Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 199 of 320
Found at i:66498049 original size:28 final size:28
Alignment explanation
Indices: 66497952--66498052 Score: 70
Period size: 28 Copynumber: 3.6 Consensus size: 28
66497942 TTTTATAACT
66497952 TTTTA-TGATTTTA-TAATATTTTA-TAA
1 TTTTATTGATTTTATTAA-ATTTTATTAA
*
66497978 TTTT-TTACGATTTT-TTATAATTTTTAATAAA
1 TTTTATT--GATTTTATTA-AA-TTTT-ATTAA
* *
66498009 GTTTAAT-ATTTTTATTAAATTTTATTAA
1 TTTTATTGA-TTTTATTAAATTTTATTAA
66498037 TTTTATTGATTTTATT
1 TTTTATTGATTTTATT
66498053 TTTTTTATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 22
0.67 0.07 0.26
Matches are distributed among these distances:
26 5 0.09
28 25 0.44
29 11 0.19
30 7 0.12
31 8 0.14
32 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTTATTGATTTTATTAAATTTTATTAA
Found at i:66498058 original size:18 final size:19
Alignment explanation
Indices: 66497990--66498060 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
66497980 TTTTACGATT
* *
66497990 TTTTATAATTTTTAATAAA
1 TTTTATTATTTTTATTAAA
* *
66498009 GTTTAATATTTTTATTAAA
1 TTTTATTATTTTTATTAAA
* *
66498028 TTTTATTAATTTTATT-GA
1 TTTTATTATTTTTATTAAA
*
66498046 TTTTATTTTTTTTAT
1 TTTTATTATTTTTAT
66498061 AATTTTTTAC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
18 14 0.33
19 28 0.67
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATTATTTTTATTAAA
Found at i:66498067 original size:9 final size:9
Alignment explanation
Indices: 66497942--66498067 Score: 64
Period size: 9 Copynumber: 13.4 Consensus size: 9
66497932 TTTTGATGCA
66497942 TTTTATAACT
1 TTTTATAA-T
*
66497952 TTTTATGA-
1 TTTTATAAT
66497960 TTTTATAAT
1 TTTTATAAT
66497969 ATTTTATAAT
1 -TTTTATAAT
66497979 TTTT-TACGATT
1 TTTTATA--A-T
66497990 TTTTATAAT
1 TTTTATAAT
*
66497999 TTTTAATAAA
1 TTTT-ATAAT
*
66498009 GTTTA-ATAT
1 TTTTATA-AT
*
66498018 TTTTATTAAA
1 TTTTA-TAAT
66498028 TTTTATTAA-
1 TTTTA-TAAT
*
66498037 TTTTATTGA-
1 TTTTA-TAAT
**
66498046 TTTTATTTT
1 TTTTATAAT
66498055 TTTTATAAT
1 TTTTATAAT
66498064 TTTT
1 TTTT
66498068 TACCACATGT
Statistics
Matches: 93, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
8 11 0.12
9 39 0.42
10 35 0.38
11 6 0.06
12 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:66498462 original size:29 final size:32
Alignment explanation
Indices: 66498412--66498475 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
66498402 AAGGAAGAAG
66498412 TTAACTGTTTTGTGTTTAAATTTAAGAAATTT
1 TTAACTGTTTTGTGTTTAAATTTAAGAAATTT
* *
66498444 TTAATTGTTTT-T-TTT-AATTTAAGAATTTT
1 TTAACTGTTTTGTGTTTAAATTTAAGAAATTT
66498473 TTA
1 TTA
66498476 TAACATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 16 0.53
30 3 0.10
31 1 0.03
32 10 0.33
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (32 bp):
TTAACTGTTTTGTGTTTAAATTTAAGAAATTT
Found at i:66503304 original size:3 final size:3
Alignment explanation
Indices: 66503296--66503329 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
66503286 AATAACAAAC
*
66503296 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
66503330 CAAAGGAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:66503330 original size:12 final size:12
Alignment explanation
Indices: 66503296--66503332 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
66503286 AATAACAAAC
*
66503296 ATAATAATAATA
1 ATAATAATAACA
66503308 ATAATAATAACA
1 ATAATAATAACA
66503320 ATAATAATAACA
1 ATAATAATAACA
66503332 A
1 A
66503333 AGGAAGTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAATAATAACA
Found at i:66520371 original size:44 final size:44
Alignment explanation
Indices: 66520323--66520409 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
66520313 GTAACAATAG
* * *
66520323 CAGTACGACACACATGGTGCCTTATCGACTCGAA-GTCGAAGTAA
1 CAGTACAACACACATAGTGCCTCATCGACTC-AAGGTCGAAGTAA
**
66520367 CAGTACAACACTTATAGTGCCTCATCGACTCAAGGTCGAAGTA
1 CAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGAAGTA
66520410 TTCCTGAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (44 bp):
CAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGAAGTAA
Found at i:66521345 original size:8 final size:8
Alignment explanation
Indices: 66521334--66521368 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
66521324 TGTTTTATTA
66521334 TATTATAT
1 TATTATAT
66521342 TATTATAT
1 TATTATAT
*
66521350 TAATATAT
1 TATTATAT
66521358 TATTATAT
1 TATTATAT
66521366 TAT
1 TAT
66521369 ATACTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:66521346 original size:13 final size:13
Alignment explanation
Indices: 66521328--66521370 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
66521318 ATTTTATGTT
66521328 TTATTATATTATA
1 TTATTATATTATA
66521341 TTATTATATTAATATA
1 TTATTATA-T--TATA
66521357 TTATTATATTATA
1 TTATTATATTATA
66521370 T
1 T
66521371 ACTTAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 13 0.48
14 1 0.04
15 1 0.04
16 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:66523746 original size:46 final size:46
Alignment explanation
Indices: 66523696--66523871 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
66523686 TGGTTGAGCA
66523696 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
66523742 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
66523787 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
66523835 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66523872 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:66523852 original size:93 final size:93
Alignment explanation
Indices: 66523693--66523864 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
66523683 GGATGGTTGA
* *
66523693 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
66523758 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
66523786 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
66523850 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
66523865 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66526715 original size:17 final size:19
Alignment explanation
Indices: 66526695--66526729 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
66526685 AGATTCACTC
66526695 ATATTAT-TT-TTTTTAAA
1 ATATTATATTATTTTTAAA
66526712 ATATTATATTATTTTTAA
1 ATATTATATTATTTTTAA
66526730 TTTAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTATATTATTTTTAAA
Found at i:66527800 original size:11 final size:11
Alignment explanation
Indices: 66527786--66527814 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
66527776 ATAAGTATAT
66527786 AATAATTTAAA
1 AATAATTTAAA
66527797 AATAA-TTAAA
1 AATAATTTAAA
66527807 AATAATTT
1 AATAATTT
66527815 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:66529491 original size:20 final size:22
Alignment explanation
Indices: 66529463--66529506 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
66529453 ATAATGTAAC
**
66529463 AAATGTT-AACTTTTTGTAAAA
1 AAATGTTAAACTTTAAGTAAAA
66529484 AAAT-TTAAACTTTAAGTAAAA
1 AAATGTTAAACTTTAAGTAAAA
66529505 AA
1 AA
66529507 TATAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATGTTAAACTTTAAGTAAAA
Found at i:66530536 original size:31 final size:30
Alignment explanation
Indices: 66530475--66530532 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
66530465 AAGATCAATC
66530475 GGTCAAGAGTTGGGAAAAAGGGAAAAAATA
1 GGTCAAGAGTTGGGAAAAAGGGAAAAAATA
66530505 GGTCAAGAGTTGGGAAAAAGGGAAAAAA
1 GGTCAAGAGTTGGGAAAAAGGGAAAAAA
66530533 ATAGCTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.34, T:0.12
Consensus pattern (30 bp):
GGTCAAGAGTTGGGAAAAAGGGAAAAAATA
Found at i:66530742 original size:46 final size:46
Alignment explanation
Indices: 66530670--66530774 Score: 187
Period size: 46 Copynumber: 2.3 Consensus size: 46
66530660 TAGATTATGA
66530670 ATGTT-ATTTTT-TTTGTTTTTGATTTATTTTACAAATAGTTCTTT
1 ATGTTGATTTTTATTTGTTTTTGATTTATTTTACAAATAGTTCTTT
*
66530714 ATGTTGATTTTTATTTGTTTTTTATTTATTTTACAAATAGTTCTTT
1 ATGTTGATTTTTATTTGTTTTTGATTTATTTTACAAATAGTTCTTT
66530760 ATGTTGATTTTTATT
1 ATGTTGATTTTTATT
66530775 GAGATTTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
44 5 0.09
45 6 0.10
46 47 0.81
ACGTcount: A:0.21, C:0.04, G:0.10, T:0.66
Consensus pattern (46 bp):
ATGTTGATTTTTATTTGTTTTTGATTTATTTTACAAATAGTTCTTT
Found at i:66533017 original size:46 final size:43
Alignment explanation
Indices: 66532913--66533041 Score: 156
Period size: 46 Copynumber: 3.0 Consensus size: 43
66532903 CTTTTATTCA
* * * *
66532913 TTCACCGGCATTTCGCCTGCTAGGCTCG--AGGCCCGGTATCAT
1 TTCACCGGCATATAGCCTGCTAGGCTCGAAAGGCCC-GAATAAT
66532955 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
1 TTCACCGGCA-TATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
66532999 GTCTCACCGGCATAATAGCCTGCTAGGCTC-AAAGGCCCGAATA
1 -T-TCACCGGCAT-ATAGCCTGCTAGGCTCGAAAGGCCCGAATA
66533042 TAATACCAGC
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
42 10 0.13
43 16 0.21
44 5 0.06
45 21 0.27
46 25 0.32
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (43 bp):
TTCACCGGCATATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
Found at i:66533082 original size:38 final size:38
Alignment explanation
Indices: 66533034--66533183 Score: 219
Period size: 38 Copynumber: 3.9 Consensus size: 38
66533024 GGCTCAAAGG
* * *
66533034 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
66533072 CCCGGATATAATACCAGTACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
66533110 CCCGGATATATTACCAGTACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
66533148 CCCGGTTATATTACCAGCACGAAGCCTACGGGATTT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
66533184 TAAGCCCAGA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 104 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:66544301 original size:21 final size:22
Alignment explanation
Indices: 66544261--66544301 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
66544251 ATATTTTCTA
* *
66544261 AATTATTAAAATTTTTAATTAG
1 AATTATTAAAATATTAAATTAG
66544283 AATT-TTAAAATATTAAATT
1 AATTATTAAAATATTAAATT
66544302 TTATGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTATTAAAATATTAAATTAG
Found at i:66549243 original size:16 final size:17
Alignment explanation
Indices: 66549214--66549246 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
66549204 GTTTAGGGGC
66549214 AAAAACTATAATTTTGG
1 AAAAACTATAATTTTGG
*
66549231 AAAAA-TATGATTTTGG
1 AAAAACTATAATTTTGG
66549247 GTCAATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.36
Consensus pattern (17 bp):
AAAAACTATAATTTTGG
Found at i:66549708 original size:46 final size:46
Alignment explanation
Indices: 66549655--66549830 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
66549645 TATTTGGGCA
*
66549655 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
66549701 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
66549748 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
