Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 128 of 199
Found at i:38759803 original size:25 final size:25
Alignment explanation
Indices: 38759769--38759829 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
38759759 ACAGATGTGC
* *
38759769 TAATCGGAGAGCACTAACATGCTAA
1 TAATCAGAGAGCACTAACATCCTAA
* **
38759794 TAATCAGAGAGCACTGATGTCCTAA
1 TAATCAGAGAGCACTAACATCCTAA
38759819 TAATCAGAGAG
1 TAATCAGAGAG
38759830 TCCGCTAAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACATCCTAA
Found at i:38765877 original size:41 final size:41
Alignment explanation
Indices: 38765820--38765977 Score: 183
Period size: 41 Copynumber: 3.9 Consensus size: 41
38765810 AATAAGATGG
* * *
38765820 TTCAGACTTTACGTCTAGGAGGCTTGATGCCGATGAAATGT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATGT
* **
38765861 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATGT
*
38765902 TTCAGACTTTATGTTTAGCAGGCTTTG-TGCCGGTGAAATGT
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAAATGT
* * * * * *
38765943 ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
38765978 TTTTATACAA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
40 2 0.02
41 93 0.95
42 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATGT
Found at i:38765961 original size:82 final size:82
Alignment explanation
Indices: 38765820--38765977 Score: 210
Period size: 82 Copynumber: 1.9 Consensus size: 82
38765810 AATAAGATGG
* * *
38765820 TTCAGACTTTACGTCTAGGAGGCTTGATGCCGATGAAATGTTTCAGACTTTATGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGGCT
38765885 TGATGCCGGTGAATTAC
66 TGATGCCGGTGAATTAC
* * * * * *
38765902 TTCAGACTTTATGTTTAGCAGGCTTTG-TGCCGGTGAAATGTATCGGGCTTTGTGCCTAGCAGGC
1 TTCAGACTTTACGTCTAGCAGGC-TTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGGC
*
38765966 TTTATGCCGGTG
65 TTGATGCCGGTG
38765978 TTTTATACAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
82 62 0.95
83 3 0.05
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (82 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGGCT
TGATGCCGGTGAATTAC
Found at i:38766998 original size:24 final size:24
Alignment explanation
Indices: 38766971--38767022 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
38766961 TCTTCAAAAC
38766971 CCCACTTTCAGCTGTTTATTTGTA
1 CCCACTTTCAGCTGTTTATTTGTA
38766995 CCCACTTTCAGCTGTTTATTTGTA
1 CCCACTTTCAGCTGTTTATTTGTA
38767019 CCCA
1 CCCA
38767023 TTTGAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.42
Consensus pattern (24 bp):
CCCACTTTCAGCTGTTTATTTGTA
Found at i:38768930 original size:101 final size:98
Alignment explanation
Indices: 38768812--38769006 Score: 327
Period size: 100 Copynumber: 2.0 Consensus size: 98
38768802 CGAATCGATT
*
38768812 TTTTTTTTCAACCTTTTTTTGAATTTAGGTTTTTTTTTGCTCCGGCCCTTTTAAATTTGAATTTT
1 TTTTTTTTCAACCTTTTTTTGAATTTAGG-TTTTTTTTGCTCCGACCCTTTTAAATTTG-ATTTT
38768877 TTTTTTAAATTTAGACTTAGACCAAGTCAGACTCGA
64 TTTTTT-AATTTAGACTTAGACCAAGTCAGACTCGA
* *
38768913 TTTTTTTTCAACTTTTTTTTTAATTTAGGTTTTTTTTGCTCCGACCCTTTTAAATTTGATTTTTT
1 TTTTTTTTCAACCTTTTTTTGAATTTAGGTTTTTTTTGCTCCGACCCTTTTAAATTTGATTTTTT
*
38768978 TTTTAATTTAGACTTAGACTAAGTCAGAC
66 TTTTAATTTAGACTTAGACCAAGTCAGAC
38769007 GAGTTCTCTT
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
98 24 0.27
99 11 0.12
100 28 0.31
101 27 0.30
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.54
Consensus pattern (98 bp):
TTTTTTTTCAACCTTTTTTTGAATTTAGGTTTTTTTTGCTCCGACCCTTTTAAATTTGATTTTTT
TTTTAATTTAGACTTAGACCAAGTCAGACTCGA
Found at i:38769898 original size:20 final size:19
Alignment explanation
Indices: 38769867--38769915 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
38769857 TAAATAAATC
38769867 ATAAAAATATTACAAA-TTT
1 ATAAAAATATTA-AAAGTTT
38769886 ATAAAAGATATTAAAAGTTT
1 ATAAAA-ATATTAAAAGTTT
38769906 ATAAAAATAT
1 ATAAAAATAT
38769916 ATTAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAAAAATATTAAAAGTTT
Found at i:38774592 original size:21 final size:22
Alignment explanation
Indices: 38774553--38774593 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38774543 TATTTTATGT
*
38774553 TTTAATTATTATAACAATATAA
1 TTTAATGATTATAACAATATAA
*
38774575 TTTAATGA-TATAATAATAT
1 TTTAATGATTATAACAATAT
38774594 TTACTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTAATGATTATAACAATATAA
Found at i:38776942 original size:27 final size:25
Alignment explanation
Indices: 38776912--38776962 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
38776902 GACTTATAAA
38776912 TAAATACTAATAAATTCATAACATGAT
1 TAAATACTAATAAATT-ATAA-ATGAT
* *
38776939 TAAATATTAATTAATTATAAATGA
1 TAAATACTAATAAATTATAAATGA
38776963 ATGTTACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 14 0.64
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (25 bp):
TAAATACTAATAAATTATAAATGAT
Found at i:38788403 original size:18 final size:19
Alignment explanation
Indices: 38788382--38788423 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
38788372 ACCATTATTA
*
38788382 TTATTATCATTA-TTGCTT
1 TTATTATCATTATTTGCCT
* *
38788400 TTATTTTTATTATTTGCCT
1 TTATTATCATTATTTGCCT
38788419 TTATT
1 TTATT
38788424 GTTTACTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTATCATTATTTGCCT
Found at i:38788421 original size:19 final size:19
Alignment explanation
Indices: 38788390--38788428 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38788380 TATTATTATC
*
38788390 ATTATTGCTTTTATT-TTT
1 ATTATTGCCTTTATTGTTT
38788408 ATTATTTGCCTTTATTGTTT
1 ATTA-TTGCCTTTATTGTTT
38788428 A
1 A
38788429 CTCATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (19 bp):
ATTATTGCCTTTATTGTTT
Found at i:38788702 original size:2 final size:2
Alignment explanation
Indices: 38788697--38788739 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
38788687 GCTGCATGTC
38788697 TA TA TA TA 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 TA TA TA TA
38788739 T
1 T
38788740 TTTTTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38788795 original size:15 final size:17
Alignment explanation
Indices: 38788762--38788799 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
38788752 TTTTCATAAA
38788762 TATATACTTATATACTT
1 TATATACTTATATACTT
*
38788779 TATAT-CTTATTTA-TT
1 TATATACTTATATACTT
38788794 TATATA
1 TATATA
38788800 TCCTTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATACTTATATACTT
Found at i:38795963 original size:7 final size:7
Alignment explanation
Indices: 38795953--38795986 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
38795943 TTGGTAATTG
38795953 GTTGATA
1 GTTGATA
38795960 GTTGATA
1 GTTGATA
38795967 GTTGATA
1 GTTGATA
38795974 GTTGATA
1 GTTGATA
38795981 GTTGAT
1 GTTGAT
38795987 TATGGTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.44
Consensus pattern (7 bp):
GTTGATA
Found at i:38798604 original size:10 final size:10
Alignment explanation
Indices: 38798589--38798622 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
38798579 TGGCATATCA
38798589 TATTGTCCCC
1 TATTGTCCCC
38798599 TATTGTCCCC
1 TATTGTCCCC
*
38798609 TATTCTCCCC
1 TATTGTCCCC
38798619 -ATTG
1 TATTG
38798623 GTAACCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 3 0.14
10 19 0.86
ACGTcount: A:0.12, C:0.38, G:0.09, T:0.41
Consensus pattern (10 bp):
TATTGTCCCC
Found at i:38808311 original size:17 final size:18
Alignment explanation
Indices: 38808286--38808321 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
38808276 TAATTTTGGC
*
38808286 TATTTATTTTAAAT-TAA
1 TATTAATTTTAAATATAA
38808303 TATTAATTTTAAATATAA
1 TATTAATTTTAAATATAA
38808321 T
1 T
38808322 TTTATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTAATTTTAAATATAA
Found at i:38808340 original size:10 final size:10
Alignment explanation
Indices: 38808306--38808375 Score: 52
Period size: 10 Copynumber: 6.8 Consensus size: 10
38808296 AAATTAATAT
*
38808306 TAATTTTAAA
1 TAATTTTTAA
* *
38808316 TATAATTTTAT
1 TA-ATTTTTAA
38808327 TAATTTTTAA
1 TAATTTTTAA
*
38808337 TAATTTCGT-A
1 TAATTT-TTAA
*
38808347 TAATTCTTAA
1 TAATTTTTAA
*
38808357 TAATTTATAAA
1 TAATTT-TTAA
38808368 TAATTTTT
1 TAATTTTT
38808376 TGTATTTTAA
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
9 1 0.02
10 27 0.60
11 17 0.38
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:38810055 original size:12 final size:13
Alignment explanation
Indices: 38810025--38810055 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
38810015 AGAATTTTTC
38810025 TTTCTTCTCCCTA
1 TTTCTTCTCCCTA
38810038 TTTCTTCTCCCT-
1 TTTCTTCTCCCTA
38810050 TTTCTT
1 TTTCTT
38810056 TTTTATCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTCTTCTCCCTA
Found at i:38812362 original size:35 final size:34
Alignment explanation
Indices: 38812250--38812407 Score: 147
Period size: 34 Copynumber: 4.6 Consensus size: 34
38812240 ATTTACTGCT
* * * *
38812250 GTATTGATCTATTATAAGGATATTAATTGCTACG
1 GTATTGATCTGTTATAAGCATATTAATTACTACC
* * * * * *
38812284 GTGTTTATTTGTTATAATCACATTAATTGCGT-CC
1 GTATTGATCTGTTATAAGCATATTAATTAC-TACC
* *
38812318 GTATTGATCTGTTATAAGCATTTTGAATTACTATC
1 GTATTGATCTGTTATAAGCATATT-AATTACTACC
* * **
38812353 GTATCGATCTGTTATATGCATATTAATTGGTACC
1 GTATTGATCTGTTATAAGCATATTAATTACTACC
38812387 GTATTGATCTGTTATAAGCAT
1 GTATTGATCTGTTATAAGCAT
38812408 GTCAAATTGC
Statistics
Matches: 97, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
34 69 0.71
35 28 0.29
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (34 bp):
GTATTGATCTGTTATAAGCATATTAATTACTACC
Found at i:38817731 original size:25 final size:25
Alignment explanation
Indices: 38817697--38817789 Score: 93
Period size: 25 Copynumber: 3.7 Consensus size: 25
38817687 GCCATAGTGC
*
38817697 GCTTAAGTGTGATTGGCACTTCAGG
1 GCTTAAGTGTGATTGGCACTTCAGT
* *
38817722 GCTTAAGTGTGATCT-ACACTTCAAT
1 GCTTAAGTGTGAT-TGGCACTTCAGT
* *
38817747 GCATAAGTGTGATTAGCAC-TCAGT
1 GCTTAAGTGTGATTGGCACTTCAGT
38817771 GCTCT-AGTGTGATTCGGCA
1 GCT-TAAGTGTGATT-GGCA
38817790 TATTCTTGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
24 16 0.29
25 39 0.70
26 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (25 bp):
GCTTAAGTGTGATTGGCACTTCAGT
Found at i:38819531 original size:60 final size:60
Alignment explanation
Indices: 38819433--38819564 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 60
38819423 ATACATTTTT
* * * * *
