Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 217 of 335
Found at i:64900240 original size:29 final size:28
Alignment explanation
Indices: 64900208--64900310 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
64900198 GGGACGAGAT
* *
64900208 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
64900237 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
64900266 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
64900295 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
64900311 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:64902219 original size:40 final size:40
Alignment explanation
Indices: 64902175--64902262 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
64902165 CTAAGTCCCA
* * *
64902175 AAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCG
1 AAGGCATTCGTGC-AAGTGACTAAATCCGGACTAAGATCAG
* *
64902215 AAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCAG
1 AAGGCATTCGTGCAAGTGACTAAATCCGGACTAAGATCAG
64902255 AAGGCATT
1 AAGGCATT
64902263 TCTGAGCTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 36 0.86
41 6 0.14
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (40 bp):
AAGGCATTCGTGCAAGTGACTAAATCCGGACTAAGATCAG
Found at i:64907113 original size:29 final size:29
Alignment explanation
Indices: 64907081--64907215 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
64907071 ATACCCTCCG
** * *
64907081 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
64907110 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
64907139 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
64907168 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
64907197 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
64907216 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:64907148 original size:58 final size:58
Alignment explanation
Indices: 64907027--64907216 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
64907017 TACTCGATTT
* * * *** *
64907027 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
64907085 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
64907143 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
64907201 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
64907217 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:64914404 original size:29 final size:29
Alignment explanation
Indices: 64914372--64914506 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
64914362 ATACCCTCCG
** * *
64914372 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
64914401 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
64914430 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
64914459 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
64914488 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
64914507 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:64914439 original size:58 final size:58
Alignment explanation
Indices: 64914318--64914507 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
64914308 TACTCGATTT
* * * *** *
64914318 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
64914376 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
64914434 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
64914492 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
64914508 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:64918207 original size:31 final size:30
Alignment explanation
Indices: 64918143--64918207 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
64918133 AATTTATTTT
* *
64918143 TTTGTTAATTTTCTTATTATTTTAAAGGTA
1 TTTGTTAATTTTCTTATTACTTTAAAGGCA
*
64918173 TTTGTTAATTTTTTTTATTACTTTAGAA-GCA
1 TTTGTTAA-TTTTCTTATTACTTTA-AAGGCA
64918204 TTTG
1 TTTG
64918208 CTCATTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 8 0.27
31 20 0.67
32 2 0.07
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.60
Consensus pattern (30 bp):
TTTGTTAATTTTCTTATTACTTTAAAGGCA
Found at i:64924170 original size:71 final size:71
Alignment explanation
Indices: 64924084--64924247 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64924074 CGATTTGTCT
64924084 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64924149 CTTTCA
66 CTTTCA
64924155 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64924220 CTTTCA
66 CTTTCA
64924226 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
64924248 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:64924285 original size:71 final size:70
Alignment explanation
Indices: 64924084--64924281 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
64924074 CGATTTGTCT
* * * *
64924084 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
64924149 CTTTCA
65 CTTTCA
* * * *
64924155 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
64924220 CTTTCA
65 CTTTCA
* *
64924226 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
64924282 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:64928378 original size:37 final size:40
Alignment explanation
Indices: 64928281--64928466 Score: 219
Period size: 37 Copynumber: 4.8 Consensus size: 40
64928271 TCGAATGATG
* *
64928281 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
64928321 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACCA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
64928360 TCCGGG-TAAG-CCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
64928397 ACCGGGCTAAGTCCCGAAGGCA-TTGTGC--GTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
64928434 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
64928467 CGTATATCCG
Statistics
Matches: 128, Mismatches: 9, Indels: 18
0.83 0.06 0.12
Matches are distributed among these distances:
36 7 0.05
37 52 0.41
38 19 0.15
39 16 0.12
40 26 0.20
41 8 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:64928414 original size:76 final size:77
Alignment explanation
Indices: 64928281--64928466 Score: 213
Period size: 76 Copynumber: 2.4 Consensus size: 77
64928271 TCGAATGATG
* *
64928281 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTATAACCGGACTAAGATCCGAAGGCA-T
64928345 TGTGCGAGTTACCA-A
64 TGTGC--GTTACCATA
* *
64928360 TCCGGG-TAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AACCGGGCTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAACCGGACTAAGAT-CCGAAGGCATT
*
64928421 GTGCGTTACTATA
65 GTGCGTTACCATA
* * *
64928434 ACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
64928467 CGTATATCCG
Statistics
Matches: 94, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
73 6 0.06
74 6 0.06
75 10 0.11
76 39 0.41
77 16 0.17
78 11 0.12
79 6 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (77 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAACCGGACTAAGATCCGAAGGCATTG
TGCGTTACCATA
Found at i:64936403 original size:77 final size:80
Alignment explanation
Indices: 64936257--64936439 Score: 225
Period size: 77 Copynumber: 2.3 Consensus size: 80
64936247 TCGAATGATG
* *
64936257 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGACTATAACCGGACTAAGATCCGAAGGCATT
64936321 CGTGCGAGTTACTA-A
65 CGTGCGAGTTACTATA
* *
64936336 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-AGTTACTA-AACCGGGCTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
*
64936397 TTGTGCGAGTTACTATA
64 TCGTGCGAGTTACTATA
* **
64936414 ACCGGGCTCTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64936440 AGTGAGTCAT
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
76 1 0.01
77 41 0.45
78 22 0.24
79 9 0.10
80 18 0.20
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAACCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTATA
Found at i:64936428 original size:40 final size:39
Alignment explanation
Indices: 64936258--64936439 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
64936248 CGAATGATGT
* * *
64936258 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * *
64936298 CCGGACTAAGAT-CTGAAGGCATTCGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
64936338 CCGGGCTAAG-CCCGAAGGCATTTGTGC-AGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
64936375 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
**
64936415 CCGGGCTCTGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
64936440 AGTGAGTCAT
Statistics
Matches: 124, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
37 10 0.08
38 26 0.21
39 23 0.19
40 58 0.47
41 7 0.06
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64939786 original size:24 final size:25
