Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 154 of 410
Found at i:46856280 original size:40 final size:40
Alignment explanation
Indices: 46856170--46856354 Score: 176
Period size: 40 Copynumber: 4.7 Consensus size: 40
46856160 ATTGAATGAT
* * * * * * * *
46856170 ATCCGGGCTAAGCCCCGAAGACGTTAATGCTGGAAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAGTTAA
* * * * * *
46856210 ATCC-GGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAGTTAA
*
46856249 ATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGG-CATTTATGCTAGTAGTTAA
** * *
46856289 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAGTTAA
46856329 ATCCGGGCTAAGACCCGAAGGCATTT
1 ATCCGGGCTAAGACCCGAAGGCATTT
46856355 GTGCAAATCG
Statistics
Matches: 116, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
39 29 0.25
40 84 0.72
41 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAGTTAA
Found at i:46856339 original size:80 final size:79
Alignment explanation
Indices: 46856170--46856354 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 79
46856160 ATTGAATGAT
* * * * * * *
46856170 ATCCGGGCTAAGCCCCGAAGACGTTAATGCTGGAAATTATATCCGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGACCCGAGGACATTTATGCTAGAAATTAAATCCGGCTAAGACCCGAAGGCAATT
* *
46856235 GTGCTAGTGGCTAC
66 GTGCAAGTGGCTAA
* * *
46856249 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAGTTAAATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGACCCGAGGACATTTATGCTAGAAATTAAATCC-GGCTAAGACCCGAAGGCAAT
* *
46856313 TCGTGCAAGTTGTTAA
65 T-GTGCAAGTGGCTAA
46856329 ATCCGGGCTAAGACCCGAAGG-CATTT
1 ATCCGGGCTAAGACCCG-AGGACATTT
46856355 GTGCAAATCG
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 39 0.44
80 47 0.53
81 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (79 bp):
ATCCGGGCTAAGACCCGAGGACATTTATGCTAGAAATTAAATCCGGCTAAGACCCGAAGGCAATT
GTGCAAGTGGCTAA
Found at i:46856359 original size:40 final size:40
Alignment explanation
Indices: 46856217--46856360 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
46856207 TATATCCGGT
* * * * *
46856217 TAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCAAGTAGTTAAATCCGGGC
* * *
46856257 TAAGTCCCG-AGGACATTTATGCTAGTAGTTAAATCCGGGC
1 TAAGACCCGAAGG-CATTTGTGCAAGTAGTTAAATCCGGGC
* *
46856297 TAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCAAGTAGTTAAATCCGGGC
46856337 TAAGACCCGAAGGCATTTGTGCAA
1 TAAGACCCGAAGGCATTTGTGCAA
46856361 ATCGTGATAT
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.03
40 84 0.93
41 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCAAGTAGTTAAATCCGGGC
Found at i:46856373 original size:40 final size:38
Alignment explanation
Indices: 46856207--46856390 Score: 147
Period size: 40 Copynumber: 4.7 Consensus size: 38
46856197 TGCTGGAAAT
* * *
46856207 TATATCC-GGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-G
* * * *
46856245 CTACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAG
1 -TATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGT-G
* *
46856285 TTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TG
* *
46856325 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-G
* * *
46856365 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
46856391 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 11 0.09
40 106 0.88
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTG
Found at i:46856373 original size:80 final size:80
Alignment explanation
Indices: 46856208--46856390 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 80
46856198 GCTGGAAATT
* * *
46856208 ATATCC-GGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGTCCCGAGGACA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGGCTAAGACCCGAGGACA
* * *
46856272 TTTATGCTAGTAGTT
66 TTTATGCAAATAGTG
* * * *
46856287 AAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGG-
1 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTGGCTAAATCCGGGCTAAGACCCG-AGGA
* *
46856350 CATTTGTGCAAATCGTG
64 CATTTATGCAAATAGTG
* *
46856367 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGTTAAGACCCGAAGGC
46856391 CTTGGTGCGG
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
79 8 0.09
80 74 0.87
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCTAAATCCGGGCTAAGACCCGAGGACA
TTTATGCAAATAGTG
Found at i:46864506 original size:40 final size:40
Alignment explanation
Indices: 46864357--46864507 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
46864347 TGGAAATTAT
* * * * * *
46864357 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
* * *
46864397 ATCCGGGCTAAG-TCCG-AGGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAGTTAA
* *
46864436 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
46864476 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
46864508 ATCGTGATAT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
38 3 0.03
39 29 0.31
40 60 0.63
41 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAA
Found at i:46864520 original size:40 final size:38
Alignment explanation
Indices: 46864354--46864537 Score: 147
Period size: 40 Copynumber: 4.7 Consensus size: 38
46864344 TGCTGGAAAT
* * *
46864354 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-G
* * * *
46864393 CTACATCCGGGCTAAG-TCCG-AGGACATTTATGCTAGTAG
1 -TATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGT-G
* *
46864432 TTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TG
* *
46864472 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-G
* * *
46864512 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
46864538 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.03
39 31 0.26
40 82 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTG
Found at i:46869990 original size:43 final size:43
Alignment explanation
Indices: 46869939--46870030 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
46869929 GACACGCGCG
* *
46869939 TGTGTCTCAATCGTGTGTGATACACAGCTAAG-CGACACGGCCA
1 TGTGTCTCAACCGTGTGTGACACACAGC-AAGCCGACACGGCCA
* * **
46869982 TGTGTCTCAACCGTTTGTGACACACGGCCCGCCGACACGGCCA
1 TGTGTCTCAACCGTGTGTGACACACAGCAAGCCGACACGGCCA
46870025 TGTGTC
1 TGTGTC
46870031 CCCTGTAGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 41 0.98
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (43 bp):
TGTGTCTCAACCGTGTGTGACACACAGCAAGCCGACACGGCCA
Found at i:46871606 original size:48 final size:48
Alignment explanation
Indices: 46871474--46871606 Score: 119
Period size: 48 Copynumber: 2.8 Consensus size: 48
46871464 ACATTTGGGT
* * * * * * *
46871474 GATATGTGTGCTAGTGTAAGACCATGTCTGGGGCATAGCATCGGCCAC
1 GATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCAAC
* * * *
46871522 GATATGAGAGCCAGTGTAAGACCGTGT-TTGGAACATGGCATCAGCAAT
1 GATATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCAGCAAC
46871570 G-TAATGCA-AGCTAGTGTAAGACCATGTCTAGGACATG
1 GAT-ATG-AGAGCTAGTGTAAGACCATGTCTAGGACATG
46871607 TTTGGAACAT
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
47 4 0.06
48 60 0.88
49 4 0.06
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCAAC
Found at i:46874303 original size:47 final size:48
Alignment explanation
Indices: 46874235--46874498 Score: 235
Period size: 47 Copynumber: 5.6 Consensus size: 48
46874225 GTGCCGATTC
*
46874235 CATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCGATG
* *
46874281 CCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCGATG
* * * *
46874329 CATGTCCCCGACAT-GTCTTACCCTGGCTTAT-GTCTC-AAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA-GCCGATG
* * * * * *
46874375 CATGTCCTAGACAT-GTCTTACACTAGCAC-TCGTCTCGATGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCGATG
* * * ** *
46874421 TCATGTCCCAAACATGGTCTTACACTGACTC-TCATAAT-GTGGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCGAAGCCGATG
*
46874469 CATGTCCCAGACAT-GTCTTACACTAGCTCA
1 CATGTCCCAGACATGGTCTTACACTGGCTCA
46874499 CAATAACCCA
Statistics
Matches: 177, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 72 0.41
47 74 0.42
48 28 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCGATG
Found at i:46874487 original size:140 final size:140
Alignment explanation
Indices: 46874235--46874489 Score: 354
Period size: 140 Copynumber: 1.8 Consensus size: 140
46874225 GTGCCGATTC
* * *
46874235 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTCCCAAACATGGTC
* *
46874300 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCCGACATGTCTTACCCTGGCTTATGTCTC
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACCCTGGCTTATGTCTC
46874365 AAGGCCGATG
131 AAGGCCGATG
* * * *
46874375 CATGTCCTAGACAT-GTCTTACACTAGCAC-TCGTCTCGATGTCGATGTCATGTCCCAAACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCACAT-ATCTC-AAGTCGATGCCATGTCCCAAACATGG
* * *
46874438 TCTTACACTGACTCTCATAAT-GTGGCTGATGCATGTCCCAGACATGTCTTAC
64 TCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTAC
46874490 ACTAGCTCAC
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.17
140 81 0.81
141 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTCCCAAACATGGTC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACCCTGGCTTATGTCTC
AAGGCCGATG
Found at i:46881657 original size:13 final size:13
Alignment explanation
Indices: 46881639--46881665 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46881629 TCAAACATCA
46881639 ATGCCCCGTTTTG
1 ATGCCCCGTTTTG
46881652 ATGCCCCGTTTTG
1 ATGCCCCGTTTTG
46881665 A
1 A
46881666 CTTCTCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.11, C:0.30, G:0.22, T:0.37
Consensus pattern (13 bp):
ATGCCCCGTTTTG
Found at i:46884485 original size:31 final size:31
Alignment explanation
Indices: 46884444--46884550 Score: 139
Period size: 31 Copynumber: 3.5 Consensus size: 31
46884434 TTAGTTTTAA
46884444 AGATTAAATTAAATTTTTATTTTAAATGGAG
1 AGATTAAATTAAATTTTTATTTTAAATGGAG
* * *** *
46884475 AGATTTAATTAAATTTTAAAAATAAAT-TA-