38819433 GTACTTAAACTTCGCTTCAAGGTTCAAATTGGTACCTAAGGTTTTTTTTTATCCAATTAG
1 GTACTTGAACTTCGCTTCAAGGTTCAAATTAGTACCTAAAGTTTATTTTGATCCAATTAG
* * * *
38819493 GTACTTGAACTTGGCTTTAAGGTTC-AATCTAGTGCCTAAAGTTTATTTTGGTCCAATTAG
1 GTACTTGAACTTCGCTTCAAGGTTCAAAT-TAGTACCTAAAGTTTATTTTGATCCAATTAG
38819553 GTACTTGAACTT
1 GTACTTGAACTT
38819565 AGTTTCTTAG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 3 0.05
60 59 0.95
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (60 bp):
GTACTTGAACTTCGCTTCAAGGTTCAAATTAGTACCTAAAGTTTATTTTGATCCAATTAG
Found at i:38837661 original size:13 final size:13
Alignment explanation
Indices: 38837645--38837669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38837635 AAAATTAATA
38837645 AACCCAATTACCC
1 AACCCAATTACCC
38837658 AACCCAATTACC
1 AACCCAATTACC
38837670 ATTTACCAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:38837680 original size:19 final size:19
Alignment explanation
Indices: 38837656--38837728 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 19
38837646 ACCCAATTAC
38837656 CCAACCCAATTACCATTTA
1 CCAACCCAATTACCATTTA
* * *
38837675 CCAACCCAATAAACTAAAGTCTA
1 CCAACCCAAT-TAC--CA-TTTA
38837698 CCCAAACCCAATTACCATTTA
1 -CC-AACCCAATTACCATTTA
38837719 CCAACCCAAT
1 CCAACCCAAT
38837729 AAAACAAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
19 18 0.43
20 4 0.10
21 3 0.07
22 2 0.05
23 3 0.07
24 4 0.10
25 8 0.19
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (19 bp):
CCAACCCAATTACCATTTA
Found at i:38839344 original size:115 final size:114
Alignment explanation
Indices: 38839124--38839351 Score: 257
Period size: 115 Copynumber: 2.0 Consensus size: 114
38839114 GTTTTGAACT
* * *
38839124 ACTCATAACCCCTTCTAACCTATAAATAGGAGGATAATACGTTTCAGCGTACTCAAACCTACTTC
1 ACTCATAACCCCTTCCAACCTATAAATAGGAGGATAATACGCTTCAACGTACTCAAACCTACTTC
* * * *
38839189 CTCTTGTATTGACAACAATATCAGTCCCAATTGAGATAAAATTCAATCA
66 CTCCTGCATTGACAACAATATCAGTACCAATTGAGATAAAACTCAATCA
* * * *
38839238 ACTCATAAACCTCTTCCAACCTATAAATAGTAGGATAATGCGCTTCAAC-TCACTCAAA-ATCAC
1 ACTCAT-AACCCCTTCCAACCTATAAATAGGAGGATAATACGCTTCAACGT-ACTCAAACCT-AC
* * *
38839301 TTCCTCCTGCATTGAGAGCAATGTCCA-TACCAATTGA-ATTAAAACTCAATC
63 TTCCTCCTGCATTGACAACAATAT-CAGTACCAATTGAGA-TAAAACTCAATC
38839352 GACTATTGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
114 9 0.09
115 84 0.88
116 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (114 bp):
ACTCATAACCCCTTCCAACCTATAAATAGGAGGATAATACGCTTCAACGTACTCAAACCTACTTC
CTCCTGCATTGACAACAATATCAGTACCAATTGAGATAAAACTCAATCA
Found at i:38839537 original size:9 final size:9
Alignment explanation
Indices: 38839508--38839544 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
38839498 TGAGTTTTCG
38839508 AATTCGAAT
1 AATTCGAAT
*
38839517 AACTCGAAT
1 AATTCGAAT
38839526 AATTCGAAT
1 AATTCGAAT
*
38839535 AATTTGAAT
1 AATTCGAAT
38839544 A
1 A
38839545 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:38840537 original size:5 final size:5
Alignment explanation
Indices: 38840527--38840553 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38840517 AATTTTTTTT
38840527 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
38840554 CGAACGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:38844861 original size:18 final size:17
Alignment explanation
Indices: 38844833--38844867 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38844823 ATTTTTAAGA
*
38844833 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38844850 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38844868 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38845137 original size:16 final size:16
Alignment explanation
Indices: 38845118--38845153 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
38845108 GCTTTTCTAT
38845118 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38845134 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38845150 TACA
1 TACA
38845154 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:38847120 original size:2 final size:2
Alignment explanation
Indices: 38847113--38847152 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
38847103 NNNNNNNNNT
38847113 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
38847153 ACATATCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:38850692 original size:9 final size:9
Alignment explanation
Indices: 38850678--38850705 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
38850668 TGAGTTTTCG
38850678 AATTCGAAT
1 AATTCGAAT
38850687 AATTCGAAT
1 AATTCGAAT
38850696 AATTCGAAT
1 AATTCGAAT
38850705 A
1 A
38850706 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:38852074 original size:13 final size:12
Alignment explanation
Indices: 38852056--38852110 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
38852046 GTGACTACTG
38852056 TTTTTATTTTTAA
1 TTTTTATTTTT-A
38852069 TTTTTATTTGTTA
1 TTTTTATTT-TTA
38852082 TTTTGT-TTTTTA
1 TTTT-TATTTTTA
*
38852094 -TTTTA-CTTTA
1 TTTTTATTTTTA
38852104 TTTTTAT
1 TTTTTAT
38852111 CTAGGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
10 5 0.14
11 8 0.22
12 3 0.08
13 17 0.47
14 3 0.08
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:38852082 original size:7 final size:6
Alignment explanation
Indices: 38852056--38852110 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
38852046 GTGACTACTG
*
38852056 TTTTTA TTTTTAA TTTTTA TTTGTTA TTTTGT- TTTTTA -TTTTA -CTTTA
1 TTTTTA TTTTT-A TTTTTA TTT-TTA TTTT-TA TTTTTA TTTTTA TTTTTA
38852104 TTTTTA T
1 TTTTTA T
38852111 CTAGGAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
5 10 0.24
6 19 0.45
7 13 0.31
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:38857348 original size:12 final size:12
Alignment explanation
Indices: 38857326--38857372 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
38857316 TTCACTTGAA
38857326 AAAAAATGAAAAG
1 AAAAAA-GAAAAG
38857339 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
38857351 AAAAGAAG-AATG
1 AAAA-AAGAAAAG
38857363 -AAAAAGAAAA
1 AAAAAAGAAAA
38857373 AGGAGAGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 3 0.10
11 5 0.17
12 13 0.43
13 9 0.30
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:38857353 original size:17 final size:17
Alignment explanation
Indices: 38857324--38857372 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
38857314 ACTTCACTTG
*
38857324 AAAAA-AAATGAAAAGA
1 AAAAAGAAAAGAAAAGA
38857340 AAAAAGAAAAGAAAAGA
1 AAAAAGAAAAGAAAAGA
* *
38857357 AGAATGAAAAAGAAAA
1 AAAAAG-AAAAGAAAA
38857373 AGGAGAGGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 5 0.18
17 14 0.50
18 9 0.32
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAGA
Found at i:38858526 original size:89 final size:89
Alignment explanation
Indices: 38858302--38858660 Score: 337
Period size: 89 Copynumber: 4.0 Consensus size: 89
38858292 CTAAAATTGT
* * * * * *
38858302 AGCGGAGTAGACTAAAAATAGCAGATTTTGTCTTCCTGTACTGGCAGCAAAGCATATCGAATACA
1 AGCGGAGTAGACTGAAGATAGCAGATTTTGTCTTCCTGTACTGACAACAAAGCAAATCGAAGACA
*
38858367 CCAGTC-TGCCTTCCTGTACTGAC
66 CCAGCCTTGCCTTCCTGTACTGAC
* * * * * * *
38858390 AGCAGAGCAGACTGAAGATAACAGATTTTGCCTTCCTATAGTGACAACAAAGTAAATCGAAGACA
1 AGCGGAGTAGACTGAAGATAGCAGATTTTGTCTTCCTGTACTGACAACAAAGCAAATCGAAGACA
38858455 CCAGCCTTGCCTTCCTGTACTGAC
66 CCAGCCTTGCCTTCCTGTACTGAC
* * * * * *
38858479 AGCGGAGTAGACTGAAGATAGGAGATCTTGTCTTCTTGTACTAACAACGAAGCAGATCGAAGACA
1 AGCGGAGTAGACTGAAGATAGCAGATTTTGTCTTCCTGTACTGACAACAAAGCAAATCGAAGACA
* *
38858544 CCAGCCTTACCTTCCTATACTGAC
66 CCAGCCTTGCCTTCCTGTACTGAC
* * * * * * * **** * * *
38858568 AGTGAAGCAGA-TCAAAGACACCA-ATTTTGCCTTCCTGTACTGACAGTGGAGCAGATTGAAGAT
1 AGCGGAGTAGACT-GAAGATAGCAGATTTTGTCTTCCTGTACTGACAACAAAGCAAATCGAAGAC
* *
38858631 AGCAGATCTTGCCTTCCTGTACTGAC
65 ACCAG-CCTTGCCTTCCTGTACTGAC
38858657 AGCG
1 AGCG
38858661 AAGCAGATCG
Statistics
Matches: 218, Mismatches: 50, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
88 93 0.43
89 125 0.57
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (89 bp):
AGCGGAGTAGACTGAAGATAGCAGATTTTGTCTTCCTGTACTGACAACAAAGCAAATCGAAGACA
CCAGCCTTGCCTTCCTGTACTGAC
Found at i:38858759 original size:222 final size:223
Alignment explanation
Indices: 38858333--38859290 Score: 970
Period size: 222 Copynumber: 4.3 Consensus size: 223
38858323 CAGATTTTGT
* * * * * *
38858333 CTTCCTGTACTGGCAGCAAAGCATA-TCGAATACACCAG-TC-TGCCTTCCTGTACTGACAGCAG
1 CTTCCTGTACTGACAGCGAAGCAGACT-AAAGACACCAGATCTTGCCTTCCTGTACTGACAGCGG
* * * * * * * * *
38858395 AGCAGACTGAAGATAACAGATTTTGCCTTCCTATAGTGACAACAAAGTAAATCGAAGACACCAGC
65 AGCAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
* * *
38858460 CTTGCCTTCCTGTACTGACAGCGGAGTAGACTGAAGATAGGAGATCTTGTCTTCTTGTACTAACA
130 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTACTAACA
*
38858525 ACGAAGCAGATCGAAGACACCAGCCTTAC
195 GCGAAGCAGATCGAAGACACCAGCCTTAC
* * * *
38858554 CTTCCTATACTGACAGTGAAGCAGA-TCAAAGACACCA-ATTTTGCCTTCCTGTACTGACAGTGG
1 CTTCCTGTACTGACAGCGAAGCAGACT-AAAGACACCAGATCTTGCCTTCCTGTACTGACAGCGG
38858617 AGCAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
65 AGCAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
* * * * *
38858682 CTTACCTTCCTATACTGATAGCGGAGCAGACTGAAGATAGCAGATCTTCCCTTCTTGTACTGACA
130 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTACTAACA
*
38858747 GCGAAGCAGATCGAAGACACCAACCTTGA-
195 GCGAAGCAGATCGAAGACACCAGCCTT-AC
* * * * * * * *
38858776 CTTCATGTACTGACAGCGGAGCAGACTGAAGATAGCAGATTTTACCTTCTTGTACTGACAGC-GA
1 CTTCCTGTACTGACAGCGAAGCAGACTAAAGACACCAGATCTTGCCTTCCTGTACTGACAGCGGA
* * * * * * * * * * **
38858840 GTAGATCGAAGACACCAG-CCTTGCTTTCCTGTACTGACAGCGGAGCAGATTGAAGATAGCAAAT
66 GCAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA-CCAGC
* * * * * * * *
38858904 CTTGCATTCCTGTACTAACAGCGAAGCAGA-TCGAAGACACCAG-CCTTACCTTCCTGTACTAAC
130 CTTGCCTTCCTGTACTGACAGCGGAGCAGACT-GAAGATAGCAGATCTTGCCTTCTTGTACTAAC
* * * ** *
38858967 AGTGGAGCAGA-CTGAAGATAGTAGATCTTAC
194 AGCGAAGCAGATC-GAAGACACCAG-CCTTAC
* * * * *
38858998 CTTCCTGTACTGACAGCGAAGCAGATTGAAGACACCAG-CCTTGCCTTCCTATACTGACAGCGCA
1 CTTCCTGTACTGACAGCGAAGCAGACTAAAGACACCAGATCTTGCCTTCCTGTACTGACAGCGGA
* *
38859062 GAAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCC
66 GCAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCC
* * * *
38859127 TTGCCTTCATGTACTGACAGCGGAGAAGACTGAAGATAGCATATCTTGCCTT-TCTGTACTGACA