Alignment explanation
Indices: 64939753--64939815 Score: 96
Period size: 24 Copynumber: 2.6 Consensus size: 25
64939743 TCACTAGATA
64939753 TTGCTAGAAATCAAATAAGAACAAC
1 TTGCTAGAAATCAAATAAGAACAAC
64939778 TTGC-AGAAATCAAATAAGAACAAC
1 TTGCTAGAAATCAAATAAGAACAAC
*
64939802 TTTCTA-AAAT-AAAT
1 TTGCTAGAAATCAAAT
64939816 TTAGCCACCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 4 0.11
24 27 0.75
25 5 0.14
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (25 bp):
TTGCTAGAAATCAAATAAGAACAAC
Found at i:64942250 original size:60 final size:60
Alignment explanation
Indices: 64942173--64942311 Score: 153
Period size: 60 Copynumber: 2.3 Consensus size: 60
64942163 CCAAATGTGT
* *
64942173 TGATATGTGC-AAGGCCCAATATA-TCTCGACT-TGTTATA-GGGCTATGGCCCAGATTGATAC
1 TGATATGGGCTAAGGCCCAATATACTCT-GA-TATG-TA-AGGGGCTATGGCCCAGATTAATAC
* * *
64942233 TGATATGGTCT-AGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAAGGCCCAATATACTCTGATA-TGTAAGGGGCTATGGCCCAGATTAATAC
64942293 TGATATGGGCTAAGGCCCA
1 TGATATGGGCTAAGGCCCA
64942312 GTTAACTCTG
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
59 2 0.03
60 53 0.79
61 12 0.18
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (60 bp):
TGATATGGGCTAAGGCCCAATATACTCTGATATGTAAGGGGCTATGGCCCAGATTAATAC
Found at i:64943174 original size:15 final size:15
Alignment explanation
Indices: 64943154--64943185 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
64943144 AGTCTTCATC
64943154 TACCCTACATACATG
1 TACCCTACATACATG
64943169 TACCCTACATACATG
1 TACCCTACATACATG
64943184 TA
1 TA
64943186 GCCATTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.28
Consensus pattern (15 bp):
TACCCTACATACATG
Found at i:64943828 original size:19 final size:19
Alignment explanation
Indices: 64943791--64943828 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
64943781 ACCTTTTAGA
*
64943791 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
64943810 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
64943829 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:64948047 original size:46 final size:46
Alignment explanation
Indices: 64947980--64948071 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
64947970 GGCATTCGAA
64947980 CTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAG
64948026 CTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAG
64948072 TAGGTTACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.26
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAG
Found at i:64949230 original size:37 final size:37
Alignment explanation
Indices: 64949170--64949390 Score: 388
Period size: 37 Copynumber: 6.0 Consensus size: 37
64949160 TTTAACTCGA
* *
64949170 ATAATCCCCACACGTAGTTATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
64949207 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
64949244 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
* *
64949281 ATAATATCCACACGTAGTCATCAGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
64949318 ATAATCTCCATACGTAGTCATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
64949355 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
64949391 ATATATTTCC
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 174 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:64949583 original size:48 final size:48
Alignment explanation
Indices: 64949523--64949820 Score: 488
Period size: 48 Copynumber: 6.2 Consensus size: 48
64949513 CGGCCACAAT
*
64949523 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
64949571 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* ** *
64949619 ATATATATATCTCATACATATTTCATGTTAGCCATTCAGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
64949667 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * *
64949715 ATATATATATCTCATACACATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
64949763 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
64949811 ACATATATAT
1 ATATACATAT
64949821 ATTTATCTTG
Statistics
Matches: 230, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 230 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:64955971 original size:17 final size:17
Alignment explanation
Indices: 64955949--64955981 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64955939 GTGATAGAGC
64955949 ATGCTGGGCACTTGAGG
1 ATGCTGGGCACTTGAGG
*
64955966 ATGCTGGGCATTTGAG
1 ATGCTGGGCACTTGAG
64955982 AGATAAGCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.15, G:0.39, T:0.27
Consensus pattern (17 bp):
ATGCTGGGCACTTGAGG
Found at i:64962494 original size:42 final size:42
Alignment explanation
Indices: 64962435--64962519 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
64962425 CATTTAAACT
*
64962435 ATCATAATTTAAAACTAAACATACTTCTTTCCTAATCACAAA
1 ATCATAATTTAAAACTAAACAGACTTCTTTCCTAATCACAAA
64962477 ATCATAATTTAAAACTAAACAGACTTCTTTCCTAATCACAAA
1 ATCATAATTTAAAACTAAACAGACTTCTTTCCTAATCACAAA
64962519 A
1 A
64962520 CCATGCACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (42 bp):
ATCATAATTTAAAACTAAACAGACTTCTTTCCTAATCACAAA
Found at i:64963101 original size:17 final size:17
Alignment explanation
Indices: 64963079--64963114 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
64963069 AGTCATTATC
64963079 TATTCAT-AACCTAAATA
1 TATTCATCAACC-AAATA
64963096 TATTCATCAACCAAATA
1 TATTCATCAACCAAATA
64963113 TA
1 TA
64963115 ACTAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.33
Consensus pattern (17 bp):
TATTCATCAACCAAATA
Found at i:64984896 original size:40 final size:40
Alignment explanation
Indices: 64984768--64984898 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
64984758 TATGCTGGAA
* * * *
64984768 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
64984808 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
64984848 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
64984888 ATTATATCCGG
1 ATTATATCCGG
64984899 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:64993947 original size:29 final size:30
Alignment explanation
Indices: 64993880--64993991 Score: 128
Period size: 29 Copynumber: 3.9 Consensus size: 30
64993870 ACCCCTATAT
* *
64993880 ACATGCATATGGCCCA-CTGGGCCCAATCT-
1 ACATTCATATGGCCCATCTAGGCCCAAT-TA
64993909 -CATTCATATGGCCCATCT-GGCCCAATTA
1 ACATTCATATGGCCCATCTAGGCCCAATTA
* * *
64993937 ATATTCTTATGGCCCA-CTAGGCCCAATTC
1 ACATTCATATGGCCCATCTAGGCCCAATTA
64993966 ACATTCATATGGCCCAT-TAGGCCCAA
1 ACATTCATATGGCCCATCTAGGCCCAA
64993992 ATCATATTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.01
28 24 0.33
29 47 0.65
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (30 bp):
ACATTCATATGGCCCATCTAGGCCCAATTA
Found at i:64993999 original size:58 final size:57
Alignment explanation
Indices: 64993887--64993999 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 57
64993877 TATACATGCA
* * *
64993887 TATGGCCCACTGGGCCCAATCTCATTCATATGGCCCATCTGGCCCAATTAATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCCAAATAATATTCT
*
64993944 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCATCT-GGCCCAAATAATATT
64994000 ATACTCACGC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 19 0.38
58 31 0.62
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCCAAATAATATTCT
Found at i:64994157 original size:20 final size:20
Alignment explanation
Indices: 64994132--64994169 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64994122 GTTTATTCGC
*
64994132 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
64994152 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
64994170 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:64995818 original size:28 final size:28
Alignment explanation
Indices: 64995786--64995854 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
64995776 GCGTAGATCA
64995786 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
64995814 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
64995842 CGATA-TACCCCTA
1 CGAAATTACCCCTA
64995855 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:64998351 original size:16 final size:16
Alignment explanation
Indices: 64998330--64998362 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
64998320 AAAAATTCAA
64998330 GATTTCAAGATTTTTG
1 GATTTCAAGATTTTTG
64998346 GATTTCAAGATTTTTG
1 GATTTCAAGATTTTTG
64998362 G
1 G
64998363 GGCGTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.48
Consensus pattern (16 bp):
GATTTCAAGATTTTTG
Found at i:65000455 original size:15 final size:15
