Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 159 of 276
Found at i:51710967 original size:79 final size:82
Alignment explanation
Indices: 51710856--51711039 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 82
51710846 GCTCCTCGTT
* *
51710856 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
51710918 CGGAT-TTAGTAAC-TCGCA
64 CGGATATT-GTAACTTAGCA
**
51710936 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
*
51710999 GATATTGTCACTTAGCA
66 GATATTGTAACTTAGCA
51711016 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51711040 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
GATATTGTAACTTAGCA
Found at i:51710973 original size:39 final size:41
Alignment explanation
Indices: 51710856--51711039 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
51710846 GCTCCTCGTT
* *
51710856 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
51710896 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
51710936 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
51710975 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
51711016 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51711040 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:51712881 original size:27 final size:27
Alignment explanation
Indices: 51712851--51713028 Score: 106
Period size: 27 Copynumber: 6.6 Consensus size: 27
51712841 ATAGTGAGCC
* * *
51712851 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
51712878 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
51712905 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** **
51712933 CGCACACTTAGTGCCGCATGGTCATTT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
51712960 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
51712987 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
51713014 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51713029 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:51712990 original size:82 final size:81
Alignment explanation
Indices: 51712877--51713027 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
51712867 TACAATCAAC
* * *
51712877 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCACACTT
51712942 AGTGCCGCATGGTCATT
65 AGTGCCGCATGGTCATT
* ** *
51712959 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCACACTT
51713023 AGTGC
65 AGTGC
51713028 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 20 0.33
82 41 0.67
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCACACTTA
GTGCCGCATGGTCATT
Found at i:51721036 original size:79 final size:81
Alignment explanation
Indices: 51720934--51721117 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
51720924 GCTCCTCGTT
* *
51720934 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCACACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCACACAAATGCCTTC-GGATCTTAACC
*
51720996 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
* **
51721014 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGATCTTAACCCGG
*
51721078 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
51721094 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51721118 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:51721051 original size:39 final size:41
Alignment explanation
Indices: 51720934--51721117 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
51720924 GCTCCTCGTT
* * *
51720934 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
51720974 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
51721014 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
51721053 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
51721094 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51721118 CATCATTCAA
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 65 0.51
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:51722956 original size:16 final size:15
Alignment explanation
Indices: 51722935--51722964 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
51722925 GAATGGAGTA
51722935 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
51722951 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
51722965 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:51723142 original size:35 final size:35
Alignment explanation
Indices: 51723096--51723166 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
51723086 GGAAATGGTG
*
51723096 TAAGCAAAAGAATTTCATATTATGGGATATTTGAA
1 TAAGCAAAAGAATTTCATATTATGAGATATTTGAA
51723131 TAAGCAAAAGAATTTCATATTATGAGATATTTGAA
1 TAAGCAAAAGAATTTCATATTATGAGATATTTGAA
51723166 T
1 T
51723167 TTTTGTGAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (35 bp):
TAAGCAAAAGAATTTCATATTATGAGATATTTGAA
Found at i:51730142 original size:50 final size:50
Alignment explanation
Indices: 51730025--51730359 Score: 273
Period size: 50 Copynumber: 6.6 Consensus size: 50
51730015 TTGTGAGAAG
* ***
51730025 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGA-AGGTTTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA-G--TTAGGTC
* *
51730077 ACGTGTGTAGGACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTC
* * * * * * *
51730127 GCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCA-ACAACTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGA-TAGTTAGGTC
** * * * *
51730178 ATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTC
* * * ** *
51730228 ACATGTGTAGTACTAAGTACAGGTTACAACATGTACCCA-ATTGTT-GGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAGTTAGGTC
* * * *
51730277 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGGTT
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTAGGTC
* * * * *
51730328 ACAAGGGTAGTAATATGTGCAGGCAACTATGT
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGT
51730360 ATTTGTTATT
Statistics
Matches: 224, Mismatches: 51, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
48 3 0.01
49 35 0.16
50 80 0.36
51 70 0.31
52 35 0.16
53 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTC
Found at i:51730282 original size:101 final size:99
Alignment explanation
Indices: 51730079--51730319 Score: 261
Period size: 101 Copynumber: 2.4 Consensus size: 99
51730069 TTTAGGTCAC
* * *
51730079 GTGTGTAGGACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAG
* * **
51730144 TGCAAGCTACTATGCGTACCCAACAACTTCGATCA
66 TACAAGCTACAACACGTACCCAACAACTTCGA-CA
* * *
51730179 TGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAA
* * * ****
51730244 GTACAGGTTACAACATGTACCCAATTGTTGGTCG-CA
65 GTACAAGCTACAACACGTACCCAACAACT--TCGACA
* *
51730280 -TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
51730320 CTTCGGTTAC
Statistics
Matches: 116, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
99 35 0.30
101 78 0.67
103 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (99 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAG
TACAAGCTACAACACGTACCCAACAACTTCGACA
Found at i:51730324 original size:150 final size:152
Alignment explanation
Indices: 51730028--51730313 Score: 398
Period size: 150 Copynumber: 1.9 Consensus size: 152
51730018 TGAGAAGACA
* * * * *
51730028 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGAAGGTTTTAGGTCACGTGTGTAGGACTAA
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATAAGAAGG-TTTAGGTCACATGTGTAGGACTAA
* * **
51730093 GTGCAGGCTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
65 GTACAGGCTACAACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
51730158 CGTACCCAACAACTTCGATCATG
130 CGTACCCAACAACTTCGATCATG
* * *
51730181 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGG-TTAGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATAAGAAGGTTTAGGTCACATGTGTAGGACTAAG
* * *
51730245 TACAGGTTACAACATGTACCCA-ATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
66 TACAGGCTACAACATGTA-CCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
51730308 CGTACC
130 CGTACC
51730314 AGATAGCTTC
Statistics
Matches: 117, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
150 40 0.34
151 40 0.34
152 3 0.03
153 34 0.29
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (152 bp):
TGTGTAGTACTAAGTGCAAGCTACTACGTGTATAAGAAGGTTTAGGTCACATGTGTAGGACTAAG
TACAGGCTACAACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGC
GTACCCAACAACTTCGATCATG
Found at i:51730538 original size:16 final size:15
Alignment explanation
Indices: 51730517--51730546 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
51730507 GAATGGAGTA
51730517 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
51730533 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
51730547 TAAAACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:51735424 original size:29 final size:27
Alignment explanation
Indices: 51735404--51735503 Score: 121
Period size: 27 Copynumber: 3.6 Consensus size: 27
51735394 ATATATTAAG
51735404 TCCGCACACTTAGTGCTATATAATCAA
1 TCCGCACACTTAGTGCTATATAATCAA
51735431 -CTCGCACACTTAGTGCTATATAATCAA
1 TC-CGCACACTTAGTGCTATATAATCAA
* * *
51735458 ACTCGCACACTTAGTGCTATACAATTTAAA
1 TC-CGCACACTTAGTGCTATATAA--TCAA
*
51735488 CCCGCACACTTAGTGC
1 TCCGCACACTTAGTGC
51735504 CAATCTCATG
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 25 0.38
28 22 0.33
29 14 0.21
30 4 0.06
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (27 bp):
TCCGCACACTTAGTGCTATATAATCAA
Found at i:51735469 original size:28 final size:28
Alignment explanation
Indices: 51735406--51735503 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
51735396 ATATTAAGTC
51735406 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51735433 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
51735461 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51735490 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51735504 CAATCTCATG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 23 0.35
28 24 0.36
29 19 0.29
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51738637 original size:29 final size:29
Alignment explanation
Indices: 51738596--51738715 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 29
51738586 GCCCAATGTT
*
51738596 ATTCAT-TTGGCCCATCAGACCCAATTCAC
1 ATTCATATT-GCCCATCAGACCCAAATCAC
* *
51738625 ATTCATATTGCCCATTAGGCCCAAATCAC
1 ATTCATATTGCCCATCAGACCCAAATCAC
* * * *
51738654 ATTTATATGGCCCATGAGGCCCAAATCAC
1 ATTCATATTGCCCATCAGACCCAAATCAC
* *
51738683 ATTTATATAGCCCA-CTAGACCC-AATCAC
1 ATTCATATTGCCCATC-AGACCCAAATCAC
*
51738711 TTTCA
1 ATTCA
51738716 CAGTCATGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
28 9 0.12
29 67 0.86
30 2 0.03
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.28
