Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 330 of 378
Found at i:100267339 original size:22 final size:21
Alignment explanation
Indices: 100267309--100267350 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100267299 ATAGACAATA
*
100267309 AAAAAAACGATAGAAAAAAAAG
1 AAAAAAACG-CAGAAAAAAAAG
*
100267331 AAAAGAACGCAGAAAAAAAA
1 AAAAAAACGCAGAAAAAAAA
100267351 TGAAGTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.07, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAAACGCAGAAAAAAAAG
Found at i:100276720 original size:25 final size:21
Alignment explanation
Indices: 100276667--100276725 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 21
100276657 ATTCAGCTTG
100276667 GAAGAGCTTACTGTTAGCTCA
1 GAAGAGCTTACTGTTAGCTCA
100276688 -ATAGAGCTTACTGTTATCAGCTCA
1 GA-AGAGCTTACTG-T-T-AGCTCA
100276712 TGAAGAGCTTACTG
1 -GAAGAGCTTACTG
100276726 GCCATGTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 1 0.03
21 11 0.34
22 1 0.03
23 1 0.03
24 6 0.19
25 11 0.34
26 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (21 bp):
GAAGAGCTTACTGTTAGCTCA
Found at i:100291193 original size:46 final size:46
Alignment explanation
Indices: 100291140--100291315 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
100291130 TATTTGGGCA
100291140 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
100291186 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
100291233 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
100291279 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100291316 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:100291295 original size:93 final size:93
Alignment explanation
Indices: 100291136--100291307 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
100291126 GGGATATTTG
* *
100291136 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
100291201 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
100291229 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
100291294 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
100291308 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:100294287 original size:15 final size:15
Alignment explanation
Indices: 100294267--100294335 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
100294257 GTATCTTGGG
100294267 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
100294282 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
100294297 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
100294312 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
100294327 TTTCTTTAT
1 TTTCTTTAT
100294336 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:100294336 original size:30 final size:30
Alignment explanation
Indices: 100294258--100294345 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
100294248 CATAGTATCG
* * * *
100294258 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
100294288 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
100294318 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
100294346 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:100296777 original size:46 final size:46
Alignment explanation
Indices: 100296727--100296902 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
100296717 TATTTGGGCA
100296727 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
100296773 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
100296820 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
100296866 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100296903 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:100296882 original size:93 final size:93
Alignment explanation
Indices: 100296723--100296894 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
100296713 TGGATATTTG
* *
100296723 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
100296788 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
100296816 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
100296881 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
100296895 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:100300560 original size:46 final size:48
Alignment explanation
Indices: 100300493--100300624 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 48
100300483 GGATTGTTGA
* * * *
100300493 GCATCCGAACTCGTTGAGTTGAGTCCTAGTTCGCTTATGGAT-C-TAG
1 GCATCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAAC
*
100300539 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 GCATCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAAC
100300587 GC--CCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGG
1 GCATCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGG
100300625 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
46 74 0.95
47 1 0.01
48 3 0.04
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (48 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAAC
Found at i:100306913 original size:46 final size:46
Alignment explanation
Indices: 100306853--100307126 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
100306843 TTTAACATGA
* * * * * *
100306853 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
100306899 TGCCATGGTATCTTTCAACAATGGTCTTGTTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
100306945 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
100306991 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATAAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
100307037 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
100307083 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
100307127 AGAGCACACT
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 208 0.98
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:100312948 original size:16 final size:17
Alignment explanation
Indices: 100312917--100312949 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100312907 CATAAGAATA
100312917 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
100312934 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
100312950 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:100313295 original size:46 final size:46
Alignment explanation
Indices: 100313230--100313599 Score: 481
Period size: 46 Copynumber: 8.0 Consensus size: 46
100313220 TTATCTTTGA
* * * * *
100313230 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* *
100313276 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTACATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * ***
100313322 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
*
100313368 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
** * * ***
100313414 CACATTGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
*
100313460 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
100313506 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * *
100313552 TAGGTTGCCATTGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
100313598 CA
1 CA
100313600 GAGAGCACAC
Statistics
Matches: 289, Mismatches: 34, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 3 0.01
46 286 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:100313600 original size:92 final size:92
Alignment explanation
Indices: 100313235--100313599 Score: 532
Period size: 92 Copynumber: 4.0 Consensus size: 92
100313225 TTTGACATGA
* * * * *
100313235 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
** *
100313300 CATGGTCTTATTCATTACATATCACGT
66 CATGGTCTTACACATTTCATATCACGT
*
100313327 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
** *
100313392 CATGGTCTTATTCATTTCATATCACAT
66 CATGGTCTTACACATTTCATATCACGT
* *
100313419 TGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
*
100313484 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGT
* *** * * *
100313511 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTTGCCATTGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
100313576 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTACACATTTCATATCA
100313600 GAGAGCACAC
Statistics
Matches: 251, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 251 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:100316097 original size:30 final size:30
Alignment explanation
Indices: 100316030--100316097 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
100316020 CACTCTTAAA
* *
100316030 ATATTTGCACTATTAGTCCTTCAAATTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
100316060 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
100316089 AGTATTTAC
1 A-TATTTAC
100316098 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:100319127 original size:29 final size:29
Alignment explanation
Indices: 100319095--100319177 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
100319085 TTAATTGATT
* *
100319095 TAATAATATAATAACGATGATAATA-AAAA
1 TAATAATATAATAACAAT-AAAATAGAAAA
* *
100319124 TAATAAAATAATAATAATAAAATAGAAAA
1 TAATAATATAATAACAATAAAATAGAAAA
*
100319153 TAATAATAACAAT-ACAATAATAATA
1 TAATAAT-ATAATAACAATAA-AATA
100319178 ATAGTAAAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 5 0.11
29 31 0.70
30 8 0.18
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (29 bp):
TAATAATATAATAACAATAAAATAGAAAA
Found at i:100319344 original size:3 final size:3
Alignment explanation
Indices: 100319059--100319325 Score: 163
Period size: 3 Copynumber: 89.3 Consensus size: 3
100319049 GAAGAGAAAT
* * * *
100319059 ATA ATA ATA GTA ATA ATA ATA TTTA ATTA ATTG AT- TTA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA A-TA A-TA ATA ATA ATA ATA ATA
** * * *
100319105 ATA ACG ATG ATA ATA AAA ATA ATA A-A ATA ATA ATA ATA A-A ATA GAAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