1 AGATTAAATTAAATTTTTATTTTAAATGGAG
46884504 A-ATTAAATTAAATTTTTATTTTAAATGGAG
1 AGATTAAATTAAATTTTTATTTTAAATGGAG
46884534 AGATTAAATTAAATTTT
1 AGATTAAATTAAATTTT
46884551 AAAAATAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
28 20 0.33
29 2 0.03
30 2 0.03
31 37 0.61
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (31 bp):
AGATTAAATTAAATTTTTATTTTAAATGGAG
Found at i:46884510 original size:59 final size:59
Alignment explanation
Indices: 46884446--46884575 Score: 235
Period size: 59 Copynumber: 2.2 Consensus size: 59
46884436 AGTTTTAAAG
*
46884446 ATTAAATTAAATTTTTATTTTAAATGGAGAGATTTAATTAAATTTTAAAAATAAATTAA
1 ATTAAATTAAATTTTTATTTTAAATGGAGAGATTAAATTAAATTTTAAAAATAAATTAA
46884505 ATTAAATTAAATTTTTATTTTAAATGGAGAGATTAAATTAAATTTTAAAAATAAATTAA
1 ATTAAATTAAATTTTTATTTTAAATGGAGAGATTAAATTAAATTTTAAAAATAAATTAA
*
46884564 A-TAAATTTAATT
1 ATTAAATTAAATT
46884576 ATTGTTAATT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 10 0.14
59 59 0.86
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (59 bp):
ATTAAATTAAATTTTTATTTTAAATGGAGAGATTAAATTAAATTTTAAAAATAAATTAA
Found at i:46886242 original size:40 final size:40
Alignment explanation
Indices: 46886198--46886384 Score: 275
Period size: 40 Copynumber: 4.6 Consensus size: 40
46886188 TTGACGACAA
46886198 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
*
46886238 TTCGGCTATGTATGGCATTTAGTGTGCGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
*
46886278 TTCGGCTATGTATGGCACTTAGTGTTCGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
* * ** *
46886318 TTCAGCTATGTATGGCACTTAGTGTGTGATATTAAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAT-TCGAGATAGC
* *
46886359 TTCAGCTATGTATTGTCACTTAGTGT
1 TTCGGCTATGTA-TGGCACTTAGTGT
46886385 ACGAGAATTT
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 104 0.77
41 19 0.14
42 12 0.09
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
Found at i:46888906 original size:40 final size:39
Alignment explanation
Indices: 46888861--46888991 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
46888851 CGGAATATAA
*
46888861 CCGGATTTAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46888901 CCGGATAGATTAACTTGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
** * *
46888941 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
46888981 CCGGATATAAT
1 CCGGATATAAT
46888992 TTCCAGCATA
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46893678 original size:40 final size:39
Alignment explanation
Indices: 46893633--46893763 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
46893623 CGGAATATAA
*
46893633 CCGGATTTAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46893673 CCGGATAGATTAACTTGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
** * *
46893713 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
46893753 CCGGATATAAT
1 CCGGATATAAT
46893764 TTCCAGCATA
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46908561 original size:40 final size:39
Alignment explanation
Indices: 46908396--46908579 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
46908386 AAATTGATTG
* * *
46908396 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
46908436 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
46908476 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
46908516 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
46908555 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
46908580 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:46908604 original size:80 final size:81
Alignment explanation
Indices: 46908436--46908624 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
46908426 GCTGGAAATT
* * * *
46908436 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
46908501 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
46908517 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
46908580 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
46908596 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
46908625 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:46913871 original size:28 final size:28
Alignment explanation
Indices: 46913809--46913865 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
46913799 GTTATAAAAG
46913809 TATGAAACAATCAGATGCTCGTTAATAT
1 TATGAAACAATCAGATGCTCGTTAATAT
46913837 TATGAAACAATCAGATGCTCGTTAATAT
1 TATGAAACAATCAGATGCTCGTTAATAT
46913865 T
1 T
46913866 CAGAAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (28 bp):
TATGAAACAATCAGATGCTCGTTAATAT
Found at i:46916299 original size:20 final size:21
Alignment explanation
Indices: 46916276--46916314 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46916266 ATAAGTAAGA
*
46916276 TATGTGAT-GTTTATAATGTT
1 TATGTGATGGTTTACAATGTT
46916296 TATGTGATGGTTTACAATG
1 TATGTGATGGTTTACAATG
46916315 GGGTATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (21 bp):
TATGTGATGGTTTACAATGTT
Found at i:46918119 original size:2 final size:2
Alignment explanation
Indices: 46918112--46918140 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46918102 GACTAGTCAC
46918112 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46918141 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46920174 original size:30 final size:30
Alignment explanation
Indices: 46920140--46920200 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46920130 TCCTTAACTC
46920140 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46920170 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46920200 A
1 A
46920201 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:46924176 original size:40 final size:40
Alignment explanation
Indices: 46924108--46924340 Score: 208
Period size: 40 Copynumber: 5.8 Consensus size: 40
46924098 TATTCGGATG
* *
46924108 ATATTCGGACTAAGATCCGAAGGTATTCGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
*
46924148 ATATCCGGACTAAGATCCAAAGGCATTCGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
*
46924188 ATATCCAGG-CTAAGATCCGAAGGCAATT-GTGCTAGTTATT
1 ATATCC-GGACTAAGATCCGAAGGC-ATTCGTGCTAGTTACT
* ** ** *
46924228 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGCGGGTTATT
1 ATATCCGGACTAAGAT-CCGAAGGCATTCGTGCTAGTTACT
* ** ** *
46924268 ATAACCGGGTTAAG-TCCTGAAGGCATTCGTGCGGGTTATT
1 ATATCCGGACTAAGATCC-GAAGGCATTCGTGCTAGTTACT
* *
46924308 ATAACC-GAGTTAAG-TCCCGAAGGCATTCGTGCT
1 ATATCCGGA-CTAAGAT-CCGAAGGCATTCGTGCT
46924341 GGTTGTTACA
Statistics
Matches: 174, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
39 9 0.05
40 158 0.91
41 7 0.04
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
Found at i:46924251 original size:80 final size:80
Alignment explanation
Indices: 46924117--46924340 Score: 265
Period size: 80 Copynumber: 2.8 Consensus size: 80
46924107 GATATTCGGA
* * * ** *
46924117 CTAAGATCCGAAGGTATTCGTGCTAGTTACTATATCCGGACTAAGAT-CCAAAGGCATTCGTGCT
1 CTAAGATCCGAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAG-TCCCGAAGGCATTCGTGCT
*
46924181 AGTTACTATATCCAGG
65 AGTTACTATAACCAGG
*
46924197 CTAAGATCCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCG
1 CTAAGATCCGAAGGC-ATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCT
* * *
46924261 GGTTATTATAACCGGG
65 AGTTACTATAACCAGG
* ** *
46924277 TTAAG-TCCTGAAGGCATTCGTGCGGGTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCT
1 CTAAGATCC-GAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCT
46924341 GGTTGTTACA
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
79 7 0.06
80 114 0.92
81 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (80 bp):
CTAAGATCCGAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTA
GTTACTATAACCAGG
Found at i:46924356 original size:40 final size:40
Alignment explanation
Indices: 46924204--46924344 Score: 212
Period size: 40 Copynumber: 3.5 Consensus size: 40
46924194 AGGCTAAGAT
** *
46924204 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGAGTTAAGTC
*
46924244 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGAGTTAAGTC
*
46924284 CTGAAGGCATTCGTGCGGGTTATTATAACCGAGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGAGTTAAGTC
*
46924324 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCGGGTT
46924345 GTTACATCCG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 3 0.03
40 91 0.97
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGAGTTAAGTC
Found at i:46924368 original size:40 final size:40
Alignment explanation
Indices: 46924242--46924368 Score: 128
Period size: 40 Copynumber: 3.2 Consensus size: 40
46924232 CCGGGTTAAG
* * ** *
46924242 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAG
1 TCCCGAAGGCATTCGTGCGGGTTATTACAACCGAGCCAAA
* * ** *
46924282 TCCTGAAGGCATTCGTGCGGGTTATTATAACCGAGTTAAG
1 TCCCGAAGGCATTCGTGCGGGTTATTACAACCGAGCCAAA
* * *
46924322 TCCCGAAGGCATTCGTGCTGGTTGTTACATCCGAGCCAAA
1 TCCCGAAGGCATTCGTGCGGGTTATTACAACCGAGCCAAA
*
46924362 TTCCGAA
1 TCCCGAA
46924369 AGTAATTATG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCCGAAGGCATTCGTGCGGGTTATTACAACCGAGCCAAA
Found at i:46930036 original size:93 final size:93
Alignment explanation
Indices: 46929924--46930095 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46929914 GCCCATAAGT
* *
46929924 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46929989 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
46930017 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
46930082 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
46930096 CAAATATCCA
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46930091 original size:46 final size:46
Alignment explanation
Indices: 46929916--46930091 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
46929906 TGTAACCCGC
* * *
46929916 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
