Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 82 of 310
Found at i:26357296 original size:28 final size:28
Alignment explanation
Indices: 26357228--26357302 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
26357218 TATATATATG
* *
26357228 TGGCACTTAGTGTGCGAAATATTGAGAA
1 TGGCACTTAGTGTGCGAGATATTAAGAA
* * *
26357256 TGACATTTGGTGTGCGAGATATTAAGTAA
1 TGGCACTTAGTGTGCGAGATATTAAG-AA
*
26357285 -GGCACTTAGTGTCCGAGA
1 TGGCACTTAGTGTGCGAGA
26357303 CAATGAAGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAGATATTAAGAA
Found at i:26361519 original size:46 final size:45
Alignment explanation
Indices: 26361390--26361526 Score: 152
Period size: 46 Copynumber: 3.0 Consensus size: 45
26361380 AGCTCGGGTG
*
26361390 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-A
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAA
* * *** *
26361434 TGC-CTAGTTACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACA
1 TTCGC-A--TCCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-A
26361483 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
26361527 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.04
46 33 0.45
47 31 0.42
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAA
Found at i:26361545 original size:46 final size:45
Alignment explanation
Indices: 26361402--26361545 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
26361392 CGCATCCATA
*
26361402 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* * *
26361451 --CGAACTCAGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
26361494 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
26361541 AGTGA
1 AGTGA
26361546 CGTGTCACTT
Statistics
Matches: 78, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 33 0.42
47 28 0.36
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:26361771 original size:40 final size:40
Alignment explanation
Indices: 26361716--26361833 Score: 218
Period size: 40 Copynumber: 3.0 Consensus size: 40
26361706 TTGTCTCGGA
* *
26361716 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
26361756 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
26361796 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCG
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCG
26361834 TTCGTCTTCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
Found at i:26362930 original size:54 final size:54
Alignment explanation
Indices: 26362868--26362977 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
26362858 AATTATTCGA
26362868 TTCAGTCCCTAATTTCAACTTAAGCACTTTATGCATAAAATTTCTTCACGAAAT
1 TTCAGTCCCTAATTTCAACTTAAGCACTTTATGCATAAAATTTCTTCACGAAAT
*
26362922 TTCAGTCCCTAATTTCAATTTAAGCACTTTATGCATAAAATTTCTTCACGAAAT
1 TTCAGTCCCTAATTTCAACTTAAGCACTTTATGCATAAAATTTCTTCACGAAAT
26362976 TT
1 TT
26362978 TCGCACAATC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (54 bp):
TTCAGTCCCTAATTTCAACTTAAGCACTTTATGCATAAAATTTCTTCACGAAAT
Found at i:26364226 original size:30 final size:30
Alignment explanation
Indices: 26364182--26364270 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
26364172 CAAAGATAAC
*
26364182 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
26364211 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
26364241 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
26364271 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:26364230 original size:15 final size:14
Alignment explanation
Indices: 26364182--26364264 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
26364172 CAAAGATAAC
*
26364182 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
26364196 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
26364211 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
26364226 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
26364241 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
26364256 AAGAAACCC
1 AAGAAACCC
26364265 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:26364270 original size:15 final size:15
Alignment explanation
Indices: 26364193--26364270 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
26364183 AGAAAACCGA
26364193 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
26364208 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
26364222 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
26364237 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
26364253 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
26364268 ATA
1 ATA
26364271 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:26370133 original size:46 final size:46
Alignment explanation
Indices: 26370066--26370239 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
26370056 GTAACCCGCC
* * *
26370066 CATAAGTGAACTCGGATTCAACTCAACGAGCTTAGGCGTTCGCATA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTTCGGCATTCGCATA
*
26370112 CATAAGTGAACTCGGACTCAACTCAACGAGC-TCGG-ATGC-CTAGTTA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTTCGGCATTCGC-A--TA
*** *
26370158 CATCTCTCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATC
1 CATAAGT-GAACTCGGACTCAACTCAACGAGCTTCGG-CATTCGCATA
*
26370205 CATAAGTAAACTCGGACTCAACTCAACGAG-TTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTTCGG
26370240 ATGGTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 63 0.59
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTTCGGCATTCGCATA
Found at i:26370185 original size:93 final size:93
Alignment explanation
Indices: 26370073--26370242 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
26370063 GCCCATAAGT
* * *
26370073 GAACTCGGATTCAACTCAACGAGCTTAGG-CGTTCGCATACATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTAGGACATTCGCATACATAAGTAAACTCGGACTCAACTCA
26370137 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
26370166 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTAGGACATTCGCATACATAAGTAAACTCGGACTCAACTCAA
*
26370231 CGAGTTCGGATG
66 CGAGCTCGGATG
26370243 GTCAACCATC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTAGGACATTCGCATACATAAGTAAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:26377851 original size:23 final size:24
Alignment explanation
Indices: 26377798--26377851 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
26377788 AGCTTTATAA
* *
26377798 CGGGAAGCTCACATAGAGCCATTT
1 CGGGAAGCTCACAAAGAGCCATAT
*
26377822 CGGGAAGCTCATAAAGAGCC-TAT
1 CGGGAAGCTCACAAAGAGCCATAT
26377845 CGGGAAG
1 CGGGAAG
26377852 TTTATCCGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:26378035 original size:25 final size:27
Alignment explanation
Indices: 26377963--26378028 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
26377953 TGCGAGCATT
*
26377963 ATCGGGAAGCTCAGAAAGAGCCAATTTA
1 ATCGGGAAGCTCACAAAGAGCC-ATTTA
26377991 AT-GGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCTCACAAAGAGCCATTTA
*
26378016 ATCGGGATGCTCA
1 ATCGGGAAGCTCA
26378029 TAAGAGCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 6 0.17
26 9 0.26
27 18 0.51
28 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
ATCGGGAAGCTCACAAAGAGCCATTTA
Found at i:26378472 original size:21 final size:20
Alignment explanation
Indices: 26378440--26378478 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
26378430 ATATAAATAA
26378440 ATTTAATATCAATTTAATCC
1 ATTTAATATCAATTTAATCC
*
26378460 ATTTCATACTCAATTTAAT
1 ATTTAATA-TCAATTTAAT
26378479 TCAATTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTAATATCAATTTAATCC
Found at i:26381810 original size:32 final size:32
Alignment explanation
Indices: 26381770--26381853 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
26381760 ATAGTATCAA
* * *
26381770 TTGGGCCTAGCCCATCTCAAAATCAATACCAG
1 TTGGGCCTAGCCCATATCAAAACCAAGACCAG
* * *
26381802 TTTGGCCTAGCCCATATCAGAACCAAGATCAG
1 TTGGGCCTAGCCCATATCAAAACCAAGACCAG
*
26381834 TTGGGCCTAGCCCATTTCAA
1 TTGGGCCTAGCCCATATCAA
26381854 TTTCAAACCC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (32 bp):
TTGGGCCTAGCCCATATCAAAACCAAGACCAG
Found at i:26390251 original size:40 final size:40
Alignment explanation
Indices: 26390196--26390343 Score: 201
Period size: 40 Copynumber: 3.7 Consensus size: 40
26390186 ACTACATGCT
26390196 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
26390236 CAAATACCTTTGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
26390276 CAAATGCCTTCAGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
26390315 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
26390344 CATCCAAATA
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.35
40 58 0.63
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:26398228 original size:39 final size:40
Alignment explanation
Indices: 26398207--26398350 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 40
26398197 ACTACTTGCT
*
26398207 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
26398247 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
26398287 CAAATGCCTTCAGG-CTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
26398326 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
26398351 TTATCATCCA
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.35
40 61 0.64
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:26399685 original size:39 final size:40
Alignment explanation
Indices: 26399614--26399758 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
26399604 GCTCCTCGTT
* *
26399614 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
26399654 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
