Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 197 of 218
Found at i:58276494 original size:16 final size:16
Alignment explanation
Indices: 58276461--58276494 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58276451 TTTTACATAA
**
58276461 ATATAAATATTTGTTT
1 ATATAAATATTTACTT
58276477 ATATAAATATTTACTT
1 ATATAAATATTTACTT
58276493 AT
1 AT
58276495 GTTAAGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATAAATATTTACTT
Found at i:58304206 original size:29 final size:27
Alignment explanation
Indices: 58304141--58304206 Score: 69
Period size: 31 Copynumber: 2.3 Consensus size: 27
58304131 AATTTAATGC
*
58304141 GTATAATTACACCAAATTAAAATCTAT
1 GTATAATTACACCAAATCAAAATCTAT
* *
58304168 ATATCAAATTACACATTAAATCAAAATCTAT
1 GTAT--AATTACAC--CAAATCAAAATCTAT
58304199 GTATAATT
1 GTATAATT
58304207 TTGAGGTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
27 3 0.10
29 12 0.39
31 16 0.52
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (27 bp):
GTATAATTACACCAAATCAAAATCTAT
Found at i:58305943 original size:6 final size:6
Alignment explanation
Indices: 58305932--58305965 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
58305922 CGAACAATAC
58305932 CTCTGT CTCTGT CTCTGT CTCTGT CTCTGT CTCT
1 CTCTGT CTCTGT CTCTGT CTCTGT CTCTGT CTCT
58305966 CACTCTTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (6 bp):
CTCTGT
Found at i:58305971 original size:18 final size:18
Alignment explanation
Indices: 58305932--58305971 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
58305922 CGAACAATAC
**
58305932 CTCTGTCTCTGTCTCTGT
1 CTCTGTCTCTGTCTCTCA
58305950 CTCTGTCTCTGTCTCTCA
1 CTCTGTCTCTGTCTCTCA
58305968 CTCT
1 CTCT
58305972 TGAGTCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.03, C:0.38, G:0.12, T:0.47
Consensus pattern (18 bp):
CTCTGTCTCTGTCTCTCA
Found at i:58315360 original size:26 final size:25
Alignment explanation
Indices: 58315329--58315382 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
58315319 TATTTTAACA
* *
58315329 TTTTTAGTGTATTTGATATATTATAT
1 TTTTTAATGTATTT-ATATATTAAAT
* *
58315355 TTTTTAATTTATTTTTATATTAAAT
1 TTTTTAATGTATTTATATATTAAAT
58315380 TTT
1 TTT
58315383 AATATGAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (25 bp):
TTTTTAATGTATTTATATATTAAAT
Found at i:58316908 original size:23 final size:23
Alignment explanation
Indices: 58316882--58316925 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
58316872 TTAATATTTC
*
58316882 TTTTTAAAAATATTTTTTAAAAT
1 TTTTTAAAAATATTTTCTAAAAT
*
58316905 TTTTTAAAAGTATTTTCTAAA
1 TTTTTAAAAATATTTTCTAAA
58316926 GAATTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTTAAAAATATTTTCTAAAAT
Found at i:58318346 original size:17 final size:17
Alignment explanation
Indices: 58318324--58318357 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58318314 TTATTGTTCA
58318324 ATTATTATATAATTAAT
1 ATTATTATATAATTAAT
* *
58318341 ATTATTTTATTATTAAT
1 ATTATTATATAATTAAT
58318358 GTATTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTATATAATTAAT
Found at i:58318865 original size:16 final size:15
Alignment explanation
Indices: 58318844--58318873 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58318834 TTGTAATAAT
58318844 ATTATAATATTTTATA
1 ATTATAAT-TTTTATA
58318860 ATTATAATTTTTAT
1 ATTATAATTTTTAT
58318874 TTAAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATAATTTTTATA
Found at i:58335433 original size:15 final size:17
Alignment explanation
Indices: 58335401--58335437 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
58335391 TCTTTTAATC
*
58335401 TTTTTTTTATGTGTTTA
1 TTTTTGTTATGTGTTTA
58335418 TTTTTGTTAT-TG-TTA
1 TTTTTGTTATGTGTTTA
58335433 TTTTT
1 TTTTT
58335438 ATCTCTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 2 0.11
17 9 0.47
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (17 bp):
TTTTTGTTATGTGTTTA
Found at i:58338185 original size:22 final size:22
Alignment explanation
Indices: 58338151--58338214 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
58338141 ACAATATCCA
58338151 AATAATAACAACAAAATAGTAGT
1 AATAA-AACAACAAAATAGTAGT
*
58338174 AATAAAATAACAAAAT-GATAGT
1 AATAAAACAACAAAATAG-TAGT
*
58338196 AA-AAAACAACAAAACAGTA
1 AATAAAACAACAAAATAGTA
58338215 ACAAAAAGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 14 0.39
22 17 0.47
23 5 0.14
ACGTcount: A:0.66, C:0.09, G:0.08, T:0.17
Consensus pattern (22 bp):
AATAAAACAACAAAATAGTAGT
Found at i:58346295 original size:49 final size:49
Alignment explanation
Indices: 58346239--58346334 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
58346229 GTTGGAGCTA
58346239 AGTGGTAGTGTTCTTGTCCACTAAGACTGTAATACCTTTAGCCCAACCC
1 AGTGGTAGTGTTCTTGTCCACTAAGACTGTAATACCTTTAGCCCAACCC
*
58346288 AGTGGTAGTGTTCTTGTCTACTAAGACTGTAATACCTTTAGCCCAAC
1 AGTGGTAGTGTTCTTGTCCACTAAGACTGTAATACCTTTAGCCCAAC
58346335 TCGGTCGTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (49 bp):
AGTGGTAGTGTTCTTGTCCACTAAGACTGTAATACCTTTAGCCCAACCC
Found at i:58355199 original size:106 final size:106
Alignment explanation
Indices: 58355014--58355227 Score: 401
Period size: 106 Copynumber: 2.0 Consensus size: 106
58355004 GCATTATCAG
*
58355014 ATTCAAGTTCAACCTGTCGGTATCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACTTC
1 ATTCAAGTTCAACCTGTCGGTATCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACCTC
58355079 ACTTCTATCCTGAAAACTTCATCTCTCCCCAATATCATCGC
66 ACTTCTATCCTGAAAACTTCATCTCTCCCCAATATCATCGC
58355120 ATTCAAGTTCAACCTGTCGGTATCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACCTC
1 ATTCAAGTTCAACCTGTCGGTATCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACCTC
* *
58355185 GCTTCTGTCCTGAAAACTTCATCTCTCCCCAATATCATCGC
66 ACTTCTATCCTGAAAACTTCATCTCTCCCCAATATCATCGC
58355226 AT
1 AT
58355228 AGCCACACAA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.29
Consensus pattern (106 bp):
ATTCAAGTTCAACCTGTCGGTATCTCTTCTCCCAAGCCAGACGTAGCCCTTCAAGCATAGACCTC
ACTTCTATCCTGAAAACTTCATCTCTCCCCAATATCATCGC
Found at i:58356532 original size:9 final size:9
Alignment explanation
Indices: 58356513--58356559 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
58356503 TGGTTAAAAT
*
58356513 TTAACCAAA
1 TTAACCGAA
*
58356522 TTAACTGAA
1 TTAACCGAA
*
58356531 TTACCCGAA
1 TTAACCGAA
*
58356540 TTACCCGAA
1 TTAACCGAA
58356549 TTAACCGAA
1 TTAACCGAA
58356558 TT
1 TT
58356560 GAATCACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (9 bp):
TTAACCGAA
Found at i:58359856 original size:27 final size:27
Alignment explanation
Indices: 58359818--58359903 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
58359808 GCCTGATCAG
* *
58359818 GCCAATTAAATTGGTGGCACCAAAGGT
1 GCCAAATAAATTGGTGGCACCAATGGT
58359845 GCCAAATAAATTGGTGGCACCAATGGT
1 GCCAAATAAATTGGTGGCACCAATGGT
*** *
58359872 GCCAAAGCCATTGGCGGCACC-ATGGT
1 GCCAAATAAATTGGTGGCACCAATGGT
58359898 GCCAAA
1 GCCAAA
58359904 GGAAAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 11 0.21
27 42 0.79
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (27 bp):
GCCAAATAAATTGGTGGCACCAATGGT
Found at i:58360005 original size:19 final size:18
Alignment explanation
Indices: 58359978--58360053 Score: 89
Period size: 19 Copynumber: 4.1 Consensus size: 18
58359968 TCAACTCATT
*
58359978 TTTTTATTTAATAATTCTA
1 TTTTAATTTAATAA-TCTA
*
58359997 TTTTAATTTAATAAACTA
1 TTTTAATTTAATAATCTA
* *
58360015 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAA-TCTA
*
58360034 TTTTAATTTAATAAACTA
1 TTTTAATTTAATAATCTA
58360052 TT
1 TT
58360054 AAGTAATACT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
18 20 0.42
19 28 0.58
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTAATTTAATAATCTA
Found at i:58360027 original size:37 final size:37
Alignment explanation
Indices: 58359983--58360053 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
58359973 TCATTTTTTT
*
58359983 ATTTAATAATTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
58360020 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
58360054 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:58360297 original size:19 final size:19
Alignment explanation
Indices: 58360270--58360339 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
58360260 TCAACTCAAT
*
58360270 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
**
58360289 TTTTAATTTAATAA-AATA
1 TTTTAATTTAATAACTCTA
* *
58360307 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
58360326 TTTTAATTTAATAA
1 TTTTAATTTAATAA
58360340 AATATTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:58360308 original size:18 final size:18
Alignment explanation
Indices: 58360287--58360345 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
58360277 TTAATAACTC
58360287 TATTTTAATTTAATAAAA
1 TATTTTAATTTAATAAAA
* * **
58360305 TATTCTCATTTAATAACTC
1 TATTTTAATTTAATAA-AA
58360324 TATTTTAATTTAATAAAA
1 TATTTTAATTTAATAAAA
58360342 TATT
1 TATT
58360346 AAGTAATACT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTTAATTTAATAAAA
Found at i:58360318 original size:37 final size:37
Alignment explanation
Indices: 58360275--58360345 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
58360265 TCAATTTTTT
58360275 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
58360312 ATTTAATAACTCTATTTTAATTTAATAAAATATT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATT
58360346 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
Found at i:58360655 original size:37 final size:37
Alignment explanation
Indices: 58360608--58360678 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
58360598 AGTATTACTT
*
58360608 AATATTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
58360645 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
58360679 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:58360683 original size:19 final size:19
Alignment explanation
Indices: 58360614--58360682 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
58360604 ACTTAATATT
58360614 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
58360633 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
58360651 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