100319152 ATA ATA ATA ACA AT- ACA ATA ATA ATA ATA GTA A-A GACA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * * * * * * * * *
100319196 ATA AGA ATG ATA AGA ATA CTA CTA CTA CTA CTA CTA CTA CTA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
100319244 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
100319292 ATA ATA A-A ATTA ATTA AT- TTA ATA ATA ATA ATA A
1 ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA ATA A
100319326 AGTTAATTAA
Statistics
Matches: 215, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
2 12 0.06
3 186 0.87
4 17 0.08
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:100322376 original size:13 final size:13
Alignment explanation
Indices: 100322355--100322386 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
100322345 ATTCCATGTT
*
100322355 TTAAAATTTTTAA
1 TTAATATTTTTAA
100322368 TTAATATTTTTAA
1 TTAATATTTTTAA
100322381 TTAATA
1 TTAATA
100322387 AATATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAATATTTTTAA
Found at i:100322873 original size:20 final size:20
Alignment explanation
Indices: 100322841--100322878 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
100322831 TAAGAAATAA
*
100322841 TATTTTTATTATATAATACC
1 TATTTTTATTATAAAATACC
100322861 TATTATTTA-TATAAAATA
1 TATT-TTTATTATAAAATA
100322879 AAAAGAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTTTATTATAAAATACC
Found at i:100324873 original size:126 final size:126
Alignment explanation
Indices: 100324671--100324927 Score: 363
Period size: 126 Copynumber: 2.0 Consensus size: 126
100324661 ATACTGGTGC
* * *
100324671 GTGTCTCAACAGTGTGTGACACACGGCCATGCGCACGGGCGTGTGGTTTGGCTGTGTGTCCCTTG
1 GTGTCTCAACAGTGTGTGACACACGACCATGCGCACGGGCATGTGGTTTGGCTGTATGTCCCTTG
* * * * *
100324736 CATTTTAAAATTTGAGAAACATAATGCTTAGAATTAAGCACACCGGCAGAGACACGGGCGT
66 CATCTTAAAATTTAAGAAACAGAATGCTCAAAATTAAGCACACCGGCAGAGACACGGGCGT
* * *
100324797 GTGTCTCAACTGTGTGTGACACACGACCATGCGGACGGGCATGTGGTTTGGTTGTATGTCACC-T
1 GTGTCTCAACAGTGTGTGACACACGACCATGCGCACGGGCATGTGGTTTGGCTGTATGTC-CCTT
* * * *
100324861 GCATCTTAAAATTTAAGAAACAGAATGCTCAAAATTGAGTATACGGGCAGAGACACGGGCGT
65 GCATCTTAAAATTTAAGAAACAGAATGCTCAAAATTAAGCACACCGGCAGAGACACGGGCGT
100324923 GTGTC
1 GTGTC
100324928 CTGGCCGTGT
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
126 113 0.98
127 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (126 bp):
GTGTCTCAACAGTGTGTGACACACGACCATGCGCACGGGCATGTGGTTTGGCTGTATGTCCCTTG
CATCTTAAAATTTAAGAAACAGAATGCTCAAAATTAAGCACACCGGCAGAGACACGGGCGT
Found at i:100330002 original size:26 final size:25
Alignment explanation
Indices: 100329968--100330016 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
100329958 ATAAATAAAT
* *
100329968 AAAATTAAATTAAACAAAAGAAATGA
1 AAAACTAAATAAAACAAAA-AAATGA
100329994 AAAACTAAATAAAACAAAAAAAT
1 AAAACTAAATAAAACAAAAAAAT
100330017 CATATGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (25 bp):
AAAACTAAATAAAACAAAAAAATGA
Found at i:100333562 original size:29 final size:29
Alignment explanation
Indices: 100333529--100333587 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
100333519 GAGACTTGTT
* *
100333529 AGGCACCGCCCAGGTAGAGGGATGCTGTC
1 AGGCAACGCCCAGGTAGAGGGACGCTGTC
* *
100333558 AGGCAATGCCCAGGTGGAGGGACGCTGTC
1 AGGCAACGCCCAGGTAGAGGGACGCTGTC
100333587 A
1 A
100333588 AGCGACACCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.25, G:0.39, T:0.14
Consensus pattern (29 bp):
AGGCAACGCCCAGGTAGAGGGACGCTGTC
Found at i:100346444 original size:2 final size:2
Alignment explanation
Indices: 100346437--100346468 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
100346427 GTTAATCACT
*
100346437 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100346469 CTACATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100347123 original size:24 final size:24
Alignment explanation
Indices: 100347097--100347208 Score: 161
Period size: 24 Copynumber: 4.7 Consensus size: 24
100347087 GATTCAACTC
* * * *
100347097 CGCACACATAGTGCCAAATAATTC
1 CGCACACATAGTGCCATACAAATA
* *
100347121 CGCACACATAGTGCCTTACATATA
1 CGCACACATAGTGCCATACAAATA
100347145 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
*
100347169 CGCTCACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
100347193 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
100347209 CTTAAATCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 78 1.00
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:100347687 original size:2 final size:2
Alignment explanation
Indices: 100347680--100347708 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100347670 CATACATATA
100347680 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
100347709 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:100353571 original size:14 final size:15
Alignment explanation
Indices: 100353544--100353572 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
100353534 TGATTTGCAT
100353544 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
100353559 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
100353573 AAATGGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:100354028 original size:10 final size:10
Alignment explanation
Indices: 100354013--100354043 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
100354003 CTTTGGTTCT
100354013 TATTCTTTTC
1 TATTCTTTTC
*
100354023 TATTCTATTC
1 TATTCTTTTC
100354033 TATTCTTTTC
1 TATTCTTTTC
100354043 T
1 T
100354044 TTTTTTAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTCTTTTC
Found at i:100358715 original size:45 final size:45
Alignment explanation
Indices: 100358651--100359295 Score: 263
Period size: 45 Copynumber: 13.8 Consensus size: 45
100358641 TTGTAACTTT
* * *
100358651 AATCTGTTCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * * *
100358696 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTATAACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-T-GC---TATCTTC
* * ** * *** * *
100358747 AATATGTTTTACTGCAACTTTAAAAAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * * *
100358792 AATTTGCTCCACTGCAGCATCAGGGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C---TATCTTC
* * *
100358843 AATCTGTTCCACTGAAACTTCAGGG-GAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAG-ATAAGATTTGCTATCTTC
* * * * **
100358888 AATCTACTCCACTGCAGCATCATGGAGATAAGATTCACTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * *
100358933 AATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C---TATCTTC
* * * * * *
100358984 AATCTGTTCCACTGTAACTTTAGGGAGATAAGACTTGCTATGGTAGATTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTA---T--CTTC
* * * * *
100359034 AATCTAAC-CTACTGCAACTTCAAAGG-TATAAGA-CT--TATCGTTTC
1 AATCT-GCTCCACTGCAACTTC-AGGGAGATAAGATTTGCTATC--TTC
* * *
100359078 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTATAGCTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-T-GC---TATCTTC
* ** * * * * *
100359129 AATTTTTTCCACTGTAACTTCAGGGAAATAAAATTTGTTATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * * * *
100359174 AATCTACTCCACTAG-AGCTTCAGGGAGATGAGATTTG-TAGCTTT
1 AATCTGCTCCACT-GCAACTTCAGGGAGATAAGATTTGCTATCTTC
* * *
100359218 AATCCGCTCCGCTGCAACTTCAGGGAGAT-A-ATGTT-C--TCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGCTATCTTC
* * *
100359259 AATCTGCTCCACTGTATCTTCAGAGAGATAAGATTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
100359296 TAACTTGTAG
Statistics
Matches: 444, Mismatches: 109, Indels: 96
0.68 0.17 0.15
Matches are distributed among these distances:
41 28 0.06
42 5 0.01
43 9 0.02
44 55 0.12
45 167 0.38
46 4 0.01
47 4 0.01
48 7 0.02
49 2 0.00
50 29 0.07
51 131 0.30
53 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTC
Found at i:100358761 original size:96 final size:96
Alignment explanation
Indices: 100358597--100359326 Score: 443
Period size: 96 Copynumber: 7.7 Consensus size: 96
100358587 GAATTGTAGT
* *
100358597 TTCAATCTACT-CAGCTGCAACTTTAGGAAGATAAGGTTTGTAACTTGTAACTTTAATCTGTTCC
1 TTCAATCTACTCCA-CTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTCC
*
100358661 ACTGCAACTTCAGAGAAATAAGATTTGCTATC
65 ACTGCAACTTCAGAGAAATAAGATTCGCTATC
* * * * **
100358693 TTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTATAACTTGTAACTTTAATATGTTTTA
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTCCA
* * *
100358758 CTGCAACTTTAAAAAAATAAGATTCGCTATC
66 CTGCAACTTCAGAGAAATAAGATTCGCTATC
* * * * * *
100358789 TTCAATTTGCTCCACTGCAGCATCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCA
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTCCA
* * *
100358854 CTGAAACTTCAGGGGAATAAGATTCGCTATC
66 CTGCAACTTCAGAGAAATAAGATTCGCTATC
* * * * * * * *
100358885 TTCAATCTACTCCACTGCAGCATCATGGAGATAAGA--T-TCAC---TATCTTCAATCTGCTCCA
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTCCA
* * * * *
100358944 CTGCAACATCAGGGAGATAAGATTTGTAACTTGTAGC
66 CTGCAACTTCAGAGAAATAAGATTCG---C---TATC
* ** * * * **
100358981 TTTAATCTGTTCCACTGTAACTTTAGGGAGATAAGACTTGCT-A-TGGTAGA-TTTAATCT-AAC
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTG-TAACTTGTA-ACTTTAATCTGTTC
* ** *
100359042 CTACTGCAACTTCAAAGGTATAAGA--C-TTATC
64 C-ACTGCAACTTCAGAGAAATAAGATTCGCTATC
* * * * * * * *
100359073 GTTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTATAGCTTGTAGCTTTAATTTTTTC
1 --TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTC
* * * * *
100359138 CACTGTAACTTCAGGGAAATAAAATTTGTTATC
64 CACTGCAACTTCAGAGAAATAAGATTCGCTATC
* * * * * *
100359171 TTTAATCTACTCCACTAG-AGCTTCAGGGAGATGAGATTTGT-A---G---CTTTAATCCGCTCC
1 TTCAATCTACTCCACT-GCAACTTTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTCC
* * *
100359228 GCTGCAACTTCAGGGAGATAATG-TT--C--TC
65 ACTGCAACTTCAGAGAAATAA-GATTCGCTATC
* * * * * * * ** *