26399693 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
26399734 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26399759 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:26406474 original size:48 final size:48
Alignment explanation
Indices: 26406303--26406608 Score: 176
Period size: 47 Copynumber: 6.5 Consensus size: 48
26406293 TTATCAATGC
* * * * * ** * *
26406303 CATGTCCTAGACATGGTCTTACATTGGCTCTCATATACGCGTGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGACTATCATCTGTGAG-GCCGATG
* *
26406352 CATGTCTCAGACAT-GTCTTACACTAGCAC-AAC-TCT-T-A-GCCGATG
1 CATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTGTGAGGCCGATG
* * *
26406396 CGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGACTATCATCTGT-GAGGCCGATG
* * *
26406443 CATGTCCCATACATGGTCTTACACTGACTATCAT-AGT-ATGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGACTATCATCTGTGA-GGCCGATG
** * *
26406490 CATGTCCCAGACAT-GTCTTACACT-AGCCCTCGTCTG-GATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGA-CTATCATCTGTGAGGCCGATG
* * * * * *
26406536 CCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGT--GGCTGAAG
1 -CATGTCCCAGACATGGTCTTACACTGACTATCAT-CTGTGAGGCCGATG
*
26406584 CATGTCCCAGACA-CGTCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
26406609 GCTCACAAAT
Statistics
Matches: 201, Mismatches: 37, Indels: 41
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.00
43 6 0.03
44 28 0.14
45 1 0.00
46 33 0.16
47 65 0.32
48 49 0.24
49 17 0.08
50 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGACTATCATCTGTGAGGCCGATG
Found at i:26406509 original size:94 final size:94
Alignment explanation
Indices: 26406392--26406611 Score: 291
Period size: 94 Copynumber: 2.3 Consensus size: 94
26406382 ACTCTTAGCC
* * *
26406392 GATGCGTGTCCCAGACACGTCTTACACTGGCTATC-TCTGTCGAGGCCGATG-CATGTCCCATAC
1 GATGCATGTCCCAGACACGTCTTACACTGGCTATCGTCTG--GAGGCCGATGCCATGCCCCAGAC
*
26406455 ATGGTCTTACACTGACTATCATAGTATGGCT
64 ATGGTCTTACACTGACTATCATAATATGGCT
* * ** *
26406486 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATGCCGATGCCATGCCCCAGACAT
1 GATGCATGTCCCAGACACGTCTTACACTGGCTATCGTCTGGAGGCCGATGCCATGCCCCAGACAT
* * *
26406551 GGTCTTACACTGGCTCTCATAATGTGGCT
66 GGTCTTACACTGACTATCATAATATGGCT
*
26406580 GAAGCATGTCCCAGACACGTCTTACACTGGCT
1 GATGCATGTCCCAGACACGTCTTACACTGGCT
26406612 CACAAATCAC
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
93 9 0.08
94 95 0.88
95 4 0.04
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (94 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTATCGTCTGGAGGCCGATGCCATGCCCCAGACAT
GGTCTTACACTGACTATCATAATATGGCT
Found at i:26406607 original size:46 final size:45
Alignment explanation
Indices: 26406389--26406612 Score: 182
Period size: 47 Copynumber: 4.8 Consensus size: 45
26406379 ACAACTCTTA
* *
26406389 GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTC-TGTCGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGC--TCTCATGT-GTG
* * * * *
26406436 GCCGATGCATGTCCCATACATGGTCTTACACTGACTATCATAGTATG
1 GCCGATGCATGTCCCAGACA-CGTCTTACACTGGCTCTCAT-GTGTG
* * * * * *
26406483 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-G
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTCTCATGTGTG
* * *
26406527 ATGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 --GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTCTCAT-GTGTG
* *
26406577 GCTGAAGCATGTCCCAGACACGTCTTACACTGGCTC
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTC
26406613 ACAAATCACC
Statistics
Matches: 140, Mismatches: 28, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 38 0.27
47 62 0.44
48 35 0.25
49 2 0.01
50 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCTCTCATGTGTG
Found at i:26409678 original size:39 final size:39
Alignment explanation
Indices: 26409615--26409731 Score: 189
Period size: 39 Copynumber: 3.0 Consensus size: 39
26409605 ATTACCAGCA
* * * *
26409615 CCAGCATGAAGCCTGGGGGTCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
26409654 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
26409693 CCAGCACGAAGCCTGCGGGACTTTAGACCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
26409732 TCAGTGTCTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:26424014 original size:19 final size:20
Alignment explanation
Indices: 26423982--26424019 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
26423972 AAACTCAGGG
* *
26423982 AAATTTTGAGAAAACATAGA
1 AAATTTTCAGAAAAAATAGA
26424002 AAATTTTCA-AAAAAATAG
1 AAATTTTCAGAAAAAATAG
26424020 GGGACACACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (20 bp):
AAATTTTCAGAAAAAATAGA
Found at i:26427084 original size:23 final size:23
Alignment explanation
Indices: 26427050--26427105 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
26427040 TTCATGTGCC
*
26427050 AGAGAAT-CTTACTGTTCT-TGCA
1 AGAGAATATTTACTGTT-TATGCA
* *
26427072 AGGGAATATTTACTGTTTATGCC
1 AGAGAATATTTACTGTTTATGCA
26427095 AGAGAATATTT
1 AGAGAATATTT
26427106 CCTATTCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (23 bp):
AGAGAATATTTACTGTTTATGCA
Found at i:26448774 original size:37 final size:37
Alignment explanation
Indices: 26448681--26448774 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 37
26448671 ACTAAACTCT
* * * * * *
26448681 AAAACTATAATATTTAAATTTCAATGACTAAATTGTAT
1 AAAACTGTAAAATTTAAA-TTCAAGGACTAAAATATAA
* *
26448719 AAAA-TGTAAGATTCTAAATTCAGGGACTAAAATATAA
1 AAAACTGTAAAATT-TAAATTCAAGGACTAAAATATAA
26448756 AAAACTGTAAAATTTAAAT
1 AAAACTGTAAAATTTAAAT
26448775 ATTAGGGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
37 30 0.65
38 16 0.35
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (37 bp):
AAAACTGTAAAATTTAAATTCAAGGACTAAAATATAA
Found at i:26460477 original size:22 final size:22
Alignment explanation
Indices: 26460449--26460492 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
26460439 TTTGACGAAA
26460449 AACTTGACTATAGATTTTCGAC
1 AACTTGACTATAGATTTTCGAC
*
26460471 AACTTGACTATATATTTTCGAC
1 AACTTGACTATAGATTTTCGAC
26460493 CATTGATGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (22 bp):
AACTTGACTATAGATTTTCGAC
Found at i:26462219 original size:30 final size:30
Alignment explanation
Indices: 26462173--26462266 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
26462163 TTTTATTATG
*
26462173 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
26462204 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
26462234 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
26462264 CCA
1 CCA
26462267 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:26462228 original size:15 final size:15
Alignment explanation
Indices: 26462183--26462260 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
26462173 CCAATATCTC
26462183 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
26462198 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
26462213 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
26462228 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
26462243 GATACCCATATCTTT
1 GATACCCATATCTTT
26462258 GAT
1 GAT
26462261 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:26474173 original size:53 final size:53
Alignment explanation
Indices: 26474088--26474248 Score: 304
Period size: 53 Copynumber: 3.0 Consensus size: 53
26474078 TCCTCCCCAG
* *
26474088 ACCAATATTACGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
1 ACCATTATTATGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
26474141 ACCATTATTATGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
1 ACCATTATTATGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
26474194 ACCATTATTATGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
1 ACCATTATTATGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
26474247 AC
1 AC
26474249 GATGCAGAAG
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 106 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (53 bp):
ACCATTATTATGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
Found at i:26483487 original size:48 final size:48
Alignment explanation
Indices: 26483408--26483528 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 48
26483398 TGACGCCATG
* * * ** * * *
26483408 TCCCAGACAGGTCTTACACCAGCTTGTATATCGCGAGGCTGATGCATG
1 TCCCAGACATGTCTCACACTAGCTTAAATATCGAGAGGCCGATGCATA
* * *
26483456 TCCCAGATATGTCTCACACTGGCTTAAATATCTAGAGGCCGATGCATA
1 TCCCAGACATGTCTCACACTAGCTTAAATATCGAGAGGCCGATGCATA
* *
26483504 TCCCAGACGTGTCTTACACTAGCTT
1 TCCCAGACATGTCTCACACTAGCTT
26483529 TCATGCTGTA
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (48 bp):
TCCCAGACATGTCTCACACTAGCTTAAATATCGAGAGGCCGATGCATA
Found at i:26483940 original size:30 final size:30
Alignment explanation
Indices: 26483904--26483987 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
26483894 ATAATTGGAA
*
26483904 AAAATGACCATTTTTCCCTTAGACTTTCAC
1 AAAATGACCATTTTACCCTTAGACTTTCAC
26483934 AAAATGACCATTTTACCCTTAGACTTTCAC
1 AAAATGACCATTTTACCCTTAGACTTTCAC
* *
26483964 AAAATAACCATTTTACCCCTAGAC
1 AAAATGACCATTTTACCCTTAGAC
26483988 GTGAAAATTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (30 bp):
AAAATGACCATTTTACCCTTAGACTTTCAC
Found at i:26488229 original size:17 final size:18
Alignment explanation
Indices: 26488207--26488240 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26488197 AGTTGAATTG
26488207 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
*
26488224 AAATTGTGAAAATTAAA
1 AAATTGCGAAAATTAAA
26488241 ATGGAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:26488978 original size:10 final size:10