46929962 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
46930012 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
46930055 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46930092 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:46935147 original size:40 final size:40
Alignment explanation
Indices: 46935092--46935284 Score: 230
Period size: 40 Copynumber: 4.8 Consensus size: 40
46935082 TATTCGGATG
*
46935092 ATATCCGGACTAAGATCTGAAGGCATTCGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
*
46935132 ATATCCGGACTAAGATCCGAAGGCATTCGTGTTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
*
46935172 ATATCCGGACTAAGATCCGAAGGCAATT-GTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGC-ATTCGTGCTAGTTACT
* ** ** *
46935212 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGCGGGTTATT
1 ATATCCGGACTAAGAT-CCGAAGGCATTCGTGCTAGTTACT
* **
46935252 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGCT
1 ATATCCGGACTAAGAT-CCGAAGGCATTCGTGCT
46935285 GGTTGTTACA
Statistics
Matches: 140, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.03
40 133 0.95
41 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
Found at i:46938903 original size:50 final size:51
Alignment explanation
Indices: 46938761--46938903 Score: 227
Period size: 50 Copynumber: 2.8 Consensus size: 51
46938751 AGTTTCAATA
* *
46938761 TGAATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATAGATATGTG
1 TGAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
*
46938812 TG-ATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTG
1 TGAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
* *
46938862 TGAAT-CCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
46938904 TCACTATGTG
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
50 81 0.95
51 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (51 bp):
TGAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
Found at i:46939520 original size:21 final size:21
Alignment explanation
Indices: 46939495--46939534 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46939485 CTGATTTGAT
*
46939495 AAAATCATTATAAGTTATACA
1 AAAATAATTATAAGTTATACA
*
46939516 AAAATAATTATGAGTTATA
1 AAAATAATTATAAGTTATA
46939535 ATTTATATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAATAATTATAAGTTATACA
Found at i:46939966 original size:18 final size:18
Alignment explanation
Indices: 46939943--46939978 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46939933 CCTTTCTTTC
*
46939943 CCATGTTCTCTAGGGTTG
1 CCATGTTATCTAGGGTTG
*
46939961 CCATGTTATCTTGGGTTG
1 CCATGTTATCTAGGGTTG
46939979 GAGTTCATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.19, G:0.28, T:0.42
Consensus pattern (18 bp):
CCATGTTATCTAGGGTTG
Found at i:46949241 original size:24 final size:24
Alignment explanation
Indices: 46949208--46949306 Score: 144
Period size: 24 Copynumber: 4.1 Consensus size: 24
46949198 AGGCATCCTC
46949208 GAATACGCCACAAAGGCACTTACA
1 GAATACGCCACAAAGGCACTTACA
* *
46949232 GAATATGCCACAAAGGCACATACA
1 GAATACGCCACAAAGGCACTTACA
46949256 GAATACGCCACAAAGGCACTTACA
1 GAATACGCCACAAAGGCACTTACA
* * * *
46949280 GAAGACACCATAAAGGCACTTATA
1 GAATACGCCACAAAGGCACTTACA
46949304 GAA
1 GAA
46949307 CATGTGCTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.44, C:0.25, G:0.17, T:0.13
Consensus pattern (24 bp):
GAATACGCCACAAAGGCACTTACA
Found at i:46951884 original size:20 final size:20
Alignment explanation
Indices: 46951861--46951958 Score: 67
Period size: 20 Copynumber: 4.9 Consensus size: 20
46951851 GTGCCCTTAT
46951861 TTGTACTTCGGTACCCTTGA
1 TTGTACTTCGGTACCCTTGA
* * *
46951881 TTGTACATAC-GT-GCCTCTGT
1 TTGTAC-TTCGGTACCCT-TGA
*
46951901 TTGTACTTCGGTACCCCTGA
1 TTGTACTTCGGTACCCTTGA
* * * * *
46951921 TTGCACATAC-GTGCCCCTGT
1 TTGTAC-TTCGGTACCCTTGA
46951941 TTGTACTTCGGTACCCTT
1 TTGTACTTCGGTACCCTT
46951959 AAATGCATTT
Statistics
Matches: 57, Mismatches: 15, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
19 7 0.12
20 44 0.77
21 6 0.11
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (20 bp):
TTGTACTTCGGTACCCTTGA
Found at i:46951973 original size:40 final size:40
Alignment explanation
Indices: 46951838--46951958 Score: 188
Period size: 40 Copynumber: 3.0 Consensus size: 40
46951828 AATAATTGAA
* * *
46951838 TGATTTCACATACGTGCCCTTATTTGTACTTCGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
* * *
46951878 TGATTGTACATACGTGCCTCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
46951918 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
46951958 T
1 T
46951959 AAATGCATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.38
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:46953081 original size:22 final size:23
Alignment explanation
Indices: 46953042--46953084 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
46953032 AAGATCCTAC
*
46953042 CCATCCATCCTCTACACTCCACT
1 CCATCCAACCTCTACACTCCACT
46953065 CCATCCAACC-CTACACTCCA
1 CCATCCAACCTCTACACTCCA
46953085 TGTGAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.26, C:0.53, G:0.00, T:0.21
Consensus pattern (23 bp):
CCATCCAACCTCTACACTCCACT
Found at i:46957394 original size:22 final size:22
Alignment explanation
Indices: 46957369--46957423 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
46957359 AAAACAGTAG
* * *
46957369 GCACCGAAGTGTGGAACGATAA
1 GCACCAAAGTGCGAAACGATAA
*
46957391 GCACCAAAGTGCGAAACGGTAA
1 GCACCAAAGTGCGAAACGATAA
*
46957413 GCACTAAAGTG
1 GCACCAAAGTG
46957424 AAAGACGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.29, T:0.13
Consensus pattern (22 bp):
GCACCAAAGTGCGAAACGATAA
Found at i:46962569 original size:15 final size:15
Alignment explanation
Indices: 46962529--46962572 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46962519 TTAATTAAAT
* *
46962529 ATTAATTAATATGAC
1 ATTAATTAATGTGAA
*
46962544 AGTATATTAATGTGAA
1 ATTA-ATTAATGTGAA
46962560 ATTAATTAATGTG
1 ATTAATTAATGTG
46962573 GCCATATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (15 bp):
ATTAATTAATGTGAA
Found at i:46962904 original size:5 final size:5
Alignment explanation
Indices: 46962890--46962922 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
46962880 ACTCAAAGAA
46962890 AATA- AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATA
46962923 ATGTTTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:46963320 original size:25 final size:25
Alignment explanation
Indices: 46963285--46963337 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
46963275 GCTTAGTTAT
46963285 TATTATGTGATATTCAATAAT-TTTA
1 TATTATGTGAT-TTCAATAATATTTA
* *
46963310 TATTATTTGATTTTAATAATATTTA
1 TATTATGTGATTTCAATAATATTTA
46963335 TAT
1 TAT
46963338 AATTGAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.57
Consensus pattern (25 bp):
TATTATGTGATTTCAATAATATTTA
Found at i:46966870 original size:46 final size:46
Alignment explanation
Indices: 46966814--46966934 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
46966804 CTCGTAGCTG
* * *
46966814 ATGCATGTCCCAGACATGTCTTACACTAGC-TTACGTCTCGAGGTCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAGGTCA
* * *
46966860 GTGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATGTCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGTCA
46966906 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATG-CATGTCCCAGACAT-GTCTTACACT
46966935 GGCTCACACA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 40 0.62
47 14 0.22
48 10 0.16
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGTCA
Found at i:46968309 original size:46 final size:46
Alignment explanation
Indices: 46968185--46968309 Score: 205
Period size: 46 Copynumber: 2.7 Consensus size: 46
46968175 GAGATATACC
* *
46968185 AGCCAGTGTAAGACATGTCTGGGACATGCATCAACATTAAGACGAG
1 AGCCAGTGTAAGACATATCTGGGACATGCATCGACATTAAGACGAG
* *
46968231 AGCTAGTGTAAGACATATCTGGGACATGCATCGACATTAAGACTAG
1 AGCCAGTGTAAGACATATCTGGGACATGCATCGACATTAAGACGAG
*
46968277 AGCCAGTGTAAGACATATCCGGGACATGCATCG
1 AGCCAGTGTAAGACATATCTGGGACATGCATCG
46968310 GCCTCGAGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (46 bp):
AGCCAGTGTAAGACATATCTGGGACATGCATCGACATTAAGACGAG
Found at i:46968466 original size:49 final size:49
Alignment explanation
Indices: 46968374--46968482 Score: 114
Period size: 49 Copynumber: 2.2 Consensus size: 49
46968364 TTGTGTGTCT
* * *
46968374 GTGTAAGACCTGTCTGGAGTATGGCATCGACATCGATAGATGAAAGCCA
1 GTGTAAGACCTGTCTGGAGCACGGCATCGACATCGATAGATGAAAACCA
* * * **
46968423 GTGTAAGACCTGTCTGG-GACACGGCATC-AGCCTTGATATATGAAAATTA
1 GTGTAAGACCTGTCTGGAG-CACGGCATCGA-CATCGATAGATGAAAACCA
46968472 GTGTAAGACCT
1 GTGTAAGACCT
46968483 ACCTGAAACA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.04
49 48 0.96
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
GTGTAAGACCTGTCTGGAGCACGGCATCGACATCGATAGATGAAAACCA
Found at i:46975522 original size:19 final size:20
Alignment explanation
Indices: 46975481--46975523 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
46975471 TTTTGTAAAG
* *
46975481 TTTGTAAAATAGATGGTACT
1 TTTGTAAAATAGATGGAAAT
*
46975501 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
46975520 TTTG
1 TTTG
46975524 GGTTGCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:46976139 original size:48 final size:47
Alignment explanation
Indices: 46975975--46976143 Score: 162
Period size: 48 Copynumber: 3.6 Consensus size: 47
46975965 TGATATGTGT
* * * * * *
46975975 GCTAGTGTAAAACATTTTTAGGACATGCATCGGCCTCGAGATATACCA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTTGAGATATACAA
* * * ** *
46976023 GCCAGTGTAAGACATGTCTGGGACATGCATCGACATTTAGA-CGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-CCTTGAGATATACAA
*
46976069 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTTGAGATATACAA
* *
46976117 GCTAGTGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
