGT
17768236 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
17768257 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
17768276 TATATAT
1 TATATAT
17768283 GCTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:17768560 original size:30 final size:30
Alignment explanation
Indices: 17768503--17768561 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
17768493 CAAAAACCAT
* *
17768503 ACTTTTACAAATTTACATTTTGACCCCTAA
1 ACTTTCACAAATTTACACTTTGACCCCTAA
* * *
17768533 ACTTTCACATATTTGCACTTTGGCCCCTA
1 ACTTTCACAAATTTACACTTTGACCCCTA
17768562 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTACACTTTGACCCCTAA
Found at i:17774381 original size:39 final size:39
Alignment explanation
Indices: 17774338--17774489 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
17774328 TATGGTAACC
* *
17774338 CGCACAA-AGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
17774377 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
17774416 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
17774455 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
17774490 TCGACATTCA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 96 0.91
40 9 0.09
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:17782235 original size:39 final size:39
Alignment explanation
Indices: 17782081--17782234 Score: 247
Period size: 39 Copynumber: 3.9 Consensus size: 39
17782071 TATGGTAACC
* *
17782081 CGCACAA-AGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
17782120 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
17782159 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
17782198 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
17782235 TCGACATTCA
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 98 0.92
40 9 0.08
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:17784269 original size:26 final size:26
Alignment explanation
Indices: 17784233--17784290 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
17784223 TAATAGAGAT
17784233 AGTAAAATTCCTGTTTGAACCTAAGA
1 AGTAAAATTCCTGTTTGAACCTAAGA
17784259 AGTAAAATTCCTGTTTGAACCTAAGA
1 AGTAAAATTCCTGTTTGAACCTAAGA
*
17784285 AATAAA
1 AGTAAA
17784291 TCGGATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (26 bp):
AGTAAAATTCCTGTTTGAACCTAAGA
Found at i:17784518 original size:46 final size:46
Alignment explanation
Indices: 17784423--17784544 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
17784413 GACAAGTGCT
* * *
17784423 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAAACGTAAGCC
* *
17784469 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACAAAATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CAAAACGTA-AGCC
*
17784515 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
17784545 GACTTGGGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
45 3 0.05
46 45 0.68
47 13 0.20
48 5 0.08
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAAACGTAAGCC
Found at i:17785776 original size:22 final size:21
Alignment explanation
Indices: 17785742--17785782 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17785732 TCGATTTGGT
*
17785742 CACACGGGCGTGTTGCCCCTTC
1 CACACAGGCGTG-TGCCCCTTC
*
17785764 CACACAGGTGTGTGCCCCT
1 CACACAGGCGTGTGCCCCT
17785783 GTGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.39, G:0.27, T:0.22
Consensus pattern (21 bp):
CACACAGGCGTGTGCCCCTTC
Found at i:17795611 original size:40 final size:40
Alignment explanation
Indices: 17795566--17795655 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
17795556 CGGAATACAA
*
17795566 CCGGATATAACCACGT-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCAC-AATTGCCTTCGGGTCTTAAC
* *
17795606 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
17795646 CCGGATATAA
1 CCGGATATAA
17795656 TTTCCAGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
Found at i:17797970 original size:23 final size:25
Alignment explanation
Indices: 17797939--17797985 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
17797929 GGTAAACCAT
17797939 GAAATAGG-TGTG-GAATGACTAAAA
1 GAAATAGGTTGTGTGAAT-ACTAAAA
17797963 GAAA-AGGTTGTGTGAATACTAAA
1 GAAATAGGTTGTGTGAATACTAAA
17797986 GGACTAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 14 0.67
25 4 0.19
ACGTcount: A:0.45, C:0.04, G:0.28, T:0.23
Consensus pattern (25 bp):
GAAATAGGTTGTGTGAATACTAAAA
Found at i:17798574 original size:23 final size:23
Alignment explanation
Indices: 17798541--17798597 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
17798531 CTCCAAGCAA
*
17798541 ACGGGCGTGTGTGTTGCCTCCAC
1 ACGGGCGTGTGCGTTGCCTCCAC
* *
17798564 ATGGGCATGTGCGTTGCCTCCAC
1 ACGGGCGTGTGCGTTGCCTCCAC
17798587 ACGGGCGTGTG
1 ACGGGCGTGTG
17798598 AGGCTTTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.11, C:0.28, G:0.37, T:0.25
Consensus pattern (23 bp):
ACGGGCGTGTGCGTTGCCTCCAC
Done.