131 TTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCT-TGTACTAACA
* * * *
38859191 GTGAAGCAGATAGAAGACACTAGCCTTGC
195 GCGAAGCAGATCGAAGACACCAGCCTTAC
* * * * * * * * *
38859220 CTTCCTGTATTGACAGCGGAGTAGACTAAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAA
1 CTTCCTGTACTGACAGCGAAGCAGACTAAAGACACCAGATCTTGCCTTCCTGTACTGACAGCGGA
38859285 GCAGAT
66 GCAGAT
38859291 CGGAAGCACT
Statistics
Matches: 593, Mismatches: 127, Indels: 32
0.79 0.17 0.04
Matches are distributed among these distances:
220 1 0.00
221 118 0.20
222 357 0.60
223 117 0.20
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (223 bp):
CTTCCTGTACTGACAGCGAAGCAGACTAAAGACACCAGATCTTGCCTTCCTGTACTGACAGCGGA
GCAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCC
TTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTACTAACAG
CGAAGCAGATCGAAGACACCAGCCTTAC
Found at i:38859137 original size:355 final size:356
Alignment explanation
Indices: 38858554--38859292 Score: 1115
Period size: 355 Copynumber: 2.1 Consensus size: 356
38858544 CCAGCCTTAC
* * ** * *
38858554 CTTCCTATACTGACAGTGAAGCAGATCAAAGACACCAATTTTGCCTTCCTGTACTGACAGTGGAG
1 CTTCCTGTACTGACAGTGAAGCAGATCGAAGACACCAACCTTACCTTCCTGTACTAACAGTGGAG
* *
38858619 CAGATTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCT
66 CAGACTGAAGATAGCAGATCTTACCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCT
* * * *
38858684 TACCTTCCTATACTGATAGCGGAGCAGACTGAAGATAGCAGATCTTCCCTTCTTGTACTGACAGC
131 TACCTTCCTATACTGACAGCGCAGAAGACTGAAGATAGCAGATCTTCCCTTCCTGTACTGACAGC
*
38858749 GAAGCAGATCGAAGACACCAACCTTGACTTCATGTACTGACAGCGGAGCAGACTGAAGATAGCAG
196 GAAGCAGATCGAAGACACCAACCTTGACTTCATGTACTGACAGCGGAGAAGACTGAAGATAGCAG
* * * *
38858814 ATTTTACC-TTCTTGTACTGACAGCG-AGTAGATCGAAGACACCAGCCTTGCTTTCCTGTACTGA
261 ATCTTACCTTTC-TGTACTGACAGCGAAGCAGATAGAAGACACCAGCCTTGCCTTCCTGTACTGA
* *
38858877 CAGCGGAGCAGATTGAAGATAGCAAATCTTG-
325 CAGCGGAGCAGACTAAAGATAGCAAATCTTGT
* * *
38858908 CATTCCTGTACTAACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTAACAGTGGA
1 C-TTCCTGTACTGACAGTGAAGCAGATCGAAGACACCAACCTTACCTTCCTGTACTAACAGTGGA
* *
38858973 GCAGACTGAAGATAGTAGATCTTACCTTCCTGTACTGACAGCGAAGCAGATTGAAGACACCAGCC
65 GCAGACTGAAGATAGCAGATCTTACCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCC
* *
38859038 TTGCCTTCCTATACTGACAGCGCAGAAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAG
130 TTACCTTCCTATACTGACAGCGCAGAAGACTGAAGATAGCAGATCTTCCCTTCCTGTACTGACAG
* *
38859103 CGAAGCAGATCGAAGACACCAGCCTTGCCTTCATGTACTGACAGCGGAGAAGACTGAAGATAGCA
195 CGAAGCAGATCGAAGACACCAACCTTGACTTCATGTACTGACAGCGGAGAAGACTGAAGATAGCA
* * * * *
38859168 TATCTTGCCTTTCTGTACTGACAGTGAAGCAGATAGAAGACACTAGCCTTGCCTTCCTGTATTGA
260 GATCTTACCTTTCTGTACTGACAGCGAAGCAGATAGAAGACACCAGCCTTGCCTTCCTGTACTGA
* *
38859233 CAGCGGAGTAGACTAAAGATAGCAGATCTTGT
325 CAGCGGAGCAGACTAAAGATAGCAAATCTTGT
*
38859265 CTTCCTGTACTGGCAGTGAAGCAGATCG
1 CTTCCTGTACTGACAGTGAAGCAGATCG
38859293 GAAGCACTAG
Statistics
Matches: 343, Mismatches: 38, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
354 1 0.00
355 254 0.74
356 87 0.25
357 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (356 bp):
CTTCCTGTACTGACAGTGAAGCAGATCGAAGACACCAACCTTACCTTCCTGTACTAACAGTGGAG
CAGACTGAAGATAGCAGATCTTACCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCT
TACCTTCCTATACTGACAGCGCAGAAGACTGAAGATAGCAGATCTTCCCTTCCTGTACTGACAGC
GAAGCAGATCGAAGACACCAACCTTGACTTCATGTACTGACAGCGGAGAAGACTGAAGATAGCAG
ATCTTACCTTTCTGTACTGACAGCGAAGCAGATAGAAGACACCAGCCTTGCCTTCCTGTACTGAC
AGCGGAGCAGACTAAAGATAGCAAATCTTGT
Found at i:38859236 original size:133 final size:132
Alignment explanation
Indices: 38858373--38859237 Score: 835
Period size: 133 Copynumber: 6.5 Consensus size: 132
38858363 TACACCAGTC
* * ** * * *
38858373 TGCCTTCCTGTACTGACAGC-AGAGCAGA-CTGAAGATAACAGATTTTGCCTTCCTATAGTGACA
1 TGCCTTCCTGTACTGACAGCGA-AGCAGATC-GAAGACACCAG-CCTTACCTTCCTGTACTGACA
* * * * * * *
38858436 ACAAAGTAAATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGTAGACTGAAGATAGG
63 GCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGATAGC
38858501 AGATCT
128 A-ATCT
* * * * * *
38858507 TGTCTTCTTGTACTAACAACGAAGCAGATCGAAGACACCAGCCTTACCTTCCTATACTGACAGTG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTGACAGCG
* *** *
38858572 AAGCAGATCAAAGACACCAATTTTGCCTTCCTGTACTGACAGTGGAGCAGATTGAAGATAGCAGA
66 AAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGATAGCA-A
38858637 TCT
130 TCT
* *
38858640 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTATACTGATAGCG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTGACAGCG
* * * * * * * * * *
38858705 GAGCAGA-CTGAAGATAGCAGATCTTCCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCA
66 AAGCAGATC-GAAGACACCAG-CCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGATAGCA
*
38858769 ACCT
129 ATCT
* * * * * ** *
38858773 TGACTTCATGTACTGACAGCGGAGCAGA-CTGAAGATAGCAGATTTTACCTTCTTGTACTGACAG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-CCTTACCTTCCTGTACTGACAG
* *
38858837 CG-AGTAGATCGAAGACACCAGCCTTGCTTTCCTGTACTGACAGCGGAGCAGATTGAAGATAGCA
64 CGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGATAGC-
38858901 AATCT
128 AATCT
* * * *
38858906 TGCATTCCTGTACTAACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTAACAGTG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTGACAGCG
* * ** * * * * *
38858971 GAGCAGA-CTGAAGATAGTAGATCTTACCTTCCTGTACTGACAGCGAAGCAGATTGAAGACACCA
66 AAGCAGATC-GAAGACACCAG-CCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGATAGCA
**
38859035 GCCT
129 ATCT
* * * * * * *
38859039 TGCCTTCCTATACTGACAGCGCAGAAGA-CTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-CCTTACCTTCCTGTACTGACAG
* * *
38859103 CGAAGCAGATCGAAGACACCAGCCTTGCCTTCATGTACTGACAGCGGAGAAGACTGAAGATAGCA
64 CGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGATAGCA
38859168 TATCT
129 -ATCT
* * * * * *
38859173 TGCCTTTCTGTACTGACAGTGAAGCAGATAGAAGACACTAGCCTTGCCTTCCTGTATTGACAGCG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTGACAGCG
38859238 GAGTAGACTA
Statistics
Matches: 589, Mismatches: 125, Indels: 35
0.79 0.17 0.05
Matches are distributed among these distances:
132 57 0.10
133 339 0.58
134 190 0.32
135 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (132 bp):
TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTGACAGCG
AAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGATTGAAGATAGCAAT
CT
Found at i:38859303 original size:89 final size:89
Alignment explanation
Indices: 38858460--38859292 Score: 1053
Period size: 89 Copynumber: 9.4 Consensus size: 89
38858450 AGACACCAGC
* * * ** * * * *
38858460 CTTGCCTTCCTGTACTGACAGCGGAGTAGA-CTGAAGATAGGAGATCTTGTCTTCTTGTACTAAC
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-CCTTGCCTTCCTGTACTGAC
* * * * *
38858524 AACGAAGCAGA-TCGAAGACACCAG-C
64 AGCGGAGCAGACT-GAAGATAGCAGAT
* * * * ***
38858549 CTTACCTTCCTATACTGACAGTGAAGCAGATCAAAGACACCAATTTTGCCTTCCTGTACTGACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAG
* *
38858614 TGGAGCAGATTGAAGATAGCAGAT
66 CGGAGCAGACTGAAGATAGCAGAT
* * *
38858638 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTATACTGATAG
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAG
38858703 CGGAGCAGACTGAAGATAGCAGAT
66 CGGAGCAGACTGAAGATAGCAGAT
* * * * *
38858727 CTTCCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAACCTTGACTTCATGTACTGACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAG
38858792 CGGAGCAGACTGAAGATAGCAGAT
66 CGGAGCAGACTGAAGATAGCAGAT
* * * * *
38858816 TTTACCTTCTTGTACTGACAGCG-AGTAGATCGAAGACACCAGCCTTGCTTTCCTGTACTGACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAG
* *
38858880 CGGAGCAGATTGAAGATAGCAAAT
66 CGGAGCAGACTGAAGATAGCAGAT
* * * *
38858904 CTTGCATTCCTGTACTAACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTAACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAG
* *
38858969 TGGAGCAGACTGAAGATAGTAGAT
66 CGGAGCAGACTGAAGATAGCAGAT
* * *
38858993 CTTACCTTCCTGTACTGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTTCCTATACTGACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAG
* *
38859058 CGCAGAAGACTGAAGATAGCAGAT
66 CGGAGCAGACTGAAGATAGCAGAT
*
38859082 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCATGTACTGACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAG
* *
38859147 CGGAGAAGACTGAAGATAGCATAT
66 CGGAGCAGACTGAAGATAGCAGAT
* * * * *
38859171 CTTGCCTTTCTGTACTGACAGTGAAGCAGATAGAAGACACTAGCCTTGCCTTCCTGTATTGACAG
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAG
* *
38859236 CGGAGTAGACTAAAGATAGCAGAT
66 CGGAGCAGACTGAAGATAGCAGAT
* * *
38859260 CTTGTCTTCCTGTACTGGCAGTGAAGCAGATCG
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCG
38859293 GAAGCACTAG
Statistics
Matches: 648, Mismatches: 92, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
88 109 0.17
89 538 0.83
90 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (89 bp):
CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAG
CGGAGCAGACTGAAGATAGCAGAT
Found at i:38859669 original size:45 final size:46
Alignment explanation
Indices: 38859610--38859731 Score: 165
Period size: 45 Copynumber: 2.6 Consensus size: 46
38859600 AAGATACCAG
*
38859610 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAATAACAAA
* * * *
38859655 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG---AATAACAAA
38859704 TCTTATCTCCCTGAAGTTGCAGTGGAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC
38859732 GGATTAAAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 34 0.52
49 32 0.48
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAATAACAAA
Found at i:38859794 original size:94 final size:93
Alignment explanation
Indices: 38859610--38859830 Score: 225
Period size: 94 Copynumber: 2.4 Consensus size: 93
38859600 AAGATACCAG
* * *
38859610 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAG-AAATCCTATTACCCTGAAGTTGC
* *
38859675 AGTGGAACAGATTGAAGCTAAATAACAGA
65 AGTGGAACAGATTAAAGCTAAATAACAAA
* *
38859704 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGAT-G-AATCCTA-TACCTCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAA-GATAGAAATCCTATTACC-CTGAAGTT
* * * *
38859766 GCAGTAGG-TCGGATTAAATCTACCATAACAAA
63 GCAGT-GGAACAGATTAAAGCTA-AATAACAAA
* * * *
38859798 TCTTATCTCCCTAAATTTGTAGTGGAACAGACT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