58360670 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
58360683 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:58360836 original size:27 final size:27
Alignment explanation
Indices: 58360757--58360837 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
58360747 CTTTTTTTTC
* *
58360757 CTTTGGCACCATGGTGCCGCCAA-TGA
1 CTTTGGCACCTTGGTGCCGCCAATTTA
*
58360783 CTTTGGCACCATTGGTGCCACCAATTTA
1 CTTTGGCACC-TTGGTGCCGCCAATTTA
*
58360811 -TTTGGCACCTTTGGTGTCGCCAATTTA
1 CTTTGGCACC-TTGGTGCCGCCAATTTA
58360838 ATTAGCCTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.21
27 35 0.74
28 2 0.04
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (27 bp):
CTTTGGCACCTTGGTGCCGCCAATTTA
Found at i:58360883 original size:12 final size:11
Alignment explanation
Indices: 58360865--58360894 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
58360855 GATGTCAGGT
58360865 TTTTTTGTTTG
1 TTTTTTGTTTG
58360876 TTTGTTTGTTTG
1 TTT-TTTGTTTG
58360888 TTTTTTG
1 TTTTTTG
58360895 ATATATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (11 bp):
TTTTTTGTTTG
Found at i:58360920 original size:22 final size:22
Alignment explanation
Indices: 58360895--58360939 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
58360885 TTGTTTTTTG
58360895 ATATATTTTGGAAAATAAAAAA
1 ATATATTTTGGAAAATAAAAAA
*
58360917 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGAAAATAAAAAA
58360939 A
1 A
58360940 GTTATAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
ATATATTTTGGAAAATAAAAAA
Found at i:58361233 original size:30 final size:30
Alignment explanation
Indices: 58361193--58361256 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
58361183 CATAATAGTG
* *
58361193 AAATGGTAATAAAATAATGAAAAAACAAGA
1 AAATAGTAATAAAATAATGAAAAAACAACA
* * *
58361223 AAATAGTAATAAAATATTTAAAAAATAACA
1 AAATAGTAATAAAATAATGAAAAAACAACA
58361253 AAAT
1 AAAT
58361257 TTTTTGCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (30 bp):
AAATAGTAATAAAATAATGAAAAAACAACA
Found at i:58362314 original size:20 final size:20
Alignment explanation
Indices: 58362286--58362324 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58362276 AATGATTTGA
*
58362286 TTAAATAAATTATTAAAAAT
1 TTAAATAAAATATTAAAAAT
*
58362306 TTAATTAAAATATTAAAAA
1 TTAAATAAAATATTAAAAA
58362325 AATTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAATAAAATATTAAAAAT
Found at i:58363077 original size:2 final size:2
Alignment explanation
Indices: 58363070--58363100 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58363060 TTTCTTTAAA
58363070 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58363101 GTAGTATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58363958 original size:42 final size:43
Alignment explanation
Indices: 58363805--58364039 Score: 203
Period size: 42 Copynumber: 5.6 Consensus size: 43
58363795 ATGTCTACTG
* * * *
58363805 CTAATGGCAG--TTTATTTACAAAAATGTTATGCATCCAGAAC
1 CTAATGGCAGTTTTTATCTACAAATATGTTGTGCATCCACAAC
* * * *
58363846 ATAATGGCAGTTTTTATCTTCAAATATGTTGTGCATCCATAGC
1 CTAATGGCAGTTTTTATCTACAAATATGTTGTGCATCCACAAC
* * * * * *
58363889 CCAGTAGTAG-TTTTATCTACAAGTATGTTGTGCATCTACAAC
1 CTAATGGCAGTTTTTATCTACAAATATGTTGTGCATCCACAAC
* * * *
58363931 CTAATGGCAGCTTTTATAT-CAAATATGTTGTGCAACGACAAC
1 CTAATGGCAGTTTTTATCTACAAATATGTTGTGCATCCACAAC
* ** *
58363973 C-AGTGAAAGTTTTTATCTGCAAATATGTTGTGCATCCACAA-
1 CTAATGGCAGTTTTTATCTACAAATATGTTGTGCATCCACAAC
* *
58364014 CTCAATGGTAGTTTTTATCTGCAAAT
1 CT-AATGGCAGTTTTTATCTACAAAT
58364040 CAGTGGTAGT
Statistics
Matches: 153, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
41 22 0.14
42 74 0.48
43 57 0.37
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (43 bp):
CTAATGGCAGTTTTTATCTACAAATATGTTGTGCATCCACAAC
Found at i:58364000 original size:84 final size:85
Alignment explanation
Indices: 58363815--58364032 Score: 237
Period size: 84 Copynumber: 2.6 Consensus size: 85
58363805 CTAATGGCAG
* * * * * *
58363815 TTTATTTACAAAAATGTTATGCATCCAGAACATAATGGCAGTTTTTATCTTCAAATATGTTGTGC
1 TTTATCTACAAATATGTTGTGCATCCACAACCTAATGGCAGTTTTTATCATCAAATATGTTGTGC
* * * *
58363880 ATCCATAGCCCAGTAGTAGT
66 AACCACAGACCAGTAGAAGT
* * *
58363900 TTTATCTACAAGTATGTTGTGCATCTACAACCTAATGGCAGCTTTTAT-ATCAAATATGTTGTGC
1 TTTATCTACAAATATGTTGTGCATCCACAACCTAATGGCAGTTTTTATCATCAAATATGTTGTGC
*
58363964 AACGACA-ACCAGT-GAAAGTT
66 AACCACAGACCAGTAG-AAG-T
* *
58363984 TTTATCTGCAAATATGTTGTGCATCCACAA-CTCAATGGTAGTTTTTATC
1 TTTATCTACAAATATGTTGTGCATCCACAACCT-AATGGCAGTTTTTATC
58364033 TGCAAATCAG
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
82 1 0.01
83 9 0.08
84 60 0.55
85 40 0.36
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (85 bp):
TTTATCTACAAATATGTTGTGCATCCACAACCTAATGGCAGTTTTTATCATCAAATATGTTGTGC
AACCACAGACCAGTAGAAGT
Found at i:58379343 original size:23 final size:23
Alignment explanation
Indices: 58379314--58379432 Score: 175
Period size: 23 Copynumber: 5.2 Consensus size: 23
58379304 AGTGCAACAT
*
58379314 TGATATGTAGCCGAAGCTGCCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
58379337 TGTTATGTAGTCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
58379360 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
58379383 TGTTATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
58379406 TGAAACGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
58379429 TGAT
1 TGAT
58379433 CAATAACACT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 84 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:58379385 original size:46 final size:46
Alignment explanation
Indices: 58379318--58379430 Score: 199
Period size: 46 Copynumber: 2.5 Consensus size: 46
58379308 CAACATTGAT
* *
58379318 ATGTAGCCGAAGCTGCCACTGTTATGTAGTCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTGAA
58379364 ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTGAA
*
58379410 ACGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTG
58379431 ATCAATAACA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGTTATGTAGCCGAAGCTACCACTGAA
Found at i:58380868 original size:41 final size:40
Alignment explanation
Indices: 58380780--58380887 Score: 141
Period size: 41 Copynumber: 2.8 Consensus size: 40
58380770 CTTCAAGTCG
* * * *
58380780 ATGAGGCACTGGGTGCCAA-TT--TACTTCGGTTTAATCG
1 ATGAGACACTGGGTGTCAATTTACTACTTCGATTTAATCA
*
58380817 ATGAGACACTGGGTGTCAATTTACTACTTCGAATTTATTCA
1 ATGAGACACTGGGTGTCAATTTACTACTTCG-ATTTAATCA
58380858 ATGAGACACTGGGTGTCAATTTACTACTTC
1 ATGAGACACTGGGTGTCAATTTACTACTTC
58380888 AAAATATCCG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
37 17 0.27
38 2 0.03
40 7 0.11
41 36 0.58
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTACTACTTCGATTTAATCA
Found at i:58382474 original size:23 final size:23
Alignment explanation
Indices: 58382448--58382495 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
58382438 GTATTACAAC
* *
58382448 GCAATTCATTCTGGCACTACGAT
1 GCAACTCATTCTAGCACTACGAT
* *
58382471 GCAACTCATTTTAGCACTTCGAT
1 GCAACTCATTCTAGCACTACGAT
58382494 GC
1 GC
58382496 GTTACATTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (23 bp):
GCAACTCATTCTAGCACTACGAT
Found at i:58385325 original size:45 final size:45
Alignment explanation
Indices: 58385211--58385326 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
58385201 TGTTGGTTGA
* * *
58385211 AAACGAGTAAGACTATAGCTGAAAAACACTATAACATCACGAATC
1 AAACGAGTAAGACCATAGTTGAAAGACACTATAACATCACGAATC
* * * ** * *
58385256 AAACGAGTAAAATCATAGTTGAAAGACGCTATGGCATCATGATTC
1 AAACGAGTAAGACCATAGTTGAAAGACACTATAACATCACGAATC
*
58385301 AAACGTGTAAGACCATAGTTGAAAGA
1 AAACGAGTAAGACCATAGTTGAAAGA
58385327 TACAATGACA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (45 bp):
AAACGAGTAAGACCATAGTTGAAAGACACTATAACATCACGAATC
Found at i:58385414 original size:22 final size:22
Alignment explanation
Indices: 58385345--58385414 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
58385335 CACTATATCA
*
58385345 AAAATGAATAAGACCATAGTTG
1 AAAATGAATAAGACCATAATTG
* * *
58385367 -AAA-GACATTATGACAATATATCG
1 AAAATGA-A-TAAGACCATA-ATTG
58385390 AAAATGAATAAGACCATAATTG
1 AAAATGAATAAGACCATAATTG
58385412 AAA
1 AAA
58385415 GACACTATGG
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
20 2 0.06
21 4 0.11
22 14 0.39
23 10 0.28
24 4 0.11
25 2 0.06
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.23
Consensus pattern (22 bp):
AAAATGAATAAGACCATAATTG
Found at i:58385452 original size:47 final size:45
Alignment explanation
Indices: 58385308--58385469 Score: 209
Period size: 45 Copynumber: 3.6 Consensus size: 45
58385298 TTCAAACGTG
* * *
58385308 TAAGACCATAGTTGAAAGATACAATGAC-ACTATATCAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACAAC-ATATCGAAAATGAA
* *
58385353 TAAGACCATAGTTGAAAGACATTATGACAATATATCGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACAACATATCGAAAATGAA
* * *
58385398 TAAGACCATAATTGAAAGACACTATGGCAACATGATGGAGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACAACAT-ATCGA-AAATGAA
*
58385445 TAAGACCATAGTTGAAAGGCACTAT
1 TAAGACCATAGTTGAAAGACACTAT
58385470 AGCATCAGTT
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
45 67 0.66
46 5 0.05
47 30 0.29
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGACAACATATCGAAAATGAA
Found at i:58390145 original size:14 final size:15
Alignment explanation
Indices: 58390114--58390146 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
58390104 ATTAGTTGTA
*
58390114 ATGTTTTACTATGTC
1 ATGTTTTACTATGGC
58390129 ATGTTTTA-TATGGC
1 ATGTTTTACTATGGC
58390143 ATGT
1 ATGT
58390147 ACCTAAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.52
Consensus pattern (15 bp):
ATGTTTTACTATGGC
Found at i:58411150 original size:5 final size:5
Alignment explanation
Indices: 58411142--58411198 Score: 73
Period size: 5 Copynumber: 11.6 Consensus size: 5
58411132 TTTACTTATT
* *
58411142 TAATA TAATA CAATA TAATA TAATA TAATA TAATA T-ATAA TAAAA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAAT-A TAATA TAATA
58411192 T-ATA TAA
1 TAATA TAA
58411199 AGCATAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 6 0.13
5 38 0.84