Alignment explanation
Indices: 65000425--65000454 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
65000415 TCTGAAACAT
65000425 ACTTAATAAGATAAA
1 ACTTAATAAGATAAA
65000440 ACTT-ATAAGATAAA
1 ACTTAATAAGATAAA
65000454 A
1 A
65000455 AAAGGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (15 bp):
ACTTAATAAGATAAA
Found at i:65001307 original size:29 final size:28
Alignment explanation
Indices: 65001228--65001338 Score: 84
Period size: 29 Copynumber: 3.9 Consensus size: 28
65001218 CATACATGCA
* *
65001228 TATGGCCCACTGGGCCCAA-TC-TCATTCG
1 TATGGCCCA-TAGGCCCAATTCAT-ATTCT
* * *
65001256 TATGGCCCATCTGGTCCAGTTCATATTCT
1 TATGGCCCAT-AGGCCCAATTCATATTCT
*
65001285 TATGGCCCAGTAGGCCCAATTCACATT-T
1 TATGGCCCA-TAGGCCCAATTCATATTCT
*
65001313 ATATGGCCCATTAGGCCCAAATCATA
1 -TATGGCCCA-TAGGCCCAATTCATA
65001339 GTATACTCAT
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.01
28 15 0.22
29 49 0.73
30 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (28 bp):
TATGGCCCATAGGCCCAATTCATATTCT
Found at i:65002827 original size:48 final size:48
Alignment explanation
Indices: 65002756--65002850 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
65002746 AAACCTTGAC
*
65002756 CAAGACCTGCCTTTGCGCAATTAGCACTTAGCCGAAATTATTAAGCAA
1 CAAGACCTACCTTTGCGCAATTAGCACTTAGCCGAAATTATTAAGCAA
*
65002804 CAAGACCTACCTTTGCGCAATTAGCTCTTAGCCGAAATTATTAAGCA
1 CAAGACCTACCTTTGCGCAATTAGCACTTAGCCGAAATTATTAAGCA
65002851 TAAAAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (48 bp):
CAAGACCTACCTTTGCGCAATTAGCACTTAGCCGAAATTATTAAGCAA
Found at i:65005484 original size:42 final size:42
Alignment explanation
Indices: 65005381--65005498 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
65005371 ATCTGAGCTA
* * *
65005381 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCT-AGATT
* *
65005424 TACGTGTAAGACTATGTCTGGGACATAGGCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCTAGATT
* *
65005467 TCGTGTAAGACCCTGTCTGGGACAGAGGCATC
1 TCGTGTAAGACCATGTCTGGGACACAGGCATC
65005499 AATACTGAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 28 0.43
43 6 0.09
44 28 0.43
45 3 0.05
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCTAGATT
Found at i:65005531 original size:43 final size:41
Alignment explanation
Indices: 65005428--65005532 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 41
65005418 GAGATTTACG
* * * * *
65005428 TGTAAGACTATGTCTGGGACATAGGCATCGTATCTGATTTCG
1 TGTAAGAC-ATGTCTGGGACAGAGGCATCATATCTGAATACA
*
65005470 TGTAAGACCCTGTCTGGGACAGAGGCATCA-ATACTGAAATACA
1 TGTAAGA-CATGTCTGGGACAGAGGCATCATAT-CTG-AATACA
65005513 TGTAAGATCATGTCTGGGAC
1 TGTAAGA-CATGTCTGGGAC
65005533 GTCAGCATTG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.04
42 28 0.54
43 22 0.42
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (41 bp):
TGTAAGACATGTCTGGGACAGAGGCATCATATCTGAATACA
Found at i:65008991 original size:40 final size:40
Alignment explanation
Indices: 65008936--65009145 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
65008926 AACATTGGAA
65008936 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65008976 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65009016 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
65009056 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
65009095 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
65009136 CTATATCCGG
1 ATATATCCGG
65009146 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:65012477 original size:79 final size:82
Alignment explanation
Indices: 65012337--65012521 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
65012327 TCGAATGATG
* * *
65012337 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
65012401 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
65012417 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
65012479 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
65012497 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65012522 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:65012529 original size:40 final size:40
Alignment explanation
Indices: 65012338--65012529 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
65012328 CGAATGATGT
* * * * *
65012338 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
65012378 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
65012418 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
65012457 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
65012497 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
65012530 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:65012552 original size:79 final size:79
Alignment explanation
Indices: 65012337--65012554 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
65012327 TCGAATGATG
* * * * ** *
65012337 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
65012400 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
65012417 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
65012482 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
65012497 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
65012555 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:65019689 original size:18 final size:18
Alignment explanation
Indices: 65019652--65019690 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65019642 TTGGAAATCA
*
65019652 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
65019670 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
65019688 AAA
1 AAA
65019691 AAATCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:65021270 original size:19 final size:20
Alignment explanation
Indices: 65021246--65021283 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65021236 GGTACCACCA
65021246 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
65021265 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
65021284 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:65021622 original size:93 final size:93
Alignment explanation
Indices: 65021512--65021682 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
65021502 GCCCCTAAGT
* *
65021512 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
65021577 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
65021605 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
65021670 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65021683 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65021679 original size:46 final size:46
Alignment explanation
Indices: 65021507--65021679 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
65021497 AACCCGCCCC
* * * *
65021507 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
65021553 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
65021601 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
65021646 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65021680 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:65028845 original size:18 final size:19
Alignment explanation
Indices: 65028822--65028859 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
65028812 ATGGTACCAA
65028822 AAACAT-ATATCA-CATCTT
1 AAACATCAT-TCATCATCTT
65028840 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
65028859 A
1 A
65028860 CCACCTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (19 bp):
AAACATCATTCATCATCTT
Found at i:65029205 original size:46 final size:46
Alignment explanation
Indices: 65029082--65029207 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
65029072 AACCCACCCC
* * *
65029082 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
65029128 TAAATGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
65029174 TAAGTGAACTCGGACTCAACTCAACGCGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65029208 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:65031913 original size:40 final size:40
Alignment explanation
Indices: 65031721--65031906 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
65031711 TCGAATGATG
* * *
65031721 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
65031761 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTGCTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
65031801 TCTGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
65031841 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65031882 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65031907 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 115 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65031913 original size:80 final size:80