66549794 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66549831 GCAGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:66549810 original size:93 final size:93
Alignment explanation
Indices: 66549651--66549823 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
66549641 GGGATATTTG
* * *
66549651 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
66549716 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
66549744 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
66549809 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
66549824 CTTATGGGCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:66551831 original size:17 final size:19
Alignment explanation
Indices: 66551802--66551837 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
66551792 TTAGCATTCT
66551802 TACCAAGAGTTCAT-CTCA
1 TACCAAGAGTTCATACTCA
66551820 TACCAA-AGTTCATACTCA
1 TACCAAGAGTTCATACTCA
66551838 CGAGTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (19 bp):
TACCAAGAGTTCATACTCA
Found at i:66554753 original size:20 final size:20
Alignment explanation
Indices: 66554728--66554773 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
66554718 TCCATGCACT
* *
66554728 CATAAAATCATACTATAACA
1 CATAAAATAATACTAAAACA
*
66554748 CATAAAATAATATTAAAACA
1 CATAAAATAATACTAAAACA
66554768 -ATAAAA
1 CATAAAA
66554774 AGAATTTCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (20 bp):
CATAAAATAATACTAAAACA
Found at i:66565705 original size:25 final size:25
Alignment explanation
Indices: 66565672--66565720 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
66565662 AATAAAAATT
*
66565672 ATTAATAATTCAAT-GAATTAAAAA
1 ATTAATAATTCAATAAAATTAAAAA
*
66565696 ATTAATTAATTGAATAAAATTAAAA
1 ATTAA-TAATTCAATAAAATTAAAA
66565721 TTAAGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 8 0.38
26 8 0.38
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTAATAATTCAATAAAATTAAAAA
Found at i:66566416 original size:22 final size:21
Alignment explanation
Indices: 66566387--66566430 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
66566377 TGCTAAGTTG
66566387 ATAAAGAT-TAATATATAAATT
1 ATAAAGATATAAT-TATAAATT
*
66566408 ATAATAGATATAATTATAGATT
1 ATAA-AGATATAATTATAAATT
66566430 A
1 A
66566431 GAGATTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (21 bp):
ATAAAGATATAATTATAAATT
Found at i:66589840 original size:46 final size:46
Alignment explanation
Indices: 66589790--66589915 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
66589780 TGGTTGAGCA
*
66589790 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
66589836 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
66589882 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66589916 GGGGCGGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:66590803 original size:37 final size:37
Alignment explanation
Indices: 66590744--66590852 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
66590734 AGCTCAGACG
* *
66590744 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
66590781 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
66590818 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
66590853 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:66591123 original size:48 final size:48
Alignment explanation
Indices: 66590999--66591336 Score: 479
Period size: 48 Copynumber: 7.1 Consensus size: 48
66590989 GCACATCACC
* * *
66590999 TACATATTTCACACTAGCCTTTCGGCTTTACCACATATACATATGTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
66591047 TTTATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 --TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
66591097 TACATATTTCACATTAGCAATTCGGCTTTACCACATACACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * * *
66591145 TGCATATTTCACATTAGCCATTCGGCTTTACCATATACACATATCTCG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
66591193 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
66591241 TACATA-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCC
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
66591288 TACATATTTCACATTAGCCATTC-GC-TTACCA-ATATAAATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
66591333 TACA
1 TACA
66591337 NNNNNNNNNN
Statistics
Matches: 264, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
45 16 0.06
46 6 0.02
47 47 0.18
48 152 0.58
49 2 0.01
50 41 0.16
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:66591236 original size:144 final size:142
Alignment explanation
Indices: 66590999--66591336 Score: 468
Period size: 143 Copynumber: 2.4 Consensus size: 142
66590989 GCACATCACC
* * * * * *
66590999 TACATATTTCACACTAGCCTTTCGGCTTTACCACATATACATATGTCATTTATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCATATA-ACATATCTCA--TACATATTTCACATA
*
66591064 GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCAATTCGGCTTTACC
63 GACCATTCGGCTTTACCACATATACATATCTCATACATA-TTCACATTAGCAATTCGGCTTTACC
66591129 ACATACACATATCTCA
127 ACATACACATATCTCA
* *
66591145 TGCATATTTCACATTAGCCATTCGGCTTTACCATATACACATATCTCGTACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCATATA-ACATATCTCATACATATTTCACA-TAG
* *
66591210 -CCATTCGGCTTTACCACATATACATATCTCGTACATATTCACATTAGCCATTCGGCTTTACCAC
64 ACCATTCGGCTTTACCACATATACATATCTCATACATATTCACATTAGCAATTCGGCTTTACCAC
* *
66591274 ATATACATATCTCC
129 ATACACATATCTCA
66591288 TACATATTTCACATTAGCCATTC-GC-TTACCAATATAA-ATATCTCATACA
1 TACATATTTCACATTAGCCATTCGGCTTTACC-ATATAACATATCTCATACA
66591337 NNNNNNNNNN
Statistics
Matches: 174, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
140 11 0.06
141 6 0.03
142 7 0.04
143 60 0.34
144 47 0.27
145 2 0.01
146 41 0.24
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (142 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCATATAACATATCTCATACATATTTCACATAGAC
CATTCGGCTTTACCACATATACATATCTCATACATATTCACATTAGCAATTCGGCTTTACCACAT
ACACATATCTCA
Found at i:66601432 original size:26 final size:23
Alignment explanation
Indices: 66601416--66601485 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 23
66601406 TCTTTCTTCT
66601416 TTTTTTTGATTGA-TTTTTTTTA
1 TTTTTTTGATTGATTTTTTTTTA
66601438 TTTTTTTGATTGATTTATTATTATTA
1 TTTTTTTGATTGATTT-TT-TT-TTA
**
66601464 TTTTTTATTTTTGATTTTTTTT
1 TTTTTT-TGATTGATTTTTTTT
66601486 AGTCTCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 13 0.32
23 2 0.05
24 3 0.07
25 4 0.10
26 11 0.27
27 8 0.20
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTTTTGATTGATTTTTTTTTA
Found at i:66601472 original size:16 final size:16
Alignment explanation
Indices: 66601415--66601486 Score: 51
Period size: 16 Copynumber: 4.5 Consensus size: 16
66601405 TTCTTTCTTC
*
66601415 TTTTTTT-TGATTGAT
1 TTTTTTTATTATTGAT
*
66601430 TTTTTTTATTTTTTTGA-
1 TTTTTTTA--TTATTGAT
**
66601447 TTGATTTATTATT-AT
1 TTTTTTTATTATTGAT
*
66601462 TATTTTTTATTTTTGAT
1 T-TTTTTTATTATTGAT
66601479 TTTTTTTA
1 TTTTTTTA
66601487 GTCTCAAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
14 1 0.02
15 12 0.28
16 16 0.37
17 9 0.21
18 5 0.12
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (16 bp):
TTTTTTTATTATTGAT
Found at i:66604965 original size:24 final size:24
Alignment explanation
Indices: 66604921--66604973 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
66604911 CTTAGCCAGT
*
66604921 TGTTCTTACATTTGTGCTTGCATC
1 TGTTCTTACATTTCTGCTTGCATC
*
66604945 TGTTCTTACATTTCCT-TTTGCATC
1 TGTTCTTACATTT-CTGCTTGCATC
66604969 TGTTC
1 TGTTC
66604974 CAACCTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.11, C:0.23, G:0.13, T:0.53
Consensus pattern (24 bp):
TGTTCTTACATTTCTGCTTGCATC
Found at i:66604982 original size:24 final size:24
Alignment explanation
Indices: 66604938--66604983 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
66604928 ACATTTGTGC
**
66604938 TTGCATCTGTTCTTACATTTCCTT
1 TTGCATCTGTTCCAACATTTCCTT
*
66604962 TTGCATCTGTTCCAACCTTTCC
1 TTGCATCTGTTCCAACATTTCC
66604984 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.30, G:0.09, T:0.48
Consensus pattern (24 bp):
TTGCATCTGTTCCAACATTTCCTT
Found at i:66607298 original size:20 final size:21
Alignment explanation
Indices: 66607226--66607320 Score: 61
Period size: 21 Copynumber: 4.3 Consensus size: 21
66607216 AATGAAAAAG
*
66607226 AAATA-AAATATTTTAAAAT-
1 AAATATAAATAGTTTAAAATA
*
66607245 AAATA-AATAGAGTTTAATATATA
1 AAATATAA-ATAGTTTAA-A-ATA
* * *
66607268 TATATATATAACAATTTAAAATA
1 -AAATATA-AATAGTTTAAAATA
66607291 AAATATAAATAGTTTAAAATA
1 AAATATAAATAGTTTAAAATA
66607312 TATAATATA
1 -A-AATATA
66607321 TAAAAGGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
19 7 0.12
20 7 0.12
21 13 0.22
22 9 0.15
23 9 0.15
24 5 0.08
25 8 0.14
26 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (21 bp):
AAATATAAATAGTTTAAAATA
Found at i:66607306 original size:46 final size:44
Alignment explanation
Indices: 66607237--66607323 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 44
66607227 AATAAAATAT
*
66607237 TTTAAAATAAATAAATAGAGTTTAATATATATATATATATAACAA
1 TTTAAAATAAATAAATAGAGTTTAAAATATATA-ATATATAACAA
*
66607282 TTTAAAATAAAATATAA-ATAGTTTAAAATATATAATATATAA
1 TTTAAAAT-AAATA-AATAGAGTTTAAAATATATAATATATAA
66607324 AAGGAAATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
45 16 0.42
46 20 0.53
47 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (44 bp):
TTTAAAATAAATAAATAGAGTTTAAAATATATAATATATAACAA
Found at i:66607490 original size:20 final size:19
Alignment explanation
Indices: 66607448--66607511 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 19
66607438 AATAATATAC
*
66607448 AAAAAAACTTACAACAAATAAT
1 AAAAAAATTTA-AA-AAA-AAT
66607470 AAAACAAATTTAAAAAAAAT
1 AAAA-AAATTTAAAAAAAAT
* *
66607490 ATAAAATATTTAAAACAAAT
1 A-AAAAAATTTAAAAAAAAT
66607510 AA
1 AA
66607512 TTTATACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.03
20 18 0.49
21 6 0.16
22 6 0.16
23 6 0.16
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAAATTTAAAAAAAAT
Found at i:66610950 original size:30 final size:30
Alignment explanation
Indices: 66610916--66610975 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66610906 TAAATTGAAC
*
66610916 CACACGG-CCAGACCACACGTCCGTGTCTCA
1 CACACGGTCCAGA-CACACGGCCGTGTCTCA
**
66610946 CACACGGTGGAGACACACGGCCGTGTCTCA
1 CACACGGTCCAGACACACGGCCGTGTCTCA
66610976 TCCCGTGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.23, C:0.38, G:0.25, T:0.13
Consensus pattern (30 bp):
CACACGGTCCAGACACACGGCCGTGTCTCA
Found at i:66649913 original size:45 final size:45
Alignment explanation
Indices: 66649820--66650036 Score: 243
Period size: 45 Copynumber: 5.0 Consensus size: 45
66649810 TATCGTACAG
66649820 TACTATTCGGGCCTTTGAGCCTAGCAAGC-ATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATGATGCCGGTGAAA
* **
66649864 TACTATTTGGGCCTTTGAGCCTAGCAAGCTATGATGTTGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATGATGCCGGTGAAA
* * *
