Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 264 of 345
Found at i:78313623 original size:12 final size:12
Alignment explanation
Indices: 78313606--78313630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78313596 ATGTAAGTGA
78313606 TCTTGATGATTT
1 TCTTGATGATTT
78313618 TCTTGATGATTT
1 TCTTGATGATTT
78313630 T
1 T
78313631 TACATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:78314421 original size:47 final size:47
Alignment explanation
Indices: 78314348--78314659 Score: 221
Period size: 47 Copynumber: 6.6 Consensus size: 47
78314338 GATTACTTAT
* * *
78314348 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
*
78314394 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTA-GA-GATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACGATGATGA
** * *
78314442 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
* * * * * ** *
78314489 -TAGCCAGTGTAAGACGTGCCTGGGACATGTATTGG-C-TGAAAAT-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
* * **
78314533 GTGCTAGTGTAAGACATGTTTGGGACATGCATC-ATCACGTAT-ATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-ATGAT--GA
* * * * *
78314581 GAGCTAGTGTAAGACCATGTCTCGGACATGGCATTGGCCTCGATGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGATGATGA
*
78314630 -TAGCAAGTGTAAGACCATGTCTGGGACATG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACATG
78314660 GAATCGGCAA
Statistics
Matches: 209, Mismatches: 38, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
44 26 0.12
45 8 0.04
46 24 0.11
47 59 0.28
48 40 0.19
49 41 0.20
50 6 0.03
51 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
Found at i:78318485 original size:22 final size:22
Alignment explanation
Indices: 78318460--78318504 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
78318450 AGACATTCCA
78318460 AAAACTGCATTCAGAACGAGGT
1 AAAACTGCATTCAGAACGAGGT
78318482 AAAACTGCATTCAGAACGAGGT
1 AAAACTGCATTCAGAACGAGGT
78318504 A
1 A
78318505 TGGCCACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (22 bp):
AAAACTGCATTCAGAACGAGGT
Found at i:78327788 original size:40 final size:40
Alignment explanation
Indices: 78327733--78327942 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
78327723 AACATTGGAA
78327733 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78327773 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78327813 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
78327853 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
78327892 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
78327933 CTATATCCGG
1 ATATATCCGG
78327943 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:78335918 original size:40 final size:40
Alignment explanation
Indices: 78335863--78336072 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
78335853 AACATTGGAA
78335863 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78335903 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78335943 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
78335983 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
78336022 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
78336063 CTATATCCGG
1 ATATATCCGG
78336073 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:78338546 original size:47 final size:44
Alignment explanation
Indices: 78338428--78338601 Score: 181
Period size: 45 Copynumber: 3.8 Consensus size: 44
78338418 GGGATATTTG
*
78338428 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC
* * *
78338473 GACGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAAC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---C
*
78338518 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 --GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC
* ** *
78338565 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 G-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
78338602 TATGGGCGGG
Statistics
Matches: 108, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 33 0.31
46 31 0.29
47 32 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (44 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGC
Found at i:78338597 original size:46 final size:46
Alignment explanation
Indices: 78338433--78338606 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
78338423 ATTTGGGCAT
*
78338433 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ACGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
78338478 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
78338523 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
78338571 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78338607 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 6 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:78341575 original size:15 final size:15
Alignment explanation
Indices: 78341555--78341623 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
78341545 GTATCTTGGG
78341555 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
78341570 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
78341585 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
78341600 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
78341615 TTTCTTTAT
1 TTTCTTTAT
78341624 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:78341624 original size:30 final size:30
Alignment explanation
Indices: 78341546--78341633 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
78341536 CATAGTATCG
* * * *
78341546 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
78341576 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
78341606 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
78341634 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:78344071 original size:46 final size:46
Alignment explanation
Indices: 78344018--78344193 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
78344008 TATTTGGGCA
78344018 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
78344064 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
78344111 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
78344157 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78344194 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 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:78344173 original size:93 final size:93
Alignment explanation
Indices: 78344014--78344185 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
78344004 GGGATATTTG
* *
78344014 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
78344079 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
78344107 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
78344172 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
78344186 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:78347159 original size:15 final size:15
Alignment explanation
Indices: 78347139--78347207 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
78347129 GTATCTTGGG
78347139 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
78347154 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
78347169 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
78347184 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
78347199 TTTCTTTAT
1 TTTCTTTAT
78347208 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:78347208 original size:30 final size:30
Alignment explanation
Indices: 78347130--78347217 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
78347120 CATAGTATCG
* * * *
78347130 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
78347160 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
78347190 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
78347218 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:78349651 original size:46 final size:46
Alignment explanation
Indices: 78349601--78349776 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
78349591 TATTTGGGCA
78349601 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
78349647 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
78349694 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
78349740 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78349777 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 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:78349756 original size:93 final size:93
Alignment explanation
Indices: 78349597--78349768 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
78349587 TGGATATTTG
* *
78349597 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
78349662 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
78349690 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
78349755 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
78349769 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:78352854 original size:25 final size:25
Alignment explanation
Indices: 78352826--78352907 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
78352816 ATGCTCATAT
*
78352826 GAGCTATGAATCAGAATGCTCTCAC
1 GAGCTATGAATCAGTATGCTCTCAC
** * *
78352851 GAGCTATGAATTGGTATACTCTTAC
1 GAGCTATGAATCAGTATGCTCTCAC
*
78352876 GAGCTATAAATCAGTATGCTCTCAC
1 GAGCTATGAATCAGTATGCTCTCAC
*
78352901 GGGCTAT
1 GAGCTAT
78352908 AAATTGGTAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (25 bp):
GAGCTATGAATCAGTATGCTCTCAC
Found at i:78358032 original size:40 final size:40
Alignment explanation
Indices: 78357932--78358045 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 40
78357922 TTCGAATGGT
* * * *