Alignment explanation
Indices: 65031721--65031939 Score: 234
Period size: 80 Copynumber: 2.8 Consensus size: 80
65031711 TCGAATGATG
* * **
65031721 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
* *
65031785 TGTGCGAGTTGCTAAA
65 TATGCGAGTTACTAAA
* * * *
65031801 TCTGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATT
65031865 TATGCGAGTTACTATAA
65 TATGCGAGTTACTA-AA
* **
65031882 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
65031940 TACGTGATTC
Statistics
Matches: 116, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
79 16 0.14
80 91 0.78
81 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
ATGCGAGTTACTAAA
Found at i:65031920 original size:40 final size:40
Alignment explanation
Indices: 65031721--65031929 Score: 187
Period size: 40 Copynumber: 5.2 Consensus size: 40
65031711 TCGAATGATG
* * * * *
65031721 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAGC-GAGTTACTAAA
** * *
65031761 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTGCTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGAGCGAGTTACTAAA
* * *
65031801 TCTGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
65031841 TCCGGGTTAAGTCCCGAAGGCATTT-ATGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGA-GCGAGTTACTA-AA
* * * *
65031882 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTAAA
65031921 TCC-GGTTAA
1 TCCGGGTTAA
65031930 ACTCCGAAGG
Statistics
Matches: 142, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
39 8 0.06
40 123 0.87
41 11 0.08
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAA
Found at i:65032929 original size:25 final size:25
Alignment explanation
Indices: 65032901--65032948 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65032891 TTATACCATG
* * *
65032901 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
65032926 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
65032949 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:65033017 original size:20 final size:20
Alignment explanation
Indices: 65032992--65033050 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
65032982 TAAATATGGT
65032992 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
65033012 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
65033032 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
65033051 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:65033032 original size:11 final size:11
Alignment explanation
Indices: 65032996--65033050 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
65032986 TATGGTATGT
65032996 ATGATATGCAC
1 ATGATATGCAC
* *
65033007 ATGAAATG--T
1 ATGATATGCAC
65033016 ATGATATGCAC
1 ATGATATGCAC
*
65033027 ATGATATG--T
1 ATGATATGCAC
65033036 ATGATATGCAC
1 ATGATATGCAC
65033047 ATGA
1 ATGA
65033051 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:65033154 original size:23 final size:24
Alignment explanation
Indices: 65033101--65033219 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
65033091 GAGGAAGTGA
65033101 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
65033125 AAAAGGGCTTATGCCCCAGTTA-C
1 AAAAGGGCTTATGCCCCAGTTATC
*
65033148 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
65033172 GAAAGGGCTTTTGCCCCAGTTA-C
1 AAAAGGGCTTATGCCCCAGTTATC
*
65033195 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAAG-GGCTTATGCC-CCAGTTAT
65033220 ATGATAAAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
23 23 0.28
24 50 0.60
25 10 0.12
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:65033170 original size:47 final size:48
Alignment explanation
Indices: 65033101--65033219 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
65033091 GAGGAAGTGA
65033101 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTACT
** *
65033148 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTACT
*
65033196 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
65033220 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 10 0.15
49 11 0.17
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTACT
Found at i:65033446 original size:31 final size:31
Alignment explanation
Indices: 65033411--65033505 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
65033401 CGTTTACAGT
65033411 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
65033442 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
65033473 AAAGGCTTCAGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
65033504 AA
1 AA
65033506 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:65038554 original size:40 final size:40
Alignment explanation
Indices: 65038373--65038547 Score: 325
Period size: 40 Copynumber: 4.4 Consensus size: 40
65038363 ATAGCAACTC
*
65038373 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
65038413 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
65038453 GCACAAATGCCTTCGGGACTTAGCCC-GATATAGTAACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
65038492 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
65038532 GCACAAATGCCTTCGG
1 GCACAAATGCCTTCGG
65038548 ATCTTAGTCC
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
39 38 0.29
40 93 0.71
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:65038554 original size:79 final size:80
Alignment explanation
Indices: 65038373--65038547 Score: 325
Period size: 79 Copynumber: 2.2 Consensus size: 80
65038363 ATAGCAACTC
*
65038373 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCC
65038438 CGGATATAGTCACTA
66 CGGATATAGTCACTA
*
65038453 GCACAAATGCCTTCGGGACTTAGCCC-GATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCC
65038517 CGGATATAGTCACTA
66 CGGATATAGTCACTA
65038532 GCACAAATGCCTTCGG
1 GCACAAATGCCTTCGG
65038548 ATCTTAGTCC
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
79 67 0.72
80 26 0.28
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATATAGTCACTA
Found at i:65039986 original size:13 final size:13
Alignment explanation
Indices: 65039970--65039997 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
65039960 TTTATTATTT
65039970 TTAACACAAAATA
1 TTAACACAAAATA
65039983 TTAACACAAAATA
1 TTAACACAAAATA
65039996 TT
1 TT
65039998 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:65046712 original size:40 final size:40
Alignment explanation
Indices: 65046500--65046705 Score: 353
Period size: 40 Copynumber: 5.2 Consensus size: 40
65046490 AACCCAAGTA
* *
65046500 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
65046539 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
65046579 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
65046619 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
65046659 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
65046699 CCTTCGG
1 CCTTCGG
65046706 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 13 0.08
40 145 0.91
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:65048138 original size:13 final size:13
Alignment explanation
Indices: 65048122--65048149 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
65048112 TTTATTATTT
65048122 TTAACACAAAATA
1 TTAACACAAAATA
65048135 TTAACACAAAATA
1 TTAACACAAAATA
65048148 TT
1 TT
65048150 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:65052061 original size:34 final size:34
Alignment explanation
Indices: 65052018--65052095 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
65052008 AGAGAAAAGG
*
65052018 GAAACAGAAATCAGTAACT-TCAAAGTAAGAGGTTA
1 GAAA-AGAAATCAGTAACTCT-AAAGTAAGAGGTCA
*
65052053 GAAAAGAAATCAGTAACTCTGAAGTAAGAGGTCA
1 GAAAAGAAATCAGTAACTCTAAAGTAAGAGGTCA
65052087 GAAAAGAAA
1 GAAAAGAAA
65052096 CATAAGGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
34 35 0.88
35 5 0.12
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (34 bp):
GAAAAGAAATCAGTAACTCTAAAGTAAGAGGTCA
Found at i:65054055 original size:43 final size:43
Alignment explanation
Indices: 65054008--65054105 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
65053998 TTGAGATTAT
* * * * **
65054008 GTGTAAGACCATGTCTGGGACATTAGCATCGTTATTTGATTTC
1 GTGTAAGACCATGTCTAGGACAGTAGCATCGATATGTGATAAC
* *
65054051 GTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATAAC
1 GTGTAAGACCATGTCTAGGACAGTAGCATCGATATGTGATAAC
*
65054094 ATGTAAGACCAT
1 GTGTAAGACCAT
65054106 ATATGGGATA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACAGTAGCATCGATATGTGATAAC
Found at i:65054894 original size:22 final size:20
Alignment explanation
Indices: 65054869--65054917 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
65054859 GTTATGTAAG
*
65054869 TTTGATGATTTTGGTATATTGA
1 TTTGATG-TTTTGGT-TATGGA
65054891 TTTGGTATGTTTTGGTTATGGA
1 TTT-G-ATGTTTTGGTTATGGA
65054913 TTTGA
1 TTTGA
65054918 GTAGTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 11 0.46
23 8 0.33
24 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (20 bp):
TTTGATGTTTTGGTTATGGA
Found at i:65061800 original size:25 final size:26
Alignment explanation
Indices: 65061772--65061822 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
65061762 TATTATTTTT
*
65061772 AATTT-ATTTTTTAATAA-TTTATATA
1 AATTTCATTTATTAA-AATTTTATATA
65061797 AATTTCATTTATTAAAATTTTATATA
1 AATTTCATTTATTAAAATTTTATATA
65061823 TAGGAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTTCATTTATTAAAATTTTATATA
Found at i:65063930 original size:49 final size:49
Alignment explanation
Indices: 65063858--65064045 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
65063848 TAGCCGAAGC
*
65063858 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
65063907 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGACGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCA-AT
* *
65063958 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
65064007 TATCTAGTACACGTAGTAGCTTACACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
65064046 CGTGACCTCA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 75 0.62
50 4 0.03
51 41 0.34
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:65064036 original size:100 final size:100
Alignment explanation
Indices: 65063858--65064050 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
65063848 TAGCCGAAGC
* *
65063858 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAG
* *
65063923 TAGCCTGCACTTAGTACTACACATGTGATCGACGT
66 TAGCCTACACTTAGTACTACACACGTGATCGACGT
65063958 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAG
*
65064023 TAGCTTACACTTAGTACTACACACGTGA
66 TAGCCTACACTTAGTACTACACACGTGA
65064051 CCTCACAATA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAG
TAGCCTACACTTAGTACTACACACGTGATCGACGT
Found at i:65069327 original size:19 final size:19
Alignment explanation
Indices: 65069303--65069339 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65069293 GTGTCATCAT
*
65069303 AAATTTATAGGCATAACTA
1 AAATTTATAGACATAACTA
*
65069322 AAATTTGTAGACATAACT
1 AAATTTATAGACATAACT
65069340 TACACATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
AAATTTATAGACATAACTA
Found at i:65076179 original size:15 final size:15
Alignment explanation
Indices: 65076159--65076190 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
65076149 AGTCTTTATC
65076159 TACCCTACATACATG
1 TACCCTACATACATG
65076174 TACCCTACATACATG
1 TACCCTACATACATG
65076189 TA
1 TA
65076191 GCCATTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.28
Consensus pattern (15 bp):
TACCCTACATACATG
Found at i:65081082 original size:13 final size:13
Alignment explanation
Indices: 65081064--65081088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65081054 TACCCTGTCT
65081064 TCGCACGGCCGTA
1 TCGCACGGCCGTA
65081077 TCGCACGGCCGT
1 TCGCACGGCCGT
65081089 GTTTCCCTCC
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:0.12, C:0.40, G:0.32, T:0.16
Consensus pattern (13 bp):
TCGCACGGCCGTA
Found at i:65081898 original size:13 final size:13
Alignment explanation
Indices: 65081880--65081905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65081870 ATATTATAAT
65081880 TATTTTATGTTAA
1 TATTTTATGTTAA
65081893 TATTTTATGTTAA
1 TATTTTATGTTAA
65081906 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:65083330 original size:40 final size:40
Alignment explanation
Indices: 65083282--65083447 Score: 282
Period size: 40 Copynumber: 4.2 Consensus size: 40
65083272 GGACTAAGAT
65083282 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
65083322 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
65083362 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
65083402 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
65083441 CCGAAGG
1 CCGAAGG
65083448 TACTTGGGTT
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 15 0.12
40 104 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:65090209 original size:28 final size:27
Alignment explanation
Indices: 65090146--65090215 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
65090136 ATAGTGAGTC
65090146 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
65090173 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
65090201 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65090216 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:65098023 original size:28 final size:27
Alignment explanation
Indices: 65097960--65098029 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
65097950 ATAGTGAGTC
65097960 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
65097987 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
65098015 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65098030 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:65100794 original size:13 final size:13
Alignment explanation
Indices: 65100776--65100801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65100766 ATATTATAAT
65100776 TATTTTATGTTAA
1 TATTTTATGTTAA
65100789 TATTTTATGTTAA
1 TATTTTATGTTAA
65100802 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:65102228 original size:40 final size:40
Alignment explanation
Indices: 65102180--65102385 Score: 324
Period size: 40 Copynumber: 5.2 Consensus size: 40
65102170 GGACTAAGAT
65102180 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
65102220 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
65102260 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
65102300 CCGAAGGCATTTTTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
65102340 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
65102379 CCGAAGG
1 CCGAAGG
65102386 TACTTGGGTT
Statistics
Matches: 151, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 15 0.10
40 136 0.90
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:65102306 original size:80 final size:80
Alignment explanation
Indices: 65102180--65102385 Score: 369
Period size: 80 Copynumber: 2.6 Consensus size: 80
65102170 GGACTAAGAT
*
65102180 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTA
65102245 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
*
65102260 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTTTGCTAGTGATTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTA
65102325 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
* *
65102340 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
65102386 TACTTGGGTT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 15 0.12
80 107 0.88
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTA
TATCCGGGCTAAGTC
Found at i:65117817 original size:43 final size:42
Alignment explanation
Indices: 65117765--65117886 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 42
65117755 ATGTTATCAT
* * *
65117765 ATATCGATGCAATTGTCCCAGACAGGGTCTTACATGGAATTATA
1 ATAT-GATGCAA-TGTCCCAGACATGGTCTTACATGGAATGAAA
* * *
65117809 ATATGATGCTAATGTCCCAGTCATGGTCTTACACGTAATGAAA
1 ATATGATGC-AATGTCCCAGACATGGTCTTACATGGAATGAAA
**
65117852 ATACAATGCCAATGTCCCAGACATGGTCTTACATG
1 ATATGATG-CAATGTCCCAGACATGGTCTTACATG
65117887 TAATCACATC
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
43 59 0.89
44 7 0.11
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (42 bp):
ATATGATGCAATGTCCCAGACATGGTCTTACATGGAATGAAA
Found at i:65117890 original size:43 final size:43
Alignment explanation
Indices: 65117778--65117890 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
65117768 TCGATGCAAT
* * * * ** *
65117778 TGTCCCAGACAGGGTCTTACATGGAATTATAATATGATGCTAA
1 TGTCCCAGACATGGTCTTACATGTAATGAAAATACAATGCCAA
* *
65117821 TGTCCCAGTCATGGTCTTACACGTAATGAAAATACAATGCCAA
1 TGTCCCAGACATGGTCTTACATGTAATGAAAATACAATGCCAA
65117864 TGTCCCAGACATGGTCTTACATGTAAT
1 TGTCCCAGACATGGTCTTACATGTAAT
65117891 CACATCTCGA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACATGTAATGAAAATACAATGCCAA
Found at i:65140925 original size:30 final size:30
Alignment explanation
Indices: 65140891--65140951 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65140881 TCCTTAACTC