Alignment explanation
Indices: 26488959--26489008 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
26488949 TTAAATACTA
26488959 AAAGATAAAT
1 AAAGATAAAT
26488969 ACAA-ATAAAT
1 A-AAGATAAAT
*
26488979 AAAGATAATT
1 AAAGATAAAT
26488989 AAAGATAAAT
1 AAAGATAAAT
26488999 GAAA-ATAAAT
1 -AAAGATAAAT
26489009 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:26489839 original size:96 final size:96
Alignment explanation
Indices: 26489675--26489933 Score: 457
Period size: 96 Copynumber: 2.7 Consensus size: 96
26489665 GGAGTATACT
26489675 GAACCTTTTGACGCGAAGAGAGATGACAAACCAAGCACCCCACCCCGGTTACTCAGCCCAGCACA
1 GAACCTTTTGACGCGAAGAGAGATGACAAACCAAGCACCCCACCCCGGTTACTCAGCCCAGCACA
26489740 TTCCTAATTTTATTATTCCTAAGAACATATC
66 TTCCTAATTTTATTATTCCTAAGAACATATC
* *
26489771 GAACCTTTTAACGCGAAGAGAGATGACAAACCAAGCACCCCACCTCGGTTACTCAGCCCAGCACA
1 GAACCTTTTGACGCGAAGAGAGATGACAAACCAAGCACCCCACCCCGGTTACTCAGCCCAGCACA
26489836 TTCCTAATTTTATTATTCCTAAGAACATATC
66 TTCCTAATTTTATTATTCCTAAGAACATATC
* * * *
26489867 GAACCTTTTGACGGGAAGAGAGATGAC-AGCCAAGCACCTCACCCCGGTTACTCAGCCCAACACA
1 GAACCTTTTGACGCGAAGAGAGATGACAAACCAAGCACCCCACCCCGGTTACTCAGCCCAGCACA
26489931 TTC
66 TTC
26489934 TTAGAAATTA
Statistics
Matches: 155, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
95 36 0.23
96 119 0.77
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.22
Consensus pattern (96 bp):
GAACCTTTTGACGCGAAGAGAGATGACAAACCAAGCACCCCACCCCGGTTACTCAGCCCAGCACA
TTCCTAATTTTATTATTCCTAAGAACATATC
Found at i:26490839 original size:17 final size:16
Alignment explanation
Indices: 26490813--26490864 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
26490803 TTAATATCTG
26490813 AAAAT-AATAAATAAA
1 AAAATAAATAAATAAA
*
26490828 ATAATAAGATAAAATAAA
1 AAAATAA-AT-AAATAAA
*
26490846 TAAAATAAAAAAATAAA
1 -AAAATAAATAAATAAA
26490863 AA
1 AA
26490865 TAAAAATTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 4 0.13
16 3 0.10
17 9 0.30
18 8 0.27
19 6 0.20
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAATAAATAAATAAA
Found at i:26490843 original size:22 final size:23
Alignment explanation
Indices: 26490818--26490868 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
26490808 ATCTGAAAAT
* *
26490818 AATAAATAAAATAATAAGAT-AA
1 AATAAATAAAATAAAAAAATAAA
26490840 AATAAATAAAATAAAAAAATAAA
1 AATAAATAAAATAAAAAAATAAA
26490863 AATAAA
1 AATAAA
26490869 AATTAGGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (23 bp):
AATAAATAAAATAAAAAAATAAA
Found at i:26490862 original size:8 final size:8
Alignment explanation
Indices: 26490821--26490864 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
26490811 TGAAAATAAT
26490821 AAATAAAA
1 AAATAAAA
*
26490829 TAATAAGATA
1 AAATAA-A-A
26490839 AAATAAATA
1 AAATAAA-A
26490848 AAATAAAA
1 AAATAAAA
26490856 AAATAAAA
1 AAATAAAA
26490864 A
1 A
26490865 TAAAAATTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 15 0.47
9 11 0.34
10 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (8 bp):
AAATAAAA
Found at i:26497284 original size:10 final size:10
Alignment explanation
Indices: 26497257--26497294 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
26497247 TTAAATACTA
*
26497257 AAAGATAAAT
1 AAAGATAATT
26497267 ACAA-ATAATT
1 A-AAGATAATT
26497277 AAAGATAATT
1 AAAGATAATT
26497287 AAAGATAA
1 AAAGATAA
26497295 ATGAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAATT
Found at i:26497866 original size:27 final size:29
Alignment explanation
Indices: 26497836--26497892 Score: 100
Period size: 27 Copynumber: 2.0 Consensus size: 29
26497826 AATCAAATTG
26497836 CTACTCCTACTAACAAGCTAA-AAA-CTC
1 CTACTCCTACTAACAAGCTAACAAATCTC
26497863 CTACTCCTACTAACAAGCTAACAAATCTC
1 CTACTCCTACTAACAAGCTAACAAATCTC
26497892 C
1 C
26497893 CTAGGACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 21 0.75
28 3 0.11
29 4 0.14
ACGTcount: A:0.39, C:0.35, G:0.04, T:0.23
Consensus pattern (29 bp):
CTACTCCTACTAACAAGCTAACAAATCTC
Found at i:26502723 original size:26 final size:26
Alignment explanation
Indices: 26502692--26502799 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
26502682 TGAAATTCCC
*
26502692 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
26502718 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
26502744 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
26502770 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
26502796 ATCA
1 ATCA
26502800 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:26504748 original size:344 final size:344
Alignment explanation
Indices: 26504106--26505483 Score: 2686
Period size: 344 Copynumber: 4.0 Consensus size: 344
26504096 GGATGATAAA
*
26504106 AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAAGGACAAAACAAGAAAAAGAAAG
1 AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
26504171 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
66 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
* *
26504236 TGTTCAATTTTTGTTAAAA-TTCAATTTATCATAGTAGATGAATATAACCCAATTCTTAAAAGTT
131 TGTTTAATTTTTGTTAAAATTTCAATTTATCATGGTAGATGAATATAACCCAATTCTTAAAAGTT
26504300 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTT
196 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTT
26504365 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAATTATAAAA
261 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAATTATAAAA
26504430 TTATATTTATATTCGAATG
326 TTATATTTATATTCGAATG
26504449 AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
1 AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
26504514 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
66 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
26504579 TGTTTAATTTTTGTTAAAATTTCAATTTATCATGGTAGATGAATATAACCCAATTCTTAAAAGTT
131 TGTTTAATTTTTGTTAAAATTTCAATTTATCATGGTAGATGAATATAACCCAATTCTTAAAAGTT
26504644 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTT
196 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTT
26504709 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAATTATAAAA
261 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAATTATAAAA
26504774 TTATATTTATATTCGAATG
326 TTATATTTATATTCGAATG
26504793 AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
1 AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
26504858 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
66 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
26504923 TGTTTAATTTTTGTTAAAATTTCAATTTATCATGGTAGATGAATATAACCCAATTCTTAAAAGTT
131 TGTTTAATTTTTGTTAAAATTTCAATTTATCATGGTAGATGAATATAACCCAATTCTTAAAAGTT
26504988 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTT
196 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTT
26505053 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAATTATAAAA
261 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAATTATAAAA
26505118 TTATATTTATATTCGAATG
326 TTATATTTATATTCGAATG
26505137 AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
1 AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
26505202 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
66 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
26505267 TGTTTAATTTTTGTTAAAATTTCAATTTATCATGGTAGATGAATATAACCCAATTCTTAAAAGTT
131 TGTTTAATTTTTGTTAAAATTTCAATTTATCATGGTAGATGAATATAACCCAATTCTTAAAAGTT
26505332 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTT
196 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTT
* *
26505397 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAGAGTATAACTATAAAA
261 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAATTATAAAA
* *
26505462 TCATATTTATATTCGAAAG
326 TTATATTTATATTCGAATG
26505481 AGA
1 AGA
26505484 GAGTTGTGAG
Statistics
Matches: 1027, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
343 147 0.14
344 880 0.86
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (344 bp):
AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
TGTTTAATTTTTGTTAAAATTTCAATTTATCATGGTAGATGAATATAACCCAATTCTTAAAAGTT
GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTT
GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAATTATAAAA
TTATATTTATATTCGAATG
Found at i:26511154 original size:16 final size:16
Alignment explanation
Indices: 26511143--26511181 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
26511133 TAGAATAGGA
26511143 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
* *
26511159 CTGTAATGTAATAAAG
1 CTGTAATGGAATAGAG
*
26511175 TTGTAAT
1 CTGTAAT
26511182 CAATAATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.33
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:26511454 original size:8 final size:10
Alignment explanation
Indices: 26511430--26511458 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
26511420 TTTTTTATTT
26511430 TTATATTAAA
1 TTATATTAAA
26511440 TTATATTAAA
1 TTATATTAAA
26511450 TTAT-TTAAA
1 TTATATTAAA
26511459 ATATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTATATTAAA
Found at i:26512395 original size:38 final size:38
Alignment explanation
Indices: 26512344--26512420 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
26512334 TAGAAGCTAG
*
26512344 AGCGGTTCTTTAAACACTACAAGCGTGAAGTATTCAAC
1 AGCGGTTCTTTAAACACTACAAGCATGAAGTATTCAAC
26512382 AGCGGTTCTTTAAACACTACAAGCATGAAGTATTCAAC
1 AGCGGTTCTTTAAACACTACAAGCATGAAGTATTCAAC
26512420 A
1 A
26512421 TAACCCACGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (38 bp):
AGCGGTTCTTTAAACACTACAAGCATGAAGTATTCAAC
Found at i:26521205 original size:50 final size:49