78357932 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTGACAAA
* * *
78357973 ATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGA-CAAA
*
78358014 AT-CGGGTTAAGTCTCGAAGGCATTTGTGCGAG
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
78358046 CTATTATAAC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 31 0.50
41 31 0.50
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACAAA
Found at i:78358072 original size:40 final size:38
Alignment explanation
Indices: 78357934--78358086 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 38
78357924 CGAATGGTAT
* *
78357934 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAA
* *
78357974 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAG-TA-CTAAA
* * * *
78358015 TCGGGTTAAGTCTCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTA-AA
* * *
78358055 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
78358087 CGCTATATCC
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
39 2 0.02
40 59 0.65
41 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (38 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:78362052 original size:34 final size:34
Alignment explanation
Indices: 78362009--78362077 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
78361999 TTCTTTATGA
78362009 AAACATGTTTTAAAAAGTCAAGAGATACCACACT
1 AAACATGTTTTAAAAAGTCAAGAGATACCACACT
*
78362043 AAACATGTTTTTAAAAGTCAAGAGATACCACACT
1 AAACATGTTTTAAAAAGTCAAGAGATACCACACT
78362077 A
1 A
78362078 TCACAGGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (34 bp):
AAACATGTTTTAAAAAGTCAAGAGATACCACACT
Found at i:78362932 original size:21 final size:23
Alignment explanation
Indices: 78362892--78362933 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
78362882 ATAGGCATGT
*
78362892 TTACCTTAGCACATAACATATAG
1 TTACCTTAGCACAAAACATATAG
78362915 TTACCTTA-C-CAAAACATAT
1 TTACCTTAGCACAAAACATAT
78362934 CAAATGAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 1 0.06
23 8 0.44
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (23 bp):
TTACCTTAGCACAAAACATATAG
Found at i:78363266 original size:294 final size:293
Alignment explanation
Indices: 78362738--78363330 Score: 1035
Period size: 294 Copynumber: 2.0 Consensus size: 293
78362728 TACACATGCC
* *
78362738 ATAATAAGGCACCAAAACCATGGATATTCTAGCCTTATGTAAATGATATGATCACATACAACCAA
1 ATAATAAGGCACCAAAACCATGCATATTCTAGCCTTATGTAAATCATATGATCACATACAACCAA
* *** *
78362803 GATGGACTTAGGGTGCTTAAATGAAAATATATAAACATGTATAACTATGTTTAAATATGGCCAAT
66 GATGCACTTAGGCACCTCAAATGAAAATATATAAACATGTATAACTATGTTTAAATATGGCCAAT
*
78362868 TAATCAACTAATTCATAGGCATGTTTACCTTAGCACATAACATATAGTTACCTTACCAAAACATA
131 TAATCAACTAATTCATAGGCATGTTTACCTTAGCACACAACATATAGTTACCTTACCAAAACATA
*
78362933 TCAAATGAGACCAATTAAACCACTCAATCATTAGCCTAAAAAATGCATATATGTCTTCCAAAACA
196 TCAAATGAGACCAATTAAACCACTCAATCATTAGCCTAAAAAATACATATATGTCTTCCAAAACA
78362998 AAGTACCAATTCACAACAAGTTTTAAGACATAT
261 AAGTACCAATTCACAACAAGTTTTAAGACATAT
78363031 ATAATAAGGCACCAAAACCATGCATATTCTAGCCTTATGTAAATCATATGATCACATACAACCAA
1 ATAATAAGGCACCAAAACCATGCATATTCTAGCCTTATGTAAATCATATGATCACATACAACCAA
* *
78363096 TATGCCCTTAGGCACCTCAAATGAAAATATATAAACATGTATAACTATGTTTTAAATATGGCCAA
66 GATGCACTTAGGCACCTCAAATGAAAATATATAAACATGTATAACTATG-TTTAAATATGGCCAA
* *
78363161 TTAATCAACTAATTTATAGGCATGTTTACTTTAGCACACAACATATAGTTACCTTACCAAAACAT
130 TTAATCAACTAATTCATAGGCATGTTTACCTTAGCACACAACATATAGTTACCTTACCAAAACAT
78363226 ATCAAAT-AGTACCAATTAAACCACTCAATCATTAGCCTAAAAAATACATATATGTCTTCCAAAA
195 ATCAAATGAG-ACCAATTAAACCACTCAATCATTAGCCTAAAAAATACATATATGTCTTCCAAAA
78363290 CAAAGTACCAATTCACAACAAGTTTTAAGACATAT
259 CAAAGTACCAATTCACAACAAGTTTTAAGACATAT
*
78363325 GTAATA
1 ATAATA
78363331 TGCACATTCA
Statistics
Matches: 284, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
293 107 0.38
294 177 0.62
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (293 bp):
ATAATAAGGCACCAAAACCATGCATATTCTAGCCTTATGTAAATCATATGATCACATACAACCAA
GATGCACTTAGGCACCTCAAATGAAAATATATAAACATGTATAACTATGTTTAAATATGGCCAAT
TAATCAACTAATTCATAGGCATGTTTACCTTAGCACACAACATATAGTTACCTTACCAAAACATA
TCAAATGAGACCAATTAAACCACTCAATCATTAGCCTAAAAAATACATATATGTCTTCCAAAACA
AAGTACCAATTCACAACAAGTTTTAAGACATAT
Found at i:78366932 original size:25 final size:25
Alignment explanation
Indices: 78366904--78366992 Score: 115
Period size: 25 Copynumber: 3.6 Consensus size: 25
78366894 GCTCATACAT
*
78366904 GCTATAAATTGGTATGCTCTTATGA
1 GCTATAAATCGGTATGCTCTTATGA
* *
78366929 GCTATGAATCGATATGCTCTTATGA
1 GCTATAAATCGGTATGCTCTTATGA
* *
78366954 GCTATAAATCAGTATGCTCTTACGA
1 GCTATAAATCGGTATGCTCTTATGA
* *
78366979 GCTACAAATAGGTA
1 GCTATAAATCGGTA
78366993 ACCCTAATGA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (25 bp):
GCTATAAATCGGTATGCTCTTATGA
Found at i:78369859 original size:18 final size:18
Alignment explanation
Indices: 78369836--78369872 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
78369826 CAGTACTCAA
78369836 TTCATTACCGTACGTACT
1 TTCATTACCGTACGTACT
78369854 TTCATTACCGTACGTACT
1 TTCATTACCGTACGTACT
78369872 T
1 T
78369873 GTACCATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.41
Consensus pattern (18 bp):
TTCATTACCGTACGTACT
Found at i:78382960 original size:30 final size:30
Alignment explanation
Indices: 78382902--78382960 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
78382892 TTTACGAGCC
* * **
78382902 TAGGGGCTAAGCTATAATTATGTGAAAATT
1 TAGGGGCAAAACTATAATTATGCCAAAATT
*
78382932 TAGGGGCAAAACTATAATTTTGCCAAAAT
1 TAGGGGCAAAACTATAATTATGCCAAAAT
78382961 ATGATTTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAACTATAATTATGCCAAAATT
Found at i:78388712 original size:34 final size:34
Alignment explanation
Indices: 78388668--78388754 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
78388658 TGTATTGAGT
* * * * *
78388668 TGGGCCAAGGCTCATACTGATATTGCTACTG-TAA
1 TGGGCTAAGGCCCACACTGATAATGCGACTGAT-A
78388702 TGGGCTAAGGCCCACACTGATAATGCGACTGATA
1 TGGGCTAAGGCCCACACTGATAATGCGACTGATA
* *
78388736 TGGGCTTAGGCCCAGACTG
1 TGGGCTAAGGCCCACACTG
78388755 TTCAACACTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 44 0.98
35 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATAATGCGACTGATA
Found at i:78390440 original size:27 final size:26
Alignment explanation
Indices: 78390403--78390510 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
78390393 AGCATGGCTG
*
78390403 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
78390429 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
78390456 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
78390483 CTAGAAACAGATAATGTGACAAAGCCA
1 CCAG-AACAGATATTGTGACAGAGCCA
78390510 C
1 C
78390511 TTAACAGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 12 0.17
27 52 0.72
28 8 0.11
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:78390697 original size:22 final size:22
Alignment explanation
Indices: 78390669--78390733 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
78390659 GCAAATACGT
*
78390669 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
78390691 TTGGCACAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
78390713 TTGGTGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
78390734 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:78391154 original size:27 final size:27
Alignment explanation
Indices: 78391124--78391262 Score: 165
Period size: 27 Copynumber: 5.1 Consensus size: 27
78391114 GCAAAATTGC
* * *
78391124 AATTTTACCCCACAAGGGTATCTCGAT
1 AATTCTACCCTACAAGGGTATTTCGAT
* *
78391151 AATTCTACCCTACAGGGGCATTTCGAT
1 AATTCTACCCTACAAGGGTATTTCGAT
* *
78391178 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGAT
*
78391205 AATTCTACCCTACAGGGGTATTTC-AGT
1 AATTCTACCCTACAAGGGTATTTCGA-T
*
78391232 AATTCTACCCTAC-AGGGATATTTCAAT
1 AATTCTACCCTACAAGGG-TATTTCGAT
78391259 AATT
1 AATT
78391263 TTGTAAATCA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
26 3 0.03
27 92 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGAT
Found at i:78391228 original size:54 final size:54
Alignment explanation
Indices: 78391125--78391262 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
78391115 CAAAATTGCA
* *
78391125 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGCATTTC-GAT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGCATTTCAG-T
* *
78391178 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGCATTTCAGT
* *
78391232 AATTCTACCCTAC-AGGGATATTTCAATAATT
1 ATTTCTACCCTACAAGGG-TATTTCGATAATT
78391263 TTGTAAATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
53 8 0.11
54 66 0.88
55 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGCATTTCAGT
Found at i:78391313 original size:27 final size:27
Alignment explanation
Indices: 78391283--78391424 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 27
78391273 AGGGTAAAAC
** * *
78391283 GGTAATTTTGTAAATCGGGGGTACTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
* *
78391310 GGTAATTTTACAAGT-TGAGGGTATTTT
1 GGTAATTTTACAAATCAG-GGGTATTTT
78391337 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATC-AGGGGTATTTT
* *
78391364 GGTAATTTTACAAACCAGAGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
* *
78391391 GGTAATTTTATAAA-CTAAGGGTATTTT
1 GGTAATTTTACAAATC-AGGGGTATTTT
*
78391418 AGTAATT
1 GGTAATT
78391425 CTACCCTACA
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.02
27 94 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.42
Consensus pattern (27 bp):
GGTAATTTTACAAATCAGGGGTATTTT
Found at i:78391387 original size:54 final size:54