65140891 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65140921 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65140951 A
1 A
65140952 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65142138 original size:34 final size:34
Alignment explanation
Indices: 65142091--65142181 Score: 119
Period size: 34 Copynumber: 2.6 Consensus size: 34
65142081 TTTGCATACT
* * *
65142091 GTACTGAAGTGGGCTAAGGCCTAGACTGCCACTG
1 GTACTAAAATGGGCTAAGGCCCAGACTGCCACTG
*
65142125 GTACTAAAATGGGCTAAGGCCCAGACTGCTACTG
1 GTACTAAAATGGGCTAAGGCCCAGACTGCCACTG
* *
65142159 CTACTGAAAAAGGGCTAAGGCCC
1 GTACT-AAAATGGGCTAAGGCCC
65142182 CTAACTGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
34 34 0.68
35 16 0.32
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.19
Consensus pattern (34 bp):
GTACTAAAATGGGCTAAGGCCCAGACTGCCACTG
Found at i:65142227 original size:29 final size:29
Alignment explanation
Indices: 65142190--65142248 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
65142180 CCCTAACTGA
65142190 AACTAAGGGCTTAGGCCCAATTTGTGTTT
1 AACTAAGGGCTTAGGCCCAATTTGTGTTT
*
65142219 AACTGAGGGCTTAGGCCCAATTTGTGTTT
1 AACTAAGGGCTTAGGCCCAATTTGTGTTT
65142248 A
1 A
65142249 CTCTAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (29 bp):
AACTAAGGGCTTAGGCCCAATTTGTGTTT
Found at i:65142682 original size:12 final size:12
Alignment explanation
Indices: 65142665--65142689 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65142655 AACCTTTTTT
65142665 TTTGAAACTAAA
1 TTTGAAACTAAA
65142677 TTTGAAACTAAA
1 TTTGAAACTAAA
65142689 T
1 T
65142690 AAGTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TTTGAAACTAAA
Found at i:65150405 original size:40 final size:40
Alignment explanation
Indices: 65150279--65150407 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
65150269 TTGCTGGAAA
* * *
65150279 TTATATCCGGGTTAAGA-CCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * *
65150318 CTACATTCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
65150358 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
65150398 TTATATCCGG
1 TTATATCCGG
65150408 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
39 17 0.23
40 57 0.77
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:65164426 original size:71 final size:71
Alignment explanation
Indices: 65164340--65164503 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
65164330 CGATTTGTCT
65164340 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65164405 CTTTCA
66 CTTTCA
65164411 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65164476 CTTTCA
66 CTTTCA
65164482 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65164504 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:65164541 original size:71 final size:70
Alignment explanation
Indices: 65164340--65164537 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
65164330 CGATTTGTCT
* * * *
65164340 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65164405 CTTTCA
65 CTTTCA
* * * *
65164411 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65164476 CTTTCA
65 CTTTCA
* *
65164482 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
65164538 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65171756 original size:71 final size:71
Alignment explanation
Indices: 65171670--65171833 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
65171660 CGATTTGTCT
65171670 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65171735 CTTTCA
66 CTTTCA
65171741 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65171806 CTTTCA
66 CTTTCA
65171812 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65171834 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:65171871 original size:71 final size:70
Alignment explanation
Indices: 65171670--65171867 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
65171660 CGATTTGTCT
* * * *
65171670 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65171735 CTTTCA
65 CTTTCA
* * * *
65171741 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65171806 CTTTCA
65 CTTTCA
* *
65171812 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
65171868 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65175446 original size:46 final size:46
Alignment explanation
Indices: 65175379--65175550 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
65175369 TAACCGCCCC
*
65175379 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
65175425 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
65175473 TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
65175518 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
65175551 ATGCTCAACA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 59 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:65175491 original size:93 final size:93
Alignment explanation
Indices: 65175384--65175554 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
65175374 GCCCCTAAGT
* *
65175384 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65175449 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
65175477 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65175542 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65175555 TCAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65176007 original size:30 final size:30
Alignment explanation
Indices: 65175973--65176032 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
65175963 ATTTAATACG
65175973 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* *** *
65176003 AACTTTTGCTTAATTACTCTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
65176033 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:65182506 original size:46 final size:46
Alignment explanation
Indices: 65182456--65182724 Score: 293
Period size: 46 Copynumber: 5.8 Consensus size: 46
65182446 TGGTTGAGCA
65182456 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65182502 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65182547 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65182595 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65182640 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65182688 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65182725 GCGGGTTACA
Statistics
Matches: 187, Mismatches: 18, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 91 0.49
47 57 0.30
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65182612 original size:93 final size:93
Alignment explanation
Indices: 65182453--65182717 Score: 494
Period size: 93 Copynumber: 2.8 Consensus size: 93
65182443 GGATGGTTGA
65182453 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
65182518 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
65182546 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
65182611 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
65182639 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
65182704 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
65182718 CTTATGGGCG
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 167 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65188043 original size:43 final size:43
Alignment explanation
Indices: 65187971--65188120 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 43
65187961 TATCCTAGAT
** * * * *
65187971 ATGGTCTTACATGTTTTCAC-ATATGGATGCCACTGTCCCAAAT
1 ATGGTCTTACATGTAATCACAATA-CGATGCCAATGTCCCAGAC
* * * *
65188014 AGGGTCTTACATGGAATCATAATACGATGCCAATGCCCCAGAC
1 ATGGTCTTACATGTAATCACAATACGATGCCAATGTCCCAGAC
* * *
65188057 ATGGTCTTACACGTAATCACAATACAAAGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACAATACGATGCCAATGTCCCAGAC
65188100 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACATGTAATCACA
65188121 TCTTGATAAC
Statistics
Matches: 88, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
43 85 0.97
44 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACAATACGATGCCAATGTCCCAGAC
Found at i:65198332 original size:46 final size:50
Alignment explanation
Indices: 65198280--65198502 Score: 186
Period size: 49 Copynumber: 4.7 Consensus size: 50
65198270 GATGAGTGCT
65198280 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCG-G-GACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGAGACGTAAGCC
* * * * * *
65198326 AGTGTAAGA-CATGTCCGGGACAT-GCAT-TGGCT-GTGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGAGACGTAAGCC
* * * * * * *
