Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013315.1 Kokia drynarioides strain JFW-HI SEQ_128337, whole genome shotgun sequence
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: 101546
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 242 characters in sequence are not A, C, G, or T
Found at i:11539 original size:205 final size:205
Alignment explanation
Indices: 11118--11838 Score: 1107
Period size: 205 Copynumber: 3.6 Consensus size: 205
11108 TTCGAACTCC
* * * * *
11118 AGCTTCCTGATGGGATACTGAGAAGTGAATCAAATTCGTCTTCCTAATGAGATACAGATAAGCGA
1 AGCTTCCTGATGGGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAA
*
11183 ATTGAAACAAACGACGCGGTCATCTTCCTGATGAG---CTGAGAAAAAGACCAAATCAAA-CC-C
66 ATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCGC
* * * * * * * ** *
11243 A--CGCT-CGAGCAAATCTTCGAACCCCAGCTTCTTGATAAGAAACTGAGAAGCAGGTCGAAGTA
131 ACTCGATGTGAGTAAATCTTTGAACTCCAGCTTCCTGATGAGACGCTGAGAAGCAGGTCGAAGCA
11305 ATAAAAGGTT
196 ATAAAAGGTT
* * *
11315 AGCTTCTTGATGTGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAGGCAA
1 AGCTTCCTGATGGGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAA
* *
11380 ATTGAAACAAATGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCGC
66 ATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCGC
*
11445 ACTCGATGTGAGTAAATCTTTGAACTTCAGCTTCCTGATGAGACGCTGAGAAGCAGGTCGAAGCA
131 ACTCGATGTGAGTAAATCTTTGAACTCCAGCTTCCTGATGAGACGCTGAGAAGCAGGTCGAAGCA
11510 ATAAAAGGTT
196 ATAAAAGGTT
*
11520 AGCTTCCTGATGGGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAGGCAA
1 AGCTTCCTGATGGGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAA
*
11585 ATTGAAACAAATGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCGC
66 ATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCGC
11650 ACTCGATGTGAGTAAATCTTTGAACTCCAGCTTCCTGATGAGACGCTGAGAAGCAGGTCGAAGCA
131 ACTCGATGTGAGTAAATCTTTGAACTCCAGCTTCCTGATGAGACGCTGAGAAGCAGGTCGAAGCA
11715 ATAAAAGGTT
196 ATAAAAGGTT
* * * * *
11725 AGCTTCCTAATGGGATACTGAGAAGTGGACCAAATTTGTCTTCCTGATAAGGTACAGAGAAGCGA
1 AGCTTCCTGATGGGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAA
* *
11790 ATTGAAACAAACGACGCTGTCATCTTCCTGATGAGATACTGAGAGGAAG
66 ATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAG
11839 GTCAAGTCAA
Statistics
Matches: 481, Mismatches: 35, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
197 90 0.19
200 21 0.04
201 2 0.00
202 2 0.00
204 3 0.01
205 363 0.75
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (205 bp):
AGCTTCCTGATGGGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAA
ATTGAAACAAACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCGC
ACTCGATGTGAGTAAATCTTTGAACTCCAGCTTCCTGATGAGACGCTGAGAAGCAGGTCGAAGCA
ATAAAAGGTT
Found at i:12170 original size:11 final size:11
Alignment explanation
Indices: 12156--12216 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
12146 GCCCCTTTTT
*
12156 AATTTATTTTA
1 AATTTAATTTA
*
12167 AATTTAAATT-
1 AATTTAATTTA
12177 AATCTTAAATTTA
1 AAT-TT-AATTTA
12190 AATTTAATTTA
1 AATTTAATTTA
*
12201 AATTTAATTTT
1 AATTTAATTTA
12212 AATTT
1 AATTT
12217 TAAAATTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
10 3 0.07
11 31 0.72
12 6 0.14
13 3 0.07
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:12174 original size:6 final size:6
Alignment explanation
Indices: 12163--12225 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
12153 TTTAATTTAT
*
12163 TTTAAA TTTAAA -TT-AA TCTTAAA TTTAAA TTT-AA TTTAAA TTTAAT
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
12209 TTTAAT TTTAAA ATTAA
1 TTTAAA TTTAAA TTTAA
12226 GAAGTCCATT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
4 2 0.04
5 7 0.14
6 38 0.76
7 3 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:12184 original size:17 final size:17
Alignment explanation
Indices: 12156--12216 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
12146 GCCCCTTTTT
*
12156 AATTTATTTTAAATTTA
1 AATTTAATTTAAATTTA
12173 AA-TTAATCTTAAATTTA
1 AATTTAAT-TTAAATTTA
12190 AATTTAATTTAAATTTA
1 AATTTAATTTAAATTTA
*
12207 ATTTTAATTT
1 AATTTAATTT
12217 TAAAATTAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.10
17 31 0.77
18 5 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTAATTTAAATTTA
Found at i:13058 original size:3 final size:3
Alignment explanation
Indices: 13050--13150 Score: 103
Period size: 3 Copynumber: 32.0 Consensus size: 3
13040 AATGTGCTAT
13050 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * *
13098 GTAA TAA CTGTC TCAT TAA TAA TAA TGA TAA TAA TAT TAA TCAT TAA
1 -TAA TAA -T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
13145 TAA TAA
1 TAA TAA
13151 AAAAGGAAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
3 74 0.90
4 8 0.10
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:14200 original size:30 final size:29
Alignment explanation
Indices: 14135--14338 Score: 189
Period size: 30 Copynumber: 6.9 Consensus size: 29
14125 GAGGGTCCCT
*
14135 AAACTATCCAAAAATCCCATTTTTACCCCC
1 AAACT-TCCAAAAATCCCATTTTTACCCCA
*
14165 GAACTTCCAAAAATCCCATTTTTAACCCCA
1 AAACTTCCAAAAATCCCATTTTT-ACCCCA
* *
14195 AAACTTCCAAAGATCCCATTTTTTACCTCA
1 AAACTTCCAAAAATCCCA-TTTTTACCCCA
* * * *
14225 AAACTTCCAAAGATTCCATTTTTTATCTC-
1 AAACTTCCAAAAATCCCA-TTTTTACCCCA
* * * *
14254 GAACTTCCAAAAATCTCATTTTTGACCTCG
1 AAACTTCCAAAAATCCCATTTTT-ACCCCA
* * *
14284 AAACTTCCAAAAATCCTAATTTTACCCTCT
1 AAACTTCCAAAAATCCCATTTTTACCC-CA
*
14314 AAACTTCC--AAATTCCATTTTTACCC
1 AAACTTCCAAAAATCCCATTTTTACCC
14339 TCGAAACTCT
Statistics
Matches: 148, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
28 19 0.13
29 39 0.26
30 85 0.57
31 5 0.03
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (29 bp):
AAACTTCCAAAAATCCCATTTTTACCCCA
Found at i:14259 original size:59 final size:60
Alignment explanation
Indices: 14135--14324 Score: 197
Period size: 59 Copynumber: 3.2 Consensus size: 60
14125 GAGGGTCCCT
* **
14135 AAACTATCCAAAAATCCCA-TTTTTACCCCCGAACTTCCAAAAATCCCATTTTTAACCCCA
1 AAACT-TCCAAAAATCCCATTTTTTACCTCAAAACTTCCAAAAATCCCATTTTTAACCCCA
* * * * * *
14195 AAACTTCCAAAGATCCCATTTTTTACCTCAAAACTTCCAAAGATTCCATTTTTTATCTC-
1 AAACTTCCAAAAATCCCATTTTTTACCTCAAAACTTCCAAAAATCCCATTTTTAACCCCA
* * * * * * *
14254 GAACTTCCAAAAATCTCATTTTTGACCTCGAAACTTCCAAAAATCCTAATTTT-ACCCTCT
1 AAACTTCCAAAAATCCCATTTTTTACCTCAAAACTTCCAAAAATCCCATTTTTAACCC-CA
14314 AAACTTCCAAA
1 AAACTTCCAAA
14325 TTCCATTTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
58 2 0.02
59 57 0.54
60 47 0.44
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (60 bp):
AAACTTCCAAAAATCCCATTTTTTACCTCAAAACTTCCAAAAATCCCATTTTTAACCCCA
Found at i:14288 original size:89 final size:87
Alignment explanation
Indices: 14164--14334 Score: 236
Period size: 89 Copynumber: 1.9 Consensus size: 87
14154 TTTTTACCCC
* *
14164 CGAACTTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAGATCCCATTTTTTA-CCTCAAAA
1 CGAACTTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATCCCA-ATTTTACCCTCAAAA
14228 CTTCCAAAGATTCCATTTTTTATCT
65 CTTCC-AA-ATTCCATTTTTTATCT
* * * * * *
14253 CGAACTTCCAAAAATCTCATTTTTGACCTCGAAACTTCCAAAAATCCTAATTTTACCCTCTAAAC
1 CGAACTTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATCCCAATTTTACCCTCAAAAC
14318 TTCCAAATTCCATTTTT
66 TTCCAAATTCCATTTTT
14335 ACCCTCGAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 11 0.15
88 7 0.10
89 55 0.75
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (87 bp):
CGAACTTCCAAAAATCCCATTTTTAACCCCAAAACTTCCAAAAATCCCAATTTTACCCTCAAAAC
TTCCAAATTCCATTTTTTATCT
Found at i:14367 original size:30 final size:28
Alignment explanation
Indices: 14145--14373 Score: 101
Period size: 30 Copynumber: 7.8 Consensus size: 28
14135 AAACTATCCA
* * *
14145 AAAATCCCATTTTTACCCCCG-AACTTCC
1 AAAATTCCACTTTTACCCTCGAAACTT-C
* * *
14173 AAAAATCCCATTTTTAACCC-CAAAACTTCC
1 -AAAATTCCACTTTT-ACCCTCGAAACTT-C
* * *
14203 AAAGATCCCATTTTTTA-CCTCAAAACTTCC
1 AAA-ATTCCA-CTTTTACCCTCGAAACTT-C
* *
14233 AAAGATTCCATTTTTTA-TCTCG-AACTTCC
1 AAA-ATTCCA-CTTTTACCCTCGAAACTT-C
* *
14262 AAAAATCTCATTTTTGA-CCTCGAAACTTCC
1 AAAATTC-CACTTTT-ACCCTCGAAACTT-C
* * *
14292 AAAAATCCTAATTTTACCCTCTAAACTTC
1 AAAATTCC-ACTTTTACCCTCGAAACTTC
* *
14321 CAAATTCCATTTTTACCCTCGAAACTCTC
1 AAAATTCCACTTTTACCCTCGAAACT-TC
*
14350 AAAATTACCCCTTTTACCCTCGAA
1 AAAATT-CCACTTTTACCCTCGAA
14374 TGTCTAAAAA
Statistics
Matches: 173, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
28 24 0.14
29 53 0.31
30 91 0.53
31 5 0.03
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATTCCACTTTTACCCTCGAAACTTC
Found at i:14480 original size:89 final size:90
Alignment explanation
Indices: 14322--14488 Score: 207
Period size: 88 Copynumber: 1.9 Consensus size: 90
14312 CTAAACTTCC
* * * *
14322 AAATTCCATTTTTACCCTCGAAACTCTCAAAATTACCCCTTTTACCCTCGAATGTCTAAAAATTC
1 AAATTCCATTTTTACCCTCGAAACTCTCAAAATTACCCATTTTACCCTCGAATATCCAAAAAGTC
14387 CATTTTCAAACCCTAAATTTTCCCA
66 CATTTTCAAACCCTAAATTTTCCCA