6 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:58412474 original size:16 final size:16
Alignment explanation
Indices: 58412453--58412486 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58412443 AACTTTTAAG
58412453 TGAATAAAAAAAACAA
1 TGAATAAAAAAAACAA
* *
58412469 TGAATAGAAAAAAGAA
1 TGAATAAAAAAAACAA
58412485 TG
1 TG
58412487 GATACACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.15
Consensus pattern (16 bp):
TGAATAAAAAAAACAA
Found at i:58414847 original size:25 final size:25
Alignment explanation
Indices: 58414811--58414870 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
58414801 TGCAAGCAGT
*
58414811 TTTATAG-ATTGATGTAGTTTGTAG
1 TTTATAGTTTTGATGTAGTTTGTAG
58414835 TTTATAGTTTTGATGTAGTTTGTAG
1 TTTATAGTTTTGATGTAGTTTGTAG
*
58414860 TTTATGGTTTT
1 TTTATAGTTTT
58414871 TCTGTTAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
24 7 0.21
25 26 0.79
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (25 bp):
TTTATAGTTTTGATGTAGTTTGTAG
Found at i:58416711 original size:63 final size:63
Alignment explanation
Indices: 58416633--58416824 Score: 357
Period size: 63 Copynumber: 3.0 Consensus size: 63
58416623 TTTTCAATAT
58416633 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
1 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
*
58416696 TTATATCAGTTATAGTTCTGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
1 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
* *
58416759 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGCGGATGGGATATCAACAAC
1 TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
58416822 TTA
1 TTA
58416825 GCATGAATCA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 125 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (63 bp):
TTATATCAGTTATAGTTCCGCTGGTAGAGTGCTATCGAAATAAGTGAATGGGATATCAACAAC
Found at i:58429713 original size:18 final size:19
Alignment explanation
Indices: 58429690--58429727 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
58429680 GGAAGCAAGC
*
58429690 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
58429708 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
58429727 A
1 A
58429728 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:58435810 original size:72 final size:72
Alignment explanation
Indices: 58435692--58435829 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
58435682 AATGTAATTA
* *
58435692 TTTGTAATTACCTACACAATTACTTTAATTCTCACTCTCCACTAAGAATTAAATAGTGTAATTGG
1 TTTGTAATTACCTACACAATTACTCTAATTCTCACTCTCCACTAAGAATTAAATAGTGTAACTGG
58435757 GATGTTG
66 GATGTTG
* * * ** *
58435764 TTTGTAATTACTTGCATAATTACTCTAATTCTCACTCTCCGGTAAGAATTGAATAGTGTAACTGG
1 TTTGTAATTACCTACACAATTACTCTAATTCTCACTCTCCACTAAGAATTAAATAGTGTAACTGG
58435829 G
66 G
58435830 GTACACTAGG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (72 bp):
TTTGTAATTACCTACACAATTACTCTAATTCTCACTCTCCACTAAGAATTAAATAGTGTAACTGG
GATGTTG
Found at i:58436142 original size:17 final size:19
Alignment explanation
Indices: 58436107--58436149 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
58436097 AAAAATTAAA
58436107 AAAT-ATTTTATACTTTTT
1 AAATAATTTTATACTTTTT
58436125 AAATAATTTT-TA-TTTTT
1 AAATAATTTTATACTTTTT
*
58436142 AAAAAATT
1 AAATAATT
58436150 AATTAATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 12 0.52
18 6 0.26
19 5 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AAATAATTTTATACTTTTT
Found at i:58437615 original size:22 final size:22
Alignment explanation
Indices: 58437586--58437640 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
58437576 GAAATGGTAG
*
58437586 CAAAACAACAACCTAACAACAA
1 CAAAACAACAACATAACAACAA
* **
58437608 TAAAACAACAACATAACATGAA
1 CAAAACAACAACATAACAACAA
58437630 CAAAACAACAA
1 CAAAACAACAA
58437641 GGAAAAAAGT
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:0.65, C:0.25, G:0.02, T:0.07
Consensus pattern (22 bp):
CAAAACAACAACATAACAACAA
Found at i:58437625 original size:11 final size:11
Alignment explanation
Indices: 58437586--58437640 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
58437576 GAAATGGTAG
58437586 CAAAACAACAA
1 CAAAACAACAA
**
58437597 CCTAACAACAA
1 CAAAACAACAA
*
58437608 TAAAACAACAA
1 CAAAACAACAA
* **
58437619 CATAACATGAA
1 CAAAACAACAA
58437630 CAAAACAACAA
1 CAAAACAACAA
58437641 GGAAAAAAGT
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.65, C:0.25, G:0.02, T:0.07
Consensus pattern (11 bp):
CAAAACAACAA
Found at i:58440036 original size:4 final size:4
Alignment explanation
Indices: 58440027--58440053 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
58440017 TCAATTAATA
58440027 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
58440054 AATAAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:58440293 original size:32 final size:32
Alignment explanation
Indices: 58440231--58440370 Score: 141
Period size: 32 Copynumber: 4.5 Consensus size: 32
58440221 ACCTCCCAAA
* * *
58440231 AAGTTTAAGTACCAACTTAAG-AAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
*
58440262 AAGTTTAGGTATCAAATTAGGAAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
*
58440294 AAGTTTGGGTACCAAATT-GGACCAAAAA-----
1 AAGTTTAGGTACCAAATTAGGA--AAAAAGTGTC
* * *
58440322 AAGATTAGGTACCAAATTAGAAAAAAAGTGCC
1 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
58440354 AAGTTTAGGTACCAAAT
1 AAGTTTAGGTACCAAAT
58440371 ATTATATTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
27 5 0.06
28 16 0.18
29 2 0.02
31 20 0.22
32 42 0.47
33 5 0.06
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.24
Consensus pattern (32 bp):
AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
Found at i:58440357 original size:92 final size:92
Alignment explanation
Indices: 58440176--58440370 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 92
58440166 AAAAAAAAAA
** *
58440176 AGGTACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCCCAAAAAGTTTAAGT
1 AGGTACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCAAAAAAAGATTAAGT
* * *
58440241 ACCAACTTAAGAAAAAGTGTCAAGTTT
66 ACCAAATTAAAAAAAAGTGCCAAGTTT
* * * *
58440268 AGGTATCAAATTAGGAAAAAAGTGTCAAGTTTGGGTACCAAATTGGA-C-CAAAAAAAGATTAGG
1 AGGTACCAAATTAGG-AAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCAAAAAAAGATTAAG
58440331 TACCAAATTAGAAAAAAAGTGCCAAGTTT
65 TACCAAATTA-AAAAAAAGTGCCAAGTTT
58440360 AGGTACCAAAT
1 AGGTACCAAAT
58440371 ATTATATTAA
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
91 20 0.22
92 41 0.46
93 29 0.32
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.23
Consensus pattern (92 bp):
AGGTACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCAAAAAAAGATTAAGT
ACCAAATTAAAAAAAAGTGCCAAGTTT
Found at i:58452110 original size:20 final size:20
Alignment explanation
Indices: 58452085--58452124 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
58452075 TTCACCTCAT
58452085 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
58452105 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
58452125 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:58462933 original size:20 final size:20
Alignment explanation
Indices: 58462905--58462944 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
58462895 TTCACCTCAT
*
58462905 GCATTGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
58462925 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
58462945 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:58471348 original size:45 final size:45
Alignment explanation
Indices: 58470990--58471437 Score: 219
Period size: 44 Copynumber: 10.1 Consensus size: 45
58470980 AGATCTTGCT
* * * *
58470990 TTCCCATATTGGTGGCGAAGCAGATCGAAAGAAAGTAGATCTTATC
1 TTCCCATACTGGTGGTGAAGTAGATCG-AAGAAAGCAGATCTTATC
*** * * * * * * *
58471036 TTCATGTACTGG-CGTGAAGTAGATCAAAGATAGTAGGTCCTGTC
1 TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC
* * * * * * *
58471080 TTCCTATA-TCGGTAGCGAAGTGGATCGAATATA-CAGATTTTATC
1 TTCCCATACT-GGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC
** * * * *
58471124 TTCCCATGTTGGTGGCGAAGCAGATCAAAGAAA-CAGATCTTGTC
1 TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC
* * * * **
58471168 TCCCCATACTGGTGGTGGAGTGGATCAAAGAAAATAGATCTTATC
1 TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC
*** * * * * * * * *
58471213 TTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTAGGTCCTGTC
1 TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC
* * * * * * * *
58471257 TTCCTATATTGGTAGCGAAGTGGATCGAATATA-CAGATTTTATC
1 TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC
* * *
58471301 TTCCCATACCGGTGGTGAAGTAGATTGAAGAAAGCAGATCTTCTC
1 TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC
*** * * * *
58471346 TTCATGTACTGG-CGTGAAGTAGATCAAAG-ATGACAGATCTTGTC
1 TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG-CAGATCTTATC
* * **
58471390 TCCCCATACTGGTGGTGGAGTAGATCGAAGAAAATAGATCTTATC
1 TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC
58471435 TTC
1 TTC
58471438 ATGTACTGGC
Statistics
Matches: 293, Mismatches: 100, Indels: 19
0.71 0.24 0.05
Matches are distributed among these distances:
43 3 0.01
44 182 0.62
45 99 0.34
46 9 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
TTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTATC
Found at i:58471348 original size:89 final size:89
Alignment explanation
Indices: 58471026--58471446 Score: 303
Period size: 89 Copynumber: 4.8 Consensus size: 89
58471016 GAAAGAAAGT
*** * * * * *
58471026 AGATCTTATCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATA-T
1 AGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTATACT
*
58471089 CGGTAGCGAAGTGGATCGAATATAC
66 -GGTAGCGAAGTGGATCAAATATAC
* ** * * * *
58471114 AGATTTTATCTTCCCATGTTGGTGGCGAAGCAGATCAAAGAAA-CAGATCTTGTCTCCCCATACT
1 AGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTATACT
* * * * * *
58471178 GGTGGTGGAGTGGATCAAAGAAAAT
66 GGTAGCGAAGTGGATCAAA-TATAC
*** * * * * * * *
58471203 AGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATT
1 AGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTATACT
*
58471267 GGTAGCGAAGTGGATCGAATATAC
