Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 154 of 208
Found at i:46901758 original size:3 final size:3
Alignment explanation
Indices: 46901750--46901774 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46901740 ATTAAATTTA
46901750 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
46901775 GATGAATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:46903663 original size:87 final size:87
Alignment explanation
Indices: 46903511--46903671 Score: 232
Period size: 87 Copynumber: 1.9 Consensus size: 87
46903501 TTAAAATTAA
* * * *
46903511 GTGAATTCATCAAGTCCGCCTCAATAGAACCACCCAAACTCTGGGATATGAATTCATTTAGAGTA
1 GTGAATTCATCAAGTCCACCTCAATAGAACCACCCAAACTCTGGGATATGAACTCATTAAAAGTA
46903576 AAAAACTCAACCTCACACATCG
66 AAAAACTCAACCTCACACATCG
* * * * *
46903598 GTGAATTCATCAAGTTCATCTCACTAGAACCACCCAAACTTTGGGCTATGAACTCATTAAAAGTA
1 GTGAATTCATCAAGTCCACCTCAATAGAACCACCCAAACTCTGGGATATGAACTCATTAAAAGTA
*
46903663 AAAAGCTCA
66 AAAAACTCA
46903672 TCCTTATGCA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 64 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (87 bp):
GTGAATTCATCAAGTCCACCTCAATAGAACCACCCAAACTCTGGGATATGAACTCATTAAAAGTA
AAAAACTCAACCTCACACATCG
Found at i:46907951 original size:16 final size:16
Alignment explanation
Indices: 46907930--46907961 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46907920 AATAAGAATT
46907930 AGTTATGACCACCATA
1 AGTTATGACCACCATA
46907946 AGTTATGACCACCATA
1 AGTTATGACCACCATA
46907962 GCAAGCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
AGTTATGACCACCATA
Found at i:46908469 original size:15 final size:14
Alignment explanation
Indices: 46908439--46908473 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
46908429 GTTTGCATGT
46908439 AAAATGATTTTCGA
1 AAAATGATTTTCGA
* *
46908453 AAAATGATTTTTGG
1 AAAATGATTTTCGA
46908467 AAAATGA
1 AAAATGA
46908474 GTTACTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (14 bp):
AAAATGATTTTCGA
Found at i:46911118 original size:24 final size:24
Alignment explanation
Indices: 46911069--46911222 Score: 114
Period size: 24 Copynumber: 6.4 Consensus size: 24
46911059 TAAGCACATA
* * **
46911069 AACGGAAAGCTCTGGAGAGCTGTT
1 AACGGGAAGCTCTAGAGAGCCATT
*
46911093 AACGGGAAGCTCTGGAGAGCCATT
1 AACGGGAAGCTCTAGAGAGCCATT
* * *
46911117 AACGAGAAGCTCATA-CGAGCCAAT
1 AACGGGAAGCTC-TAGAGAGCCATT
* * * *
46911141 ATCGGGAAGGTTCAAGCA-AGCCAAT
1 AACGGGAA-GCTCTAG-AGAGCCATT
* * *
46911166 ATCGAGAAGCTCTAGAGATCCATT
1 AACGGGAAGCTCTAGAGAGCCATT
*
46911190 AACAGGAAGCTCTAGAGAGCCATT
1 AACGGGAAGCTCTAGAGAGCCATT
*
46911214 AACGAGAAG
1 AACGGGAAG
46911223 GTCACAAAGA
Statistics
Matches: 102, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.01
24 83 0.81
25 18 0.18
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (24 bp):
AACGGGAAGCTCTAGAGAGCCATT
Found at i:46911240 original size:25 final size:27
Alignment explanation
Indices: 46911205--46911263 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
46911195 GAAGCTCTAG
*
46911205 AGAGCCATTAA-CGAGAAGGTCAC-AA
1 AGAGCCATTAATCGAGAAGCTCACGAA
*
46911230 AGAGCCTTTAATCGAGAAGCTCACGAA
1 AGAGCCATTAATCGAGAAGCTCACGAA
46911257 A-AGCCAT
1 AGAGCCAT
46911264 ATATCGGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 10 0.34
26 16 0.55
27 3 0.10
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (27 bp):
AGAGCCATTAATCGAGAAGCTCACGAA
Found at i:46911358 original size:24 final size:24
Alignment explanation
Indices: 46911325--46911399 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
46911315 ACAACTAAAT
*
46911325 CGGGATGCTCCGAAGAGCTATTAA
1 CGGGAAGCTCCGAAGAGCTATTAA
46911349 CGGGAAGCT-CGCAAGAAGC-ATATAA
1 CGGGAAGCTCCG-AAG-AGCTAT-TAA