* ** *
14412 AAATTACCATTTTT-CCCTCGAGAA-TC-CAAAATTA-CCATTTTGCCCTCGGGTATCCGAAAAG
1 AAATT-CCATTTTTACCCTCGA-AACTCTCAAAATTACCCATTTTACCCTCGAATATCCAAAAAG
14473 TCTCATTTTCAAACCC
64 TC-CATTTTCAAACCC
14489 GATCGCGTCC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
88 21 0.32
89 21 0.32
90 14 0.21
91 10 0.15
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (90 bp):
AAATTCCATTTTTACCCTCGAAACTCTCAAAATTACCCATTTTACCCTCGAATATCCAAAAAGTC
CATTTTCAAACCCTAAATTTTCCCA
Found at i:14635 original size:6 final size:6
Alignment explanation
Indices: 14624--14694 Score: 71
Period size: 6 Copynumber: 12.5 Consensus size: 6
14614 ATTTGTTTGA
*
14624 AAATTT AAATTT -ATTTT AAATTT AAATTT --ATTT AAATTT -AATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* *
14668 AAGTTT AAATTT -ATTTT CAAATTT AAA
1 AAATTT AAATTT AAATTT -AAATTT AAA
14695 ATTACTATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.08
5 13 0.25
6 32 0.60
7 4 0.08
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
AAATTT
Found at i:14643 original size:11 final size:12
Alignment explanation
Indices: 14624--14694 Score: 71
Period size: 11 Copynumber: 6.2 Consensus size: 12
14614 ATTTGTTTGA
14624 AAATTTAAATTT
1 AAATTTAAATTT
*
14636 -ATTTTAAATTT
1 AAATTTAAATTT
14647 AAATTT--ATTT
1 AAATTTAAATTT
14657 AAATTT-AATTT
1 AAATTTAAATTT
*
14668 AAGTTTAAATTT
1 AAATTTAAATTT
*
14680 -ATTTTCAAATTT
1 AAATTT-AAATTT
14692 AAA
1 AAA
14695 ATTACTATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
10 10 0.20
11 23 0.47
12 15 0.31
13 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (12 bp):
AAATTTAAATTT
Found at i:14660 original size:27 final size:27
Alignment explanation
Indices: 14626--14693 Score: 100
Period size: 27 Copynumber: 2.4 Consensus size: 27
14616 TTGTTTGAAA
*
14626 ATTTAAATTTATTTTAAATTTAAATTT
1 ATTTAAATTTAATTTAAATTTAAATTT
*
14653 ATTTAAATTTAATTTAAGTTTAAATTT
1 ATTTAAATTTAATTTAAATTTAAATTT
14680 ATTTTCAAATTTAA
1 A-TTT-AAATTTAA
14694 AATTACTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 26 0.70
28 3 0.08
29 8 0.22
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (27 bp):
ATTTAAATTTAATTTAAATTTAAATTT
Found at i:14674 original size:17 final size:16
Alignment explanation
Indices: 14591--14680 Score: 92
Period size: 17 Copynumber: 5.2 Consensus size: 16
14581 CCGAACTCCC
14591 TTTAAATTTATTTTAAAA
1 TTTAAATTTA-TTT-AAA
* *
14609 ATTAAATTTGTTTGAAAA
1 TTTAAATTTATTT--AAA
14627 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
14644 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
14660 TTT-AATTTAAGTTTAAA
1 TTTAAATTT-A-TTTAAA
14677 TTTA
1 TTTA
14681 TTTTCAAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
15 5 0.08
16 10 0.16
17 25 0.40
18 20 0.32
19 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:14694 original size:18 final size:17
Alignment explanation
Indices: 14591--14680 Score: 103
Period size: 18 Copynumber: 5.2 Consensus size: 17
14581 CCGAACTCCC
14591 TTTAAATTTATTTTAAAA
1 TTTAAATTTATTTT-AAA
* * *
14609 ATTAAATTTGTTTGAAAA
1 TTTAAATTTATTT-TAAA
14627 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
14644 TTTAAATTTA-TTTAAA
1 TTTAAATTTATTTTAAA
*
14660 TTT-AATTTAAGTTTAAA
1 TTTAAATTT-ATTTTAAA
14677 TTTA
1 TTTA
14681 TTTTCAAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
15 5 0.08
16 10 0.16
17 22 0.35
18 25 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:15411 original size:3 final size:3
Alignment explanation
Indices: 15390--15441 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
15380 TAATATTAGT
* * * * *
15390 TAA TAA GAA TAA TAT TAA TAA TAA TAA TGA CAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15438 TAA T
1 TAA T
15442 GATAGCATTG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15424 original size:24 final size:24
Alignment explanation
Indices: 15397--15443 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
15387 AGTTAATAAG
15397 AATAATATTAATAATAATAATGAC
1 AATAATATTAATAATAATAATGAC
15421 AATAATATTAATAATAATAATGA
1 AATAATATTAATAATAATAATGA
15444 TAGCATTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
AATAATATTAATAATAATAATGAC
Found at i:16648 original size:59 final size:60
Alignment explanation
Indices: 16513--17021 Score: 497
Period size: 59 Copynumber: 8.8 Consensus size: 60
16503 CCTCGAAAGT
* *
16513 CCCT-GAACTTCCAAAAATCCCATTTTCGACCTCGAACCTTCT-AAAAATTACCATTTTA
1 CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
* * * * *
16571 CCCCCCGAACTTCCAAAAATCTCATTTTCAACCCCGAA-CTTTTAAAAAATTACCATTTTA
1 -CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
* * *
16631 CCCTCGAACCTCCAAAAATCCCATTTT-GACCCCAAACCTTCTAGAAAATTGCCATTTTA
1 CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
*
16690 CCCTCGAATTTCCAAAAATCCCATTTT-GACCCCAAACCTTCTAAAAAAATTACCATTTTA
1 CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCT-AAAAAATTACCATTTTA
* * * * * * *
16750 CCCTTGAATTTTC--AAATCCCATTTTTGACCTCGAA-CTTC-CAAAAA-T-CTCATTTTTGA
1 CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCTAAAAAATTAC-CA-TTTT-A
* * *
16807 -CCTTGAACCTCCAAAAATCTCATTTTCGACCCCAAACCTTCT-AAAAATTACCATTTTA
1 CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
* * * * * *
16865 CCCCCAAACCTCCAAAAATCTCATTTTTGACCTCAAACCTTCT-AAAAATTACCATTTTA
1 CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
* * * *
16924 CCCCCAAACTTCCAAAAATTCCATTTTCGACCCCGAA-C--CT------TTACCATTTTA
1 CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
* * * *
16975 CCCTCGAACTTCCAAAAATCCCATTTTTGACTCCGAACCTTCCAAAA
1 CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCTAAAA
17022 CTACCATTTT
Statistics
Matches: 382, Mismatches: 46, Indels: 45
0.81 0.10 0.10
Matches are distributed among these distances:
51 43 0.11
52 1 0.00
54 2 0.01
55 3 0.01
56 20 0.05
57 1 0.00
58 43 0.11
59 194 0.51
60 74 0.19
61 1 0.00
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (60 bp):
CCCTCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
Found at i:16735 original size:29 final size:29
Alignment explanation
Indices: 16520--17038 Score: 285
Period size: 29 Copynumber: 17.9 Consensus size: 29
16510 AGTCCCTGAA
*
16520 CTTCCAAAAATCCCATTTTCGACCTCGAAC
1 CTTCCAAAAATCCCATTTT-GACCCCGAAC
* *
16550 CTTCTAAAAATTACCATTTT-ACCCCCCGAA-
1 CTTCCAAAAA-TCCCATTTTGA--CCCCGAAC
* *
16580 CTTCCAAAAATCTCATTTTCAACCCCGAAC
1 CTTCCAAAAATCCCATTTT-GACCCCGAAC
* ** *
16610 TTTTAAAAAATTACCATTTT-ACCCTCGAAC
1 CTTCCAAAAA-TCCCATTTTGACCC-CGAAC
*
16640 C-TCCAAAAATCCCATTTTGACCCCAAAC
1 CTTCCAAAAATCCCATTTTGACCCCGAAC
* *
16668 CTTCTAGAAAATTGCCATTTT-ACCCTCGAA-
1 CTTCCA-AAAA-TCCCATTTTGACCC-CGAAC
* *
16698 TTTCCAAAAATCCCATTTTGACCCCAAAC
1 CTTCCAAAAATCCCATTTTGACCCCGAAC
* * *
16727 CTTCTAAAAAAATTACCATTTT-ACCCTTGAA-
1 CTTC--CAAAAA-TCCCATTTTGACCC-CGAAC
* * *
16758 TTTTC--AAATCCCATTTTTGACCTCGAA-
1 CTTCCAAAAATCCCA-TTTTGACCCCGAAC
* **
16785 CTTCCAAAAATCTCATTTTTGACCTTGAAC
1 CTTCCAAAAATCCCA-TTTTGACCCCGAAC
* *
16815 C-TCCAAAAATCTCATTTTCGACCCCAAAC
1 CTTCCAAAAATCCCATTTT-GACCCCGAAC
* * *
16844 CTTCTAAAAATTACCATTTT-ACCCCCAAAC
1 CTTCCAAAAA-TCCCATTTTGA-CCCCGAAC
* * *
16874 C-TCCAAAAATCTCATTTTTGACCTCAAAC
1 CTTCCAAAAATCCCA-TTTTGACCCCGAAC
* * * *
16903 CTTCTAAAAATTACCATTTT-ACCCCCAAA
1 CTTCCAAAAA-TCCCATTTTGACCCCGAAC
*
16932 CTTCCAAAAATTCCATTTTCGACCCCGAAC
1 CTTCCAAAAATCCCATTTT-GACCCCGAAC
*
16962 CTT-------TACCATTTT-ACCCTCGAA-
1 CTTCCAAAAATCCCATTTTGACCC-CGAAC
*
16983 CTTCCAAAAATCCCATTTTTGACTCCGAAC
1 CTTCCAAAAATCCCA-TTTTGACCCCGAAC
* * *
17013 CTTCCAAAACTACCATTTTGCCCCCG
1 CTTCCAAAAATCCCATTTTGACCCCG
17039 TGCATCCGAA
Statistics
Matches: 379, Mismatches: 65, Indels: 91
0.71 0.12 0.17
Matches are distributed among these distances:
21 7 0.02
22 4 0.01
23 8 0.02
26 4 0.01
27 13 0.03
28 46 0.12
29 136 0.36
30 97 0.26
31 54 0.14
32 10 0.03
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.31
Consensus pattern (29 bp):
CTTCCAAAAATCCCATTTTGACCCCGAAC
Found at i:16963 original size:88 final size:86
Alignment explanation
Indices: 16517--16961 Score: 342
Period size: 88 Copynumber: 5.0 Consensus size: 86
16507 GAAAGTCCCT
* * *
16517 GAACTTCCAAAAATCCCATTTTCGACCTCGAACCTTCTAAAAATTACCATTTTACCCCCCGAACT
1 GAACTTCCAAAAATCTCATTTTTGACCTCGAACCTTCTAAAAATTACCATTTTA-CCCCCAAACT
16582 TCCAAAAA-TCTCATTTTCAACCCC
65 TCCAAAAATTC-CATTTT--ACCCC
** * *
16606 GAACTTTTAAAAAAT-TACCA-TTTT-ACCCTCGAACC-TCCAAAAA-TCCCATTTTGA-CCCCA
1 GAAC-TTCCAAAAATCT--CATTTTTGA-CCTCGAACCTTCTAAAAATTACCATTTT-ACCCCCA
*
16665 AACCTTCTAGAAAATTGCCATTTTACCCTC
61 AA-CTTCCA-AAAATT-CCATTTTACCC-C
* * * * *** *
16695 GAATTTCCAAAAATCCCA-TTTTGACCCCAAACCTTCTAAAAAAATTACCATTTTACCCTTGAAT
1 GAACTTCCAAAAATCTCATTTTTGACCTCGAACCTTCT--AAAAATTACCATTTTACCCCCAAAC
* * *
16759 TTTC--AAATCCCATTTTTGACCTC
64 TTCCAAAAATTCCA-TTTT-ACCCC
* *
16782 GAACTTCCAAAAATCTCATTTTTGACCTTGAACC-TCCAAAAA-T-CTCATTTT-CGACCCCAAA
1 GAACTTCCAAAAATCTCATTTTTGACCTCGAACCTTCTAAAAATTAC-CATTTTAC--CCCCAAA
*