Consensus pattern (29 bp):
ATTCATATTGCCCATCAGACCCAAATCAC
Found at i:51738955 original size:16 final size:16
Alignment explanation
Indices: 51738935--51738981 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
51738925 AAACTTTCAG
51738935 CTTTTCAGCATTTCGA
1 CTTTTCAGCATTTCGA
* * *
51738951 TTTTTCAACATTTTGA
1 CTTTTCAGCATTTCGA
*
51738967 CTTTTCGGCATTTCG
1 CTTTTCAGCATTTCG
51738982 GGATTTGCCG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.49
Consensus pattern (16 bp):
CTTTTCAGCATTTCGA
Found at i:51743208 original size:29 final size:29
Alignment explanation
Indices: 51743139--51743309 Score: 179
Period size: 29 Copynumber: 5.9 Consensus size: 29
51743129 AAGTCTACAT
*
51743139 ACATGCATATGGCCCA-CTAGGCCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
** * *
51743167 TTATTCATATGGCCTATCAGGCCCAATTA
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
51743196 ACATTCATATGGCCCATCAGACCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* * *
51743225 ACATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
51743254 ACATTTATATGGCCCA-CTAGGCCCAAATC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
*
51743283 ACATTTATATGGCCCA-CTAGGCCCAAT
1 ACATTCATATGGCCCATC-AGGCCCAAT
51743310 CACTTTTACA
Statistics
Matches: 122, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
28 20 0.16
29 102 0.84
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:51743250 original size:58 final size:57
Alignment explanation
Indices: 51743139--51743309 Score: 200
Period size: 58 Copynumber: 3.0 Consensus size: 57
51743129 AAGTCTACAT
* ** * *
51743139 ACATGCATATGGCCCACTAGGCCCAATCTTATTCATATGGCCTATCAGGCCCAATTA
1 ACATTCATATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAATTA
* * * *
51743196 ACATTCATATGGCCCA-TCAGACCCAATTCACATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACT-AGGCCCAA-TCACATTCATATGGCCCATTAGGCCCAATTA
* * *
51743254 ACATTTATATGGCCCACTAGGCCCAAATCACATTTATATGGCCCACTAGGCCCAAT
1 ACATTCATATGGCCCACTAGGCCC-AATCACATTCATATGGCCCATTAGGCCCAAT
51743310 CACTTTTACA
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
56 1 0.01
57 22 0.23
58 69 0.73
59 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.25
Consensus pattern (57 bp):
ACATTCATATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAATTA
Found at i:51743309 original size:87 final size:86
Alignment explanation
Indices: 51743139--51743298 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 86
51743129 AAGTCTACAT
* ** * *
51743139 ACATGCATATGGCCCACTAGGCCCAATCTTATTCATATGGCCTATCAGGCCCAATTAACATTCAT
1 ACATGCATATGACCCACTAGGCCCAATCACATTCATATGGCCCATCAGGCCCAAATAACATTCAT
51743204 ATGGCCCATCAGACCCAATTC
66 ATGGCCCATCAGACCCAATTC
* * * * *
51743225 ACATTCATATGACCCATTAGGCCCAAATCACATTTATATGGCCCA-CTAGGCCCAAATCACATTT
1 ACATGCATATGACCCACTAGGCCC-AATCACATTCATATGGCCCATC-AGGCCCAAATAACATTC
51743289 ATATGGCCCA
64 ATATGGCCCA
51743299 CTAGGCCCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
86 22 0.35
87 40 0.65
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (86 bp):
ACATGCATATGACCCACTAGGCCCAATCACATTCATATGGCCCATCAGGCCCAAATAACATTCAT
ATGGCCCATCAGACCCAATTC
Found at i:51743554 original size:16 final size:16
Alignment explanation
Indices: 51743529--51743564 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
51743519 GTAGCCAAAC
51743529 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCGGCA
*
51743545 TTTCGGCTTTTCGGCA
1 TTTCGACTTTTCGGCA
51743561 TTTC
1 TTTC
51743565 AGGATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.25, G:0.19, T:0.47
Consensus pattern (16 bp):
TTTCGACTTTTCGGCA
Found at i:51748209 original size:18 final size:17
Alignment explanation
Indices: 51748179--51748213 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51748169 TGGTGCTAGT
51748179 ATGCATAACATAAATAA
1 ATGCATAACATAAATAA
*
51748196 ATGCGATAATATAAATAA
1 ATGC-ATAACATAAATAA
51748214 CAATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.26
Consensus pattern (17 bp):
ATGCATAACATAAATAA
Found at i:51748385 original size:15 final size:17
Alignment explanation
Indices: 51748365--51748421 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
51748355 AACAAAAAAC
51748365 ATAAAA-TAAAATAA-A
1 ATAAAAGTAAAATAATA
51748380 ATAAAAAGGTAATAATAATA
1 AT-AAAA-GTAA-AATAATA
*
51748400 ATAATAATTAAAATAATA
1 ATAA-AAGTAAAATAATA
51748418 ATAA
1 ATAA
51748422 TATAAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 2 0.06
16 4 0.11
18 14 0.40
19 10 0.29
20 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (17 bp):
ATAAAAGTAAAATAATA
Found at i:51748397 original size:3 final size:3
Alignment explanation
Indices: 51748389--51748423 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
51748379 AATAAAAAGG
51748389 TAA TAA TAA TAA TAA TAA TTAA -AA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
51748424 TAAATTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:51748422 original size:15 final size:16
Alignment explanation
Indices: 51748365--51748427 Score: 60
Period size: 15 Copynumber: 4.0 Consensus size: 16
51748355 AACAAAAAAC
*
51748365 ATAA-AATAAAATAAA
1 ATAATAATAATATAAA
* *
51748380 ATAAAAAGGTAATA-ATA
1 ATAATAA--TAATATAAA
51748397 ATAATAATAAT-TAAA
1 ATAATAATAATATAAA
51748412 ATAATAATAATATAAA
1 ATAATAATAATATAAA
51748428 TTTTGAAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 21 0.54
16 6 0.15
17 8 0.21
18 4 0.10
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
ATAATAATAATATAAA
Found at i:51748480 original size:20 final size:19
Alignment explanation
Indices: 51748440--51748478 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51748430 TTGAAAGTAT
*
51748440 ATAAAAGATATATATACAA
1 ATAAAAGATAAATATACAA
51748459 ATAAATAGATAAATA-ACAA
1 ATAAA-AGATAAATATACAA
51748478 A
1 A
51748479 ATGGCAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (19 bp):
ATAAAAGATAAATATACAA
Found at i:51750658 original size:19 final size:20
Alignment explanation
Indices: 51750634--51750673 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
51750624 TGTGACATTT
* *
51750634 AATGCATATG-ATGCGATGA
1 AATGCAAATGCATGAGATGA
51750653 AATGCAAATGCATGAGATGA
1 AATGCAAATGCATGAGATGA
51750673 A
1 A
51750674 TGTAGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (20 bp):
AATGCAAATGCATGAGATGA
Found at i:51754486 original size:94 final size:94
Alignment explanation
Indices: 51754302--51754770 Score: 886
Period size: 94 Copynumber: 5.0 Consensus size: 94
51754292 AATGTGACCG
* * *
51754302 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAA-TTTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
51754366 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
51754395 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
51754460 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
51754489 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
51754554 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
51754583 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
51754648 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
51754677 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
* *
51754742 GAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
51754771 GAATGTTGAT
Statistics
Matches: 370, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
93 44 0.12
94 326 0.88
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:51754831 original size:24 final size:24
Alignment explanation
Indices: 51754799--51754862 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
51754789 GAAAATTTCA
* *
51754799 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
51754823 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
51754847 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
51754863 ATTTGGTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:51757522 original size:4 final size:4
Alignment explanation
Indices: 51757507--51757544 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
51757497 AAAAATAATC
51757507 AATA AGATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA A-ATA AATA AATA AATA AATA AATA AATA AATA A
51757545 TCAAGCTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:51757686 original size:21 final size:17
Alignment explanation
Indices: 51757649--51757702 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
51757639 AAAAAACATT
51757649 AAATAA-AATAA-AATAA
1 AAATAATAATAATAAT-A
51757665 AAAGGTAATAATAATAATTA
1 AAA--TAATAATAATAA-TA
51757685 AAATAATAATAAT-ATA
1 AAATAATAATAATAATA
51757701 AA
1 AA
51757703 TTTTGAAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 7 0.21
17 1 0.03
18 13 0.39
19 5 0.15
20 6 0.18
21 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (17 bp):
AAATAATAATAATAATA
Found at i:51757691 original size:15 final size:16
Alignment explanation
Indices: 51757671--51757702 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
51757661 ATAAAAAGGT
51757671 AATAATAATAAT-TAA
1 AATAATAATAATATAA
51757686 AATAATAATAATATAA
1 AATAATAATAATATAA
51757702 A
1 A
51757703 TTTTGAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAATAATAATATAA
Found at i:51757755 original size:20 final size:19
Alignment explanation
Indices: 51757715--51757753 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51757705 TTGAAAGTAT
*
51757715 ATAAAAGATATATATACAA
1 ATAAAAGATAAATATACAA
51757734 ATAAATAGATAAATA-ACAA
1 ATAAA-AGATAAATATACAA
51757753 A
1 A
51757754 ATGGCAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (19 bp):
ATAAAAGATAAATATACAA
Found at i:51761660 original size:43 final size:43
Alignment explanation
Indices: 51761594--51761684 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
51761584 TTTGTAAGAT
* * * * *
51761594 ATGTG-GCATCCGAGCTCGTTGAGAGGTCCGATTTCATTATGG
1 ATGTGAGCATCCGAACTCATTGAGAGGTCCAAATTCATAATGG
* *
51761636 ATGTGAGCATCTGAACTCATTGAGAGTTCCAAATTCATAATGG
1 ATGTGAGCATCCGAACTCATTGAGAGGTCCAAATTCATAATGG
51761679 ATGTGA
1 ATGTGA
51761685 TTCATGTAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
ATGTGAGCATCCGAACTCATTGAGAGGTCCAAATTCATAATGG
Found at i:51763763 original size:40 final size:40
Alignment explanation
Indices: 51763705--51763921 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
51763695 CCGATGATAA
* * *
51763705 CCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
51763745 CCAGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATA-T
*
51763785 CTGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
51763824 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
51763864 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