100359256 TTTAATCTGCTCCACTGTATCTTCAGAGAGATAAGATTTGTAACTTGTAGCTTTAGCCTATTCCA
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTCCA
100359321 CTGCAA
66 CTGCAA
100359327 TGTAGCACCC
Statistics
Matches: 492, Mismatches: 107, Indels: 74
0.73 0.16 0.11
Matches are distributed among these distances:
84 1 0.00
85 37 0.08
86 1 0.00
89 31 0.06
90 36 0.07
92 19 0.04
93 5 0.01
94 34 0.07
95 28 0.06
96 260 0.53
97 3 0.01
98 6 0.01
99 1 0.00
100 3 0.01
101 27 0.05
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (96 bp):
TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTCCA
CTGCAACTTCAGAGAAATAAGATTCGCTATC
Found at i:100358919 original size:141 final size:140
Alignment explanation
Indices: 100358774--100359248 Score: 498
Period size: 141 Copynumber: 3.4 Consensus size: 140
100358764 CTTTAAAAAA
* *
100358774 ATAAGATTCGCTATCTTCAATTTGCTCCACTGCAGCATCAGGGAGATAAGATTTGTAACTTGTAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGTAACTTGTAG
* *
100358839 CTTTAATCTGTTCCACTGAAACTTCAGGGGAATAAGATTCGCTATCTTCAATCTACTCCACTGCA
66 CTTTAATCTGTTCCACTGTAACTTCAGGGGAATAAGATT-GCTATCTTTAATCTACTCCACTGCA
* *
100358904 GCATCATGGAG
130 GCTTCAAGGAG
*
100358915 ATAAGATTCACTATCTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGTAACTTGTAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGTAACTTGTAG
* *
100358980 CTTTAATCTGTTCCACTGTAACTTTA-GGGAGATAAGACTTGCTATGGTAGATTTAATCTAAC-C
66 CTTTAATCTGTTCCACTGTAACTTCAGGGGA-ATAAGA-TTGCTA---T--CTTTAATCT-ACTC
* * *
100359043 TACTGCAACTTCAAAGG-T
123 CACTGCAGCTTC-AAGGAG
* * * * *
100359061 ATAAGA--C-TTATCGTTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTATAGCTTGT
1 ATAAGATTCGCTATC--TTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGTAACTTGT
* * * * *
100359123 AGCTTTAATTTTTTCCACTGTAACTTCAGGGAAATAAAATTTGTTATCTTTAATCTACTCCACTA
64 AGCTTTAATCTGTTCCACTGTAACTTCAGGGGAATAAGA-TTGCTATCTTTAATCTACTCCACT-
*
100359188 G-AGCTTCAGGGAG
127 GCAGCTTCAAGGAG
* * * * * * *
100359201 ATGAGATTTG-TAGCTTTAATCCGCTCCGCTGCAACTTCAGGGAGATAA
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACATCAGGGAGATAA
100359249 TGTTCTCTTT
Statistics
Matches: 280, Mismatches: 36, Indels: 37
0.79 0.10 0.10
Matches are distributed among these distances:
139 5 0.02
140 56 0.20
141 97 0.35
142 6 0.02
143 4 0.01
144 2 0.01
145 79 0.28
146 26 0.09
147 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (140 bp):
ATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTTGTAACTTGTAG
CTTTAATCTGTTCCACTGTAACTTCAGGGGAATAAGATTGCTATCTTTAATCTACTCCACTGCAG
CTTCAAGGAG
Found at i:100360426 original size:22 final size:21
Alignment explanation
Indices: 100360386--100360426 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
100360376 CCAATCTCAT
100360386 GCATCAGATAAAAACAACATG
1 GCATCAGATAAAAACAACATG
100360407 GCATGCAG-TAAATAACAACA
1 GCAT-CAGATAAA-AACAACA
100360427 GTCAAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (21 bp):
GCATCAGATAAAAACAACATG
Found at i:100362008 original size:26 final size:26
Alignment explanation
Indices: 100361978--100362085 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
100361968 TGAAATTCCC
100361978 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100362004 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
100362030 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100362056 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100362082 ATCA
1 ATCA
100362086 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:100362514 original size:44 final size:44
Alignment explanation
Indices: 100362458--100362699 Score: 149
Period size: 44 Copynumber: 5.6 Consensus size: 44
100362448 TTAATCCGAC
* * * * *
100362458 CCACTAAAACTTCAGAGATATAGGATTTGTCGCTTCAATCTGCT
1 CCACTACAACTTCAGAGAGATAAGATTTGTAGCTTCAACCTGCT
** *
100362502 CCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAACCTGCT
1 CCACTACAACTTCAGAGAGATAAGATTTGTAGCTTCAACCTGCT
* * * *
100362546 CCACTACAACTTCA-AGGAGATAAG--GT-TA-CTTTAATCTGAT
1 CCACTACAACTTCAGA-GAGATAAGATTTGTAGCTTCAACCTGCT
* * * * * * *
100362586 CCATTGCACCTTTAG-GAAGATAAGATTTGTAACTTCAATCTACT
1 CCACTACAACTTCAGAG-AGATAAGATTTGTAGCTTCAACCTGCT
* * * * **
100362630 CCACTACAACTTTA-AGGAGATAAGGTTTGT-GACTTTAATCTATT
1 CCACTACAACTTCAGA-GAGATAAGATTTGTAG-CTTCAACCTGCT
* *
100362674 CCACTGCAACTTCAGGGAGATAAGAT
1 CCACTACAACTTCAGAGAGATAAGAT
100362700 CTGCCACGAT
Statistics
Matches: 154, Mismatches: 33, Indels: 22
0.74 0.16 0.11
Matches are distributed among these distances:
39 1 0.01
40 26 0.17
41 2 0.01
42 2 0.01
43 2 0.01
44 120 0.78
45 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
CCACTACAACTTCAGAGAGATAAGATTTGTAGCTTCAACCTGCT
Found at i:100376940 original size:25 final size:23
Alignment explanation
Indices: 100376896--100376952 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
100376886 TGGTATTATG
* *
100376896 ATCATTATTGTTATCCTTATTACTC
1 ATCATTATTATTATACTTA-TA-TC
*
100376921 ATCATTATTATTATAGTTATATC
1 ATCATTATTATTATACTTATATC
100376944 ATTCATTAT
1 A-TCATTAT
100376953 GCATTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 9 0.32
25 16 0.57
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.53
Consensus pattern (23 bp):
ATCATTATTATTATACTTATATC
Found at i:100378591 original size:24 final size:24
Alignment explanation
Indices: 100378562--100378615 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
100378552 AATTAAGTAT
100378562 AAAATATAATTTT-ATTATTTGATA
1 AAAATATAATTTTGATTATTT-ATA
*
100378586 AAAATA-AATTTTGATTATTTTTA
1 AAAATATAATTTTGATTATTTATA
100378609 AAAATAT
1 AAAATAT
100378616 TCATTTCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAAATATAATTTTGATTATTTATA
Found at i:100381364 original size:2 final size:2
Alignment explanation
Indices: 100381357--100381385 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100381347 TCAAAATTAA
100381357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100381386 AATTGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100388083 original size:25 final size:25
Alignment explanation
Indices: 100388055--100388107 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
100388045 TTAAAATTTC
*
100388055 ATAAGGGAACAAATCTAATATGCAA
1 ATAAAGGAACAAATCTAATATGCAA
* * *
100388080 ATAAATGAATAAATTTAATATGCAA
1 ATAAAGGAACAAATCTAATATGCAA
100388105 ATA
1 ATA
100388108 GATCAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (25 bp):
ATAAAGGAACAAATCTAATATGCAA
Found at i:100389337 original size:17 final size:14
Alignment explanation
Indices: 100389303--100389330 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100389293 ATTAATTAAC
100389303 TTTATTATATTACA
1 TTTATTATATTACA
100389317 TTTATTATATTACA
1 TTTATTATATTACA
100389331 AAATTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATTATATTACA
Found at i:100396881 original size:24 final size:20
Alignment explanation
Indices: 100396836--100396876 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
100396826 ACCACACTAG
100396836 TCCTTTCAAAGACTTATGAC
1 TCCTTTCAAAGACTTATGAC
100396856 TCCTTTCAAAGACTTATGAC
1 TCCTTTCAAAGACTTATGAC
100396876 T
1 T
100396877 GACTCTCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (20 bp):
TCCTTTCAAAGACTTATGAC
Found at i:100401958 original size:18 final size:18
Alignment explanation
Indices: 100401935--100401973 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100401925 TAATTAACTT
100401935 TTAAAAAATTTAAAAAAA
1 TTAAAAAATTTAAAAAAA
* * *
100401953 TTAAAAAGTTTTAATAAA
1 TTAAAAAATTTAAAAAAA
100401971 TTA
1 TTA
100401974 TTTAAAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAAAATTTAAAAAAA
Found at i:100402537 original size:18 final size:20
Alignment explanation
Indices: 100402514--100402563 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
100402504 TACAAGTAAC
100402514 ATTATAAATAAT-TT-AAAA
1 ATTATAAATAATATTCAAAA
* *
100402532 ATTATAAAAAATATTCGAATA
1 ATTATAAATAATATTC-AAAA
100402553 ATTATAAATAA
1 ATTATAAATAA
100402564 AAATTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
21 13 0.50
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
ATTATAAATAATATTCAAAA
Found at i:100402735 original size:20 final size:21
Alignment explanation
Indices: 100402694--100402745 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
100402684 TTAACTTTTT
* *
100402694 TTTTTAAAAAAAGTTTACAAA
1 TTTTTAAAAAAAGTTCAAAAA
100402715 TTTTTAAAAAAA-TTCAAAAA
1 TTTTTAAAAAAAGTTCAAAAA
* *
100402735 TTATGAAAAAA
1 TTTTTAAAAAA
100402746 TTCTTTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (21 bp):
TTTTTAAAAAAAGTTCAAAAA
Found at i:100409254 original size:23 final size:23
Alignment explanation
Indices: 100409227--100409270 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
100409217 TCTAAAAGGT
100409227 GTTTAATGTGAAATATGAAAAGC
1 GTTTAATGTGAAATATGAAAAGC
100409250 GTTTAATGTGAAATATGAAAA
1 GTTTAATGTGAAATATGAAAA
100409271 TGAATGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.32
Consensus pattern (23 bp):
GTTTAATGTGAAATATGAAAAGC
Found at i:100410507 original size:21 final size:22
Alignment explanation
Indices: 100410483--100410529 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
100410473 CCAAATTCTC
100410483 TCAAA-TT-TCTCTCAATTTTTG
1 TCAAAGTTGTCTCT-AATTTTTG
100410504 TCAAAGTTGTCTCTAATTTTTG
1 TCAAAGTTGTCTCTAATTTTTG
100410526 -CAAA
1 TCAAA
100410530 AAAGCTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (22 bp):
TCAAAGTTGTCTCTAATTTTTG
Found at i:100412339 original size:18 final size:18
Alignment explanation
Indices: 100412316--100412358 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
100412306 TACCAGGTGC
*
100412316 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
100412334 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