38859831 GTGGATAGCG
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
92 3 0.03
93 29 0.28
94 67 0.64
95 3 0.03
96 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (93 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGAAATCCTATTACCCTGAAGTTGCA
GTGGAACAGATTAAAGCTAAATAACAAA
Found at i:38859953 original size:44 final size:44
Alignment explanation
Indices: 38859861--38860012 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 44
38859851 TATCAAACCT
* * * * * *
38859861 TATCTACCTGAAGTTGTAGTGGAACATG-TTAAAGATACCAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAGCTACTAATCC
*
38859905 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCC
* * * * *
38859949 TATCTCCCTAAAGTTGCAGTAGAGCGGATTAAAACGA-TGAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACT-AATCC
*
38859993 TATAC-CTCTGAAGTTGCAGT
1 TAT-CTCCCTGAAGTTGCAGT
38860013 AGGTCGGATA
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.02
44 87 0.97
45 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCC
Found at i:38872465 original size:29 final size:27
Alignment explanation
Indices: 38872418--38872473 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
38872408 TTACTAATAA
*
38872418 AAGCCGTTTTTTTTAATTTATCGAAAT
1 AAGCCGTTTTTTTTAATTTACCGAAAT
38872445 AAGCCGATTTTTTGATT-ATTTACCGAAAT
1 AAGCCG-TTTTTT--TTAATTTACCGAAAT
38872474 GGGCCATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
28 6 0.24
29 11 0.44
30 2 0.08
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (27 bp):
AAGCCGTTTTTTTTAATTTACCGAAAT
Found at i:38873960 original size:13 final size:13
Alignment explanation
Indices: 38873942--38873975 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
38873932 TCTACAATTT
*
38873942 TTTTTTTGATAAA
1 TTTTTTTGAAAAA
38873955 TTTTTTTGAAAAA
1 TTTTTTTGAAAAA
38873968 TATTTTTT
1 T-TTTTTT
38873976 TAAAGTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (13 bp):
TTTTTTTGAAAAA
Found at i:38876081 original size:22 final size:22
Alignment explanation
Indices: 38876056--38876099 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
38876046 ATAACTTAAA
38876056 TTAAAATCTTAAGTTACTTTTC
1 TTAAAATCTTAAGTTACTTTTC
38876078 TTAAAATCTTAAGTTACTTTTC
1 TTAAAATCTTAAGTTACTTTTC
38876100 AATAACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.50
Consensus pattern (22 bp):
TTAAAATCTTAAGTTACTTTTC
Found at i:38877408 original size:47 final size:47
Alignment explanation
Indices: 38877354--38877567 Score: 227
Period size: 47 Copynumber: 4.5 Consensus size: 47
38877344 ATAGTTTATT
* * * *
38877354 TACTCGACCAATGGTTTATCCACAACGTATTCTAGTCGGCAATCATC
1 TACTCGACCAGTGGTTTATCCACAACGTATTCTAGTCAGTAGTCATC
* * * *
38877401 TACTCGACCTTGTGGTTTAAT-CACAATGTATTCTACTC-GATAGTCATT
1 TACTCGACC-AGTGGTTT-ATCCACAACGTATTCTAGTCAG-TAGTCATC
*
38877449 TGA-TCGACCAGTGGTTTATCCACAACGTATTTTAGTCAGTAGTCATC
1 T-ACTCGACCAGTGGTTTATCCACAACGTATTCTAGTCAGTAGTCATC
* * * *
38877496 TACGCGACCAGTGGTTTATGCATAACGCATTCTAGTCAGTAGTCATC
1 TACTCGACCAGTGGTTTATCCACAACGTATTCTAGTCAGTAGTCATC
** *
38877543 TGTTCGACTAGTGGTTTATCCACAA
1 TACTCGACCAGTGGTTTATCCACAA
38877568 AATATTAGCA
Statistics
Matches: 137, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
46 3 0.02
47 97 0.71
48 34 0.25
49 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (47 bp):
TACTCGACCAGTGGTTTATCCACAACGTATTCTAGTCAGTAGTCATC
Found at i:38877563 original size:94 final size:95
Alignment explanation
Indices: 38877357--38877567 Score: 257
Period size: 94 Copynumber: 2.2 Consensus size: 95
38877347 GTTTATTTAC
* * * *
38877357 TCGACCAATGGTTTATCCACAACGTATTCTAGTCGGCAATCATCTACTCGACCTTGTGGTTTAAT
1 TCGACCAGTGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTACGCGACCTAGTGGTTTAAT
* * *
38877422 CACAATGTATTCTACTCGATAGTCATTTGA
66 CACAACGCATTCTACTCGATAGTCATCTGA
* * *
38877452 TCGACCAGTGGTTTATCCACAACGTATTTTAGTCAGTAGTCATCTACGCGACC-AGTGGTTT-AT
1 TCGACCAGTGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTACGCGACCTAGTGGTTTAAT
* * *
38877515 GCATAACGCATTCTAGTC-AGTAGTCATCTGT
66 -CACAACGCATTCTACTCGA-TAGTCATCTGA
*
38877546 TCGACTAGTGGTTTATCCACAA
1 TCGACCAGTGGTTTATCCACAA
38877568 AATATTAGCA
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
93 3 0.03
94 50 0.50
95 47 0.47
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (95 bp):
TCGACCAGTGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTACGCGACCTAGTGGTTTAAT
CACAACGCATTCTACTCGATAGTCATCTGA
Found at i:38879636 original size:51 final size:50
Alignment explanation
Indices: 38879567--38879763 Score: 209
Period size: 51 Copynumber: 3.9 Consensus size: 50
38879557 ATTAATGATG
*
38879567 TCCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA
1 TCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCA
* * * * * * *
38879618 TCCGATACACTTAGTAGCCTTCACATAGTACTACACAAGTGATCGAAACTA
1 TCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCA
* * * *
38879669 TCTGGTACGCATAGTAGCCTGCACAT-GTACTACACATGCGACC-TATCA
1 TCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA
* * * *
38879717 TTCCGGTACACGTAGTAGCCTGCACGTAATACTACACACGTGACCAT
1 -TCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
38879764 CACTTCCACT
Statistics
Matches: 116, Mismatches: 26, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
48 2 0.02
49 23 0.20
50 27 0.23
51 62 0.53
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA
Found at i:38879751 original size:100 final size:101
Alignment explanation
Indices: 38879576--38879759 Score: 264
Period size: 100 Copynumber: 1.8 Consensus size: 101
38879566 GTCCGGTTCA
* * *
38879576 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACTTAGTAGCCTTCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
*
38879641 CATAGTACTACACAAGTGATCGAAACTATCTGGTACG
65 CATAATACTACACAAGTGATCGAAACTATCTGGTACG
* *
38879678 CATAGTAGCCTGCACAT-GTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
* *
38879741 CGTAATACTACACACGTGA
65 CATAATACTACACAAGTGA
38879760 CCATCACTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
99 4 0.05
100 36 0.49
101 16 0.22
102 17 0.23
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAATACTACACAAGTGATCGAAACTATCTGGTACG
Found at i:38885200 original size:134 final size:129
Alignment explanation
Indices: 38884991--38885255 Score: 422
Period size: 134 Copynumber: 2.0 Consensus size: 129
38884981 AGTCACCGTT
*
38884991 ATAAGAAAAATGTTAAAATTAATTGGTTTTTTTGCTAACTCAAGTGTTTTTTTAAATAGGTTAAG
1 ATAAGAAAAATGTTAAAATTAATTGGTTTTTTTGCTAACTCAAGTGTTTTTTTAAATAGATTAAG
* *
38885056 TTTTCTTTTAAAATAAACAAATGTTTTAAAATGATTGTTTTATAAACTCCAATCGTACTAGGCC
66 TTTTCCTTTAAAATAAACAAATCTTTTAAAATGATTGTTTTATAAACTCCAATCGTACTAGGCC
* *
38885120 ATAAGAAAATTGTTAAAATTAATTGGTTGTTTTTTTGTTAACTCAAGTGTTTTTCTTAAAATAGA
1 ATAAGAAAAATGTTAAAATTAATT-G--GTTTTTTTGCTAACTCAAGTGTTTTT-TT-AAATAGA
* *
38885185 TTAAGTTTTCCTTTAAAATAAACAAATCTTTTAAAATGATTGTTTTATAAACTTCGATCGTACTA
61 TTAAGTTTTCCTTTAAAATAAACAAATCTTTTAAAATGATTGTTTTATAAACTCCAATCGTACTA
38885250 GGCC
126 GGCC
38885254 AT
1 AT
38885256 CTTGGTGGCC
Statistics
Matches: 124, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
129 23 0.19
130 1 0.01
132 25 0.20
133 2 0.02
134 73 0.59
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (129 bp):
ATAAGAAAAATGTTAAAATTAATTGGTTTTTTTGCTAACTCAAGTGTTTTTTTAAATAGATTAAG
TTTTCCTTTAAAATAAACAAATCTTTTAAAATGATTGTTTTATAAACTCCAATCGTACTAGGCC
Found at i:38889473 original size:20 final size:19
Alignment explanation
Indices: 38889444--38889525 Score: 67
Period size: 20 Copynumber: 4.1 Consensus size: 19
38889434 TTCGGCGTCT
38889444 CTATTTGCACGTTTGTGCTC
1 CTATTTGCAC-TTTGTGCTC
* *
38889464 CTATTCGCACTTCGGTGCTC
1 CTATTTGCACTT-TGTGCTC
* * *
38889484 CTGTATACACTTTGGTG-TC
1 CTATTTGCACTTT-GTGCTC
38889503 TCTATTTGCACGTTTGTGCTC
1 -CTATTTGCAC-TTTGTGCTC
38889524 CT
1 CT
38889526 GTCCACACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
19 4 0.09
20 38 0.81
21 5 0.11
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.43
Consensus pattern (19 bp):
CTATTTGCACTTTGTGCTC
Found at i:38889505 original size:60 final size:59
Alignment explanation
Indices: 38889407--38889594 Score: 243
Period size: 60 Copynumber: 3.2 Consensus size: 59
38889397 AGTGCCCTTG
* * *
38889407 TTCGAACTTCGGTGCCCTTGTATACACTTCGGCGTCTCTATTTGCACGTTTGTGCTCCTA
1 TTCGCACTTCGGTGCCC-TGTATACACTTTGGTGTCTCTATTTGCACGTTTGTGCTCCTA
*
38889467 TTCGCACTTCGGTGCTCCTGTATACACTTTGGTGTCTCTATTTGCACGTTTGTGCTCCTG
1 TTCGCACTTCGGTGC-CCTGTATACACTTTGGTGTCTCTATTTGCACGTTTGTGCTCCTA
* * * * * *
38889527 TCCACACTTCAGTGCCTTGTATACACTTTGGTGTCCCTATTTGCACGTCTGTG-TCCCTA
1 TTCGCACTTCGGTGCCCTGTATACACTTTGGTGTCTCTATTTGCACGTTTGTGCT-CCTA
*
38889586 TTTGCACTT
1 TTCGCACTT
38889595 TGGTTCCCCT
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 1 0.01
59 44 0.39
60 65 0.58
61 2 0.02
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (59 bp):
TTCGCACTTCGGTGCCCTGTATACACTTTGGTGTCTCTATTTGCACGTTTGTGCTCCTA
Found at i:38889604 original size:20 final size:20
Alignment explanation
Indices: 38889550--38889602 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
38889540 GCCTTGTATA
38889550 CACTTTGGTGTCCCTATTTG
1 CACTTTGGTGTCCCTATTTG
*
38889570 CACGTCT-GTGTCCCTATTTG
1 CAC-TTTGGTGTCCCTATTTG
38889590 CACTTTGGT-TCCC
1 CACTTTGGTGTCCC
38889603 CTGACTACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 21 0.72
21 2 0.07
ACGTcount: A:0.09, C:0.30, G:0.19, T:0.42
Consensus pattern (20 bp):
CACTTTGGTGTCCCTATTTG
Found at i:38895695 original size:28 final size:28
Alignment explanation
Indices: 38895663--38895825 Score: 200
Period size: 28 Copynumber: 5.8 Consensus size: 28
38895653 AAAATTCAAT
* *
38895663 GGTCATATTGCAACGATCAGATTCCAAC
1 GGTCATATTGTAACGGTCAGATTCCAAC
* *
38895691 GGTCATATTGTAACGGTTAGATTCCAAT
1 GGTCATATTGTAACGGTCAGATTCCAAC
* * *
38895719 GGCCATATTATAATGGTCAGATTCCAAC
1 GGTCATATTGTAACGGTCAGATTCCAAC
*
38895747 TGTCATATTGTAACGGTCAGATTCCAAC
1 GGTCATATTGTAACGGTCAGATTCCAAC
**
38895775 GGTCATATTGTAATTGTCAGATTCCAAC
1 GGTCATATTGTAACGGTCAGATTCCAAC
* * * *
38895803 GGCCATATTATAAAGGTTAGATT
1 GGTCATATTGTAACGGTCAGATT
38895826 TTTGCATTAC
Statistics
Matches: 114, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 114 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (28 bp):
GGTCATATTGTAACGGTCAGATTCCAAC
Found at i:38895705 original size:14 final size:14