Alignment explanation
Indices: 26521129--26521273 Score: 175
Period size: 50 Copynumber: 3.0 Consensus size: 49
26521119 TATGGCGTTG
* *
26521129 ATATGGGATCCCATGTAAGACTATGTCTGAGACATGGCATTGGCATCAA
1 ATATGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAA
* *
26521178 CATATGAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAA
1 -ATATGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAA
* * * * * * *
26521228 GT-GGTGATCCCATGTAAGACCATATCTGAGATATAGCGTTGGCATC
1 ATATGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATC
26521274 TTATTATGTG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 36 0.44
49 1 0.01
50 45 0.55
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (49 bp):
ATATGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAA
Found at i:26524265 original size:43 final size:43
Alignment explanation
Indices: 26524162--26524269 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
26524152 TAGCCCAGCT
*
26524162 ATGGTCTTACACGA-AATCAAATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACAC-ATAATCACATAACGATGCCAATGTCCCAGAC
** *
26524205 ATGGTCTTACATGTAATCACATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
26524248 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
26524270 CCCGTTAATC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
Found at i:26525414 original size:11 final size:11
Alignment explanation
Indices: 26525398--26525423 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26525388 GTAAACACCA
26525398 AAAATAATTTT
1 AAAATAATTTT
26525409 AAAATAATTTT
1 AAAATAATTTT
26525420 AAAA
1 AAAA
26525424 CCTCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:26528762 original size:43 final size:43
Alignment explanation
Indices: 26528714--26528799 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
26528704 AATTAATCTA
26528714 AAACTTTATTTCTCTTCCGATCTAAAATAAAACTTCGTTTTTC
1 AAACTTTATTTCTCTTCCGATCTAAAATAAAACTTCGTTTTTC
*
26528757 AAACTTTATTTCTCTTCCGATCTAAAATCAAACTTCGTTTTTC
1 AAACTTTATTTCTCTTCCGATCTAAAATAAAACTTCGTTTTTC
26528800 TTGATCTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.44
Consensus pattern (43 bp):
AAACTTTATTTCTCTTCCGATCTAAAATAAAACTTCGTTTTTC
Found at i:26547813 original size:27 final size:27
Alignment explanation
Indices: 26547783--26547960 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
26547773 ATATTGAGTC
* *
26547783 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
26547810 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
26547837 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
26547865 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
26547892 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
26547919 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
26547946 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26547961 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:26555998 original size:27 final size:27
Alignment explanation
Indices: 26555968--26556145 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
26555958 ATATTGAGTC
* * * *
26555968 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
26555995 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26556022 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
26556050 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
26556077 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
26556104 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
26556131 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
26556146 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:26556107 original size:82 final size:81
Alignment explanation
Indices: 26555989--26556144 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
26555979 TGCTATATAA
* *
26555989 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
26556054 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
26556071 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
26556135 CACTTAGTGC
65 CACTTAGTGC
26556145 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:26569770 original size:28 final size:29
Alignment explanation
Indices: 26569718--26569772 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
26569708 AGATTTTTAA
26569718 AAAAATTAAGAAAATAGGCTAAATTTTTT
1 AAAAATTAAGAAAATAGGCTAAATTTTTT
* * *
26569747 AAAATTTATGAAAATGGGCT-AATTTT
1 AAAAATTAAGAAAATAGGCTAAATTTT
26569773 AGTAAAACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (29 bp):
AAAAATTAAGAAAATAGGCTAAATTTTTT
Found at i:26569778 original size:29 final size:29
Alignment explanation
Indices: 26569718--26569779 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
26569708 AGATTTTTAA
*
26569718 AAAAATTAAGAAAATAGGCTAAATTTTTT
1 AAAAATTAAGAAAATAGGCTAAATTTTGT
* * *
26569747 AAAATTTATGAAAATGGGCT-AATTTTAGT
1 AAAAATTAAGAAAATAGGCTAAATTTT-GT
26569776 AAAA
1 AAAA
26569780 CGTTTTCCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (29 bp):
AAAAATTAAGAAAATAGGCTAAATTTTGT
Found at i:26576431 original size:13 final size:13
Alignment explanation
Indices: 26576413--26576439 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26576403 CGCAGTGCCT
26576413 ATAAACTATTACA
1 ATAAACTATTACA
26576426 ATAAACTATTACA
1 ATAAACTATTACA
26576439 A
1 A
26576440 GCTTTGGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAACTATTACA
Found at i:26577787 original size:35 final size:38
Alignment explanation
Indices: 26577748--26577822 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 38
26577738 ATAATAAAAA
* *
26577748 TAATATAT-GTAGAAA-AT-TTTAATATTATAATTTAT
1 TAATATATAGTAGAAATATATTTAATAGTATAATATAT
* *
26577783 TAATATATATTATAAATATATTTAATAGTATAATATAT
1 TAATATATAGTAGAAATATATTTAATAGTATAATATAT
26577821 TA
1 TA
26577823 TTTATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 8 0.24
36 5 0.15
37 2 0.06
38 18 0.55
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (38 bp):
TAATATATAGTAGAAATATATTTAATAGTATAATATAT
Found at i:26577826 original size:20 final size:20
Alignment explanation
Indices: 26577765--26577826 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
26577755 TGTAGAAAAT
*
26577765 TTTAATATTATAATTTATTA
1 TTTAATATTATAATATATTA
*
26577785 -ATATATATTATAA-ATA-TA
1 TTTA-ATATTATAATATATTA
*
26577803 TTTAATAGTATAATATATTA
1 TTTAATATTATAATATATTA
26577823 TTTA
1 TTTA
26577827 TAAAAATATG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 10 0.29
19 9 0.26
20 15 0.44
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTAATATTATAATATATTA
Found at i:26580248 original size:25 final size:25
Alignment explanation
Indices: 26580219--26580269 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
26580209 TGCCCTGAAA
26580219 GAAATTTGGGATATTGTAAAATCTT
1 GAAATTTGGGATATTGTAAAATCTT
26580244 GAAATTTGGGATATTGTAAAATCTT
1 GAAATTTGGGATATTGTAAAATCTT
26580269 G
1 G
26580270 TCTTAGCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (25 bp):
GAAATTTGGGATATTGTAAAATCTT
Found at i:26586780 original size:24 final size:25
Alignment explanation
Indices: 26586731--26586780 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
26586721 ACCCTTATCA
* *
26586731 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTGTTC
26586756 TCTCTTCA-TTCCCT-TCCATTGTTC
1 TCTCTTCACTTCCCTCT-CATTGTTC
26586780 T
1 T
26586781 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 13 0.59
25 8 0.36
ACGTcount: A:0.08, C:0.36, G:0.02, T:0.54
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTGTTC
Found at i:26590486 original size:15 final size:15
Alignment explanation
Indices: 26590466--26590495 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26590456 ATCAGACCCT
26590466 CCAAATGATAAAGAG
1 CCAAATGATAAAGAG
*
26590481 CCAAATGATGAAGAG
1 CCAAATGATAAAGAG
26590496 GAGGATGAAT
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:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
CCAAATGATAAAGAG
Found at i:26594611 original size:29 final size:25
Alignment explanation
Indices: 26594547--26594602 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
26594537 TTTTCTCCTA
* *
26594547 AATTTT-TATTTTATTTAATTATTT
1 AATTTTCTAATTTATTGAATTATTT
26594571 AATTTTCTAATTTATTGAATTATTT
1 AATTTTCTAATTTATTGAATTATTT
26594596 ATATTTT
1 A-ATTTT
26594603 ATACTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 6 0.21
25 17 0.61
26 5 0.18
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (25 bp):
AATTTTCTAATTTATTGAATTATTT
Found at i:26596181 original size:40 final size:40
Alignment explanation
Indices: 26596083--26596345 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
26596073 TCCTCGTTCA
* * * * *
26596083 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
26596122 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
26596162 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
26596202 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
26596242 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
26596282 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
26596322 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
26596346 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:26604131 original size:40 final size:40
Alignment explanation
Indices: 26604033--26604295 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
26604023 TCCTCGTTCA
* * * * *
26604033 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
26604072 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
26604112 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