66649909 TACTATTCGGGCCTTTGAGCCTAGCATGGCAATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCA-AGCTATGATGCCGGTGAAA
* * * *
66649955 TACTGTTCGGGCCTTCGAGCCTAG-AAGGCTATAATACCGGTG-AA
1 TACTATTCGGGCCTTTGAGCCTAGCAA-GCTATGATGCCGGTGAAA
* * *
66649999 -A-TA-TCGGG-CTTCGAGCCTAGCAGGCTA-AATGCCGGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATGATGCCGGTGA
66650037 TTTGATAAAA
Statistics
Matches: 149, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 9 0.06
40 16 0.11
41 6 0.04
42 1 0.01
43 1 0.01
44 29 0.19
45 51 0.34
46 36 0.24
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAAGCTATGATGCCGGTGAAA
Found at i:66649975 original size:91 final size:89
Alignment explanation
Indices: 66649820--66649986 Score: 255
Period size: 91 Copynumber: 1.9 Consensus size: 89
66649810 TATCGTACAG
* *
66649820 TACTATTCGGGCCTTTGAGCCTAGCAAGCATGATGCCGGTGAAATACTATTTGGGCCTTTGAGCC
1 TACTATTCGGGCCTTTGAGCCTAGCAAGCATGATGCCGGTGAAATACTATTCGGGCCTTCGAGCC
66649885 TAGCAA-GCTATGATGTTGGTGAAA
66 TAG-AAGGCTATGATGTTGGTGAAA
* * *
66649909 TACTATTCGGGCCTTTGAGCCTAGCATGGCAATGATGCCGGTGAGATACTGTTCGGGCCTTCGAG
1 TACTATTCGGGCCTTTGAGCCTAGCA-AGC-ATGATGCCGGTGAAATACTATTCGGGCCTTCGAG
66649974 CCTAGAAGGCTAT
64 CCTAGAAGGCTAT
66649987 AATACCGGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
89 26 0.37
90 4 0.06
91 40 0.57
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (89 bp):
TACTATTCGGGCCTTTGAGCCTAGCAAGCATGATGCCGGTGAAATACTATTCGGGCCTTCGAGCC
TAGAAGGCTATGATGTTGGTGAAA
Found at i:66650017 original size:40 final size:40
Alignment explanation
Indices: 66649961--66650036 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
66649951 GAGATACTGT
66649961 TCGGGCCTTCGAGCCTAGAAGGCTATAATACCGGTGAAATA
1 TCGGGCCTTCGAGCCTAGAAGGCTA-AATACCGGTGAAATA
* *
66650002 TCGGG-CTTCGAGCCTAGCAGGCTAAATGCCGGTGA
1 TCGGGCCTTCGAGCCTAGAAGGCTAAATACCGGTGA
66650037 TTTGATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 10 0.30
40 18 0.55
41 5 0.15
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (40 bp):
TCGGGCCTTCGAGCCTAGAAGGCTAAATACCGGTGAAATA
Found at i:66650539 original size:16 final size:18
Alignment explanation
Indices: 66650508--66650540 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
66650498 AACTCGTCAC
66650508 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
66650526 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
66650541 ATCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:66652939 original size:36 final size:35
Alignment explanation
Indices: 66652856--66652944 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
66652846 CTTTGTTTGT
* * * *
66652856 TGTGTTTCAGTTGGACTCGCTCTTATGAGCATTGG
1 TGTGTTTCGGTTGGATTGGATCTTATGAGCATTGG
*
66652891 TGTGTTTCGGTTGGATTGGATCTTATGAGCATTTTG
1 TGTGTTTCGGTTGGATTGGATCTTATGAGCA-TTGG
*
66652927 TGTGTTTTGGTTGGATTG
1 TGTGTTTCGGTTGGATTG
66652945 ATGACGTACT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 27 0.57
36 20 0.43
ACGTcount: A:0.12, C:0.10, G:0.31, T:0.46
Consensus pattern (35 bp):
TGTGTTTCGGTTGGATTGGATCTTATGAGCATTGG
Found at i:66657214 original size:24 final size:25
Alignment explanation
Indices: 66657186--66657249 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
66657176 TCAACCAAAT
* * *
66657186 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
66657210 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
66657235 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
66657250 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:66657300 original size:24 final size:24
Alignment explanation
Indices: 66657273--66657322 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
66657263 CATGCATCGA
*
66657273 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
66657297 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
66657321 CA
1 CA
66657323 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:66657395 original size:94 final size:94
Alignment explanation
Indices: 66657278--66657652 Score: 680
Period size: 94 Copynumber: 4.0 Consensus size: 94
66657268 ATCGACATTC
* *
66657278 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
66657343 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
66657372 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
66657437 GGCAATTTACTTAATTCAAGTAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
66657466 AAATCTGCACACAAAGTGACATTTAATTTCGCACACATAGTGCCAATGTTAACTCATTA-AATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
66657530 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
66657559 AAATCTGCACACAAAGTGACATTTAATTCCACACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
66657624 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
66657653 CGGTCACATT
Statistics
Matches: 271, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
93 90 0.33
94 181 0.67
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:66657596 original size:187 final size:188
Alignment explanation
Indices: 66657278--66657652 Score: 680
Period size: 187 Copynumber: 2.0 Consensus size: 188
66657268 ATCGACATTC
* *
66657278 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
66657343 GGCAATTTACTTAATTCAAATAGCATATAAAATCTGCACACAAAGTGACATTTAATTCCGCACAC
66 GGCAATTTACTTAATTCAAATAGCATATAAAATCTGCACACAAAGTGACATTTAATTCCACACAC
* *
66657408 ATAGTGCCAATGTTAACTCATTATAATAAGGCAATTTACTTAATTCAAGTAGCATATA
131 ATAGTGCCAATGTTAACTCATTATAATAAGGCAACTTACTTAATTCAAATAGCATATA
*
66657466 AAATCTGCACACAAAGTGACATTTAATTTCGCACACATAGTGCCAATGTTAACTCATTA-AATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
66657530 GGCAATTTACTTAATTCAAATAGCATATAAAATCTGCACACAAAGTGACATTTAATTCCACACAC
66 GGCAATTTACTTAATTCAAATAGCATATAAAATCTGCACACAAAGTGACATTTAATTCCACACAC
*
66657595 ATAGTGCCAATGTTAACTCATTATAATATGGCAACTTACTTAATTCAAATAGCATATA
131 ATAGTGCCAATGTTAACTCATTATAATAAGGCAACTTACTTAATTCAAATAGCATATA
66657653 CGGTCACATT
Statistics
Matches: 180, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
187 124 0.69
188 56 0.31
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (188 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATAAAATCTGCACACAAAGTGACATTTAATTCCACACAC
ATAGTGCCAATGTTAACTCATTATAATAAGGCAACTTACTTAATTCAAATAGCATATA
Found at i:66660970 original size:20 final size:20
Alignment explanation
Indices: 66660942--66660980 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66660932 GACCATACGG
66660942 CCAACCCACATGGGTGTGTC
1 CCAACCCACATGGGTGTGTC
* *
66660962 CCAAGCCACATTGGTGTGT
1 CCAACCCACATGGGTGTGT
66660981 GACACTGTTT
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:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (20 bp):
CCAACCCACATGGGTGTGTC
Found at i:66661602 original size:18 final size:19
Alignment explanation
Indices: 66661575--66661612 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
66661565 GCAGTTATAA
*
66661575 CCAAAGT-AAATTAAAATC
1 CCAAAGTAAAAATAAAATC
*
66661593 CCAAATTAAAAATAAAATC
1 CCAAAGTAAAAATAAAATC
66661612 C
1 C
66661613 ATAGAGGCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (19 bp):
CCAAAGTAAAAATAAAATC
Found at i:66664000 original size:27 final size:27
Alignment explanation
Indices: 66663969--66664146 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
66663959 TAAATTGTAC
66663969 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
66663996 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
66664022 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
66664050 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
66664078 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
66664105 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66664132 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66664147 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:66664083 original size:82 final size:81
Alignment explanation
Indices: 66663970--66664125 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
66663960 AAATTGTACA
*
66663970 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
66664034 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
66664051 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
66664116 TGCGAGTTGA
65 TGCGAATTGA
66664126 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:66664137 original size:82 final size:81
Alignment explanation
Indices: 66663966--66664146 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
66663956 GATTAAATTG
*
66663966 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
66664031 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
66664047 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
66664111 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
66664129 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
66664147 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:66679595 original size:36 final size:37
Alignment explanation
Indices: 66679519--66679596 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
66679509 TTATTACGAA
* * *
66679519 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
*
66679556 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
66679592 GTCTT
1 GTCTT
66679597 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 19 0.51
37 18 0.49
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
Found at i:66679841 original size:47 final size:47
Alignment explanation
Indices: 66679715--66680196 Score: 793
Period size: 47 Copynumber: 10.1 Consensus size: 47
66679705 CCCTTCGGGA
* * * * * *
66679715 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
66679762 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66679811 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66679858 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66679905 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66679952 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66679999 CGTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66680046 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66680095 CTTATCACATATATATACATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
66680143 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66680190 CTTATCA
1 CTTATCA
66680197 TCATTTCATA
Statistics
Matches: 412, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
47 282 0.68
48 46 0.11
49 84 0.20
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66689925 original size:20 final size:18
Alignment explanation
Indices: 66689900--66689936 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
66689890 ACCTAACACG
66689900 AATTAAATTTAAGCCATATT
1 AATTAAA-TTAAG-CATATT
66689920 AATTAAATTAAGCATAT
1 AATTAAATTAAGCATAT
66689937 CAACAGAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAGCATATT
Found at i:66690106 original size:20 final size:20
Alignment explanation
Indices: 66690081--66690146 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
66690071 TTGAATCGAG