51763904 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
51763922 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 50 0.32
40 107 0.68
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51763853 original size:79 final size:78
Alignment explanation
Indices: 51763705--51763921 Score: 260
Period size: 79 Copynumber: 2.7 Consensus size: 78
51763695 CCGATGATAA
* *
51763705 CCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGACTA-ATTCCAGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTATA-TCC-GGCTAAGTCCCGAAGGCATTG
**
51763769 TTGCGAGTTACTA-ATT
63 TTGCGAACTACTATA-T
* *
51763785 CTGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT-TG
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCC-GGCTAAGTCCCGAAGGCATTGT-
51763849 TGCGAACTACTATAT
64 TGCGAACTACTATAT
* * * *
51763864 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTGGCTATATCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTGACTATATCCGGCTAAGTCCCGAAGG
51763922 TACTTGGTTT
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 82 0.68
80 37 0.31
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCCGGCTAAGTCCCGAAGGCATTGTTG
CGAACTACTATAT
Found at i:51785820 original size:21 final size:20
Alignment explanation
Indices: 51785789--51785828 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
51785779 CCCTTGAAAC
*
51785789 AGGGCACACGCCTGTGTGGA
1 AGGGCACACGCCCGTGTGGA
51785809 AGGGCAACACGCCCGTGTGG
1 AGGGC-ACACGCCCGTGTGG
51785829 CCACTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:51790093 original size:6 final size:6
Alignment explanation
Indices: 51790075--51790204 Score: 79
Period size: 6 Copynumber: 21.0 Consensus size: 6
51790065 AAGAAACATT
* * *
51790075 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
51790124 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * *
51790175 A-CAGA ATAAAAA ATCAGA ATCAGT ATCAGA
1 ATCAGA AT-CAGA ATCAGA ATCAGA ATCAGA
51790205 TAATATAGTC
Statistics
Matches: 94, Mismatches: 18, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
5 6 0.06
6 72 0.77
7 13 0.14
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:51790119 original size:31 final size:31
Alignment explanation
Indices: 51790084--51790203 Score: 168
Period size: 31 Copynumber: 3.8 Consensus size: 31
51790074 TATCAGAACT
* * * *
51790084 AGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
51790115 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
*
51790146 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
* *
51790177 AGAATAAAAAATCAGAATCAGTATCAG
1 AGAAT-CAGAATCAGAATCAGTATCAG
51790204 ATAATATAGT
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 62 0.76
32 20 0.24
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGTATCAGGTAAC
Found at i:51790631 original size:27 final size:27
Alignment explanation
Indices: 51790601--51790869 Score: 185
Period size: 27 Copynumber: 10.0 Consensus size: 27
51790591 AAGGTACCTC
*
51790601 AGTAATTCCACCCTACAGGGGTATTTT
1 AGTAATTCTACCCTACAGGGGTATTTT
* ** *
51790628 AGTAATTCTATCCTACAGAAGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTT
* *
51790655 GGTAATTCTACCCTACAGGGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTT
* * *
51790682 GGTAATTCTACCCTACAGTGGTATTTC
1 AGTAATTCTACCCTACAGGGGTATTTT
* *
51790709 GGTAATTTTACCCTACAGGGGTA-TTT
1 AGTAATTCTACCCTACAGGGGTATTTT
* *
51790735 CGATAATTCTACCCTACAAGGGTA-TTT
1 AG-TAATTCTACCCTACAGGGGTATTTT
* **
51790762 CGTTAATT-T-CACAAATCAGGGGTATTTT
1 AG-TAATTCTAC-CCTA-CAGGGGTATTTT
* **
51790790 AGTAATTTTA-CAAACTAGGGGTATTTT
1 AGTAATTCTACCCTAC-AGGGGTATTTT
* * * *
51790817 GGTAATTTTGTAAACC-A-A-GGGTATTTC
1 AGTAA--TTCT-ACCCTACAGGGGTATTTT
*
51790844 AGTAATTCTACCCTACAAGGGTATTT
1 AGTAATTCTACCCTACAGGGGTATTT
51790870 CGTTAATTTC
Statistics
Matches: 200, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.01
25 5 0.03
26 8 0.04
27 172 0.86
28 6 0.03
29 3 0.01
30 2 0.01
31 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (27 bp):
AGTAATTCTACCCTACAGGGGTATTTT
Found at i:51790668 original size:54 final size:54
Alignment explanation
Indices: 51790602--51790904 Score: 232
Period size: 54 Copynumber: 5.6 Consensus size: 54
51790592 AGGTACCTCA
* * *
51790602 GTAATTCCACCCTACAGGGGTATTTTAGTAATTCTATCCTACAGAAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGAGGTATTTCG
** *
51790656 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGTGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGAGGTATTTCG
* *
51790710 GTAATTTTACCCTACAGGGGTA-TTTCGATAATTCTACCCTACA-AGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTAG-TAATTCTACCCTACAGA-GGTATTTCG
* ** * ** * *
51790764 TTAATT-T-CACAAATCAGGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTG
1 GTAATTCTAC-CCTA-CAGGGGTATTTTAGTAATTCTACCCTAC-AGAGGTATTTCG
* * *
51790818 GTAATTTTGTAAACC-A-A-GGGTATTTCAGTAATTCTACCCTACA-AGGGTATTTCG
1 GTAA--TTCT-ACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGA-GGTATTTCG
* **
51790872 TTAATT-T-CACAAATCAGGGGTATTTTAGTAATT
1 GTAATTCTAC-CCTA-CAGGGGTATTTTAGTAATT
51790905 TTACAAACTA
Statistics
Matches: 198, Mismatches: 32, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
50 1 0.01
51 2 0.01
52 3 0.02
53 10 0.05
54 169 0.85
55 8 0.04
56 2 0.01
57 2 0.01
58 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGAGGTATTTCG
Found at i:51790714 original size:81 final size:81
Alignment explanation
Indices: 51790602--51790796 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 81
51790592 AGGTACCTCA
* * *
51790602 GTAATTCCACCCTACAGGGGTATTTTAGTAATTCTATCCTACAGAAGTATTTCGGTAATTCTACC
1 GTAATTCCACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGAAGTATTTCGATAATTCTACC
*
51790667 CTACAGGGGTATTTCG
66 CTACAAGGGTATTTCG
* * * * **
51790683 GTAATTCTACCCTACAGTGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGATAATTCTACC
1 GTAATTCCACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGAAGTATTTCGATAATTCTACC
51790748 CTACAAGGGTATTTCG
66 CTACAAGGGTATTTCG
* * ** *
51790764 TTAATTTCA-CAAATCAGGGGTATTTTAGTAATT
1 GTAATTCCACCCTA-CAGGGGTATTTCAGTAATT
51790797 TTACAAACTA
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
80 2 0.02
81 93 0.98
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
GTAATTCCACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGAAGTATTTCGATAATTCTACC
CTACAAGGGTATTTCG
Found at i:51790795 original size:108 final size:111
Alignment explanation
Indices: 51790610--51790933 Score: 382
Period size: 108 Copynumber: 3.0 Consensus size: 111
51790600 CAGTAATTCC
* * * * **
51790610 ACCCTACAGGGGTATTTTAGTAATTCTATCCTAC-AGAAGTATTTCGGTAA-TTCTAC-CCTACA
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAG-GGTATTTCGTTAATTTC-ACAAAT-CA
** ** *
51790672 GGGGTATTTCGGTAATTCTACCCTAC-AGTGGTATTTCGGTAA-TTT-T-
63 GGGGTATTTTAGTAATTCTA-CAAACTAGGGGTATTTCGGTAATTTTGTA
51790718 ACCCTACAGGGGTATTTC-GATAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGG
1 ACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGG
* *
51790782 GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTA
65 GGTATTTTAGTAATTCTACAAACTAGGGGTATTTCGGTAATTTTGTA
*
51790829 AACC-A-A-GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGGG
1 ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGGG
* *
51790891 GTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTT
66 GTATTTTAGTAATTCTACAAACTAGGGGTATTTCGGTAATTTT
51790934 ATTGATCGAG
Statistics
Matches: 193, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
107 4 0.02
108 173 0.90
109 11 0.06
110 2 0.01
111 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (111 bp):
ACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGGG
GTATTTTAGTAATTCTACAAACTAGGGGTATTTCGGTAATTTTGTA
Found at i:51790823 original size:81 final size:81
Alignment explanation
Indices: 51790614--51790823 Score: 237
Period size: 81 Copynumber: 2.6 Consensus size: 81
51790604 AATTCCACCC
* * ** *
51790614 TACAGGGGTATTTTAGTAATTCTATCCTACAGAAGTATTTCGGTAATTCTACCCTACAGGGGTAT
1 TACAGGGGTATTTTAGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTAT
**
51790679 TTCGGTAATTCTACCC
66 TTCGGTAATTCTACAA
* ** *
51790695 TACAGTGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTAT
1 TACAGGGGTATTTTAGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTAT
*
51790760 TTCGTTAATT-TCACAA
66 TTCGGTAATTCT-ACAA
** *
51790776 -ATCAGGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTAATT
1 TA-CAGGGGTATTTTAGTAATTTTACCCTAC-AGGGGTATTTCGGTAATT
51790824 TTGTAAACCA
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 5 0.05
81 102 0.95
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (81 bp):
TACAGGGGTATTTTAGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTAT
TTCGGTAATTCTACAA
Found at i:51790920 original size:54 final size:53
Alignment explanation
Indices: 51790754--51791364 Score: 338
Period size: 54 Copynumber: 11.3 Consensus size: 53
51790744 TACCCTACAA
* *
51790754 GGGTATTTCGTTAATTTCACAAATCAGGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAATC-GGGGTATTTTAGTAATTTTACAAACTAG
* ** * * * * ** *
51790808 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTCTACCCTAC-AA
1 GGGTATTTCGGTAATTTTACAAATC-GGGGTATTTTAGTAATTTTA-CAAACTAG
* *
51790862 GGGTATTTCGTTAATTTCACAAATCAGGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAATC-GGGGTATTTTAGTAATTTTACAAACTAG
* *** * ** * *
51790916 GGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTACAAATCG-GGGTATTTTAGTAATTTTACAAACTAG
* ** *** * * * *
51790970 GGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAA-TTG
1 GGGTATTTCGGTAATTTTACAAATCG-GGGTATTTTAGTAATTTTACAAACTAG
*** * ** *** * * **
51791023 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATCTTAC-AG
1 -GGGTATTTCGGTAATTTTACAAATCG-GGGTATTTTAGTAATTTTA-CAAACTAG
* ** * *
51791078 GAGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACT-G
1 GGGTATTTCGGTAATTTTACAAATCG-GGGTATTTTAGTAATTTTACAAACTAG
* * * * *
51791131 AGGGTATTTTGATAATTTTATAAATCGAGG-ATATTTAGGTAATTTTATAAA-TCAG
1 -GGGTATTTCGGTAATTTTACAAATCGGGGTAT-TTTA-GTAATTTTACAAACT-AG
* * * ** *
51791186 GGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AGGTTG
1 GGGTA-TTTCGGTAATTTTACAAATCG-GGGTATTTTAGTAATTTTACAAACTAG
* * *
51791239 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTCGGTAATTTTACAAATC-GGGGTATTTTAGTAATTTTACAAACTAG
* * * * * * *
51791294 GGGTATTTTGATAATTTTACAAATTAGGGATATTTTGGTAAATTTACAAACTAA
1 GGGTATTTCGGTAATTTTACAAA-TCGGGGTATTTTAGTAATTTTACAAACTAG
*
51791348 GGGTATTTTGGTAATTT
1 GGGTATTTCGGTAATTT
51791365 GGTAAACTAG
Statistics
Matches: 426, Mismatches: 110, Indels: 42