66 GGTAGCGAAGTGGATCAAATATAC
* * ** * * *
58471291 AGATTTTATCTTCCCATACCGGTGGTGAAGTAGATTGAAGAAAGCAGATCTTCTCTTCATGTACT
1 AGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTATACT
* * * *
58471356 GG-CGTGAAGTAGATCAAAGATGAC
66 GGTAGCGAAGTGGATCAAATAT-AC
* * * * ** * * *
58471380 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAATAGATCTTATCTTCATGTACT
1 AGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTATACT
58471445 GG
66 GG
58471447 CATGAAGTAG
Statistics
Matches: 252, Mismatches: 75, Indels: 11
0.75 0.22 0.03
Matches are distributed among these distances:
88 93 0.37
89 159 0.63
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (89 bp):
AGATCTTATCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCTATACT
GGTAGCGAAGTGGATCAAATATAC
Found at i:58471373 original size:177 final size:177
Alignment explanation
Indices: 58470971--58471375 Score: 553
Period size: 177 Copynumber: 2.3 Consensus size: 177
58470961 AGCAGGTGGA
* * * * * *
58470971 AAAGATAACAGATCTTGCTTTCC-CATATTGGTGGCGAAGCAGATCGAAAGAAAGTAGATCTTAT
1 AAAGA-AACAGATCTT-CTCTCCACATACTGGTCGTGAAGTAGATC-AAAGAAAATAGATCTTAT
58471035 CTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGTAGCGAAG
63 CTTCATGTACTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGTAGCGAAG
***
58471100 TGGATCGAATATACAGATTTTATCTTCCCATGTTGGTGGCGAAGCAGATC
128 TGGATCGAATATACAGATTTTATCTTCCCATACCGGTGGCGAAGCAGATC
* * * * *
58471150 AAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTGGATCAAAGAAAATAGATCTTATCTT
1 AAAGAAACAGATCTTCTCTCCACATACTGGTCGTGAAGTAGATCAAAGAAAATAGATCTTATCTT
* *
58471215 CATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATTGGTAGCGAAGTGG
66 CATGTACTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGG
* * *
58471280 ATCGAATATACAGATTTTATCTTCCCATACCGGTGGTGAAGTAGATT
131 ATCGAATATACAGATTTTATCTTCCCATACCGGTGGCGAAGCAGATC
* * **
58471327 GAAGAAAGCAGATCTTCTCTTCATGTACTGG-CGTGAAGTAGATCAAAGA
1 AAAGAAA-CAGATCTTCTCTCCACATACTGGTCGTGAAGTAGATCAAAGA
58471376 TGACAGATCT
Statistics
Matches: 199, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
177 149 0.75
178 45 0.23
179 5 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (177 bp):
AAAGAAACAGATCTTCTCTCCACATACTGGTCGTGAAGTAGATCAAAGAAAATAGATCTTATCTT
CATGTACTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGG
ATCGAATATACAGATTTTATCTTCCCATACCGGTGGCGAAGCAGATC
Found at i:58471447 original size:89 final size:89
Alignment explanation
Indices: 58471289--58471465 Score: 264
Period size: 89 Copynumber: 2.0 Consensus size: 89
58471279 GATCGAATAT
* * * * *
58471289 ACAGATTTTATCTTCCCATACCGGTGGTGAAGTAGATTGAAGAAAGCAGATCTTCTCTTCATGTA
1 ACAGATCTTATCTCCCCATACCGGTGGTGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTA
*
58471354 CTGGCGTGAAGTAGATCAAAGATG
66 CTGGCATGAAGTAGATCAAAGATG
* * * *
58471378 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAATAGATCTTATCTTCATGTA
1 ACAGATCTTATCTCCCCATACCGGTGGTGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTA
58471443 CTGGCATGAAGTAGATCAAAGAT
66 CTGGCATGAAGTAGATCAAAGAT
58471466 AGTAGGTCCT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
ACAGATCTTATCTCCCCATACCGGTGGTGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTA
CTGGCATGAAGTAGATCAAAGATG
Found at i:58471481 original size:133 final size:132
Alignment explanation
Indices: 58470971--58471481 Score: 411
Period size: 133 Copynumber: 3.8 Consensus size: 132
58470961 AGCAGGTGGA
**
58470971 AAAGATAACAGATCTTG-CTTTCCCATATTGGTGGCGAAGCAGATCGAAAGAAAGTAGATCTTAT
1 AAAGAT-ACAGATCTTGTC-TTCCCATATTGGTGGCGAAGCAGATCG-AAGAAAACAGATCTTAT
** * * * * * *
58471035 CTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGTAGCGAA
63 CTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGTAGATCCTGTCTTCATGTAT-GG-CGTGAA
*
58471099 GTGGATC
126 GTAGATC
* * * * * * * *
58471106 GAATATACAGATTTTATCTTCCCATGTTGGTGGCGAAGCAGATCAAAG-AAACAGATCTTGTCTC
1 AAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTATCTT
* * * * * * *
58471170 CCCATACTGGTGGTGGAGTGGATCAAAGAAAATAGATCTTATCTTCATGTATTGGCGTGAAGTAG
66 CACATACTGGTCGTGAAGTAGATCAAAGAAAGTAGATCCTGTCTTCATGTA-TGGCGTGAAGTAG
58471235 ATC
130 ATC
* * * * * ** * * *
58471238 AAAGATAGTAGGTCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAA-TATACAGATTTTATCT
1 AAAGATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTATCT
* * * ** * * *
58471302 TCCCATACCGGTGGTGAAGTAGATTGAAGAAAGCAGATCTTCTCTTCATGTACTGGCGTGAAGTA
65 TCACATACTGGTCGTGAAGTAGATCAAAGAAAGTAGATCCTGTCTTCATGTA-TGGCGTGAAGTA
58471367 GATC
129 GATC
* * * * * *
58471371 AAAGATGACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAATAGATCTTATCT
1 AAAGAT-ACAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTATCT
** * * *
58471436 TCATGTACTGG-CATGAAGTAGATCAAAGATAGTAGGTCCTGTCTTC
65 TCACATACTGGTCGTGAAGTAGATCAAAGAAAGTAGATCCTGTCTTC
58471482 CTATATCGGT
Statistics
Matches: 290, Mismatches: 79, Indels: 16
0.75 0.21 0.04
Matches are distributed among these distances:
132 34 0.12
133 197 0.68
134 54 0.19
135 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (132 bp):
AAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTATCTT
CACATACTGGTCGTGAAGTAGATCAAAGAAAGTAGATCCTGTCTTCATGTATGGCGTGAAGTAGA
TC
Found at i:58471505 original size:89 final size:88
Alignment explanation
Indices: 58471299--58471507 Score: 249
Period size: 89 Copynumber: 2.3 Consensus size: 88
58471289 ACAGATTTTA
* * * *
58471299 TCTTCCCATACCGGTGGTGAAGTAGATTGAAGAAAGCAGATCTTCTCTTCATGTACTGGCGTGAA
1 TCTTCCCATA-CGGTGGTGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTACTGGCATGAA
*
58471364 GTAGATCAAAGATGACAGATCTTG
65 GTAGATCAAAGATGACAGATCCTG
* * *
58471388 TCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAATAGATCTTATCTTCATGTACTGGCATGAA
1 TCTTCCCATAC-GGTGGTGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTACTGGCATGAA
* *
58471453 GTAGATCAAAGAT-AGTAGGTCCTG
65 GTAGATCAAAGATGA-CAGATCCTG
* * * *
58471477 TCTTCCTATATCGGTAGCGAAGTGGATCGAA
1 TCTTCCCATA-CGGTGGTGAAGTAGATCGAA
58471508 TATACATATT
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
88 2 0.02
89 98 0.97
90 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (88 bp):
TCTTCCCATACGGTGGTGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTACTGGCATGAAG
TAGATCAAAGATGACAGATCCTG
Found at i:58471563 original size:222 final size:221
Alignment explanation
Indices: 58471140--58471553 Score: 693
Period size: 222 Copynumber: 1.9 Consensus size: 221
58471130 TGTTGGTGGC
*
58471140 GAAGCAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTGGATCAAAGAAAATAG
1 GAAGCAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAATAG
* * *
58471205 ATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATTGGT
66 ATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGT
** * *
58471270 AGCGAAGTGGATCGAATATACAGATTTTATCTTCCCATACCGGTGGTGAAGTAGATTGAAGAAAG
131 AGCGAAGTGGATCGAATATACAGATTTTATCTTCCCATACCGACGGCGAAGTAGATGGAAGAAAG
58471335 CAGATCTTCTCTTCATGTACTGGCGT
196 CAGATCTTCTCTTCATGTACTGGCGT
* * *
58471361 GAAGTAGATCAAAGATGACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAATA
1 GAAGCAGATCAAAGA-AACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAATA
58471426 GATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGG
65 GATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGG
* * *
58471491 TAGCGAAGTGGATCGAATATACATATTTTATCTTCTCATACTGACGGCGAAGTAGATGGAAGA
130 TAGCGAAGTGGATCGAATATACAGATTTTATCTTCCCATACCGACGGCGAAGTAGATGGAAGA
58471554 TTACAGATCT
Statistics
Matches: 178, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
221 14 0.08
222 164 0.92
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (221 bp):
GAAGCAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAATAG
ATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGT
AGCGAAGTGGATCGAATATACAGATTTTATCTTCCCATACCGACGGCGAAGTAGATGGAAGAAAG
CAGATCTTCTCTTCATGTACTGGCGT
Found at i:58471633 original size:222 final size:222
Alignment explanation
Indices: 58471140--58471615 Score: 627
Period size: 222 Copynumber: 2.1 Consensus size: 222
58471130 TGTTGGTGGC
* ** *
58471140 GAAGCAGATCAAAGA-AACAGATCTTGTCTCCCCATACTGGTGGTGGAGTGGATCAAAGAAAATA
1 GAAGCAGATCAAAGATGACAGATCTTACCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAATA
* * *
58471204 GATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATTGG
66 GATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGG
** * *
58471269 TAGCGAAGTGGATCGAATATACAGATTTTATCTTCCCATACCGGTGGTGAAGTAGATTGAAGAAA
131 TAGCGAAGTGGATCGAATATACAGATTTTATCTTCCCATACCGACGGCGAAGTAGATGGAAGAAA
* * * * *
58471334 GCAGATCTTCTCTTCATGTACTGGCGT
196 GCAGATCTGCTCTCCATGAACAGGAGT
* ** *
58471361 GAAGTAGATCAAAGATGACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAATA
1 GAAGCAGATCAAAGATGACAGATCTTACCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAATA
58471426 GATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGG
66 GATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGG
* * * *
58471491 TAGCGAAGTGGATCGAATATACATATTTTATCTTCTCATACTGACGGCGAAGTAGATGGAAGATT
131 TAGCGAAGTGGATCGAATATACAGATTTTATCTTCCCATACCGACGGCGAAGTAGATGGAAGA-A
* *
58471556 A-CAGATCTAGC-CTCCCT-AAGCAGTAGT
195 AGCAGATCT-GCTCTCCATGAA-CAGGAGT
* * * *
58471583 GGAGCAGATCAAAGATGGCGGATTTTACCTCCC
1 GAAGCAGATCAAAGATGACAGATCTTACCTCCC
58471616 TGTGGTTGCA
Statistics
Matches: 222, Mismatches: 29, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
221 15 0.07
222 205 0.92
223 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (222 bp):
GAAGCAGATCAAAGATGACAGATCTTACCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAATA
GATCTTATCTTCATGTACTGGCATGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATCGG
TAGCGAAGTGGATCGAATATACAGATTTTATCTTCCCATACCGACGGCGAAGTAGATGGAAGAAA
GCAGATCTGCTCTCCATGAACAGGAGT
Found at i:58471702 original size:125 final size:125
Alignment explanation
Indices: 58471551--58471778 Score: 368
Period size: 125 Copynumber: 1.8 Consensus size: 125
58471541 AGTAGATGGA
58471551 AGATTACAGATCTAGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCC
1 AGATTACAGATCTAGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCC
* * * *
58471616 TGTGGTTGCAGTGGAGTACATTGAAGCTAGTAATTCTACATCTCTGGGCAGCAGTGGAAT
66 TGAGGTTACAGCGGAGTACATTGAAGCCAGTAATTCTACATCTCTGGGCAGCAGTGGAAT
* * *
58471676 AGATTACAGATCTTA-TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGGATTTTACCTCC
1 AGATTACAGATC-TAGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCC
*
58471740 CTGAGGTTACAGCGGAGTATATTGAAGCCAGTAATTCTA
65 CTGAGGTTACAGCGGAGTACATTGAAGCCAGTAATTCTA
58471779 TCTCCCGGGG
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
125 92 0.98
126 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (125 bp):
AGATTACAGATCTAGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCC
TGAGGTTACAGCGGAGTACATTGAAGCCAGTAATTCTACATCTCTGGGCAGCAGTGGAAT
Found at i:58474593 original size:27 final size:27
Alignment explanation
Indices: 58474520--58474596 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
58474510 GGGTATGGTG
* *
58474520 CCTATCTGATAGGCGGCACCAGTGATC
1 CCTATCTGATAGGCGGCACTAGTGACC
*
58474547 CCTATCTGATAGGCGGCACTGGTGACC
1 CCTATCTGATAGGCGGCACTAGTGACC
* *
58474574 CCTATCTCATAGGTGGCACTAGT
1 CCTATCTGATAGGCGGCACTAGT
58474597 ACCATTTCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.25
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACTAGTGACC
Found at i:58474712 original size:18 final size:17
Alignment explanation
Indices: 58474686--58474732 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
58474676 GTAGAAGAGA
*
58474686 AGAATGAAAGAAAATAGG
1 AGAAAGAAAGAAAATA-G
58474704 AGAAAGAAAG-AAA-AG
1 AGAAAGAAAGAAAATAG
58474719 A-AAAGAAAGAAAAT
1 AGAAAGAAAGAAAAT
58474733 GTATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 1 0.04
17 3 0.12
18 9 0.35
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.06
Consensus pattern (17 bp):
AGAAAGAAAGAAAATAG
Found at i:58474751 original size:23 final size:23
Alignment explanation
Indices: 58474724--58474770 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
58474714 AAAAGAAAAG
58474724 AAAGAAAATGTATTTTTATTTTT
1 AAAGAAAATGTATTTTTATTTTT
58474747 AAAGAAAATGTATTTTTATTTTT
1 AAAGAAAATGTATTTTTATTTTT
58474770 A
1 A
58474771 TTGTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (23 bp):
AAAGAAAATGTATTTTTATTTTT
Found at i:58478867 original size:3 final size:3
Alignment explanation
Indices: 58478819--58478852 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
58478809 TGCTCTCTCA
*
58478819 TTC TTC TTC TTC TTC TTT TTC TTC TTC -TC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
58478853 TAAAGATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:58479038 original size:31 final size:31
Alignment explanation
Indices: 58478997--58479055 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
58478987 GACCAGGGGT
* **
58478997 GTGCTGCCTCTCTGGTAGGCACGACCAGCCA
1 GTGCCGCCTCTCCAGTAGGCACGACCAGCCA
*
58479028 GTGCCGCCTCTCCAGTAGGCATGACCAG
1 GTGCCGCCTCTCCAGTAGGCACGACCAG
58479056 TGCTGCTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.17, C:0.36, G:0.29, T:0.19
Consensus pattern (31 bp):
GTGCCGCCTCTCCAGTAGGCACGACCAGCCA
Found at i:58495593 original size:22 final size:22
Alignment explanation
Indices: 58495546--58495604 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
58495536 AAAATAGTGA
* *
58495546 AAAATAATAAGAAAATAACAAC
1 AAAATAATAAAAAAACAACAAC
* *
58495568 AAAATAATAAAAAAACAGCAAG
1 AAAATAATAAAAAAACAACAAC
*
58495590 AAAATAGTAAAAAAA
1 AAAATAATAAAAAAA
58495605 AGTTTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAATAATAAAAAAACAACAAC
Found at i:58496173 original size:91 final size:91
Alignment explanation
Indices: 58496047--58496217 Score: 229
Period size: 91 Copynumber: 1.9 Consensus size: 91
58496037 GATATTTATC
* * * *
58496047 TTTTATAAAAAGTTTAATGTGGTACTTATATTTTGAAAATGTTAAATATGGTA-TATGAGCTATC
1 TTTTATAAAAAGTCTAATGTGATACTTACATTTTGAAAATGTTAAATATGGTACT-TGAACTATC
***
58496111 AATTTGTGTATTATTTGGTACATATAT
65 AACCAGTGTATTATTTGGTACATATAT
* *
58496138 TTTTATAAAATA-TCTAATGTGATACTTACATTTTGAAAATGTTCAATGTGGTACTTGAACTATC
1 TTTTATAAAA-AGTCTAATGTGATACTTACATTTTGAAAATGTTAAATATGGTACTTGAACTATC
58496202 AACCAGTGTATTATTT
65 AACCAGTGTATTATTT
58496218 ATGGTATCTG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 67 0.97
92 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (91 bp):
TTTTATAAAAAGTCTAATGTGATACTTACATTTTGAAAATGTTAAATATGGTACTTGAACTATCA
ACCAGTGTATTATTTGGTACATATAT
Found at i:58498777 original size:28 final size:27
Alignment explanation
Indices: 58498740--58498797 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
58498730 AGGTAGGCAA
*
58498740 TTTTTTTTTGCGCTTTTTGCTTTCTTTT
1 TTTTTTTTTGCGCTTTTTACTTT-TTTT
58498768 TTTTTTTTTGCGCTTTTTACTTTTTTT
1 TTTTTTTTTGCGCTTTTTACTTTTTTT
58498795 TTT
1 TTT
58498798 CTGTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.02, C:0.12, G:0.09, T:0.78
Consensus pattern (27 bp):
TTTTTTTTTGCGCTTTTTACTTTTTTT
Found at i:58498804 original size:28 final size:28
Alignment explanation
Indices: 58498740--58498804 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
58498730 AGGTAGGCAA
*
58498740 TTTTT-TTTTGCGCTTTTTGCTTTCTTT
1 TTTTTGTTTTGCGCTTTTTACTTTCTTT
*
58498767 TTTTTTTTTTGCGCTTTTTACTTT-TTT
1 TTTTTGTTTTGCGCTTTTTACTTTCTTT
58498794 TTTTCTGTTTT
1 TTTT-TGTTTT
58498805 TTTAAAGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 12 0.35
28 22 0.65
ACGTcount: A:0.02, C:0.12, G:0.09, T:0.77
Consensus pattern (28 bp):
TTTTTGTTTTGCGCTTTTTACTTTCTTT
Found at i:58499371 original size:31 final size:31
Alignment explanation
Indices: 58499333--58499394 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
58499323 AGGCAAATTA
*
58499333 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAAGTGAATCCTAATAAAACTCTTT
58499364 CAAGAGTAAGTGAATCCTAATAAAACTCTTT
1 CAAGAGTAAGTGAATCCTAATAAAACTCTTT
58499395 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (31 bp):
CAAGAGTAAGTGAATCCTAATAAAACTCTTT
Found at i:58500098 original size:186 final size:184
Alignment explanation
Indices: 58499780--58500118 Score: 493
Period size: 186 Copynumber: 1.8 Consensus size: 184
58499770 AACTAGAAGT
* * *
58499780 TGTGTTTTGAAGAAGAAAAATGGTGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGTAGTTG
1 TGTGTGTTGAAGAAGAAAAATGATGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGCAGTTG
* *
58499845 ATAGTAGGAAAAAAATAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACACAAA
66 ACAGTAGGAAAAAAACAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACACAAA
*
58499910 AGCATGATCATAATCATGGTAATGAAAAATCTTGTAGATGAAATGAGCCAACCA
131 AGCATGATCATAACCATGGTAATGAAAAATCTTGTAGATGAAATGAGCCAACCA
* * *
58499964 TGTGTGTTGAAGAAGAAAAATGATGTTTGGCAAGAGAGAAAGTGAGAGGAA-AAAATGGCAGTCT
1 TGTGTGTTGAAGAAGAAAAATGATGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGCAGT-T
* * * *
58500028 -ACAGTGAGGAGGAAAAAACAATTATTTTAAGTTGAAAGTGTGGTGTGGGTTTACAAAAATTACA
65 GACAGT-AGGA--AAAAAACAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACA
* *
58500092 CAAAAGCATGATTATAACCATTGTAAT
127 CAAAAGCATGATCATAACCATGGTAAT
58500119 AGGCCCAATT
Statistics
Matches: 136, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
183 14 0.10
184 51 0.38
186 71 0.52
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (184 bp):
TGTGTGTTGAAGAAGAAAAATGATGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGCAGTTG
ACAGTAGGAAAAAAACAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACACAAA
AGCATGATCATAACCATGGTAATGAAAAATCTTGTAGATGAAATGAGCCAACCA
Found at i:58501800 original size:18 final size:20
Alignment explanation
Indices: 58501777--58501816 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
58501767 CCTTTTTTAC
58501777 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
58501795 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
58501815 AT
1 AT
58501817 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:58504035 original size:17 final size:18
Alignment explanation
Indices: 58504033--58504067 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58504023 TTTAAAATAT
*
58504033 TTTTAAAATACTTTTTCA
1 TTTTAAAATACTTTTTAA
58504051 TTTTAAAATA-TTTTTAA
1 TTTTAAAATACTTTTTAA
58504068 AACACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAAATACTTTTTAA
Found at i:58504036 original size:29 final size:28
Alignment explanation
Indices: 58504001--58504092 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 28
58503991 TATTTTTTAC
**
58504001 ATATTTTTTTAATTTTTTTAATTTTAAA
1 ATATTTTTAAAATTTTTTTAATTTTAAA
* *
58504029 ATATTTTTAAAATACTTTTTCATTTTAAA
1 ATATTTTTAAAAT-TTTTTTAATTTTAAA
58504058 ATATTTTTAAAACACTTTTTTTAATTTTTAAA
1 ATATTTTT-AAA-A-TTTTTTTAA-TTTTAAA
58504090 ATA
1 ATA
58504093 AAAATGGGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.21
29 21 0.40
30 3 0.06
31 7 0.13
32 11 0.21
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATTTTTAAAATTTTTTTAATTTTAAA
Found at i:58504048 original size:39 final size:40
Alignment explanation
Indices: 58503972--58504048 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
58503962 AAATATATTT
* * * *
58503972 ATTTTTTAAAATTTTACAATATTTTTTACATATTTTTTTA
1 ATTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTTA
*
58504012 ATTTTTT-TAATTTTAAAATATTTTTAAAATACTTTTT
1 ATTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTT
58504049 CATTTTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 25 0.78
40 7 0.22
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTTA
Found at i:58509901 original size:39 final size:39
Alignment explanation
Indices: 58509847--58509923 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
58509837 AGAGCTGGAT
*
58509847 GAATTTGAACCAGACAAACTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
*
58509886 GAATTTGAACCAGACAAATTTGACCCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACA
58509924 TGACACCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
Found at i:58514775 original size:21 final size:21
Alignment explanation
Indices: 58514736--58514780 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58514726 TAGACCTTGG
* *
58514736 ACCTTAAACCCTGAGCCCTGA
1 ACCTTAAACCCTGAACCCTAA
**
58514757 ACCTTAAACTTTGAACCCTAA