100412352 GTTTCCT
1 GTATCCT
100412359 TTTCCTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:100412634 original size:21 final size:20
Alignment explanation
Indices: 100412609--100412653 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
100412599 CAACCAGATC
* *
100412609 CCCTACCGGAGGAACTACAA
1 CCCTACCGGAGCAACCACAA
100412629 TCCCTACCGGAGCAACCACAA
1 -CCCTACCGGAGCAACCACAA
100412650 CCCT
1 CCCT
100412654 CGCTGGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.31, C:0.42, G:0.16, T:0.11
Consensus pattern (20 bp):
CCCTACCGGAGCAACCACAA
Found at i:100412934 original size:126 final size:129
Alignment explanation
Indices: 100412762--100413005 Score: 379
Period size: 126 Copynumber: 1.9 Consensus size: 129
100412752 ATTTGTAGAA
* * ** *
100412762 ATTTTTTTTATATAGTTTCATATAATAAAATAAAAGTTTTTTTTAATATTTTAATTGTACTCTA-
1 ATTTATTTTATATAGTTTAATATAATAAAATAAAAGTTAGTTTTAATATTATAATTGTACTCTAC
*
100412826 TTTTTTTTAATTTTATTAAAATAAAT-TTCTTTTAAATTAGCCAAT-ATTTTTCTTATTTTTAT
66 TTTTTTTTAATTTTAATAAAATAAATATTCTTTTAAATTAGCCAATAATTTTTCTTATTTTTAT
*
100412888 ATTTATTTTATATAGTTTTAAT-TAATAAAATAAAAGTTAGTTTTAATATTATAATTGTACTTTA
1 ATTTATTTTATATAG-TTTAATATAATAAAATAAAAGTTAGTTTTAATATTATAATTGTACTCTA
*
100412952 CTTTTTTTTAATTTTAATACAATAAATATTCTTTTAAATTAGCCAATAATTTTT
65 CTTTTTTTTAATTTTAATAAAATAAATATTCTTTTAAATTAGCCAATAATTTTT
100413006 ATTAAAATAA
Statistics
Matches: 106, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
126 52 0.49
127 29 0.27
128 19 0.18
129 6 0.06
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (129 bp):
ATTTATTTTATATAGTTTAATATAATAAAATAAAAGTTAGTTTTAATATTATAATTGTACTCTAC
TTTTTTTTAATTTTAATAAAATAAATATTCTTTTAAATTAGCCAATAATTTTTCTTATTTTTAT
Found at i:100416370 original size:123 final size:125
Alignment explanation
Indices: 100416076--100416379 Score: 458
Period size: 123 Copynumber: 2.5 Consensus size: 125
100416066 AGTCTAAGGC
* *
100416076 TTTTTCAGATACTACTGTAGCAAAAGAGTATCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGTATCCATGTAGGAGCTTTTTTCCGTAATTTTGCTGAC
*
100416141 AGTGCATCCTTCTTGAAGCGTTTTTTACACTATTTATTCAGAAACATCTTCTCAAAATTAT
66 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACA-CTTCTCAAAATTAT
*
100416202 TTTTTCAGATACTA---TAGCAAAAGAGTATCCACATG-A-GAGTTTTTTTCCGTAATTTTGCTG
1 TTTTTCAGATACTACTGTAGCAAAAGAGTAT-C-CATGTAGGAGCTTTTTTCCGTAATTTTGCTG
*
100416262 ACAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACA-TTCTCAAAATTAT
64 ACAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACACTTCTCAAAATTAT
* * **
100416323 TTTTTCAAATACTACTGTAACAAAAGAGCGTCCATGTAGGAGCTTTTTTCCGTAATT
1 TTTTTCAGATACTACTGTAGCAAAAGAGTATCCATGTAGGAGCTTTTTTCCGTAATT
100416380 AATAGTTAAT
Statistics
Matches: 161, Mismatches: 10, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
121 26 0.16
122 4 0.02
123 85 0.53
124 29 0.18
125 3 0.02
126 14 0.09
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (125 bp):
TTTTTCAGATACTACTGTAGCAAAAGAGTATCCATGTAGGAGCTTTTTTCCGTAATTTTGCTGAC
AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACACTTCTCAAAATTAT
Found at i:100416594 original size:23 final size:23
Alignment explanation
Indices: 100416538--100416595 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
100416528 TTCTAAACCA
*
100416538 CTAAACCCTAACCCTAAAACAAT
1 CTAAACCCTAACCATAAAACAAT
*
100416561 CAAAAACCCTAACCATAAAA-AATT
1 C-TAAACCCTAACCATAAAACAA-T
100416585 CTAAACCCTAA
1 CTAAACCCTAA
100416596 TTTAATTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (23 bp):
CTAAACCCTAACCATAAAACAAT
Found at i:100416700 original size:24 final size:24
Alignment explanation
Indices: 100416673--100416722 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
100416663 TTTTTCTTAA
*
100416673 AAAAACACTAAA-ACATTAAACCCT
1 AAAAACACTAAATA-ACTAAACCCT
*
100416697 AAAAACCCTAAATAACTAAACCCT
1 AAAAACACTAAATAACTAAACCCT
100416721 AA
1 AA
100416723 CCCTAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (24 bp):
AAAAACACTAAATAACTAAACCCT
Found at i:100416756 original size:174 final size:171
Alignment explanation
Indices: 100416400--100416756 Score: 522
Period size: 174 Copynumber: 2.1 Consensus size: 171
100416390 TTAATTAATA
*
100416400 AACCCTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTAATTTTACAGTTAATTTAATTAA
1 AACCCTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTAATTTCACAGTTAATTTAATTAA
* * **
100416465 TTCCCTCGACTCTAATTAAATTAATTTTTTCCTTAAAAACACTAAAATCTTAAACCTTAAAAATT
66 TTCCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAACACTAAAATCTTAAACCCTAAAAACC
* * *
100416530 CTAAACCACTAAACCCTAACCCTAAAACAATCAAAAACCCT
131 CTAAACAACTAAACCCTAACCCTAAAACAATAAAAAACCAT
* * *
100416571 AACCATAAAAAA-TTCTAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTA
1 AACCCTAAAAAACCT-TAAACCCTAATTTAATTGATTTTTTTTAATTTCACAGTTAATTTAATTA
100416635 ATTAACCCTCAACTCTAATTAAATTAATTTTTT-CTTAAAAAAACACTAAAA-CATTAAACCCTA
65 ATT--CCCTCAACTCTAATTAAATTAATTTTTTCCTT--AAAAACACTAAAATC-TTAAACCCTA
* *
100416698 AAAACCCTAAATAACTAAACCCTAACCCTAAAACAATAAAAAAGCAT
125 AAAACCCTAAACAACTAAACCCTAACCCTAAAACAATAAAAAACCAT
100416745 AACCCTAAAAAA
1 AACCCTAAAAAA
100416757 AGGGGCAAAA
Statistics
Matches: 166, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
170 1 0.01
171 61 0.37
172 3 0.02
173 28 0.17
174 73 0.44
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (171 bp):
AACCCTAAAAAACCTTAAACCCTAATTTAATTGATTTTTTTTAATTTCACAGTTAATTTAATTAA
TTCCCTCAACTCTAATTAAATTAATTTTTTCCTTAAAAACACTAAAATCTTAAACCCTAAAAACC
CTAAACAACTAAACCCTAACCCTAAAACAATAAAAAACCAT
Found at i:100417702 original size:29 final size:28
Alignment explanation
Indices: 100417637--100417692 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
100417627 TATGATATTT
100417637 GAAGAATATTTTTTAAAAAGTAATTATA
1 GAAGAATATTTTTTAAAAAGTAATTATA
*
100417665 GAAGAATATTTTTTAAAAGGTAATTATA
1 GAAGAATATTTTTTAAAAAGTAATTATA
100417693 ATGTGAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (28 bp):
GAAGAATATTTTTTAAAAAGTAATTATA
Found at i:100417817 original size:2 final size:2
Alignment explanation
Indices: 100417810--100417839 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
100417800 TATAGGTTTA
*
100417810 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100417840 CTCATAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:100421654 original size:23 final size:20
Alignment explanation
Indices: 100421627--100421670 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
100421617 TTAAAAAGTA
100421627 TATTTGATTAAAATATATATATT
1 TATTT-ATT-AAATATATA-ATT
*
100421650 TATTTATTTAATATATAATT
1 TATTTATTAAATATATAATT
100421670 T
1 T
100421671 GGGCCGGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 3 0.15
23 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTTATTAAATATATAATT
Found at i:100426707 original size:33 final size:33
Alignment explanation
Indices: 100426665--100426730 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
100426655 AATCTACAAA
100426665 AACCATTAACACACAAAGTAAGCTTTGGAAGCT
1 AACCATTAACACACAAAGTAAGCTTTGGAAGCT
100426698 AACCATTAACACACAAAGTAAGCTTTGGAAGCT
1 AACCATTAACACACAAAGTAAGCTTTGGAAGCT
100426731 TAGTAAGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (33 bp):
AACCATTAACACACAAAGTAAGCTTTGGAAGCT
Found at i:100427028 original size:35 final size:35
Alignment explanation
Indices: 100426977--100427043 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
100426967 CGATTCACAA
**
100426977 CTCAGTATGGTTAATACCAAACCTAAGTTTCATAG
1 CTCAGTATGGACAATACCAAACCTAAGTTTCATAG
* *
100427012 CTCAGTATGGACAATACCATACCTACGTTTCA
1 CTCAGTATGGACAATACCAAACCTAAGTTTCA
100427044 CAACTCGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (35 bp):
CTCAGTATGGACAATACCAAACCTAAGTTTCATAG
Found at i:100428518 original size:39 final size:37
Alignment explanation
Indices: 100428418--100428582 Score: 182
Period size: 35 Copynumber: 4.6 Consensus size: 37
100428408 CATGGCAAAG
100428418 TGTGAAATGTAGGTATGG--TATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
*
100428453 TGTGAAATGTAGGTATGGTAT-T-ATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
100428488 TGTGAAATGTAGG-ATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-TATC--ATCCATACTGAGT
** * * *
100428527 TAAGAAATGTAGGTATGGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
**
100428562 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
100428583 TTCAATGAGG
Statistics
Matches: 112, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
34 6 0.05
35 72 0.64
36 2 0.02
37 1 0.01
39 26 0.23
40 5 0.04
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.33
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
Found at i:100428526 original size:74 final size:75
Alignment explanation
Indices: 100428418--100428587 Score: 212
Period size: 74 Copynumber: 2.4 Consensus size: 75
100428408 CATGGCAAAG
** *
100428418 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
100428477 CCATACTGAGC
65 CCATACCGAGC
100428488 TGTGAAATGTAGG-ATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
100428552 CATACCGAGT
66 CATACCGAGC
**
100428562 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
100428588 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
69 4 0.05
70 13 0.15
72 4 0.05
73 1 0.01
74 56 0.65
75 8 0.09
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:100435935 original size:35 final size:35
Alignment explanation
Indices: 100435908--100436073 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
100435898 CATGGCAAAG
*
100435908 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
100435943 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
100435978 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