16843 CCTTCTAAAAATTACCATTTTACCCCC
63 -CTTCCAAAAATT-CCATTTTA-CCCC
* * *
16870 AAACCTCCAAAAATCTCATTTTTGACCTCAAACCTTCTAAAAATTACCATTTTACCCCCAAACTT
1 GAACTTCCAAAAATCTCATTTTTGACCTCGAACCTTCTAAAAATTACCATTTTACCCCCAAACTT
16935 CCAAAAATTCCATTTTCGACCCC
66 CCAAAAATTCCATTTT--ACCCC
16958 GAAC
1 GAAC
16962 CTTTACCATT
Statistics
Matches: 277, Mismatches: 45, Indels: 69
0.71 0.12 0.18
Matches are distributed among these distances:
83 2 0.01
84 7 0.03
85 9 0.03
86 5 0.02
87 54 0.19
88 102 0.37
89 39 0.14
90 42 0.15
91 17 0.06
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.30
Consensus pattern (86 bp):
GAACTTCCAAAAATCTCATTTTTGACCTCGAACCTTCTAAAAATTACCATTTTACCCCCAAACTT
CCAAAAATTCCATTTTACCCC
Found at i:16973 original size:51 final size:51
Alignment explanation
Indices: 16913--17015 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
16903 CTTCTAAAAA
*
16913 TTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTCGACCCCGAACCT
1 TTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTCGACCCCGAACCT
* * * *
16964 TTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACTCCGAACCT
1 TTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTCGACCCCGAACCT
17015 T
1 T
17016 CCAAAACTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.28, C:0.35, G:0.05, T:0.32
Consensus pattern (51 bp):
TTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTCGACCCCGAACCT
Found at i:16976 original size:118 final size:119
Alignment explanation
Indices: 16513--17038 Score: 549
Period size: 118 Copynumber: 4.5 Consensus size: 119
16503 CCTCGAAAGT
* * *
16513 CCCT-GAACTTCCAAAAATCCCATTTTCGACCTCGAACCTTCTAAAAATTACCATTTTACCCCCC
1 CCCTCGAACCTCCAAAAATCCCATTTTTGACCTCAAACCTTCTAAAAATTACCATTTTA-CCCCC
* * *
16577 GAACTTCCAAAAATCTCATTTTCAACCCCGAA-CTTTTAAAAAATTACCATTTTA
65 GAACTTCCAAAAATCTCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
* * *
16631 CCCTCGAACCTCCAAAAATCCCA-TTTTGACCCCAAACCTTCTAGAAAATTGCCATTTTACCCTC
1 CCCTCGAACCTCCAAAAATCCCATTTTTGACCTCAAACCTTCTA-AAAATTACCATTTTACCCCC
* *
16695 GAATTTCCAAAAATCCCATTTT-GACCCCAAACCTTCTAAAAAAATTACCATTTTA
65 GAACTTCCAAAAATCTCATTTTCGACCCCAAACCTTCT-AAAAAATTACCATTTTA
* ** * * *
16750 CCCTTGAATTTTC--AAATCCCATTTTTGACCTCGAA-CTTCCAAAAA-T-CTCATTTTTGA-CC
1 CCCTCGAACCTCCAAAAATCCCATTTTTGACCTCAAACCTTCTAAAAATTAC-CA-TTTT-ACCC
** *
16809 TTGAACCTCCAAAAATCTCATTTTCGACCCCAAACCTTCT-AAAAATTACCATTTTA
63 CCGAACTTCCAAAAATCTCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
* * * *
16865 CCCCCAAACCTCCAAAAATCTCATTTTTGACCTCAAACCTTCTAAAAATTACCATTTTACCCCCA
1 CCCTCGAACCTCCAAAAATCCCATTTTTGACCTCAAACCTTCTAAAAATTACCATTTTACCCCCG
*
16930 AACTTCCAAAAAT-TCCATTTTCGACCCCGAA-C--CT------TTACCATTTTA
66 AACTTCCAAAAATCT-CATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
* * * * *
16975 CCCTCGAACTTCCAAAAATCCCATTTTTGA-CTCCGAACCTTC-CAAAACTACCATTTTGCCCCC
1 CCCTCGAACCTCCAAAAATCCCATTTTTGACCT-CAAACCTTCTAAAAATTACCATTTTACCCCC
17038 G
65 G
17039 TGCATCCGAA
Statistics
Matches: 346, Mismatches: 45, Indels: 43
0.80 0.10 0.10
Matches are distributed among these distances:
109 20 0.06
110 45 0.13
114 1 0.00
115 28 0.08
116 30 0.09
117 59 0.17
118 102 0.29
119 60 0.17
120 1 0.00
ACGTcount: A:0.32, C:0.33, G:0.05, T:0.30
Consensus pattern (119 bp):
CCCTCGAACCTCCAAAAATCCCATTTTTGACCTCAAACCTTCTAAAAATTACCATTTTACCCCCG
AACTTCCAAAAATCTCATTTTCGACCCCAAACCTTCTAAAAAATTACCATTTTA
Found at i:20310 original size:18 final size:18
Alignment explanation
Indices: 20270--20329 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
20260 TATTATATAA
20270 TATTTAAATATATAATTC
1 TATTTAAATATATAATTC
* * * *
20288 AATTTAAATGTATATTTT
1 TATTTAAATATATAATTC
*
20306 TATTTTAAT-TAATATATTC
1 TATTTAAATAT-ATA-ATTC
20325 TATTT
1 TATTT
20330 TTATTTAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 1 0.03
18 24 0.75
19 7 0.22
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTAAATATATAATTC
Found at i:20616 original size:14 final size:14
Alignment explanation
Indices: 20584--20635 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
20574 ACATTTAAAT
* *
20584 TAAATTATATAT-T
1 TAAATAATATATAA
*
20597 TAAATATTATATAA
1 TAAATAATATATAA
* *
20611 TAAATAATAAAAAA
1 TAAATAATATATAA
20625 TAAATAATATA
1 TAAATAATATA
20636 AAAAATCAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 10 0.32
14 21 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATAATATATAA
Found at i:20638 original size:14 final size:14
Alignment explanation
Indices: 20597--20638 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
20587 ATTATATATT
* *
20597 TAAATATTATATAA
1 TAAATAATATAAAA
*
20611 TAAATAATAAAAAA
1 TAAATAATATAAAA
20625 TAAATAATATAAAA
1 TAAATAATATAAAA
20639 AATCAATTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATAATATAAAA
Found at i:25391 original size:5 final size:5
Alignment explanation
Indices: 25380--25422 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
25370 TAAGCAATGA
* * *
25380 TTGGT CTGGT CTGGT CTGGT TTGGT TTGGT TTGGT TTGGT TTG
1 TTGGT TTGGT TTGGT TTGGT TTGGT TTGGT TTGGT TTGGT TTG
25423 ATGAATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.00, C:0.07, G:0.40, T:0.53
Consensus pattern (5 bp):
TTGGT
Found at i:27169 original size:19 final size:19
Alignment explanation
Indices: 27127--27169 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
27117 CTAAATATCC
*
27127 TTAAATTATGTTTCAGATT
1 TTAAATTATGTTTCAAATT
*
27146 CTAAATTTAT-TTTCAAATT
1 TTAAA-TTATGTTTCAAATT
27165 TTAAA
1 TTAAA
27170 ATGTTCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (19 bp):
TTAAATTATGTTTCAAATT
Found at i:28826 original size:16 final size:18
Alignment explanation
Indices: 28787--28820 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28777 TAAGCTTATA
28787 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
28804 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
28821 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:30373 original size:51 final size:51
Alignment explanation
Indices: 30287--30385 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
30277 CAGTATATAA
* * * * *
30287 AAAATTTAGCCCTCAACTTTTACATATTATATCAATTTAGTCATAATTTTT
1 AAAATTTAACCCCCAACTTTTACAAATAATATCAATTTAATCATAATTTTT
* * *
30338 AAAATTTAACCCCCAAGTTTTACAAATAATTTCAATTTAATCCTAATT
1 AAAATTTAACCCCCAACTTTTACAAATAATATCAATTTAATCATAATT
30386 CTAAAAAGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.41
Consensus pattern (51 bp):
AAAATTTAACCCCCAACTTTTACAAATAATATCAATTTAATCATAATTTTT
Found at i:30492 original size:19 final size:19
Alignment explanation
Indices: 30468--30504 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30458 ATTAATCTTG
*
30468 ATATTAATATTAAATAAAT
1 ATATTAACATTAAATAAAT
30487 ATATTAACATTAAATAAA
1 ATATTAACATTAAATAAA
30505 ATAAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATTAACATTAAATAAAT
Found at i:31846 original size:63 final size:63
Alignment explanation
Indices: 31721--31846 Score: 148
Period size: 63 Copynumber: 2.0 Consensus size: 63
31711 ATGTGGAAAA
* ** * * *
31721 TATTACTAATGAGAATTTGTTGAAGAATTTGTTTTAGCATTTCCTACTTCAAATATGCTCTTG
1 TATTACTAACGAGAACCTGTTGAAGAATTTGTTTTAACATTTCATACTTCAAATATGATCTTG
* *
31784 TATTACTAACGAGAACCTGTT-AGAGAATTTGTTTTAACTTTTCATATTTCAAACT-TGATCTTG
1 TATTACTAACGAGAACCTGTTGA-AGAATTTGTTTTAACATTTCATACTTCAAA-TATGATCTTG
31847 CAGTAGTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
62 1 0.02
63 51 0.96
64 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (63 bp):
TATTACTAACGAGAACCTGTTGAAGAATTTGTTTTAACATTTCATACTTCAAATATGATCTTG
Found at i:33946 original size:82 final size:81
Alignment explanation
Indices: 33853--34011 Score: 273
Period size: 82 Copynumber: 2.0 Consensus size: 81
33843 AGTTTAACCT
* * *
33853 CTTAAAAATGATAAAATTTTGATTTAATCCTTTAAAAATTATATTTTTTTCTATCATAAAAATTA
1 CTTAAAAATGATAAAATTTTGATTTAATCCTCTAAAAATAATATTTTTAT-TATCATAAAAATTA
33918 CAATTTAACTTCGGCCC
65 CAATTTAACTTCGGCCC
*
33935 CTTAAAAATGATAAAATTTTGATTTAATCCTCTAAAAATAATATTTTTATTATTATAAAAATTAC
1 CTTAAAAATGATAAAATTTTGATTTAATCCTCTAAAAATAATATTTTTATTATCATAAAAATTAC
34000 AATTTAACTTCG
66 AATTTAACTTCG
34012 ATTCTCTAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
81 26 0.36
82 47 0.64
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (81 bp):
CTTAAAAATGATAAAATTTTGATTTAATCCTCTAAAAATAATATTTTTATTATCATAAAAATTAC
AATTTAACTTCGGCCC
Found at i:48078 original size:16 final size:16
Alignment explanation
Indices: 48059--48102 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
48049 TTAATATTTT
48059 AAAAAAATAAAAGTTC
1 AAAAAAATAAAAGTTC
* * * *
48075 AAAAAATTATAATTTT
1 AAAAAAATAAAAGTTC
48091 AAAAAAATAAAA
1 AAAAAAATAAAA
48103 CCAAAAGATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAAAAATAAAAGTTC
Found at i:48858 original size:105 final size:106
Alignment explanation
Indices: 48734--48942 Score: 402
Period size: 105 Copynumber: 2.0 Consensus size: 106
48724 CTATTTTTTA
*