Alignment explanation
Indices: 38895663--38895811 Score: 91
Period size: 14 Copynumber: 10.6 Consensus size: 14
38895653 AAAATTCAAT
*
38895663 GGTCATATTGCAAC
1 GGTCATATTCCAAC
* *
38895677 GATCAGATTCCAAC
1 GGTCATATTCCAAC
**
38895691 GGTCATATTGTAAC
1 GGTCATATTCCAAC
* * *
38895705 GGTTAGATTCCAAT
1 GGTCATATTCCAAC
* ** *
38895719 GGCCATATTATAAT
1 GGTCATATTCCAAC
*
38895733 GGTCAGATTCCAAC
1 GGTCATATTCCAAC
* **
38895747 TGTCATATTGTAAC
1 GGTCATATTCCAAC
*
38895761 GGTCAGATTCCAAC
1 GGTCATATTCCAAC
** *
38895775 GGTCATATTGTAAT
1 GGTCATATTCCAAC
* *
38895789 TGTCAGATTCCAAC
1 GGTCATATTCCAAC
*
38895803 GGCCATATT
1 GGTCATATT
38895812 ATAAAGGTTA
Statistics
Matches: 93, Mismatches: 42, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
14 93 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (14 bp):
GGTCATATTCCAAC
Found at i:38895773 original size:84 final size:84
Alignment explanation
Indices: 38895664--38895825 Score: 252
Period size: 84 Copynumber: 1.9 Consensus size: 84
38895654 AAATTCAATG
* *
38895664 GTCATATTGCAACGATCAGATTCCAACGGTCATATTGTAACGGTTAGATTCCAATGGCCATATTA
1 GTCATATTGCAACGATCAGATTCCAACGGTCATATTGTAACGGTCAGATTCCAACGGCCATATTA
*
38895729 TAATGGTCAGATTCCAACT
66 TAAAGGTCAGATTCCAACT
* * **
38895748 GTCATATTGTAACGGTCAGATTCCAACGGTCATATTGTAATTGTCAGATTCCAACGGCCATATTA
1 GTCATATTGCAACGATCAGATTCCAACGGTCATATTGTAACGGTCAGATTCCAACGGCCATATTA
*
38895813 TAAAGGTTAGATT
66 TAAAGGTCAGATT
38895826 TTTGCATTAC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (84 bp):
GTCATATTGCAACGATCAGATTCCAACGGTCATATTGTAACGGTCAGATTCCAACGGCCATATTA
TAAAGGTCAGATTCCAACT
Found at i:38898427 original size:12 final size:11
Alignment explanation
Indices: 38898390--38898438 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
38898380 TTAATTAATT
38898390 TATTATTATT-
1 TATTATTATTA
**
38898400 TATTATTACTCC
1 TATTATTA-TTA
38898412 TATTATTATTGA
1 TATTATTATT-A
38898424 TATTATTATTA
1 TATTATTATTA
38898435 TATT
1 TATT
38898439 TGGTTATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 8 0.24
11 7 0.21
12 18 0.55
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (11 bp):
TATTATTATTA
Found at i:38898910 original size:17 final size:18
Alignment explanation
Indices: 38898881--38898914 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
38898871 GCCCTCATGT
38898881 GTATTGTATTGCTTATTG
1 GTATTGTATTGCTTATTG
38898899 GTATTG-ATTGCTTATT
1 GTATTGTATTGCTTATT
38898915 TGTGTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.06, G:0.21, T:0.56
Consensus pattern (18 bp):
GTATTGTATTGCTTATTG
Found at i:38905624 original size:9 final size:9
Alignment explanation
Indices: 38905557--38905898 Score: 157
Period size: 9 Copynumber: 37.4 Consensus size: 9
38905547 ATTTATGTAC
*
38905557 TATGTTAGT
1 TATGTAAGT
38905566 TATGTAAGT
1 TATGTAAGT
* *
38905575 CATGTGAGT
1 TATGTAAGT
*
38905584 TATGTAATT
1 TATGTAAGT
* *
38905593 TATGATATGA
1 TATG-TAAGT
*
38905603 TATATAAAGT
1 TATGT-AAGT
*
38905613 TATGTGAGT
1 TATGTAAGT
*
38905622 TATGTGAGT
1 TATGTAAGT
38905631 TATGTAAGT
1 TATGTAAGT
38905640 TATGTAAGT
1 TATGTAAGT
*
38905649 TATGATATGAT
1 TATG-TAAG-T
*
38905660 ATATATAAGT
1 -TATGTAAGT
38905670 TAT-TAAGT
1 TATGTAAGT
38905678 TATGTAAGT
1 TATGTAAGT
*
38905687 TATGTGAGT
1 TATGTAAGT
38905696 TATGTAAGT
1 TATGTAAGT
38905705 TAT-TAAGT
1 TATGTAAGT
*
38905713 TAAGATCCAAAGT
1 TATG-T---AAGT
38905726 T-T-T---T
1 TATGTAAGT
* *
38905730 TTTTTAA-T
1 TATGTAAGT
* *
38905738 TCTTTAAAGT
1 TATGT-AAGT
**
38905748 TATGTAAAC
1 TATGTAAGT
38905757 TATGTAAGT
1 TATGTAAGT
38905766 TATGTAAGT
1 TATGTAAGT
*
38905775 T-TTTATA-T
1 TATGTA-AGT
* * *
38905783 GATATATATT
1 TATGTA-AGT
38905793 TATGTAAGT
1 TATGTAAGT
*
38905802 TATGTGAGT
1 TATGTAAGT
*
38905811 TACGTAAGT
1 TATGTAAGT
*
38905820 TATGATATGAT
1 TATG-TAAG-T
**
38905831 ATATAAAAGT
1 -TATGTAAGT
* **
38905841 TAT-TCACC
1 TATGTAAGT
38905849 TATGGTAAGT
1 TAT-GTAAGT
*
38905859 TATGTGAGT
1 TATGTAAGT
*
38905868 TATGTAAAT
1 TATGTAAGT
*
38905877 TATGTGAGT
1 TATGTAAGT
38905886 TATGTAAGT
1 TATGTAAGT
38905895 TATG
1 TATG
38905899 ATATGATATG
Statistics
Matches: 252, Mismatches: 56, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
4 2 0.01
5 1 0.00
6 1 0.00
8 28 0.11
9 167 0.66
10 35 0.14
11 7 0.03
12 6 0.02
13 5 0.02
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:38905625 original size:56 final size:57
Alignment explanation
Indices: 38905520--38905880 Score: 259
Period size: 56 Copynumber: 6.3 Consensus size: 57
38905510 AGTATAATTA
* * * *
38905520 AGTTATGTAAGTTATGATTTGATATATATTTATGTACTATGTTAGTTATGTAAGTCATGTG
1 AGTTATGTAAGTTATGATATGATATATA--TAAGT--TATGTAAGTTATGTAAGTTATGTG
* * * *
38905581 AGTTATGTAATTTATGATATGATATATA-AAGTTATGTGAGTTATGTGAGTTATGTA
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATGTAAGTTATGTAAGTTATGTG
38905637 AGTTATGTAAGTTATGATATGATATATATAAGTTAT-TAAGTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATGTAAGTTATGTAAGTTATGTG
* * ** * *** * * * * *
38905693 AGTTATGTAAGTTATTAAGTTAAGATCCAAAGTTTTTTTTTTAA-TTCTTTAAAGTTATGTA
1 AGTTATGTAAGTTA-T--GATATGATATATA-TAAGTTATGTAAGTTATGT-AAGTTATGTG
** * * * * * * *
38905754 AACTATGTAAGTTATG-TAAG-TTTTTATATGATATAT-ATTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATGTAAGTTATGTAAGTTATGTG
* * * **
38905808 AGTTACGTAAGTTATGATATGATATATAAAAGTTAT-TCACCTATGGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATGTAAGTTAT-GTAAGTTATGTG
*
38905865 AGTTATGTAAATTATG
1 AGTTATGTAAGTTATG
38905881 TGAGTTATGT
Statistics
Matches: 238, Mismatches: 50, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
54 23 0.10
55 13 0.05
56 93 0.39
57 38 0.16
58 4 0.02
59 8 0.03
60 9 0.04
61 50 0.21
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (57 bp):
AGTTATGTAAGTTATGATATGATATATATAAGTTATGTAAGTTATGTAAGTTATGTG
Found at i:38905651 original size:65 final size:63
Alignment explanation
Indices: 38905518--38905714 Score: 215
Period size: 65 Copynumber: 3.1 Consensus size: 63
38905508 TAAGTATAAT
* * * * * *
38905518 TAAGTTATGTAAGTTATGATTTGATATAT-ATTTATGTA-CTATGTTAGTTATGTAAGTCATG
1 TAAGTTATGTAATTTATGATATGATATATAAGTTATGTAGTTATGTGAGTTATGTAAGTTATG
*
38905579 TGAGTTATGTAATTTATGATATGATATATAAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATG
1 TAAGTTATGTAATTTATGATATGATATAT-AAGTTATGT-AGTTATGTGAGTTATGTAAGTTATG
* * *
38905644 TAAGTTATGATATGATATAT-ATAAGTTAT-TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTA
1 TAAGTTATG-TA--ATTTATGATATGATATATAAGTTATGT-AGTTATGTGAGTTATGTAAGTTA
38905707 T-
62 TG
38905708 TAAGTTA
1 TAAGTTA
38905715 AGATCCAAAG
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
61 26 0.22
63 7 0.06
64 8 0.07
65 61 0.52
66 3 0.03
67 7 0.06
68 5 0.04
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.46
Consensus pattern (63 bp):
TAAGTTATGTAATTTATGATATGATATATAAGTTATGTAGTTATGTGAGTTATGTAAGTTATG
Found at i:38906252 original size:23 final size:23
Alignment explanation
Indices: 38906226--38906301 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
38906216 ATAAGTGCCA
38906226 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
38906249 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
38906272 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
38906295 CACTGAT
1 CACTGAT
38906302 CAATAACACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:38908856 original size:11 final size:11
Alignment explanation
Indices: 38908840--38908864 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38908830 CATATATATT
38908840 ATAATACATAC
1 ATAATACATAC
38908851 ATAATACATAC
1 ATAATACATAC
38908862 ATA
1 ATA
38908865 CATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATACATAC
Found at i:38909319 original size:21 final size:21
Alignment explanation
Indices: 38909295--38909339 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
38909285 TGATGTAACG
*
38909295 AATGAAGCAGAGGCAGAGACA
1 AATGAAGAAGAGGCAGAGACA
* *
38909316 AATGATGAATAGGCAGAGACA
1 AATGAAGAAGAGGCAGAGACA
38909337 AAT
1 AAT
38909340 TTCATGATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.29, T:0.11
Consensus pattern (21 bp):
AATGAAGAAGAGGCAGAGACA
Found at i:38910357 original size:29 final size:29
Alignment explanation
Indices: 38910324--38910419 Score: 106
Period size: 28 Copynumber: 3.3 Consensus size: 29
38910314 AATTATTCTG
* *
38910324 AACCTTAAACCCTTAAACCCTAACA-CCTA
1 AACCTTAAACAC-TAAACCCTAAAACCCTA
*
38910353 AACCTTAAACACTAAACTCTAAAACCCTA
1 AACCTTAAACACTAAACCCTAAAACCCTA
* * *
38910382 AACCTTAAACAC-CAACCCTTAAACCATA
1 AACCTTAAACACTAAACCCTAAAACCCTA
*
38910410 AACCCTAAAC
1 AACCTTAAAC
38910420 CCCTATCCCC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 31 0.53
29 27 0.47
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (29 bp):
AACCTTAAACACTAAACCCTAAAACCCTA
Found at i:38910402 original size:43 final size:43
Alignment explanation
Indices: 38910330--38910424 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
38910320 TCTGAACCTT
*
38910330 AAACCCTTAAACCCTAACACCTAAACCTTAAA-CACTAAACTCTA
1 AAACCC-TAAACCCTAACACCTAAACCTTAAACCA-TAAACCCTA
* *
38910374 AAACCCTAAACCTTAAACACC-AACCCTTAAACCATAAACCCTA
1 AAACCCTAAACCCT-AACACCTAAACCTTAAACCATAAACCCTA
*
38910417 AACCCCTA
1 AAACCCTA
38910425 TCCCCTATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
43 31 0.69
44 14 0.31
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (43 bp):
AAACCCTAAACCCTAACACCTAAACCTTAAACCATAAACCCTA
Found at i:38910418 original size:28 final size:28
Alignment explanation
Indices: 38910324--38910419 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 28
38910314 AATTATTCTG
*
38910324 AACCTTAAACCCTTAAACCC-TAACACCTA
1 AACCTTAAACAC-TAAACCCTTAA-ACCTA
* *
38910353 AACCTTAAACACTAAACTCTAAAACCCTA
1 AACCTTAAACACTAAACCCTTAAA-CCTA
*
38910382 AACCTTAAACAC-CAACCCTTAAACCATA
1 AACCTTAAACACTAAACCCTTAAACC-TA
*
38910410 AACCCTAAAC
1 AACCTTAAAC
38910420 CCCTATCCCC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.04
28 26 0.46
29 29 0.51
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (28 bp):
AACCTTAAACACTAAACCCTTAAACCTA
Found at i:38910421 original size:7 final size:7
Alignment explanation
Indices: 38910324--38910680 Score: 93
Period size: 7 Copynumber: 50.1 Consensus size: 7
38910314 AATTATTCTG
*
38910324 AACCTTA
1 AACCCTA
38910331 AACCCTTA
1 AACCC-TA
38910339 AACCCT-
1 AACCCTA
38910345 AACACCTA