100436018 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
100436053 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
100436074 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:100436027 original size:75 final size:75
Alignment explanation
Indices: 100435908--100436078 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
100435898 CATGGCAAAG
** *
100435908 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
100435967 CCATACTGAGC
65 CCATACCGAGC
100435978 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
100436043 CATACCGAGT
66 CATACCGAGC
**
100436053 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
100436079 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:100437402 original size:105 final size:105
Alignment explanation
Indices: 100437211--100437423 Score: 320
Period size: 105 Copynumber: 2.0 Consensus size: 105
100437201 GGGGCGTTAC
* * *
100437211 ACTCGGTATGGGAAATACCATACCTACGGATTATAGCTTGGTATGAATAATACCATACCTATGTT
1 ACTCGGTATGGGAAATACCATACCTACGGATTATAGCTCGGTATGAATAATACCATACCTACGTG
*
100437276 TCATAGCTCAGAATGGACAATACCATACCTACGTTTCACA
66 TCATAGCTCAGAATGGACAATACCATACCTACGTGTCACA
* * *
100437316 ACTCGGTATGGGAAATATCATACCTACGTATTATAGCTCGGTAT-AGATAATACCATATCTACGT
1 ACTCGGTATGGGAAATACCATACCTACGGATTATAGCTCGGTATGA-ATAATACCATACCTACGT
* * *
100437380 GTCATAGCTCAGTATGGCCAATACCATACCTACGTGTCATA
65 GTCATAGCTCAGAATGGACAATACCATACCTACGTGTCACA
100437421 ACT
1 ACT
100437424 TTTCCATGGA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
104 1 0.01
105 96 0.99
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (105 bp):
ACTCGGTATGGGAAATACCATACCTACGGATTATAGCTCGGTATGAATAATACCATACCTACGTG
TCATAGCTCAGAATGGACAATACCATACCTACGTGTCACA
Found at i:100437414 original size:35 final size:35
Alignment explanation
Indices: 100437212--100437420 Score: 199
Period size: 35 Copynumber: 6.0 Consensus size: 35
100437202 GGGCGTTACA
*
100437212 CTCGGTATGGGA-AATACCATACCTACG-GATTATAG
1 CTCGGTAT-GGACAATACCATACCTACGTG-TCATAG
* * * * *
100437247 CTTGGTATGAATAATACCATACCTATGTTTCATAG
1 CTCGGTATGGACAATACCATACCTACGTGTCATAG
* * * * *
100437282 CTCAGAATGGACAATACCATACCTACGTTTCACAA
1 CTCGGTATGGACAATACCATACCTACGTGTCATAG
* * *
100437317 CTCGGTATGGGA-AATATCATACCTACGTATTATAG
1 CTCGGTAT-GGACAATACCATACCTACGTGTCATAG
* * *
100437352 CTCGGTATAGATAATACCATATCTACGTGTCATAG
1 CTCGGTATGGACAATACCATACCTACGTGTCATAG
* *
100437387 CTCAGTATGGCCAATACCATACCTACGTGTCATA
1 CTCGGTATGGACAATACCATACCTACGTGTCATA
100437421 ACTTTTCCAT
Statistics
Matches: 140, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
34 4 0.03
35 133 0.95
36 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (35 bp):
CTCGGTATGGACAATACCATACCTACGTGTCATAG
Found at i:100439124 original size:6 final size:6
Alignment explanation
Indices: 100439113--100439138 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
100439103 TTAAATTAAA
100439113 TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TT
100439139 CATAGTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:100443829 original size:37 final size:36
Alignment explanation
Indices: 100443782--100443890 Score: 103
Period size: 37 Copynumber: 3.0 Consensus size: 36
100443772 CACATTAGAA
* *
100443782 GCTCATAAGAGCTAATCCACCCGATAACACGCCAATT
1 GCTCAGAAGAGCTAATCCACCTGATAACACGCCAA-T
* * *
100443819 GCTCCGAAGAGCTAGTCCAACTG-TAAACACGCCAGAT
1 GCTCAGAAGAGCTAATCCACCTGAT-AACACGCCA-AT
* ** *
100443856 GCTTATTAGAGCTAATCAACCTGATAACACGCCAA
1 GCTCAGAAGAGCTAATCCACCTGATAACACGCCAA
100443891 AATAAGGAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
36 2 0.04
37 53 0.93
38 2 0.04
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (36 bp):
GCTCAGAAGAGCTAATCCACCTGATAACACGCCAAT
Found at i:100446557 original size:46 final size:46
Alignment explanation
Indices: 100446459--100446568 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
100446449 GACATGGCCT
* * *
100446459 GTAAGCTCTTCATGAGCTGATAACAGTAAGCTCTATTGAGCTAAACA
1 GTAAGCTCTTC-CGAGCTGATAACAGTAAGCTCCAATGAGCTAAACA
* *
100446506 ATAAGCTCTTCCGAGCTGA-ATCAGTAAGCTCCAATGAGCTAAAACA
1 GTAAGCTCTTCCGAGCTGATAACAGTAAGCTCCAATGAGCT-AAACA
* *
100446552 GTAAGCTCATACGAGCT
1 GTAAGCTCTTCCGAGCT
100446569 ATGGTGAGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
45 18 0.33
46 26 0.48
47 10 0.19
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (46 bp):
GTAAGCTCTTCCGAGCTGATAACAGTAAGCTCCAATGAGCTAAACA
Found at i:100446567 original size:23 final size:23
Alignment explanation
Indices: 100446480--100446569 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
100446470 ATGAGCTGAT
*
100446480 AACAGTAAGCTC-TATTGAGCT-A
1 AACAGTAAGCTCATA-CGAGCTAA
* * * *
100446502 AACAATAAGCTCTTCCGAGCTGA
1 AACAGTAAGCTCATACGAGCTAA
* *
100446525 ATCAGTAAGCTCCA-ATGAGCTAA
1 AACAGTAAGCT-CATACGAGCTAA
100446548 AACAGTAAGCTCATACGAGCTA
1 AACAGTAAGCTCATACGAGCTA
100446570 TGGTGAGTTC
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
22 18 0.34
23 34 0.64
24 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCATACGAGCTAA
Found at i:100461690 original size:15 final size:16
Alignment explanation
Indices: 100461661--100461692 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
100461651 AATCTTGTCA
100461661 TGATATGGTTAATATT
1 TGATATGGTTAATATT
100461677 TGATATGG-TAATATT
1 TGATATGGTTAATATT
100461692 T
1 T
100461693 ACGCTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TGATATGGTTAATATT
Found at i:100463399 original size:27 final size:27
Alignment explanation
Indices: 100463361--100463465 Score: 151
Period size: 27 Copynumber: 3.9 Consensus size: 27
100463351 GCGAGGCTGC
* *
100463361 CAGATATTGTGGCGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
100463388 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
100463414 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
100463441 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
100463466 GATGCTTCCT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.11
27 62 0.86
28 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:100465091 original size:26 final size:26
Alignment explanation
Indices: 100465061--100465168 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
100465051 TGAAATTCCC
100465061 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
100465087 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
100465113 ATCATGAAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100465139 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100465165 ATCA
1 ATCA
100465169 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:100471494 original size:29 final size:28
Alignment explanation
Indices: 100471452--100471518 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 28
100471442 GTTTGCATGT
*
100471452 AAAATATTTTTTGGAAAATGATTTCTGG
1 AAAATATTTCTTGGAAAATGATTTCTGG
100471480 AAAATAATTTCTTGGAAAATGATTTCTGG
1 AAAAT-ATTTCTTGGAAAATGATTTCTGG
100471509 AAAATGATTT
1 AAAAT-ATTT
100471519 ACTTTTCTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.40
Consensus pattern (28 bp):
AAAATATTTCTTGGAAAATGATTTCTGG
Found at i:100471497 original size:15 final size:14
Alignment explanation
Indices: 100471463--100471518 Score: 94
Period size: 14 Copynumber: 3.9 Consensus size: 14
100471453 AAATATTTTT
100471463 TGGAAAATGATTTC
1 TGGAAAATGATTTC
*
100471477 TGGAAAATAATTTC
1 TGGAAAATGATTTC
100471491 TTGGAAAATGATTTC
1 -TGGAAAATGATTTC
100471506 TGGAAAATGATTT
1 TGGAAAATGATTT
100471519 ACTTTTCTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (14 bp):
TGGAAAATGATTTC
Found at i:100471990 original size:46 final size:46
Alignment explanation
Indices: 100471919--100472044 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
100471909 AATTAATAAT
* * *
100471919 ATTATCCAAATGCATAATTAGTATTACACCACATGATAACAACAAC
1 ATTATCCAAGTGCATAACTAATATTACACCACATGATAACAACAAC
*
100471965 ATTATCCAAGTGCATAACTAATATTACACCACATGATAACAACAAT
1 ATTATCCAAGTGCATAACTAATATTACACCACATGATAACAACAAC
* *
100472011 ATTGTCCAAGTGCATAACTAATATTACACTACAT
1 ATTATCCAAGTGCATAACTAATATTACACCACAT
100472045 TAAAAGTATC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (46 bp):
ATTATCCAAGTGCATAACTAATATTACACCACATGATAACAACAAC
Found at i:100472027 original size:24 final size:24
Alignment explanation
Indices: 100471954--100472028 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
100471944 ACACCACATG
*
100471954 ATAACAACAACATTATCCAAGTGC
1 ATAACAACAATATTATCCAAGTGC
* *
100471978 ATAAC--TAATATTACACCACA-TG-
1 ATAACAACAATATTA-TCCA-AGTGC
*
100472000 ATAACAACAATATTGTCCAAGTGC
1 ATAACAACAATATTATCCAAGTGC
100472024 ATAAC
1 ATAAC
100472029 TAATATTACA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
22 12 0.31
23 10 0.26
24 17 0.44
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.24
Consensus pattern (24 bp):
ATAACAACAATATTATCCAAGTGC
Found at i:100473041 original size:32 final size:32
Alignment explanation
Indices: 100472995--100473055 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
100472985 TGTCAATCAT
100472995 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
100473027 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
100473056 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:100473062 original size:27 final size:30
Alignment explanation
Indices: 100472995--100473068 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
100472985 TGTCAATCAT
*
100472995 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
100473027 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
100473055 -TCAATATCTAACAA
1 TTCAATATCTAACAA
100473069 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:100476211 original size:64 final size:64
Alignment explanation
Indices: 100476126--100476253 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