65198370 AGTGTAAGACCATGTATGGGACATGGTATCGGCAC-GGATAGGCG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGAGAGACGTA-AGCC
*
65198420 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA-AGATGATAA-CC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGAGACG-TAAGCC
*
65198469 AGTGTAAGACCATGACTGGGACATGGCATCAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCC
65198503 CTTTATCCCA
Statistics
Matches: 140, Mismatches: 24, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
44 12 0.09
45 16 0.11
46 33 0.24
47 1 0.01
48 5 0.04
49 38 0.27
50 34 0.24
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.21
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGAGACGTAAGCC
Found at i:65200164 original size:27 final size:27
Alignment explanation
Indices: 65200134--65200204 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
65200124 GTGTCACCAG
* *
65200134 TGTGGCAGAGCCACCAGAAGAGGT-AT
1 TGTGGCAGAGCCACCAGAACAGATAAT
* *
65200160 ATGTGGCAGTGCCACCAGATCAGATAAT
1 -TGTGGCAGAGCCACCAGAACAGATAAT
*
65200188 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
65200205 GACGCTTCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.18
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATAAT
Found at i:65201672 original size:24 final size:24
Alignment explanation
Indices: 65201637--65201707 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
65201627 CCAACACCGT
*
65201637 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
65201661 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
65201685 TCTCCCTTATCAGCTCCCAAATC
1 TCTCCCTTATCAGCTCCTAAATC
65201708 TTCTTCTGAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.23, C:0.42, G:0.04, T:0.31
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:65204512 original size:27 final size:27
Alignment explanation
Indices: 65204458--65204567 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
65204448 AGCACGGCTG
* * *
65204458 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
65204484 CCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
65204511 CCAGAATAGAT-ATATGTGGCAGTGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
65204538 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
65204565 CCA
1 CCA
65204568 AGACGCTTCC
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 15 0.21
27 53 0.76
28 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:65204540 original size:54 final size:53
Alignment explanation
Indices: 65204458--65204567 Score: 166
Period size: 54 Copynumber: 2.1 Consensus size: 53
65204448 AGCACGGCTG
*
65204458 CCAGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
* * * *
65204511 CCAGAATAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
65204565 CCA
1 CCA
65204568 AGACGCTTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 11 0.22
54 40 0.78
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
Found at i:65205999 original size:24 final size:24
Alignment explanation
Indices: 65205974--65206071 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
65205964 ACACCGTTCT
*
65205974 CCTTAATCAGCTCCTAAATCCTCTC
1 CCTT-ATCAGCTCCCAAATCCTCTC
65205999 CCTTATCAGCTCCCAAATCCTCTC
1 CCTTATCAGCTCCCAAATCCTCTC
* *
65206023 CCTTATCAGCTTCTAAATCCTCTC
1 CCTTATCAGCTCCCAAATCCTCTC
* *
65206047 CCTTATTAGCTCCCAAATCTTCTC
1 CCTTATCAGCTCCCAAATCCTCTC
65206071 C
1 C
65206072 TAACAGCCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
24 62 0.94
25 4 0.06
ACGTcount: A:0.21, C:0.41, G:0.04, T:0.34
Consensus pattern (24 bp):
CCTTATCAGCTCCCAAATCCTCTC
Found at i:65206031 original size:48 final size:49
Alignment explanation
Indices: 65205974--65206071 Score: 162
Period size: 48 Copynumber: 2.0 Consensus size: 49
65205964 ACACCGTTCT
65205974 CCTTAATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCCAAATCCTCTC
1 CCTTAATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCCAAATCCTCTC
* * *
65206023 CCTT-ATCAGCTTCTAAATCCTCTCCCTTATTAGCTCCCAAATCTTCTC
1 CCTTAATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCCAAATCCTCTC
65206071 C
1 C
65206072 TAACAGCCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 42 0.91
49 4 0.09
ACGTcount: A:0.21, C:0.41, G:0.04, T:0.34
Consensus pattern (49 bp):
CCTTAATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCCAAATCCTCTC
Found at i:65232531 original size:39 final size:39
Alignment explanation
Indices: 65232477--65232586 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
65232467 TGTTCGGGTA
*
65232477 ATATCCGGGCTAAGCCCGAAAGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
65232516 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* *
65232555 ATATTCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
65232587 GGCTACCATA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
39 58 0.87
40 9 0.13
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:65236817 original size:18 final size:18
Alignment explanation
Indices: 65236782--65236824 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
65236772 TGCTAGGTGC
*
65236782 GTATCCTAGCCTTCATAT
1 GTATCCTACCCTTCATAT
65236800 GTATCCTAACCCTT-ATAT
1 GTATCCT-ACCCTTCATAT
*
65236818 GTTTCCT
1 GTATCCT
65236825 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTACCCTTCATAT
Found at i:65240542 original size:126 final size:126
Alignment explanation
Indices: 65240314--65240821 Score: 703
Period size: 126 Copynumber: 4.0 Consensus size: 126
65240304 TTATAGCTTC
* * *
65240314 ATTTTTCTACGAACTACTGCAGCAAAAGAGCATCCACGTGGGAGTTTTTTTTAAGAAATTTTACT
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAA-AAATTTTACT
* *
65240379 AACAGTGCATCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * **
65240441 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGATTTTTTCAAAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTACTG
* **
65240506 ACAGTGCATCCTGCTTGAAGCGTTTTCGACATTATTTGTTCAGAAGTGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * * * *
65240567 ATTTTTCTACGAACTACTGTAGAAAAAGAGCATCCATGTAGGAGCTTTTTTCAGAAATTTTTCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTACTG
* * * * *
65240632 ACAGTGCTTCCTGCTTGTAGCGTTTTCGACACTATTTTTTCAGAAACGTCTATTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * * * * * *
65240693 ATTTTTCTAC-AACCTATTGTAGCGAAAGTGCGTCCACTTGGGAGCCTTTTTCATAAATTTTACT
1 ATTTTTCTACGAA-CTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTACT
* * *
65240757 GACAGTGCATCCTGCTTGAAGTGTTTTCGACACTATTTGTTCATAAACGTCTACTCCAAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
65240819 ATT
1 ATT
65240822 CTTGCAGAAA
Statistics
Matches: 334, Mismatches: 46, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
125 2 0.01
126 282 0.84
127 50 0.15
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAAAAATTTTACTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:65241387 original size:16 final size:16
Alignment explanation
Indices: 65241366--65241396 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
65241356 ATAAATTAAT
65241366 CCTAATTTAATCAATC
1 CCTAATTTAATCAATC
65241382 CCTAATTTAATCAAT
1 CCTAATTTAATCAAT
65241397 TATCCCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (16 bp):
CCTAATTTAATCAATC
Found at i:65241572 original size:16 final size:16
Alignment explanation
Indices: 65241526--65241581 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
65241516 CCTTAAATCT
*
65241526 TAAAAAACCCTAACCC
1 TAAAAAATCCTAACCC
*
65241542 TAAATCAAT--TAAACCC
1 TAAA-AAATCCT-AACCC
65241558 TAAAAAATCCTAACCC
1 TAAAAAATCCTAACCC
65241574 TAAAAAAT
1 TAAAAAAT
65241582 AAGGGCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 4 0.12
16 26 0.79
17 3 0.09
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAAAATCCTAACCC
Found at i:65243284 original size:46 final size:46
Alignment explanation
Indices: 65243234--65243409 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
65243224 TGGTTGAGCA
65243234 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65243280 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65243325 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65243373 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65243410 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65243390 original size:93 final size:93
Alignment explanation
Indices: 65243231--65243402 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65243221 GGATGGTTGA
* *
65243231 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65243296 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