** *
46911374 CGGGAAGCTCATAAGAGCTAATAA
1 CGGGAAGCTCCGAAGAGCTATTAA
46911398 CG
1 CG
46911400 AGACACTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 2 0.05
24 21 0.50
25 19 0.45
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCCGAAGAGCTATTAA
Found at i:46914322 original size:52 final size:50
Alignment explanation
Indices: 46914226--46914340 Score: 160
Period size: 52 Copynumber: 2.3 Consensus size: 50
46914216 TGTCCTAGTT
* *
46914226 ATATAAACATAAAAAATTAAAAAATTATTATTATTAACAACTTAATAAGG
1 ATATAAACATAAAAAATTAAAAAATTAATAATATTAACAACTTAATAAGG
* *
46914276 ATATAAACATAAAAATTTTAAAAAATATAATAATATTAACAACTTAATAATG
1 ATATAAACATAAAAA-ATTAAAAAAT-TAATAATATTAACAACTTAATAAGG
*
46914328 ATATTAAC-TAAAA
1 ATATAAACATAAAA
46914341 TAAAAATATT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 15 0.26
51 14 0.24
52 29 0.50
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (50 bp):
ATATAAACATAAAAAATTAAAAAATTAATAATATTAACAACTTAATAAGG
Found at i:46914666 original size:14 final size:14
Alignment explanation
Indices: 46914647--46914685 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
46914637 ATTAAGATAG
46914647 AAAATTGAGAGAAA
1 AAAATTGAGAGAAA
*
46914661 AAAATTTA-AGAAA
1 AAAATTGAGAGAAA
*
46914674 AAAAATGAGAGA
1 AAAATTGAGAGA
46914686 TTAGAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
AAAATTGAGAGAAA
Found at i:46916881 original size:25 final size:25
Alignment explanation
Indices: 46916852--46916901 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
46916842 TATTTTGTAA
46916852 AAATA-TATAAAATTTGAAACATTAT
1 AAATATTATAAAATTTGAAA-ATTAT
* *
46916877 AAATATTTTGAAATTTGAAAATTAT
1 AAATATTATAAAATTTGAAAATTAT
46916902 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
AAATATTATAAAATTTGAAAATTAT
Found at i:46916886 original size:19 final size:20
Alignment explanation
Indices: 46916841--46916889 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
46916831 TAGAATTTTT
46916841 ATATTTTGTAAAAATATATAA
1 ATATTTTG-AAAAATATATAA
*
46916862 A-A-TTTGAAACAT-TATAA
1 ATATTTTGAAAAATATATAA
46916879 ATATTTTGAAA
1 ATATTTTGAAA
46916890 TTTGAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 6 0.24
18 6 0.24
19 11 0.44
20 1 0.04
21 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (20 bp):
ATATTTTGAAAAATATATAA
Found at i:46924927 original size:19 final size:21
Alignment explanation
Indices: 46924871--46924927 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
46924861 CTTTCTGTTA
* *
46924871 AGCTCTTATGAGCTTCTTTTT
1 AGCTCTTACGAGCTTCTATTT
*
46924892 AGCTCTTACGAGATTCTATTT
1 AGCTCTTACGAGCTTCTATTT
46924913 AGCT-TT-CGAGCTTCT
1 AGCTCTTACGAGCTTCT
46924928 GTTGGCGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 22 0.69
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.46
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTATTT
Found at i:46926502 original size:20 final size:20
Alignment explanation
Indices: 46926464--46926503 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46926454 AGGCAACCCA
*
46926464 CATTTATTTTTATTTATTTT
1 CATTTATTTTAATTTATTTT
46926484 CATTTA-TTTAATTTAATTTT
1 CATTTATTTTAATTT-ATTTT
46926504 GAATTCTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTATTTTAATTTATTTT
Found at i:46927041 original size:32 final size:32
Alignment explanation
Indices: 46926997--46927068 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
46926987 GGTTTTGTTG
*
46926997 AATTTGCCTAATGAAAGTACTCGTTTTAAAAA
1 AATTTGCTTAATGAAAGTACTCGTTTTAAAAA
46927029 AATTTGCTTAATGAAAGTACTCGTTTTAAAAA
1 AATTTGCTTAATGAAAGTACTCGTTTTAAAAA
46927061 AATTTGCT
1 AATTTGCT
46927069 AATAGTTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (32 bp):