100476116 TGAGATGATT
* *
100476126 GAGAAGAAAGTGACTGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
1 GAGAAGAAAATGACAGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
100476190 GAGAAGAAAATGACAGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
1 GAGAAGAAAATGACAGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
100476254 TAGCTTGGGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.16
Consensus pattern (64 bp):
GAGAAGAAAATGACAGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
Found at i:100492385 original size:49 final size:49
Alignment explanation
Indices: 100492330--100492887 Score: 999
Period size: 49 Copynumber: 11.4 Consensus size: 49
100492320 TATTAAAATT
*
100492330 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100492379 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100492428 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100492477 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100492526 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100492575 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100492624 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
100492673 TGTGAAAGTGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100492722 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100492771 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
100492820 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
100492869 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
100492888 ATGTGGTAAA
Statistics
Matches: 489, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 489 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:100492546 original size:27 final size:27
Alignment explanation
Indices: 100492516--100492598 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
100492506 CTAATGGCCG
100492516 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* *** ***
100492543 ATGTGAT-AAGGCCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTGTATAT
100492566 -TGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
100492592 ATGTGAT
1 ATGTGAT
100492599 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:100492693 original size:27 final size:27
Alignment explanation
Indices: 100492663--100492745 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
100492653 CTAATGGCCG
100492663 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* * ***
100492690 ATGTGAT-AAGGCT-TAA-TG-G--CCG
1 ATGTGATGAATG-TGAAAGTGTGTATAT
100492712 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
100492739 ATGTGAT
1 ATGTGAT
100492746 AAGGCCTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
22 8 0.21
23 5 0.13
24 3 0.08
25 3 0.08
26 5 0.13
27 15 0.38
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:100494936 original size:40 final size:40
Alignment explanation
Indices: 100494881--100495231 Score: 623
Period size: 40 Copynumber: 8.8 Consensus size: 40
100494871 GAGAATTGAG
*
100494881 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
100494921 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
100494961 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
100495001 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
100495041 AGTGACGTATCCGGACTAAGTT-CGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
100495080 AGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
100495120 AGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
100495160 AGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
100495200 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
100495232 ATCATGCTGG
Statistics
Matches: 304, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 39 0.13
40 265 0.87
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:100495228 original size:199 final size:199
Alignment explanation
Indices: 100494888--100495247 Score: 648
Period size: 199 Copynumber: 1.8 Consensus size: 199
100494878 GAGAGTGATA
*
100494888 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCA
*
100494953 TTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACT
66 TTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACT
* * *
100495018 AAGTTCCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGT
131 AAGTCCCGAAGAGCAATCATGCTAGTGACGTATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGT
100495083 GACG
196 GACG
100495087 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCA
*
100495152 TTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCT
66 TTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACT
* *
100495217 AGGTCCCGAAGAGCAATCATGCTGGTGACGT
131 AAGTCCCGAAGAGCAATCATGCTAGTGACGT
100495248 GTATTCGGGC
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 153 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (199 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCA
TTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACT
AAGTCCCGAAGAGCAATCATGCTAGTGACGTATCCGGACTAAGTTCGAAGAGCATTCGTGCTAGT
GACG
Found at i:100499069 original size:49 final size:49
Alignment explanation
Indices: 100499014--100499540 Score: 919
Period size: 49 Copynumber: 10.8 Consensus size: 49
100499004 TATTAAAATT
*
100499014 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100499063 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
100499112 TGTGAAAGTGTGTATATATGTGCTAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100499161 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100499210 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100499259 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100499308 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100499357 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
100499406 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
100499455 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
100499504 TGTGAAAGTGTATATATATGTGGTAAAGCCGAATGGC
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
100499541 TAATGTGAAT
Statistics
Matches: 455, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 455 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:100499230 original size:27 final size:27
Alignment explanation
Indices: 100499200--100499282 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
100499190 CTAATGGCCG
100499200 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* *** ***
100499227 ATGTGAT-AAGGCCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTGTATAT
100499250 -TGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
100499276 ATGTGAT
1 ATGTGAT
100499283 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:100522385 original size:13 final size:13
Alignment explanation
Indices: 100522363--100522393 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
100522353 TTATAGATAC
100522363 TTTCTATTTTCTT
1 TTTCTATTTTCTT
*
100522376 TTTCTTTTTTCTT
1 TTTCTATTTTCTT
100522389 TTTCT
1 TTTCT
100522394 CTCATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTATTTTCTT
Found at i:100526711 original size:12 final size:12
Alignment explanation
Indices: 100526694--100526718 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100526684 CATTTTTTCA
100526694 TTTTTTCTTTTT
1 TTTTTTCTTTTT
100526706 TTTTTTCTTTTT
1 TTTTTTCTTTTT
100526718 T
1 T
100526719 ACGGGAACTG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:100532102 original size:46 final size:46
Alignment explanation
Indices: 100532050--100532460 Score: 603
Period size: 46 Copynumber: 9.0 Consensus size: 46
100532040 GCTTTCTGAA
*
100532050 ATGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
100532096 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
100532142 ATAAAAAGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
100532188 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
100532234 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
100532280 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
100532326 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG--
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** * *
100532370 ACGAGAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGA-AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
100532417 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
100532461 TCAAAGATAA
Statistics
Matches: 336, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
44 2 0.01
45 37 0.11
46 295 0.88
47 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:100532762 original size:16 final size:17
Alignment explanation
Indices: 100532741--100532773 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100532731 ATGATGGAGC
100532741 ATGAAA-CATTGATATA
1 ATGAAATCATTGATATA
*
100532757 ATGAAATGATTGATATA
1 ATGAAATCATTGATATA
100532774 TACTTATGAA
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:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
ATGAAATCATTGATATA
Found at i:100537735 original size:40 final size:40
Alignment explanation
Indices: 100537652--100537859 Score: 175
Period size: 40 Copynumber: 5.2 Consensus size: 40
100537642 CGGGATTTAA
* * * * * *
100537652 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
100537692 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
100537732 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* *
100537772 CCGGATATAACAACTCGAACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
100537812 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
100537852 CCGGATAT
1 CCGGATAT
100537860 CATTCCAATG
Statistics
Matches: 137, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 2 0.01
40 135 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:100537772 original size:80 final size:80