1 AAC-CCTA
*
38910353 AACCTTA
1 AACCCTA
*
38910360 AACACTA
1 AACCCTA
*
38910367 AACTCTAA
1 AACCCT-A
38910375 AACCCTA
1 AACCCTA
*
38910382 AACCTTA
1 AACCCTA
38910389 AACACC--
1 AAC-CCTA
38910395 AACCCTTA
1 AACCC-TA
*
38910403 AACCATA
1 AACCCTA
38910410 AACCCTA
1 AACCCTA
38910417 AACCCCTA
1 AA-CCCTA
**
38910425 TCCCCT-
1 AACCCTA
*
38910431 ATCCACTA
1 AACC-CTA
*
38910439 AACACTA
1 AACCCTA
* *
38910446 AATCATA
1 AACCCTA
* * *
38910453 AAACATG
1 AACCCTA
**
38910460 AACTATA
1 AACCCTA
38910467 AACCCTA
1 AACCCTA
38910474 AACCCT-
1 AACCCTA
* *
38910480 GACCCTT
1 AACCCTA
38910487 AACCC-A
1 AACCCTA
*
38910493 TAACACGTA
1 -AAC-CCTA
**
38910502 AACTTTA
1 AACCCTA
*
38910509 AA-CCTC
1 AACCCTA
38910515 AACCCTTA
1 AACCC-TA
*
38910523 AACCATA
1 AACCCTA
* *
38910530 AACCATG
1 AACCCTA
*
38910537 AACCATA
1 AACCCTA
*
38910544 ATCCCTA
1 AACCCTA
* *
38910551 AATCCTT
1 AACCCTA
*
38910558 AACCCTT
1 AACCCTA
*
38910565 ATCCCATA
1 AACCC-TA
38910573 AACCCTA
1 AACCCTA
* *
38910580 AATCATA
1 AACCCTA
* *
38910587 AAACATA
1 AACCCTA
**
38910594 AACTATA
1 AACCCTA
**
38910601 AACTATA
1 AACCCTA
*
38910608 AACCATA
1 AACCCTA
38910615 AACCCCT-
1 AA-CCCTA
38910622 AACCCTTA
1 AACCC-TA
*
38910630 AACCC-C
1 AACCCTA
38910636 AACCCTTA
1 AACCC-TA
*
38910644 AACCGTA
1 AACCCTA
**
38910651 AACAATA
1 AACCCTA
*
38910658 AACCATA
1 AACCCTA
*
38910665 ATCCCTA
1 AACCCTA
38910672 AACCGCTA
1 AACC-CTA
38910680 A
1 A
38910681 TGCCTCTAAA
Statistics
Matches: 262, Mismatches: 64, Indels: 47
0.70 0.17 0.13
Matches are distributed among these distances:
5 2 0.01
6 24 0.09
7 177 0.68
8 58 0.22
9 1 0.00
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (7 bp):
AACCCTA
Found at i:38910587 original size:43 final size:42
Alignment explanation
Indices: 38910507--38910675 Score: 129
Period size: 43 Copynumber: 4.1 Consensus size: 42
38910497 ACGTAAACTT
*
38910507 TAAACCTCAACCCTTAAACCATAAACCATGAACCATAATCCC
1 TAAACCTCAACCCTTAAACCATAAACCATAAACCATAATCCC
* ** * * ** *
38910549 TAAATCCTTAACCCTTATCCCATAAACCCTAAATCATAAAACA
1 TAAA-CCTCAACCCTTAAACCATAAACCATAAACCATAATCCC
* *
38910592 TAAA-CT--A----TAAACTATAAACCATAAACCCCTAA-CCC
1 TAAACCTCAACCCTTAAACCATAAACCATAAA-CCATAATCCC
* * *
38910627 TTAAACCCCAACCCTTAAACCGTAAACAATAAACCATAATCCC
1 -TAAACCTCAACCCTTAAACCATAAACCATAAACCATAATCCC
38910670 TAAACC
1 TAAACC
38910676 GCTAATGCCT
Statistics
Matches: 94, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
35 15 0.16
36 8 0.09
37 1 0.01
39 2 0.02
41 2 0.02
42 15 0.16
43 51 0.54
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (42 bp):
TAAACCTCAACCCTTAAACCATAAACCATAAACCATAATCCC
Found at i:38910907 original size:118 final size:116
Alignment explanation
Indices: 38910678--38910896 Score: 271
Period size: 118 Copynumber: 1.9 Consensus size: 116
38910668 CCTAAACCGC
* * *
38910678 TAATGCCTCTAAAGCTCAACAAAAAAAAGAGGTCGTTGTCCTCAACTTTTTTGCGGCGTTTTCCA
1 TAATGCCTCTAAAGCTCAACAAAAAAAAGACGTCGTTGTCCTCAACTTTATTGCGGCATTTTCCA
*
38910743 AAAAGTGATGCTAATGCTCGACCTATAGCGGTGTTTGTTAAAAAGTGTTGT
66 AAAAGTGATGCTAATGCTCGACCTATAGCGGCGTTTGTTAAAAAGTGTTGT
* * *
38910794 TAATGTCC-CTAAAGCTCAACAAATAAAAATGACGTCGTTTTGCTTAACTTTATTGCGGCATTTT
1 TAATG-CCTCTAAAGCTCAACAAA-AAAAA-GACGTCGTTGTCCTCAACTTTATTGCGGCATTTT
*** * * *
38910858 CTGGAAAGTG-TCGCTAATGCTTGATCTATTGCGGCGTTT
63 CCAAAAAGTGAT-GCTAATGCTCGACCTATAGCGGCGTTT
38910897 TAGGAAAAGT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
116 20 0.23
117 8 0.09
118 58 0.67
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (116 bp):
TAATGCCTCTAAAGCTCAACAAAAAAAAGACGTCGTTGTCCTCAACTTTATTGCGGCATTTTCCA
AAAAGTGATGCTAATGCTCGACCTATAGCGGCGTTTGTTAAAAAGTGTTGT
Found at i:38910926 original size:39 final size:40
Alignment explanation
Indices: 38910844--38910935 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
38910834 TGCTTAACTT
* * * *
38910844 TATTGCGGCATTTTCTGGAAAGTGTCGCTAATGCTTGATC
1 TATTGCGGCGTTTTCAGGAAAGTGCCGCTAATGCTTGACC
*
38910884 TATTGCGGCGTTTT-AGGAAAAGTGCCGCTATTGCTT-ACC
1 TATTGCGGCGTTTTCAGG-AAAGTGCCGCTAATGCTTGACC
*
38910923 TATTGTGGCGTTT
1 TATTGCGGCGTTT
38910936 GTTTAAATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 16 0.36
40 29 0.64
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.38
Consensus pattern (40 bp):
TATTGCGGCGTTTTCAGGAAAGTGCCGCTAATGCTTGACC
Found at i:38913910 original size:42 final size:42
Alignment explanation
Indices: 38913844--38914042 Score: 238
Period size: 43 Copynumber: 4.7 Consensus size: 42
38913834 ATCGAGATTA
*
38913844 CGTGTAAGACCATATCTGGAATATGGCATCAATATGAGAATT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGAATT
* * *
38913886 CGTGTAAGACCATATTTGGGATATGACATCGATATGAGAATT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGAATT
* * ** * *
38913928 CGTGTAAGACCATGTCTGGGACATTGGCATTGATATGTGATTT
1 CGTGTAAGACCATATCTGGGATA-TGGCATCAATATGAGAATT
** *
38913971 CGTGTAAGACCATGGCTGGGCTATTGGCATCAATATGAG-ATT
1 CGTGTAAGACCATATCTGGGATA-TGGCATCAATATGAGAATT
*
38914013 ACATGTAAGACCATATCTGGGATATGGCAT
1 -CGTGTAAGACCATATCTGGGATATGGCAT
38914043 TGTTACGGTA
Statistics
Matches: 133, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
42 66 0.50
43 67 0.50
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGAATT
Found at i:38914061 original size:85 final size:82
Alignment explanation
Indices: 38913837--38914044 Score: 220
Period size: 85 Copynumber: 2.5 Consensus size: 82
38913827 TAGGGTTATC
* ** * **
38913837 GAGATTACGTGTAAGACCATATCTGGAATATGGCATCAATATGAGAATTCGTGTAAGACCATATT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA-G-GTATTCGTGTAAGACCATAGC
*
38913902 TGGGATATGACATCGATAT
64 TGGGATATGACATCAATAT
* * * *
38913921 GAGAATT-CGTGTAAGACCATGTCTGGGACATTGGCATTGATATGTGATTTCGTGTAAGACCATG
1 GAG-ATTACGTGTAAGACCATATCTGGGATA-TGGCATTGATAGGT-A-TTCGTGTAAGACCATA
* *
38913985 GCTGGGCTATTGGCATCAATAT
62 GCTGGGATA-TGACATCAATAT
*
38914007 GAGATTACATGTAAGACCATATCTGGGATATGGCATTG
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATTG
38914045 TTACGGTACT
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
83 1 0.01
84 24 0.24
85 44 0.43
86 33 0.32
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (82 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAGGTATTCGTGTAAGACCATAGCTG
GGATATGACATCAATAT
Found at i:38918709 original size:20 final size:20
Alignment explanation
Indices: 38918685--38918722 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38918675 TAAAGACAAA
38918685 AAAAAATA-TTTTAATTTAT
1 AAAAAATATTTTTAATTTAT
38918704 AAAAAATATTTTTAATTTA
1 AAAAAATATTTTTAATTTA
38918723 ACTTAACCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAAATATTTTTAATTTAT
Found at i:38920150 original size:22 final size:23
Alignment explanation
Indices: 38920098--38920150 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
38920088 CAATAAATAT
38920098 AAATATAATTTAAATATAAGTAA
1 AAATATAATTTAAATATAAGTAA
* * * *
38920121 GAATATAATTTGAA-GTAATTAA
1 AAATATAATTTAAATATAAGTAA
38920143 AAATATAA
1 AAATATAA
38920151 CCAAACCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (23 bp):
AAATATAATTTAAATATAAGTAA
Found at i:38921475 original size:17 final size:18
Alignment explanation
Indices: 38921455--38921493 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38921445 CCAAAAACAC
38921455 GAGCTC-ACCAAAGATGT
1 GAGCTCAACCAAAGATGT
* *
38921472 GAGCTCAACCCAAGTTGT
1 GAGCTCAACCAAAGATGT
38921490 GAGC
1 GAGC
38921494 ACATCAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (18 bp):
GAGCTCAACCAAAGATGT
Found at i:38926372 original size:30 final size:30
Alignment explanation
Indices: 38926336--38926397 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
38926326 GAAGTGCAAG
38926336 TGGGGTTTATATATGCTGATATCGATGTTT
1 TGGGGTTTATATATGCTGATATCGATGTTT
38926366 TGGGGTTTATATATGCTGATATCGATGTTT
1 TGGGGTTTATATATGCTGATATCGATGTTT
38926396 TG
1 TG
38926398 TTTAGCCTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.06, G:0.27, T:0.47
Consensus pattern (30 bp):
TGGGGTTTATATATGCTGATATCGATGTTT
Found at i:38929481 original size:19 final size:19
Alignment explanation
Indices: 38929457--38929495 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
38929447 CTTCTTCACC
38929457 TATAAAATCAACATTGTAG
1 TATAAAATCAACATTGTAG
38929476 TATAAAATCAACATTGTAG
1 TATAAAATCAACATTGTAG
38929495 T
1 T
38929496 CAAACTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
TATAAAATCAACATTGTAG
Found at i:38932870 original size:22 final size:21
Alignment explanation
Indices: 38932841--38932948 Score: 79
Period size: 19 Copynumber: 5.3 Consensus size: 21
38932831 TTTTTATTTT
38932841 AAAA-ATTTTAAAAAATTAAA
1 AAAATATTTTAAAAAATTAAA
* **
38932861 AAATATATTTTGAAAATATTTTA
1 AAA-ATATTTT-AAAAAATTAAA
38932884 AAAATATTTT--AAAATTAAA
1 AAAATATTTTAAAAAATTAAA
*
38932903 AAAA-A--TTAAAAAAGTATGTAA
1 AAAATATTTTAAAAAA-T-T-AAA
38932924 AAAATATTTT--AAAATTAAA
1 AAAATATTTTAAAAAATTAAA
38932943 AAAATA
1 AAAATA
38932949 AATATATTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
16 2 0.03
18 5 0.07
19 19 0.28
20 5 0.07
21 8 0.12
22 17 0.25
23 11 0.16
24 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAATATTTTAAAAAATTAAA
Found at i:38932881 original size:11 final size:10
Alignment explanation
Indices: 38932835--38932898 Score: 58
Period size: 11 Copynumber: 6.1 Consensus size: 10
38932825 GGCTCATTTT
38932835 TATTTTAAAA
1 TATTTTAAAA
38932845 -ATTTTAAAA
1 TATTTTAAAA
* **
38932854 AATTAAAAAATA
1 TATT-TTAAA-A
38932866 TATTTTGAAAA
1 TATTTT-AAAA
38932877 TATTTTAAAAA
1 TATTTT-AAAA
38932888 TATTTTAAAA
1 TATTTTAAAA
38932898 T
1 T
38932899 TAAAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 9 0.20
10 8 0.18
11 20 0.45
12 7 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:38950009 original size:30 final size:30
Alignment explanation
Indices: 38949973--38950043 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
38949963 TAGATACATG
38949973 AACTTTGATTTGGTACAATTATACACATAA
1 AACTTTGATTTGGTACAATTATACACATAA
38950003 AACTTTGATTTGGTACAATTATACACATAA
1 AACTTTGATTTGGTACAATTATACACATAA
38950033 AACTTTGATTT
1 AACTTTGATTT
38950044 TAATTTAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (30 bp):
AACTTTGATTTGGTACAATTATACACATAA
Found at i:38952145 original size:8 final size:8
Alignment explanation
Indices: 38952130--38952159 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