48734 TTTTTTTTTTTGTTAGAAATTAAATCTCTACTATTTCTTTTTTTAATTGTTTGAA-TTTTTTTTA
1 TTTTTTTTTTTGTTAGAAATCAAATCTCTACTATTTCTTTTTTTAATTGTTTGAATTTTTTTTTA
48798 TTCTGTTGTGATTTTCAATGACTTTGAGTGTTTACTGTCTC
66 TTCTGTTGTGATTTTCAATGACTTTGAGTGTTTACTGTCTC
48839 TTTTTTTTTTTGTTAGAAATCAAATCTCTACTATTTCTTTTTTTAATTGTTTGAATTTTTTTTTA
1 TTTTTTTTTTTGTTAGAAATCAAATCTCTACTATTTCTTTTTTTAATTGTTTGAATTTTTTTTTA
48904 TTCTGTTGTGATTTTCAATGACTTTGAGTGTTTACTGTC
66 TTCTGTTGTGATTTTCAATGACTTTGAGTGTTTACTGTC
48943 GTGGTTTTGG
Statistics
Matches: 102, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
105 54 0.53
106 48 0.47
ACGTcount: A:0.19, C:0.10, G:0.11, T:0.60
Consensus pattern (106 bp):
TTTTTTTTTTTGTTAGAAATCAAATCTCTACTATTTCTTTTTTTAATTGTTTGAATTTTTTTTTA
TTCTGTTGTGATTTTCAATGACTTTGAGTGTTTACTGTCTC
Found at i:48910 original size:21 final size:20
Alignment explanation
Indices: 48876--48918 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
48866 CTACTATTTC
48876 TTTTTTTAATTGTT-TGAATT
1 TTTTTTTAATTGTTGTG-ATT
*
48896 TTTTTTTATTCTGTTGTGATT
1 TTTTTTTAAT-TGTTGTGATT
48917 TT
1 TT
48919 CAATGACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 9 0.45
22 2 0.10
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (20 bp):
TTTTTTTAATTGTTGTGATT
Found at i:48980 original size:106 final size:104
Alignment explanation
Indices: 48742--48957 Score: 306
Period size: 106 Copynumber: 2.0 Consensus size: 104
48732 TATTTTTTTT
* * *
48742 TTTGTTAGAAATTAAATCTCTACTATTTCTTTTTTTAATTGTTTGAATTTTTTTTATTCTGTTGT
1 TTTG-TAGAAATCAAATCTCAAATATTTCTTTTTTTAATTGTTTGAATTTTTTTTATTCTGTTGT
* ***
48807 GATTTTCAATGACTTTGAGTGTTTACTGTCTCTTTTTTTT
65 GATTTTCAATGACTTTGAGTGTTTACTGTCTCGTTTTGGA
* *
48847 TTTGTTAGAAATCAAATCTCTACTATTTCTTTTTTTAATTGTTTGAATTTTTTTTTATTCTGTTG
1 TTTG-TAGAAATCAAATCTCAAATATTTCTTTTTTTAATTGTTTGAA-TTTTTTTTATTCTGTTG
*
48912 TGATTTTCAATGACTTTGAGTGTTTACTGTCGTGGTTTTGGA
64 TGATTTTCAATGACTTTGAGTGTTTACTGTC-TCGTTTTGGA
48954 TTTG
1 TTTG
48958 AGTGTTTATT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
105 46 0.45
106 48 0.47
107 9 0.09
ACGTcount: A:0.19, C:0.09, G:0.14, T:0.58
Consensus pattern (104 bp):
TTTGTAGAAATCAAATCTCAAATATTTCTTTTTTTAATTGTTTGAATTTTTTTTATTCTGTTGTG
ATTTTCAATGACTTTGAGTGTTTACTGTCTCGTTTTGGA
Found at i:49974 original size:17 final size:18
Alignment explanation
Indices: 49942--49978 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
49932 CCTGCATTGT
49942 ATCTCCTTTGTGATAATG
1 ATCTCCTTTGTGATAATG
*
49960 ATCTCC-TTGTTATAATG
1 ATCTCCTTTGTGATAATG
49977 AT
1 AT
49979 TTATGTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (18 bp):
ATCTCCTTTGTGATAATG
Found at i:50728 original size:20 final size:20
Alignment explanation
Indices: 50692--50729 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50682 TCCAAACACT
*
50692 AAAAAATATTAACTTTTCTA
1 AAAAAATAATAACTTTTCTA
50712 AAAAAATAAATAA-TTTTC
1 AAAAAAT-AATAACTTTTC
50730 CGAAAAATAT
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:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATAATAACTTTTCTA
Found at i:51893 original size:30 final size:30
Alignment explanation
Indices: 51853--51914 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
51843 TATAAAATAA
*
51853 TCATTGAATTATTCGAAAGTTTCATTTAAG
1 TCATTAAATTATTCGAAAGTTTCATTTAAG
**
51883 TCATTAAATTATTCGAAAGTTTTTTTTAAG
1 TCATTAAATTATTCGAAAGTTTCATTTAAG
51913 TC
1 TC
51915 CAGCTAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (30 bp):
TCATTAAATTATTCGAAAGTTTCATTTAAG
Found at i:53932 original size:28 final size:27
Alignment explanation
Indices: 53901--53996 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 27
53891 TATACCGGCG
*
53901 GATTCTTACATGTGGATTCATAGATAC
1 GATTCATACATGTGGATTCATAGATAC
* * *
53928 AGATTCATACATGTAGAATCATAGATGC
1 -GATTCATACATGTGGATTCATAGATAC
* *
53956 GAATTCATACGTGCGGATTCATAGATAC
1 G-ATTCATACATGTGGATTCATAGATAC
*
53984 GAATTCATGCATG
1 G-ATTCATACATG
53997 CAGAATCATT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 1 0.02
28 55 0.98
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (27 bp):
GATTCATACATGTGGATTCATAGATAC
Found at i:53963 original size:14 final size:14
Alignment explanation
Indices: 53916--53991 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
53906 TTACATGTGG
*
53916 ATTCATAGATAC-A
1 ATTCATAGATGCGA
* *
53929 GATTCATACATGTAGA
1 -ATTCATAGATG-CGA
53945 A-TCATAGATGCGA
1 ATTCATAGATGCGA
*
53958 ATTCATACG-TGCGG
1 ATTCATA-GATGCGA
*
53972 ATTCATAGATACGA
1 ATTCATAGATGCGA
53986 ATTCAT
1 ATTCAT
53992 GCATGCAGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
13 4 0.08
14 42 0.86
15 2 0.04
16 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (14 bp):
ATTCATAGATGCGA
Found at i:53978 original size:56 final size:56
Alignment explanation
Indices: 53914--54039 Score: 166
Period size: 56 Copynumber: 2.3 Consensus size: 56
53904 TCTTACATGT
* *
53914 GGATTCATAGATACAG-ATTCATACATGTAGAATCATAGATGCGAATTCATACGTGC
1 GGATTCATAGATACAGAATTCATACATGCAGAATCAT-GATGCGAACTCATACGTGC
* * * *
53970 GGATTCATAGATAC-GAATTCATGCATGCAGAATCATTATGCGAACTCATACTTGT
1 GGATTCATAGATACAGAATTCATACATGCAGAATCATGATGCGAACTCATACGTGC
*
54025 GGACTCATAGATACA
1 GGATTCATAGATACA
54040 TATTGCCCCG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
55 29 0.48
56 32 0.52
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (56 bp):
GGATTCATAGATACAGAATTCATACATGCAGAATCATGATGCGAACTCATACGTGC
Found at i:54005 original size:28 final size:28
Alignment explanation
Indices: 53918--54005 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
53908 ACATGTGGAT
*
53918 TCATAGATAC-AGATTCATACATGTAGAA
1 TCATAGATACGA-ATTCATACATGCAGAA
* * * *
53946 TCATAGATGCGAATTCATACGTGCGGAT
1 TCATAGATACGAATTCATACATGCAGAA
*
53974 TCATAGATACGAATTCATGCATGCAGAA
1 TCATAGATACGAATTCATACATGCAGAA
54002 TCAT
1 TCAT
54006 TATGCGAACT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
28 48 0.98
29 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (28 bp):
TCATAGATACGAATTCATACATGCAGAA
Found at i:60840 original size:5 final size:5
Alignment explanation
Indices: 60825--60865 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
60815 TTTCCACACG
* *
60825 TCTTCT TCTTT TCTTT TCTTT TCTTT TCTTT GCTTT GCTTT
1 TCTT-T TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
60866 ATTATTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.00, C:0.22, G:0.05, T:0.73
Consensus pattern (5 bp):
TCTTT
Found at i:63085 original size:30 final size:31
Alignment explanation
Indices: 63051--63133 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
63041 TTTTGGATAC
*
63051 TCGGGGGT-GAAATGGTAATTTTTGCAAGTT
1 TCGGGGGTAAAAATGGTAATTTTTGCAAGTT
* *
63081 TC-GGGATCAAAAATGG-AATTTTTGGAAGTT
1 TCGGGGGT-AAAAATGGTAATTTTTGCAAGTT
63111 T-GGGGGTAAAAAT-GTAATTTTTG
1 TCGGGGGTAAAAATGGTAATTTTTG
63134 AAAATTTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
28 1 0.02
29 18 0.40
30 20 0.44
31 6 0.13
ACGTcount: A:0.29, C:0.05, G:0.30, T:0.36
Consensus pattern (31 bp):
TCGGGGGTAAAAATGGTAATTTTTGCAAGTT
Found at i:63185 original size:57 final size:57
Alignment explanation
Indices: 63106--63376 Score: 174
Period size: 57 Copynumber: 4.7 Consensus size: 57
63096 GAATTTTTGG
* *
63106 AAGTTTGGGGGTAAAAATGTAATTTTTGAAAATTTTAGGGTTAAAATGGAATTTCAA
1 AAGTTTGGGGGTAAAAATGTAATTTTTGAAAATTTTAGGGTCAAAATAGAATTTCAA
* * *
63163 AAGTTTGGGGGTCAAAAA-GTAATTTTTGGAAGTTTTAGGGTCAAAATAGAATTTTTAAA
1 AAGTTTGGGGGT-AAAAATGTAATTTTTGAAAATTTTAGGGTCAAAATAGAA--TTTCAA
** *** * * * * * * * *
63222 AAAATCAAGGGT-AAAATGTAATTTTTGGAAGTTTCAAGCTCAAAATGGAATTTTTAG
1 AAGTTTGGGGGTAAAAATGTAATTTTTGAAAATTTTAGGGTCAAAATAGAA-TTTCAA
* * * * * * *
63279 AAGTTTAGGGGT-AAAATGTAATTTTTG-GAAGTTTCGAGGTCAAAATCGAATTTTGGAG
1 AAGTTTGGGGGTAAAAATGTAATTTTTGAAAATTTTAG-GGTCAAAATAGAA-TTT-CAA
** * *
63337 AAGTTTGGGGGTCGAAATATAATTTATGAACAA-TTTAGGG
1 AAGTTTGGGGGTAAAAATGTAATTTTTGAA-AATTTTAGGG
63377 ACCTCCAAGG
Statistics
Matches: 170, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
56 3 0.02
57 88 0.52
58 47 0.28
59 26 0.15
60 4 0.02
61 2 0.01
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (57 bp):
AAGTTTGGGGGTAAAAATGTAATTTTTGAAAATTTTAGGGTCAAAATAGAATTTCAA
Found at i:63196 original size:29 final size:29
Alignment explanation
Indices: 63065--63349 Score: 150
Period size: 29 Copynumber: 9.8 Consensus size: 29
63055 GGGTGAAATG
* *
63065 GTAATTTTTGCAAGTTTCGGGATCAAAAA
1 GTAATTTTTGGAAGTTTCGGGGTCAAAAA
* *
63094 TGGAATTTTTGGAAGTTTGGGGGT-AAAAA
1 -GTAATTTTTGGAAGTTTCGGGGTCAAAAA
* * ** * *
63123 TGTAATTTTTGAAAATTTTAGGGTTAAAAT
1 -GTAATTTTTGGAAGTTTCGGGGTCAAAAA
* *** *
63153 GGAA-TTTCAAAAGTTTGGGGGTCAAAAA
1 GTAATTTTTGGAAGTTTCGGGGTCAAAAA
**
63181 GTAATTTTTGGAAGTTTTAGGGTCAAAATA
1 GTAATTTTTGGAAGTTTCGGGGTCAAAA-A
** *** * *
63211 G-AATTTTTAAAAAAATCAAGGGT-AAAAT
1 GTAATTTTTGGAAGTTTC-GGGGTCAAAAA
** * *
63239 GTAATTTTTGGAAGTTTCAAGCTCAAAAT
1 GTAATTTTTGGAAGTTTCGGGGTCAAAAA
* * * *
63268 GGAATTTTTAGAAGTTTAGGGGT-AAAAT