26604152 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
26604192 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
26604232 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
26604272 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
26604296 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:26606639 original size:26 final size:26
Alignment explanation
Indices: 26606610--26606662 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
26606600 AGAAGAAGAA
* * *
26606610 GATCCTATAGAGATTGAACCAGTGCT
1 GATCCCATAGAGATCGAACCAATGCT
26606636 GATCCCATAGAGATCGAACCAATGCT
1 GATCCCATAGAGATCGAACCAATGCT
26606662 G
1 G
26606663 CCAGCTGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (26 bp):
GATCCCATAGAGATCGAACCAATGCT
Found at i:26616878 original size:43 final size:43
Alignment explanation
Indices: 26616830--26616941 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
26616820 AGATTACATA
* * *
26616830 TAAGACCATGTCTGGGACATTGTCATTGTAT-TGTGATTGCGTG
1 TAAGACTATGTCTGGGACATTGGCATTGT-TGTATGATTGCGTG
*
26616873 TAAGACTATGTCTGGGACATTGGCATTGTTGTATGATTTCGTG
1 TAAGACTATGTCTGGGACATTGGCATTGTTGTATGATTGCGTG
*
26616916 TAAGACTATGTCTAGGACATTGGCAT
1 TAAGACTATGTCTGGGACATTGGCAT
26616942 CGATATGAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.02
43 62 0.98
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (43 bp):
TAAGACTATGTCTGGGACATTGGCATTGTTGTATGATTGCGTG
Found at i:26616961 original size:43 final size:42
Alignment explanation
Indices: 26616817--26616991 Score: 158
Period size: 43 Copynumber: 4.1 Consensus size: 42
26616807 GATTGCTGAG
* * *
26616817 ATGAGATTACATATAAGACCATGTCTGGGACATTGTCATTGT
1 ATGAGATTACATGTAAGACTATGTCTGGGACATTGGCATTGT
* * *
26616859 ATTGTGATTGCGTGTAAGACTATGTCTGGGACATTGGCATTGT
1 A-TGAGATTACATGTAAGACTATGTCTGGGACATTGGCATTGT
* * * *
26616902 -TGTATGATTTCGTGTAAGACTATGTCTAGGACATTGGCATCGAT
1 ATG-A-GATTACATGTAAGACTATGTCTGGGACATTGGCATTG-T
* * * *
26616946 ATGAGATAACATGTAAGA-TCATATCTGGGATA-CGGCATTGT
1 ATGAGATTACATGTAAGACT-ATGTCTGGGACATTGGCATTGT
26616987 ATGAG
1 ATGAG
26616992 CTTTATGTGA
Statistics
Matches: 109, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
41 8 0.07
42 8 0.07
43 89 0.82
44 2 0.02
45 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (42 bp):
ATGAGATTACATGTAAGACTATGTCTGGGACATTGGCATTGT
Found at i:26626414 original size:18 final size:18
Alignment explanation
Indices: 26626380--26626413 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26626370 GGTCATTCAT
26626380 TTTATCTTTTTAATTTTC
1 TTTATCTTTTTAATTTTC
*
26626398 TTTAT-TTTTTCATTTT
1 TTTATCTTTTTAATTTT
26626414 TAAGAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATCTTTTTAATTTTC
Found at i:26626759 original size:24 final size:21
Alignment explanation
Indices: 26626709--26626759 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 21
26626699 AAAACCAATG
*
26626709 TTTTATAGGAAATTATTTTGT
1 TTTTATAGGAAATTATTTTAT
26626730 TATTTATAGGAAATTACATTTTAT
1 T-TTTATAGGAAATT--ATTTTAT
26626754 CTTTTA
1 -TTTTA
26626760 ATTTCCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 13 0.52
24 10 0.40
25 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTTATAGGAAATTATTTTAT
Found at i:26629678 original size:35 final size:34
Alignment explanation
Indices: 26629631--26629701 Score: 115
Period size: 35 Copynumber: 2.1 Consensus size: 34
26629621 CAGATTGGCA
*
26629631 CTTTCTTGGATCTACTTAATTTGTTCCCCCCCCC
1 CTTTCTTGGATCTACTTAATTAGTTCCCCCCCCC
*
26629665 CNTTTCTTGGATCTACTTAATTAGTTCCTCCCCCC
1 C-TTTCTTGGATCTACTTAATTAGTTCCCCCCCCC
26629700 CT
1 CT
26629702 CCCCCCCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.13, C:0.37, G:0.08, T:0.41
Consensus pattern (34 bp):
CTTTCTTGGATCTACTTAATTAGTTCCCCCCCCC
Found at i:26634160 original size:39 final size:39
Alignment explanation
Indices: 26634106--26634181 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
26634096 ATGATTGCCT
*
26634106 TGTTCTCACAGTACAACTTGATAGGCATGGTTATAGACC
1 TGTTCTCACAGTACAACTTGATAGGCATGGTCATAGACC
*
26634145 TGTTCTCATAGTACAACTTGATAGGCATGGTCATAGA
1 TGTTCTCACAGTACAACTTGATAGGCATGGTCATAGA
26634182 TCTTTTTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (39 bp):
TGTTCTCACAGTACAACTTGATAGGCATGGTCATAGACC
Found at i:26634641 original size:15 final size:15
Alignment explanation
Indices: 26634617--26634646 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26634607 CTAGAATGTG
26634617 AATAAAATTTATCTA
1 AATAAAATTTATCTA
*
26634632 AATAAGATTTATCTA
1 AATAAAATTTATCTA
26634647 CCTAAATAAA
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:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (15 bp):
AATAAAATTTATCTA
Found at i:26639297 original size:19 final size:18
Alignment explanation
Indices: 26639275--26639314 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
26639265 TGAATAAAAC
26639275 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
26639294 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
26639312 TTA
1 TTA
26639315 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:26647450 original size:19 final size:19
Alignment explanation
Indices: 26647423--26647487 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
26647413 CTTTCCCTTC
26647423 TTTTCTACGGTTCAATTTT
1 TTTTCTACGGTTCAATTTT
* ***
26647442 TTTTTTACGAAACAATTTT
1 TTTTCTACGGTTCAATTTT
26647461 GCTTTTCTACGGTTCAATATTT
1 --TTTTCTACGGTTCAAT-TTT
26647483 TTTTC
1 TTTTC
26647488 ATGAAACATC
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
19 15 0.43
20 5 0.14
21 12 0.34
22 3 0.09
ACGTcount: A:0.20, C:0.15, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTCTACGGTTCAATTTT
Found at i:26648681 original size:3 final size:3
Alignment explanation
Indices: 26648673--26648702 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
26648663 TTTAATTTAG
26648673 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26648703 GTAATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:26657831 original size:15 final size:15
Alignment explanation
Indices: 26657796--26657847 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
26657786 NNNNNNNNNT
*
26657796 TATTAAATTAT-ATA
1 TATTTAATTATAATA
26657810 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
26657824 TATTTAATAATAAT-
1 TATTTAATTATAATA
26657838 TATGTTAATT
1 TAT-TTAATT
26657848 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:26657946 original size:16 final size:16
Alignment explanation
Indices: 26657925--26657966 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26657915 TTATTAAATT
*
26657925 ATATATTTTAATTATA
1 ATATATTTTAATAATA
26657941 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
26657956 AT-TATGTTTAA
1 ATATAT-TTTAA
26657967 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:26657951 original size:15 final size:15
Alignment explanation
Indices: 26657916--26657957 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26657906 TTAAGAATTT
*
26657916 TATTAAATTAT-ATA
1 TATTTAATTATAATA
26657930 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
26657944 TATTTAATAATAAT
1 TATTTAATTATAAT
26657958 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:26658204 original size:16 final size:16
Alignment explanation
Indices: 26658183--26658250 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
26658173 GATTTGCTAT
26658183 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
26658199 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
26658215 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26658231 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26658247 TACA
1 TACA
26658251 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26658752 original size:75 final size:75
Alignment explanation
Indices: 26658662--26658811 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
26658652 CAATTTTATC
26658662 CTTTCATTTTTATTTTCCTTTTGTTTTTTTTGTTTTTTTTTATAAATTTGATATGTTACAACTTA
1 CTTTCATTTTTATTTTCCTTTTGTTTTTTTTGTTTTTTTTTATAAATTTGATATGTTACAACTTA
*
26658727 TTCACCAACT
66 GTCACCAACT
26658737 CTTTCATTTTTATTTTCCTTTTGTTTTTTTTGTTTTTTTTTATAAATTTGATATGTTACAACTTA
1 CTTTCATTTTTATTTTCCTTTTGTTTTTTTTGTTTTTTTTTATAAATTTGATATGTTACAACTTA
26658802 GTCACCAACT
66 GTCACCAACT
26658812 TTTTTTTTTG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.20, C:0.13, G:0.06, T:0.61
Consensus pattern (75 bp):
CTTTCATTTTTATTTTCCTTTTGTTTTTTTTGTTTTTTTTTATAAATTTGATATGTTACAACTTA
GTCACCAACT
Found at i:26659309 original size:34 final size:34
Alignment explanation
Indices: 26659271--26659341 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
26659261 AAAACCTCCA
*
26659271 TAACAAGCACATTTTAATAAAATATGCTTTTAGG
1 TAACAAGCACATTTTAATAAAATATACTTTTAGG
26659305 TAACAAGCACATTTTAATAAAATATACTTTTAGG
1 TAACAAGCACATTTTAATAAAATATACTTTTAGG
26659339 TAA
1 TAA
26659342 TCTTACATCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (34 bp):
TAACAAGCACATTTTAATAAAATATACTTTTAGG
Found at i:26675364 original size:13 final size:13
Alignment explanation
Indices: 26675346--26675391 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
26675336 GAAGCACGCG
26675346 TAAAACATATCTT
1 TAAAACATATCTT
*
26675359 TAAAACATAACTT
1 TAAAACATATCTT
*
26675372 TAAAATATATCTT
1 TAAAACATATCTT
*
26675385 GAAAACA
1 TAAAACA
26675392 ATAACAGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (13 bp):
TAAAACATATCTT
Found at i:26675381 original size:26 final size:27
Alignment explanation
Indices: 26675346--26675396 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
26675336 GAAGCACGCG
*