38952120 CAAAAGACTT
38952130 ATATAAAA
1 ATATAAAA
*
38952138 AGATAAAA
1 ATATAAAA
38952146 ATATAAAA
1 ATATAAAA
38952154 ATATAA
1 ATATAA
38952160 GCATAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (8 bp):
ATATAAAA
Found at i:38954974 original size:10 final size:10
Alignment explanation
Indices: 38954959--38955020 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
38954949 TTTGAACCAT
*
38954959 TACCAATTCG
1 TACCAATTCA
*
38954969 TACCAAATACCA
1 TACC-AAT-TCA
*
38954981 TACCATTTCA
1 TACCAATTCA
38954991 TACCAATTCCA
1 TACCAATT-CA
* *
38955002 TACCATTTCG
1 TACCAATTCA
38955012 TACCAATTC
1 TACCAATTC
38955021 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:38955004 original size:21 final size:21
Alignment explanation
Indices: 38954959--38955021 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
38954949 TTTGAACCAT
* *
38954959 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
38954981 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
38955002 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
38955022 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:38955041 original size:10 final size:10
Alignment explanation
Indices: 38955026--38955054 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
38955016 AATTCCCAAA
38955026 TACCAAAACG
1 TACCAAAACG
38955036 TACCAAAACG
1 TACCAAAACG
38955046 TACCAAAAC
1 TACCAAAAC
38955055 CAAATACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.31, G:0.07, T:0.10
Consensus pattern (10 bp):
TACCAAAACG
Found at i:38956805 original size:36 final size:38
Alignment explanation
Indices: 38956753--38956842 Score: 121
Period size: 36 Copynumber: 2.4 Consensus size: 38
38956743 ATCCACTATC
* * * *
38956753 GTAGTGTGTAGTGTGGATGGGCCTACTATAG-CC-TTT
1 GTAGTGTGCAGGGTGGATGGGCCTACCATAGCCCAATT
*
38956789 GTGGTGTGCAGGGTGGATGGGCCTACCATAGCCCAATT
1 GTAGTGTGCAGGGTGGATGGGCCTACCATAGCCCAATT
38956827 GTAGTGTGCAGGGTGG
1 GTAGTGTGCAGGGTGG
38956843 TCGGAGTGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 27 0.59
37 2 0.04
38 17 0.37
ACGTcount: A:0.17, C:0.16, G:0.39, T:0.29
Consensus pattern (38 bp):
GTAGTGTGCAGGGTGGATGGGCCTACCATAGCCCAATT
Found at i:38958771 original size:11 final size:11
Alignment explanation
Indices: 38958757--38958795 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
38958747 GAACGAGCTC
38958757 ATTGAGCTAGA
1 ATTGAGCTAGA
38958768 ATTGAGCTA-A
1 ATTGAGCTAGA
*
38958778 ATTGAGCTCG-
1 ATTGAGCTAGA
38958788 ATTGAGCT
1 ATTGAGCT
38958796 GGATCGAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (11 bp):
ATTGAGCTAGA
Found at i:38958783 original size:21 final size:20
Alignment explanation
Indices: 38958757--38958795 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
38958747 GAACGAGCTC
38958757 ATTGAGCTAGAATTGAGCTAA
1 ATTGAGCTAG-ATTGAGCTAA
*
38958778 ATTGAGCTCGATTGAGCT
1 ATTGAGCTAGATTGAGCT
38958796 GGATCGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (20 bp):
ATTGAGCTAGATTGAGCTAA
Found at i:38960547 original size:17 final size:18
Alignment explanation
Indices: 38960525--38960558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38960515 TTTTTCTCTT
38960525 TCAATTT-TTTCTCAATC
1 TCAATTTCTTTCTCAATC
*
38960542 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTCTCAAT
38960559 TTTGTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTCTTTCTCAATC
Found at i:38960608 original size:30 final size:30
Alignment explanation
Indices: 38960572--38960647 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
38960562 GTTTTCTTTG
38960572 TTTTCTTTTTCTCTCACTTTTTCGA-TTTCT
1 TTTTCTTTTTCTCTCACTTTTT-GACTTTCT
* ** ** *
38960602 TTTTCTTTTGCAATTTCTTTTTTACTTTCT
1 TTTTCTTTTTCTCTCACTTTTTGACTTTCT
38960632 TTTTCTTTTTCTCTCA
1 TTTTCTTTTTCTCTCA
38960648 TTTCTTTTTT
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.68
Consensus pattern (30 bp):
TTTTCTTTTTCTCTCACTTTTTGACTTTCT
Found at i:38960657 original size:17 final size:17
Alignment explanation
Indices: 38960614--38960660 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
38960604 TTCTTTTGCA
* *
38960614 ATTTCTTTTTTACTTTC
1 ATTTCTTTTTTTCTCTC
38960631 -TTT-TTCTTTTTCTCTC
1 ATTTCTT-TTTTTCTCTC
38960647 ATTTCTTTTTTTCT
1 ATTTCTTTTTTTCT
38960661 TTTCTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 2 0.08
16 11 0.44
17 10 0.40
18 2 0.08
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTCTTTTTTTCTCTC
Found at i:38960672 original size:21 final size:21
Alignment explanation
Indices: 38960627--38960670 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
38960617 TCTTTTTTAC
38960627 TTTCTTTTTCTTTTTCTCTCA
1 TTTCTTTTTCTTTTTCTCTCA
38960648 TTTCTTTTT-TTCTTT-TCTCA
1 TTTCTTTTTCTT-TTTCTCTCA
38960668 TTT
1 TTT
38960671 TCATTCCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCTTTTTCTTTTTCTCTCA
Found at i:38961616 original size:3 final size:3
Alignment explanation
Indices: 38961608--38961656 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
38961598 AGAGAATGAA
38961608 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
38961655 AA
1 AA
38961657 AGAACTTGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:38961706 original size:10 final size:10
Alignment explanation
Indices: 38961691--38961717 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38961681 TCACTTCTTT
38961691 TTTTTTTGAA
1 TTTTTTTGAA
38961701 TTTTTTTGAA
1 TTTTTTTGAA
38961711 TTTTTTT
1 TTTTTTT
38961718 ATAATTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:38961743 original size:17 final size:18
Alignment explanation
Indices: 38961709--38961744 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38961699 AATTTTTTTG
*
38961709 AATTTTTTTATAATTTCA
1 AATTTTTTTATAACTTCA
38961727 AATTTTTTTAT-ACTTCA
1 AATTTTTTTATAACTTCA
38961744 A
1 A
38961745 TACAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTTTTTATAACTTCA
Found at i:38964566 original size:22 final size:21
Alignment explanation
Indices: 38964541--38964582 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
38964531 TTAAATAAAT
* *
38964541 TTTAGTTACTTTAGTTTAAGTA
1 TTTAATTAATTTAG-TTAAGTA
38964563 TTTAATTAATTTAGTTAAGT
1 TTTAATTAATTTAGTTAAGT
38964583 GTTAAATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTAATTAATTTAGTTAAGTA
Found at i:38966023 original size:17 final size:18
Alignment explanation
Indices: 38965982--38966023 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
38965972 CTTATTATTT
38965982 TATTGAAATATACAAAAA
1 TATTGAAATATACAAAAA
38966000 -ATTGAAAT-TA-AAAAA
1 TATTGAAATATACAAAAA
38966015 TATTAGAAA
1 TATT-GAAA
38966024 AAAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.23
16 5 0.23
17 12 0.55
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
TATTGAAATATACAAAAA
Found at i:38967440 original size:12 final size:12
Alignment explanation
Indices: 38967423--38967457 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
38967413 GATGGGAAGA
38967423 GAAAAATGAAAGT
1 GAAAAA-GAAAGT
*
38967436 GAAAAAGAAATT
1 GAAAAAGAAAGT
38967448 GAAAAAGAAA
1 GAAAAAGAAA
38967458 AAAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (12 bp):
GAAAAAGAAAGT
Found at i:38967468 original size:15 final size:15
Alignment explanation
Indices: 38967448--38967487 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
38967438 AAAAGAAATT
38967448 GAAAAAGAAAAAAAA
1 GAAAAAGAAAAAAAA
*
38967463 GAAAAAGAAGAAAAA
1 GAAAAAGAAAAAAAA
*
38967478 GAGAAAGAAA
1 GAAAAAGAAA
38967488 TTGAAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAAAAA
Found at i:38967559 original size:21 final size:21
Alignment explanation
Indices: 38967530--38967569 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38967520 GAAAGTATGC
* * *
38967530 AAGAGACGAGTGTTGTTGAAA
1 AAGAAACGAGAGTAGTTGAAA
38967551 AAGAAACGAGAGTAGTTGA
1 AAGAAACGAGAGTAGTTGA
38967570 GTTTTCTATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.33, T:0.20
Consensus pattern (21 bp):
AAGAAACGAGAGTAGTTGAAA
Found at i:38977135 original size:22 final size:21
Alignment explanation
Indices: 38977110--38977151 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
38977100 TTAAATAAAT
38977110 TTTAGTTAATTTAGTTTAAGTA
1 TTTAGTTAATTTAG-TTAAGTA
*
38977132 TTTAGTTAATTTTGTTAAGT
1 TTTAGTTAATTTAGTTAAGT
38977152 GTTAAATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (21 bp):
TTTAGTTAATTTAGTTAAGTA
Found at i:38983152 original size:37 final size:37
Alignment explanation
Indices: 38983110--38983184 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
38983100 CCAATCAATA
38983110 AATCTCTATAGATTTCAAGAAAAACTCTTAAAACATC
1 AATCTCTATAGATTTCAAGAAAAACTCTTAAAACATC
38983147 AATCTCTATAGATTTCAAGAAAAACTCTTAAAACATC
1 AATCTCTATAGATTTCAAGAAAAACTCTTAAAACATC
38983184 A
1 A
38983185 TTAATTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.29
Consensus pattern (37 bp):
AATCTCTATAGATTTCAAGAAAAACTCTTAAAACATC
Found at i:38987606 original size:36 final size:36
Alignment explanation
Indices: 38987538--38987606 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
38987528 ATGACTAAAC
* *
38987538 AATTCAATAAAATAAATAGTACAAAATGTGAAATGT
1 AATTCAATAAAATAAATAGAACAAAATATGAAATGT
*
38987574 AATTCAATAATATAAATA-AACATAAATATGAAA
1 AATTCAATAAAATAAATAGAACA-AAATATGAAA
38987607 AAAAAATTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 3 0.10
36 26 0.90
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.28
Consensus pattern (36 bp):
AATTCAATAAAATAAATAGAACAAAATATGAAATGT
Found at i:39005002 original size:26 final size:24
Alignment explanation
Indices: 39004949--39005002 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
39004939 TATCATTTTA
* *
39004949 ATGTTATTTAAATTGAATGTTATT
1 ATGTTATTTAAATTGAATGTGATG
39004973 ATGTTATTTATAATGTGAATG-GATCG
1 ATGTTATTTA-AAT-TGAATGTGAT-G
39004999 ATGT
1 ATGT
39005003 ATAAACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 10 0.40
25 5 0.20
26 10 0.40
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (24 bp):
ATGTTATTTAAATTGAATGTGATG
Found at i:39005113 original size:93 final size:93
Alignment explanation
Indices: 39004954--39005138 Score: 352
Period size: 93 Copynumber: 2.0 Consensus size: 93
39004944 TTTTAATGTT
39004954 ATTTAAATTGAATGTTATTATGTTATTTATAATGTGAATGGATCGATGTATAAACATATCAATGC
1 ATTTAAATTGAATGTTATTATGTTATTTATAATGTGAATGGATCGATGTATAAACATATCAATGC