0.74 0.19 0.07
Matches are distributed among these distances:
52 2 0.00
53 19 0.04
54 384 0.90
55 19 0.04
56 2 0.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACAAATCGGGGTATTTTAGTAATTTTACAAACTAG
Found at i:51790933 original size:27 final size:27
Alignment explanation
Indices: 51790754--51791364 Score: 264
Period size: 27 Copynumber: 22.6 Consensus size: 27
51790744 TACCCTACAA
* * *
51790754 GGGTATTTCGTTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
*
51790781 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
51790808 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
** * ** *
51790835 GGGTATTTCAGTAATTCTACCCTAC-AA
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* * *
51790862 GGGTATTTCGTTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
*
51790889 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*** *
51790916 GGGTATTTTGGTAATTTTATTGA-TCG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
51790942 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAACTAG
** ** *
51790970 GGGTATTTCAGTAATTTTGTAAA-TCG
1 GGGTATTTTGGTAATTTTACAAACTAG
*** * * *
51790996 AGGGTAAAATGGTAATTCTATAAA-TTG
1 -GGGTATTTTGGTAATTTTACAAACTAG
**** * *
51791023 AGGGTAAAACGGTAATTCTGTA-AATCGA-
1 -GGGTATTTTGGTAATT-T-TACAAACTAG
*** * **
51791051 GGGTAAAATGGTAATTCTATCTTAC-AG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* * *
51791078 GAGTATTTTAGTAATTTTACAAA-TCG
1 GGGTATTTTGGTAATTTTACAAACTAG
** *
51791104 AGGGTATTTCAGTAATTTTGCAAACT-G
1 -GGGTATTTTGGTAATTTTACAAACTAG
* * *
51791131 AGGGTATTTTGATAATTTTATAAA-TCG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* * *
51791158 AGGATATTTAGGTAATTTTATAAA-TCAG
1 -GGGTATTTTGGTAATTTTACAAACT-AG
* * *
51791186 GGGTACTTTGGTAATTTTAC-AAGTCG
1 GGGTATTTTGGTAATTTTACAAACTAG
*** ** *
51791212 AGGGTATTTCAATAATTTTAC-AGGTTG
1 -GGGTATTTTGGTAATTTTACAAACTAG
** *
51791239 AGGGTATTTCAGTAATTTCACAAA-TCAG
1 -GGGTATTTTGGTAATTTTACAAACT-AG
51791267 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
51791294 GGGTATTTTGATAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
51791321 GGATATTTTGGTAAATTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
51791348 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
51791365 GGTAAACTAG
Statistics
Matches: 451, Mismatches: 109, Indels: 48
0.74 0.18 0.08
Matches are distributed among these distances:
25 2 0.00
26 12 0.03
27 424 0.94
28 11 0.02
29 2 0.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:51790950 original size:108 final size:108
Alignment explanation
Indices: 51790727--51790935 Score: 393
Period size: 108 Copynumber: 1.9 Consensus size: 108
51790717 TACCCTACAG
51790727 GGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGGGGTATTTTAG
1 GGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGGGGTATTTTAG
*
51790792 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
66 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
51790835 GGGTATTTC-AGTAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGGGGTATTTTA
1 GGGTATTTCGA-TAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGGGGTATTTTA
51790899 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAT
65 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAT
51790936 TGATCGAGGG
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 1 0.01
108 98 0.99
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (108 bp):
GGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGTTAATTTCACAAATCAGGGGTATTTTAG
TAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:51790971 original size:108 final size:108
Alignment explanation
Indices: 51790751--51791364 Score: 471
Period size: 108 Copynumber: 5.7 Consensus size: 108
51790741 TTCTACCCTA
*
51790751 CAAGGGTATTTCGTTAATTTCACAAATC-AGGGGTATTTTAGTAATTTTACAAACTAG-GGGTAT
1 CAAGGGTATTTCG-TAATTTTACAAATCGA-GGGTATTTTAGTAATTTTACAAACTAGAGGGTAT
* * * ** * ***
51790814 TTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTCTACCCTA-
64 TTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTA-TAAAC
*
51790859 CAAGGGTATTTCGTTAATTTCACAAATC-AGGGGTATTTTAGTAATTTTACAAACTAG-GGGTAT
1 CAAGGGTATTTCG-TAATTTTACAAATCGA-GGGTATTTTAGTAATTTTACAAACTAGAGGGTAT
** *
51790922 TTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
64 TTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAAC
** *** * * * * **
51790967 CAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAA-TTGAGGGTAAA
1 CAAGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTAGAGGGTATT
** * * *** * **
51791031 ACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATCTTA-
65 TTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTAT-AAAC
* * *
51791075 C-AGGAGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACT-GAGGGTAT
1 CAAGG-GTA-TTTCGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTAGAGGGTAT
* * * *
51791138 TTTGATAATTTTATAAATCGAGGATATTTAGGTAATTTTATAAAT
64 TTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAAC
* * * * * ** *
51791183 CAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AGGTTGAGGGTATT
1 CAAGGGTA-TTTCGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTAGAGGGTATT
** * * *
51791247 TCAGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
65 TTGGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTATAAAC
* * * * * *
51791291 TAGGGGTATTTTGATAATTTTACAAAT-TAGGGATATTTTGGTAAATTTACAAACTA-AGGGTAT
1 CAAGGGTATTTCG-TAATTTTACAAATCGAGGG-TATTTTAGTAATTTTACAAACTAGAGGGTAT
51791354 TTTGGTAATTT
64 TTTGGTAATTT
51791365 GGTAAACTAG
Statistics
Matches: 398, Mismatches: 93, Indels: 30
0.76 0.18 0.06
Matches are distributed among these distances:
107 18 0.05
108 369 0.93
109 11 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (108 bp):
CAAGGGTATTTCGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACTAGAGGGTATTT
TGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAAC
Found at i:51791312 original size:81 final size:81
Alignment explanation
Indices: 51791080--51791364 Score: 312
Period size: 81 Copynumber: 3.5 Consensus size: 81
51791070 TCTTACAGGA
** *
51791080 GTATTTTAGTAATTTTACAAATC-GAGGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTTGAT
1 GTATTTTAGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTGAT
* *
51791144 AATTTTATAAATCGAGG
65 AATTTTACAAATTGAGG
* * * * **
51791161 ATA-TTTAGGTAATTTTATAAATCAGGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAA
1 GTATTTTA-GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACT-GAGGGTATTTTGA
**
51791224 TAATTTTACAGGTTGAGG
64 TAATTTTACAAATTGAGG
* *
51791242 GTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGAT
1 GTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGA-GGGTATTTTGAT
51791306 AATTTTACAAATT-AGG
65 AATTTTACAAATTGAGG
* * *
51791322 GATATTTTGGTAAATTTACAAA-CTAAGGGTATTTTGGTAATTT
1 G-TATTTTAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTT
51791365 GGTAAACTAG
Statistics
Matches: 168, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
80 13 0.08
81 148 0.88
82 7 0.04
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (81 bp):
GTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTGATA
ATTTTACAAATTGAGG
Found at i:51795804 original size:134 final size:134
Alignment explanation
Indices: 51795564--51795835 Score: 472
Period size: 134 Copynumber: 2.0 Consensus size: 134
51795554 TTCACAAATA
* *
51795564 ATGTTTAAAACACAATCCCTAACAACAGCGTCAAAAACTTGTCCTGAAAGTAATTGATTGATGTG
1 ATGTTTAAAACACAATCCCTAACAACAGCGTCAAAAACTTGTCCCGAAAGTAATTGAATGATGTG
* * *
51795629 CAAGTGTACCCAGTCATCAACAAGTAACAAAGTAGTGAGTAAAGAGTATCGTTTCTGCAAGGACT
66 CAAGTGTACACAGTCATCAACAAGTAACAAAGTAGTAAGTAAAGAGTATCGTCTCTGCAAGGACT
*
51795694 TTAT
131 GTAT
51795698 ATGTTTAAAACACAATCCCTAACAACAGCGTCAAAAACTTGTCCCGAAAGTAATTGAATGATGTG
1 ATGTTTAAAACACAATCCCTAACAACAGCGTCAAAAACTTGTCCCGAAAGTAATTGAATGATGTG
* *
51795763 CAAGTGTACACAGTCATCAACAAGTAACAAAGTAGTAAGTAATGAGTATTGTCTCTGCAAGGACT
66 CAAGTGTACACAGTCATCAACAAGTAACAAAGTAGTAAGTAAAGAGTATCGTCTCTGCAAGGACT
51795828 GTAT
131 GTAT
51795832 ATGT
1 ATGT
51795836 AAAGAAAAAA
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (134 bp):
ATGTTTAAAACACAATCCCTAACAACAGCGTCAAAAACTTGTCCCGAAAGTAATTGAATGATGTG
CAAGTGTACACAGTCATCAACAAGTAACAAAGTAGTAAGTAAAGAGTATCGTCTCTGCAAGGACT
GTAT
Found at i:51800504 original size:24 final size:24
Alignment explanation
Indices: 51800473--51800534 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
51800463 GGTTTTGGGA
51800473 AAAGTTTTGATTTTTTTTAAAGAG
1 AAAGTTTTGATTTTTTTTAAAGAG
*
51800497 AAAGTTTTAATTTTTTTTAAAGAG
1 AAAGTTTTGATTTTTTTTAAAGAG
51800521 AAAGTTTTGATTTT
1 AAAGTTTTGATTTT
51800535 AACAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.52
Consensus pattern (24 bp):
AAAGTTTTGATTTTTTTTAAAGAG
Found at i:51800587 original size:53 final size:52
Alignment explanation
Indices: 51800511--51800809 Score: 185
Period size: 54 Copynumber: 5.7 Consensus size: 52
51800501 TTTTAATTTT
* ** *
51800511 TTTTAAAGAGAAAGTTTTGATTTTAACAAAAAAAAAATCTATTTTTTAAAATTA
1 TTTTAAAGTGAAAGTTTAAATTTTAA-AAAAAAAAAATCTATTTTTT-CAATTA
* * ** * *
51800565 TTTTAAAG-GAAAGTTTAAATTTT-TAAAACAAAGTTTTGATTTTTTTCAACTA
1 TTTTAAAGTGAAAGTTTAAATTTTAAAAAAAAAAAATCT-A-TTTTTTCAATTA
* * ** * * *
51800617 TTTCAAAGTAAAAGATTTAACCTTTAAAAAAATAAAAATCTATTTTTTTAGTCA
1 TTTTAAAGTGAAAG-TTTAAATTTTAAAAAAA-AAAAATCTATTTTTTCAATTA
* * ** * *
51800671 TTTTAAAG-GAAAGTTTAAATTTT-TAAAACAAAGTTTTGATTTTTTTCAACTA
1 TTTTAAAGTGAAAGTTTAAATTTTAAAAAAAAAAAATCT-A-TTTTTTCAATTA
* * ** * * *
51800723 TTTCAAAGTAAAAGATTTAACCTTTAAAAAAATAAAAATCTATTTTTTTAGTCA
1 TTTTAAAGTGAAAG-TTTAAATTTTAAAAAAA-AAAAATCTATTTTTTCAATTA
* *
51800777 TTTTAAAG-GAAAGTTTAAATTTTTAAAACAAAA
1 TTTTAAAGTGAAAGTTTAAATTTTAAAAAAAAAA
51800810 TTTTGATTCT
Statistics
Matches: 179, Mismatches: 54, Indels: 27
0.69 0.21 0.10
Matches are distributed among these distances:
50 5 0.03
51 17 0.09
52 48 0.27
53 35 0.20
54 54 0.30
55 10 0.06
56 10 0.06
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (52 bp):
TTTTAAAGTGAAAGTTTAAATTTTAAAAAAAAAAAATCTATTTTTTCAATTA
Found at i:51800875 original size:106 final size:106
Alignment explanation
Indices: 51800532--51800864 Score: 551
Period size: 106 Copynumber: 3.1 Consensus size: 106
51800522 AAGTTTTGAT
* * *
51800532 TTTAACAAAAA-AAAAATCTATTTTTTAAAATTATTTTAAAGGAAAGTTTAAATTTTTAAAACAA
1 TTTAA-AAAAATAAAAATCTATTTTTT-TAGTCATTTTAAAGGAAAGTTTAAATTTTTAAAACAA
51800596 AGTTTTGATTTTTTTCAACTATTTCAAAGTAAAAGATTTAACC
64 AGTTTTGATTTTTTTCAACTATTTCAAAGTAAAAGATTTAACC
51800639 TTTAAAAAAATAAAAATCTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAG
1 TTTAAAAAAATAAAAATCTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAG
51800704 TTTTGATTTTTTTCAACTATTTCAAAGTAAAAGATTTAACC
66 TTTTGATTTTTTTCAACTATTTCAAAGTAAAAGATTTAACC
*
51800745 TTTAAAAAAATAAAAATCTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAA
1 TTTAAAAAAATAAAAATCTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAG
* * * *
51800810 TTTTGATTCTTTTTCAACTACTTCAAAATAAAAGCTTTAATC
66 TTTTGATT-TTTTTCAACTATTTCAAAGTAAAAGATTTAACC
51800852 TTTAAGAAAAATA
1 TTTAA-AAAAATA
51800865 GTATTTTTTT
Statistics
Matches: 215, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
106 154 0.72
107 54 0.25
108 7 0.03
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (106 bp):
TTTAAAAAAATAAAAATCTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAAACAAAG
TTTTGATTTTTTTCAACTATTTCAAAGTAAAAGATTTAACC
Found at i:51801635 original size:25 final size:24
Alignment explanation
Indices: 51801607--51801653 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
51801597 TCACTTGGAT
51801607 TTATACA-TTATATATTTAATGTTAA
1 TTATACACTT-TAT-TTTAATGTTAA
*
51801632 TTATGCACTTTATTTTAATGTT
1 TTATACACTTTATTTTAATGTT
51801654 TTATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATACACTTTATTTTAATGTTAA
Found at i:51804580 original size:14 final size:14
Alignment explanation
Indices: 51804561--51804598 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
51804551 ATAATTTAAA
51804561 ATATAATAATAAT-G
1 ATATAATAA-AATAG
51804575 ATATAATAAAATAG
1 ATATAATAAAATAG
*
51804589 TTATAATAAA
1 ATATAATAAA
51804599 TAAAAGAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (14 bp):
ATATAATAAAATAG
Found at i:51804584 original size:24 final size:24
Alignment explanation
Indices: 51804541--51804597 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
51804531 ATATTTAAGA
51804541 AATAATAATTATAATTTAAAATA-T
1 AATAATAATTATAA-TTAAAATAGT
51804565 AATAATAATGATATAA-TAAAATAGT
1 AATAATAAT--TATAATTAAAATAGT
*
51804590 TATAATAA
1 AATAATAA
51804598 ATAAAAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 16 0.55
25 8 0.28
26 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
AATAATAATTATAATTAAAATAGT
Found at i:51811263 original size:14 final size:15
Alignment explanation
Indices: 51811244--51811280 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
51811234 ATAATTTAAA
51811244 ATATAATAATAAT-G
1 ATATAATAATAATAG
51811258 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
51811272 TTATAATAA
1 ATATAATAA
51811281 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:51819004 original size:47 final size:47
Alignment explanation
Indices: 51818935--51819051 Score: 198
Period size: 47 Copynumber: 2.5 Consensus size: 47
51818925 GGCCATAAAT
* * *
51818935 GAACTCGGACTCAACTTAACGAGCTTGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
51818982 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
*
51819029 GAACTCGGACTTAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
51819052 TTCGAAACTC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAATCTCAC
Found at i:51828052 original size:32 final size:32
Alignment explanation
Indices: 51828011--51828075 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
51828001 TTATGCTTAT
*
51828011 ACTAAAGCCTGGAACAGTTCCCTTTTCGCCAC
1 ACTAAAGCCTGGAACAGTTCCATTTTCGCCAC
*
51828043 ACTAAAGCCTGGAACAGTTCTATTTTCGCCAC
1 ACTAAAGCCTGGAACAGTTCCATTTTCGCCAC
51828075 A
1 A
51828076 TTAAGTCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (32 bp):
ACTAAAGCCTGGAACAGTTCCATTTTCGCCAC
Found at i:51831914 original size:28 final size:28
Alignment explanation
Indices: 51831882--51831936 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
51831872 CTCCTTTGAT
51831882 TTGTCCTCCACTATCTAAGACCTTTTAG
1 TTGTCCTCCACTATCTAAGACCTTTTAG
* * *
51831910 TTGTCTTCCACTATTTGAGACCTTTTA
1 TTGTCCTCCACTATCTAAGACCTTTTA
51831937 CTCATTGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.44
Consensus pattern (28 bp):
TTGTCCTCCACTATCTAAGACCTTTTAG
Found at i:51836905 original size:11 final size:13
Alignment explanation
Indices: 51836875--51836899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51836865 AATAGAAAAA
51836875 AGAGAAAAAATAG
1 AGAGAAAAAATAG
51836888 AGAGAAAAAATA
1 AGAGAAAAAATA
51836900 AAGAAACCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (13 bp):
AGAGAAAAAATAG
Found at i:51837381 original size:42 final size:42
Alignment explanation
Indices: 51837318--51837610 Score: 424
Period size: 42 Copynumber: 7.0 Consensus size: 42
51837308 GAAAACATTA
* *
51837318 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
1 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTC
* * *
51837360 ATTGCATTTAGAGACCTAGGTGTGGAGGTACATTCACTTATC
1 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTC
* *
51837402 ATTACATTTAGAGACCCAGGTGTGGAGGTCTATTCACTTTTC
1 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTC
*
51837444 ATTGCATTTAGAGACCTAGGTGTGGAGGTCCATTCACTTTTC
1 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTC
* * ** *
51837486 ATTGCATTTAGAGACCTATGTGTAAAGCTCCATTCACTTTTC
1 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTC
* *
51837528 ATTGCATTTAGAGACCCAAGTGTAGAGGTCCATTCACTTTTC
1 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTC
* * *
51837570 ATTGCATTCAGAGACCCAGGTGTGGAAGTCTATTCACTTTT
1 ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTT
51837611 GGTCCATTCA
Statistics
Matches: 225, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 225 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (42 bp):
ATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTC
Found at i:51837666 original size:57 final size:57
Alignment explanation
Indices: 51837554--51837667 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
51837544 CAAGTGTAGA
*
51837554 GGTCCATTCACTTTTCATTGCATTCAGAGACCCAGGTGTGGAAGTCTATTCACTTTT
1 GGTCCATTCACTTTTCATTGCATTCAGAGACCCAGGTGTGGAAGGCTATTCACTTTT
* *
51837611 GGTCCATTCACTTTTCATTGCA-TCTAGAGACTCAGGTGTGG-AGGCTAATTTACTTTT
1 GGTCCATTCACTTTTCATTGCATTC-AGAGACCCAGGTGTGGAAGGCT-ATTCACTTTT
51837668 CTAGTTTGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
56 6 0.12
57 46 0.88
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (57 bp):
GGTCCATTCACTTTTCATTGCATTCAGAGACCCAGGTGTGGAAGGCTATTCACTTTT
Found at i:51838731 original size:150 final size:149
Alignment explanation
Indices: 51838479--51838887 Score: 471
Period size: 155 Copynumber: 2.7 Consensus size: 149
51838469 AAAATTTTGA
* * * *
51838479 ATTTTTTTTAAAAAGAGAAAGTTTAGATTTT-AACAA-ACAAATCTTTGTTTTTTTAGTTATTTT
1 ATTTTTTTAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATCTGT-TTTTTTTAGTTATTTT
* * *
51838542 AAATGAAAGTTTAAATTTTTAAAA-AAAAGTTTTGATTTTTTTCCAACTATTTCAAAGTAAAAGC
65 AAAGGAAAGTTTAAAATTTTAAAACAAAAGTTTTGATTTTTTT-CAACTA---CAAAATAAAAGC
*
51838606 -TTAATCTT-TATGAAAAATA-G-T
126 TTTAAT-TTGTAAGAAAAATATGTT
51838627 ATTTTTTTAAAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTT
1 ATTTTTTTAAAAAA-GAGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTT
51838692 AAAGGAAAGTTTAAAATTTTAAAACAAAA-TTTT-ATTTTTTTCAACTACAAAATAAAAGCTTTA
65 AAAGGAAAGTTTAAAATTTTAAAACAAAAGTTTTGATTTTTTTCAACTACAAAATAAAAGCTTTA
51838755 ATTTGTAAGAAAAATAGTGTTTTGTTTT
130 ATTTGTAAGAAAAATA------TG--TT
* * * *
51838783 TTTTTTTTAAAAAAGAGAGAGTTTAGATTTTGAAAAATAAAAAT-TCGTTTTTTTAAGTCATTTT
1 ATTTTTTTAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATCT-GTTTTTTTTAGTTATTTT
**
51838847 AAAGGAAAGTTTAAAATTTTAAAAC-AAAGTTTAAATTTTTT
65 AAAGGAAAGTTTAAAATTTTAAAACAAAAGTTTTGATTTTTT
51838888 AAACTATTTC
Statistics
Matches: 229, Mismatches: 13, Indels: 30
0.84 0.05 0.11
Matches are distributed among these distances:
145 13 0.06
146 15 0.07
148 19 0.08
149 25 0.11
150 46 0.20
151 12 0.05
153 1 0.00
154 4 0.02
155 73 0.32
156 21 0.09
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (149 bp):
ATTTTTTTAAAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATCTGTTTTTTTTAGTTATTTTA
AAGGAAAGTTTAAAATTTTAAAACAAAAGTTTTGATTTTTTTCAACTACAAAATAAAAGCTTTAA
TTTGTAAGAAAAATATGTT
Found at i:51838889 original size:21 final size:20
Alignment explanation
Indices: 51838842--51838891 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
51838832 TTTTTAAGTC
**
51838842 ATTTTAAAGGAAAGTTTAAA
1 ATTTTAAAACAAAGTTTAAA
51838862 ATTTTAAAACAAAGTTTAAA
1 ATTTTAAAACAAAGTTTAAA
* *
51838882 TTTTTTAAAC
1 ATTTTAAAAC
51838892 TATTTCGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (20 bp):
ATTTTAAAACAAAGTTTAAA
Found at i:51839513 original size:11 final size:10
Alignment explanation
Indices: 51839488--51839523 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
51839478 CACTTGTATA
51839488 ATTTTTATTT
1 ATTTTTATTT
51839498 ATTTTTATTT
1 ATTTTTATTT
*
51839508 CGTTTTTATTT
1 -ATTTTTATTT
51839519 ATTTT
1 ATTTT
51839524 CATGTCTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:51851047 original size:47 final size:47
Alignment explanation
Indices: 51850970--51851099 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 47
51850960 GTGCGACTAA
* * * ** **
51850970 TACCTTGATTTGGCTATGGGTCATGATATAGGTGTTTTGAGAGAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
* * * *
51851017 TACCTTGATTTGGCTACAGGCCACGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
*
51851064 TACCTTGATTTGGCTACGGGCCATGGTAGAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
51851100 TATCGATTGT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:51855180 original size:43 final size:42
Alignment explanation
Indices: 51855133--51855214 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
51855123 TTACATGGGA
*
51855133 TCTCATATCGATGCCAATAGCCCAGTTATGGCCTTACACGAAT
1 TCTCATATCGATGCC-ATAGCCCAGATATGGCCTTACACGAAT
* * *
51855176 TCTCATATCGATGTCATATCCCAGATATGGTCTTACACG
1 TCTCATATCGATGCCATAGCCCAGATATGGCCTTACACG
51855215 TAATCTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 21 0.60
43 14 0.40
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (42 bp):
TCTCATATCGATGCCATAGCCCAGATATGGCCTTACACGAAT
Found at i:51855212 original size:42 final size:41
Alignment explanation
Indices: 51855104--51855220 Score: 135
Period size: 43 Copynumber: 2.8 Consensus size: 41
51855094 CATACCAATT
* * *
51855104 CCATATCCCAGATATGGTTTTACATGGGATCTCATATCGATG
1 CCATATCCCAGATATGGTCTTACA-CGAATCTCATATCGATG
* * *
51855146 CCAATAGCCCAGTTATGGCCTTACACGAATTCTCATATCGATG
1 CC-ATATCCCAGATATGGTCTTACACGAA-TCTCATATCGATG
*
51855189 TCATATCCCAGATATGGTCTTACACGTAATCT
1 CCATATCCCAGATATGGTCTTACACG-AATCT
51855221 TAAATAACCC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (41 bp):