1 ACCTTAAACCCTGAACCCTAA
58514778 ACC
1 ACC
58514781 CTGAAACACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.36, G:0.09, T:0.22
Consensus pattern (21 bp):
ACCTTAAACCCTGAACCCTAA
Found at i:58514920 original size:14 final size:14
Alignment explanation
Indices: 58514879--58514927 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
58514869 GTCCAAGATA
58514879 CAAGGTTTAAGGTC
1 CAAGGTTTAAGGTC
* ** *
58514893 CATGGTCCATGGTC
1 CAAGGTTTAAGGTC
58514907 CAAGGTTTAAGGTC
1 CAAGGTTTAAGGTC
58514921 CAAGGTT
1 CAAGGTT
58514928 CATGTTAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (14 bp):
CAAGGTTTAAGGTC
Found at i:58514925 original size:7 final size:7
Alignment explanation
Indices: 58514866--58514926 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
58514856 TCTAGGGTTT
58514866 AAGGTCC
1 AAGGTCC
* *
58514873 AAGATAC
1 AAGGTCC
**
58514880 AAGGTTT
1 AAGGTCC
58514887 AAGGTCC
1 AAGGTCC
*
58514894 ATGGTCC
1 AAGGTCC
*
58514901 ATGGTCC
1 AAGGTCC
**
58514908 AAGGTTT
1 AAGGTCC
58514915 AAGGTCC
1 AAGGTCC
58514922 AAGGT
1 AAGGT
58514927 TCATGTTAAA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (7 bp):
AAGGTCC
Found at i:58522604 original size:35 final size:33
Alignment explanation
Indices: 58522560--58522733 Score: 199
Period size: 32 Copynumber: 5.2 Consensus size: 33
58522550 TCACTTGTCT
* * *
58522560 TTTCCTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* * *
58522594 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCAGCATTA
*
58522627 TTTCTTGTAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* *
58522661 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
*
58522694 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
58522728 TTTCTT
1 TTTCTT
58522734 TTTGGACCTG
Statistics
Matches: 120, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
32 48 0.40
33 10 0.08
34 15 0.12
35 47 0.39
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
Found at i:58522676 original size:67 final size:67
Alignment explanation
Indices: 58522560--58522730 Score: 270
Period size: 67 Copynumber: 2.6 Consensus size: 67
58522550 TCACTTGTCT
* * * * *
58522560 TTTCCTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
58522625 CA
66 CA
*
58522627 TTTCTTGTAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
58522692 CA
66 CA
* *
58522694 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
58522731 CTTTTTGGAC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 95 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:58525547 original size:21 final size:22
Alignment explanation
Indices: 58525517--58525561 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
58525507 GAGCAAATTG
58525517 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
58525539 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
58525560 TT
1 TT
58525562 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:58529997 original size:21 final size:21
Alignment explanation
Indices: 58529971--58530010 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
58529961 TGTTGTAACG
58529971 TCTAATTCACATAAAAATAAA
1 TCTAATTCACATAAAAATAAA
58529992 TCTAATTCACATAAAAATA
1 TCTAATTCACATAAAAATA
58530011 GTTTTCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (21 bp):
TCTAATTCACATAAAAATAAA
Found at i:58534695 original size:30 final size:30
Alignment explanation
Indices: 58534651--58534712 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
58534641 GATACAGGAA
58534651 AATTGAATCAAAATTAAAATTTTATGTATAT
1 AATTGAATCAAAATTAAAA-TTTATGTATAT
*
58534682 AATTGAA-CAAAATTAAAATTTGTGTATAT
1 AATTGAATCAAAATTAAAATTTATGTATAT
58534711 AA
1 AA
58534713 CTACACATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 12 0.40
30 11 0.37
31 7 0.23
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (30 bp):
AATTGAATCAAAATTAAAATTTATGTATAT
Found at i:58534978 original size:43 final size:43
Alignment explanation
Indices: 58534930--58535047 Score: 159
Period size: 43 Copynumber: 2.7 Consensus size: 43
58534920 TATGTGAAAA
58534930 AAACGCCGTTATAGAACATGACCTTTAGCGGCGC-TTTACCCAC
1 AAACGCCGTTATAGAACATGACCTTTAGCGGCGCTTTTA-CCAC
* * * *
58534973 AAACGCCGCTAAAGAACATGACCTTTAGCGGAGCTTTTATCAC
1 AAACGCCGTTATAGAACATGACCTTTAGCGGCGCTTTTACCAC
*
58535016 AAACGCCGTTATAGAGA-ATGACTTTTAGCGGC
1 AAACGCCGTTATAGA-ACATGACCTTTAGCGGC
58535048 TTTTTTTTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
43 60 0.92
44 5 0.08
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
AAACGCCGTTATAGAACATGACCTTTAGCGGCGCTTTTACCAC
Found at i:58535077 original size:43 final size:42
Alignment explanation
Indices: 58534947--58535077 Score: 113
Period size: 43 Copynumber: 3.0 Consensus size: 42
58534937 GTTATAGAAC
* *
58534947 ATGACCTTTAGCGGCGC-TTTACCCACAAACGCCGCT-AAAGAA
1 ATGACCTTTAGCGGAGCTTTTA-TCACAAACGCCGCTAAAAG-A
* *
58534989 CATGACCTTTAGCGGAGCTTTTATCACAAACGCCGTTATAGAGA
1 -ATGACCTTTAGCGGAGCTTTTATCACAAACGCCGCTA-AAAGA
* *** * *
58535033 ATGACTTTTAGCGGCTTTTTTTTTCAGAAACGCCGCTAAAAGA
1 ATGACCTTTAGCGG-AGCTTTTATCACAAACGCCGCTAAAAGA
58535076 AT
1 AT
58535078 CGTTCTTTAG
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
43 47 0.65
44 22 0.31
45 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGACCTTTAGCGGAGCTTTTATCACAAACGCCGCTAAAAGA
Found at i:58538184 original size:82 final size:82
Alignment explanation
Indices: 58538037--58538204 Score: 180
Period size: 82 Copynumber: 2.0 Consensus size: 82
58538027 GCACGCGTAT
* ** ** *
58538037 TGAAATGATACACCGGCACAAAGCCTGCTAGGCCTAAAGCCTGGTTTGGTACACCGGCATGAAGC
1 TGAAATAATACACCGGCACAAAGCCTGCTAGGCCTAAAGCCTGAATTAATACACCGGAATGAAGC
* * *
58538102 CTAGTAGACATAAAGTC
66 CTACTAGACACAAAGCC
* *
58538119 TGAAATAATTCACCGGCA-ATAAGCCTGCTAGGCAC-AAAGCCTGAATTAATTCACCGGTAAT-A
1 TGAAATAATACACCGGCACA-AAGCCTGCTAGGC-CTAAAGCCTGAATTAATACACCGG-AATGA
*
58538181 AGCCTACTAGGCACAAAGCC
63 AGCCTACTAGACACAAAGCC
58538201 TGAA
1 TGAA
58538205 TTTCACTGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
81 1 0.01
82 67 0.94
83 3 0.04
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (82 bp):
TGAAATAATACACCGGCACAAAGCCTGCTAGGCCTAAAGCCTGAATTAATACACCGGAATGAAGC
CTACTAGACACAAAGCC
Found at i:58538205 original size:41 final size:41
Alignment explanation
Indices: 58538088--58538206 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
58538078 TGGTTTGGTA
* * * * *
58538088 CACCGGC-ATGAAGCCTAGTAGACATAAAGTCTGAAATAATT
1 CACCGGCAAT-AAGCCTACTAGGCACAAAGCCTGAATTAATT
*
58538129 CACCGGCAATAAGCCTGCTAGGCACAAAGCCTGAATTAATT
1 CACCGGCAATAAGCCTACTAGGCACAAAGCCTGAATTAATT
*
58538170 CACCGGTAATAAGCCTACTAGGCACAAAGCCTGAATT
1 CACCGGCAATAAGCCTACTAGGCACAAAGCCTGAATT
58538207 TCACTGATAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 67 0.97
42 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCAATAAGCCTACTAGGCACAAAGCCTGAATTAATT
Found at i:58540320 original size:66 final size:64
Alignment explanation
Indices: 58540229--58540361 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 64
58540219 GTTCTGAAGC
* *
58540229 TGTAGCTAGAGTGCGTCATACTTTCTGCTCTG-CTCTGCTTCCCTCGCTGCTGCCTCTGCTTTAA
1 TGTAGCTAGAGTGCGTCATACTTTCT--T-TGACTCAGCTTCCCTCGATGCTGCCTCTGCTTTAA
58540293 GT
63 GT
* * * * *
58540295 TGTAGCTAGAGTTCTTCGTATTTTCTTTGAACCTCAGCTTCTCTCGATGCTGCCTCTGCTTTAAG
1 TGTAGCTAGAGTGCGTCATACTTTCTTTG-A-CTCAGCTTCCCTCGATGCTGCCTCTGCTTTAAG
58540360 T
64 T
58540361 T
1 T
58540362 AAGCAATTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
63 2 0.04
64 1 0.02
66 54 0.95
ACGTcount: A:0.13, C:0.27, G:0.20, T:0.41
Consensus pattern (64 bp):
TGTAGCTAGAGTGCGTCATACTTTCTTTGACTCAGCTTCCCTCGATGCTGCCTCTGCTTTAAGT
Found at i:58542450 original size:10 final size:10
Alignment explanation
Indices: 58542437--58542478 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
58542427 TTCTAATATA
58542437 ATATATATGT
1 ATATATATGT
58542447 ATATATATGT
1 ATATATATGT
* * *
58542457 GTATGTGTGT
1 ATATATATGT
58542467 ATATATATGT
1 ATATATATGT
58542477 AT
1 AT
58542479 GCGCCCTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (10 bp):
ATATATATGT
Found at i:58543552 original size:40 final size:40
Alignment explanation
Indices: 58543508--58543723 Score: 180
Period size: 40 Copynumber: 5.2 Consensus size: 40
58543498 TTGGTCCAAA
* * *
58543508 CGCCGCTAATGCTCGATCTATAGTGGCGTTTTTCAACAAG
1 CGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCAAAAAG
* *
58543548 CGCCGCTAATTCTCGATCTATTGCGGCGTTTTTTAAAAAAG
1 CGCCGCTAATGCTCGATCTATTGCGGCG-TTTTTCAAAAAG
* * * **
58543589 CGCCGCTAATGCCACTATCAACTTTTTTGCGGCGTTTTTTGAAAAG
1 CGCCGCTAATG---C--TCGA-TCTATTGCGGCGTTTTTCAAAAAG
** * * * *
58543635 CGCCATTAATGCTCGATCTATAGCAGCGTTTTTCTACAAG
1 CGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCAAAAAG
* * ** *
58543675 CGCCGCTAATTCTCAATCTATTGCAACGTTTTTTAAAAAG
1 CGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCAAAAAG
58543715 CGCCGCTAA
1 CGCCGCTAA
58543724 GCCACTAAAG
Statistics
Matches: 139, Mismatches: 30, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
40 82 0.59
41 23 0.17
43 1 0.01
44 1 0.01
46 22 0.16
47 10 0.07
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (40 bp):
CGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCAAAAAG
Found at i:58548938 original size:21 final size:21
Alignment explanation
Indices: 58548896--58548938 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
58548886 TTTTTTCTGA
* *
58548896 AATAAAATTGTGTCTTGTATC
1 AATAAAATTGTGTCATGCATC
58548917 AATAAAATTGTGTCATGCATC
1 AATAAAATTGTGTCATGCATC
58548938 A
1 A
58548939 TCCAATCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (21 bp):
AATAAAATTGTGTCATGCATC
Found at i:58549776 original size:107 final size:107
Alignment explanation
Indices: 58549598--58549825 Score: 366
Period size: 107 Copynumber: 2.1 Consensus size: 107
58549588 TTTTCTTGGT
*
58549598 TTGTTCTGGAAATTGTTTTGATAGTCCGCTGGAAAATGTTATTGATTTGTTAGTGAGTAGAAGAT
1 TTGTTCTGGAAATTGTTTTGATAGTCCGCTGGAAAATGTTATTGATTTGTTAGTCAGTAGAAGAT
* *
58549663 AAAACTGGAAATTGTTGCATTTGTTTTGATTTTGTTCTTGAA
66 AAAACTGGAAATTCTTGCATTTGTTTTGATATTGTTCTTGAA
* * * * *
58549705 TTGTTCTGGCAGTTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAAGAT
1 TTGTTCTGGAAATTGTTTTGATAGTCCGCTGGAAAATGTTATTGATTTGTTAGTCAGTAGAAGAT
* *
58549770 GAAACTGGAAATTCTTGCATTTGTTTTGATATTGTTCTTGAT
66 AAAACTGGAAATTCTTGCATTTGTTTTGATATTGTTCTTGAA
58549812 TTGTTCTGGAAATT
1 TTGTTCTGGAAATT
58549826 CTGGAAATTG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 109 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (107 bp):
TTGTTCTGGAAATTGTTTTGATAGTCCGCTGGAAAATGTTATTGATTTGTTAGTCAGTAGAAGAT
AAAACTGGAAATTCTTGCATTTGTTTTGATATTGTTCTTGAA
Found at i:58549815 original size:11 final size:11
Alignment explanation
Indices: 58549781--58549818 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
58549771 AAACTGGAAA
58549781 TTCTTGCATTTG
1 TTCTTG-ATTTG
58549793 TT-TTGATATTG
1 TTCTTGAT-TTG
58549804 TTCTTGATTTG
1 TTCTTGATTTG
58549815 TTCT
1 TTCT
58549819 GGAAATTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.08
11 15 0.62
12 7 0.29
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.63
Consensus pattern (11 bp):
TTCTTGATTTG
Found at i:58551008 original size:37 final size:37
Alignment explanation
Indices: 58550965--58551053 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
58550955 ATCATAAATA
*
58550965 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
58551002 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
58551039 AATAAACTAATCAAT
1 AATAAACTAATCAAT
58551054 ATATTTATAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:58551305 original size:33 final size:33
Alignment explanation
Indices: 58551268--58551333 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
58551258 AATCTAACAA
58551268 ATACCAAAAATTAATTTTAGGTCAATTATACAT
1 ATACCAAAAATTAATTTTAGGTCAATTATACAT
*
58551301 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAAAAATTAATTTTAGGTCAATTATACAT
58551334 GCTTTATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (33 bp):
ATACCAAAAATTAATTTTAGGTCAATTATACAT
Found at i:58552933 original size:11 final size:11
Alignment explanation
Indices: 58552917--58552943 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
58552907 TAGAAATTAG
58552917 TTTGTGAAACT
1 TTTGTGAAACT
58552928 TTTGTGAAACT
1 TTTGTGAAACT
58552939 TTTGT
1 TTTGT
58552944 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:58554481 original size:47 final size:47
Alignment explanation
Indices: 58554430--58554572 Score: 143
Period size: 47 Copynumber: 3.1 Consensus size: 47
58554420 ATATAAGAAA
* *
58554430 ATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAAGTAT
1 ATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAAGTAT
* ** * *
58554477 ATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCA-TATAAGAAA
1 ATTTATTATTAAGAATTTTATGAAATTATATATAATT-ATTA-AAGTAT
* * *
58554521 ATTTATTATTACGAATTTTATGAAATTATATATTATTATTAAATTAT
1 ATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAAGTAT
58554568 ATTTA
1 ATTTA
58554573 ATAATAATTA
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
43 5 0.07
44 26 0.35
45 4 0.05
46 4 0.05
47 30 0.41
48 5 0.07
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (47 bp):
ATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAAGTAT
Found at i:58554537 original size:91 final size:91
Alignment explanation
Indices: 58554374--58554619 Score: 413
Period size: 91 Copynumber: 2.7 Consensus size: 91
58554364 AGAACATTTT
* *
58554374 ATTATTAAATTTTATTTAATATTAATTATTTT-AATTGTATAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
58554438 TCAAGAATTTTATGAAATTATATATC
66 TCAAGAATTTTATGAAATTATATATC
*
58554464 ATTATTAAAGTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
* * *
58554529 TTACGAATTTTATGAAATTATATATT
66 TCAAGAATTTTATGAAATTATATATC
* *
58554555 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTA
1 ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
58554620 GTTATAATTA
Statistics
Matches: 146, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
90 30 0.21
91 116 0.79
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTA
TCAAGAATTTTATGAAATTATATATC
Found at i:58554586 original size:47 final size:46
Alignment explanation
Indices: 58554444--58554587 Score: 136
Period size: 47 Copynumber: 3.1 Consensus size: 46
58554434 ATTATCAAGA
*
58554444 ATTTTATGAAATTATATATCATTATTAAAGTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAA-TATATTTAATATTAATT
* * ***
58554491 A-TTT-T-AAATTATATA-AATTCATATAAGA-AAATTTATTATTACGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATATATTTAATATTAATT
* *
58554535 ATTTTATGAAATTATATATTATTATTAAATTATATTTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAA-TATATTTAATATTAATT
58554582 ATTTTA
1 ATTTTA
58554588 AATTATACAA
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.32
45 8 0.11
46 8 0.11
47 29 0.39
48 3 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (46 bp):
ATTTTATGAAATTATATATAATTATTAAATATATTTAATATTAATT
Found at i:58554756 original size:16 final size:15
Alignment explanation
Indices: 58554735--58554764 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58554725 TAAATTCATA
58554735 TAAGAATTTTGATTAT
1 TAAGAATTTT-ATTAT
58554751 TAAGAATTTTATTA
1 TAAGAATTTTATTA
58554765 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAGAATTTTATTAT
Found at i:58554765 original size:120 final size:120
Alignment explanation
Indices: 58554635--58555292 Score: 1104
Period size: 120 Copynumber: 5.5 Consensus size: 120
58554625 AATTATTTTA
*
58554635 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAA-AATTAATTAT-TTCAAATTATATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA-TAATTATGTT-AAATTATATT
*
58554698 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATTTTGATTATTAAG
64 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
58554755 AATTTTATTAAATTATATATTTTAATTAAAATATATTTCATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
58554820 ATAGTATCATATATTATGATTTGAGTAAATTCATACAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
58554875 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
58554940 ATAGTATCATATATTATGATTTGAGTAAATTCATAAAAGAATTTTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
58554995 AATTTTATTAAATTATATATTTTAATTAAAATATATTTCATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
58555060 ATAGTATCATATATTATGATTTGAGTACATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
58555115 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* * *
58555180 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGGTTAGTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
58555235 AATTTTATTAAATTATATATTTCAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
58555293 ATGATTAAAT
Statistics
Matches: 507, Mismatches: 28, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
120 497 0.98
121 10 0.02
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:58554784 original size:18 final size:17
Alignment explanation
Indices: 58554756--58554790 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58554746 ATTATTAAGA
*
58554756 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58554773 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58554791 TTCATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58554910 original size:16 final size:16
Alignment explanation
Indices: 58554889--58554935 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
58554879 TTATTAAATT
58554889 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
58554905 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
58554920 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
58554936 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:58555024 original size:18 final size:17
Alignment explanation
Indices: 58554996--58555030 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58554986 ATTATTAAGA
*
58554996 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58555013 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58555031 TTCATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58555150 original size:16 final size:16
Alignment explanation
Indices: 58555129--58555175 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
58555119 TTATTAAATT
58555129 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
58555145 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
58555160 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
58555176 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:58559262 original size:87 final size:87
Alignment explanation
Indices: 58559116--58559289 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
58559106 TCATTCTTCC
58559116 ATTTTCAATATGCAAAATGAAAATTCAGCTGCTATAACTCTGGCTTCAATGTGTAAGCTGTGACA
1 ATTTTCAATATGCAAAATGAAAATTCAGCTGCTATAACTCTGGCTTCAATGTGTAAGCTGTGACA
*
58559181 TGTATTACGGCCAAATCGCTTT
66 TGTATCACGGCCAAATCGCTTT
58559203 ATTTTCAATATGCAAAATGAAAATTCAGCTGCTATAACTCTGGCTTCAATGTGTAAGCTGTGACA
1 ATTTTCAATATGCAAAATGAAAATTCAGCTGCTATAACTCTGGCTTCAATGTGTAAGCTGTGACA
58559268 TGTATCACGGCCAAATCGCTTT
66 TGTATCACGGCCAAATCGCTTT
58559290 GGATTTAGGT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (87 bp):
ATTTTCAATATGCAAAATGAAAATTCAGCTGCTATAACTCTGGCTTCAATGTGTAAGCTGTGACA
TGTATCACGGCCAAATCGCTTT
Found at i:58559698 original size:42 final size:43
Alignment explanation
Indices: 58559582--58559753 Score: 197
Period size: 43 Copynumber: 4.0 Consensus size: 43
58559572 ATGCCTCTAT
* * * *
58559582 AGAACATGA-CATTTTGCGGCGCTTTTATTAAAAACACCGCTAA
1 AGAACATGATC-TTTAGCGGCGCTTTTATCACAAACGCCGCTAA
* * **
58559625 AGAACATGACCTTTAGCGGCGCCTTTATCACAAACGTTGCTAA
1 AGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
** *
58559668 AGAGA-ATGAT-TTTAGCGGCTTTTTTTTCACAAACGCCGCTAA
1 AGA-ACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
*
58559710 AGAACATGATCTTTAGTGGCGCTTTTATCACAAACGCCGCTAA
1 AGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
58559753 A
1 A
58559754 AGTACCGTTC
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 34 0.32
43 70 0.65
44 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
AGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCCGCTAA
Found at i:58559766 original size:43 final size:43
Alignment explanation
Indices: 58559597--58559773 Score: 171
Period size: 43 Copynumber: 4.1 Consensus size: 43
58559587 ATGACATTTT
* * * * *
58559597 GCGGCGCTTTTATTAAAAACACCGCTAAAGAACATGACCTTTA
1 GCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGATCTTTA
* ** *
58559640 GCGGCGCCTTTATCACAAACGTTGCTAAAGAGA-ATGAT-TTTA
1 GCGGCGCTTTTATCACAAACGCCGCTAAAGA-ACACGATCTTTA
** * *
58559682 GCGGCTTTTTTTTCACAAACGCCGCTAAAGAACATGATCTTTA
1 GCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGATCTTTA
* * *
58559725 GTGGCGCTTTTATCACAAACGCCGCTAAAAGTAC-CGTTCTTTA
1 GCGGCGCTTTTATCACAAACGCCGCT-AAAGAACACGATCTTTA
58559768 GCGGCG
1 GCGGCG
58559774 TTTATGAAAA
Statistics
Matches: 109, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 34 0.31
43 67 0.61
44 7 0.06
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
GCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGATCTTTA
Found at i:58559787 original size:85 final size:85
Alignment explanation
Indices: 58559611--58559794 Score: 201
Period size: 85 Copynumber: 2.2 Consensus size: 85
58559601 CGCTTTTATT
* ** *
58559611 AAAAACACCGCTAAAGAACATGACCTTTAGCGGCGCCTTTATCACAAACGTTGCTAAAGAGAATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCCTTTATCACAAACGCCGCTAAAGAGAACG
* * **
58559676 ATTTTAGCGGCTTTTTTTTC
66 ATTTTAGCGGCTGTTTATGA
* * * * *
58559696 ACAAACGCCGCTAAAGAACATGATCTTTAGTGGCGCTTTTATCACAAACGCCGCTAAA-AGTACC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCCTTTATCACAAACGCCGCTAAAGAG-AAC
*
58559760 GTTCTTTAGCGGC-GTTTATGA
65 GAT-TTTAGCGGCTGTTTATGA
*
58559781 AAAAACGCCACTAA
1 AAAAACGCCGCTAA
58559795 GTTTGGCAGA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
84 2 0.02
85 70 0.86
86 9 0.11
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCCTTTATCACAAACGCCGCTAAAGAGAACG
ATTTTAGCGGCTGTTTATGA
Found at i:58559979 original size:28 final size:29
Alignment explanation
Indices: 58559939--58560000 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
58559929 CTATAAAATA
58559939 ATAAATCCTAAAC-CACAAACTCTAA-CCC
1 ATAAATCCTAAACTCA-AAACTCTAATCCC
58559967 ATAAACTCC-AAACTCAAAACTCTAATCCC
1 ATAAA-TCCTAAACTCAAAACTCTAATCCC
58559996 A-AAAT
1 ATAAAT
58560001 AATAAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 1 0.03
28 21 0.68
29 9 0.29
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.19
Consensus pattern (29 bp):
ATAAATCCTAAACTCAAAACTCTAATCCC
Found at i:58560227 original size:40 final size:40
Alignment explanation
Indices: 58560169--58560246 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
58560159 AACTTTTTTA
58560169 TGGCGTTTTACGAAAAGCGCCGCTAATGCTCGATCTATAG
1 TGGCGTTTTACGAAAAGCGCCGCTAATGCTCGATCTATAG
* * *
58560209 TGGCGTTTTTC-AACAAGCGCCGCTAATTCTTGATCTAT
1 TGGCGTTTTACGAA-AAGCGCCGCTAATGCTCGATCTAT
58560247 TACGACATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (40 bp):
TGGCGTTTTACGAAAAGCGCCGCTAATGCTCGATCTATAG
Found at i:58560258 original size:40 final size:41
Alignment explanation
Indices: 58560181--58560278 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 41
58560171 GCGTTTTACG
* * * *
58560181 AAAAGCGCCGCTAATGCTCGATCTATAGTGGC-GTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGACATTTTTTAA
* * *
58560221 ACAAGCGCCGCTAATTCTTGATCTATTA-CGACATTTTTTAA
1 AAAAGCGCCGCTAATGCTCGATCTA-TAGCGACATTTTTTAA
*
58560262 AAAAGCGCCACTAATGC
1 AAAAGCGCCGCTAATGC
58560279 CACTAAACCT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
40 24 0.52
41 22 0.48
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (41 bp):
AAAAGCGCCGCTAATGCTCGATCTATAGCGACATTTTTTAA
Found at i:58560366 original size:40 final size:40
Alignment explanation
Indices: 58560322--58560429 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
58560312 ACTTTTTTGT
*
58560322 GGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATAGC
1 GGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGC
* * * * *
58560362 GGCGTTTTTCAAATATCGCCACTAATGCTTGATCTATTGC
1 GGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGC
* * *
58560402 GGCATTTTTTAAAAAGCGCTGCTAATGC
1 GGCGTTTTTCAAAAAGCGCCGCTAATGC
58560430 CACTAAAGCT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGC
Found at i:58560387 original size:152 final size:150
Alignment explanation
Indices: 58560117--58560544 Score: 529
Period size: 152 Copynumber: 2.8 Consensus size: 150
58560107 AAAAATGCCT
* * * * *
58560117 CTAATGCCACTAAAGCTCAACAACAAACAACTCCGTTTT-CTCAACTTTTTTATGGCGTTTTACG
1 CTAATGCCACTAAACCTCAACAAC-AAC--GT-TGTTTTGCTCAACTTTTTTATGGCGTTTTCCA
* * *
58560181 AAAAGCGCCGCTAATGCTCGATCTATAGTGGCGTTTTTCAACAAGCGCCGCTAATTCTTGATCTA
62 AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAA-AAGCGCCACTAATGCTTGATCTA
58560246 TTACGACATTTTTTAAAAAAGCGCCA
126 TTACGACATTTTTT-AAAAAGCGCCA
*
58560272 CTAATGCCACTAAACCTCAACAACAACGTTGTTTTGCTCAACTTTTTTGTGGCGTTTTCCAAAAA
1 CTAATGCCACTAAACCTCAACAACAACGTTGTTTTGCTCAACTTTTTTATGGCGTTTTCCAAAAA
* *
58560337 GCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAATATCGCCACTAATGCTTGATCTATTGC
66 GCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAA-AGCGCCACTAATGCTTGATCTATTAC
* **
58560402 GGCATTTTTTAAAAAGCGCTG
130 GACATTTTTTAAAAAGCGCCA
* *
58560423 CTAATGCCACTAAAGCTCAACAACAAACAACG-TGTTTTGCTCAACTTTTTTATGGCGTTTTCTG
1 CTAATGCCACTAAA-C-C-TCAAC-AACAACGTTGTTTTGCTCAACTTTTTTATGGCGTTTTC-C
** * * *
58560487 AAAAA-TACCGCTAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATGCT
61 AAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTC-AAAAGCGCCACTAATGCT
58560545 CGACCTATAG
Statistics
Matches: 242, Mismatches: 23, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
151 29 0.12
152 95 0.39
153 1 0.00
154 79 0.33
155 38 0.16
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (150 bp):
CTAATGCCACTAAACCTCAACAACAACGTTGTTTTGCTCAACTTTTTTATGGCGTTTTCCAAAAA
GCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAGCGCCACTAATGCTTGATCTATTACG
ACATTTTTTAAAAAGCGCCA
Found at i:58560522 original size:40 final size:40
Alignment explanation
Indices: 58560476--58560605 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
58560466 ACTTTTTTAT
* * *
58560476 GGCGTTTTCTGAAAAA-TACCGCTAATGCTCAATCTATAGC
1 GGCGTTTT-TCAAAAAGCACCGCTAATGCTCAACCTATAGC
*
58560516 GGCGTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGC
1 GGCGTTTTTCAAAAAGCACCGCTAATGCTCAACCTATAGC
** * ** * *
58560556 GATGTTTGTTTCAAAAA-CGCCGCTAATGCTTGACCTCTTGC
1 GGCG-TT-TTTCAAAAAGCACCGCTAATGCTCAACCTATAGC
58560597 GGCGTTTTT
1 GGCGTTTTT
58560606 GTCATAAACG
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
39 9 0.12
40 33 0.44
41 24 0.32
42 9 0.12
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCACCGCTAATGCTCAACCTATAGC
Found at i:58560615 original size:41 final size:41
Alignment explanation
Indices: 58560494--58560621 Score: 127
Period size: 41 Copynumber: 3.1 Consensus size: 41
58560484 CTGAAAAATA
* * * *
58560494 CCGCTAATGCTCAATCTATAGCGGCG-TT-TTTCAAAAAGCA
1 CCGCTAATGCTCGACCTATAGCGACGTTTGTTTCAAAAA-CG
*
58560534 CCGCTAATGCTCGACCTATAGCGATGTTTGTTTCAAAAACG
1 CCGCTAATGCTCGACCTATAGCGACGTTTGTTTCAAAAACG
* * * * *
58560575 CCGCTAATGCTTGACCTCTTGCGGCGTTT-TTGTCATAAACG
1 CCGCTAATGCTCGACCTATAGCGACGTTTGTT-TCAAAAACG
58560616 CCGCTA
1 CCGCTA
58560622 TAGCTCTAAC
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
40 24 0.32
41 41 0.55
42 9 0.12
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
CCGCTAATGCTCGACCTATAGCGACGTTTGTTTCAAAAACG
Found at i:58571893 original size:87 final size:87
Alignment explanation
Indices: 58571801--58571960 Score: 234
Period size: 87 Copynumber: 1.8 Consensus size: 87
58571791 ATGAGCCACC
** *
58571801 AGAAATACAGATAAACTGCCAATACAATTGA-GGTAAACCGCCAATAATAGATTGCAGACAAGCT
1 AGAAATACAGATAAACTGCCAATACAATT-ACGGTAAACAACCAATAAGAGATTGCAGACAAGCT
58571865 GTT-GATAATGTGGACGAGGCCTT
65 -TTCGATAATGTGGACGAGGCCTT
* * *
58571888 AGAAATACAGATAAACTGTCAATATAATTACGGTAAACAACCAATAAGAGATTGCAGACGAGCTT
1 AGAAATACAGATAAACTGCCAATACAATTACGGTAAACAACCAATAAGAGATTGCAGACAAGCTT
58571953 TCGATAAT
66 TCGATAAT
58571961 TTTGTGGGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 3 0.05
87 62 0.95
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (87 bp):
AGAAATACAGATAAACTGCCAATACAATTACGGTAAACAACCAATAAGAGATTGCAGACAAGCTT
TCGATAATGTGGACGAGGCCTT
Found at i:58582339 original size:45 final size:45
Alignment explanation
Indices: 58582272--58582466 Score: 243
Period size: 45 Copynumber: 4.4 Consensus size: 45
58582262 TAAACTCATC
* * *
58582272 CAAAAGTAGCAGC-AAATGTGCACACATATGTGGCATTTTACTCAA
1 CAAAAATAACAGCAAAATGTGCACACATATGTGACA-TTTACTCAA
* *
58582317 TAAAAA-AACAGCAAAATGTGCACACATATGTGACATTTACGCAA
1 CAAAAATAACAGCAAAATGTGCACACATATGTGACATTTACTCAA
** * *
58582361 CAAAAATAGTACCAAAATGTGCACACATATGTGGCATTTACTCAA
1 CAAAAATAACAGCAAAATGTGCACACATATGTGACATTTACTCAA
* *
58582406 CAAAAATAGA-AGCAAAATGTGCACACATATGCGACATTCACTCAA
1 CAAAAATA-ACAGCAAAATGTGCACACATATGTGACATTTACTCAA
*
58582451 CAAAAACAACAGCAAA
1 CAAAAATAACAGCAAA
58582467 TGTTCATTAC
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
44 19 0.15
45 110 0.85
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.20
Consensus pattern (45 bp):
CAAAAATAACAGCAAAATGTGCACACATATGTGACATTTACTCAA
Found at i:58582386 original size:90 final size:90
Alignment explanation
Indices: 58582285--58582456 Score: 276
Period size: 90 Copynumber: 1.9 Consensus size: 90
58582275 AAGTAGCAGC
* *
58582285 AAATGTGCACACATATGTGGCATTTTACTCAATAAAAA-A-ACAGCAAAATGTGCACACATATGT
1 AAATGTGCACACATATGTGGCA-TTTACTCAACAAAAATAGA-AGCAAAATGTGCACACATATGC
*
58582348 GACATTTACGCAACAAAAATAGTACCA
64 GACATTCACGCAACAAAAATAGTACCA
58582375 AAATGTGCACACATATGTGGCATTTACTCAACAAAAATAGAAGCAAAATGTGCACACATATGCGA
1 AAATGTGCACACATATGTGGCATTTACTCAACAAAAATAGAAGCAAAATGTGCACACATATGCGA
*
58582440 CATTCACTCAACAAAAA
66 CATTCACGCAACAAAAA
58582457 CAACAGCAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
89 14 0.18
90 61 0.80
91 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (90 bp):
AAATGTGCACACATATGTGGCATTTACTCAACAAAAATAGAAGCAAAATGTGCACACATATGCGA
CATTCACGCAACAAAAATAGTACCA
Done.