66690081 GCTTCTACGAGCACTTGAAT
1 GCTTCTACGAGCACTTGAAT
* * *
66690101 GCTTCTGCAAGAACTTGAAT
1 GCTTCTACGAGCACTTGAAT
* *
66690121 GCTTCTACGAGCACTTTAGT
1 GCTTCTACGAGCACTTGAAT
66690141 GCTTCT
1 GCTTCT
66690147 TCCAATGGCG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (20 bp):
GCTTCTACGAGCACTTGAAT
Found at i:66693740 original size:47 final size:47
Alignment explanation
Indices: 66693662--66694071 Score: 615
Period size: 47 Copynumber: 8.6 Consensus size: 47
66693652 CCCTTCGGGA
* * * * * *
66693662 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66693708 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
66693756 CTCATCACATATATACACTTTCACATCCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66693803 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66693850 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66693899 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66693946 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66693997 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66694046 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
66694072 CACAATTATC
Statistics
Matches: 336, Mismatches: 18, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
46 2 0.01
47 192 0.57
48 2 0.01
49 94 0.28
51 46 0.14
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66693896 original size:96 final size:96
Alignment explanation
Indices: 66693662--66694072 Score: 638
Period size: 96 Copynumber: 4.3 Consensus size: 96
66693652 CCCTTCGGGA
* * * * *
66693662 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCATTAGGCCT-TATCACATATATA
66693724 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
* *
66693756 CTCATCAC--ATATATACACTTTCACATCCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATAC
66693819 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
66693850 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
66693915 ACTTTCACATTCATCACATCGGCCATTAGAC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
66693946 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTAT
1 CTTATCAC--ATATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACA--TAT
66694011 ATACACTTTCACATTCATCACATCGGCCATTAGGC
62 ATACACTTTCACATTCATCACATCGGCCATTAGGC
66694046 CTTATCACATATATATACA--TTCACATC
1 CTTATCACATATATATACACTTTCACATC
66694073 ACAATTATCC
Statistics
Matches: 295, Mismatches: 13, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
93 1 0.00
94 88 0.30
95 2 0.01
96 98 0.33
98 61 0.21
100 45 0.15
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66697593 original size:39 final size:39
Alignment explanation
Indices: 66697550--66697860 Score: 505
Period size: 39 Copynumber: 8.0 Consensus size: 39
66697540 ATTATATTAT
* * *
66697550 CAGCACAAAGCCTGCGGGACTTTAACCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
66697589 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
66697628 CAACACGAAGCCTGCGGGACTTTGGCTCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
66697667 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
66697706 CAGCATGAAGCCTACGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
66697745 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
66697784 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
66697823 CAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
66697861 TCAGTGTCTT
Statistics
Matches: 254, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 254 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:66705368 original size:27 final size:27
Alignment explanation
Indices: 66705326--66705406 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
66705316 AATCTCATAT
* * *
66705326 CTGTAGGCTAGTATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
66705353 CTGTAGGGTAGAATTACTGAAATTCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
66705380 CTATAGGGTAAAATTACTGAAGTACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
66705407 TTGGTTTACA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:66705431 original size:26 final size:27
Alignment explanation
Indices: 66705389--66705447 Score: 111
Period size: 26 Copynumber: 2.2 Consensus size: 27
66705379 CCTATAGGGT
66705389 AAAATTACTGAAGTACCCTTGGTTTAC
1 AAAATTACTGAAGTACCCTTGGTTTAC
66705416 AAAATTACTGAA-TACCCTTGGTTTAC
1 AAAATTACTGAAGTACCCTTGGTTTAC
66705442 AAAATT
1 AAAATT
66705448 TCCAGAATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (27 bp):
AAAATTACTGAAGTACCCTTGGTTTAC
Found at i:66705500 original size:27 final size:27
Alignment explanation
Indices: 66705469--66705601 Score: 142
Period size: 27 Copynumber: 4.9 Consensus size: 27
66705459 CTCAATTAGA
*
66705469 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* * * *
66705496 GAAATTATTGAAATACCCTTGATTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* * *
66705523 AAAATTACCAAAATACCCCTAATTTGG
1 AAAATTACTAAAATACCCCTGATTTGT
* ** *
66705550 CAAATTACTAAAATACCGTTGATTTGA
1 AAAATTACTAAAATACCCCTGATTTGT
66705577 AAAATTA-TAGAAATACCCCTGATTT
1 AAAATTACTA-AAATACCCCTGATTT
66705602 ACAAATTTAT
Statistics
Matches: 84, Mismatches: 21, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
26 2 0.02
27 82 0.98
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTGT
Found at i:66705511 original size:54 final size:54
Alignment explanation
Indices: 66705453--66705648 Score: 204
Period size: 54 Copynumber: 3.6 Consensus size: 54
66705443 AAATTTCCAG
** * * *
66705453 AATACCCTCAATTAGAAAAATTACCAAAATACCCCTGATTTGTG-AAATTATTGA
1 AATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTG-GCAAATTACTAA
* *
66705507 AATACCCTTGATTTGTAAAATTACCAAAATACCCCTAATTTGGCAAATTACTAA
1 AATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTGGCAAATTACTAA
* * *
66705561 AATACCGTTGATTTGAAAAATTA-TAGAAATACCCCTGATTT-ACAAATTTA-TAGA
1 AATACCCTTGATTTGAAAAATTACCA-AAATACCCCTGATTTGGCAAA-TTACTA-A
*
66705615 AATACCCTTGACTTTCAAAAATTA-CAGAAATACC
1 AATACCCTTGA-TTTGAAAAATTACCA-AAATACC
66705649 ATTGTTTTGC
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
53 8 0.07
54 94 0.77
55 20 0.16
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (54 bp):
AATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTGGCAAATTACTAA
Found at i:66705538 original size:81 final size:81
Alignment explanation
Indices: 66705416--66705606 Score: 215
Period size: 81 Copynumber: 2.4 Consensus size: 81
66705406 CTTGGTTTAC
* * * *
66705416 AAAATTACTG-AATACCCTTGGTTTACAAAATTTCCAGAATA-CCCTCAATTAGAAAAATTACCA
1 AAAATTATTGAAATACCCTTGATTTACAAAATTACCAAAATACCCCT-AATTAGAAAAATTACCA
*
66705479 AAATACCCCTGATTTGT
65 AAATACCCCTGATTTGA
* ** * ** *
66705496 GAAATTATTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTAATTTGGCAAATTACTAA
1 AAAATTATTGAAATACCCTTGATTTACAAAATTACCAAAATACCCCTAATTAGAAAAATTACCAA
**
66705561 AATACCGTTGATTTGA
66 AATACCCCTGATTTGA
* *
66705577 AAAATTATAGAAATACCCCTGATTTACAAA
1 AAAATTATTGAAATACCCTTGATTTACAAA
66705607 TTTATAGAAA
Statistics
Matches: 90, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
80 8 0.09
81 78 0.87
82 4 0.04
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTATTGAAATACCCTTGATTTACAAAATTACCAAAATACCCCTAATTAGAAAAATTACCAA
AATACCCCTGATTTGA
Found at i:66705611 original size:27 final size:28
Alignment explanation
Indices: 66705479--66705665 Score: 131
Period size: 27 Copynumber: 6.9 Consensus size: 28
66705469 AAAATTACCA
** *
66705479 AAATACCCCTGATTTG-TGAAATTATTG
1 AAATACCCCTGATTTGACAAAATTATAG
* * *
66705506 AAATACCCTTGATTTG-TAAAATTACCA-
1 AAATACCCCTGATTTGACAAAATTA-TAG
* *
66705533 AAATACCCCTAATTTGGC-AAATTACTA-
1 AAATACCCCTGATTTGACAAAATTA-TAG
**
66705560 AAATACCGTTGATTTGA-AAAATTATAG
1 AAATACCCCTGATTTGACAAAATTATAG
*
66705587 AAATACCCCTGATTT-ACAAATTTATAG
1 AAATACCCCTGATTTGACAAAATTATAG
* * *
66705614 AAATACCCTTGACTTTCA-AAAATTACAG
1 AAATACCCCTGA-TTTGACAAAATTATAG
** *
66705642 AAATACCATTGTTTTG-CAAAATTA
1 AAATACCCCTGATTTGACAAAATTA
66705666 CCGAAATATC
Statistics
Matches: 131, Mismatches: 21, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.02
27 106 0.81
28 21 0.16
29 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
AAATACCCCTGATTTGACAAAATTATAG
Found at i:66705672 original size:55 final size:54
Alignment explanation
Indices: 66705389--66705678 Score: 164
Period size: 54 Copynumber: 5.4 Consensus size: 54
66705379 CCTATAGGGT
* * * * *
66705389 AAAATTACTGAAGTACCCTTGGTTT-ACAAAATTACTG-AATACC-CTTGGTTTAC
1 AAAATTACAGAAATACCCTTGATTTCA-AAAATTACAGAAATACCAC-TGATTTAC
* ** ** * **
66705442 AAAATTTCCAG-AATACCCTCAATTAGAAAAATTACCA-AAATACCCCTGATTTGT
1 AAAA-TTACAGAAATACCCTTGATTTCAAAAATTA-CAGAAATACCACTGATTTAC
* ** ** * * *
66705496 GAAATTATTGAAATACCCTTGATTTGTAAAATTACCA-AAATACCCCTAATTTGGC
1 AAAATTACAGAAATACCCTTGATTTCAAAAATTA-CAGAAATACCACTGATTT-AC
* * * *
66705551 -AAATTACTA-AAATACCGTTGATTTGAAAAATTATAGAAATACCCCTGATTTAC
1 AAAATTAC-AGAAATACCCTTGATTTCAAAAATTACAGAAATACCACTGATTTAC
* * * * *
66705604 AAATTTATAGAAATACCCTTGACTTTCAAAAATTACAGAAATACCATTGTTTTGC
1 AAAATTACAGAAATACCCTTGA-TTTCAAAAATTACAGAAATACCACTGATTTAC
* *
66705659 AAAATTACCGAAATATCCTT
1 AAAATTACAGAAATACCCTT
66705679 AGTTTGTAGA
Statistics
Matches: 184, Mismatches: 41, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
53 26 0.14
54 114 0.62
55 44 0.24
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (54 bp):
AAAATTACAGAAATACCCTTGATTTCAAAAATTACAGAAATACCACTGATTTAC
Found at i:66705989 original size:41 final size:41
Alignment explanation
Indices: 66705944--66706066 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
66705934 GAAGGAAGAA
* *
66705944 ATTGAGGATCGCATGGTTTCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
66705985 ATTGAGAATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
66706026 ATTAAGGATCGCAGGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
66706067 GTGGCTTTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:66706404 original size:25 final size:25
Alignment explanation
Indices: 66706213--66706403 Score: 238
Period size: 25 Copynumber: 7.6 Consensus size: 25
66706203 TATTTTAATT
*
66706213 ATGGCTTTGTGCCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
66706238 AAGGCTTTGTACCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * * *
66706263 AAGGCTTTGTGCTGGTATGTTATTT
1 ATGGCTTTGTGCCGATATGTTATTG
*
66706288 ATGGCTTTGTGCCGATATGATATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
66706313 ATGGCTATGTCCCGATCTGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
*
66706338 ATGGCTTTGTGCCGATATGATATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
66706363 ATGGCTATGTGTCGATCTGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
66706388 ATGGCTTTGTGCCGAT
1 ATGGCTTTGTGCCGAT
66706404 CGTTTTATCG
Statistics
Matches: 140, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 140 1.00
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.41
Consensus pattern (25 bp):