* *
39005019 TATGTTGGATATCGAGTCTCGGTTGAAA
66 TATGTCGGATATCCAGTCTCGGTTGAAA
39005047 ATTTAAATTGAATGTTATTATGTTATTTATAATGTGAATGGATCGATGTATAAACATATCAATGC
1 ATTTAAATTGAATGTTATTATGTTATTTATAATGTGAATGGATCGATGTATAAACATATCAATGC
39005112 TATGTCGGATATCCAGTCTCGGTTGAA
66 TATGTCGGATATCCAGTCTCGGTTGAA
39005139 CCTTAGGAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (93 bp):
ATTTAAATTGAATGTTATTATGTTATTTATAATGTGAATGGATCGATGTATAAACATATCAATGC
TATGTCGGATATCCAGTCTCGGTTGAAA
Found at i:39006470 original size:25 final size:25
Alignment explanation
Indices: 39006431--39006488 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
39006421 TCAGAGAGTT
*
39006431 ACACGGCCTGACACATAGGG-ATGTG
1 ACACGGCTTGACACAT-GGGCATGTG
* *
39006456 ACACGGCTTGGCACATGGGCGTGTG
1 ACACGGCTTGACACATGGGCATGTG
39006481 ACACGGCT
1 ACACGGCT
39006489 GTGTGACCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.22, C:0.26, G:0.34, T:0.17
Consensus pattern (25 bp):
ACACGGCTTGACACATGGGCATGTG
Found at i:39009898 original size:6 final size:6
Alignment explanation
Indices: 39009806--39009886 Score: 65
Period size: 6 Copynumber: 12.7 Consensus size: 6
39009796 GAAGTCTAAG
* * *
39009806 AAAATA AAAATA AAAATAA AACAACCA AAAGAAA AAAATA AAAATA AACATA
1 AAAATA AAAATA AAAAT-A AA-AA-TA AAA-ATA AAAATA AAAATA AAAATA
*
39009858 AAAATA AAAA-A GAAAACTA AAAAGA AAAA
1 AAAATA AAAATA -AAAA-TA AAAATA AAAA
39009887 AATAAAACTA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
5 1 0.02
6 42 0.68
7 12 0.19
8 7 0.11
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (6 bp):
AAAATA
Found at i:39011547 original size:28 final size:28
Alignment explanation
Indices: 39011506--39011571 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
39011496 AATGAAACAC
39011506 ATAA-AAATAAGAATAAGAAA-AAAAATA
1 ATAATAAATAAGAAT-AGAAATAAAAATA
*
39011533 GA-AATAAATAAGAATAGAAATAATAATA
1 -ATAATAAATAAGAATAGAAATAAAAATA
39011561 ATAATAAATAA
1 ATAATAAATAA
39011572 ATAAAATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (28 bp):
ATAATAAATAAGAATAGAAATAAAAATA
Found at i:39011550 original size:16 final size:15
Alignment explanation
Indices: 39011527--39011597 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 15
39011517 AATAAGAAAA
39011527 AAAATAGAAATAAAT
1 AAAATAGAAATAAAT
39011542 AAGAATAGAAAT-AAT
1 AA-AATAGAAATAAAT
*
39011557 AATAATAATAAATAAAT
1 AA-AAT-AGAAATAAAT
39011574 AAAATATGTAAATAAAAT
1 AAAATA-G-AAAT-AAAT
39011592 AAAATA
1 AAAATA
39011598 AGGAAAAAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
15 11 0.23
16 17 0.36
17 9 0.19
18 10 0.21
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (15 bp):
AAAATAGAAATAAAT
Found at i:39011587 original size:49 final size:46
Alignment explanation
Indices: 39011506--39011597 Score: 107
Period size: 46 Copynumber: 1.9 Consensus size: 46
39011496 AATGAAACAC
39011506 ATAAAAATAAGAATAAGAAAAAAAATAGAAAT-AAATAAGAATAGAA
1 ATAAAAATAAGAATAAGAAAAAAAATAGAAATAAAATAA-AATAGAA
* *
39011552 ATAATAATAATAATAA-ATAAATAAAATATGTAAATAAAATAAAATA
1 ATAAAAATAAGAATAAGA-AAA-AAAATA-G-AAATAAAATAAAATA
39011598 AGGAAAAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
45 1 0.03
46 17 0.44
47 6 0.15
48 1 0.03
49 8 0.21
50 6 0.15
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (46 bp):
ATAAAAATAAGAATAAGAAAAAAAATAGAAATAAAATAAAATAGAA
Found at i:39013453 original size:17 final size:17
Alignment explanation
Indices: 39013431--39013469 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
39013421 ATGGATTTTC
39013431 CCTTGAAGAACTTTCAA
1 CCTTGAAGAACTTTCAA
39013448 CCTTGAAGAACTTTCAA
1 CCTTGAAGAACTTTCAA
39013465 CCTTG
1 CCTTG
39013470 CATTCAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (17 bp):
CCTTGAAGAACTTTCAA
Found at i:39019781 original size:28 final size:28
Alignment explanation
Indices: 39019741--39019799 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
39019731 ATTAAGTGGG
39019741 CTAAAATTGGGCCTAGTAGTGTCACACC
1 CTAAAATTGGGCCTAGTAGTGTCACACC
39019769 CTAAAATTGGGCCTAGTAGTGTCACACC
1 CTAAAATTGGGCCTAGTAGTGTCACACC
39019797 CTA
1 CTA
39019800 CAATGAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (28 bp):
CTAAAATTGGGCCTAGTAGTGTCACACC
Found at i:39023146 original size:29 final size:29
Alignment explanation
Indices: 39023091--39023146 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
39023081 TACATTATGT
**
39023091 TTAAACAAGCCCTTAACCTATTTTTTTAG
1 TTAAACAAGCCCTTAACCTATGATTTTAG
* *
39023120 TTAAATAAGCCCTTAACTTATGATTTT
1 TTAAACAAGCCCTTAACCTATGATTTT
39023147 TACTCATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (29 bp):
TTAAACAAGCCCTTAACCTATGATTTTAG
Found at i:39031076 original size:16 final size:16
Alignment explanation
Indices: 39031043--39031076 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39031033 GGAAATCAAT
*
39031043 CAATTTTTAGAAAGCC
1 CAATTTTTAGAAAACC
*
39031059 CAATTTTTATAAAACC
1 CAATTTTTAGAAAACC
39031075 CA
1 CA
39031077 TAATCCACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (16 bp):
CAATTTTTAGAAAACC
Found at i:39031785 original size:40 final size:39
Alignment explanation
Indices: 39031709--39031785 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
39031699 GAATCAGTTT
**
39031709 GGGCCTTAGCCCATTCAGATACAGTCTTAGAAATACATTA
1 GGGCCTTAGCCCATTCAGATACAGAATTAG-AATACATTA
*
39031749 GGGCCTTGGCCCATATCAGATACAGAATGTAG-ATACA
1 GGGCCTTAGCCCAT-TCAGATACAGAAT-TAGAATACA
39031786 GGAAACCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 18 0.56
41 11 0.34
42 3 0.09
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (39 bp):
GGGCCTTAGCCCATTCAGATACAGAATTAGAATACATTA
Found at i:39033456 original size:16 final size:16
Alignment explanation
Indices: 39033423--39033456 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39033413 GGAAATCAAT
*
39033423 CAATTTTTAGAAAGCC
1 CAATTTTTAGAAAACC
*
39033439 CAATTTTTATAAAACC
1 CAATTTTTAGAAAACC
39033455 CA
1 CA
39033457 TAATCCACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (16 bp):
CAATTTTTAGAAAACC
Found at i:39063091 original size:27 final size:27
Alignment explanation
Indices: 39063061--39063310 Score: 360
Period size: 27 Copynumber: 9.3 Consensus size: 27
39063051 CTAAAATAGA
39063061 TAAAATGACCAAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
39063088 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
39063115 TAAAATGATCAAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
** * *
39063142 TAAAATGACTGAAATACCCTCATA-AG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
39063168 TAAAATAACCGAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
*
39063195 TAAAATGACCAAAATACCACCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
39063222 TAAAATGACCAAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
39063249 TAAAA-GGCCGAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
*
39063275 TAAAATGACCAAAATACCCCCACAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
39063302 TAAAATGAC
1 TAAAATGAC
39063311 TGTTATACCC
Statistics
Matches: 200, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 46 0.23
27 154 0.77
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCCCATAGGG
Found at i:39063186 original size:80 final size:80
Alignment explanation
Indices: 39063061--39063310 Score: 378
Period size: 80 Copynumber: 3.1 Consensus size: 80
39063051 CTAAAATAGA
* *
39063061 TAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCA
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCA
39063126 AAATACCCTCATAGGG
66 AAATACCC-CATAGGG
** * * *
39063142 TAAAATGACTGAAATACCCTCATA-AGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCA
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCA
39063206 AAATACCACCATAGGG
66 AAATACC-CCATAGGG
*
39063222 TAAAATGACCAAAATACCCCCATAGGGTAAAA-GGCCGAAATACCCCCATAGGGTAAAATGACCA
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCA
*
39063286 AAATACCCCCACAGGG
66 AAATA-CCCCATAGGG
39063302 TAAAATGAC
1 TAAAATGAC
39063311 TGTTATACCC
Statistics
Matches: 152, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
80 122 0.80
81 30 0.20
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (80 bp):
TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCA
AAATACCCCATAGGG
Found at i:39063247 original size:107 final size:107
Alignment explanation
Indices: 39063056--39063310 Score: 379
Period size: 107 Copynumber: 2.4 Consensus size: 107
39063046 AGACCCTAAA
* * *
39063056 ATAGA-TAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAA
1 ATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAATACCACCATAGGGTAAAA
* * * *
39063120 TGATCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCTC
66 TGACCAAAATACCCCCATAGGGTAAAA-GACCGAAATACCCCC
* *
39063163 ATA-AGTAAAATAACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCACCATAGGGTAAAA
1 ATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAATACCACCATAGGGTAAAA
*
39063227 TGACCAAAATACCCCCATAGGGTAAAAGGCCGAAATACCCCC
66 TGACCAAAATACCCCCATAGGGTAAAAGACCGAAATACCCCC
* *
39063269 ATAGGGTAAAATGACCAAAATACCCCCACAGGGTAAAATGAC
1 ATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
39063311 TGTTATACCC
Statistics
Matches: 132, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
106 16 0.12
107 116 0.88
ACGTcount: A:0.45, C:0.23, G:0.16, T:0.16
Consensus pattern (107 bp):
ATAGAGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCAAAATACCACCATAGGGTAAAA
TGACCAAAATACCCCCATAGGGTAAAAGACCGAAATACCCCC
Found at i:39065363 original size:40 final size:40
Alignment explanation
Indices: 39065318--39065395 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
39065308 ATTAATGCAA
39065318 AATTGTGCTACATC-AATTAAATTGCATAGGTAATTACATT
1 AATTGTGCTACA-CAAATTAAATTGCATAGGTAATTACATT
* * * *
39065358 AATTGTGGTGCACAAATTATATTGCATGGGTAATTACA
1 AATTGTGCTACACAAATTAAATTGCATAGGTAATTACA
39065396 ATAAAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (40 bp):
AATTGTGCTACACAAATTAAATTGCATAGGTAATTACATT
Found at i:39066871 original size:11 final size:11
Alignment explanation
Indices: 39066846--39066877 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
39066836 TTATAAGTAT
39066846 TAATTCATAATA
1 TAATTCAT-ATA
39066858 TAATTCATATA
1 TAATTCATATA
39066869 TAATTCATA
1 TAATTCATA
39066878 ATCCAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATTCATATA
Done.