CCATATCCCAGATATGGTCTTACACGAATCTCATATCGATG
Found at i:51858716 original size:10 final size:10
Alignment explanation
Indices: 51858695--51858741 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
51858685 CATGAGATTT
51858695 TGATAT-ACA
1 TGATATGACA
51858704 TGATATGACA
1 TGATATGACA
51858714 TGATATGACA
1 TGATATGACA
51858724 TGATATGCACA
1 TGATATG-ACA
51858735 TGATATG
1 TGATATG
51858742 TTATGAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 10 0.28
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:51858737 original size:21 final size:21
Alignment explanation
Indices: 51858695--51858761 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
51858685 CATGAGATTT
51858695 TGATAT-ACATGATATG-ACA
1 TGATATGACATGATATGCACA
51858714 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
51858735 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
*
51858756 AGATAT
1 TGATAT
51858762 ATTCATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.14
20 10 0.24
21 26 0.62
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:51858837 original size:25 final size:25
Alignment explanation
Indices: 51858807--51858879 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
51858797 GGAGGAAGTG
* *
51858807 CAAAAAGGGCTTTGCCCAAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTAAC
* *
51858832 CGAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAAGGGCTTTGCCCCAGTTAAC
51858857 CAAAAAGGGCTTTGCCCCAGTTA
1 CAAAAAGGGCTTTGCCCCAGTTA
51858880 TTAAAAGAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTAAC
Found at i:51858891 original size:24 final size:24
Alignment explanation
Indices: 51858809--51858905 Score: 83
Period size: 25 Copynumber: 4.0 Consensus size: 24
51858799 AGGAAGTGCA
* *
51858809 AAAAG-GGCTTTGCCCAAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
51858833 GAAAAG-GGCTTTGCCCCAGTTAATC
1 -AAAAGAGGCTTTGCCCCAGTT-ATC
*
51858858 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
51858882 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
51858906 ATGACAAAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
24 19 0.31
25 43 0.69
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:51858902 original size:50 final size:50
Alignment explanation
Indices: 51858807--51858904 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
51858797 GGAGGAAGTG
**
51858807 CAAAAAGGGCTTTGCCCAAGTTTACCGAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAAGGGCTTTGCCCAAGTTTACCGAAAAGGGCTAGGCCCCAGTTAAT
* **
51858857 CAAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTTA
1 CAAAAAGGGCTTTGCCCAAGTTTACCGAAAAG-GGCTAGGCC-CCAGTTA
51858905 TATGACAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 5 0.12
49 10 0.24
50 26 0.63
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
CAAAAAGGGCTTTGCCCAAGTTTACCGAAAAGGGCTAGGCCCCAGTTAAT
Found at i:51865915 original size:39 final size:40
Alignment explanation
Indices: 51865820--51866003 Score: 204
Period size: 40 Copynumber: 4.7 Consensus size: 40
51865810 TTGAATGATG
*
51865820 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACAATA
*
51865859 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TAC-AATA
51865899 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TAC-AATA
* *
51865938 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACAATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACAATA
* *
51865978 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51866004 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 55 0.44
40 60 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACAATA
Found at i:51865955 original size:79 final size:81
Alignment explanation
Indices: 51865820--51866003 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
51865810 TTGAATGATG
51865820 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
51865883 TGTGCGAGA-TACTAAT-
66 TGTGCGA-ATTAC-AATA
* * **
51865899 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
51865960 TTTGTGCGAATTACAATA
64 TTTGTGCGAATTACAATA
* *
51865978 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51866004 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACAATA
Found at i:51866025 original size:79 final size:79
Alignment explanation
Indices: 51865872--51866036 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
51865862 GGACTAAGAT
* ** *
51865872 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
51865937 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
51865951 CCGAAGGCATTTGTGCGA-ATTAC-AATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
51866013 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
51866030 CCGAAGG
1 CCGAAGG
51866037 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 4 0.05
79 45 0.61
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:51873908 original size:79 final size:81
Alignment explanation
Indices: 51873772--51873956 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
51873762 TTGAACGATG
*
51873772 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
51873836 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
51873851 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
51873913 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
51873931 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51873957 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:51873970 original size:40 final size:39
Alignment explanation
Indices: 51873773--51873956 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
51873763 TGAACGATGT
* * *
51873773 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
51873813 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
51873853 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
51873891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
51873932 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
51873957 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:51873978 original size:79 final size:79
Alignment explanation
Indices: 51873773--51873989 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
51873763 TGAACGATGT
** * * * **
51873773 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
51873836 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
51873853 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
51873918 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
51873932 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
51873990 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:51885487 original size:24 final size:23
Alignment explanation
Indices: 51885459--51885503 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
51885449 GAGTTACCTG
51885459 TTAAGCTCGCATGAGCATTCTTAT
1 TTAAGCTCGCATGAGC-TTCTTAT
**
51885483 TTAAGCTCTTATGAGCTTCTT
1 TTAAGCTCGCATGAGCTTCTT
51885504 GTTATTAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (23 bp):
TTAAGCTCGCATGAGCTTCTTAT
Found at i:51894702 original size:41 final size:41
Alignment explanation
Indices: 51894649--51894798 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
51894639 CGCTGACTCA
* *
51894649 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
51894690 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* *
51894730 AAAAGCCCTTCAAGACCAAGCTCAGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
51894771 AAAAGCCCTTCGAGACCAAGCTTGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
51894799 TAAACCCCGA
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.34
41 59 0.66
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:51905081 original size:79 final size:81
Alignment explanation
Indices: 51904980--51905164 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
51904970 GCTACTCGTT
* *
51904980 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
51905043 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
51905060 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
51905124 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
51905140 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51905165 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:51905164 original size:40 final size:40
Alignment explanation
Indices: 51904980--51905164 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
51904970 GCTACTCGTT
* *
51904980 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
51905020 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
51905060 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
51905099 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
51905140 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51905165 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:51918231 original size:3 final size:3
Alignment explanation
Indices: 51918225--51918260 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
51918215 AGAAGAAAAA
*
51918225 GAT GAT GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
51918261 AATAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:51936158 original size:24 final size:24
Alignment explanation
Indices: 51936122--51936167 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
51936112 CCGATAGATC
*
51936122 AGCTCATAAGAGCTTACTATTTTT
1 AGCTCATAAGAGCTTACCATTTTT
**
51936146 AGCTCATCGGAGCTTACCATTT
1 AGCTCATAAGAGCTTACCATTT
51936168 CAGCTCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (24 bp):
AGCTCATAAGAGCTTACCATTTTT
Found at i:51936387 original size:19 final size:19
Alignment explanation
Indices: 51936365--51936431 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
51936355 TGTTACACGA
51936365 ATGAATTACTGTTATATGG
1 ATGAATTACTGTTATATGG
* * *
51936384 ATGAAGTATTGTTTAAATGG
1 ATGAATTACTG-TTATATGG
* * *
51936404 ATGAGTTACTGTTAT-CGA
1 ATGAATTACTGTTATATGG
51936422 ATGAATTACT
1 ATGAATTACT
51936432 ATTTATATGA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
18 10 0.27
19 12 0.32
20 15 0.41
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (19 bp):
ATGAATTACTGTTATATGG
Found at i:51949819 original size:38 final size:38
Alignment explanation
Indices: 51949752--51949838 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
51949742 CCCGTACGAG
* * **
51949752 CTCACACGCTCGTGTGGCCCACATGACCTGG-CTCAATA
1 CTCACACACCCGTGTGGCCCACACAACCTGGCCT-AATA
*
51949790 CTCACACACCCGTGTGGCCTACACAACCTGGCCTAATA
1 CTCACACACCCGTGTGGCCCACACAACCTGGCCTAATA
* *
51949828 CCCATACACCC
1 CTCACACACCC
51949839 AACTTGGCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 39 0.95
39 2 0.05
ACGTcount: A:0.24, C:0.41, G:0.16, T:0.18
Consensus pattern (38 bp):