Alignment explanation
Indices: 100537678--100537859 Score: 211
Period size: 80 Copynumber: 2.3 Consensus size: 80
100537668 GCTCGATTGT
* * *** * * * * **
100537678 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGAACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
100537743 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
100537758 CTTCGGGTCTTAGCCCGGATATAACAACTCGAACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGAACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
100537823 TACTAGCATAATTGC
66 AACTAGCACAAATGC
100537838 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
100537860 CATTCCAATG
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGAACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:100540745 original size:28 final size:28
Alignment explanation
Indices: 100540680--100540778 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
100540670 TCATGAATTG
* * *
100540680 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
100540709 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
100540737 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
100540765 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
100540779 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:100542949 original size:17 final size:17
Alignment explanation
Indices: 100542927--100543017 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
100542917 ATTTTAATAG
100542927 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
**
100542944 TTTAATACTT-ACCTTAA
1 TTTAATA-TTAAATTTAA
*
100542961 TTGT-AT-TT-CA-TTAA
1 TT-TAATATTAAATTTAA
100542975 TTTAATATTAAAGTGATT-A
1 TTTAATATTAAA-T--TTAA
100542994 TCTTAATATTAAATTTAA
1 T-TTAATATTAAATTTAA
100543012 TTTAAT
1 TTTAAT
100543018 GTTTATCTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 22
0.68 0.06 0.26
Matches are distributed among these distances:
13 1 0.02
14 8 0.14
15 4 0.07
16 1 0.02
17 23 0.40
18 5 0.09
19 3 0.05
20 13 0.22
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:100543065 original size:62 final size:59
Alignment explanation
Indices: 100542996--100543112 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
100542986 AGTGATTATC
* * *
100542996 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAACTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAACTTAATAAGAT
*
100543058 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAACTTAATA
100543113 TTAATATGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAACTTAATAAGAT
Found at i:100544503 original size:37 final size:36
Alignment explanation
Indices: 100544421--100544494 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
100544411 TTATCTAGCC
100544421 TAAGAATTAAAGGAAATTTTTTAAACTAAAACTAAT
1 TAAGAATTAAAGGAAATTTTTTAAACTAAAACTAAT
*
100544457 TAAGAATTAAAGGATATTTTTTAAACTAAAACTAAT
1 TAAGAATTAAAGGAAATTTTTTAAACTAAAACTAAT
100544493 TA
1 TA
100544495 TCTAATTAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (36 bp):
TAAGAATTAAAGGAAATTTTTTAAACTAAAACTAAT
Found at i:100548662 original size:24 final size:25
Alignment explanation
Indices: 100548606--100548667 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
100548596 AATTCATTTT
100548606 CGGGAATGCTCATGTAAGCATATAAA
1 CGGGAA-GCTCATGTAAGCATATAAA
*
100548632 CGGGAAGTTCATGTAAGCCAT-T-AA
1 CGGGAAGCTCATGTAAG-CATATAAA
100548656 CGGGAAGCTCAT
1 CGGGAAGCTCAT
100548668 ACGAGCCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 13 0.39
25 11 0.33
26 9 0.27
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (25 bp):
CGGGAAGCTCATGTAAGCATATAAA
Found at i:100550812 original size:31 final size:29
Alignment explanation
Indices: 100550777--100550834 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 29
100550767 AATTGTACGT
100550777 TATT-AATTTAATATTAATGTGATTATCTTAA
1 TATTAAATTTAAT-TTAATGT--TTATCTTAA
100550808 TATTAAATTTAATTTAATGTTTATCTT
1 TATTAAATTTAATTTAATGTTTATCTT
100550835 GTAGATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 7 0.27
31 11 0.42
32 8 0.31
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (29 bp):
TATTAAATTTAATTTAATGTTTATCTTAA
Found at i:100552038 original size:27 final size:27
Alignment explanation
Indices: 100551996--100552092 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
100551986 AAGGCGTTAC
*
100551996 TTTCATATTGCGCCATACAAATGTTCT
1 TTTCATATTACGCCATACAAATGTTCT
* * *
100552023 TTTCATATTACACCATA-AAAGGAATTCC
1 TTTCATATTACGCCATACAAATG--TTCT
*
100552051 ATTCATATTACGCC--ACAAATGTGTTCT
1 TTTCATATTACGCCATACAAA--TGTTCT
*
100552078 TTTCATATTATGCCA
1 TTTCATATTACGCCA
100552093 CAAGGGCATT
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
26 5 0.09
27 33 0.61
28 15 0.28
29 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (27 bp):
TTTCATATTACGCCATACAAATGTTCT
Found at i:100553774 original size:22 final size:22
Alignment explanation
Indices: 100553748--100553795 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
100553738 ATTAGTGTTA
100553748 AAATTTTGGTCACAAAAAAATT
1 AAATTTTGGTCACAAAAAAATT
*
100553770 AAATTTTGGTCATAAAAAAATT
1 AAATTTTGGTCACAAAAAAATT
100553792 AAAT
1 AAAT
100553796 AATATTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.33
Consensus pattern (22 bp):
AAATTTTGGTCACAAAAAAATT
Found at i:100553907 original size:17 final size:18
Alignment explanation
Indices: 100553876--100553910 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
100553866 TCTTTAAGAG
*
100553876 TATTTAAATATTTATTTT
1 TATTAAAATATTTATTTT
100553894 TATTAAAATA-TTATTTT
1 TATTAAAATATTTATTTT
100553911 AATTCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTAAAATATTTATTTT
Found at i:100557194 original size:46 final size:46
Alignment explanation
Indices: 100557142--100557460 Score: 383
Period size: 46 Copynumber: 7.0 Consensus size: 46
100557132 AGTGTGCTCT
100557142 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100557188 CTGATATGAAATGTGAAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
100557234 CTGATATGAAACATGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
100557279 CCGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
100557325 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
100557371 GTGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
100557417 CTGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
100557461 TCATGTCAAA
Statistics
Matches: 242, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
45 43 0.18
46 199 0.82
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100557390 original size:137 final size:138
Alignment explanation
Indices: 100557144--100557465 Score: 420
Period size: 137 Copynumber: 2.3 Consensus size: 138
100557134 TGTGCTCTCT
* * * **
100557144 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGAAAGAC
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAAAAGAC
*
100557209 CATGGTTGAAAGATACCATGGCAGCCTGATATGAAACATGTAAGACCATGGTTGAAAGATACCAT
66 CATGGTTGAAAGATACCATGGCAGCCTGACATGAAACATGTAAGACCATGGTTGAAAGATACCAT
100557274 GGC-ACCC
131 GGCAACCC
* * *
100557281 GATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAATATGACGGGAAAT-AAATAAGA
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAA-AAGA
*
100557345 CCATGGTTGAAAGATACCATGGCAGCGTGACA-GAAA-ATGAATAAGACCATGGTTGAAAGATAC
65 CCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACATG--TAAGACCATGGTTGAAAGATAC
*
100557408 CATGGCAACCT
128 CATGGCAACCC
* * * * * *
100557419 GACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
100557466 TCAAAGATAA
Statistics
Matches: 161, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
135 3 0.02
136 5 0.03
137 113 0.70
138 40 0.25
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (138 bp):
GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAAAAAGAC
CATGGTTGAAAGATACCATGGCAGCCTGACATGAAACATGTAAGACCATGGTTGAAAGATACCAT
GGCAACCC
Found at i:100559177 original size:12 final size:12
Alignment explanation
Indices: 100559156--100559220 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 12
100559146 CTTCTTATTC
100559156 TTTTTT-TTTCT
1 TTTTTTCTTTCT
100559167 TTTTTTCTTTCT
1 TTTTTTCTTTCT
100559179 TTTATTCTCTTTC-
1 TTT-TT-TCTTTCT
* *
100559192 TTTGTTGTTTCT
1 TTTTTTCTTTCT
*
100559204 ATTGTTTC-TTCT
1 -TTTTTTCTTTCT
100559216 TTTTT
1 TTTTT
100559221 CGGTCGATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 15 0.35
12 13 0.30
13 9 0.21
14 6 0.14
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.78
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:100567599 original size:24 final size:22
Alignment explanation
Indices: 100567552--100567599 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
100567542 TGATATTTTA
* *
100567552 AACTTAACTTTTAAATTTTTTT
1 AACTTAACTTTTAAAATTTATT
100567574 AACTTAAACATTTTAAAATTTATT
1 AACTT-AAC-TTTTAAAATTTATT
100567598 AA
1 AA
100567600 ATTGAACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 3 0.14
24 14 0.64
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (22 bp):
AACTTAACTTTTAAAATTTATT
Found at i:100567662 original size:19 final size:19
Alignment explanation
Indices: 100567593--100567665 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
100567583 ATTTTAAAAT
*
100567593 TTATTAAATTGAACTATAA
1 TTATTAAATTAAACTATAA
* * *
100567612 TTATTAAA-AAAATTAGAA
1 TTATTAAATTAAACTATAA
100567630 TTACATTTAAAAATTAAACTATAA
1 TT--A-TT--AAATTAAACTATAA
100567654 TTATTAAATTAA
1 TTATTAAATTAA
100567666 GTAATTCGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 8 0.20
19 15 0.37
20 1 0.02
21 4 0.10
22 1 0.02
23 3 0.07
24 9 0.22
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAACTATAA
Found at i:100568241 original size:72 final size:73
Alignment explanation