46976144 GCGTCAGCTT
Statistics
Matches: 96, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
46 36 0.38
47 4 0.04
48 56 0.58
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCTTGAGATATACAA
Found at i:46977900 original size:94 final size:94
Alignment explanation
Indices: 46977609--46977972 Score: 348
Period size: 94 Copynumber: 3.9 Consensus size: 94
46977599 TTAAGTTGCC
* * * * * *
46977609 GATGCCATGTCCCAGACTTGGTCTTACACTGGCTA-TCTTCATCGAGGCCGATGCCATGTCCCAA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCATC-TCTATGCCGATGCCATGTCCCAG
* * *
46977673 ACATGGTCTTACACTAGCTCTCGTGTATACGT-GCT
62 ACATGGTCTTACACTGGCTATC--GTA-ATGTGGCT
* * * ** *
46977708 GATGCATGTCCTAGACATGTCTTACACTAGCAC-GA-CGCT-TAGTTGATG-CAGGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTAT-GCCGATGCCATGTCCCAGACA
* * * * *
46977769 -CGTCTTACACTGGCTACCATCAT-TAAGGCA
65 TGGTCTTACACTGGCTATCGTAATGT--GGCT
*
46977799 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAGACAT
46977864 GGTCTTACACTGGCTATCGTAATGTGGCT
66 GGTCTTACACTGGCTATCGTAATGTGGCT
* * * * *
46977893 GATGCATGTCCCAGACACGTCTTACACTAGCCCTCGTCTCAATGCCGGTGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAGACAT
46977958 GGTCTTACACTGGCT
66 GGTCTTACACTGGCT
46977973 CTCACATAAC
Statistics
Matches: 216, Mismatches: 38, Indels: 27
0.77 0.14 0.10
Matches are distributed among these distances:
88 1 0.00
89 1 0.00
90 1 0.00
91 33 0.15
92 15 0.07
93 19 0.09
94 96 0.44
95 20 0.09
96 2 0.01
97 12 0.06
98 12 0.06
99 4 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTATGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTATCGTAATGTGGCT
Found at i:46977948 original size:47 final size:48
Alignment explanation
Indices: 46977605--46977971 Score: 194
Period size: 47 Copynumber: 7.8 Consensus size: 48
46977595 TGGGTTAAGT
* * * *
46977605 TGCCGATGCCATGTCCCAGACTTGGTCTTACACTGGCTA-TCTTCATCGA
1 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCGTC-TCAA
* * * * * *
46977654 GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTGT-ATA
1 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCA-A
* * * * * *
46977702 CGTGCTGATG-CATGTCCTAGACAT-GTCTTACACTAGCACGACG-CT-TA
1 --TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGCAC-TCGTCTCAA
** * * * * *
46977749 -GTTGATG-CAGGTCCCAGACA-CGTCTTACACTGGCTAC-CATCATTAA
1 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCGTC-TCAA
* * * * *
46977795 GGCAGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTA
1 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCAA
*
46977841 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCG--T-AA
1 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCGTCTCAA
* * * * *
46977886 TG-TGGCTGATGCATGTCCCAGACA-CGTCTTACACTAGCCCTCGTCTCAA
1 TGCCGG-TG--CCATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCAA
46977935 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGC
1 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGC
46977972 TCTCACATAA
Statistics
Matches: 252, Mismatches: 41, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.00
44 31 0.12
45 8 0.03
46 27 0.11
47 75 0.30
48 45 0.18
49 57 0.23
50 8 0.03
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (48 bp):
TGCCGGTGCCATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCAA
Found at i:46984265 original size:55 final size:56
Alignment explanation
Indices: 46984193--46984311 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 56
46984183 CGTGTGCAAC
* * **
46984193 ACTGACTT-TAGGGCATGGCCATGACACACGCCCGTGTAGCCTACCTGTGGACAAT
1 ACTGACTTATAGGACATGGCCATGACACACGCCCGTATAGCCTACCCATGGACAAT
* * *
46984248 ACTGACTTATA-GACATGGCTATGGCACACGCCCGTATGGCCTACCCATGGACAAT
1 ACTGACTTATAGGACATGGCCATGACACACGCCCGTATAGCCTACCCATGGACAAT
46984303 ACTGACTTA
1 ACTGACTTA
46984312 AAAGTTTAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 54 0.96
56 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (56 bp):
ACTGACTTATAGGACATGGCCATGACACACGCCCGTATAGCCTACCCATGGACAAT
Found at i:46985182 original size:44 final size:47
Alignment explanation
Indices: 46985075--46985345 Score: 191
Period size: 47 Copynumber: 5.8 Consensus size: 47
46985065 ATCTTCATCG
* ** **
46985075 AGGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCT-CTCGTGTATA
1 AGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTACAAGCAT-TA
* *
46985124 CGTGCTGATGCATGTCCTAGACATGTCTTACACTAG-TACAAAGC-TT-
1 AG-GCTGATGCATGTCCCAGACATGTCTTACACTAGCTAC-AAGCATTA
* * * *
46985170 A-GCTGATGCATGTCCCAGACAAGTCTTACACTGGCTACCATCATTA
1 AGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTACAAGCATTA
* * * * *
46985216 AGGCAGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCACT-
1 AGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTAC-AAGCATTA
* * * * *
46985262 ACGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC--GTAATG
1 AGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTA-CAAGCATTA
* *
46985310 TGGCTGATGCATGTCCCAGACACGTCTTACACTAGC
1 AGGCTGATGCATGTCCCAGACATGTCTTACACTAGC
46985346 CCTCGTCTCA
Statistics
Matches: 185, Mismatches: 24, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
44 32 0.17
45 5 0.03
46 22 0.12
47 69 0.37
48 34 0.18
49 15 0.08
50 8 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (47 bp):
AGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTACAAGCATTA
Found at i:46985234 original size:47 final size:46
Alignment explanation
Indices: 46985127--46985342 Score: 217
Period size: 47 Copynumber: 4.7 Consensus size: 46
46985117 GTGTATACGT
* * * * *
46985127 GCTGATGCATGTCCTAGACATGTCTTACACTAG-TACAAAGC-TTA-
1 GCTGATGCATGTCCCAGACAAGTCTTACACTGGCTAC-CATCATTAG
46985171 GCTGATGCATGTCCCAGACAAGTCTTACACTGGCTACCATCATTAAG
1 GCTGATGCATGTCCCAGACAAGTCTTACACTGGCTACCATCATT-AG
* * * *
46985218 GCAGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCACTAC
1 GCTGATGCATGTCCCAGACAAGTCTTACACTGGCTAC-CATCATTAG
* * * *
46985264 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGT-G
1 GCTGATG-CATGTCCCAGACA-AGTCTTACACTGGCTACCATCAT-TAG
*
46985312 GCTGATGCATGTCCCAGACACGTCTTACACT
1 GCTGATGCATGTCCCAGACAAGTCTTACACT
46985343 AGCCCTCGTC
Statistics
Matches: 146, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
44 32 0.22
45 5 0.03
46 20 0.14
47 64 0.44
48 23 0.16
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACAAGTCTTACACTGGCTACCATCATTAG
Found at i:46985322 original size:94 final size:92
Alignment explanation
Indices: 46985077--46985392 Score: 316
Period size: 94 Copynumber: 3.4 Consensus size: 92
46985067 CTTCATCGAG
* * * *
46985077 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTGTATACGT-GCTGATGCATGTCC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC--GTA-ATGTGGCTGATGCATGTCC
* * ** * *
46985141 TAGACATGTCTTACACTAGTACAAAGCTTA
63 CAGACATGTCTTACACTAGCACTCATCCTA
* * * * *
46985171 GCTGATG-CATGTCCCAGACA-AGTCTTACACTGGCTACCATCAT-TAAGGCAGATGCATGTCCC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGT--GGCTGATGCATGTCCC
*
46985233 AGACATGTCTTACACTGGCACTCATCACTA
64 AGACATGTCTTACACTAGCACTCATC-CTA
46985263 CGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGCTGATGCATGTCCCA
1 -GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGCTGATGCATGTCCCA
* * * *
46985328 GACACGTCTTACACTAGCCCTCGTCTCAA
65 GACATGTCTTACACTAGCACTCATC-CTA
* * *
46985357 TTCCGGTGCCATGTCCCAGACATGGTCTTACACTGG
1 -GCTGATGCCATGTCCCAGACATGGTCTTACACTGG
46985393 TTCTCACATA
Statistics
Matches: 183, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 1 0.01
91 34 0.19
92 16 0.09
93 19 0.10
94 91 0.50
95 19 0.10
96 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCATCCTA
Found at i:46988834 original size:26 final size:26
Alignment explanation
Indices: 46988770--46988834 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 26
46988760 TTCTATTTTA
*
46988770 TTTTCATTATTATTTATTAATTTAAT
1 TTTTCTTTATTATTTATTAATTTAAT
* *
46988796 TCTATTTTATTATTATTTATTAATTTACT
1 T-T-TTCT-TTATTATTTATTAATTTAAT
46988825 TTTTCTTTAT
1 TTTTCTTTAT
46988835 CTTGGCAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 5 0.16
27 4 0.12
28 3 0.09
29 20 0.62
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTCTTTATTATTTATTAATTTAAT
Found at i:46991873 original size:55 final size:55
Alignment explanation
Indices: 46991783--46991899 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
46991773 GCCAAAACAG
* * ** *
46991783 CACGAGCGTGCGACACGCCCGTGCCTTGAACCCGTGGCCGAACCTGTCAAATTAA
1 CACGGGCGTGCGACACGCCCATGCCAAGAACCCGTGGCCAAACCTGTCAAATTAA
* * *
46991838 CACGGGCGTGCGACACGCCCATTCCAAGCAA-CCGTGGGCAAACCTGTTAAATTAA
1 CACGGGCGTGCGACACGCCCATGCCAAG-AACCCGTGGCCAAACCTGTCAAATTAA
*
46991893 CAGGGGC
1 CACGGGC
46991900 ATGGGAGAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 50 0.96
56 2 0.04
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (55 bp):
CACGGGCGTGCGACACGCCCATGCCAAGAACCCGTGGCCAAACCTGTCAAATTAA
Found at i:46993900 original size:40 final size:40
Alignment explanation
Indices: 46993841--46993982 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
46993831 AAATTGAATG
* * *
46993841 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
46993881 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
46993921 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
46993961 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
46993983 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:46993983 original size:40 final size:39
Alignment explanation
Indices: 46993880--46994008 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
46993870 TGCTGGAAAT
* * *
46993880 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
46993920 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
46993960 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
46994000 TATATCCGG
1 TATATCCGG