Alignment explanation
Indices: 78391300--78391424 Score: 171
Period size: 54 Copynumber: 2.3 Consensus size: 54
78391290 TTGTAAATCG
* ***
78391300 GGGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTTGGTAATTTTACAAACTA
1 GGGGTATTTTGGTAATTTTACAACCAGAGGGTATTTTGGTAATTTTACAAACTA
*
78391354 GGGGTATTTTGGTAATTTTACAAACCAGA-GGTATTTTGGTAATTTTATAAACTA
1 GGGGTATTTTGGTAATTTTAC-AACCAGAGGGTATTTTGGTAATTTTACAAACTA
* *
78391408 AGGGTATTTTAGTAATT
1 GGGGTATTTTGGTAATT
78391425 CTACCCTACA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
54 59 0.94
55 4 0.06
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (54 bp):
GGGGTATTTTGGTAATTTTACAACCAGAGGGTATTTTGGTAATTTTACAAACTA
Found at i:78395006 original size:20 final size:20
Alignment explanation
Indices: 78394981--78395027 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
78394971 AATTTGATAT
78394981 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
78395001 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78395021 ACATGAT
1 ACATGAT
78395028 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:78395135 original size:26 final size:25
Alignment explanation
Indices: 78395075--78395145 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
78395065 AGGAAGTGCA
* **
78395075 AAAAGGGC-TATGCCCCAGTTTCTT
1 AAAAGGGCTTTTGCCCCAGTTTCCG
78395099 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTT-CCG
*
78395125 AAAAGGGCTTTTGCCCTAGTT
1 AAAAGGGCTTTTGCCCCAGTT
78395146 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.20
25 12 0.29
26 21 0.51
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTCCG
Found at i:78401192 original size:10 final size:10
Alignment explanation
Indices: 78401177--78401201 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
78401167 ATAGGATTAG
78401177 TCTTCTTTTT
1 TCTTCTTTTT
78401187 TCTTCTTTTT
1 TCTTCTTTTT
78401197 TCTTC
1 TCTTC
78401202 CCTAGCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TCTTCTTTTT
Found at i:78402396 original size:20 final size:20
Alignment explanation
Indices: 78402371--78402437 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
78402361 AATTTGATAT
78402371 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
78402391 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78402411 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78402431 ACATGAT
1 ACATGAT
78402438 GTATTCATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:78402398 original size:11 final size:11
Alignment explanation
Indices: 78402382--78402437 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
78402372 CATGATTGAT
78402382 ATGATATGCAC
1 ATGATATGCAC
*
78402393 ATGATATG--T
1 ATGATATGCAC
78402402 ATGATATGCAC
1 ATGATATGCAC
*
78402413 ATGATATG--T
1 ATGATATGCAC
78402422 ATGATATGCAC
1 ATGATATGCAC
78402433 ATGAT
1 ATGAT
78402438 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:78402451 original size:40 final size:39
Alignment explanation
Indices: 78402371--78402451 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
78402361 AATTTGATAT
*
78402371 ACATGATTGATATGATATGCACATGATATGTATGATATGC
1 ACATGATTGATATGATATGCACATGA-ATGTATCATATGC
78402411 ACATGATATG-TATGATATGCACATG-ATGTATTCATAATGC
1 ACATGAT-TGATATGATATGCACATGAATGTA-TCAT-ATGC
78402451 A
1 A
78402452 TTGGGTTGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 27 0.73
41 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (39 bp):
ACATGATTGATATGATATGCACATGAATGTATCATATGC
Found at i:78402556 original size:24 final size:25
Alignment explanation
Indices: 78402485--78402567 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
78402475 AGGAAGTGCA
* **
78402485 AAAAGGGC-TATGCCCCAGTTTACCA
1 AAAAGGGCTTTTGCCCCAGTTTA-TT
78402510 AAAAGGG-TTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
78402534 AAAAGGGCTTTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
78402558 AAAAGAGGCT
1 AAAAG-GGCT
78402568 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
24 17 0.33
25 35 0.67
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:78402577 original size:25 final size:24
Alignment explanation
Indices: 78402521--78402581 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
78402511 AAAGGGTTTT
**
78402521 GCCCCAGTTTATTAAAAGGGCTTTT
1 GCCCCAG-TTATTAAAAGGGCTTAG
78402546 GCCCCAGTTATTAAAAGAGGC-TAG
1 GCCCCAGTTATTAAAAG-GGCTTAG
78402570 GCCTCCAGTTAT
1 GCC-CCAGTTAT
78402582 ATGATAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
GCCCCAGTTATTAAAAGGGCTTAG
Found at i:78414667 original size:40 final size:40
Alignment explanation
Indices: 78414622--78414789 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
78414612 CGGAATATAA
78414622 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
78414662 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
78414702 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
78414742 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
78414782 CCGGATAT
1 CCGGATAT
78414790 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:78418728 original size:43 final size:41
Alignment explanation
Indices: 78418674--78418864 Score: 165
Period size: 43 Copynumber: 4.5 Consensus size: 41
78418664 TGAGATTACA
*
78418674 TGTAAGACCATGTCT-GGATCCTTGGCATTGTATTGTGATTATG
1 TGTAAGACCATGTCTGGGA-CATTGGCATTGTA-T-TGATTATG
*
78418717 TGTAAGACCATGTCTGGGACATTGGCATCAT-TATACGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCAT--TGTAT-TGATTATG
* * *
78418760 TGTAAGACCATGTCTGGGACATCGGCATCGTCAATTGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATTGT--ATTGATTATG
* * *
78418803 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATATG-TTA-G
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TAT-TGATTATG
*
78418844 CATGTAAGACCATATCTGGGA
1 --TGTAAGACCATGTCTGGGA
78418865 TATGACATTG
Statistics
Matches: 125, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 110 0.88
44 8 0.06
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGATTATG
Found at i:78418817 original size:86 final size:86
Alignment explanation
Indices: 78418673--78418865 Score: 225
Period size: 86 Copynumber: 2.2 Consensus size: 86
78418663 ATGAGATTAC
* * * *
78418673 ATGTAAGACCATGTCT-GGATCCTTGGCATTGTATTGTGATTATGTGTAAGACCATGTCTGGGAC
1 ATGTAAGACCATGTCTGGGATCATCGGCATCGTAATGTGATTATGTGTAAGACCATGTCTGGGAC
*
78418737 ATTGGCATC-ATTATACGATTATG
66 AGTGGCATCGA-TATACG-TTA-G
* *
78418760 -TGTAAGACCATGTCTGGGA-CATCGGCATCGTCAAT-TGATTTTGTGTAAGACCCTGTCTGGGA
1 ATGTAAGACCATGTCTGGGATCATCGGCATCGT-AATGTGATTATGTGTAAGACCATGTCTGGGA
*
78418822 CAGTGGCATCGATATATGTTAG
65 CAGTGGCATCGATATACGTTAG
*
78418844 CATGTAAGACCATATCTGGGAT
1 -ATGTAAGACCATGTCTGGGAT
78418866 ATGACATTGT
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
84 1 0.01
85 3 0.03
86 81 0.89
87 6 0.07
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (86 bp):
ATGTAAGACCATGTCTGGGATCATCGGCATCGTAATGTGATTATGTGTAAGACCATGTCTGGGAC
AGTGGCATCGATATACGTTAG
Found at i:78423015 original size:20 final size:20
Alignment explanation
Indices: 78422990--78423030 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
78422980 ACTAAAATGC
78422990 AAAATTCTGAAATTTGATGA
1 AAAATTCTGAAATTTGATGA
* *
78423010 AAAATTTTGAAATTTTATGA
1 AAAATTCTGAAATTTGATGA
78423030 A
1 A
78423031 TACATGTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (20 bp):
AAAATTCTGAAATTTGATGA
Found at i:78425593 original size:58 final size:58
Alignment explanation
Indices: 78425519--78425687 Score: 286
Period size: 58 Copynumber: 2.9 Consensus size: 58
78425509 ATAAACAATA
*
78425519 GTCGAAACCATACCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATG
1 GTCGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATG
* *
78425577 GTCGAAACCATCCCTTTTCATATTCAATGGTCATCACCATCCCTTTTCATATTTGATG
1 GTCGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATG
*
78425635 GTCGAAACCATCCCTTTTCATATTCGATCGTCGTCACCA-CCCTTTTTCATATT
1 GTCGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCC-TTTTCATATT
78425688 CGATAGGCGT
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
57 3 0.03
58 101 0.97
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.38
Consensus pattern (58 bp):
GTCGAAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATG
Found at i:78425698 original size:29 final size:29
Alignment explanation
Indices: 78425525--78425691 Score: 228
Period size: 29 Copynumber: 5.8 Consensus size: 29
78425515 AATAGTCGAA
*
78425525 ACCATACCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
78425554 ACCATCCCTTTTCATATTTGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
78425583 ACCATCCCTTTTCATATTCAATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
78425612 ACCATCCCTTTTCATATTTGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
78425641 ACCATCCCTTTTCATATTCGATCGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
78425670 ACCA-CCCTTTTTCATATTCGAT
1 ACCATCCC-TTTTCATATTCGAT
78425692 AGGCGTCGAT
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
28 3 0.03
29 116 0.97
ACGTcount: A:0.22, C:0.29, G:0.11, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:78425781 original size:12 final size:13
Alignment explanation
Indices: 78425754--78425785 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
78425744 ACATGATAGC
78425754 ATTTAAAACAACT
1 ATTTAAAACAACT
78425767 ATTTAAAAC-ACT
1 ATTTAAAACAACT
78425779 ATTTAAA
1 ATTTAAA
78425786 CGTACAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (13 bp):
ATTTAAAACAACT
Found at i:78433428 original size:40 final size:40
Alignment explanation