1 GTAATTTTTGGAAGTTTCGGGGTCAAAAA
* *
63296 GTAATTTTTGGAAGTTTCGAGGTCAAAATC
1 GTAATTTTTGGAAGTTTCGGGGTCAAAA-A
* *
63326 G-AATTTTGGAGAAGTTTGGGGGTC
1 GTAATTTTTG-GAAGTTTCGGGGTC
63350 GAAATATAAT
Statistics
Matches: 194, Mismatches: 52, Indels: 18
0.73 0.20 0.07
Matches are distributed among these distances:
28 48 0.25
29 103 0.53
30 43 0.22
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (29 bp):
GTAATTTTTGGAAGTTTCGGGGTCAAAAA
Found at i:63237 original size:86 final size:87
Alignment explanation
Indices: 63076--63304 Score: 218
Period size: 86 Copynumber: 2.7 Consensus size: 87
63066 TAATTTTTGC
* * * *
63076 AAGTTTCGGGATCAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGAAAATTT
1 AAGTTTCGGGATCAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTAAAAAATC
*
63141 TAGGGTTAAAATGGAATTTCAA
66 AAGGGTTAAAATGGAATTTCAA
* * * * *
63163 AAGTTTGGGGGTCAAAAA-GTAATTTTTGGAAGTTTTAGGGTCAAAATAG-AATTTTTAAAAAAA
1 AAGTTTCGGGATCAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAAAT-GTAATTTTT-AAAAAA
* ***
63226 TCAAGGG-TAAAATGTAATTTTTGG
64 TCAAGGGTTAAAATGGAA-TTTCAA
** * *
63250 AAGTTTCAAGCTC-AAAATGGAATTTTTAGAAGTTT-AGGGGT-AAAATGTAATTTTT
1 AAGTTTCGGGATCAAAAATGGAATTTTTGGAAGTTTGA-GGGTAAAAATGTAATTTTT
63305 GGAAGTTTCG
Statistics
Matches: 116, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
85 1 0.01
86 58 0.50
87 57 0.49
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.36
Consensus pattern (87 bp):
AAGTTTCGGGATCAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTAAAAAATC
AAGGGTTAAAATGGAATTTCAA
Found at i:63265 original size:58 final size:57
Alignment explanation
Indices: 63171--63332 Score: 198
Period size: 57 Copynumber: 2.8 Consensus size: 57
63161 AAAAGTTTGG
* * *
63171 GGGTCAAAAAGTAATTTTTGGAAGTTTTAGGGTCAAAATAGAATTTTTAAAAAAATCAA
1 GGGT-AAAATGTAATTTTTGGAAGTTTCAAGGTCAAAATAGAATTTTT-AAAAAATCAA
* * * ** * *
63230 GGGTAAAATGTAATTTTTGGAAGTTTCAAGCTCAAAATGGAATTTTTAGAAGTTTAG
1 GGGTAAAATGTAATTTTTGGAAGTTTCAAGGTCAAAATAGAATTTTTAAAAAATCAA
* *
63287 GGGTAAAATGTAATTTTTGGAAGTTTCGAGGTCAAAATCGAATTTT
1 GGGTAAAATGTAATTTTTGGAAGTTTCAAGGTCAAAATAGAATTTT
63333 GGAGAAGTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 48 0.53
58 38 0.42
59 4 0.04
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.35
Consensus pattern (57 bp):
GGGTAAAATGTAATTTTTGGAAGTTTCAAGGTCAAAATAGAATTTTTAAAAAATCAA
Found at i:63270 original size:115 final size:116
Alignment explanation
Indices: 63114--63332 Score: 291
Period size: 115 Copynumber: 1.9 Consensus size: 116
63104 GGAAGTTTGG
* * * * *
63114 GGGTAAAAATGTAATTTTTGAAAATTTTAGGGTTAAAATGGAA-TTTCAAAAGTTTGGGGGTCAA
1 GGGTAAAAATGTAATTTTTGAAAATTTCAAGCTCAAAATGGAATTTTCAAAAGTTTAGGGGT-AA
63178 AAAGTAATTTTTGGAAGTTTTAG-GGTCAAAATAGAATTTTTAAAAAAATCAA
65 AAAGTAATTTTTGGAAG-TTTAGAGGTCAAAATAGAATTTTTAAAAAAATCAA
* * * *
63230 GGGT-AAAATGTAATTTTTGGAAGTTTCAAGCTCAAAATGGAATTTTTAGAAGTTTAGGGGTAAA
1 GGGTAAAAATGTAATTTTTGAAAATTTCAAGCTCAAAATGGAATTTTCAAAAGTTTAGGGGTAAA
* * *
63294 ATGTAATTTTTGGAAGTTTCGAGGTCAAAATCGAATTTT
66 AAGTAATTTTTGGAAGTTTAGAGGTCAAAATAGAATTTT
63333 GGAGAAGTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
114 4 0.04
115 66 0.74
116 19 0.21
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.36
Consensus pattern (116 bp):
GGGTAAAAATGTAATTTTTGAAAATTTCAAGCTCAAAATGGAATTTTCAAAAGTTTAGGGGTAAA
AAGTAATTTTTGGAAGTTTAGAGGTCAAAATAGAATTTTTAAAAAAATCAA
Found at i:63361 original size:30 final size:30
Alignment explanation
Indices: 63277--63361 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 30
63267 TGGAATTTTT
* *
63277 AGAAGTTTAGGGGT-AAAATGTAATTTTTG
1 AGAAGTTTAGGGGTCAAAATATAATTTTGG
* * **
63306 -GAAGTTTCGAGGTCAAAATCGAATTTTGG
1 AGAAGTTTAGGGGTCAAAATATAATTTTGG
* *
63335 AGAAGTTTGGGGGTCGAAATATAATTT
1 AGAAGTTTAGGGGTCAAAATATAATTT
63362 ATGAACAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
28 11 0.25
29 12 0.27
30 21 0.48
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (30 bp):
AGAAGTTTAGGGGTCAAAATATAATTTTGG
Found at i:64555 original size:15 final size:15
Alignment explanation
Indices: 64499--64555 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
64489 AACAGTTGTC
* *
64499 ATTAATGTTATCAGT
1 ATTAATGTTATTATT
*
64514 A-TCATGTTTATTATT
1 ATTAATG-TTATTATT
**
64529 ATTAATACTATTATT
1 ATTAATGTTATTATT
64544 ATTAATGTTATT
1 ATTAATGTTATT
64556 TATTGTAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
14 4 0.12
15 25 0.78
16 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.54
Consensus pattern (15 bp):
ATTAATGTTATTATT
Found at i:66262 original size:5 final size:5
Alignment explanation
Indices: 66252--66284 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
66242 AAGTATTCAC
66252 GACAT GACAT GACAT GACAT GACAT GACAT GAC
1 GACAT GACAT GACAT GACAT GACAT GACAT GAC
66285 CTGAACATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (5 bp):
GACAT
Found at i:68564 original size:18 final size:18
Alignment explanation
Indices: 68535--68574 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
68525 TAACCATTTA
*
68535 AAAATTA-TAAATAT-AT
1 AAAATTATTAAAAATGAT
68551 -AAATTATTAAAAATGAT
1 AAAATTATTAAAAATGAT
68568 AAAATTA
1 AAAATTA
68575 CATTTTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 6 0.30
16 6 0.30
17 2 0.10
18 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAATTATTAAAAATGAT
Found at i:72382 original size:29 final size:29
Alignment explanation
Indices: 72303--72383 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
72293 TTTTTCCATA
72303 AATTTTATATTTT-AAATA-ATTTTAATG
1 AATTTTATATTTTAAAATATATTTTAATG
** *
72330 -ATTTTATATTCAAAAAAATAATTTTAATG
1 AATTTTATATTTTAAAATAT-ATTTTAATG
72359 AATTTTA-ATTTTTAAAATATATTTT
1 AATTTTATA-TTTTAAAATATATTTT
72384 TCAAATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
26 10 0.23
27 4 0.09
29 15 0.35
30 14 0.33
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (29 bp):
AATTTTATATTTTAAAATATATTTTAATG
Found at i:73502 original size:18 final size:18
Alignment explanation
Indices: 73479--73521 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
73469 GAATAATTTT
73479 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
73497 TTAATTCAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
73515 TTAATTA
1 TTAATTA
73522 CAACTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:79371 original size:96 final size:96
Alignment explanation
Indices: 79271--79462 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
79261 AACTGACATT
79271 AACTATTATATTAATTAGCTTATGCCAACTGAAGTATTGTTGAATGAACTCTCATTTTATAGGAG
1 AACTATTATATTAATTAGCTTATGCCAACTGAAGTATTGTTGAATGAACTCTCATTTTATAGGAG
79336 CCTTGGTTATAGAGATGACTCAGAGAAGAAG
66 CCTTGGTTATAGAGATGACTCAGAGAAGAAG
79367 AACTATTATATTAATTAGCTTATGCCAACTGAAGTATTGTTGAATGAACTCTCATTTTATAGGAG
1 AACTATTATATTAATTAGCTTATGCCAACTGAAGTATTGTTGAATGAACTCTCATTTTATAGGAG
79432 CCTTGGTTATAGAGATGACTCAGAGAAGAAG
66 CCTTGGTTATAGAGATGACTCAGAGAAGAAG
79463 CCCTCTCATA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (96 bp):
AACTATTATATTAATTAGCTTATGCCAACTGAAGTATTGTTGAATGAACTCTCATTTTATAGGAG
CCTTGGTTATAGAGATGACTCAGAGAAGAAG
Found at i:82669 original size:6 final size:6
Alignment explanation
Indices: 82653--82733 Score: 55
Period size: 6 Copynumber: 14.2 Consensus size: 6
82643 CTTGATTTTT
* * *
82653 TTTAAA ATTAAT TTTAAA TTT-AT TTCTAAA --TAA- TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA
*** *
82698 TTTGTT TTTAAA TTTAAA TTT-AG TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
82734 GATTTTTAAA
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
4 3 0.05
5 10 0.18
6 41 0.75
7 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:82726 original size:17 final size:17
Alignment explanation
Indices: 82686--82733 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
82676 TTCTAAATAA
82686 TTTAAATTTAAATTTGTT
1 TTTAAATTTAAATTTG-T
82704 TTTAAATTTAAATTTAG-
1 TTTAAATTTAAATTT-GT
82721 TTTAAATTTAAAT
1 TTTAAATTTAAAT
82734 GATTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 13 0.45
18 15 0.52
19 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTAAATTTAAATTTGT
Found at i:82741 original size:17 final size:16
Alignment explanation
Indices: 82686--82743 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 16
82676 TTCTAAATAA
82686 TTTAAATTTAAATTTGTT
1 TTTAAATTTAAA--TGTT
82704 TTTAAATTTAAAT-TT
1 TTTAAATTTAAATGTT
82719 AGTTTAAATTTAAATGATT
1 --TTTAAATTTAAATG-TT
82738 TTTAAA
1 TTTAAA
82744 CTTAGCTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.06
16 1 0.03
17 19 0.53
18 12 0.33
19 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTAAATTTAAATGTT
Found at i:82760 original size:35 final size:34
Alignment explanation
Indices: 82683--82762 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
82673 TATTTCTAAA
*
82683 TAATTTAAATTTAAATTTGTTTTTAAATTTAAATT
1 TAATTTAAATTTAAA-TTGTTTTTAAACTTAAATT
* **
82718 TAGTTTAAATTTAAA-TGATTTTTAAACTTAGCTT