46994009 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:47003795 original size:18 final size:17
Alignment explanation
Indices: 47003772--47003815 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
47003762 GGGAAATATT
*
47003772 TATTTTAATATTTTAGTA
1 TATTTTAATATTGTA-TA
*
47003790 TTTTTTATATATTGTATA
1 TATTTTA-ATATTGTATA
47003808 TATTTTAA
1 TATTTTAA
47003816 AAAATATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (17 bp):
TATTTTAATATTGTATA
Found at i:47005351 original size:46 final size:46
Alignment explanation
Indices: 47005220--47005432 Score: 141
Period size: 46 Copynumber: 4.6 Consensus size: 46
47005210 ATATCTGTGT
* * * *
47005220 CGATGCCATGTCCTAGACACGGTCTTACACTA--ACACATCTCGTA-GT
1 CGATG-CATGTCCCAGACA-TGTCTTACACTAGCACTCATCTCG-AGGC
* * * *
47005266 CGATGCAAGTCCCA-AGCATGTCTTATACTAGC-TTACGTCTCGAGGC
1 CGATGCATGTCCCAGA-CATGTCTTACACTAGCACT-CATCTCGAGGC
* * * **
47005312 CGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGC
* * ** * *
47005358 TGATGCATGTCCCAGACATTGTCTTACACTGGTTCTCATAAT-GTGGC
1 CGATGCATGTCCCAGACA-TGTCTTACACTAGCACTCAT-CTCGAGGC
*
47005405 TGATGCATGTCCCAGACATGTCTTACAC
1 CGATGCATGTCCCAGACATGTCTTACAC
47005433 CAGCTCACAA
Statistics
Matches: 132, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
44 11 0.08
45 10 0.08
46 73 0.55
47 37 0.28
48 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGC
Found at i:47014955 original size:23 final size:23
Alignment explanation
Indices: 47014911--47014955 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
47014901 CCAATTCCAA
*
47014911 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
47014934 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
47014956 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:47019744 original size:54 final size:54
Alignment explanation
Indices: 47019678--47019786 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
47019668 ATAACTATGG
47019678 TGAGTCGGGAATATTGTATCCACGAGAACTAAAAGTACTAGTACTTACTTTCTT
1 TGAGTCGGGAATATTGTATCCACGAGAACTAAAAGTACTAGTACTTACTTTCTT
47019732 TGAGTCGGGAATATTGTATCCACGAGAACTAAAAGTACTAGTACTTACTTTCTT
1 TGAGTCGGGAATATTGTATCCACGAGAACTAAAAGTACTAGTACTTACTTTCTT
47019786 T
1 T
47019787 TTATTATCTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (54 bp):
TGAGTCGGGAATATTGTATCCACGAGAACTAAAAGTACTAGTACTTACTTTCTT
Found at i:47026137 original size:20 final size:20
Alignment explanation
Indices: 47026107--47026168 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
47026097 CTAATTAAAG
47026107 AAATAAATAAATAAAAAATA
1 AAATAAATAAATAAAAAATA
47026127 AGAAT-AATAAA-AATAAAATA
1 A-AATAAATAAATAA-AAAATA
47026147 AAATAAAGTAAAATAAAAAATA
1 AAATAAA-T-AAATAAAAAATA
47026169 GGATAATGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 5 0.14
20 16 0.44
21 4 0.11
22 9 0.25
23 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (20 bp):
AAATAAATAAATAAAAAATA
Found at i:47026142 original size:26 final size:26
Alignment explanation
Indices: 47026111--47026165 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
47026101 TTAAAGAAAT
47026111 AAATAAATAAAAAAT-AAG-AATAATAA
1 AAATAAA-AAAAAATAAAGTAA-AATAA
*
47026137 AAATAAAATAAAATAAAGTAAAATAA
1 AAATAAAAAAAAATAAAGTAAAATAA
47026163 AAA
1 AAA
47026166 ATAGGATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 6 0.23
26 18 0.69
27 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (26 bp):
AAATAAAAAAAAATAAAGTAAAATAA
Found at i:47026146 original size:5 final size:5
Alignment explanation
Indices: 47026107--47026164 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
47026097 CTAATTAAAG
* * *
47026107 AAAT- AAATA AATAAA AAATA AGAATA ATA-A AAATA AAATA AAATA AAGTA
1 AAATA AAATA AA-ATA AAATA A-AATA AAATA AAATA AAATA AAATA AAATA
47026157 AAATA AAA
1 AAATA AAA
47026165 AATAGGATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
4 7 0.16
5 28 0.64
6 9 0.20
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:47026874 original size:20 final size:20
Alignment explanation
Indices: 47026846--47026889 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47026836 TCGCTTCTTC
*
47026846 CACGTCCGTGTGACCT-CCCA
1 CACGCCCGTGTGA-CTGCCCA
47026866 CACGCCCGTGTGACTGCCCA
1 CACGCCCGTGTGACTGCCCA
47026886 CACG
1 CACG
47026890 GCTGTATGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.16, C:0.45, G:0.23, T:0.16
Consensus pattern (20 bp):
CACGCCCGTGTGACTGCCCA
Found at i:47032379 original size:81 final size:81
Alignment explanation
Indices: 47032244--47032405 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
47032234 TAAATCTCAC
* *
47032244 TTTGTATGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATT
1 TTTGTATGCAAATTTTATATGCTATTTGAATTAAGTAAATTACCTTATTATAATGAGTTAACATT
47032309 GGCACTATGTGTGCGG
66 GGCACTATGTGTGCGG
*
47032325 TTTGTGTGCAAATTTTATATGCTATTTGAATTAAGTAAATTACCTTATTATAATGAGTTAACATT
1 TTTGTATGCAAATTTTATATGCTATTTGAATTAAGTAAATTACCTTATTATAATGAGTTAACATT
*
47032390 GGTACTATGTGTGCGG
66 GGCACTATGTGTGCGG
47032406 AATTAAATGG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (81 bp):
TTTGTATGCAAATTTTATATGCTATTTGAATTAAGTAAATTACCTTATTATAATGAGTTAACATT
GGCACTATGTGTGCGG
Found at i:47039629 original size:30 final size:30
Alignment explanation
Indices: 47039587--47039644 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
47039577 CACGGGCTGG
*
47039587 CACATGGGCGTGTGGCCAGCTCATGTGGCT
1 CACATGGGCGTGTGACCAGCTCATGTGGCT
* *
47039617 CACA-GGGACGTGTGATCAGCTCGTGTGG
1 CACATGGG-CGTGTGACCAGCTCATGTGG
47039645 GAATGGCCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.16, C:0.24, G:0.38, T:0.22
Consensus pattern (30 bp):
CACATGGGCGTGTGACCAGCTCATGTGGCT
Found at i:47041016 original size:22 final size:22
Alignment explanation
Indices: 47040991--47041032 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47040981 TCCGTTGCCT
47040991 CTAGCACTGACATTCTCTGTCC
1 CTAGCACTGACATTCTCTGTCC
* *
47041013 CTAGTATTGACATTCTCTGT
1 CTAGCACTGACATTCTCTGT
47041033 GGAATCCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (22 bp):
CTAGCACTGACATTCTCTGTCC
Found at i:47045544 original size:20 final size:20
Alignment explanation
Indices: 47045521--47045558 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47045511 CACATCCAAA
*
47045521 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
47045541 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
47045559 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:47053471 original size:20 final size:20
Alignment explanation
Indices: 47053448--47053485 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47053438 CACATCCAAA
*
47053448 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
47053468 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
47053486 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:47054515 original size:71 final size:70
Alignment explanation
Indices: 47054295--47054519 Score: 204
Period size: 70 Copynumber: 3.2 Consensus size: 70
47054285 TTTAACTTGC
* * * * * * **
47054295 GAGCCTTAATATGACAAC-CAGGAGTTTTTAATTCTTGCTAACTGTGTCGTGGCTACATTTTTTC
1 GAGCCTTAATATGACAACTGA-GAGTTTTTAACTCTAGCTAACTGTGTAGAGGCTGCAAATTTTC
*
47054359 ACCTGC
65 ACCTGT
* * * * **
47054365 GAGCCTTAGTATGA-AAGCTGGGAGTTTTTAACTCTCGC-AACTGTGTTAGAGGTTGCGGATTTT
1 GAGCCTTAATATGACAA-CTGAGAGTTTTTAACTCTAGCTAACTGTG-TAGAGGCTGCAAATTTT
* *
47054428 AACCTAT
64 CACCTGT
* * *
47054435 GAGCATTAATATTACAACTGAGAGTTTTTAACTCTAGCTAACTGTGCTGGAGGCTGCAAATTTTC
1 GAGCCTTAATATGACAACTGAGAGTTTTTAACTCTAGCTAACTGTG-TAGAGGCTGCAAATTTTC
47054500 ACCTGT
65 ACCTGT
*
47054506 GAACCTTAATATGA
1 GAGCCTTAATATGA
47054520 TAGCTAATAG
Statistics
Matches: 120, Mismatches: 30, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
69 9 0.08
70 73 0.61
71 38 0.32
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (70 bp):
GAGCCTTAATATGACAACTGAGAGTTTTTAACTCTAGCTAACTGTGTAGAGGCTGCAAATTTTCA
CCTGT
Found at i:47067000 original size:40 final size:40
Alignment explanation
Indices: 47066943--47067140 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
47066933 TCGAATGATG
* *
47066943 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
47066983 TCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
47067023 TCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
47067063 TCCGGACTAAGATCCGAAGGCATTTGTTCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
47067103 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
47067141 TAACTGAGCT
Statistics
Matches: 145, Mismatches: 9, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 134 0.92
41 10 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47067157 original size:40 final size:40
Alignment explanation
Indices: 47066950--47067168 Score: 193
Period size: 40 Copynumber: 5.5 Consensus size: 40
47066940 ATGTCCGGGC
* *
47066950 TAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCG-GA
1 TAAGTCCCGAAGGCATTTGTGC-GAGCTACTAAATCCGAGA
* *
47066989 CTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAATCCG-GA
1 -TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGAGA
* *
47067029 CTAAGAT-CCGAAGGCATTTGTGCTAGTTACTAAATCCG-GA
1 -TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGAGA
* * *
47067069 CTAAGAT-CCGAAGGCATTTGTTCGAGTTACTAAATCCGGGA
1 -TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGAGA
* *
47067110 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CTGAGC
1 TAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCCGAGA
* *
47067150 TATGTCCCGAAGGTATTTG
1 TAAGTCCCGAAGGCATTTG
47067169 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 149 0.93
41 11 0.07
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGAGA
Found at i:47078930 original size:68 final size:70
Alignment explanation
Indices: 47078858--47079055 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