Indices: 78433320--78433569 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
78433310 CGGGATTTAA
* * * * *
78433320 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
78433360 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78433400 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78433440 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78433480 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78433520 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78433560 CCGGATATAT
1 CCGGATATAT
78433570 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:78441499 original size:40 final size:40
Alignment explanation
Indices: 78441391--78441640 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
78441381 CGGGATTTAA
* * * * *
78441391 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
78441431 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78441471 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78441511 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78441551 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78441591 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
78441631 CCGGATATAT
1 CCGGATATAT
78441641 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:78446433 original size:40 final size:40
Alignment explanation
Indices: 78446388--78446554 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
78446378 CGGAATACAA
78446388 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
78446428 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
78446468 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
78446508 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
78446547 CCGGATAT
1 CCGGATAT
78446555 CATTCAATTG
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:78458682 original size:29 final size:29
Alignment explanation
Indices: 78458620--78458722 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
78458610 GTGACGAGAT
* * *
78458620 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
78458649 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
78458678 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
78458707 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78458723 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:78473822 original size:51 final size:51
Alignment explanation
Indices: 78473761--78473865 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
78473751 GGTGTTTTAA
*
78473761 TTTATTTATCTTGCTTCCATTGTTGTGTTCTCCATGCTTTTGTAAAAAAAC
1 TTTATTTATCTTGCTTCCATTGTTGTGTTCTCCAAGCTTTTGTAAAAAAAC
* *
78473812 TTTATTTATCTTGCTTCCATTGTTGTGTTCTCTAAGCTTTTGTAAAAAAGC
1 TTTATTTATCTTGCTTCCATTGTTGTGTTCTCCAAGCTTTTGTAAAAAAAC
78473863 TTT
1 TTT
78473866 CTTCTTTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.50
Consensus pattern (51 bp):
TTTATTTATCTTGCTTCCATTGTTGTGTTCTCCAAGCTTTTGTAAAAAAAC
Found at i:78477479 original size:40 final size:40
Alignment explanation
Indices: 78477420--78477627 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
78477410 CATTGGAATG
* * *
78477420 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * *
78477460 ATATCTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
78477500 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * * * *
78477540 AAATCTGGGTTAAGACCCGAAGGCAATTGTACGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* ** * * * * *
78477580 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
78477620 ATATCCGG
1 ATATCCGG
78477628 TTAAATTTCG
Statistics
Matches: 135, Mismatches: 31, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
39 3 0.02
40 130 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:78477554 original size:80 final size:80
Alignment explanation
Indices: 78477420--78477608 Score: 227
Period size: 80 Copynumber: 2.4 Consensus size: 80
78477410 CATTGGAATG
* * ** *
78477420 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCTGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCTGGGCTAAGACCCGAAGGCA
* ***
78477484 ATTCGTGCGAGTTGTT
66 ATT-GTACGAGTCACT
* * *
78477500 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCTGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCTGGGCTAAGACCCGAAGGCA
78477565 ATTGTACGAGTCACT
66 ATTGTACGAGTCACT
* **
78477580 ATAACCGGGCTTCGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
78477609 AGCGAGTCAT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 89 0.97
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCTGGGCTAAGACCCGAAGGCA
ATTGTACGAGTCACT
Found at i:78494150 original size:49 final size:49
Alignment explanation
Indices: 78494094--78494319 Score: 254
Period size: 49 Copynumber: 4.6 Consensus size: 49
78494084 CTAGTATGCA
* *
78494094 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
** * ** * *
78494143 TAGTAGCCTATACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
78494193 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* * * *
78494244 TAGTAGCCTGCACTTAGTACTACACATGCGGCCAATAATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
78494293 TAGTAGCCTGTACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
78494320 ATGACCTCAC
Statistics
Matches: 145, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 63 0.43
50 45 0.31
51 37 0.26
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:78494267 original size:101 final size:98
Alignment explanation
Indices: 78494094--78494319 Score: 265
Period size: 101 Copynumber: 2.3 Consensus size: 98
78494084 CTAGTATGCA
* ** *
78494094 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTATACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTACACTTA
* *
78494159 GTACTACACACGTGACCTAACCA-TCTGATACACG
66 GTACTACACACGCGACC-AACAATTC-GATACACG
* * * * *
78494193 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTACACT
* * * *
78494258 TAGTACTACACATGCGGCCAATAATTCGGTACACG
64 TAGTACTACACACGCGACCAACAATTCGATACACG
*
78494293 TAGTAGCCTGTACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
78494320 ATGACCTCAC
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 29 0.27
100 39 0.36
101 40 0.37
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCAACAATTCGATACACG
Found at i:78499821 original size:20 final size:20
Alignment explanation
Indices: 78499798--78499862 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
78499788 GGAGCATCGT
*
78499798 AGTGCTAAAAAGGGCATCAA
1 AGTGCTAAAAAGGGCACCAA
* *
78499818 AGTGC-AAACAACGACACCAA
1 AGTGCTAAA-AAGGGCACCAA
*
78499838 AGTG-TAAACAGGGGCACCAA
1 AGTGCTAAA-AAGGGCACCAA
78499858 AGTGC
1 AGTGC
78499863 AATCAGGGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 3 0.08
20 33 0.92
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.11
Consensus pattern (20 bp):
AGTGCTAAAAAGGGCACCAA
Found at i:78499864 original size:40 final size:40
Alignment explanation
Indices: 78499809--78499890 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
78499799 GTGCTAAAAA
*
78499809 GGGCATCAAAGTGCAAACAACGACACCAAAGTGTAAACAG
1 GGGCACCAAAGTGCAAACAACGACACCAAAGTGTAAACAG
* ** *
78499849 GGGCACCAAAGTGCAATCAGGGACATCAAAGTGTAAACAG
1 GGGCACCAAAGTGCAAACAACGACACCAAAGTGTAAACAG
78499889 GG
1 GG
78499891 ACAACGAAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.41, C:0.21, G:0.27, T:0.11
Consensus pattern (40 bp):
GGGCACCAAAGTGCAAACAACGACACCAAAGTGTAAACAG
Found at i:78499869 original size:20 final size:20
Alignment explanation
Indices: 78499815--78499893 Score: 95
Period size: 20 Copynumber: 4.0 Consensus size: 20
78499805 AAAAGGGCAT
**
78499815 CAAAGTGCAAACAACGACAC
1 CAAAGTGCAAACAGGGACAC
* *
78499835 CAAAGTGTAAACAGGGGCAC
1 CAAAGTGCAAACAGGGACAC
* *
78499855 CAAAGTGCAATCAGGGACAT
1 CAAAGTGCAAACAGGGACAC
*
78499875 CAAAGTGTAAACAGGGACA
1 CAAAGTGCAAACAGGGACA
78499894 ACGAAGGGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (20 bp):
CAAAGTGCAAACAGGGACAC
Found at i:78499879 original size:60 final size:59
Alignment explanation
Indices: 78499808--78499920 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 59
78499798 AGTGCTAAAA
* * * *
78499808 AGGGCATCAAAGTGCAAACAACGACACCAAAGTGTAAACAGGGGCACCAAAGTGCAATC
1 AGGGCATCAAAGTGCAAACAACGACAACAAAGGGTAAACAAGAGCACCAAAGTGCAATC
* ** *
78499867 AGGGACATCAAAGTGTAAACAGGGACAACGAAGGGTAAACAAGAGCACCAAAGT
1 AGGG-CATCAAAGTGCAAACAACGACAACAAAGGGTAAACAAGAGCACCAAAGT
78499921 ACAAATATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 4 0.09
60 41 0.91
ACGTcount: A:0.44, C:0.20, G:0.26, T:0.10
Consensus pattern (59 bp):
AGGGCATCAAAGTGCAAACAACGACAACAAAGGGTAAACAAGAGCACCAAAGTGCAATC
Found at i:78499904 original size:20 final size:20
Alignment explanation
Indices: 78499830--78499907 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
78499820 TGCAAACAAC
* *
78499830 GACACCAAAGTGTAAACAGG
1 GACAACAAAGGGTAAACAGG
* * * * *
78499850 GGCACCAAAGTGCAATCAGG
1 GACAACAAAGGGTAAACAGG
* *
78499870 GACATCAAAGTGTAAACAGG
1 GACAACAAAGGGTAAACAGG
*
78499890 GACAACGAAGGGTAAACA
1 GACAACAAAGGGTAAACA
78499908 AGAGCACCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.44, C:0.19, G:0.27, T:0.10
Consensus pattern (20 bp):
GACAACAAAGGGTAAACAGG
Found at i:78499919 original size:40 final size:40
Alignment explanation
Indices: 78499798--78499920 Score: 99
Period size: 40 Copynumber: 3.1 Consensus size: 40
78499788 GGAGCATCGT
* * *
78499798 AGTGCTAAAAAGGG-CATCAAAGTGCAAACAACGA-CACCAA
1 AGTG-TAAACAGGGACAACAAAGGGCAAACAA-GAGCACCAA
* * * * * *
78499838 AGTGTAAACAGGGGCACCAAAGTGCAATC-AGGGACATCAA