Indices: 100568101--100568245 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 73
100568091 GTTGTTTTTC
100568101 TTTTAACTCAAATAAATTTTAGTTTTCTTGAGCTTTCTTATTCTAAATTTGTGAGATTATAATTT
1 TTTTAACTCAAATAAATTTTAGTTTTCTTGAGCTTTCTTATTCTAAATTTGTGAGATTATAATTT
100568166 TATTTCTT
66 TATTTCTT
*
100568174 TTTTAACTCAAATAAATTTTAGTTTTCTTGAG-TTTTTTATTCTAAATTTGTGAGATTATAATTT
1 TTTTAACTCAAATAAATTTTAGTTTTCTTGAGCTTTCTTATTCTAAATTTGTGAGATTATAATTT
100568238 TATTTCTT
66 TATTTCTT
100568246 GAAAATTATA
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 39 0.55
73 32 0.45
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (73 bp):
TTTTAACTCAAATAAATTTTAGTTTTCTTGAGCTTTCTTATTCTAAATTTGTGAGATTATAATTT
TATTTCTT
Found at i:100573559 original size:29 final size:31
Alignment explanation
Indices: 100573493--100573559 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 31
100573483 TATTATTTGG
* *
100573493 TACTTATATTTTTATAATATGTTCAATGTGA
1 TACTTATACTTTTATAATATGTTCAATATGA
*
100573524 TACTTATACTTTTA-AA-ATGTTTAATATGTA
1 TACTTATACTTTTATAATATGTTCAATATG-A
100573554 TA-TTAT
1 TACTTAT
100573560 TATGTACATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 14 0.44
30 5 0.16
31 13 0.41
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.52
Consensus pattern (31 bp):
TACTTATACTTTTATAATATGTTCAATATGA
Found at i:100579958 original size:15 final size:16
Alignment explanation
Indices: 100579940--100579974 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
100579930 AAAATAAATG
100579940 TTGAAAAAATT-AGTA
1 TTGAAAAAATTAAGTA
100579955 TTG-AAAAATTAAGTA
1 TTGAAAAAATTAAGTA
100579970 TTGAA
1 TTGAA
100579975 TTTAAGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.39
15 10 0.56
16 1 0.06
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (16 bp):
TTGAAAAAATTAAGTA
Found at i:100583010 original size:35 final size:35
Alignment explanation
Indices: 100582964--100583031 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
100582954 ACACAGATGA
100582964 CACATTATATTTTAAACAGCATCTGAAAGTTAACT
1 CACATTATATTTTAAACAGCATCTGAAAGTTAACT
* *
100582999 CACATTGTATTTTAAACGGCATCTGAAAGTTAA
1 CACATTATATTTTAAACAGCATCTGAAAGTTAA
100583032 TTCTCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (35 bp):
CACATTATATTTTAAACAGCATCTGAAAGTTAACT
Found at i:100586778 original size:95 final size:91
Alignment explanation
Indices: 100586667--100586911 Score: 275
Period size: 87 Copynumber: 2.7 Consensus size: 91
100586657 ACATTAACAT
* * * *
100586667 TTTAAATATAATTAAATAAATACAGTTTTGTATTTAAGTCAAAATGGAATTTGAAATTTATACAT
1 TTTAAAAATAATTAAATAAATA-A-TTTTATATTTAAATCAAAATGAAATTTGAAATTTATACA-
*
100586732 TATCATGGTTATCCTGTTAAAATTTTACAA
63 TA-CATGGTTATCCAGTTAAAATTTTACAA
* *
100586762 TTTAAAAATAACTAAATAAAT-ATTCTTTTATTTAAATCAAAATGAAATTT-AAATTT-T--ATA
1 TTTAAAAATAATTAAATAAATAATT-TTATATTTAAATCAAAATGAAATTTGAAATTTATACATA
* *
100586822 CATTGTTATCCAGTTAAAATTTTATAA
65 CATGGTTATCCAGTTAAAATTTTACAA
* * * *
100586849 TTTAAAATTAATTAAATAAGTAAAATTGTATATTTAAATCAAAATAAAATTTGAAATTTATAC
1 TTTAAAAATAATTAAATAA--ATAATTTTATATTTAAATCAAAATGAAATTTGAAATTTATAC
100586912 TATTTTACAG
Statistics
Matches: 128, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
87 41 0.32
88 2 0.02
89 24 0.19
90 9 0.07
91 2 0.02
92 8 0.06
93 23 0.18
95 19 0.15
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (91 bp):
TTTAAAAATAATTAAATAAATAATTTTATATTTAAATCAAAATGAAATTTGAAATTTATACATAC
ATGGTTATCCAGTTAAAATTTTACAA
Found at i:100587068 original size:20 final size:22
Alignment explanation
Indices: 100587020--100587075 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
100587010 TAAATTAAAC
* *
100587020 AATTTTTAAAATAAAGTTTTGA
1 AATTCTTAAAATATAGTTTTGA
*
100587042 TATTCTTAAAATATA-TTTT-A
1 AATTCTTAAAATATAGTTTTGA
100587062 AATTCTTAAAATAT
1 AATTCTTAAAATAT
100587076 TTTCTTAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 14 0.47
21 4 0.13
22 12 0.40
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (22 bp):
AATTCTTAAAATATAGTTTTGA
Found at i:100587864 original size:22 final size:23
Alignment explanation
Indices: 100587819--100587871 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
100587809 TTGAAGAAAA
*
100587819 AAATATAAATTATTATTTTAATAT
1 AAAT-TAAATTATTATTGTAATAT
*
100587843 AAATTAAATTGTT-TTGTAATAT
1 AAATTAAATTATTATTGTAATAT
100587865 -AATTAAA
1 AAATTAAA
100587872 CTAAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 8 0.30
23 8 0.30
24 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
AAATTAAATTATTATTGTAATAT
Found at i:100587986 original size:49 final size:49
Alignment explanation
Indices: 100587932--100588026 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
100587922 AATGAATTTA
100587932 TTATGATTTTATTTATTTTTGTGTCTTTTCTTGGATTAAATTAATGTAT
1 TTATGATTTTATTTATTTTTGTGTCTTTTCTTGGATTAAATTAATGTAT
* *
100587981 TTATGATTTTATTTATTTTTGTTTCTTTTCTTGTATTAAATTAATG
1 TTATGATTTTATTTATTTTTGTGTCTTTTCTTGGATTAAATTAATG
100588027 CGTTTATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.63
Consensus pattern (49 bp):
TTATGATTTTATTTATTTTTGTGTCTTTTCTTGGATTAAATTAATGTAT
Found at i:100588577 original size:77 final size:78
Alignment explanation
Indices: 100588433--100588581 Score: 214
Period size: 77 Copynumber: 1.9 Consensus size: 78
100588423 GGGTTAATTT
** *
100588433 TTTTAGAATTTCTATAGAAATTTATTTGTATTTAATTTTATTTATTTTTGCTTCTTTTCTTGGAT
1 TTTTAGAATTTCTATAGAAATTTATTTGTATCGAATTTTATTTATTTTTGCTTCTTTTCTTGAAT
100588498 TAAATTATTGTCC
66 TAAATTATTGTCC
* *
100588511 TTTTAGAATTTTTATAGAAATTTTGTTTGTA-CGAA-TTTATTTATTTTTAG-TTCTTTTCTTGA
1 TTTTAGAATTTCTATAGAAA-TTTATTTGTATCGAATTTTATTTATTTTT-GCTTCTTTTCTTGA
100588573 ATTAAATTA
64 ATTAAATTA
100588582 CTGTGGTTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
77 33 0.52
78 22 0.34
79 9 0.14
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.58
Consensus pattern (78 bp):
TTTTAGAATTTCTATAGAAATTTATTTGTATCGAATTTTATTTATTTTTGCTTCTTTTCTTGAAT
TAAATTATTGTCC
Found at i:100589184 original size:17 final size:17
Alignment explanation
Indices: 100589146--100589184 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
100589136 GTTTTTAATA
100589146 AATTTTAAATATTTTTT
1 AATTTTAAATATTTTTT
*
100589163 CATTTTAAA-ATTTTTAT
1 AATTTTAAATATTTTT-T
100589180 AATTT
1 AATTT
100589185 CTTATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTTAAATATTTTTT
Found at i:100589191 original size:10 final size:9
Alignment explanation
Indices: 100589165--100589207 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
100589155 TATTTTTTCA
*
100589165 TTTTAAAAT
1 TTTTATAAT
100589174 TTTTATAAT
1 TTTTATAAT
100589183 TTCTTATAAT
1 TT-TTATAAT
*
100589193 TATTAATAAT
1 T-TTTATAAT
100589203 TTTTA
1 TTTTA
100589208 CCAAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 13 0.45
10 15 0.52
11 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:100589237 original size:11 final size:11
Alignment explanation
Indices: 100589220--100589254 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
100589210 AAAAAATTTA
100589220 AATAATTTTTT
1 AATAATTTTTT
*
100589231 TATAATTTTTT
1 AATAATTTTTT
*
100589242 AATAATTATTT
1 AATAATTTTTT
100589253 AA
1 AA
100589255 AAAATTACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATAATTTTTT
Found at i:100592629 original size:11 final size:12
Alignment explanation
Indices: 100592599--100592630 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
100592589 CTTAACTGGT
100592599 TTTTTTTA-ATA
1 TTTTTTTATATA
100592610 TTTTTTTATA-A
1 TTTTTTTATATA
100592621 TTTTTTTATA
1 TTTTTTTATA
100592631 GTTATTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 19 0.95
12 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTTATATA
Found at i:100596742 original size:29 final size:28
Alignment explanation
Indices: 100596685--100596742 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
100596675 AACCATTAAA
* *
100596685 TATTTATAATTATTATTTTAAAATTTTT
1 TATTTATAATTATGATTTTAAAATATTT
* *
100596713 TATTTTTAATTAATGATTTTAACATATTT
1 TATTTATAATT-ATGATTTTAAAATATTT
100596742 T
1 T
100596743 TAATTAAGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TATTTATAATTATGATTTTAAAATATTT
Found at i:100597241 original size:20 final size:20
Alignment explanation
Indices: 100597216--100597261 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
100597206 TCCTTAAATT
*
100597216 ATTTTATTTATAAGATTATA
1 ATTTTATTTATAAAATTATA
*
100597236 ATTTTATTTATAAAATTATT
1 ATTTTATTTATAAAATTATA
100597256 ATTTTA
1 ATTTTA
100597262 ATAACTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTTATTTATAAAATTATA
Found at i:100598848 original size:25 final size:25
Alignment explanation
Indices: 100598820--100598870 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
100598810 ACCACGTGTT
100598820 ATCCAATATGTGTCATGACACTGTC
1 ATCCAATATGTGTCATGACACTGTC
100598845 ATCCAATATGTGTCATGACACTGTC
1 ATCCAATATGTGTCATGACACTGTC
100598870 A
1 A
100598871 CACCATCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (25 bp):
ATCCAATATGTGTCATGACACTGTC
Found at i:100599365 original size:2 final size:2
Alignment explanation
Indices: 100599316--100599349 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
100599306 GTAAAGGAGT
100599316 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100599350 ATCTTTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100600438 original size:20 final size:21
Alignment explanation
Indices: 100600401--100600447 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
100600391 GATATAATGA
*
100600401 ATTTATAAAAAAGAAAATAAT
1 ATTTTTAAAAAAGAAAATAAT
* *
100600422 ATTTTTAAAAAA-TAAATTAT
1 ATTTTTAAAAAAGAAAATAAT
100600442 ATTTTT
1 ATTTTT
100600448 GAAAGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTTTAAAAAAGAAAATAAT
Done.