47078848 ACACCCTGTA
* * * *
47078858 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
47078920 ATAAAT
65 ATAAAT
*
47078926 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
47078991 ATAAAT
65 ATAAAT
*
47078997 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
47079056 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:47078969 original size:41 final size:41
Alignment explanation
Indices: 47078924--47079041 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
47078914 TGAAAGATAA
47078924 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
47078965 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47078995 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47079036 ATGTAG
1 ATGTAG
47079042 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:47078981 original size:71 final size:71
Alignment explanation
Indices: 47078892--47079055 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47078882 GAGATGTATC
47078892 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47078957 AGGACA
66 AGGACA
47078963 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47079028 AGGACA
66 AGGACA
47079034 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
47079056 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:47086499 original size:68 final size:70
Alignment explanation
Indices: 47086427--47086624 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
47086417 ACACCCTGTA
* * * *
47086427 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
47086489 ATAAAT
65 ATAAAT
*
47086495 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
47086560 ATAAAT
65 ATAAAT
*
47086566 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
47086625 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:47086538 original size:41 final size:41
Alignment explanation
Indices: 47086493--47086610 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
47086483 TGAAAGATAA
47086493 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
47086534 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47086564 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47086605 ATGTAG
1 ATGTAG
47086611 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:47086550 original size:71 final size:71
Alignment explanation
Indices: 47086461--47086624 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47086451 GAGATGTATC
47086461 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47086526 AGGACA
66 AGGACA
47086532 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47086597 AGGACA
66 AGGACA
47086603 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
47086625 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:47093129 original size:84 final size:83
Alignment explanation
Indices: 47093024--47093241 Score: 337
Period size: 84 Copynumber: 2.6 Consensus size: 83
47093014 ATAAGCCTGT
* *
47093024 TAGACCTTTAAGTCCTATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCCGATAATCT
1 TAGACCTTTAAGT-CGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCCGATAATAT
*
47093089 TCACCAGCTTAAAGATTGG
65 TCACCAGCTTAAAGATTGC
* *
47093108 TAGACCTTTAAGTACGGTATCATTTCACCAGCATTACGCCTGCTAGGCTCGGAGCCCGATAATAT
1 TAGACCTTTAAGT-CGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCCGATAATAT
*
47093173 TCACCAGCTTAAAGCTTGC
65 TCACCAGCTTAAAGATTGC
* *
47093192 TAGACCCTTAAGTCTGATATCATTTCACCGGCATTATGCCTGCTAGGCTC
1 TAGACCTTTAAGTC-GATATCATTTCACCGGCATTACGCCTGCTAGGCTC
47093242 AAAGCTCGAA
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
83 1 0.01
84 121 0.99
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (83 bp):
TAGACCTTTAAGTCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCCGATAATATT
CACCAGCTTAAAGATTGC
Found at i:47093180 original size:41 final size:41
Alignment explanation
Indices: 47093047--47093180 Score: 101
Period size: 41 Copynumber: 3.2 Consensus size: 41
47093037 CCTATATCAT
* *
47093047 TTCACCGGCATTACGCCTGCTAGGCTCGGAGCCCGATAATC
1 TTCACCAGCATTACGCCTGCTAGGCTCGGAGCCCGATAATA
* ** * * *** ** *
47093088 TTCACCAGC-TTAAAGATTGGTAGACCTTTAAGTACGGT-ATCA
1 TTCACCAGCATT-ACGCCTGCTAG-GCTCGGAGCCCGATAAT-A
47093130 TTTCACCAGCATTACGCCTGCTAGGCTCGGAGCCCGATAATA
1 -TTCACCAGCATTACGCCTGCTAGGCTCGGAGCCCGATAATA
47093172 TTCACCAGC
1 TTCACCAGC
47093181 TTAAAGCTTG
Statistics
Matches: 63, Mismatches: 24, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
40 2 0.03
41 26 0.41
42 15 0.24
43 18 0.29
44 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (41 bp):
TTCACCAGCATTACGCCTGCTAGGCTCGGAGCCCGATAATA
Found at i:47093193 original size:41 final size:41
Alignment explanation
Indices: 47093064--47093194 Score: 104
Period size: 41 Copynumber: 3.1 Consensus size: 41
47093054 GCATTACGCC
* *
47093064 TGCTAGGCTCGGAGCCCGATAATCTTCACCAGCTTAAAGAT
1 TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
* * *** ** * * *
47093105 TGGTAGACCTTTAAGTACGGT-ATCATTTCACCAGCATT-ACGCC
1 TGCTAG-GCTCGGAGCCCGATAAT-A-TTCACCAGC-TTAAAGCT
47093148 TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
1 TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
47093189 TGCTAG
1 TGCTAG
47093195 ACCCTTAAGT
Statistics
Matches: 62, Mismatches: 22, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
40 2 0.03
41 25 0.40
42 15 0.24
43 18 0.29
44 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (41 bp):
TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
Found at i:47095157 original size:14 final size:15
Alignment explanation
Indices: 47095128--47095157 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47095118 CAAAATTAAG
47095128 ACATGATACTTTCAC
1 ACATGATACTTTCAC
47095143 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
47095157 A
1 A
47095158 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:47099652 original size:93 final size:93
Alignment explanation
Indices: 47099541--47099711 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
47099531 ACCCCTAAGT
* * *
47099541 GAACTAGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTAGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
47099606 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
47099634 GAACTCGGACTCAACTCAACAAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTAGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
47099699 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47099712 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTAGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47099708 original size:46 final size:46
Alignment explanation
Indices: 47099536--47099708 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
47099526 AACCCACCCC
* * * *
47099536 TAAGTGAACTAGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * *
47099582 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * *
47099630 TCA-CGAACTCGGACTCAACTCAACAAGCTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
*
47099675 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47099709 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:47105320 original size:48 final size:47
Alignment explanation
Indices: 47105265--47105430 Score: 192
Period size: 48 Copynumber: 3.5 Consensus size: 47
47105255 AAGCTGACGC
*
47105265 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC-GATG
* ** *
47105313 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGGCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGA-GGCGATG
* * * * * *
47105359 CATGTCCTAGTCAAGTCTTACACTGGCTTGTATATTTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGG-CGATG
47105407 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
47105431 GGCTCTCATA
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
46 31 0.32
47 9 0.09
48 56 0.58
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCGATG
Found at i:47105431 original size:48 final size:47
Alignment explanation
Indices: 47105117--47105479 Score: 210
Period size: 49 Copynumber: 7.7 Consensus size: 47
47105107 CGTCAAATGT
* * * *
47105117 CGATGCAATGTCCTAGACAGGTCTTACACTAACT-TTTATATATCGAGGC
1 CGATGC-ATGTCCCAGACATGTCTTACACTAGCTCTGTATA-AT-GAGGC
* * * * * *
47105166 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTG-GTGT
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-GTATAATGAG-GC
* * * * * * *
47105215 CGATGCCATGTCCCAGATAGGTCTTACAAT-G-AC-ATACAAT-AAGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTGTATAATGAGGC
* * *
47105259 TGACGCCATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTCGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTGTATA-AT-GAGGC
** *
47105308 TAATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT--GG-
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-GTAT-AATGAGGC
* * * * *
47105354 CGATGCATGTCCTAGTCAAGTCTTACACTGGCT-TGTATATTTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTGTATA--ATGAGGC
* * *
47105402 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAATGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTGTATAATGAGGC
* * *
47105448 CGATGAATGTCCTAGGCATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
47105480 ACACATATCA
Statistics
Matches: 247, Mismatches: 47, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 7 0.03
46 63 0.26
47 6 0.02
48 63 0.26
49 67 0.27
50 7 0.03
51 4 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTGTATAATGAGGC
Found at i:47105452 original size:94 final size:93
Alignment explanation
Indices: 47105265--47105479 Score: 272
Period size: 94 Copynumber: 2.3 Consensus size: 93
47105255 AAGCTGACGC
* *
47105265 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTAATGCATGTCCCAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCCCAGACATGTC
*
47105330 TTACACTAGCTCTCGTCTCAATGGCGATG
66 TTACACTAGCTCTCG-ATCAATGGCGATG
* * * * * *