1 AGTGTAAACAGGGACAACAAAGGGCAAACAAGAG-CACCAA
* *
78499878 AGTGTAAACAGGGACAACGAAGGGTAAACAAGAGCACCAA
1 AGTGTAAACAGGGACAACAAAGGGCAAACAAGAGCACCAA
78499918 AGT
1 AGT
78499921 ACAAATATAT
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.02
39 9 0.14
40 53 0.80
41 3 0.05
ACGTcount: A:0.45, C:0.20, G:0.25, T:0.11
Consensus pattern (40 bp):
AGTGTAAACAGGGACAACAAAGGGCAAACAAGAGCACCAA
Found at i:78501171 original size:29 final size:30
Alignment explanation
Indices: 78501119--78501177 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
78501109 AAGGAAAATT
*
78501119 GAAAGAAAAAAATTAAAGGAAAAAGAGAAA
1 GAAAGAAAAAAATAAAAGGAAAAAGAGAAA
78501149 GAAAGTAAAAAAA-AAAAGG-AAAAGAGAAA
1 GAAAG-AAAAAAATAAAAGGAAAAAGAGAAA
78501178 AAATATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 10 0.37
30 10 0.37
31 7 0.26
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (30 bp):
GAAAGAAAAAAATAAAAGGAAAAAGAGAAA
Found at i:78504134 original size:238 final size:235
Alignment explanation
Indices: 78503671--78504383 Score: 737
Period size: 246 Copynumber: 2.9 Consensus size: 235
78503661 ATTTTGATTT
*
78503671 TTTTATTTTTTAAATTTTGCTTGGGACTTTAATATTGATTTTTGTATTTAGTCTAAAAAACATTC
1 TTTT-TTTTTT-AATTTTGCTTGGGACTTTAATATTGATTTTTGTATTTAGTCT-AAAAACGTTC
* * * *
78503736 TATTTATAATTAGAGTTTTAATCAAGATGGCATAACTAACAATATAATATGGCTTTATAAGAAAA
63 TATTTATAATTGGAGTTTTAATCAAGACGGCATAACTAACAATATACTATGGTTTTATAAG----
* * * * * *
78503801 AAAAAATTT-AAATGT-TTTTCCACTGCAAAGTTTTTAAAATTTGATACGATGTTTTACTACGCA
124 ACAAAATTTAAAATGTATTTT-TACTGCAAA-TTTTTGAAATTCGATACGGTGTTTTACTACACA
* * *
78503864 AGTGATTAAGCAATTTGGTTTTGTTTTACTAAATTATGGGTTTT-ACTAACC
187 AGTGATTAAGAAATTTGGTTTTGTTTTACTAAAGTAT--GTTTTGACTAA-A
78503915 TTTTTTTTTTAATTTTGCTTGGGACTTTAATATTGATTTTTGTATTTAGTCTAAAAACGTTCTAT
1 TTTTTTTTTTAATTTTGCTTGGGACTTTAATATTGATTTTTGTATTTAGTCTAAAAACGTTCTAT
*
78503980 TTATAATTGGAGTTTTAATCAAGACGGCGTAACTAACAATATACTATGGTTTTATAAGACAAAAT
66 TTATAATTGGAGTTTTAATCAAGACGGCATAACTAACAATATACTATGGTTTTATAAGACAAAAT
* *
78504045 TTAAAATGTATTTTTGCTGCAAACTTTTTGAAATTCAATACGGTGTTTTACTACACAAGTGATTA
131 TTAAAATGTATTTTTACTGCAAA-TTTTTGAAATTCGATACGGTGTTTTACTACACAAGTGATTA
78504110 AGAAATTTGGTTTTGTTTTACTAAAGTATGTTTTGGGACTAAA
195 AGAAATTTGGTTTTGTTTTACTAAAGTATGTTTT--GACTAAA
***** * *
78504153 TTACGGACTTTACGGACTTTTG-TT--TA-TTTAATTTTGCTTCGGACTTTTTGTATTTAGTCTA
1 TT-TTTTTTTTA---A-TTTTGCTTGGGACTTTAA---T-ATT--GA-TTTTTGTATTTAGTCTA
* * * * * * *
78504214 TAAATGTTCTATTTATTATTGAAATTTTAATCAATACAGCATAACTAACAATATACTATGGTTTT
54 AAAACGTTCTATTTATAATTGGAGTTTTAATCAAGACGGCATAACTAACAATATACTATGGTTTT
* *
78504279 ATAAGACAAAAATTTTAAAA--TATTTTTCCCTTGCAGATTTTTGAAA-TCTGATACGGTGTTTT
119 ATAAGAC-AAAA-TTTAAAATGTATTTTT-AC-TGCAAATTTTTGAAATTC-GATACGGTGTTTT
**
78504341 ACTATTCAAGTGATTAA-ACAATTTGGTTTTGTTTTACTAAAGT
179 ACTACACAAGTGATTAAGA-AATTTGGTTTTGTTTTACTAAAGT
78504384 TAATGAAGCG
Statistics
Matches: 408, Mismatches: 38, Indels: 43
0.83 0.08 0.09
Matches are distributed among these distances:
236 5 0.01
237 8 0.02
238 78 0.19
239 18 0.04
240 1 0.00
241 65 0.16
242 46 0.11
243 13 0.03
244 4 0.01
245 2 0.00
246 91 0.22
247 65 0.16
248 12 0.03
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.44
Consensus pattern (235 bp):
TTTTTTTTTTAATTTTGCTTGGGACTTTAATATTGATTTTTGTATTTAGTCTAAAAACGTTCTAT
TTATAATTGGAGTTTTAATCAAGACGGCATAACTAACAATATACTATGGTTTTATAAGACAAAAT
TTAAAATGTATTTTTACTGCAAATTTTTGAAATTCGATACGGTGTTTTACTACACAAGTGATTAA
GAAATTTGGTTTTGTTTTACTAAAGTATGTTTTGACTAAA
Found at i:78505985 original size:22 final size:21
Alignment explanation
Indices: 78505960--78506035 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
78505950 TATTTAATGA
78505960 ATAATAAAATAATACATAATTT
1 ATAATAAAATAATA-ATAATTT
*
78505982 ATAATAAAATAAGAAATGTAATTT
1 ATAATAAAATAA-TAA--TAATTT
* *
78506006 AATAGTAAAAT-AT-ATAATGT
1 -ATAATAAAATAATAATAATTT
78506026 ATAATAAAAT
1 ATAATAAAAT
78506036 TTATAAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
19 9 0.20
20 5 0.11
22 14 0.31
23 1 0.02
24 7 0.16
25 9 0.20
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (21 bp):
ATAATAAAATAATAATAATTT
Found at i:78506046 original size:13 final size:13
Alignment explanation
Indices: 78506021--78506054 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
78506011 TAAAATATAT
78506021 AATGTAT-AATAA
1 AATGTATAAATAA
*
78506033 AATTTATAAATAA
1 AATGTATAAATAA
78506046 AATGTATAA
1 AATGTATAA
78506055 TAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:78506056 original size:12 final size:12
Alignment explanation
Indices: 78506021--78506057 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
78506011 TAAAATATAT
78506021 AATGTATAATAA
1 AATGTATAATAA
*
78506033 AATTTATAAATAA
1 AATGTAT-AATAA
78506046 AATGTATAATAA
1 AATGTATAATAA
78506058 TATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:78506066 original size:25 final size:26
Alignment explanation
Indices: 78506014--78506071 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
78506004 TTAATAGTAA
* **
78506014 AATATATAATGTATAATAAAATTTAT
1 AATATAAAATGTATAATAAAATAAAT
*
78506040 AA-ATAAAATGTATAATAATATAAAT
1 AATATAAAATGTATAATAAAATAAAT
78506065 AATATAA
1 AATATAA
78506072 TGAATGATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (26 bp):
AATATAAAATGTATAATAAAATAAAT
Found at i:78506071 original size:30 final size:31
Alignment explanation
Indices: 78506037--78506100 Score: 73
Period size: 30 Copynumber: 2.1 Consensus size: 31
78506027 TAATAAAATT
78506037 TATAAAT-AA-AATGTAT-AATAATATAAATAA
1 TATAAATGAATAATGTATAAATAA-A-AAATAA
*
78506067 TAT-AATGAATGATGTATAAATAAAAAATAA
1 TATAAATGAATAATGTATAAATAAAAAATAA
78506097 TATA
1 TATA
78506101 TATATACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
29 3 0.10
30 14 0.48
31 7 0.24
32 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (31 bp):
TATAAATGAATAATGTATAAATAAAAAATAA
Found at i:78507782 original size:93 final size:93
Alignment explanation
Indices: 78507672--78507842 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
78507662 GCCCCTAAGT
* *
78507672 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
78507737 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * **
78507765 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
78507830 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78507843 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78507832 original size:46 final size:45
Alignment explanation
Indices: 78507669--78507839 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
78507659 CCCGCCCCTA
* * * *
78507669 AGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCAT
*
78507714 AAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCAT
* *
78507762 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCAT
78507807 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
78507840 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 57 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCAT
Found at i:78510201 original size:19 final size:19
Alignment explanation
Indices: 78510165--78510200 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
78510155 GTAAAGGACT
*
78510165 TTTATTATTTTTGTTTTTA
1 TTTATTATTTCTGTTTTTA
78510184 TTTATT-TTTCTGTTTTT
1 TTTATTATTTCTGTTTTT
78510201 TCTGGGCCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.81
Consensus pattern (19 bp):
TTTATTATTTCTGTTTTTA
Found at i:78510521 original size:44 final size:44
Alignment explanation
Indices: 78510462--78511067 Score: 709
Period size: 44 Copynumber: 13.6 Consensus size: 44
78510452 CTCCTTGCCT
* * *
78510462 AATACGGAGAGGCCACATCTG-TCATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGTC
* *
78510506 AATACAGAGACGCCACATCTACTATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
*
78510550 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* *
78510594 AATACAAAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * *
78510638 AATACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCAATATTTATAGA
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTC------TGT--C
* *
78510690 AATA-AGATACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
*
78510733 AATACAGAGACCCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
*
78510777 AATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * * *
78510821 AATACAGAGATGTCAAATCTGCTATCTTTGATCCGCTCTCTATC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * * *
78510865 AATACAGAGATGCCAAAGCT-ATCATCTTTGATCTGTTCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGTC
* * * *
78510909 AATACAGAGACGCCACATCTGCTATCTTCGACCTGCTCTTTATC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * *
78510953 AATACAGAGATGCCAAACCTGTTATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * **
78510997 AATACAGAGATGCCAAATC--CATCATATTCGATCTGCTCTCTAAC
1 AATACAGAGACGCCAAATCTGC-T-ATCTTCGATCTGCTCTCTGTC
** *
78511041 AATACAGAGATACCAAATCGGCTATCT
1 AATACAGAGACGCCAAATCTGCTATCT
78511068 GTGATCTATA
Statistics
Matches: 491, Mismatches: 55, Indels: 32
0.85 0.10 0.06
Matches are distributed among these distances:
43 6 0.01
44 440 0.90
45 5 0.01
46 1 0.00
50 2 0.00
51 33 0.07
52 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
Found at i:78516389 original size:40 final size:40
Alignment explanation
Indices: 78516331--78516612 Score: 424
Period size: 40 Copynumber: 7.0 Consensus size: 40
78516321 AAATTTAGCT
* ** * *
78516331 GGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
*
78516371 AGG-TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 -GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