26675346 TAAAACATATCTTTAAAAC-ATAACTT
1 TAAAACATATCTTGAAAACAATAACTT
*
26675372 TAAAATATATCTTGAAAACAATAAC
1 TAAAACATATCTTGAAAACAATAAC
26675397 AGAACTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (27 bp):
TAAAACATATCTTGAAAACAATAACTT
Found at i:26677068 original size:41 final size:41
Alignment explanation
Indices: 26677011--26677123 Score: 174
Period size: 40 Copynumber: 2.8 Consensus size: 41
26677001 TAGGGGTTTA
*
26677011 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
* *
26677052 AATCCGAGCTTGGTCTCGAAGGGC-TTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
*
26677092 AATCCGAGCTTGGTGTCGAAGGGCGTTTTGAG
1 AATCCGAGCTTGGTCTCGAAGGGC-TTTTGAG
26677124 TCAGCGCTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 36 0.56
41 24 0.38
42 4 0.06
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.27
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
Found at i:26677463 original size:54 final size:54
Alignment explanation
Indices: 26677395--26677502 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
26677385 TGTATGAGTT
26677395 TCGAATTAGAGAGTTCAACTTCGCAAATGTGAGATGTAGGTGTATGTGCATGAG
1 TCGAATTAGAGAGTTCAACTTCGCAAATGTGAGATGTAGGTGTATGTGCATGAG
26677449 TCGAATTAGAGAGTTCAACTTCGCAAATGTGAGATGTAGGTGTATGTGCATGAG
1 TCGAATTAGAGAGTTCAACTTCGCAAATGTGAGATGTAGGTGTATGTGCATGAG
26677503 ATTGACACGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (54 bp):
TCGAATTAGAGAGTTCAACTTCGCAAATGTGAGATGTAGGTGTATGTGCATGAG
Found at i:26684577 original size:119 final size:118
Alignment explanation
Indices: 26684366--26684603 Score: 440
Period size: 119 Copynumber: 2.0 Consensus size: 118
26684356 AATGAGATGG
*
26684366 ATATTTGATTACCAAATGTGAATAATAAGTAAACACTATTGATCAAAATATTAAACATCTCTATT
1 ATATTTGATTACCAAATGTGAATAATAAGTAAACACTATTGATCAAAATATTAAACATCTATATT
* *
26684431 TATACTTATTTAGCTCAAGAGCAAGGGGGGTTAAAGTTGGATAGGGGAAAGGAA
66 TATACTTATTTAGCTCAAGAGCAA-GGGGGTCAAAGTTCGATAGGGGAAAGGAA
26684485 ATATTTGATTACCAAATGTGAATAATAAGTAAACACTATTGATCAAAATATTAAACATCTATATT
1 ATATTTGATTACCAAATGTGAATAATAAGTAAACACTATTGATCAAAATATTAAACATCTATATT
26684550 TATACTTATTTAGCTCAAGAGCAAGGGGGTCAAAGTTCGATAGGGGAAAGGAA
66 TATACTTATTTAGCTCAAGAGCAAGGGGGTCAAAGTTCGATAGGGGAAAGGAA
26684603 A
1 A
26684604 AAGTGATCGA
Statistics
Matches: 116, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
118 28 0.24
119 88 0.76
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (118 bp):
ATATTTGATTACCAAATGTGAATAATAAGTAAACACTATTGATCAAAATATTAAACATCTATATT
TATACTTATTTAGCTCAAGAGCAAGGGGGTCAAAGTTCGATAGGGGAAAGGAA
Found at i:26684827 original size:42 final size:41
Alignment explanation
Indices: 26684733--26684839 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 41
26684723 TCGGGGTTTA
* * * *
26684733 AATCCGAGGTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTAAG
*
26684774 AATCCGAGCTTGGTCTCGAAGGGCTTTTTGAGTCAGCGCTAAG
1 AATCCGAGCTTGGTCTCGAAGGGC-TTTTGAGCCAGCG-TAAG
*
26684817 AAT-CGGGCTTGGT-TCCGAAGGGC
1 AATCCGAGCTTGGTCT-CGAAGGGC
26684840 GTCTGTGACG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 24 0.42
42 28 0.49
43 5 0.09
ACGTcount: A:0.20, C:0.21, G:0.33, T:0.27
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTAAG
Found at i:26687284 original size:23 final size:23
Alignment explanation
Indices: 26687241--26687285 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
26687231 GAAAAGAACT
* *
26687241 GAAAAGAAATCTAAAGCCTAAAA
1 GAAAAGAAAACTAAAGACTAAAA
26687264 GAAAAGAAAACTAGAA-ACTAAA
1 GAAAAGAAAACTA-AAGACTAAA
26687286 TTATAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (23 bp):
GAAAAGAAAACTAAAGACTAAAA
Found at i:26691435 original size:26 final size:26
Alignment explanation
Indices: 26691406--26691461 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
26691396 TGGTACAAAT
26691406 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
26691432 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26691458 TGAT
1 TGAT
26691462 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:26692766 original size:28 final size:26
Alignment explanation
Indices: 26692724--26692798 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
26692714 AAAAGTAGCT
* * *
26692724 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
26692752 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
26692778 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
26692799 GGTTACTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:26693013 original size:27 final size:27
Alignment explanation
Indices: 26692904--26693035 Score: 117
Period size: 27 Copynumber: 4.9 Consensus size: 27
26692894 GGAAGCGTCT
* * * *
26692904 TGGTGGCTATGCCACAATTTATATAATC
1 TGGTGGCTCTGCCACAATATCTGT-ATC
* *
26692932 TGGTGGCTCTGCCACATATATTTGT-CC
1 TGGTGGCTCTGCCACA-ATATCTGTATC
*
26692959 TGGTGGCTATGCCACAATTATCTG-ATC
1 TGGTGGCTCTGCCACAA-TATCTGTATC
*
26692986 TGGTGGCTCTGCCACAATATCGGTATC
1 TGGTGGCTCTGCCACAATATCTGTATC
* *
26693013 TGGTGACT-TCCTCACAATATCTG
1 TGGTGGCTCTGC-CACAATATCTG
26693036 GCAGCCTCAC
Statistics
Matches: 86, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
26 8 0.09
27 58 0.67
28 15 0.17
29 5 0.06
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTGTATC
Found at i:26693017 original size:54 final size:55
Alignment explanation
Indices: 26692904--26693009 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 55
26692894 GGAAGCGTCT
**
26692904 TGGTGGCTATGCCACAATTTATATAATCTGGTGGCTCTGCCACATATATTTGTCC
1 TGGTGGCTATGCCACAATTTATATAATCTGGTGGCTCTGCCACATATATCGGTCC
* *
26692959 TGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACA-ATATCGGT
1 TGGTGGCTATGCCACAATTTATATAATCTGGTGGCTCTGCCACATATATCGGT
26693010 ATCTGGTGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
53 6 0.13
54 24 0.51
55 17 0.36
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (55 bp):
TGGTGGCTATGCCACAATTTATATAATCTGGTGGCTCTGCCACATATATCGGTCC
Found at i:26696897 original size:85 final size:85
Alignment explanation
Indices: 26696754--26697102 Score: 671
Period size: 85 Copynumber: 4.1 Consensus size: 85
26696744 GGCCGGCCAT
*
26696754 GAGCATAGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
26696819 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
26696839 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
26696904 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
26696924 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
26696989 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
26697009 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
26697074 GTAAGGGTTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
26697094 GGGCATGGG
1 GAGCATGGG
26697103 CAATAAAATA
Statistics
Matches: 261, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 261 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:26699335 original size:47 final size:47
Alignment explanation
Indices: 26699284--26699427 Score: 225
Period size: 47 Copynumber: 3.1 Consensus size: 47
26699274 TTAGGATTTT
* * *
26699284 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
26699331 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
26699378 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
26699425 ATG
1 ATG
26699428 CGAAACGTGT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 89 1.00
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:26699781 original size:37 final size:37
Alignment explanation
Indices: 26699636--26699780 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
26699626 GGAAATATAT
*
26699636 TCCGGGTAAGACCCGACGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
26699673 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
26699710 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
26699747 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
26699781 TCGTCTGAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:26703080 original size:17 final size:17
Alignment explanation
Indices: 26703060--26703094 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
26703050 CGAGGAGGAA
*
26703060 ATTTCTTTATGGAGGGT
1 ATTTCTTTAAGGAGGGT
26703077 ATTTCTTTAAGGAGGGT
1 ATTTCTTTAAGGAGGGT
26703094 A
1 A
26703095 GAGTTGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.43
Consensus pattern (17 bp):
ATTTCTTTAAGGAGGGT
Found at i:26703450 original size:26 final size:26
Alignment explanation
Indices: 26703421--26703673 Score: 380
Period size: 26 Copynumber: 9.7 Consensus size: 26
26703411 TGGTACAAAT
* *
26703421 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAAGGATTAGGTAAATGTTCCA
*
26703447 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAAAGGATTAGGTAAATGTTCCA
* *
26703473 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAAGGATTAGGTAAATGTTCCA
*
26703499 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAAAGGATTAGGTAAATGTTCCA
* *
26703525 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAAGGATTAGGTAAATGTTCCA
*
26703551 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAAAGGATTAGGTAAATGTTCCA
* *
26703577 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAAGGATTAGGTAAATGTTCCA
*
26703603 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAAAGGATTAGGTAAATGTTCCA
* *
26703629 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAAGGATTAGGTAAATGTTCCA
26703655 TGATAAAGGATTAGGTAAA
1 TGATAAAGGATTAGGTAAA
26703674 ATGAAATAAG
Statistics
Matches: 201, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 201 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (26 bp):