ATGGCTTTGTGCCGATATGTTATTG
Found at i:66713475 original size:27 final size:26
Alignment explanation
Indices: 66713427--66713486 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
66713417 GCGAGGCTGC
*
66713427 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
66713454 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
66713480 CAGATAT
1 CAGATAT
66713487 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:66713579 original size:27 final size:26
Alignment explanation
Indices: 66713531--66713582 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
66713521 ACGAGGCTGC
*
66713531 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
66713557 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
66713583 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:66720714 original size:33 final size:32
Alignment explanation
Indices: 66720655--66720718 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
66720645 ACGAAGTCAC
* * *
66720655 CAGATATAGATGTTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCAAAGCCACCAGAA
*
66720687 CAGATATATATATATGTGGCAAAGCCACCAGA
1 CAGATATAGATAT-TGTGGCAAAGCCACCAGA
66720719 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCAAAGCCACCAGAA
Found at i:66725085 original size:20 final size:20
Alignment explanation
Indices: 66725042--66725087 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
66725032 ACTGTTCTGT
*
66725042 TATGGG-CCAACTGTATTGA
1 TATGGGCCCAACTGTATTCA
* *
66725061 AATGGGCCCAACTGTGTTCA
1 TATGGGCCCAACTGTATTCA
66725081 TATGGGC
1 TATGGGC
66725088 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTGTATTCA
Found at i:66733362 original size:25 final size:27
Alignment explanation
Indices: 66733325--66733377 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
66733315 TCAAACATGC
66733325 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
66733351 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
66733377 A
1 A
66733378 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:66734894 original size:26 final size:26
Alignment explanation
Indices: 66734863--66734944 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
66734853 TGAAATTCCC
66734863 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
66734889 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
66734915 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
66734941 ATCA
1 ATCA
66734945 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:66741503 original size:12 final size:12
Alignment explanation
Indices: 66741486--66741510 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66741476 GCCGGCCAGA
66741486 AGCCCATGTGCC
1 AGCCCATGTGCC
66741498 AGCCCATGTGCC
1 AGCCCATGTGCC
66741510 A
1 A
66741511 CACACGGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (12 bp):
AGCCCATGTGCC
Found at i:66742205 original size:43 final size:42
Alignment explanation
Indices: 66742158--66742307 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
66742148 TATCCTAGAT
* * *
66742158 ATGGTCTTGCATGTTATCACATATTGATGCCAATATCCCAAAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAAT-TCCCAAAC
* * * *
66742201 ATGGTCTTACATGAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAAT-TCCCAAAC
* * * * *
66742244 AGGGTCTTACATGTAATCACA-ATACAATGCCAATGCCCCAAT
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATTCCCAAAC
66742286 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
66742308 CTCGGTAATC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
42 25 0.29
43 62 0.71
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATTCCCAAAC
Found at i:66747618 original size:13 final size:13
Alignment explanation
Indices: 66747596--66747630 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
66747586 CAACACACAC
66747596 GCCCGTGTGGCTA
1 GCCCGTGTGGCTA
*
66747609 GCCTGTGTGGCTA
1 GCCCGTGTGGCTA
66747622 GCCCGTGTG
1 GCCCGTGTG
66747631 CCCTAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.29, G:0.40, T:0.26
Consensus pattern (13 bp):
GCCCGTGTGGCTA
Found at i:66748662 original size:40 final size:40
Alignment explanation
Indices: 66748607--66748824 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
66748597 CGGATGATAA
** *
66748607 CCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
66748647 CCGGGCAAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66748687 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66748727 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
66748767 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
66748807 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66748825 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 17 0.10
40 145 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66751069 original size:44 final size:44
Alignment explanation
Indices: 66751006--66751749 Score: 398
Period size: 44 Copynumber: 16.8 Consensus size: 44
66750996 TATCATGGTG
* * * * *
66751006 AATCTTATCCCCCTAAAGTTGTAGTAGAGCAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
66751050 AATCTTATCTCTCTGAAGTTGCAGTCGAGCAAATTGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACA
** * ** * *
66751095 AATCTTATCTCTTTGAAGTTGTAGTACAGTAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
66751139 AACCTTATCTCCCTGAAGTTGTAGTGGAGCA-AGTTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTACA
* * * * * * *
66751183 AGTCTTATCTCCCTGAAGTTACTGTGGAGTAGATTGAAGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
** *
66751228 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGA-T--A--T--A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
66751265 AACCTTATCCCCCTAAAGTTACAGTGGAGCA-AGTTGAAG-TCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCT-ACA
* * * * * * * *
66751309 AGTCTTATCTCTCTGAAGTTGTAATGTAGTAGACTGAAA-ATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTA-CA
** * *
66751354 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
66751398 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
66751442 AATCTTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAA-ATAGCA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA-CA
* *** * ***
66751488 AATCCTATAC-CCCTGAAGTTGCAGTGGAATGGATTGAATTTGTCGTGGTG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATT-AA--AG-C-T-ACA
* * * * *
66751538 AATCATATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
66751582 AATTTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * ** * * * *
66751627 AATCTTATCTCCTTAAAGTTATAATGGAGCAGAATGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
66751671 AATCTTATTTCTCTGAAGTTTCAGTAGAGCATATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
66751715 AATCTTATTTCCTTAAAGTTGTAGTGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
66751750 GAAATTACAA
Statistics
Matches: 529, Mismatches: 143, Indels: 56
0.73 0.20 0.08
Matches are distributed among these distances:
36 1 0.00
37 25 0.05
38 1 0.00
40 2 0.00
41 1 0.00
42 1 0.00
43 1 0.00
44 266 0.50
45 190 0.36
46 9 0.02
47 1 0.00
49 3 0.01
50 28 0.05
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:66751132 original size:89 final size:88
Alignment explanation
Indices: 66751006--66751749 Score: 328
Period size: 89 Copynumber: 8.4 Consensus size: 88
66750996 TATCATGGTG
* * * * *
66751006 AATCTTATCCCCCTAAAGTTGTAGTAGAGCAGATTAAAGCCACAAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
*
66751071 CAGTCGAGCAAATTGAAGATAACA
66 CAGTAGAGCAAATTGAAG-TAACA
** * * * *
66751095 AATCTTATCTCTTTGAAGTTGTAGTACAGTAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
* * * * *
66751160 TAGTGGAGCAAGTTGAAGTTATA
66 CAGTAGAGCAAATTGAAGTAACA
* * * * * *
66751183 AGTCTTATCTCCCTGAAGTTACT-GTGGAGTAGATTGAAGATAGAAAATCTTATCTTTCTGAAGT
1 AATCTTATCTCCCTGAAGTT-GTAGTAGAGTAGATTAAAGCTA-AAAATCTTATCTCTCTGAAGT
*
66751247 TGCAGTAGAGC--A--G-A-T-ATA
64 TGCAGTAGAGCAAATTGAAGTAACA
* * * ** * * * * *
66751265 AACCTTATCCCCCTAAAGTTACAGTGGAGCA-AGTTGAAG-TCACAAGTCTTATCTCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGA-TTAAAGCT-AAAAATCTTATCTCTCTGAAGT
* * * * * * *
66751328 TGTAAT-GTAGTAGACTGAAAATAGCA
64 TGCAGTAG-AGCAAATTG-AAGTAACA
** * * * * * *
66751354 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
* * * * *
66751419 CAGTGGAGTAGATTGAAGTTATA
66 CAGTAGAGCAAATTGAAGTAACA
** * * * * * * *
66751442 AATCTTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAA-ATAGCAAATCCTATAC-CCCTGAA
1 AATC-TTATCTCCCTGAAGTTGTAGTAGAGTAGATT-AAAGCTA-AAAATCTTAT-CTCTCTGAA
* * ** ****
66751505 GTTGCAGTGGAATGGATTGAATTTGTCGTGGTG
62 GTTGCAGTAG-A-GCA---AA-TTGAAGTAACA
* * * * * * * *
66751538 AATCATATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCCACAAATTTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
* *
66751603 CAGTAGAGCAGATTGAAGATAGCA
66 CAGTAGAGCAAATTGAAG-TAACA
* * * * * * * * * * * *
66751627 AATCTTATCTCCTTAAAGTTATAATGGAGCAGAATGAAGTTACAAATCTTATTTCTCTGAAGTTT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
* *
66751692 CAGTAGAGCATATTAAAGCT-ACA
66 CAGTAGAGCAAATTGAAG-TAACA
* * * *
66751715 AATCTTATTTCCTTAAAGTTGTAGTGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATT
66751750 GAAATTACAA
Statistics
Matches: 499, Mismatches: 126, Indels: 61
0.73 0.18 0.09
Matches are distributed among these distances:
80 1 0.00
81 26 0.05
82 33 0.07
83 2 0.00
84 1 0.00
85 2 0.00
87 1 0.00
88 80 0.16
89 252 0.51
90 29 0.06
91 2 0.00
92 4 0.01
93 2 0.00
94 27 0.05
95 27 0.05
96 10 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
CAGTAGAGCAAATTGAAGTAACA
Found at i:66751406 original size:215 final size:215
Alignment explanation
Indices: 66751065--66751476 Score: 499
Period size: 215 Copynumber: 1.9 Consensus size: 215
66751055 TATCTCTCTG
* * * *
66751065 AAGTTGCAGTCGAGCAAATTGAAGATAACAAATCTTATCTCTTTGAAGTTGTAGTACAGTAGATT
1 AAGTTACAGTCGAGCAAATTGAAGATAACAAATCTTATCTCTCTGAAGTTGTAATACAGTAGATG
* * * * * * *
66751130 AAAGCTATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAGTTATAAGTCTTATCTCC
66 AAAGATACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAGTTAAAGCTATAAATCTTATCTCC
* * ** * *
66751195 CTGAAGTTACTGTGGAGTAGATTGAAGATAGAAAATC-TTATCTTTCTGAAGTTGCAGTAGAGCA
131 CTAAAGTTACAGTGGAGTAGATTGAAGATA-AAAATCTTTATCTCCCTGAAGTTACAATAGAGCA
66751259 GATATAAACCTTATCCCCCTA
195 GATATAAACCTTATCCCCCTA
* * * * **
66751280 AAGTTACAGTGGAGCAAGTTGAAG-TCACAAGTCTTATCTCTCTGAAGTTGTAATGTAGTAGACT
1 AAGTTACAGTCGAGCAAATTGAAGATAACAAATCTTATCTCTCTGAAGTTGTAATACAGTAGA-T
* **
66751344 GAAA-ATAGCAAATCTTATCTTTCTGAAGTTGCAGTAGAGC-AGATTAAAGCTATAAATCTTATC
65 GAAAGATA-CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAG-TTAAAGCTATAAATCTTATC
* * *
66751407 TCCCTAAAGTTACAGTGGAGTAGATTGAAGTTATAAATCTTTATCTCCCTGAAGTTACAATGGAG
128 TCCCTAAAGTTACAGTGGAGTAGATTGAAGATAAAAATCTTTATCTCCCTGAAGTTACAATAGAG
66751472 CAGAT
193 CAGAT
66751477 TGAAAATAGC
Statistics
Matches: 164, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