*
78516411 GTATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
*
78516451 GGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
78516491 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
78516531 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
* * * *
78516571 GGATATAATC-ACTAGTATAAATGCCTTCGGGACTTAGCCC
1 GGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCC
78516611 GG
1 GG
78516613 GTATCATTCA
Statistics
Matches: 224, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.00
40 220 0.98
41 3 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:78519023 original size:20 final size:20
Alignment explanation
Indices: 78518998--78519045 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
78518988 AGAGGTCAAC
*
78518998 AGAATATTGATCGGTATAAA
1 AGAATATTGAACGGTATAAA
78519018 AGAATATTGAACGGTATAAA
1 AGAATATTGAACGGTATAAA
78519038 AGAATATT
1 AGAATATT
78519046 CACTCGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (20 bp):
AGAATATTGAACGGTATAAA
Found at i:78519450 original size:18 final size:17
Alignment explanation
Indices: 78519417--78519450 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
78519407 ATCTAAACGC
*
78519417 GCCCTTCTTCTTTCTTG
1 GCCCTTCTTATTTCTTG
78519434 GCCCTTCTCTATTTCTT
1 GCCCTTCT-TATTTCTT
78519451 TCCTCCTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.35, G:0.09, T:0.53
Consensus pattern (17 bp):
GCCCTTCTTATTTCTTG
Found at i:78526606 original size:26 final size:24
Alignment explanation
Indices: 78526550--78526617 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
78526540 CAATTAATGA
* *
78526550 ATAATAAAATAATACA--TAATTT
1 ATAATAAAATAAAAAATGTAATTT
78526572 ATAATAAAATAAAAAATGTAATTT
1 ATAATAAAATAAAAAATGTAATTT
* *
78526596 ATATAGTAAAATATATAATGTA
1 ATA-A-TAAAATAAAAAATGTA
78526618 TAATAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.37
24 9 0.24
25 1 0.03
26 14 0.37
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (24 bp):
ATAATAAAATAAAAAATGTAATTT
Found at i:78526637 original size:13 final size:13
Alignment explanation
Indices: 78526612--78526645 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
78526602 TAAAATATAT
78526612 AATGTAT-AATAA
1 AATGTATAAATAA
*
78526624 AATTTATAAATAA
1 AATGTATAAATAA
78526637 AATGTATAA
1 AATGTATAA
78526646 TAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:78526653 original size:33 final size:33
Alignment explanation
Indices: 78526591--78526653 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
78526581 TAAAAAATGT
* *
78526591 AATTTATATAGTAAAATATATAATGTATAATAA
1 AATTTATATAATAAAATATATAATATATAATAA
*
78526624 AATTTATA-AATAAAATGTATAATAATATAA
1 AATTTATATAATAAAATATATAAT-ATATAA
78526654 ATAATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (33 bp):
AATTTATATAATAAAATATATAATATATAATAA
Found at i:78526657 original size:25 final size:24
Alignment explanation
Indices: 78526545--78526670 Score: 66
Period size: 22 Copynumber: 5.4 Consensus size: 24
78526535 TTACACAATT
*
78526545 AATGAATAATAAAAT-AATACAT--
1 AATGTATAATAAAATAAATA-ATAA
* * **
78526567 AATTTATAATAAAATAAAAAATGT
1 AATGTATAATAAAATAAATAATAA
* ** *
78526591 AATTTAT-ATAGTA-AAAT-ATAT
1 AATGTATAATAAAATAAATAATAA
**
78526612 AATGTATAATAAAATTTATAAATAA
1 AATGTATAATAAAATAAAT-AATAA
* *
78526637 AATGTATAATAATATAAATAATAT
1 AATGTATAATAAAATAAATAATAA
*
78526661 AATGAATAAT
1 AATGTATAAT
78526671 GTAAAAATAA
Statistics
Matches: 79, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
21 9 0.11
22 22 0.28
23 9 0.11
24 20 0.25
25 19 0.24
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (24 bp):
AATGTATAATAAAATAAATAATAA
Found at i:78526668 original size:12 final size:12
Alignment explanation
Indices: 78526612--78526648 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
78526602 TAAAATATAT
78526612 AATGTATAATAA
1 AATGTATAATAA
*
78526624 AATTTATAAATAA
1 AATGTAT-AATAA
78526637 AATGTATAATAA
1 AATGTATAATAA
78526649 TATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:78541094 original size:27 final size:27
Alignment explanation
Indices: 78540859--78541093 Score: 274
Period size: 27 Copynumber: 8.7 Consensus size: 27
78540849 CATACCTGAA
* *
78540859 CCCTTATGTGATTAAATGACGATTTTG
1 CCCTTTTGTGATAAAATGACGATTTTG
* * *
78540886 CCCCTATGTCATAAAATGACGATTTTG
1 CCCTTTTGTGATAAAATGACGATTTTG
* * *
78540913 CCTTTTTGTGATAAAATGATGATTTTT
1 CCCTTTTGTGATAAAATGACGATTTTG
* * *
78540940 CCCTTTTGTGAGAAAATGAAGATTTTT
1 CCCTTTTGTGATAAAATGACGATTTTG
*
78540967 CCCTTTTATGATAAAATGACGATTTT-
1 CCCTTTTGTGATAAAATGACGATTTTG
* * *
78540993 TCCTGTATGTAATAAAATGACGATTTTG
1 CCCT-TTTGTGATAAAATGACGATTTTG
78541021 CCCTTTTGTGATAAAATGACGATTTTG
1 CCCTTTTGTGATAAAATGACGATTTTG
* *
78541048 CCCTTTTGTGATAAAATGATGATTTTA
1 CCCTTTTGTGATAAAATGACGATTTTG
* * *
78541075 CCCTTATATGGTAAAATGA
1 CCCTTTTGTGATAAAATGA
78541094 TCGAAATACC
Statistics
Matches: 179, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.02
27 173 0.97
28 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (27 bp):
CCCTTTTGTGATAAAATGACGATTTTG
Found at i:78541103 original size:27 final size:27
Alignment explanation
Indices: 78541073--78541191 Score: 168
Period size: 27 Copynumber: 4.4 Consensus size: 27
78541063 ATGATGATTT
* * * *
78541073 TACCCTTATATGGTAAAATGATCGAAA
1 TACCCTCATAGGGTAAAATGACCAAAA
78541100 TACCCTCATAGGGTAAAATGACCAAAA
1 TACCCTCATAGGGTAAAATGACCAAAA
78541127 TACCCTCATAGGGTAAAATGACCAAAA
1 TACCCTCATAGGGTAAAATGACCAAAA
* *
78541154 TACCTTCATAGGGTAAAATGATCAAAA
1 TACCCTCATAGGGTAAAATGACCAAAA
78541181 TACTCC-CATAG
1 TAC-CCTCATAG
78541192 TTATATGACT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (27 bp):
TACCCTCATAGGGTAAAATGACCAAAA
Found at i:78541228 original size:27 final size:27
Alignment explanation
Indices: 78541073--78541237 Score: 144
Period size: 27 Copynumber: 6.2 Consensus size: 27
78541063 ATGATGATTT
* * *
78541073 TACCCTTATATGGTAAAATGA-TCGAAA
1 TACCCTCATAGGGTAAAATGACT-AAAA
*
78541100 TACCCTCATAGGGTAAAATGACCAAAA
1 TACCCTCATAGGGTAAAATGACTAAAA
*
78541127 TACCCTCATAGGGTAAAATGACCAAAA
1 TACCCTCATAGGGTAAAATGACTAAAA
*
78541154 TACCTTCATAGGGTAAAATGA-TCAAAA
1 TACCCTCATAGGGTAAAATGACT-AAAA
* * *
78541181 TACTCC-CATA--GTTATATGACTGAAA
1 TAC-CCTCATAGGGTAAAATGACTAAAA
* **
78541206 TACCC-CTGTAGGGTAAAATGACTGTAA
1 TACCCTC-ATAGGGTAAAATGACTAAAA
78541233 TACCC
1 TACCC
78541238 CGGTAAGGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.03
25 15 0.13
26 1 0.01
27 97 0.83
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (27 bp):
TACCCTCATAGGGTAAAATGACTAAAA
Found at i:78541238 original size:27 final size:27
Alignment explanation
Indices: 78541196--78541253 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
78541186 CCATAGTTAT
* *
78541196 ATGACTGAAATACCCCTGTAGGGTAAA
1 ATGACTGAAATACCCCGGTAAGGTAAA
*
78541223 ATGACTGTAATACCCCGGTAAGGTAAA
1 ATGACTGAAATACCCCGGTAAGGTAAA
78541250 ATGA
1 ATGA
78541254 AAGATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (27 bp):
ATGACTGAAATACCCCGGTAAGGTAAA
Found at i:78541334 original size:23 final size:22
Alignment explanation
Indices: 78541294--78541337 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
78541284 TTTGAGCATG
78541294 CCATGTTATATGTATGTTGCAC
1 CCATGTTATATGTATGTTGCAC
78541316 CCATGTATGATAT-TATGTTGCA
1 CCATGT-T-ATATGTATGTTGCA
78541338 TTGCATGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 10 0.50
24 4 0.20
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (22 bp):
CCATGTTATATGTATGTTGCAC
Found at i:78553301 original size:93 final size:93
Alignment explanation
Indices: 78553189--78553360 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
78553179 GCCCATAAGT
* *
78553189 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78553254 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
78553282 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78553347 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
78553361 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78553356 original size:46 final size:46
Alignment explanation
Indices: 78553181--78553356 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
78553171 TGTAACCCGC
* * *
78553181 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
78553227 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
78553277 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
78553320 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78553357 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:78561008 original size:29 final size:29
Alignment explanation
Indices: 78560975--78561106 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
78560965 GTGACGAGAT
*
78560975 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
78561004 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
78561033 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
78561062 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
78561091 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78561107 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:78562770 original size:40 final size:40
Alignment explanation
Indices: 78562704--78562870 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
78562694 AAATTGAATG
* * *
78562704 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
78562743 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
78562783 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
78562823 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