65243324 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65243389 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
65243403 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65250859 original size:46 final size:46
Alignment explanation
Indices: 65250809--65250984 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
65250799 TGGTTGAGCA
65250809 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65250855 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65250900 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65250948 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65250985 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65250965 original size:93 final size:93
Alignment explanation
Indices: 65250806--65250977 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65250796 GGATGGTTGA
* *
65250806 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65250871 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
65250899 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65250964 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
65250978 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65254776 original size:23 final size:22
Alignment explanation
Indices: 65254733--65254780 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
65254723 TTTCTTGCAA
65254733 TCTAACTTTATTTTTAATTTTAT
1 TCTAACTTTATTTTTAATTTT-T
**
65254756 TCTAA-TTTACTTTTTTCTTTTT
1 TCTAACTTTA-TTTTTAATTTTT
65254778 TCT
1 TCT
65254781 TTCTTCTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (22 bp):
TCTAACTTTATTTTTAATTTTT
Found at i:65257038 original size:49 final size:49
Alignment explanation
Indices: 65256981--65257213 Score: 200
Period size: 49 Copynumber: 4.7 Consensus size: 49
65256971 TAGCCAAAGC
* * *
65256981 TATCCGGTACGCATAGTAGCTTGCACTTAGTACTACACATGTGACCAAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
65257030 TATCCGGTACACGTAATAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* *** * * *
65257080 CATCTAATACACGTAG-CGCCTGCACTTAGTACTACAC-TCATGATCGAAGT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACAT-GTGA-CCAA-T
* ** * * * *
65257130 TATCGGGTATGCATAGTAGTCTACACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
65257179 AATCCGGTACATGTAGTAGCCTGCAGTTAGTACTA
1 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTA
65257214 TACACTTGAC
Statistics
Matches: 138, Mismatches: 40, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
49 91 0.66
50 26 0.19
51 20 0.14
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:65260372 original size:12 final size:12
Alignment explanation
Indices: 65260355--65260382 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
65260345 TATGCATTGA
65260355 TAAGTTGATTTT
1 TAAGTTGATTTT
65260367 TAAGTTGATTTT
1 TAAGTTGATTTT
65260379 TAAG
1 TAAG
65260383 AATTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.54
Consensus pattern (12 bp):
TAAGTTGATTTT
Found at i:65263110 original size:23 final size:23
Alignment explanation
Indices: 65263080--65263127 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
65263070 CGCCCGTGGC
65263080 CAAGGCTGTTGAACAGGCATGGG
1 CAAGGCTGTTGAACAGGCATGGG
65263103 CAAGGCTGTTGAACAGGCATGGG
1 CAAGGCTGTTGAACAGGCATGGG
65263126 CA
1 CA
65263128 TGTAGTATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.19, G:0.38, T:0.17
Consensus pattern (23 bp):
CAAGGCTGTTGAACAGGCATGGG
Found at i:65268137 original size:40 final size:40
Alignment explanation
Indices: 65268068--65268234 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
65268058 TGAGTGATAC
* **
65268068 CCGGG-TAAGTCCCGAAGGCATTTACGCTAG-CGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCG-TTATAT
* * *
65268107 CTGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCGTTATAT
* **** *
65268147 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCGTTATAT
* * * *
65268187 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCGTTATAT
65268227 CC-GGCTAA
1 CCGGGCTAA
65268235 ATTCTGAAGA
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 9 0.09
40 93 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTCGTTATAT
Found at i:65271997 original size:28 final size:29
Alignment explanation
Indices: 65271938--65271997 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
65271928 ATTTATTTCA
*
65271938 CAATTTAACCCCTCAATTTACACTTTTAT
1 CAATTTAACCCCTCAATTGACACTTTTAT
* * *
65271967 CAATTTAATCCCT-AATTGACATTTTTGT
1 CAATTTAACCCCTCAATTGACACTTTTAT
65271995 CAA
1 CAA
65271998 AAATTACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (29 bp):
CAATTTAACCCCTCAATTGACACTTTTAT
Found at i:65279676 original size:42 final size:42
Alignment explanation
Indices: 65279629--65279743 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
65279619 CGCATCCATT
* *
65279629 ATGAACTCGGACCTCTCAACAAGCTCGGATGGCACATATATC
1 ATGAACTCGGACCACTCAACAAGCTCGGATCGCACATATATC
* * * *
65279671 ATGAACTTGGACCACTCAACAAGTTCAGATTCTCACATATATC
1 ATGAACTCGGACCACTCAACAAGCTCGGA-TCGCACATATATC
* * * *
65279714 ATGAACTCGAACCGCTCAACGAGCTTGGAT
1 ATGAACTCGGACCACTCAACAAGCTCGGAT
65279744 TTCTAAATTC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGAACTCGGACCACTCAACAAGCTCGGATCGCACATATATC
Found at i:65282559 original size:15 final size:15
Alignment explanation
Indices: 65282541--65282570 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65282531 CAAGATGGAG
65282541 AAATCCAAGATACAA
1 AAATCCAAGATACAA
*
65282556 AAATCCAATATACAA
1 AAATCCAAGATACAA
65282571 TACCGTACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (15 bp):
AAATCCAAGATACAA
Found at i:65287611 original size:5 final size:5
Alignment explanation
Indices: 65287601--65287684 Score: 57
Period size: 6 Copynumber: 15.8 Consensus size: 5
65287591 TATGTCTTTC
* *
65287601 AAAAT AAAAT --AAT AAAATT GAAAT AAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
65287649 AAAAAT AAAAT AAAAT AAAAAT AAAACT -AAAT AAAA
1 -AAAAT AAAAT AAAAT -AAAAT AAAA-T AAAAT AAAA
65287685 AAATAGGAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
3 3 0.05
4 1 0.02
5 28 0.43
6 33 0.51
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:65287641 original size:7 final size:6
Alignment explanation
Indices: 65287621--65287689 Score: 81
Period size: 6 Copynumber: 11.8 Consensus size: 6
65287611 AATAAAATTG
* *
65287621 AAATAA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
65287667 AAATAA AACTAA ATAA-AA AAATA
1 AAATAA AAATAA A-AATAA AAATA
65287690 GGAGGATTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
5 12 0.22
6 41 0.76
7 1 0.02
ACGTcount: A:0.80, C:0.03, G:0.01, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:65289227 original size:20 final size:20
Alignment explanation
Indices: 65289187--65289227 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
65289177 ACATGGCGGC
* *
65289187 GCACGGGCGTGTGGTGGTGA
1 GCACGGGCGTGTGATGCTGA
65289207 GCACGGGCGTGTGATGCTGA
1 GCACGGGCGTGTGATGCTGA
65289227 G
1 G
65289228 AGGAAGCCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.17, G:0.51, T:0.20
Consensus pattern (20 bp):
GCACGGGCGTGTGATGCTGA
Found at i:65303396 original size:47 final size:47
Alignment explanation
Indices: 65303333--65303768 Score: 701
Period size: 47 Copynumber: 9.3 Consensus size: 47
65303323 CCCTTCGGGA
* *
65303333 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
65303380 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
65303427 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65303474 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65303521 CTTGTCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65303568 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
65303615 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65303662 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65303709 CTTGTCACATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
65303756 CTTATCACATATA
1 CTTATCACATATA
65303769 CATATCTTGT
Statistics
Matches: 356, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 356 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:65307092 original size:18 final size:19
Alignment explanation
Indices: 65307069--65307104 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65307059 AACTTGGCAC
*
65307069 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
65307087 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
65307105 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Done.