1 TAATTTAAATTTAAATTG-TTTTTAAACTTAAATT
82752 TAAATTTAAAT
1 T-AATTTAAAT
82763 AAATAAAAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
33 2 0.05
34 14 0.37
35 22 0.58
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (34 bp):
TAATTTAAATTTAAATTGTTTTTAAACTTAAATT
Found at i:83424 original size:3 final size:3
Alignment explanation
Indices: 83416--83458 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
83406 ACCTTTAGTC
* * *
83416 ATA ATA ATA ATA ATA TTG ATA ATAA ATA ATA ATA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
83459 GTAACATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:84528 original size:30 final size:30
Alignment explanation
Indices: 84494--84550 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
84484 AAACTATCCA
* *
84494 AAAATCATATTTTGACCCTCGAACTTTTTT
1 AAAATCACATTTTGACCCTCAAACTTTTTT
* *
84524 AAAATTACATTTTTACCCTCAAACTTT
1 AAAATCACATTTTGACCCTCAAACTTT
84551 CAAAATTCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (30 bp):
AAAATCACATTTTGACCCTCAAACTTTTTT
Found at i:84555 original size:59 final size:59
Alignment explanation
Indices: 84480--84816 Score: 201
Period size: 59 Copynumber: 5.8 Consensus size: 59
84470 CCCTAGAGGT
* * *
84480 CCCT-AAACTATCCAAAAAT-CATATTTTGACCCTCGAACTTTTTTAAAATTACATTTTTA
1 CCCTCAAACTTTCCAAAATTCCAT-TTTT-AACCTCGAACTTTTTTAAAATTACATTTTTA
* * ***
84539 CCCTCAAACTTT-CAAAATTCCATCTTTAACATCGAACTTTCAAGAAAATTACCA-TTTTA
1 CCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGAACTTT-TTTAAAATTA-CATTTTTA
* * *
84598 CCC-CTGAACTTTCCAAAATTTCATTTTTAACCTCG-A-TTTTTCTAAAAATTACATTATTA
1 CCCTC-AAACTTTCCAAAATTCCATTTTTAACCTCGAACTTTTT-T-AAAATTACATTTTTA
* *
84657 CCCTCAAACTTTCCAAAATTCCATTTTTGACC-C-TA-TTTTTTCCAAAAATTACCA-TTTTA
1 CCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGAACTTTTTT---AAAATTA-CATTTTTA
* * * * *
84716 ---T-GAACTTTCAAAAATTCTATTTTTGACC-CTAA-TTTTTTCAAAAATTAC-TATTTTA
1 CCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGAACTTTTTT--AAAATTACAT-TTTTA
* * * *
84771 CCCCCGAAC-TTCCAAAAATTCCATTTTTAACTTCG-ATTTTTTTAAA
1 CCCTCAAACTTTCC-AAAATTCCATTTTTAACCTCGAACTTTTTTAAA
84817 GAAAATTACC
Statistics
Matches: 224, Mismatches: 30, Indels: 49
0.74 0.10 0.16
Matches are distributed among these distances:
54 1 0.00
55 39 0.17
56 8 0.04
57 1 0.00
58 30 0.13
59 105 0.47
60 40 0.18
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (59 bp):
CCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGAACTTTTTTAAAATTACATTTTTA
Found at i:84625 original size:29 final size:29
Alignment explanation
Indices: 84502--84690 Score: 141
Period size: 30 Copynumber: 6.4 Consensus size: 29
84492 CAAAAATCAT
* **
84502 ATTTTGACCCTCGAACTTTTTTAAAATTAC
1 ATTTTTACCCTCGAAC-TTTCCAAAATTAC
* *
84532 ATTTTTACCCTCAAACTTT-CAAAATTCC
1 ATTTTTACCCTCGAACTTTCCAAAATTAC
* * * *
84560 ATCTTTAACATCGAACTTTCAAGAAAATTACC
1 ATTTTTACCCTCGAACTTTC--CAAAATTA-C
*
84592 A-TTTTACCC-CTGAACTTTCCAAAATTTC
1 ATTTTTACCCTC-GAACTTTCCAAAATTAC
* ** *
84620 ATTTTTAACCTCGATTTTTCTAAAAATTAC
1 ATTTTTACCCTCGAACTTTC-CAAAATTAC
* * *
84650 ATTATTACCCTCAAACTTTCCAAAATTCC
1 ATTTTTACCCTCGAACTTTCCAAAATTAC
84679 ATTTTTGACCCT
1 ATTTTT-ACCCT
84691 ATTTTTTCCA
Statistics
Matches: 122, Mismatches: 28, Indels: 18
0.73 0.17 0.11
Matches are distributed among these distances:
28 24 0.20
29 34 0.28
30 43 0.35
31 19 0.16
32 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (29 bp):
ATTTTTACCCTCGAACTTTCCAAAATTAC
Found at i:84705 original size:30 final size:29
Alignment explanation
Indices: 84666--84761 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 29
84656 ACCCTCAAAC
*
84666 TTTCCAAAATTCCATTTTTGACCCTATTT
1 TTTCAAAAATTCCATTTTTGACCCTATTT
*
84695 TTTCCAAAAATTACCATTTTATGA----A--C
1 TTT-CAAAAATT-CCATTTT-TGACCCTATTT
*
84721 TTTCAAAAATTCTATTTTTGACCCTAATTT
1 TTTCAAAAATTCCATTTTTGACCCT-ATTT
84751 TTTCAAAAATT
1 TTTCAAAAATT
84762 ACTATTTTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
23 3 0.06
24 6 0.11
25 8 0.15
26 3 0.06
28 2 0.04
29 3 0.06
30 18 0.34
31 7 0.13
32 3 0.06
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTCAAAAATTCCATTTTTGACCCTATTT
Found at i:84741 original size:55 final size:55
Alignment explanation
Indices: 84663--84798 Score: 175
Period size: 55 Copynumber: 2.4 Consensus size: 55
84653 ATTACCCTCA
*
84663 AACTTTCCAAAATTCCATTTTTGACCCT-ATTTTTTCCAAAAATTACCATTTTATG
1 AACTTTCAAAAATTCCATTTTTGACCCTAATTTTTT-CAAAAATTACCATTTTATG
* * *
84718 AACTTTCAAAAATTCTATTTTTGACCCTAATTTTTTCAAAAATTACTATTTTACCCCCG
1 AACTTTCAAAAATTCCATTTTTGACCCTAATTTTTTCAAAAATTACCATTTTA----TG
*
84777 AACTTCCAAAAATTCCATTTTT
1 AACTTTCAAAAATTCCATTTTT
84799 AACTTCGATT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
55 42 0.60
56 7 0.10
59 21 0.30
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (55 bp):
AACTTTCAAAAATTCCATTTTTGACCCTAATTTTTTCAAAAATTACCATTTTATG
Found at i:84911 original size:28 final size:29
Alignment explanation
Indices: 84818--84936 Score: 95
Period size: 28 Copynumber: 4.1 Consensus size: 29
84808 TTTTTTAAAG
*
84818 AAAATTACCATTTTAT-CCCCAGATGTAT--
1 AAAATTACCATTTT-TGCCCCCGA-GTATCC
* * * *
84846 AAAATT-CCATTTTTGACCTCGAACTTTTCC
1 AAAATTACCATTTTTGCCCCCG-A-GTATCC
* *
84876 AAAATTACCA-TTTTGCCCTCGAGTGTCC
1 AAAATTACCATTTTTGCCCCCGAGTATCC
*
84904 AAAATTACCATTTTTGCCCCCGGGTATCC
1 AAAATTACCATTTTTGCCCCCGAGTATCC
84933 AAAA
1 AAAA
84937 ATCTCATTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
26 1 0.01
27 10 0.14
28 23 0.32
29 20 0.27
30 16 0.22
31 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTTGCCCCCGAGTATCC
Found at i:84933 original size:29 final size:28
Alignment explanation
Indices: 84873--84936 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
84863 CTCGAACTTT
* *
84873 TCCAAAATTACCATTTTGCCCTCGAGTG
1 TCCAAAATTACCATTTTGCCCCCGAGTA
*
84901 TCCAAAATTACCATTTTTGCCCCCGGGTA
1 TCCAAAATTACCA-TTTTGCCCCCGAGTA
84930 TCCAAAA
1 TCCAAAA
84937 ATCTCATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 13 0.41
29 19 0.59
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (28 bp):
TCCAAAATTACCATTTTGCCCCCGAGTA
Found at i:84944 original size:29 final size:29
Alignment explanation
Indices: 84873--84946 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
84863 CTCGAACTTT
* * *
84873 TCCAAAATTACCA-TTTTGCCCTCGAGTG
1 TCCAAAAATACCATTTTTGCCCCCGAGTA
* *
84901 TCCAAAATTACCATTTTTGCCCCCGGGTA
1 TCCAAAAATACCATTTTTGCCCCCGAGTA
84930 TCCAAAAAT-CTCATTTT
1 TCCAAAAATAC-CATTTT
84947 CAATTCTGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 14 0.35
29 26 0.65
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (29 bp):
TCCAAAAATACCATTTTTGCCCCCGAGTA
Found at i:85340 original size:97 final size:97
Alignment explanation
Indices: 85157--85342 Score: 241
Period size: 97 Copynumber: 1.9 Consensus size: 97
85147 AAAACTTTAA
* * * * * *
85157 AATTGAGGCAATATTCTTTTATTTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGTAATT
1 AATTGAGGCAATATTCCTTTATCTCGAGTTCTGAAAATTTGTACCTTAACTTACTAGGTGCAACT
* *
85222 TTTCCTCAAATCGGAATAATCGAATACCCTTT
66 ATTCCTCAAATCGGAACAATCGAATACCCTTT
* *
85254 AATTGAGGCAATGTTCCTTTATCTCTGA-TTCTGAAAATTTGTACCTTAACTTACTAGGTGCGAC
1 AATTGAGGCAATATTCCTTTATCTC-GAGTTCTGAAAATTTGTACCTTAACTTACTAGGTGCAAC
*
85318 TATTCTTCAAATC-GAGACAATCGAA
65 TATTCCTCAAATCGGA-ACAATCGAA
85343 CATCATTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
96 2 0.03
97 72 0.95
98 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (97 bp):
AATTGAGGCAATATTCCTTTATCTCGAGTTCTGAAAATTTGTACCTTAACTTACTAGGTGCAACT
ATTCCTCAAATCGGAACAATCGAATACCCTTT
Found at i:91703 original size:18 final size:18
Alignment explanation
Indices: 91676--91721 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
91666 CAGATGTGAA
91676 GGAAAAGAAGAAAGAGAT
1 GGAAAAGAAGAAAGAGAT
* **
91694 GGAAAGGAAGCGAGAGAT
1 GGAAAAGAAGAAAGAGAT
91712 GAGAAAAGAA
1 G-GAAAAGAA
91722 CGACTGGCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.57, C:0.02, G:0.37, T:0.04
Consensus pattern (18 bp):
GGAAAAGAAGAAAGAGAT
Found at i:96827 original size:49 final size:49
Alignment explanation
Indices: 96642--97037 Score: 294
Period size: 49 Copynumber: 8.1 Consensus size: 49
96632 GACGAACCGT
* * ** *
96642 GTACCTCAGA-AGCATGAAGGGAAAGACTTAAGCCGTAATAGCGAATCTA
1 GTACCTCAGAGA-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCA
* * * **
96691 ATA-C-CACAGACATGAAGGGAAAGATCTAAGCCATAACGGCGAATCCA
1 GTACCTCAGAGACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCA
** * * * * *
96738 GTATCGCAAAGATACA-AAAGGGAAAGGTTTAAGTCGCAACGACGAA-CCTA
1 GTA-C-CTCAGAGACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-A
* *
96788 GTACCTCAGAGACATGAAGGGAAAAATTTAACCCGCAACGGCGAATCCA
1 GTACCTCAGAGACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCA
* ** * * *
96837 GTACCAC-GAAGACACAAAGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTT
1 GTACCTCAG-AGACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-A