78562863 ATATCCGG
1 ATATCCGG
78562871 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:78571552 original size:40 final size:39
Alignment explanation
Indices: 78571468--78571652 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
78571458 TCGAATGATG
* * *
78571468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
78571508 TCCGGACTAAGATCCGAAGGCATTTGTGAGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
78571548 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
78571587 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
78571628 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
78571653 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 81 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78571604 original size:79 final size:81
Alignment explanation
Indices: 78571468--78571652 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
78571458 TCGAATGATG
*
78571468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
78571532 TGTGAGAGTTACTA-A
66 TATGAGAGTTACTATA
* * **
78571547 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
*
78571609 TTTATGCGAGTTACTATA
64 TTTATGAGAGTTACTATA
* *
78571627 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
78571653 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGAGAGTTACTATA
Found at i:78571674 original size:79 final size:79
Alignment explanation
Indices: 78571469--78571675 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 79
78571459 CGAATGATGT
* *
78571469 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
* *
78571532 TGTGAGAGTTACTAATT
63 TATGAGAGTTACTAATA
*
78571549 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
*
78571611 TATGCGAGTTACT-ATAA
63 TATGAGAGTTACTAAT-A
* **
78571628 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
78571676 ATTTCGAAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
78 3 0.03
79 61 0.56
80 45 0.41
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTAT
GAGAGTTACTAATA
Found at i:78572797 original size:187 final size:187
Alignment explanation
Indices: 78572503--78572857 Score: 464
Period size: 187 Copynumber: 1.9 Consensus size: 187
78572493 AGGAAAGCAA
** * * *
78572503 CGAAACGTTCATATGAACAGTATATTATGAGATATTAAAGTTTTCGTGAGACAGGGCCAGAACGG
1 CGAAACGACCATATGAACAGTATATGATGAAATATTAAAGTTCTCGTGAGACAGGGCCAGAACGG
* * ** * * * *
78572568 TTTCTGGATCCCCTGATCTGACTTTGGAAATTCATTATAAATTAACCATAGATAATTATAAGTCA
66 TTTCTGGATCCCCTGATCCGACTTTGAAAATTCACCATAAATTAACCAGAAAGAATTAGAAGTCA
* *
78572633 TACCATATATGTATAGATTCCTTTTTGAGTCTAGTTTCTATTTTTATATGGACGAAG
131 TACCATATATGTACAGATTCCATTTTGAGTCTAGTTTCTATTTTTATATGGACGAAG
* *
78572690 CGAAACGACCATATGAGCAGTATACTGA-GAAATATTAAGGTTCTCGTGAGACAGGGCCAGAACG
1 CGAAACGACCATATGAACAGTATA-TGATGAAATATTAAAGTTCTCGTGAGACAGGGCCAGAACG
* * *
78572754 GTTTCTAGG-TCCCCTG-TCGCGACTTTGAAAATTTACCATAAATTATCCAGAAAGAATTAGGAG
65 GTTTCT-GGATCCCCTGATC-CGACTTTGAAAATTCACCATAAATTAACCAGAAAGAATTAGAAG
* *
78572817 TCATGCCTTATATGTACAGATTCCATTTTGAGTCTAGTTTC
128 TCATACCATATATGTACAGATTCCATTTTGAGTCTAGTTTC
78572858 ATTAGAAACA
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
186 2 0.01
187 137 0.96
188 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (187 bp):
CGAAACGACCATATGAACAGTATATGATGAAATATTAAAGTTCTCGTGAGACAGGGCCAGAACGG
TTTCTGGATCCCCTGATCCGACTTTGAAAATTCACCATAAATTAACCAGAAAGAATTAGAAGTCA
TACCATATATGTACAGATTCCATTTTGAGTCTAGTTTCTATTTTTATATGGACGAAG
Found at i:78579551 original size:27 final size:29
Alignment explanation
Indices: 78579445--78579565 Score: 156
Period size: 29 Copynumber: 4.2 Consensus size: 29
78579435 GTGACGAGAT
* *
78579445 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
78579474 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
78579503 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
78579532 TGACACT-A-TGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
78579559 CGGCACT
1 TGGCACT
78579566 GGGTGTGCGA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 23 0.27
28 1 0.01
29 60 0.71
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:78583780 original size:28 final size:28
Alignment explanation
Indices: 78583735--78583800 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
78583725 TTTAAAACCC
*
78583735 TAGGGGT-ATATCGGTAATTGTGCTCTT
1 TAGGGGTAATTTCGGTAATTGTGCTCTT
*
78583762 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTGTGCTCTT
78583790 TAGGGGTAATT
1 TAGGGGTAATT
78583801 CCGTGATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 7 0.19
28 29 0.81
ACGTcount: A:0.20, C:0.09, G:0.29, T:0.42
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTGTGCTCTT
Found at i:78592846 original size:8 final size:8
Alignment explanation
Indices: 78592828--78592858 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
78592818 TAATTTATAA
78592828 TATATAAAT
1 TATA-AAAT
78592837 TATAAAAT
1 TATAAAAT
78592845 TATAAAAT
1 TATAAAAT
78592853 TATAAA
1 TATAAA
78592859 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TATAAAAT
Found at i:78592864 original size:16 final size:15
Alignment explanation
Indices: 78592812--78592864 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 15
78592802 TACAATATGT
*
78592812 AATATATAATTTAT-
1 AATATATAAATTATA
78592826 AATATATAAATTATA
1 AATATATAAATTATA
78592841 AA-ATTATAAAATTATA
1 AATA-TAT-AAATTATA
78592857 AATATATA
1 AATATATA
78592865 TATAAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 14 0.41
15 6 0.18
16 13 0.38
17 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATAAATTATA
Found at i:78595044 original size:22 final size:22
Alignment explanation
Indices: 78594996--78595044 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
78594986 GTATTAAAAA
*
78594996 ATTAATTGATTTAGTATGATAT
1 ATTATTTGATTTAGTATGATAT
78595018 ATTATTTGATTTAGTATGATAT
1 ATTATTTGATTTAGTATGATAT
78595040 ATTAT
1 ATTAT
78595045 GTAATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
ATTATTTGATTTAGTATGATAT
Found at i:78597230 original size:19 final size:21
Alignment explanation
Indices: 78597191--78597230 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
78597181 AGTATAAAAG
*
78597191 AAAACTATATACTTTTATTAT
1 AAAAATATATACTTTTATTAT
78597212 AAAAATATATA-TTTT-TTAT
1 AAAAATATATACTTTTATTAT
78597231 CCTTTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAAATATATACTTTTATTAT
Found at i:78605484 original size:10 final size:10
Alignment explanation
Indices: 78605463--78605492 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
78605453 TGGCTCTGAT
78605463 GGAGTT-AAA
1 GGAGTTGAAA
78605472 GGAGTTGAAA
1 GGAGTTGAAA
78605482 GGAGTTGAAA
1 GGAGTTGAAA
78605492 G
1 G
78605493 TGCAACTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (10 bp):
GGAGTTGAAA
Found at i:78607982 original size:42 final size:43
Alignment explanation
Indices: 78607913--78608009 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 43
78607903 TATGATTTAT
* *
78607913 GTGTAAGACCACGTCTGGGACGTTGGCATCG-TATTTGATTTC
1 GTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTAC
78607955 GTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGATATTTGATTAC
*
78607998 ATGTAAGACCAC
1 GTGTAAGACCAC
78608010 ATCTGGGATG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 1 0.02
42 26 0.54
43 20 0.42
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTAC
Found at i:78608241 original size:21 final size:22
Alignment explanation
Indices: 78608216--78608264 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
78608206 GAAAATATGC
78608216 TATATGTGCAAATGAAT-TGAA
1 TATATGTGCAAATGAATATGAA
* *
78608237 TATATG-GGAAATGTATATGAA
1 TATATGTGCAAATGAATATGAA
78608258 T-TATGTG
1 TATATGTG
78608265 GTTTGTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (22 bp):
TATATGTGCAAATGAATATGAA
Found at i:78609611 original size:25 final size:25
Alignment explanation
Indices: 78609563--78609613 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
78609553 TTTCGCTTGA
**
78609563 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
78609588 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
78609613 C
1 C
78609614 CAATTATTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:78610884 original size:11 final size:11
Alignment explanation
Indices: 78610868--78610892 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78610858 TTCAGCTGAT
78610868 GAAAATGAAGA
1 GAAAATGAAGA
78610879 GAAAATGAAGA
1 GAAAATGAAGA
78610890 GAA
1 GAA
78610893 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:78613798 original size:23 final size:23
Alignment explanation
Indices: 78613753--78613835 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
78613743 TCAGTATATG
78613753 ACACATAAGTGCCT-AAA-ACGAC
1 ACACA-AAGTGCCTGAAATACGAC
* *
78613775 ACACGAGGTGCCTGAAATACGAC
1 ACACAAAGTGCCTGAAATACGAC
* *
78613798 ACATAAAGTGCCTGATATACGAC
1 ACACAAAGTGCCTGAAATACGAC
*
78613821 ACAAAAAGTGCCTGA
1 ACACAAAGTGCCTGA
78613836 TCGGCAAAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 7 0.13
22 7 0.13
23 38 0.73
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (23 bp):
ACACAAAGTGCCTGAAATACGAC
Found at i:78615565 original size:25 final size:25
Alignment explanation
Indices: 78615537--78615588 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
78615527 TTTGGCTTGA
78615537 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCGGATATT
* *
78615562 CATTTATTAGGCAATATCGGATATT
1 CATTTACTAAGCAATATCGGATATT
78615587 CA
1 CA
78615589 AATTATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCGGATATT
Found at i:78626897 original size:42 final size:42
Alignment explanation
Indices: 78626798--78626933 Score: 143
Period size: 44 Copynumber: 3.2 Consensus size: 42
78626788 GTTATTCTAG
* * *
78626798 AAGACTACATCTGGGATGTTGGCATCG-ACTTATGATTTATGTGT
1 AAGACCACGTCTGGGATGTTGGCATCGTA-TT-TGATTT-CGTGT
78626842 AAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCGTGT
1 AAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCGTGT
* * *
78626884 AAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACATGT
1 AAGACCAC-GTCTGGGA-TGTTGGCATCG-TATTTGATTTCGTGT
78626927 AAGACCA
1 AAGACCA
78626934 TGTTAGGGAC
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.32
43 26 0.32
44 27 0.33
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
AAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCGTGT
Found at i:78626916 original size:43 final size:42
Alignment explanation
Indices: 78626838--78626951 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
78626828 TATGATTTAT
* *
78626838 GTGTAAGACCAC-GTCTGGGA-TGTTGGCATCGTATTTGATTTC
1 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGTATTTGATTAC
78626880 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCCTGTCTGGGACAGTGGCATCG-TATTTGATTAC
* * *
78626923 ATGTAAGACCATGT-TAGGGACATTGGCAT
1 GTGTAAGACCCTGTCT-GGGACAGTGGCAT
78626952 TGTACGAGCT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
41 1 0.02
42 27 0.43
43 35 0.56
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGATTAC
Found at i:78628501 original size:25 final size:25
Alignment explanation
Indices: 78628473--78628524 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
78628463 TTTGGCTTGA
* **
78628473 CATTTACTATGCAATATCGGATATT
1 CATTTACTAGGCAATATCAAATATT
*
78628498 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAGGCAATATCAAATATT
78628523 CA
1 CA
78628525 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (25 bp):
CATTTACTAGGCAATATCAAATATT
Found at i:78631346 original size:25 final size:27
Alignment explanation
Indices: 78631309--78631361 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
78631299 TCAAACATGC
78631309 ATTTAGGTCAATTTAACT-CTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
* *
78631335 ATTTCGGT-AATTTACCTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
78631361 A
1 A
78631362 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:78632886 original size:26 final size:26
Alignment explanation
Indices: 78632850--78632905 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
78632840 TGAAATTCCA
78632850 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
78632876 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
78632902 ATCA
1 ATCA
78632906 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:78638642 original size:8 final size:8
Alignment explanation
Indices: 78638629--78638657 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
78638619 AAATACCGGT
78638629 TTTCGGCA
1 TTTCGGCA
78638637 TTTCGGCA
1 TTTCGGCA
78638645 TTTCGGCA
1 TTTCGGCA
78638653 TTTCG
1 TTTCG
78638658 ACTTTTGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.24, G:0.24, T:0.41
Consensus pattern (8 bp):
TTTCGGCA
Found at i:78639888 original size:26 final size:26
Alignment explanation
Indices: 78639835--78639941 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
78639825 TGAAATTCCA
*
78639835 ATCATGGAACATTTACC-AACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
78639860 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
78639886 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
**
78639912 ATCATGAAACATTTACCTGGCCCATT
1 ATCATGAAACATTTACCTAACCCATT
78639938 ATCA
1 ATCA
78639942 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 17 0.22
26 61 0.78
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:78645447 original size:46 final size:44
Alignment explanation
Indices: 78645388--78645556 Score: 214
Period size: 46 Copynumber: 3.7 Consensus size: 44
78645378 TGATATATGT
*
78645388 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATT-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGATGAGA
* * *
78645434 GCCAGGGTAAGACATGTCTGGGATATGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATT--GATGAGA
* *
78645480 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATT--GATGAGA
78645526 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
78645557 AGCCTCGAGA
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
43 4 0.04
46 106 0.96
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGATGAGA
Found at i:78645567 original size:92 final size:92
Alignment explanation
Indices: 78645388--78645600 Score: 234
Period size: 92 Copynumber: 2.3 Consensus size: 92
78645378 TGATATATGT
*
78645388 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGGGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-CATTACGAGAGCCAGGGTAAGACATGTCT
* * *
78645453 GGGATATGCATCGGCATTGAGAT-GAG-A
64 GGGACATGCATCAGCATCGAGATAGAGAA
* * * *
78645480 GCTAGTGTAAGACATGTTTGGGACATGCATCGG-CATTGAGACGAGAGCTAGTGTAAGACATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATT---ACGAGAGCCAGGGTAAGACATGTC
* *
78645544 TGGGACATGCATCAGCCTCGAGATATAGAA
63 TGGGACATGCATCAGCATCGAGATAGAGAA
* * * *
78645574 GCTAGTGTAGGACCTATCTTGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
78645601 GCGTCAGCTT
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
89 4 0.04
92 72 0.71
93 2 0.02
94 23 0.23
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATTACGAGAGCCAGGGTAAGACATGTCTGG
GACATGCATCAGCATCGAGATAGAGAA
Found at i:78646087 original size:16 final size:17
Alignment explanation
Indices: 78646055--78646087 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
78646045 TTCGGTTTAT
*
78646055 GATGTACATATGGTAAG
1 GATGTAAATATGGTAAG
78646072 GATGTAAATA-GGTAAG
1 GATGTAAATATGGTAAG
78646088 TAATACCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.27
Consensus pattern (17 bp):
GATGTAAATATGGTAAG
Found at i:78656421 original size:2 final size:2
Alignment explanation
Indices: 78656414--78656439 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78656404 GCATTAGATG
78656414 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
78656440 TTAAGTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78660331 original size:49 final size:48
Alignment explanation
Indices: 78660270--78660546 Score: 208
Period size: 49 Copynumber: 5.7 Consensus size: 48
78660260 TGTGTGTGGT
78660270 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATTGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGA-TGATGAGAGCC
* * * * *
78660319 AGTGTAAGACCTGTTTGGGACACGGCATCGGC-CTC-AAGAT-ACGCAATCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-CGATGATGA-G--AGCC
* * * *
78660368 AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATGA-TGAGAGCC
** * *
78660417 AGTGTAAGAAGTGTTTGGGACATGGCATCGGC-CTCGATGTATG-GAAGTCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-CGATG-ATGAG-AG-CC
* * * ***
78660467 A-TGTAAGACCTGTCTTGGACATGACATCGACTTAGATG-TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATGATGAGAGCC
* * *
78660513 AGTGTAAGACCATGTTTGGAACATGGCGTCGGCA
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGCA
78660547 TCGTACCCTA
Statistics
Matches: 174, Mismatches: 38, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
46 3 0.02
47 17 0.10
48 20 0.11
49 125 0.72
50 6 0.03
51 2 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATGATGAGAGCC
Found at i:78660438 original size:98 final size:97
Alignment explanation
Indices: 78660269--78660545 Score: 326
Period size: 98 Copynumber: 2.8 Consensus size: 97
78660259 ATGTGTGTGG
* * * *
78660269 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATTGATGAGAGCCAGTGTAAGACCTGTT
1 TAGTGTAAGACCTGTCTAGGACATGGCATCGACACAGA-TG-TGAGAGCCAGTGTAAGAACTGTT
78660334 TGGGACACGGCATCGGCCTC-AAGATACGCAA-TC
64 TGGGACACGGCATCGGCCTCGAAG-TACGCAAGTC
*
78660367 TAGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATAAGTGAGAGCCAGTGTAAGAAGTGTT
1 TAGTGTAAGACCTGTCTAGGACATGGCATCGACACAGAT--GTGAGAGCCAGTGTAAGAACTGTT
* * * *
78660432 TGGGACATGGCATCGGCCTCGATGTATGGAAGTC
64 TGGGACACGGCATCGGCCTCGAAGTACGCAAGTC
* * ** *
78660466 TA-TGTAAGACCTGTCTTGGACATGACATCGACTTAGATGTGAGAGCCAGTGTAAGACCATGTTT
1 TAGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATGTGAGAGCCAGTGTAAGAAC-TGTTT
* * *
78660530 GGAACATGGCGTCGGC
65 GGGACACGGCATCGGC
78660546 ATCGTACCCT
Statistics
Matches: 157, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
96 18 0.11
97 20 0.13
98 112 0.71
99 7 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (97 bp):
TAGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATGTGAGAGCCAGTGTAAGAACTGTTTG
GGACACGGCATCGGCCTCGAAGTACGCAAGTC
Found at i:78664252 original size:39 final size:39
Alignment explanation
Indices: 78664134--78664355 Score: 318
Period size: 39 Copynumber: 5.6 Consensus size: 39
78664124 TCGTTCAAAC
* * ** * **
78664134 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
78664174 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
78664214 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
78664253 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
78664292 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
78664331 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
78664356 CTCGAACATT
Statistics
Matches: 165, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 127 0.77
40 38 0.23
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Done.