TGATAAAGGATTAGGTAAATGTTCCA
Found at i:26703483 original size:52 final size:52
Alignment explanation
Indices: 26703421--26704275 Score: 534
Period size: 52 Copynumber: 16.6 Consensus size: 52
26703411 TGGTACAAAT
*
26703421 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
*
26703473 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
*
26703525 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
*
26703577 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
* *
26703629 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAA-A-T-GA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
* *** * * *
26703678 -AATAA-GACCTATGTGAAAATGTT---TGA-AAATGCTATAGGCT-AA-A-T---
1 TGATAATGGGTTA-G-GTAAATGTTCCATGATAAAGGGT-TAGG-TAAATATTCCA
* ** ** * * * * * * *
26703722 TGA-AGT-GGCCAAATAAATAGAAGTGCA-AAAAAAGAGGATT-TGTATGACAAACCTCCCA
1 TGATAATGGGTTAGGTAAAT-G--TTCCATGATAAAG-GG-TTAGGTA--A-ATA--TTCCA
** * ** * * *** * **
26703780 TTTTACATGAAGTGTCCAGCCATCATGTT--ATTG-TAGA-CAATATGAGCACTTGATATCCA
1 TGATA-ATG--G-GT-TAGGTA-AATGTTCCA-TGATAAAGGGTTA-G-GTAAAT-AT-TCCA
* * * * *
26703839 TAATTCAT-GG-TA--CAAA---T---TGATAATGGGTTAGGTAAATGTTCCA
1 TGA-TAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
* * * * *
26703882 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
* * * * *
26703934 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
* * * * *
26703986 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
* * * * *
26704038 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
* * * * *
26704090 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
* * * * *
26704142 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
* * * * *
26704194 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
*
26704246 TGATAATGGTTTAGGTAAATGTTCCATGAT
1 TGATAATGGGTTAGGTAAATGTTCCATGAT
26704276 GGGCATTTCA
Statistics
Matches: 684, Mismatches: 65, Indels: 108
0.80 0.08 0.13
Matches are distributed among these distances:
42 6 0.01
43 8 0.01
44 6 0.01
45 12 0.02
46 17 0.02
47 9 0.01
48 9 0.01
49 12 0.02
50 4 0.01
51 4 0.01
52 567 0.83
53 1 0.00
55 1 0.00
56 1 0.00
58 2 0.00
59 8 0.01
60 3 0.00
61 1 0.00
62 4 0.01
63 2 0.00
64 1 0.00
65 4 0.01
66 2 0.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGGTTAGGTAAATATTCCA
Found at i:26703885 original size:26 final size:26
Alignment explanation
Indices: 26703856--26704275 Score: 642
Period size: 26 Copynumber: 16.2 Consensus size: 26
26703846 TGGTACAAAT
26703856 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
26703882 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26703908 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
26703934 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26703960 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
26703986 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26704012 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
26704038 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26704064 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
26704090 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26704116 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
26704142 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26704168 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
26704194 TGATAAAGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26704220 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
26704246 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
26704272 TGAT
1 TGAT
26704276 GGGCATTTCA
Statistics
Matches: 351, Mismatches: 43, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 351 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:26704056 original size:435 final size:435
Alignment explanation
Indices: 26703239--26704108 Score: 1722
Period size: 435 Copynumber: 2.0 Consensus size: 435
26703229 GGGTGAAATT
26703239 ATGAAAAAAGACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTGGCCAAATAAA
1 ATGAAAAAAGACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTGGCCAAATAAA
26703304 TAGAAGTGCAAAAAAAGAGGATTTCTATGACAAACCTCCCATTTTACATGAAGTGTCCAGCCATC
66 TAGAAGTGCAAAAAAAGAGGATTTCTATGACAAACCTCCCATTTTACATGAAGTGTCCAGCCATC
26703369 ATGTTATTGTAGACAATATGAGCACTTGATATCCATAATTCATGGTACAAATTGATAATGGGTTA
131 ATGTTATTGTAGACAATATGAGCACTTGATATCCATAATTCATGGTACAAATTGATAATGGGTTA
26703434 GGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
196 GGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
26703499 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTA
261 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTA
26703564 GGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
326 GGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
26703629 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAA
391 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAA
*
26703674 ATGAAATAAGACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTGGCCAAATAAA
1 ATGAAAAAAGACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTGGCCAAATAAA
*
26703739 TAGAAGTGCAAAAAAAGAGGATTTGTATGACAAACCTCCCATTTTACATGAAGTGTCCAGCCATC
66 TAGAAGTGCAAAAAAAGAGGATTTCTATGACAAACCTCCCATTTTACATGAAGTGTCCAGCCATC
26703804 ATGTTATTGTAGACAATATGAGCACTTGATATCCATAATTCATGGTACAAATTGATAATGGGTTA
131 ATGTTATTGTAGACAATATGAGCACTTGATATCCATAATTCATGGTACAAATTGATAATGGGTTA
26703869 GGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
196 GGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
26703934 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTA
261 TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTA
26703999 GGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
326 GGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
26704064 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAA
391 TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAA
26704109 TATTCCATGA
Statistics
Matches: 433, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
435 433 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (435 bp):
ATGAAAAAAGACCTATGTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTGGCCAAATAAA
TAGAAGTGCAAAAAAAGAGGATTTCTATGACAAACCTCCCATTTTACATGAAGTGTCCAGCCATC
ATGTTATTGTAGACAATATGAGCACTTGATATCCATAATTCATGGTACAAATTGATAATGGGTTA
GGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCA
TGATAAAGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTA
GGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAATATTCCA
TGATAATGGGTTAGGTAAATGTTCCATGATAAAGGATTAGGTAAA
Found at i:26705579 original size:28 final size:26
Alignment explanation
Indices: 26705537--26705611 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
26705527 AAAAGTAGCT
* * *
26705537 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
26705565 AAATTACTGTTATACTCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
* *
26705591 AAATTACCGTTATACCTCTAG
1 AAATTACTGTTATACCCCTAG
26705612 GGTTACTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.54
27 1 0.03
28 17 0.44
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:26705806 original size:54 final size:53
Alignment explanation
Indices: 26705713--26705857 Score: 193
Period size: 54 Copynumber: 2.7 Consensus size: 53
26705703 TGGAGGAAGC
* *
26705713 GTCCTGGTGGTTATGTCC-CAATTTATCTAATCTGATGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATG-CCACAA-TTATCT-ATCTGGTGGCTCTGCCACATATATCT
26705768 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCT-ATCTGGTGGCTCTGCCACATATATCT
* * *
26705822 GTTCTGGTGGCTCTGCCACAATATTTCTATCTGGTG
1 GTCCTGGTGGCTATGCCACAAT-TATCTATCTGGTG
26705858 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
54 61 0.74
55 21 0.26
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (53 bp):
GTCCTGGTGGCTATGCCACAATTATCTATCTGGTGGCTCTGCCACATATATCT
Found at i:26705854 original size:27 final size:27
Alignment explanation
Indices: 26705736--26705857 Score: 151
Period size: 27 Copynumber: 4.5 Consensus size: 27
26705726 TGTCCCAATT
* *
26705736 TATCTAATCTGATGGCTCTGCCACATA
1 TATCTGATCTGGTGGCTCTGCCACATA
*
26705763 TATCTG-TCCTGGTGGCTATGCCACA-A
1 TATCTGAT-CTGGTGGCTCTGCCACATA
26705789 TTATCTGATCTGGTGGCTCTGCCACATA
1 -TATCTGATCTGGTGGCTCTGCCACATA
*
26705817 TATCTGTTCTGGTGGCTCTGCCACAATA
1 TATCTGATCTGGTGGCTCTGCCAC-ATA
*
26705845 TTTCT-ATCTGGTG
1 TATCTGATCTGGTG
26705858 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.02
27 72 0.87
28 9 0.11
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
TATCTGATCTGGTGGCTCTGCCACATA
Found at i:26707679 original size:21 final size:20
Alignment explanation
Indices: 26707629--26707679 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
26707619 TTTTTTTTAG
*
26707629 GATTTCTTTTATCGTGTTTT
1 GATTTCTTTTATCGTGTTGT
*
26707649 GATTTTTTTTATTC-TGTTGT
1 GATTTCTTTTA-TCGTGTTGT
26707669 GAATTTCTTTT
1 G-ATTTCTTTT
26707680 GGGAGGGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.12, C:0.08, G:0.14, T:0.67
Consensus pattern (20 bp):
GATTTCTTTTATCGTGTTGT
Found at i:26720272 original size:21 final size:20
Alignment explanation
Indices: 26720213--26720272 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 20
26720203 ACAAATAGTC
26720213 ATAAATGCAATTACTTAAT-
1 ATAAATGCAATTACTTAATA
* *
26720232 AT-GATGTCAATT-CATGAATA
1 ATAAATG-CAATTAC-TTAATA
26720252 AGTAAATGCAATTACTTAATA
1 A-TAAATGCAATTACTTAATA
26720273 TGGTATGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
18 4 0.13
19 11 0.35
20 1 0.03
21 11 0.35
22 4 0.13
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