214 41 0.25
215 123 0.75
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (215 bp):
AAGTTACAGTCGAGCAAATTGAAGATAACAAATCTTATCTCTCTGAAGTTGTAATACAGTAGATG
AAAGATACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAGTTAAAGCTATAAATCTTATCTCC
CTAAAGTTACAGTGGAGTAGATTGAAGATAAAAATCTTTATCTCCCTGAAGTTACAATAGAGCAG
ATATAAACCTTATCCCCCTA
Found at i:66760375 original size:30 final size:30
Alignment explanation
Indices: 66760339--66760398 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
66760329 TTCCCGAGCC
*
66760339 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
66760369 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
66760399 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:66766546 original size:38 final size:38
Alignment explanation
Indices: 66766503--66766935 Score: 146
Period size: 38 Copynumber: 9.9 Consensus size: 38
66766493 TTTCAAATTA
*
66766503 ACATGTATAACCGTGGCATATCCACTTAGCACTACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
66766541 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
66766582 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
66766626 ACATGTATCAATATGTGTATGCGTGGTATATCCATTTAGCACCACGTTAAT
1 ACATG--T--ATA-----A-CCGTGGCATATCCACTTAGCACCACG-T--T
* * *
66766677 GAATCAATATATATAATCATGGCATATCCACTTAGCACCACGTT
1 --A-C---ATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
66766721 ACATGTATCAATATGTGTATGCGTGGTATATCCACTTAGCACCACGTT
1 ACATG--T--ATA-----A-CCGTGGCATATCCACTTAGCACCACGTT
* * *
66766769 ATATGTTTAACCGTGGTATATCCACTTAGCACCACGTCAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGT---T
*
66766810 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCATGTTACATGTAT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACC-----AC--GT-T
* * * *
66766862 CAATATGTATAATCGTGGTATATCCACTTAGCAGCACGTT
1 --ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
66766902 ACACGTATAACTGTGGTATATCCACTTAGCACCA
1 ACATGTATAACCGTGGCATATCCACTTAGCACCA
66766936 TGTTTTTTCA
Statistics
Matches: 304, Mismatches: 37, Indels: 108
0.68 0.08 0.24
Matches are distributed among these distances:
38 90 0.30
39 2 0.01
40 4 0.01
41 6 0.02
42 8 0.03
43 4 0.01
44 6 0.02
45 6 0.02
46 3 0.01
47 77 0.25
48 76 0.25
49 1 0.00
50 4 0.01
51 1 0.00
52 6 0.02
53 4 0.01
54 3 0.01
55 1 0.00
57 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:66766715 original size:95 final size:95
Alignment explanation
Indices: 66766552--66766909 Score: 466
Period size: 95 Copynumber: 3.9 Consensus size: 95
66766542 CATGTTTAAC
*
66766552 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAG
66766617 CACCACGTTACATGTATCAATATGTGTATG
66 CACCACGTTACATGTATCAATATGTGTATG
* * *
66766647 CGTGGTATATCCATTTAGCACCACGTTAATGAATCAATATATATAATCATGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAG
66766712 CACCACGTTACATGTATCAATATGTGTATG
66 CACCACGTTACATGTATCAATATGTGTATG
* *
66766742 CGTGGTATATCCACTTAGCACCACG-T--T--AT--ATGT-T-TAACCGTGGTATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAG
* * * **
66766798 CACCACGTCA-ATGAATCAATATATGTAAC
66 CACCACGTTACATGTATCAATATGTGTATG
* * * * * *
66766827 CGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCACTTA
1 CGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATATAACCGTGGCATATCCACTTA
* *
66766892 GCAGCACGTTACACGTAT
65 GCACCACGTTACATGTAT
66766910 AACTGTGGTA
Statistics
Matches: 230, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
85 38 0.17
86 29 0.13
87 1 0.00
88 3 0.01
89 1 0.00
90 2 0.01
91 2 0.01
92 1 0.00
93 3 0.01
94 2 0.01
95 144 0.63
96 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (95 bp):
CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATATAACCGTGGCATATCCACTTAG
CACCACGTTACATGTATCAATATGTGTATG
Found at i:66766879 original size:133 final size:133
Alignment explanation
Indices: 66766647--66766935 Score: 454
Period size: 133 Copynumber: 2.2 Consensus size: 133
66766637 TATGTGTATG
* * *
66766647 CGTGGTATATCCATTTAGCACCACGTTAATGAATCAATATATATAATCATGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATATAACCATGGCATATCCACTTAG
* * * *
66766712 CACCACGTTACATGTATCAATATGTGTATGCGTGGTATATCCACTTAGCACCACGTTATATGTTT
66 CACCACGTTACATGTATCAATATGTATATGCGTGGTATATCCACTTAGCACCACGTTACACGTAT
66766777 AAC
131 AAC
* *
66766780 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATATAACCATGGCATATCCACTTAG
* *
66766845 CACCATGTTACATGTATCAATATGTATAAT-CGTGGTATATCCACTTAGCAGCACGTTACACGTA
66 CACCACGTTACATGTATCAATATGTAT-ATGCGTGGTATATCCACTTAGCACCACGTTACACGTA
66766909 TAAC
130 TAAC
*
66766913 TGTGGTATATCCACTTAGCACCA
1 CGTGGTATATCCACTTAGCACCA
66766936 TGTTTTTTCA
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
133 141 0.99
134 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (133 bp):
CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATATAACCATGGCATATCCACTTAG
CACCACGTTACATGTATCAATATGTATATGCGTGGTATATCCACTTAGCACCACGTTACACGTAT
AAC
Found at i:66768372 original size:22 final size:23
Alignment explanation
Indices: 66768344--66768400 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
66768334 CACTATTAAA
*
66768344 CTGAAACGGTAAGCTC-TATCGAG
1 CTGAAACAGTAAGCTCATA-CGAG
*
66768367 CT-AAACAGCAAGCTCATACGAG
1 CTGAAACAGTAAGCTCATACGAG
*
66768389 CTGAAACTGTAA
1 CTGAAACAGTAA
66768401 CACTCCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (23 bp):
CTGAAACAGTAAGCTCATACGAG
Found at i:66769919 original size:43 final size:42
Alignment explanation
Indices: 66769855--66769966 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 42
66769845 GCTCGTACAT
*
66769855 TGCCATGTCCCAGATATGGTCTTACATGCG-ATCACATATCGA
1 TGCCATGTCCCAGACATGGTCTTACATGCGAATCACATA-CGA
* *
66769897 TGCCACTGTCCCAGACAGGGTCTTACA--CGAATCATATACGA
1 TGCCA-TGTCCCAGACATGGTCTTACATGCGAATCACATACGA
66769938 TGCCAATGTCCCAGACATGGTCTTACATG
1 TGCC-ATGTCCCAGACATGGTCTTACATG
66769967 TTTTCTCATG
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
41 29 0.48
42 13 0.21
43 19 0.31
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
TGCCATGTCCCAGACATGGTCTTACATGCGAATCACATACGA
Found at i:66782517 original size:29 final size:28
Alignment explanation
Indices: 66782481--66782552 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
66782471 TCATGAGATT
*
66782481 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
66782511 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
66782538 TGGCACTAAGTGTGC
1 -GGCACTAAGTGTGC
66782553 ACGGTTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.13
29 34 0.87
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:66782776 original size:174 final size:174
Alignment explanation
Indices: 66782511--66783012 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
66782501 AAATTGTACA
* *
66782511 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
66782576 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66782641 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
66782685 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
66782750 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
*
66782815 ATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
66782859 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
66782924 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66782989 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
66783013 ACCTTGAGTT
Statistics
Matches: 317, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 317 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:66795506 original size:13 final size:13
Alignment explanation
Indices: 66795488--66795521 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
66795478 CAAAATTGGC
66795488 TTTTAATTTTGTA
1 TTTTAATTTTGTA
66795501 TTTTAATTTTGTA
1 TTTTAATTTTGTA
66795514 TTTTAATT
1 TTTTAATT
66795522 CATTTTACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTGTA
Found at i:66798674 original size:67 final size:64
Alignment explanation
Indices: 66798533--66798714 Score: 190
Period size: 64 Copynumber: 2.8 Consensus size: 64
66798523 TATAGTTCGG
* * * * * * *
66798533 TCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTAG
1 TCTCTTGT-CTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACA-TATATCCCGTAG
66798595 C
64 C
* * * *
66798596 TCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCGTA
1 TCTCTTGTCTACATGGTG---TACACATAGAACCACACATGCGACCTAGCTACATATATCCCGTA
66798661 GC
63 GC
*
66798663 TCTCTTGTCTACATGGTGTACACATAGTACCACACATGCGACCTAGCTACAT
1 TCTCTTGTCTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACAT
66798715 CATAATGTCT
Statistics
Matches: 100, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 16 0.16
64 29 0.29
66 23 0.23
67 29 0.29
68 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
TCTCTTGTCTACATGGTGTACACATAGAACCACACATGCGACCTAGCTACATATATCCCGTAGC
Found at i:66799962 original size:13 final size:13
Alignment explanation
Indices: 66799944--66799977 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
66799934 CAAAATTGGC
66799944 TTTTAATTTTGTA
1 TTTTAATTTTGTA
66799957 TTTTAATTTTGTA
1 TTTTAATTTTGTA
66799970 TTTTAATT
1 TTTTAATT
66799978 CATTTTACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTGTA
Found at i:66801463 original size:47 final size:47
Alignment explanation
Indices: 66801393--66801611 Score: 211
Period size: 47 Copynumber: 4.7 Consensus size: 47
66801383 GGGTAAGGTA
66801393 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATATCTCGAAG
* *
66801440 TCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTAT-ATCTCGAAG
* * * * *
66801488 CCGATG-CATGTCCCCGACAT-GTCTTACCCTGGGT-TACTCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATA-TCTCGAAG
* * *
66801533 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCCCT-TGTCTCGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTATATCTCGAAG
** *
66801579 CAAATGCCATGTCCCAGACATGGTCTTAAACTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA
66801612 TCTCTCATAA
Statistics
Matches: 144, Mismatches: 19, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
44 1 0.01
45 35 0.24
46 24 0.17
47 67 0.47
48 17 0.12
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATATCTCGAAG
Found at i:66801593 original size:139 final size:140
Alignment explanation
Indices: 66801393--66801653 Score: 343
Period size: 139 Copynumber: 1.9 Consensus size: 140
66801383 GGGTAAGGTA
* *
66801393 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCATATCTCAAGTCAATGCCATGTCCCAGA
* * * *
66801458 CATGGTCTTACACTGA-CTATCAT-CTCGTAGCCGATGCATGTCCCCGACATGTCTTACCCTGGG
66 CATGGTCTTAAACT-ATCTATCATAAT-GTAGCCGATGCATGTCCCAGACATATCTTACCCTGGG
66801521 TTACTCTCGAGG
129 TTACTCTCGAGG
* * * *
66801533 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCCCTTGTCTCGA-TGCAAATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCATATCTCAAGT-C-AATGCCATGTCCCA
* *
66801595 GACATGGTCTTAAACTATCTCTCATAATGTGGCCGATGCATGTCCCAGACATATCTTAC