CTCACACACCCGTGTGGCCCACACAACCTGGCCTAATA
Found at i:51953543 original size:18 final size:18
Alignment explanation
Indices: 51953514--51953548 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51953504 GTTATTATAT
51953514 TTTTATTTTTAAGAATTTA
1 TTTTATTTTTAA-AATTTA
51953533 TTTTA-TTTTAAAATTT
1 TTTTATTTTTAAAATTT
51953549 TAAAATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATTTTTAAAATTTA
Found at i:51955823 original size:14 final size:14
Alignment explanation
Indices: 51955787--51955851 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
51955777 AACTCTCAAC
* *
51955787 TCTCAACTTATTGT
1 TCTCAATTTATTAT
* * *
51955801 TTTCGATTTATTGT
1 TCTCAATTTATTAT
*
51955815 TCTCAATTTGTTAT
1 TCTCAATTTATTAT
*
51955829 TCTCAATTTTTTAT
1 TCTCAATTTATTAT
*
51955843 TCTAAATTT
1 TCTCAATTT
51955852 CCAATTCCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (14 bp):
TCTCAATTTATTAT
Found at i:51957945 original size:46 final size:45
Alignment explanation
Indices: 51957895--51958160 Score: 265
Period size: 46 Copynumber: 5.8 Consensus size: 45
51957885 TTGAGCATCC
51957895 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCT
* * * *
51957941 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--TCT
51957988 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCT
* * * *
51958034 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--TCT
* *
51958081 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCT
* *
51958127 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51958161 GCGGGTTACA
Statistics
Matches: 182, Mismatches: 20, Indels: 36
0.76 0.08 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 87 0.48
47 56 0.31
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCT
Found at i:51958010 original size:47 final size:47
Alignment explanation
Indices: 51957941--51958106 Score: 225
Period size: 47 Copynumber: 3.6 Consensus size: 47
51957931 GCGAATGTCT
51957941 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
* * * *
51957988 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
1 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
51958034 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
51958081 GAACTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
51958107 ACTTATGGAT
Statistics
Matches: 102, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 28 0.27
47 54 0.53
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
Found at i:51958048 original size:93 final size:93
Alignment explanation
Indices: 51957889--51958153 Score: 494
Period size: 93 Copynumber: 2.8 Consensus size: 93
51957879 GGATGATTGA
51957889 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
51957954 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
51957982 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
51958047 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
51958075 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
51958140 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
51958154 CTTATGGGCG
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 168 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51964846 original size:22 final size:22
Alignment explanation
Indices: 51964812--51964855 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
51964802 TAAAATTGTA
* *
51964812 AAAATTTATTATAAAAATAATT
1 AAAATTCAATATAAAAATAATT
**
51964834 AAAATTCAATATATTAATAATT
1 AAAATTCAATATAAAAATAATT
51964856 TAAGTGAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTCAATATAAAAATAATT
Found at i:51968378 original size:50 final size:50
Alignment explanation
Indices: 51968269--51968451 Score: 180
Period size: 50 Copynumber: 3.7 Consensus size: 50
51968259 CTGGTACGCA
* *
51968269 TAGTAGCCTGCAGTTAGTACTACACA-TGCGACCAACAGTCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACTGCGACCAACAGTCTAATACACG
* *
51968318 TAGTAGCCTGCACTTAGTACTACACACT-TGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACTGCGA-C-CAACAGTCTAATACACG
* * *** * *
51968368 TAGTAGCCTGCACTTAGTACTACACAC-GTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACTGCGACCAACAG---TCTAATACACG
51968419 TAGTAGCCTGCACTTAGTACTACACA-TGCGACC
1 TAGTAGCCTGCACTTAGTACTACACACTGCGACC
51968452 TCACAATAGA
Statistics
Matches: 112, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 27 0.24
50 42 0.38
51 40 0.36
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACTGCGACCAACAGTCTAATACACG
Found at i:51970875 original size:16 final size:15
Alignment explanation
Indices: 51970850--51970879 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
51970840 ATTCAATTAA
51970850 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
51970865 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
51970880 ATGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:51973320 original size:35 final size:35
Alignment explanation
Indices: 51973276--51973472 Score: 243
Period size: 35 Copynumber: 5.6 Consensus size: 35
51973266 TCCTCATTGA
* *
51973276 AATACCATACCTACATTTCACAACTCGGTATGAGA-
1 AATACCATACCTACGTTTCACAACTCAGTATG-GAT
* * ***
51973311 AATGCCATACCTACATTTCTTTACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
51973346 AATACCATACCTACGTTTCACAACTCAATATAGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
51973381 GATACCATACCCACGTTTCACAACTCTGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
51973416 GATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
51973451 AATACTATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
51973473 CTTTTCCGTG
Statistics
Matches: 139, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
34 2 0.01
35 137 0.99
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:51973461 original size:105 final size:105
Alignment explanation
Indices: 51973277--51973472 Score: 277
Period size: 105 Copynumber: 1.9 Consensus size: 105
51973267 CCTCATTGAA
* * ***
51973277 ATACCATACCTACATTTCACAACTCGGTATGAGAAATGCCATACCTACATTTCTTTACTCAGTAT
1 ATACCATACCCACATTTCACAACTCGGTATGAGAAATACCATACCTACATTTCACAACTCAGTAT
51973342 GGATAATACCATACCTACGTTTCACAACTCAATATAGATG
66 GGATAATACCATACCTACGTTTCACAACTCAATATAGATG
* * * *
51973382 ATACCATACCCACGTTTCACAACTCTGTATG-GATGATACCATACCTACGTTTCACAACTCAGTA
1 ATACCATACCCACATTTCACAACTCGGTATGAGA-AATACCATACCTACATTTCACAACTCAGTA
* *
51973446 TGGTTAATACTATACCTACGTTTCACA
65 TGGATAATACCATACCTACGTTTCACA
51973473 CTTTTCCGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
104 2 0.03
105 77 0.97
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.31
Consensus pattern (105 bp):
ATACCATACCCACATTTCACAACTCGGTATGAGAAATACCATACCTACATTTCACAACTCAGTAT
GGATAATACCATACCTACGTTTCACAACTCAATATAGATG
Found at i:51975254 original size:15 final size:15
Alignment explanation
Indices: 51975234--51975264 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
51975224 ACACTCCATA
51975234 AATATTTCTAAAAAT
1 AATATTTCTAAAAAT
51975249 AATATTTCTAAAAAT
1 AATATTTCTAAAAAT
51975264 A
1 A
51975265 TTTATGGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATTTCTAAAAAT
Found at i:51977186 original size:12 final size:13
Alignment explanation
Indices: 51977169--51977206 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
51977159 ATCCTGGAAT
51977169 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
51977181 ATTAAGAACACATA
1 ATTAAGAACA-AGA
51977195 ATTAAGAACAAG
1 ATTAAGAACAAG
51977207 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:51982479 original size:46 final size:46
Alignment explanation
Indices: 51982426--51982601 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
51982416 TATTTGGGCA
51982426 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGTGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGTGCG
* * *
51982472 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC-TAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGT--GCG
* * **
51982519 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGTGCG
** *
51982565 TCCGAGGTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51982602 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 65 0.60
47 30 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGTGCG
Found at i:51982581 original size:93 final size:93
Alignment explanation
Indices: 51982422--51982594 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
51982412 GGGATATTTG
**
51982422 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGTGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
51982487 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * **
51982515 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAGGTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
51982580 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
51982595 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:51985555 original size:15 final size:15
Alignment explanation
Indices: 51985521--51985561 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
51985511 TTGGGTTTCC
*
51985521 TTATCCTGGATCTCT
1 TTATTCTGGATCTCT
51985536 TTATTCTGGATCTCT
1 TTATTCTGGATCTCT
*
51985551 TTATTCCGGAT
1 TTATTCTGGAT
51985562 TTCTCTCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.49
Consensus pattern (15 bp):
TTATTCTGGATCTCT
Found at i:51988151 original size:46 final size:46
Alignment explanation
Indices: 51988084--51988251 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 46
51988074 TATTTGGGCA
51988084 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
* ** * * * *
51988130 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATGGATGCGA-GCG
* * *
51988177 TCCGAGCAT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAAC-TCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
** *
51988223 TCCGAGGTCGTTGAGTTGAGTCCAAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
51988252 GCTTATGGGC
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 62 0.63
47 34 0.35
48 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
Found at i:51988239 original size:93 final size:93
Alignment explanation
Indices: 51988080--51988252 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
51988070 GGGATATTTG
* *
51988080 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
51988145 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* **
51988173 GGCATCCGAGCAT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGGTCGTTGA
1 GGCATCCGAAC-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGA
51988237 GTTGAGTCCAAGTTCG
65 GTTGAGTCCAAGTTCG
51988253 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:51993844 original size:55 final size:55