47105359 CATGTCCTAGTCAAGTCTTACACTGGCTTGTATATTTTGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCCCAGACATGTC
*
47105424 TTACACTGGCTCTC-AT-AATGTGGCCGATG
66 TTACACTAGCTCTCGATCAA--TGG-CGATG
* *
47105453 AATGTCCTAGGCATGTCTTACACTAGC
1 CATGTCCTAGACATGTCTTACACTAGC
47105480 ACACATATCA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 3 0.03
94 98 0.94
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (93 bp):
CATGTCCTAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGATCAATGGCGATG
Found at i:47109561 original size:93 final size:90
Alignment explanation
Indices: 47109364--47109587 Score: 245
Period size: 93 Copynumber: 2.4 Consensus size: 90
47109354 TCATATATGC
* * * * *
47109364 ATGCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTGGCCGATGCGTGTCCCAAAC
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACAAATCATGGCCGAAGCATGTCCCAAAC
* *
47109429 ACGTCTTACACTGGCTATCTCTGTCG
66 ACGTCTTACACTAGCCATCTCTG-CG
* * * *
47109455 AGGCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAAT-ATGGCTGAAGCATGTCCCA
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCA--CA-AATCATGGCCGAAGCATGTCCCA
* *
47109519 AACATGTCTTACACTAGCCCTCATCTG-G
63 AACACGTCTTACACTAGCCATC-TCTGCG
*
47109547 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTATCACA
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACA
47109588 CAAACCACCT
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
91 33 0.30
92 11 0.10
93 49 0.45
94 17 0.15
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (90 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACAAATCATGGCCGAAGCATGTCCCAAAC
ACGTCTTACACTAGCCATCTCTGCG
Found at i:47109584 original size:137 final size:136
Alignment explanation
Indices: 47109316--47109584 Score: 291
Period size: 137 Copynumber: 1.9 Consensus size: 136
47109306 GGAATGAATT
* *
47109316 GCCGATGCCATGTCCCAGACATGGTCTTGTACTGGATCTCATATATGCATGCTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTCTACTGGATCTCATATATG-A-GCTGAAGCATGTCCC
* * *
47109381 AGACATGTCTTACACTAGCACAACTCTTGGCCGATGCGTGTCCCAAACACGTCTTACACTGGCTA
64 AAACATGTCTTACACTAGCACAACTCTGGGCCGATGCATGTCCCAAACACGTCTTACA---GCTA
47109446 TCTCTGTCGAG
126 TCTCTGTCGAG
47109457 GCCGATG-CATGTCCCAGACAT-GTCTTACT-CTGGCA-CTCATAATATG-GCTGAAGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTT-CTACTGG-ATCTCAT-ATATGAGCTGAAGCATGTCC
** * *
47109517 CAAACATGTCTTACACTAGC-CCTCATCTGGATGCCGATGCCATGTCCCAGACATGGTCTTACA-
63 CAAACATGTCTTACACTAGCACAAC-TCTGG--GCCGATG-CATGTCCCAAACA-CGTCTTACAG
47109580 CTATC
123 CTATC
47109585 ACACAAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
136 2 0.02
137 41 0.37
139 21 0.19
140 32 0.29
141 15 0.14
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (136 bp):
GCCGATGCCATGTCCCAGACATGGTCTTCTACTGGATCTCATATATGAGCTGAAGCATGTCCCAA
ACATGTCTTACACTAGCACAACTCTGGGCCGATGCATGTCCCAAACACGTCTTACAGCTATCTCT
GTCGAG
Found at i:47110259 original size:12 final size:12
Alignment explanation
Indices: 47110242--47110267 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47110232 CTAAAAATGT
47110242 GAAAATCATCAA
1 GAAAATCATCAA
47110254 GAAAATCATCAA
1 GAAAATCATCAA
47110266 GA
1 GA
47110268 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:47115457 original size:30 final size:30
Alignment explanation
Indices: 47115423--47115482 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
47115413 CCTTAACTCT
47115423 AACTTTGGAAAAATTACAATTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
* * * * *
47115453 AACTTTTGCATATTTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
47115483 GGCTGGGAAT
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:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACAATTTTGCCCCTA
Found at i:47118179 original size:27 final size:29
Alignment explanation
Indices: 47118144--47118205 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
47118134 TACCTAGACC
47118144 CCCTATATATGATAA-AGTGACTATTTT-G
1 CCCTATATATGATAAGA-TGACTATTTTGG
* *
47118172 CCCT-TATATGGTAAGATGACTGTTTTGG
1 CCCTATATATGATAAGATGACTATTTTGG
47118200 CCCTAT
1 CCCTAT
47118206 GTGATGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 18 0.62
28 10 0.34
29 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (29 bp):
CCCTATATATGATAAGATGACTATTTTGG
Found at i:47121135 original size:79 final size:78
Alignment explanation
Indices: 47121002--47121220 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 78
47120992 GAGTCACATC
* * * * * *
47121002 TCATGTAACTGTAGTGAATTAGGATTACCTTTTCAAGTCAAATCCTACCCACCTTAAGTTATCAT
1 TCATGTAACCGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
47121067 AAGGAATCATGTA
66 AAGGAATCATATA
** * ** *
47121080 TTGTGTAACCGTAGCGAATCAGGATTATCCTTTTCAGGTTAAATGTTATCCACCTTAGGTTACCA
1 TCATGTAACCGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
*
47121145 TAATGAATCATATA
65 TAAGGAATCATATA
* * *
47121159 TCATGTAACCATAGCGAATCAGGATTACCCTTTTCAGATCAAATCCTATCCACCTTATGTTA
1 TCATGTAACCGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTA
47121221 ACGTAGTGAA
Statistics
Matches: 117, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
78 22 0.19
79 95 0.81
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (78 bp):
TCATGTAACCGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AAGGAATCATATA
Found at i:47123042 original size:28 final size:28
Alignment explanation
Indices: 47122965--47123042 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
47122955 CTTCCTTATA
*
47122965 TATTAAATAATT-TAATAATAAAATATCT
1 TATTAAATAATTATAATAAT-ATATATCT
* *
47122993 TATTAAA-ATATTAAAATAATATTTATCT
1 TATTAAATA-ATTATAATAATATATATCT
47123021 TAATTAAATAATTATAA-AATAT
1 T-ATTAAATAATTATAATAATAT
47123043 CATCAACATC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
27 1 0.02
28 22 0.52
29 18 0.43
30 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
TATTAAATAATTATAATAATATATATCT
Found at i:47129181 original size:46 final size:46
Alignment explanation
Indices: 47129108--47129195 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
47129098 CATTAGATGG
* *
47129108 TATGTGAGCCAGTGTAAGACATATCTGGGACATGCATCGGCCGTAT
1 TATGAGAGCCAGTGTAAGACATATCTGGGACATACATCGGCCGTAT
*
47129154 TATGAGAGCCAGTGTAAGACATGTCTGGGACATACATCGGCC
1 TATGAGAGCCAGTGTAAGACATATCTGGGACATACATCGGCC
47129196 TTGGGATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
TATGAGAGCCAGTGTAAGACATATCTGGGACATACATCGGCCGTAT
Found at i:47134648 original size:29 final size:29
Alignment explanation
Indices: 47134615--47134688 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
47134605 GTGACGAGAT
47134615 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47134644 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47134673 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47134689 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47134704 original size:29 final size:29
Alignment explanation
Indices: 47134672--47134747 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
47134662 CTGGAAATAT
* *
47134672 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
47134701 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
47134730 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
47134748 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:47134715 original size:58 final size:58
Alignment explanation
Indices: 47134615--47134747 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
47134605 GTGACGAGAT
* * * * * *
47134615 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
47134673 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
47134731 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
47134748 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:47142530 original size:29 final size:29
Alignment explanation
Indices: 47142497--47142570 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
47142487 GTGACGAGAT
47142497 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47142526 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47142555 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47142571 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47142586 original size:29 final size:29
Alignment explanation
Indices: 47142554--47142629 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
47142544 CTGGAAATAT
* *
47142554 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
47142583 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
47142612 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
47142630 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:47142597 original size:58 final size:58
Alignment explanation
Indices: 47142497--47142629 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
47142487 GTGACGAGAT
* * * * * *
47142497 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
47142555 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
47142613 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
47142630 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:47150410 original size:29 final size:29
Alignment explanation
Indices: 47150377--47150450 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
47150367 GTGACGAGAT
47150377 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47150406 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47150435 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47150451 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47150466 original size:29 final size:29
Alignment explanation
Indices: 47150434--47150509 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
47150424 CTGGAAATAT
* *
47150434 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
47150463 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
47150492 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