* *
96886 GTACCTCATA-AGCATGAAGGGGAAGATTTAAGCCGCAACGGCGAATCCA
1 GTACCTCAGAGA-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCA
* ** * * *
96935 GTACCAC-GAAGATTTGAAGGGAAATG-TTTAAGTCGCAAAGGCGAA-CCTT
1 GTACCTCAG-AGACATGAAGGGAAA-GATTTAAGCCGCAACGGCGAATCC-A
* *
96984 GTACCTCAGA-AGCATAAAAGGAAAGATTTAAGCCGCAACGGCGAATCCA
1 GTACCTCAGAGA-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCA
97033 GTACC
1 GTACC
97038 GCGAAGACTC
Statistics
Matches: 266, Mismatches: 60, Indels: 42
0.72 0.16 0.11
Matches are distributed among these distances:
47 36 0.14
48 17 0.06
49 171 0.64
50 37 0.14
51 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.16
Consensus pattern (49 bp):
GTACCTCAGAGACATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCA
Found at i:96841 original size:231 final size:231
Alignment explanation
Indices: 96397--96841 Score: 581
Period size: 231 Copynumber: 1.9 Consensus size: 231
96387 TTTAAGCCGC
* * * * * *
96397 AACGGCGAACCTTGCACCTCAGAAGAATGAAGGGAAAGATTTAAGTCGTAACGACGAATCCAGTA
1 AACGACGAACCGTGCACCTCAGAAGAATGAAGGGAAAGACTTAAGCCGTAAAGACGAATCCAATA
* * *
96462 CCACGAAAATAATAAAGGGAAAGATCTAAGCCGTAACGGCGGATCCAGTACCACAAAGACACAAG
66 CCAC-AAAATAATAAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTACCACAAAGACAAAAG
* * * * * * *
96527 GGAACGGTTTAAGTTGCAACGACGAACCTTGTACCTCAGAGACATGAAGGTAAAGATCTAAGCCT
130 GGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAAATCTAACCCG
* *
96592 CAAAGGCGGATTCAGTACCGTAAAGATACAAAAGGGA
195 CAAAGGCGAATCCAGTACCGTAAAGATACAAAAGGGA
* * *
96629 AACGACGAACCGTGTACCTCAGAAGCATGAAGGGAAAGACTTAAGCCGTAATAG-CGAATCTAAT
1 AACGACGAACCGTGCACCTCAGAAGAATGAAGGGAAAGACTTAAGCCGTAA-AGACGAATCCAAT
* * * * *
96693 ACCAC-AGA-CATGAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTATCGCAAAGATACAAA
65 ACCACAAAATAATAAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTACCACAAAG--ACAAA
*
96756 AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAAATTTAACC
128 AGGGAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAAATCTAACC
*
96821 CGCAACGGCGAATCCAGTACC
193 CGCAAAGGCGAATCCAGTACC
96842 ACGAAGACAC
Statistics
Matches: 182, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
229 42 0.23
230 2 0.01
231 79 0.43
232 58 0.32
233 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.16
Consensus pattern (231 bp):
AACGACGAACCGTGCACCTCAGAAGAATGAAGGGAAAGACTTAAGCCGTAAAGACGAATCCAATA
CCACAAAATAATAAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTACCACAAAGACAAAAGG
GAAAGGTTTAAGTCGCAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAAATCTAACCCGC
AAAGGCGAATCCAGTACCGTAAAGATACAAAAGGGA
Found at i:96890 original size:98 final size:98
Alignment explanation
Indices: 96701--97099 Score: 503
Period size: 98 Copynumber: 4.1 Consensus size: 98
96691 ATACCACAGA
* ** * * * *
96701 CATGAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTATCGCAAAGATACAAAAGGGAAAGGT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACAC-AAAGGGAAAGGT
* *
96766 TTAAGTCGCAACGACGAACCTAGTACCTCAG-AG
65 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAG
* *
96799 ACATGAAGGGAAAAATTTAACCCGCAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGGT
1 -CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGGT
*
96864 TTAAGTCGCAACGGCGAACCTTGTACCTCATAAG
65 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAG
* **** *
96898 CATGAAGGGGAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATTTGAAGGGAAATGTT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGGTT
*
96963 TAAGTCGCAAAGGCGAACCTTGTACCTCAGAAG
66 TAAGTCGCAACGGCGAACCTTGTACCTCAGAAG
* * * * * *
96996 CATAAAAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCGCGAAGACTCAAGGGGAAGGGTT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGGTT
* * * * *
97061 TAAGTCGTAATGGCGAACCTTATACCCCAAAAG
66 TAAGTCGCAACGGCGAACCTTGTACCTCAGAAG
97094 CATGAA
1 CATGAA
97100 AAAAATTCAA
Statistics
Matches: 261, Mismatches: 38, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
98 216 0.83
99 45 0.17
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (98 bp):
CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGGTT
TAAGTCGCAACGGCGAACCTTGTACCTCAGAAG
Found at i:97063 original size:147 final size:146
Alignment explanation
Indices: 96629--97064 Score: 338
Period size: 147 Copynumber: 3.0 Consensus size: 146
96619 ACAAAAGGGA
* * * * * *
96629 AACGACGAACCGT-GTACCTCAGA-AGCATGAAGGGAAAGACTTAAGCCGTAATA-GCGAATCTA
1 AACGACGAACC-TAGTACCACAGAGA-CATGAAGGGAAAAATTTAACCCGCAA-AGGCGAATCCA
* ** * * ** *
96691 ATACCAC--AGACATGAAGGGAAAGATCTAAGCCATAACGGCGAATCCAGTATCGCAAAGA-TAC
63 GTACCACGAAGACACAAAAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCGCAAAGACT-C
* *
96753 AAAAGGGAAAGGTTTAAGTCGC
127 --AAGGGGAAGGTTTAAGCCGC
* *
96775 AACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAAATTTAACCCGCAACGGCGAATCCAGTA
1 AACGACGAACCTAGTACCACAGAGACATGAAGGGAAAAATTTAACCCGCAAAGGCGAATCCAGTA
* * * * * *
96840 CCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACCTCATAAG-CATGA
66 CCACGAAGACACAAAAGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCGCA-AAGAC-TCA
*
96903 AGGGGAAGATTTAAGCCGC
128 AGGGGAAGGTTTAAGCCGC
* ** ** ** *
96922 AACGGCGAATCC-AGTACCAC-GAAGATTTGAAGGGAAATGTTTAAGTCGCAAAGGCGAA-CCTT
1 AACGACGAA-CCTAGTACCACAG-AGACATGAAGGGAAAAATTTAACCCGCAAAGGCGAATCC-A
* * *
96984 GTACCTCAGAAG-CATAAAAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCGCGAAGACTC
63 GTACCAC-GAAGACACAAAAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCGCAAAGACTC
97048 AAGGGGAAGGGTTTAAG
127 AAGGGGAA-GGTTTAAG
97065 TCGTAATGGC
Statistics
Matches: 233, Mismatches: 41, Indels: 31
0.76 0.13 0.10
Matches are distributed among these distances:
145 1 0.00
146 72 0.31
147 113 0.48
148 43 0.18
149 3 0.01
150 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (146 bp):
AACGACGAACCTAGTACCACAGAGACATGAAGGGAAAAATTTAACCCGCAAAGGCGAATCCAGTA
CCACGAAGACACAAAAGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCGCAAAGACTCAAGG
GGAAGGTTTAAGCCGC
Found at i:97076 original size:49 final size:49
Alignment explanation
Indices: 96725--97077 Score: 240
Period size: 49 Copynumber: 7.2 Consensus size: 49
96715 TCTAAGCCAT
* * *
96725 AACGGCGAATCCAGTATCGCAAAGA-TACAAAAGGGAAAGGTTTAAGTCGC
1 AACGGCGAATCCAGTACCACGAAGACT-C-AAAGGGAAAGGTTTAAGTCGC
* * * ** **
96775 AACGACGAA-CCTAGTACCTC-AGAGACAT-GAAGGGAAAAATTTAACCCGC
1 AACGGCGAATCC-AGTACCACGA-AGAC-TCAAAGGGAAAGGTTTAAGTCGC
*
96824 AACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCGC
1 AACGGCGAATCCAGTACCACGAAGACTCAAAGGGAAAGGTTTAAGTCGC
* * * * * * *
96873 AACGGCGAA-CCTTGTACCTCATAAG-CAT-GAAGGGGAAGATTTAAGCCGC
1 AACGGCGAATCC-AGTACCAC-GAAGAC-TCAAAGGGAAAGGTTTAAGTCGC
* ** *
96922 AACGGCGAATCCAGTACCACGAAGATTTGAAGGGAAATGTTTAAGTCGC
1 AACGGCGAATCCAGTACCACGAAGACTCAAAGGGAAAGGTTTAAGTCGC
* * * * * *
96971 AAAGGCGAA-CCTTGTACCTCAGAAG-CAT-AAAAGGAAAGATTTAAGCCGC
1 AACGGCGAATCC-AGTACCAC-GAAGAC-TCAAAGGGAAAGGTTTAAGTCGC
* * * *
97020 AACGGCGAATCCAGTACCGCGAAGACTCAAGGGGAAGGGTTTAAGTCGT
1 AACGGCGAATCCAGTACCACGAAGACTCAAAGGGAAAGGTTTAAGTCGC
*
97069 AATGGCGAA
1 AACGGCGAA
97078 CCTTATACCC
Statistics
Matches: 233, Mismatches: 51, Indels: 39
0.72 0.16 0.12
Matches are distributed among these distances:
48 13 0.06
49 187 0.80
50 32 0.14
52 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (49 bp):
AACGGCGAATCCAGTACCACGAAGACTCAAAGGGAAAGGTTTAAGTCGC
Found at i:97596 original size:23 final size:23
Alignment explanation
Indices: 97578--97674 Score: 82
Period size: 23 Copynumber: 4.5 Consensus size: 23
97568 AATTTATTTC
97578 TAAATTTAAATTTACTTTAAATT
1 TAAATTTAAATTTACTTTAAATT
*
97601 TAAATTTAAATTT--GTT---TT
1 TAAATTTAAATTTACTTTAAATT
**
97619 TAAATTTAAATTTGTTTTAAATT
1 TAAATTTAAATTTACTTTAAATT
* * *
97642 TAAATTT-ACTTTAAATTTAAA-A
1 TAAATTTAAATTT-ACTTTAAATT
97664 TAAATTTAAAT
1 TAAATTTAAAT
97675 GATTTTTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
18 15 0.25
20 2 0.03
21 2 0.03
22 11 0.18
23 30 0.50
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TAAATTTAAATTTACTTTAAATT
Found at i:97597 original size:41 final size:41
Alignment explanation
Indices: 97552--97649 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
97542 CTTGATTTCT
* *
97552 TTTAAAATTAATTTTAAATTTATTTCTAAATTTAAATTTAC
1 TTTAAATTTAAATTTAAATTTATTTCTAAATTTAAATTTAC
* * **
97593 TTTAAATTTAAATTTAAATTTGTTTTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTAAATTTATTTCTAAATTTAAATTTAC
97634 TTTAAATTTAAATTTA
1 TTTAAATTTAAATTTA
97650 CTTTAAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (41 bp):
TTTAAATTTAAATTTAAATTTATTTCTAAATTTAAATTTAC
Found at i:97600 original size:17 final size:17
Alignment explanation
Indices: 97559--97662 Score: 100
Period size: 17 Copynumber: 5.6 Consensus size: 17
97549 TCTTTTAAAA
*
97559 TTAATTTTAAATTTATT
1 TTAAATTTAAATTTATT
97576 TCTAAATTTAAATTTACTTTAAAT
1 T-TAAATTTAAATTTA---T---T
*
97600 TTAAATTTAAATTTGTTT