Alignment explanation
Indices: 51993756--51993864 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
51993746 TTGAATAGGC
51993756 ACGGGCGTGTAGTCTACCCGTGTAAATCATGCTTCGATCCTACCAAATGGACACA
1 ACGGGCGTGTAGTCTACCCGTGTAAATCATGCTTCGATCCTACCAAATGGACACA
* *
51993811 ACGGGCTTGTAGTCTACCCGTGTAAATCGTGCTTCGATCCTACCAAATGGACAC
1 ACGGGCGTGTAGTCTACCCGTGTAAATCATGCTTCGATCCTACCAAATGGACAC
51993865 GGCCGTGTGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (55 bp):
ACGGGCGTGTAGTCTACCCGTGTAAATCATGCTTCGATCCTACCAAATGGACACA
Found at i:51996448 original size:40 final size:40
Alignment explanation
Indices: 51996392--51996583 Score: 271
Period size: 40 Copynumber: 4.8 Consensus size: 40
51996382 TCGGATAATA
* *
51996392 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATG
* * *
51996432 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
* *
51996472 ACTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
*
51996512 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
* *
51996552 GCCGGGCTAAGTCCCG-AGGCATTTGGGCGAGT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
51996584 AGCTATATCC
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 17 0.12
40 121 0.88
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (40 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
Found at i:52002236 original size:31 final size:30
Alignment explanation
Indices: 52002201--52002265 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
52002191 TTAATATAAA
* *
52002201 AATTATA-AATTAATAATGTTAACAATTTAAT
1 AATTATATAATTAA-AAT-TTAAAAAATTAAT
52002232 AATTATATTAATTAAAATTTAAAAAATTAAT
1 AATTATA-TAATTAAAATTTAAAAAATTAAT
52002263 AAT
1 AAT
52002266 ATTTTCTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 21 0.70
32 3 0.10
33 6 0.20
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
AATTATATAATTAAAATTTAAAAAATTAAT
Found at i:52011134 original size:19 final size:19
Alignment explanation
Indices: 52011101--52011146 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
52011091 AGATATATTT
*
52011101 TAAAT-TTATTTAGGTAGA
1 TAAATCTTATTCAGGTAGA
52011119 TAAATCTTATTCAGGTAGA
1 TAAATCTTATTCAGGTAGA
52011138 TAAATCTTA
1 TAAATCTTA
52011147 AAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (19 bp):
TAAATCTTATTCAGGTAGA
Found at i:52012158 original size:21 final size:20
Alignment explanation
Indices: 52012118--52012156 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
52012108 CCCTGTAATA
*
52012118 AAATATAATATAGATCAAAG
1 AAATATAATATAGAGCAAAG
52012138 AAATAGTAAT-TAGAGCAAA
1 AAATA-TAATATAGAGCAAA
52012157 AGTTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (20 bp):
AAATATAATATAGAGCAAAG
Found at i:52023110 original size:43 final size:43
Alignment explanation
Indices: 52023062--52023200 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 43
52023052 TCCTAGACGT
* *
52023062 GGTCTTACATGTAATTCAATATTGATGCCTCTGTCCCAGACAC
1 GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * * *
52023105 GGTCTTACA-CTAAATCAACTA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATTCAA-TATCGATGCCTATGTCCCAGACAC
* * * * *
52023147 GGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCTAGACAC
1 GGTCTTACATGT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
52023190 GGTCTTACATG
1 GGTCTTACATG
52023201 ATGCCTCAGA
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
42 33 0.44
43 37 0.49
44 3 0.04
45 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:52028595 original size:50 final size:50
Alignment explanation
Indices: 52028483--52029415 Score: 1674
Period size: 50 Copynumber: 18.7 Consensus size: 50
52028473 CTGGTACGCA
* ** * *
52028483 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCTGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028532 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028582 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028632 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028682 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028732 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028782 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028832 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028882 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028932 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52028982 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52029032 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52029082 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52029132 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52029182 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
52029232 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * ** * * *
52029282 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAT-TAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCT-GATACACG
* * * *
52029333 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
52029382 TAGTAGCCTGCACTTAGTACTACATACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
52029416 CACAATAGCT
Statistics
Matches: 857, Mismatches: 22, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
49 70 0.08
50 750 0.88
51 37 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:52030096 original size:30 final size:30
Alignment explanation
Indices: 52030062--52030121 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52030052 CTTTAATACG
52030062 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
52030092 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
52030122 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:52030323 original size:44 final size:44
Alignment explanation
Indices: 52030254--52030341 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
52030244 GATTAAGCCC
*
52030254 TTTTGCTCGTTTTCACTTAAAACCGAGTAGCACAAGTTGTCTAA
1 TTTTACTCGTTTTCACTTAAAACCGAGTAGCACAAGTTGTCTAA
*
52030298 TTTTACTCGTTTTCACTTAACACCGAGTAGCACAAGTTGTCTAA
1 TTTTACTCGTTTTCACTTAAAACCGAGTAGCACAAGTTGTCTAA
52030342 CATAATTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (44 bp):
TTTTACTCGTTTTCACTTAAAACCGAGTAGCACAAGTTGTCTAA
Found at i:52032911 original size:39 final size:38
Alignment explanation
Indices: 52032860--52033018 Score: 219
Period size: 39 Copynumber: 4.1 Consensus size: 38
52032850 ATTATATTAT
* * *
52032860 CAGCACAAAGCCTGCGTGACTTTAGCTCGGATACATTTC
1 CAGCACGAAGCCTACG-GACTTTAGCCCGGATACATTTC
*
52032899 CTGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTAC-GGACTTTAGCCCGGATACATTTC
52032938 CAGCACGAAGCCTACGAGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTACG-GACTTTAGCCCGGATACATTTC
** *
52032977 CAGCACGAAGCCTGTGGAACTTTAGCCCAGATACATTTC
1 CAGCACGAAGCCTACGG-ACTTTAGCCCGGATACATTTC
52033016 CAG
1 CAG
52033019 TATCTTGCAT
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
38 2 0.02
39 106 0.97
40 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (38 bp):
CAGCACGAAGCCTACGGACTTTAGCCCGGATACATTTC
Found at i:52036343 original size:15 final size:15
Alignment explanation
Indices: 52036319--52036357 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
52036309 AATAGAGAAG
52036319 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
52036335 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
52036350 CCATGATA
1 CCAAGATA
52036358 CGAAAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:52043703 original size:49 final size:49
Alignment explanation
Indices: 52043650--52043876 Score: 258
Period size: 49 Copynumber: 4.6 Consensus size: 49
52043640 CTGGTACGCA
* *
52043650 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC-GGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTA-TCGGGTACACG
* * ** * *
52043699 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCGGGTACACG
* * * * *
52043749 TAGTAGCCTGCACTTAGTACTAAACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACACG
* **
52043800 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACG
*
52043849 TAGTAGCCTACACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
52043877 GAGACACACT
Statistics
Matches: 148, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
49 68 0.46
50 43 0.29
51 37 0.25
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACG
Found at i:52043822 original size:101 final size:98
Alignment explanation
Indices: 52043650--52043876 Score: 269
Period size: 100 Copynumber: 2.3 Consensus size: 98
52043640 CTGGTACGCA
* ** *
52043650 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACATGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTCGGTACACATAGTAGCCTGCACTTA
* *
52043715 GTACTACACACGTGACCTAACCAT-CTGATACACG
66 GTACTACACACGCGACC-AACCATCCAG-TACACG
* * * *
52043749 TAGTAGCCTGCACTTAGTACTAAACACGTGATCGAAGTTA-TCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATTC-GGTACACATAGTAGCCTGCAC
* **
52043813 TTAGTACTACACATGCGACCAATTATCCAGTACACG
63 TTAGTACTACACACGCGACCAACCATCCAGTACACG
*
52043849 TAGTAGCCTACACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
52043877 GAGACACACT
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
99 28 0.26
100 41 0.38
101 40 0.37
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCAGTACACG
Found at i:52046561 original size:33 final size:33
Alignment explanation
Indices: 52046499--52046561 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
52046489 TACAGTAAGG
* * *
52046499 GTCTGAGCCTGAGCCCTATTCATTAACAGTACA
1 GTCTGAGCCTAAGCCCTATGCAGTAACAGTACA
* *
52046532 GTCTGGGCCTAAGCCCTATGCAGTCACAGT
1 GTCTGAGCCTAAGCCCTATGCAGTAACAGT
52046562 GTGGGCCTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (33 bp):
GTCTGAGCCTAAGCCCTATGCAGTAACAGTACA
Found at i:52046583 original size:28 final size:27
Alignment explanation
Indices: 52046523--52046584 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
52046513 CCTATTCATT
*
52046523 AACAGTACAGTCTGGGCCTAAGCCCTA
1 AACAGTACAGTCTGGGCCTAAGCCCAA
** * *
52046550 TGCAGTCACAGTGTGGGCCTATGCCCAA
1 AACAGT-ACAGTCTGGGCCTAAGCCCAA
52046578 AACAGTA
1 AACAGTA
52046585 TAATCACAGT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.19
Consensus pattern (27 bp):
AACAGTACAGTCTGGGCCTAAGCCCAA
Found at i:52046722 original size:23 final size:23
Alignment explanation
Indices: 52046703--52046757 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
52046693 ATTGCAGTGT
52046703 AGCTACTAATAGTAACGCAGCAA
1 AGCTACTAATAGTAACGCAGCAA
*
52046726 AGCTGCTAATAGTAACGCAGCAA
1 AGCTACTAATAGTAACGCAGCAA
*
52046749 AGCTGCTAA
1 AGCTACTAA
52046758 GAGCGGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (23 bp):
AGCTACTAATAGTAACGCAGCAA
Done.