47150510 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:47150477 original size:58 final size:58
Alignment explanation
Indices: 47150377--47150509 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
47150367 GTGACGAGAT
* * * * * *
47150377 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
47150435 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
47150493 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
47150510 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:47154725 original size:93 final size:93
Alignment explanation
Indices: 47154613--47154784 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47154603 GCCCATAAGT
* *
47154613 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47154678 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47154706 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47154771 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
47154785 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47154780 original size:46 final size:46
Alignment explanation
Indices: 47154605--47154780 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
47154595 TGTAACCCGC
* * *
47154605 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
47154651 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
47154701 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
47154744 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47154781 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:47158536 original size:80 final size:80
Alignment explanation
Indices: 47158452--47158600 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47158442 TATGGTAACC
* * * *
47158452 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
47158516 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
47158532 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
47158597 CCGG
66 CCGG
47158601 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:47158542 original size:40 final size:38
Alignment explanation
Indices: 47158493--47158600 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
47158483 ATCACGATTT
*
47158493 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
47158533 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
47158573 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
47158601 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:47165692 original size:16 final size:16
Alignment explanation
Indices: 47165671--47165706 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
47165661 GATAAATCCT
47165671 GAAATGCCGAAAAGCC
1 GAAATGCCGAAAAGCC
*
47165687 GAAATGCCGAAAAGTC
1 GAAATGCCGAAAAGCC
47165703 GAAA
1 GAAA
47165707 GTTTGGCTAC
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:0.47, C:0.19, G:0.25, T:0.08
Consensus pattern (16 bp):
GAAATGCCGAAAAGCC
Found at i:47165965 original size:29 final size:28
Alignment explanation
Indices: 47165918--47166090 Score: 179
Period size: 29 Copynumber: 6.0 Consensus size: 28
47165908 AACATGACTG
* *
47165918 TAAAAGTGATTGGGCCTAGTGGGCCACA
1 TAAATGTGATTGGGCCTAGTGGGCCATA
47165946 TAAATGTGATTTGGGCCTAGTGGGCCATA
1 TAAATGTGA-TTGGGCCTAGTGGGCCATA
* *
47165975 TAAATGTGATTTGGGCCTAATGGGTCATA
1 TAAATGTGA-TTGGGCCTAGTGGGCCATA
* *
47166004 TGAATGTGAATTGGGTCT-GATGGGCCATA
1 TAAATGTG-ATTGGGCCTAG-TGGGCCATA
* *
47166033 TGAATGTTAATTGGGCCT-GATGGGCCATA
1 TAAATG-TGATTGGGCCTAG-TGGGCCATA
* **
47166062 TGAATAAGATTGGGCCTAGTGGGCCATA
1 TAAATGTGATTGGGCCTAGTGGGCCATA
47166090 T
1 T
47166091 GCATGTATGT
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
28 27 0.21
29 98 0.77
30 2 0.02
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.29
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAGTGGGCCATA
Found at i:47170276 original size:16 final size:16
Alignment explanation
Indices: 47170224--47170277 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
47170214 TCGGCAAATC
*
47170224 CCGAAATGCCGAAAAG
1 CCGAAATGCTGAAAAG
* * * *
47170240 TCAAAATGTTGAAAAA
1 CCGAAATGCTGAAAAG
*
47170256 TCGAAATGCTGAAAAG
1 CCGAAATGCTGAAAAG
47170272 CCGAAA
1 CCGAAA
47170278 GTTTGGCAAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (16 bp):
CCGAAATGCTGAAAAG
Found at i:47170549 original size:29 final size:29
Alignment explanation
Indices: 47170516--47170634 Score: 114
Period size: 29 Copynumber: 4.1 Consensus size: 29
47170506 CTAGTGGACT
*
47170516 ATATAAATGTGATTTGGGCCTCATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
47170545 GTATAAATGTGATTTGGGCCTAATGGGCA
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
47170574 ATATGAATGTGAATTGGGTCTGATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *** *
47170603 AAATGAATAACA-TTGGGCCTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
47170631 ATAT
1 ATAT
47170635 GCATGTATGT
Statistics
Matches: 73, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
28 16 0.22
29 57 0.78
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:47175056 original size:40 final size:40
Alignment explanation
Indices: 47174915--47175099 Score: 164
Period size: 40 Copynumber: 4.7 Consensus size: 40
47174905 TCGAATGATG
* *
47174915 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * * * * *
47174955 TCCGGACTAGGAT-CCAAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
47174995 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* * * * * *
47175034 CCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
*
47175075 -CCGGGCTTCA-TCCCGAAGGCATTTG
1 TCCGGGC-TAAGTCCCGAAGGCATTTG
47175100 AGCGAGTCGT
Statistics
Matches: 116, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 32 0.28
40 73 0.63
41 11 0.09
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:47175058 original size:79 final size:81
Alignment explanation
Indices: 47174915--47175099 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 81
47174905 TCGAATGATG
* * *
47174915 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCAAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCAAAGGCATT
* *
47174979 CGTGCGAGTTAATA-AA
65 CGTACGAGTCAATATAA
* ** *
47174995 TCCGGGCTAAGCCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCAAAGGCATT
*
47175058 CGTACGAGTCACTATAA
65 CGTACGAGTCAATATAA
* *
47175075 -CCGGGCTTCATCCCGAAGGCATTTG
1 TCCGGGC-TAAGCCCGAAGGCATTTG
47175100 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 52 0.58
80 36 0.40
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCAAAGGCATTC
GTACGAGTCAATATAA
Found at i:47177702 original size:15 final size:16
Alignment explanation
Indices: 47177684--47177713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47177674 AATTGTTTTA
47177684 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
47177699 TTACATAATTTCACT
1 TTACATAATTTCACT
47177714 TACTCCATTC
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:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:47178043 original size:50 final size:50
Alignment explanation
Indices: 47177913--47178205 Score: 241
Period size: 50 Copynumber: 5.8 Consensus size: 50
47177903 AACCGAAGCT
* * * *
47177913 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * *
47177962 AT-TCGGTACATGTTGTAACCTGTACTTAGTACTACACATGTGACCTAACC
1 ATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * * ** * **
47178012 ATCTGATACATGTAGTATCTTGCACTTAGTACTACACACATGATC-AAAG
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * * * * *
47178061 TTGTTGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTAACT
1 AT-CT-GGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
*
47178113 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACC
* *** * *
47178165 TTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGT
47178206 CTTCTCACAA
Statistics
Matches: 190, Mismatches: 46, Indels: 13
0.76 0.18 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.21
50 76 0.40
51 34 0.18
52 40 0.21
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:47183801 original size:28 final size:28
Alignment explanation
Indices: 47183769--47183867 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
47183759 GCAATAAGCC
*
47183769 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
47183797 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
47183825 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
47183854 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47183868 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:47185564 original size:40 final size:40
Alignment explanation
Indices: 47185519--47185648 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
47185509 CGGAATACAA
47185519 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
47185559 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
47185599 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
47185639 CCGGATATAA
1 CCGGATATAA
47185649 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:47191301 original size:35 final size:35
Alignment explanation
Indices: 47191255--47191325 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
47191245 TCTCACAAAA
*
47191255 ATTCAAATATCTCATAATATGAAATTTTTTTGCTT
1 ATTCAAATATCTCATAATATGAAATTCTTTTGCTT
47191290 ATTCAAATATCTCATAATATGAAATTCTTTTGCTT
1 ATTCAAATATCTCATAATATGAAATTCTTTTGCTT
47191325 A
1 A
47191326 CACCATTTCC
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:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (35 bp):
ATTCAAATATCTCATAATATGAAATTCTTTTGCTT
Found at i:47191483 original size:16 final size:15
Alignment explanation
Indices: 47191457--47191486 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47191447 AACTATTTTA
47191457 TTACAAATTTCACTC
1 TTACAAATTTCACTC
47191472 TTACATAATTTCACT
1 TTACA-AATTTCACT
47191487 TACTCCATTC
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:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Done.