ATAAATGCAATTACTTAATA
Found at i:26723061 original size:12 final size:12
Alignment explanation
Indices: 26723046--26723077 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
26723036 CACTGTAAGG
26723046 GTAACAGTAATA
1 GTAACAGTAATA
*
26723058 GTAATAGTAATA
1 GTAACAGTAATA
26723070 GTAACAGT
1 GTAACAGT
26723078 CAGGTACGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (12 bp):
GTAACAGTAATA
Found at i:26726219 original size:14 final size:14
Alignment explanation
Indices: 26726200--26726227 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26726190 AAAAACAGGC
26726200 GACGTTAAATGGAA
1 GACGTTAAATGGAA
26726214 GACGTTAAATGGAA
1 GACGTTAAATGGAA
26726228 AACATCAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (14 bp):
GACGTTAAATGGAA
Found at i:26726510 original size:16 final size:16
Alignment explanation
Indices: 26726485--26726515 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26726475 TATATAGATC
*
26726485 ATATATATTAAATTTG
1 ATATAAATTAAATTTG
26726501 ATATAAATTAAATTT
1 ATATAAATTAAATTT
26726516 TTTAATTATT
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATAAATTAAATTTG
Found at i:26726696 original size:11 final size:11
Alignment explanation
Indices: 26726680--26726711 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
26726670 TTAATATATT
26726680 AATTATAAAAA
1 AATTATAAAAA
26726691 AATTATAAAAA
1 AATTATAAAAA
*
26726702 AAATATAAAA
1 AATTATAAAA
26726712 TTACCCTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AATTATAAAAA
Found at i:26734001 original size:9 final size:9
Alignment explanation
Indices: 26733979--26734015 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
26733969 ATTCGAAAAA
26733979 AATTCGAGTT
1 AATTCGA-TT
26733989 AATTCGATT
1 AATTCGATT
26733998 AATTCGATT
1 AATTCGATT
*
26734007 AACTCGATT
1 AATTCGATT
26734016 TGAATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (9 bp):
AATTCGATT
Found at i:26741934 original size:21 final size:20
Alignment explanation
Indices: 26741896--26741935 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
26741886 TACATGTGTG
26741896 TTTTGATGATTTATGATAGA
1 TTTTGATGATTTATGATAGA
26741916 TTTTGAATG-TTTGATGATAG
1 TTTTG-ATGATTT-ATGATAG
26741936 TTATACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.50
Consensus pattern (20 bp):
TTTTGATGATTTATGATAGA
Found at i:26753153 original size:3 final size:3
Alignment explanation
Indices: 26753147--26753214 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
26753137 ATGATTGTTT
*
26753147 ATC ATC ATC ATC ATT ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
26753195 ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC AT
26753215 ATATTTCTGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:26757865 original size:21 final size:21
Alignment explanation
Indices: 26757836--26757891 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
26757826 ACGGGCTTCT
26757836 CACATGGGCATGTAT-CCGCTC
1 CACATGGGCATGTATGCC-CTC
* * * *
26757857 CACACGGGCGTGTGTGCCCTT
1 CACATGGGCATGTATGCCCTC
26757878 CACATGGGCATGTA
1 CACATGGGCATGTA
26757892 GACACCCACA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.18, C:0.30, G:0.29, T:0.23
Consensus pattern (21 bp):
CACATGGGCATGTATGCCCTC
Found at i:26761238 original size:34 final size:34
Alignment explanation
Indices: 26761195--26761306 Score: 188
Period size: 34 Copynumber: 3.3 Consensus size: 34
26761185 TGACTACTAC
26761195 TGATACTGTGATGGGCTAAGGCCCTAATGCATAT
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATAT
*
26761229 TGATACTGTGATGGGCTAAGGCCCTAATGCATAC
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATAT
* *
26761263 TGATATTGTGATGGGCTAAGGCCCTACTGCATATT
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATA-T
26761298 TGATACTGT
1 TGATACTGT
26761307 ACTAAGATGG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
34 64 0.89
35 8 0.11
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (34 bp):
TGATACTGTGATGGGCTAAGGCCCTAATGCATAT
Found at i:26761269 original size:40 final size:39
Alignment explanation
Indices: 26761195--26761326 Score: 124
Period size: 34 Copynumber: 3.6 Consensus size: 39
26761185 TGACTACTAC
26761195 TGATACTGTGATGGGCTAAGGCCCTAATGC--A-T-AT-
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATACTGATA
26761229 TGATACTGTGATGGGCTAAGGCCCTAATGCATACTG--A
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATACTGATA
* *
26761266 T-AT--TGTGATGGGCTAAGGCCCTACTGCATATTTGATA
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATA-CTGATA
** *
26761303 CTG-TACTAAGATGGGCAAAGGCCC
1 -TGATACTGTGATGGGCTAAGGCCC
26761327 AAACCGTTAC
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
34 56 0.69
35 2 0.02
36 3 0.04
37 3 0.04
38 2 0.02
40 15 0.19
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (39 bp):
TGATACTGTGATGGGCTAAGGCCCTAATGCATACTGATA
Found at i:26772483 original size:46 final size:46
Alignment explanation
Indices: 26772427--26772599 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
26772417 TGGTTGAGCA
26772427 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
26772473 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
26772518 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
26772566 CCCGAGCTCATTGATTTGAGTCCGAGTTAACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
26772600 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:26772585 original size:93 final size:93
Alignment explanation
Indices: 26772424--26772593 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
26772414 GGATGGTTGA
* * *
26772424 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
26772489 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
26772517 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
26772582 TGAGTCCGAGTT
66 TGAGTCCGAGTT
26772594 AACTTAGGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:26775873 original size:52 final size:52
Alignment explanation
Indices: 26775811--26775952 Score: 156
Period size: 52 Copynumber: 2.9 Consensus size: 52
26775801 AAACCCAATT
* * *
26775811 ACATGTATCGCGTCCATAATGAACTTGGACCAACTCAATGAGCTCGGATGTC
1 ACATGTATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGTC
* * *
26775863 ACATGTATCGCATCCATTATGAACTCGGATCAACTCAACGAGCTTGGATG--
1 ACATGTATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGTC
* *
26775913 -C-TG----GCATCCATAATGAACTCAGACCAACTTAACGAGCTCG
1 ACATGTATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCG
26775953 AATGCCTCAT
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
44 32 0.41
48 2 0.03
49 1 0.01
52 44 0.56
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (52 bp):
ACATGTATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGTC
Found at i:26778762 original size:15 final size:15
Alignment explanation
Indices: 26778734--26778785 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
26778724 GATGACATGA
*
26778734 AAAT-CAAGATAAAG
1 AAATCCAAGAGAAAG
*
26778748 AAGTCCAAGAGAAAG
1 AAATCCAAGAGAAAG
* *
26778763 AAATCCAAGATACAG
1 AAATCCAAGAGAAAG
26778778 AAATCCAA
1 AAATCCAA
26778786 AATACAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 3 0.09
15 29 0.91
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
AAATCCAAGAGAAAG
Found at i:26778790 original size:15 final size:15
Alignment explanation
Indices: 26778761--26778791 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26778751 TCCAAGAGAA
*
26778761 AGAAATCCAAGATAC
1 AGAAATCCAAAATAC
26778776 AGAAATCCAAAATAC
1 AGAAATCCAAAATAC
26778791 A
1 A
26778792 ATATCATAAT
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:0.58, C:0.19, G:0.10, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAAATAC
Found at i:26782697 original size:52 final size:52
Alignment explanation
Indices: 26782619--26782722 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
26782609 CGAAACCCAA
* *
26782619 TTACATGTATCGCATCCATAATGAACTC-GAACCAACTTAATGAGCTCGGATG
1 TTACATGTATCGCATCCATAATGAACTCAG-ACCAACTCAACGAGCTCGGATG
* *
26782671 TTACATGTATCGCATCCATTATGAACTCAGATCAACTCAACGAGCTCGGATG
1 TTACATGTATCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATG
26782723 CTCGCATCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 46 0.98
53 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (52 bp):
TTACATGTATCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATG
Found at i:26788854 original size:34 final size:34
Alignment explanation
Indices: 26788811--26788891 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
26788801 GCATGACTGC
* *
26788811 TACTGATACTATGATGGGCTAAGGTCCTAATGCA
1 TACTGATACTATGATGGGCTAAGGCCCTAATACA
* *
26788845 TACTGATACTGTGATGGGCTAAGGCCCTACTACA
1 TACTGATACTATGATGGGCTAAGGCCCTAATACA
*
26788879 TATTTGATACTAT
1 TA-CTGATACTAT
26788892 ACTGAAATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 32 0.80
35 8 0.20
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (34 bp):
TACTGATACTATGATGGGCTAAGGCCCTAATACA
Found at i:26792505 original size:48 final size:48
Alignment explanation
Indices: 26792428--26792528 Score: 175
Period size: 48 Copynumber: 2.1 Consensus size: 48
26792418 TATATATTGT
* *
26792428 CACCCTGATTGCCCGACAACGATGGTTTTCTCAATTGGATTAATCTGC
1 CACCCTGATTGCCCAACAACGATGATTTTCTCAATTGGATTAATCTGC
*
26792476 CACCCTGATTGCCCAACAATGATGATTTTCTCAATTGGATTAATCTGC
1 CACCCTGATTGCCCAACAACGATGATTTTCTCAATTGGATTAATCTGC
26792524 CACCC
1 CACCC
26792529 AAGGTTTCCC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (48 bp):
CACCCTGATTGCCCAACAACGATGATTTTCTCAATTGGATTAATCTGC
Done.