64 GACATGGTCTTAAACTATCTATCATAATGTAGCCGATGCATGTCCCAGACATATCTTAC
66801654 AGAAGTCACA
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
137 1 0.01
138 22 0.21
139 75 0.71
140 7 0.07
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (140 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCATATCTCAAGTCAATGCCATGTCCCAGA
CATGGTCTTAAACTATCTATCATAATGTAGCCGATGCATGTCCCAGACATATCTTACCCTGGGTT
ACTCTCGAGG
Found at i:66803760 original size:49 final size:49
Alignment explanation
Indices: 66803690--66803929 Score: 234
Period size: 49 Copynumber: 4.8 Consensus size: 49
66803680 TGAGGTCATG
66803690 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
66803739 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCA
** * *
66803790 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATGCAGGCTAC-TA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT--TGG-T-CGCA
* * *
66803842 CGTGTACCGGA-TAA-TGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTA--GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * *
66803891 TGTTTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
66803930 GATTTGGCTA
Statistics
Matches: 154, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
47 2 0.01
48 4 0.03
49 64 0.42
50 5 0.03
51 41 0.27
52 32 0.21
53 4 0.03
54 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:66803833 original size:26 final size:26
Alignment explanation
Indices: 66803804--66803882 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
66803794 TAGTACTAAG
*
66803804 TGCAGGCTACTACGTGTACTGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
66803830 TGCAGGCTACTACGTGTACCGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
66803856 TGCAGGCTACTACGTGTACCGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
66803882 T
1 T
66803883 TGGTCGCATG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (26 bp):
TGCAGGCTACTACGTGTACCGGATAA
Found at i:66803940 original size:101 final size:103
Alignment explanation
Indices: 66803690--66803929 Score: 244
Period size: 100 Copynumber: 2.4 Consensus size: 103
66803680 TGAGGTCATG
* * * * *
66803690 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT--TGG-T-CGCATGTGTA--GTAC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATGCAGGCTAC-TACGTGTACCGGA-
* *
66803749 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
64 TAA-TGCAGGCTACTACGCGTACCCGATAACTTCGATCACA
* **
66803790 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATGCAGGCTACTACGTGTACCGGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATGCAGGCTACTACGTGTACCGGATA
* * * *
66803855 ATGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCA
66 ATGCAGGCTACTACGCGTACCCGATAACTTCGATCACA
* * *
66803891 TGTTTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
66803930 GATTTGGCTA
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
100 39 0.34
101 37 0.32
102 4 0.03
103 30 0.26
104 4 0.03
105 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (103 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATGCAGGCTACTACGTGTACCGGATA
ATGCAGGCTACTACGCGTACCCGATAACTTCGATCACA
Found at i:66808473 original size:49 final size:50
Alignment explanation
Indices: 66808412--66808698 Score: 292
Period size: 49 Copynumber: 5.8 Consensus size: 50
66808402 GATGTCACGC
* *
66808412 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GTTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGATCGCAT
* * * * * *
66808461 TTGTAGTACTAAGTGTAGGCTATTATGCGTACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TTCGATCGCAT
* * * * * *
66808512 GTGTAGTACTAAGTGCAGGCTATTACGTGTATCGGTTAATT-GGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGATCGCAT
* * * * *
66808561 GTGTAGTACTAAGTTCAGGCTACTATGCATACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TTCGATCGCAT
* * * * * * *
66808612 GTGTAGTACTAAGTGCAGCCTAGTACGTGTACTGGATAATT-GGTTGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGATCGCAT
*
66808661 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATA
66808699 GCTTTGGCTA
Statistics
Matches: 187, Mismatches: 47, Indels: 8
0.77 0.19 0.03
Matches are distributed among these distances:
49 106 0.57
50 8 0.04
51 73 0.39
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGATCGCAT
Found at i:66808729 original size:100 final size:100
Alignment explanation
Indices: 66808406--66808698 Score: 428
Period size: 100 Copynumber: 2.9 Consensus size: 100
66808396 TATTGTGATG
* * * *
66808406 TCACGCGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GTTCGCATTTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTT-GCATGTGTAGTAC
* *
66808470 TAAGTGTAGGCTATTATGCGTACCCGATAACTTCGA
65 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
* * *
66808506 TCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTA-TCGGTTAATTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GGATAATTGGTTGCATGTGTAGTAC
* *
66808570 TAAGTTCAGGCTACTATGCATACCCGATAACTTCGA
65 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
* *
66808606 TCACGTGTGTAGTACTAAGTGCAGCCTAGTACGTGTACTGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTTGCATGTGTAGTACT
*
66808671 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCCGATA
66808699 GCTTTGGCTA
Statistics
Matches: 172, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
100 169 0.98
101 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTTGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
Found at i:66815429 original size:22 final size:21
Alignment explanation
Indices: 66815390--66815430 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
66815380 CACCTGACAC
*
66815390 AGGGGCACACGCCCGTGTGGA
1 AGGGGCACACGCCAGTGTGGA
*
66815411 AGGGGCAACACGCTAGTGTG
1 AGGGGC-ACACGCCAGTGTG
66815431 ACTAGGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.24, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCAGTGTGGA
Found at i:66816685 original size:46 final size:47
Alignment explanation
Indices: 66816505--66816767 Score: 165
Period size: 46 Copynumber: 5.6 Consensus size: 47
66816495 TAAGGTGCCA
* *
66816505 ATGCTATGTCCCAGACATGGTCTTACACTA--ACTCATATCTC-AAGTCG
1 ATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCATA-CTCGAGGCCG
* * *
66816552 ATGC-TAGTCCCAAACATGGTCTTACACT-G-ACT-ATCATCTTGCA-GCCA
1 ATGCAT-GTCCCAGACAT-GTCTTACACTAGCACTCAT-A-CTCG-AGGCCG
* * * *
66816599 ATGCATGTCCCCGACATGTCTTAC-CTTG-GCTTATTACTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCA-TACTCGAGGCCG
* * * *
66816645 ATGCATGTCCTAGACATGTCTTACACTAGCACTCGT-CTCGATGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCATACTCGAGGCCG
* * * * *
66816691 ATGCTATGTCCCAGA-ATGGTCTTACACTGGCTCTCATAAT-GTGGCCA
1 ATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCATACTCGAGGCCG
*
66816738 ATGCATGTCCCAAACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
66816768 TCACAATAAC
Statistics
Matches: 172, Mismatches: 28, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
45 6 0.03
46 101 0.59
47 59 0.34
48 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTCATACTCGAGGCCG
Found at i:66820715 original size:42 final size:42
Alignment explanation
Indices: 66820656--66820742 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
66820646 AAATTGAAAG
66820656 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
1 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
66820698 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
1 TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
66820740 TAT
1 TAT
66820743 ATTAATGTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.41
Consensus pattern (42 bp):
TATGTATAAAGATAGATTGGTTTTCATGGCTTTGTGCTCGAA
Found at i:66843196 original size:232 final size:232
Alignment explanation
Indices: 66842790--66843230 Score: 783
Period size: 232 Copynumber: 1.9 Consensus size: 232
66842780 ACATTCGAAA
* * *
66842790 TGGGATCCCATGGCAGTGTCCCAGCCTGTTTTCGACCCCGTGTAACCCTCTGACTTGGGTTACAC
1 TGGGATCCCATGGCAGTGTCCCAGCCCGTGTTCGACCCCGTGTAACCCTCTGACTTGGGTCACAC
* *
66842855 GGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTGTGCCA
66 AGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTATGCCA
*
66842920 AGTCGTGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
131 AGTCATGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
66842985 AACCCATGTGCTAGTCCGTGTGAAGCTATGGACTTTG
196 AACCCATGTGCTAGTCCGTGTGAAGCTATGGACTTTG
*
66843022 TGGGATCCCATGGCAGTGTCCCAGCCCGTGTTCGACCCCGTGTAACTCTCTGACTTGGGTCACAC
1 TGGGATCCCATGGCAGTGTCCCAGCCCGTGTTCGACCCCGTGTAACCCTCTGACTTGGGTCACAC
* * * *
66843087 AGCCAACCACGCCTGTGTGACTAGCCAGTGTTCCCTTCAAAATTGCCTCACACGCCTGTATGCCA
66 AGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTATGCCA
66843152 AGTCATGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
131 AGTCATGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
66843217 AACCCATGTGCTAG
196 AACCCATGTGCTAG
66843231 GCCCTATGAC
Statistics
Matches: 198, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
232 198 1.00
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.24
Consensus pattern (232 bp):
TGGGATCCCATGGCAGTGTCCCAGCCCGTGTTCGACCCCGTGTAACCCTCTGACTTGGGTCACAC
AGCCAACCACGCCCGTGTGACTAGCCAGTGTACCCTTCAAAATGGCCTCACACGCCCGTATGCCA
AGTCATGTGCTAGGCCGTGTAAAAACTGGAGGGTATATTGACTTATGCCACACAGCCAAGTCACA
AACCCATGTGCTAGTCCGTGTGAAGCTATGGACTTTG
Found at i:66847676 original size:29 final size:29
Alignment explanation
Indices: 66847641--66847786 Score: 202
Period size: 29 Copynumber: 5.0 Consensus size: 29
66847631 GGAATATAAG
* * * *
66847641 GTGATTTGGGCCTAATGGGCCATATAAAG
1 GTGAATTGGGCCTGATGGGCCATATGAAT
* * *
66847670 GTGATTTGGGCCTAATAGGCCATATGAAT
1 GTGAATTGGGCCTGATGGGCCATATGAAT
* *
66847699 ATGAATTGGGCCTGATGGGGCATATGAAT
1 GTGAATTGGGCCTGATGGGCCATATGAAT
66847728 GTGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTGATGGGCCATATGAAT
*
66847757 GTGAATTGGGCCTGATGGGCTATATGAAT
1 GTGAATTGGGCCTGATGGGCCATATGAAT
66847786 G
1 G
66847787 AGATGGGCCA
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 106 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.29
Consensus pattern (29 bp):
GTGAATTGGGCCTGATGGGCCATATGAAT
Found at i:66860096 original size:13 final size:13
Alignment explanation
Indices: 66860078--66860102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66860068 ATGTGATATG
66860078 TGTGAAAATTTTT
1 TGTGAAAATTTTT
66860091 TGTGAAAATTTT
1 TGTGAAAATTTT
66860103 ATCGTTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TGTGAAAATTTTT
Found at i:66860652 original size:28 final size:29
Alignment explanation
Indices: 66860621--66860677 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
66860611 AAAGTGATTT
* *
66860621 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATATAAATTGAGGGATTAAA
* *
66860649 TTGAGAAAAATATAAATTGAGGGGTTAAA
1 TTGACAAAAATATAAATTGAGGGATTAAA