1 TTAAATTTAAATTT-ATT
*
97618 TTAAATTTAAATTTGTT
1 TTAAATTTAAATTTATT
*
97635 TTAAATTTAAATTTACT
1 TTAAATTTAAATTTATT
97652 TTAAATTTAAA
1 TTAAATTTAAA
97663 ATAAATTTAA
Statistics
Matches: 74, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
17 29 0.39
18 28 0.38
21 2 0.03
23 13 0.18
24 2 0.03
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATTTAAATTTATT
Found at i:97626 original size:6 final size:6
Alignment explanation
Indices: 97552--97674 Score: 103
Period size: 6 Copynumber: 21.2 Consensus size: 6
97542 CTTGATTTCT
* * * *
97552 TTTAAA ATTAAT TTTAAA TTT-AT TTCTAAA TTTAAA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA
*** **
97599 TTTAAA TTTAAA TTTGTT TTTAAA TTTAAA TTT-GT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
97646 TTT-AC TTTAAA TTTAAA -ATAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
97675 GATTTTTAAA
Statistics
Matches: 89, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
5 18 0.20
6 68 0.76
7 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:97671 original size:17 final size:17
Alignment explanation
Indices: 97556--97674 Score: 94
Period size: 17 Copynumber: 6.9 Consensus size: 17
97546 ATTTCTTTTA
*
97556 AAATTAATTTTAAATTT
1 AAATTAAATTTAAATTT
**
97573 ATTTCTAAATTTAAATTT
1 AAAT-TAAATTTAAATTT
**
97591 ACTTTAAATTTAAATTT
1 AAATTAAATTTAAATTT
***
97608 AAATTTGTTTTTAAATTT
1 AAA-TTAAATTTAAATTT
***
97626 AAATTTGTTTTAAATTT
1 AAATTAAATTTAAATTT
* *
97643 AAATTTACTTTAAATTT
1 AAATTAAATTTAAATTT
*
97660 AAAATAAATTTAAAT
1 AAATTAAATTTAAAT
97675 GATTTTTAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
17 55 0.65
18 29 0.35
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.53
Consensus pattern (17 bp):
AAATTAAATTTAAATTT
Found at i:98455 original size:3 final size:3
Alignment explanation
Indices: 98358--98444 Score: 93
Period size: 3 Copynumber: 29.0 Consensus size: 3
98348 ACCTTTAGTC
* * * *
98358 ATA ATA ATA GTA ATA TTG ATA ATA ATA ATA ATA ATA ATA ATC ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
98406 ATA ATA ATA ACA TTT ATA ACA TTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
98445 GACAAATAAT
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:99504 original size:30 final size:28
Alignment explanation
Indices: 99474--99638 Score: 84
Period size: 30 Copynumber: 5.7 Consensus size: 28
99464 CCCTCGAACT
99474 TTTCAAAAAATTACATTTTACCCCTAAAC
1 TTTCAAAAAATTACATTTTACCCCT-AAC
* * *
99503 TTTC-CAAAATTTCATTTTTAACCTCTAAC
1 TTTCAAAAAATTACA-TTTT-ACCCCTAAC
** *
99532 TTTCCGAAAATTACCATTTTACCCCCGAAC
1 TTTCAAAAAATTA-CATTTTA-CCCCTAAC
* * * * **
99562 TTTC-CAAAATTCCATTTTAACCTCGATTT
1 TTTCAAAAAATTACATTTT-ACCCCTA-AC
* *
99591 TTTCCAAAAATTACATTATTACCCTCGAAC
1 TTTCAAAAAATTACATT-TTACCC-CTAAC
**
99621 TTT-TTAAAATTACATTTT
1 TTTCAAAAAATTACATTTT
99639 TGACCTCGAT
Statistics
Matches: 107, Mismatches: 19, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
28 21 0.20
29 38 0.36
30 41 0.38
31 7 0.07
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.40
Consensus pattern (28 bp):
TTTCAAAAAATTACATTTTACCCCTAAC
Found at i:99511 original size:29 final size:28
Alignment explanation
Indices: 99480--99742 Score: 144
Period size: 29 Copynumber: 9.1 Consensus size: 28
99470 AACTTTTCAA
*
99480 AAAATTACATTTTACCCCTAAACTTTCC
1 AAAATTACATTTTACCCCTGAACTTTCC
* *
99508 AAAATTTCATTTTTAACCTCT-AACTTTCC
1 AAAATTACA-TTTT-ACCCCTGAACTTTCC
*
99537 GAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATTA-CATTTTACCCCTGAACTTTCC
* * **
99567 AAAATTCCATTTTA-ACCTCGATTTTTTCC
1 AAAATTACATTTTACCCCT-GA-ACTTTCC
**
99596 AAAAATTACATTATTA-CCCTCGAACTTTTT
1 -AAAATTACATT-TTACCCCT-GAACTTTCC
* **
99626 AAAATTACATTTTTGACCTC-GATTTTTCC
1 AAAATTACA-TTTT-ACCCCTGAACTTTCC
* **
99655 AAAATTATCATATTACCCCCAAAC-TTCC
1 AAAATTA-CATTTTACCCCTGAACTTTCC
* * * * **
99683 AAAAATCCATTTTGA-CCTTTATTTTTCC
1 AAAATTACATTTT-ACCCCTGAACTTTCC
*
99711 AAAATTACTATTTTACCCCCGAAC-TTCC
1 AAAATTAC-ATTTTACCCCTGAACTTTCC
99739 AAAA
1 AAAA
99743 ATTCTATTTT
Statistics
Matches: 176, Mismatches: 41, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
27 10 0.06
28 50 0.28
29 62 0.35
30 41 0.23
31 13 0.07
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (28 bp):
AAAATTACATTTTACCCCTGAACTTTCC
Found at i:99585 original size:58 final size:58
Alignment explanation
Indices: 99458--99842 Score: 300
Period size: 59 Copynumber: 6.6 Consensus size: 58
99448 AGAAATCATG
* ** *
99458 TTTTAACCCTCGAACTTTTCAAAAAATTA-CATTTTACCCCTAAACTTTCCAAAATTTCAT
1 TTTTAA-CCTCGAA-TTTTC-CAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCAT
* *
99518 TTTTAACCTCTAACTTTCCGAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCA-
1 TTTTAACCTCGAATTTTCC-AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCAT
* * ** *
99576 TTTTAACCTCGATTTTTTCCAAAAATTA-CATTATTACCCTCGAACTTTTTAAAATTACAT
1 TTTTAACCTCGA-ATTTTCC-AAAATTACCATT-TTACCCCCGAACTTTCCAAAATTCCAT
* * * * * *
99636 TTTTGACCTCGATTTTTCCAAAATTATCATATTACCCCCAAAC-TTCCAAAAATCCA-
1 TTTTAACCTCGAATTTTCCAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCAT
* ** * * *
99692 TTTTGACCTTTATTTTTCCAAAATTACTATTTTACCCCCGAAC-TTCCAAAAATTCTAT
1 TTTTAACCTCGAATTTTCCAAAATTACCATTTTACCCCCGAACTTTCC-AAAATTCCAT
* * ** * * * *
99750 TTTTGA-CTCCAATTTTTTTAAAAGAATTACCATTTTACCCTCGAA-TGTCTAAAATTCCGT
1 TTTTAACCTCGAA---TTTTCCAA-AATTACCATTTTACCCCCGAACTTTCCAAAATTCCAT
* * *
99810 TTTTAACCCCAAACTTTCCAAAATTACCATTTT
1 TTTTAACCTCGAATTTTCCAAAATTACCATTTT
99843 GCCCTTGTAT
Statistics
Matches: 264, Mismatches: 47, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
56 41 0.16
57 31 0.12
58 54 0.20
59 77 0.29
60 36 0.14
61 25 0.09
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (58 bp):
TTTTAACCTCGAATTTTCCAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCAT
Found at i:99842 original size:29 final size:29
Alignment explanation
Indices: 99480--99842 Score: 124
Period size: 29 Copynumber: 12.5 Consensus size: 29
99470 AACTTTTCAA
99480 AAAATTA-CATTTT-ACCCCTAAACTTTCC
1 AAAATTACCATTTTAACCCC-AAACTTTCC
* * *
99508 AAAATT-TCATTTTTAACCTCTAACTTTCC
1 AAAATTACCA-TTTTAACCCCAAACTTTCC
* *
99537 GAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATTACCATTTTAACCCCAAACTTTCC
* ***
99567 AAAATT-CCATTTTAACCTCGATTTTTTCC
1 AAAATTACCATTTTAACC-CCAAACTTTCC
* **
99596 AAAAATTA-CATTATT-ACCCTCGAACTTTTT
1 -AAAATTACCATT-TTAACCC-CAAACTTTCC
* * * **
99626 AAAATTA-CATTTTTGACCTCGATTTTTCC
1 AAAATTACCA-TTTTAACCCCAAACTTTCC
* * *
99655 AAAATTATCATATTACCCCCAAAC-TTCC
1 AAAATTACCATTTTAACCCCAAACTTTCC
* * *** **
99683 AAAAAT-CCATTTTGACCTTTATTTTTCC
1 AAAATTACCATTTTAACCCCAAACTTTCC
* * *
99711 AAAATTACTATTTTACCCCCGAAC-TTCC
1 AAAATTACCATTTTAACCCCAAACTTTCC
* * * ** **
99739 AAAAATT-CTATTTTTGACTCCAATTTTTTTAA
1 -AAAATTACCA-TTTTAACCCCAA--ACTTTCC
* * *
99771 AAGAATTACCATTTT-ACCCTCGAA-TGTCT
1 AA-AATTACCATTTTAACCC-CAAACTTTCC
*
99800 AAAATT-CCGTTTTTAACCCCAAACTTTCC
1 AAAATTACC-ATTTTAACCCCAAACTTTCC
99829 AAAATTACCATTTT
1 AAAATTACCATTTT
99843 GCCCTTGTAT
Statistics
Matches: 238, Mismatches: 70, Indels: 53
0.66 0.19 0.15
Matches are distributed among these distances:
27 10 0.04
28 54 0.23
29 100 0.42
30 51 0.21
31 9 0.04
32 12 0.05
33 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.39
Consensus pattern (29 bp):
AAAATTACCATTTTAACCCCAAACTTTCC
Found at i:100890 original size:92 final size:92
Alignment explanation
Indices: 100794--100976 Score: 294
Period size: 92 Copynumber: 2.0 Consensus size: 92
100784 TTCTCCATTC
*
100794 TTGAGATCAATCACTCATAATATTGTAGCTCAAAAAATTTTAAGTTGCTAACAATATCGTTTTTA
1 TTGAGATCAATCACTCATAATATTGTAGCTCAAAAAATTTTAACTTGCTAACAATATCGTTTTTA
100859 AATTCAAATTGTTGAAATTTTATGATT
66 AATTCAAATTGTTGAAATTTTATGATT
** * *
100886 TTGAGATCAATCACTCATAATATTGTAGCTCAAAATTTTTTACCTTGCTAACAATATCGTTTTTG
1 TTGAGATCAATCACTCATAATATTGTAGCTCAAAAAATTTTAACTTGCTAACAATATCGTTTTTA
** *
100951 AATTTGAATTGTTGACATTTTATGAT
66 AATTCAAATTGTTGAAATTTTATGAT
100977 AAAATCAGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (92 bp):
TTGAGATCAATCACTCATAATATTGTAGCTCAAAAAATTTTAACTTGCTAACAATATCGTTTTTA
AATTCAAATTGTTGAAATTTTATGATT
Found at i:101369 original size:2 final size:2
Alignment explanation
Indices: 101362--101402 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
101352 TTAAAATTTA
101362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101403 AGAAAGTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:101464 original size:19 final size:19
Alignment explanation
Indices: 101440--101488 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
101430 TAAAAACCAT
101440 AAATATATAAAATCCAAGA
1 AAATATATAAAATCCAAGA
*
101459 AAATAT-TAAAA-CCTAGA
1 AAATATATAAAATCCAAGA
* *
101476 AATTATAAAAAAT
1 AAATATATAAAAT
101489 AAAAAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 10 0.40
18 9 0.36
19 6 0.24
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.24
Consensus pattern (19 bp):
AAATATATAAAATCCAAGA
Done.