66860678 GTGTAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (29 bp):
TTGACAAAAATATAAATTGAGGGATTAAA
Found at i:66861275 original size:47 final size:47
Alignment explanation
Indices: 66861218--66861348 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
66861208 GTGTGAATAA
* *
66861218 TACCTTGATTTGGATACGGGCCATGATATAGGTACTTTGAGAGAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTTCGAGAGAAGT
* * * *
66861265 TACCTTGATTTGTCTACGGGCCATGATATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTTCGAGAGAAGT
* *
66861312 TACCTTGATTTGGCTACGGGTCATGGTATAGGTACTT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTT
66861349 ATCGATTGAG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTTCGAGAGAAGT
Found at i:66873936 original size:45 final size:45
Alignment explanation
Indices: 66873806--66873938 Score: 112
Period size: 45 Copynumber: 3.0 Consensus size: 45
66873796 ATGCTACCTC
* * * * * *
66873806 ATATCGATGCCACTGTCCCAGAAAGGGTCTTACAAG-AATCA-A-
1 ATATCCATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
* * * * * *
66873848 ATA-CAATGCCGATGTCTCAGACATGGTCTTACATGTAACCACAT
1 ATATCCATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
* *
66873892 ATATCCATGCCAATGTCCCAGACGTGGTCTTGCACGAAAACACAT
1 ATATCCATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
66873937 AT
1 AT
66873939 CGAAAATCCT
Statistics
Matches: 71, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
41 25 0.35
42 7 0.10
43 1 0.01
44 3 0.04
45 35 0.49
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (45 bp):
ATATCCATGCCAATGTCCCAGACATGGTCTTACACGAAAACACAT
Found at i:66874107 original size:15 final size:14
Alignment explanation
Indices: 66874066--66874107 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
66874056 ATTCAACTAA
66874066 CACATATATAATTT
1 CACATATATAATTT
*
66874080 CACATATTTAATTT
1 CACATATATAATTT
*
66874094 CAGCATATAAAATT
1 CA-CATATATAATT
66874108 CATATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (14 bp):
CACATATATAATTT
Found at i:66875437 original size:24 final size:24
Alignment explanation
Indices: 66875371--66875484 Score: 94
Period size: 23 Copynumber: 4.8 Consensus size: 24
66875361 GGACTCACCA
* *
66875371 CAGCTCATATGAGCTTATTGATATAT
1 CAGCTCATATGAGCTTACT-AT-TTT
* * *
66875397 CAACTCGTAAGAGCTTACTATTTT
1 CAGCTCATATGAGCTTACTATTTT
* *
66875421 TAGCTCAT-TGGAGCTTACT-GTTT
1 CAGCTCATAT-GAGCTTACTATTTT
66875444 CAGCTCATATGAGCTTACTA--TT
1 CAGCTCATATGAGCTTACTATTTT
66875466 CAGCTCA-ATAGAGCTTACT
1 CAGCTCATAT-GAGCTTACT
66875485 GTTTAGCTCG
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
21 2 0.03
22 18 0.25
23 19 0.26
24 17 0.23
25 2 0.03
26 15 0.21
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (24 bp):
CAGCTCATATGAGCTTACTATTTT
Found at i:66875457 original size:23 final size:23
Alignment explanation
Indices: 66875371--66875542 Score: 113
Period size: 22 Copynumber: 7.3 Consensus size: 23
66875361 GGACTCACCA
*
66875371 CAGCTCATATGAGCTTATTGATATAT
1 CAGCTCATATGAGCTTACTG-T-T-T
* * * *
66875397 CAACTCGTAAGAGCTTACTATTTT
1 CAGCTCATATGAGCTTACT-GTTT
*
66875421 TAGCTCAT-TGGAGCTTACTGTTT
1 CAGCTCATAT-GAGCTTACTGTTT
*
66875444 CAGCTCATATGAGCTTACT-ATT
1 CAGCTCATATGAGCTTACTGTTT
66875466 CAGCTCA-ATAGAGCTTACTGTTT
1 CAGCTCATAT-GAGCTTACTGTTT
* *
66875489 -AGCTCGATA-GAGCTTGCCGTTT
1 CAGCTC-ATATGAGCTTACTGTTT
* *
66875511 GAGCTTAT-TAGAGCTTACTGTTCAT
1 CAGCTCATAT-GAGCTTACTGTT--T
66875536 CAGCTCA
1 CAGCTCA
66875543 AGAGCATATA
Statistics
Matches: 114, Mismatches: 20, Indels: 25
0.72 0.13 0.16
Matches are distributed among these distances:
21 2 0.02
22 36 0.32
23 36 0.32
24 17 0.15
25 7 0.06
26 16 0.14
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (23 bp):
CAGCTCATATGAGCTTACTGTTT
Found at i:66875481 original size:45 final size:45
Alignment explanation
Indices: 66875406--66875532 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
66875396 TCAACTCGTA
* * *
66875406 AGAGCTTACTATTTTTAGCTCATTGGAGCTTACTGTTTCAGCTC-AT
1 AGAGCTTACTA-TTTCAGCTCAATAGAGCTTACTGTTT-AGCTCGAT
66875452 ATGAGCTTACTA-TTCAGCTCAATAGAGCTTACTGTTTAGCTCGAT
1 A-GAGCTTACTATTTCAGCTCAATAGAGCTTACTGTTTAGCTCGAT
* ** * * *
66875497 AGAGCTTGCCGTTTGAGCTTATTAGAGCTTACTGTT
1 AGAGCTTACTATTTCAGCTCAATAGAGCTTACTGTT
66875533 CATCAGCTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
44 12 0.17
45 46 0.67
46 1 0.01
47 10 0.14
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (45 bp):
AGAGCTTACTATTTCAGCTCAATAGAGCTTACTGTTTAGCTCGAT
Found at i:66877185 original size:92 final size:93
Alignment explanation
Indices: 66877085--66877330 Score: 363
Period size: 92 Copynumber: 2.7 Consensus size: 93
66877075 ATCAAATAGT
* *
66877085 GGTACGTAGCGTAGCTAACATACATGCGGTATAGTGCAATGCAGTAATCTGCTATACCA-ATACG
1 GGTACGTAGCGTAGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATACCAGATACG
66877149 TTGCAGTAAAACTACCAATTCAGTCAAA
66 TTGCAGTAAAACTACCAATTCAGTCAAA
* * *
66877177 GGTACGTAGTGTTGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATA-CAGATAGG
1 GGTACGTAGCGTAGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATACCAGATACG
* * *
66877241 TTGCAGTAAAACTGCCAGTTTAGTCAAA
66 TTGCAGTAAAACTACCAATTCAGTCAAA
* * * *
66877269 GGTACGTAGCGTACCTAACGTACATGCAGTACAGTGCAATGCGGTAATCCGCTATACC-GATA
1 GGTACGTAGCGTAGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATACCAGATA
66877331 TTGGTAAAGT
Statistics
Matches: 138, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
91 2 0.01
92 135 0.98
93 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (93 bp):
GGTACGTAGCGTAGCTAACGTACATGCGGTATAGTGCAATGCAGTAATCCGCTATACCAGATACG
TTGCAGTAAAACTACCAATTCAGTCAAA
Found at i:66878690 original size:22 final size:22
Alignment explanation
Indices: 66878662--66878708 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
66878652 AAACACACAG
66878662 TAAGTACAAAATTCTACATTTC
1 TAAGTACAAAATTCTACATTTC
66878684 TAAGTACAAAATTCTACATTTC
1 TAAGTACAAAATTCTACATTTC
66878706 TAA
1 TAA
66878709 CATTACAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (22 bp):
TAAGTACAAAATTCTACATTTC
Found at i:66881955 original size:41 final size:43
Alignment explanation
Indices: 66881883--66881978 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 43
66881873 ACACATATCG
* *
66881883 TACATGTAATCACATATCGATGCCATAGTCCCAGACAGGGTCT
1 TACATGTAATCAAATATCGATGCCATAGTCCCAAACAGGGTCT
* *
66881926 TACATG-AATCAAATA-CGATGTCGAT-GTCCCAAACATGGTCT
1 TACATGTAATCAAATATCGATG-CCATAGTCCCAAACAGGGTCT
*
66881967 TACACGTAATCA
1 TACATGTAATCA
66881979 CATGTTAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 24 0.52
42 16 0.35
43 6 0.13
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
TACATGTAATCAAATATCGATGCCATAGTCCCAAACAGGGTCT
Found at i:66883448 original size:92 final size:92
Alignment explanation
Indices: 66883267--66883440 Score: 276
Period size: 92 Copynumber: 1.9 Consensus size: 92
66883257 CAGCTATACC
* * * * *
66883267 GATAGGTTGCAGTAAAACTACCAGTTCAGTCAAAGGTACGTAGCGTAGCTAACGTACATGCGATA
1 GATAGGTTGCAGTAAAACAACCAATTCAATCAAAGATACATAGCGTAGCTAACGTACATGCGATA
*
66883332 CAGTGCAATGTGGTAATACACTATAGT
66 CAGTGCAATGCGGTAATACACTATAGT
* *
66883359 GATAGGTTGCAGTAAAACAACCAATTCAATCAAAGATACATAGCGTAGCTAACGTACATGTGGTA
1 GATAGGTTGCAGTAAAACAACCAATTCAATCAAAGATACATAGCGTAGCTAACGTACATGCGATA
66883424 CAGTGCAATGCGGTAAT
66 CAGTGCAATGCGGTAAT
66883441 CTGCTATACC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (92 bp):
GATAGGTTGCAGTAAAACAACCAATTCAATCAAAGATACATAGCGTAGCTAACGTACATGCGATA
CAGTGCAATGCGGTAATACACTATAGT
Found at i:66893094 original size:47 final size:48
Alignment explanation
Indices: 66893019--66893287 Score: 218
Period size: 46 Copynumber: 5.7 Consensus size: 48
66893009 GTAAGGTGCT
* * *
66893019 GATGCCATGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
* * *
66893066 GATGCTATGTCCCAGACATGGTCGTACACTGACT-ATCATCTCGTAGCC
1 GATGC-ATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
* * * *
66893114 GATGCATGTCCCAAACAT-GTCTTACACTGGCTTA-CGTCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
* * * * * *
66893160 AATGCATGCCCCAGACAT-GTCTTACACTAGC-CCTCGTCTC-AATGTC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA-GCC
* * **
66893206 GATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAAT-GTGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCGAAGCC
* *
66893254 GATGCAAGTCCCAGACAT-GTCTTACACTAGCTCA
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCA
66893288 CACACGACTG
Statistics
Matches: 178, Mismatches: 32, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 76 0.43
47 70 0.39
48 29 0.16
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
Found at i:66893165 original size:46 final size:46
Alignment explanation
Indices: 66893019--66893239 Score: 171
Period size: 47 Copynumber: 4.7 Consensus size: 46
66893009 GTAAGGTGCT
* * * * ** * *
66893019 GATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTCAAGTC
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCTTACGTCTCGAGCC
* * * *
66893066 GATGCTATGTCCCAGACATGGTCGTACACTGAC-TATCATCTCGTAGCC
1 GATGC-ATGTCCCAAACATGGTCTTACACTGGCTTA-CGTCTCG-AGCC
66893114 GATGCATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAAACATGGTCTTACACTGGCTTACGTCTCGA-GCC
* * * * * * *
66893160 AATGCATGCCCCAGACAT-GTCTTACACTAGCCCT-CGTCTCAATGTC
1 GATGCATGTCCCAAACATGGTCTTACACT-GGCTTACGTCTCGA-GCC
66893206 GATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCT
66893240 CTCATAATGT
Statistics
Matches: 141, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 59 0.42
47 63 0.45
48 18 0.13
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGGTCTTACACTGGCTTACGTCTCGAGCC
Found at i:66893268 original size:94 final size:92
Alignment explanation
Indices: 66893113--66893284 Score: 240
Period size: 94 Copynumber: 1.8 Consensus size: 92
66893103 ATCTCGTAGC
* * *
66893113 CGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAGGCCAATGCATGCCCCAGACAT
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAGGCCAATGCAAGCCCCAGACAT
66893178 GTCTTACACTAGCCCTCGTCTCAATGT
66 GTCTTACACTAGCCCTCGTCTCAATGT
* * *
66893205 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCAAGTCCCAG
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCAATGCAAGCCCCAG
66893268 ACATGTCTTACACTAGC
62 ACATGTCTTACACTAGC
66893285 TCACACACGA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 5 0.07
93 14 0.20
94 49 0.70
95 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (92 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAGGCCAATGCAAGCCCCAGACAT
GTCTTACACTAGCCCTCGTCTCAATGT
Found at i:66896158 original size:14 final size:14
Alignment explanation
Indices: 66896139--66896167 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
66896129 ATCATCGATG
66896139 CCGTAGGTTCAACT
1 CCGTAGGTTCAACT
66896153 CCGTAGGTTCAACT
1 CCGTAGGTTCAACT
66896167 C
1 C
66896168 TTTTTGAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (14 bp):
CCGTAGGTTCAACT
Done.