AATTTGCTTAATGAAAGTACTCGTTTTAAAAA
Found at i:46927522 original size:26 final size:29
Alignment explanation
Indices: 46927479--46927533 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
46927469 CATAAAACCC
*
46927479 AATTACAACCCAAACCC-AAGACCCAACA
1 AATTACAACCCAAACCCAAACACCCAACA
*
46927507 AATTA-AA-CCAAGCCCAAACACCCAACA
1 AATTACAACCCAAACCCAAACACCCAACA
46927534 GGCCCAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.51, C:0.38, G:0.04, T:0.07
Consensus pattern (29 bp):
AATTACAACCCAAACCCAAACACCCAACA
Found at i:46927807 original size:12 final size:11
Alignment explanation
Indices: 46927774--46927816 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
46927764 TCCCCAGGGG
46927774 GCTTTTTTTTT
1 GCTTTTTTTTT
* *
46927785 CCCTTTTTTTT
1 GCTTTTTTTTT
46927796 GCTTTTTCTTTT
1 GCTTTTT-TTTT
*
46927808 GGTTTTTTT
1 GCTTTTTTT
46927817 CTTTTCATCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (11 bp):
GCTTTTTTTTT
Found at i:46928653 original size:3 final size:3
Alignment explanation
Indices: 46928645--46928704 Score: 102
Period size: 3 Copynumber: 19.7 Consensus size: 3
46928635 AATAATTTGA
46928645 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
46928693 CAT TATT TAT TA
1 TAT TA-T TAT TA
46928705 GTTTTATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:46929031 original size:15 final size:14
Alignment explanation
Indices: 46929007--46929040 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
46928997 TACCTACGTA
*
46929007 TATATGTACATATTT
1 TATATATACATA-TT
46929022 TATATATACATATT
1 TATATATACATATT
46929036 TATAT
1 TATAT
46929041 CTTCTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (14 bp):
TATATATACATATT
Found at i:46930097 original size:2 final size:2
Alignment explanation
Indices: 46930044--46930081 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
46930034 GTGTCAACAG
46930044 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
46930082 AATAAAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46930686 original size:13 final size:13
Alignment explanation
Indices: 46930668--46930710 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
46930658 AAATTTGAAT
46930668 TATTTAGTGATAA
1 TATTTAGTGATAA
46930681 TATTTAG-GAT--
1 TATTTAGTGATAA
*
46930691 TATTTAGTAATAA
1 TATTTAGTGATAA
46930704 TATTTAG
1 TATTTAG
46930711 AAAAAATAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 3 0.12
13 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:46930692 original size:23 final size:23
Alignment explanation
Indices: 46930666--46930710 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
46930656 TAAAATTTGA
*
46930666 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTAATAATATTTAGG
46930689 ATTATTTAGTAATAATATTTAG
1 ATTATTTAGTAATAATATTTAG
46930711 AAAAAATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTATTTAGTAATAATATTTAGG
Found at i:46936152 original size:25 final size:24
Alignment explanation
Indices: 46936126--46936173 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
46936116 TATAAAAAAA
*
46936126 TTGACAAAAATAAAAGATGATTAAAT
1 TTGA-AAAAATAAAAAAT-ATTAAAT
*
46936152 TTTAAAAAATAAAAAATATTAA
1 TTGAAAAAATAAAAAATATTAA
46936174 TAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 12 0.60
26 3 0.15
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (24 bp):
TTGAAAAAATAAAAAATATTAAAT
Found at i:46947891 original size:33 final size:33
Alignment explanation
Indices: 46947848--46947914 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
46947838 CAAAATATTT
46947848 TCCACTATGGTGACATCCTTCATCTTTTCACCA
1 TCCACTATGGTGACATCCTTCATCTTTTCACCA
* *
46947881 TCCATTATGGTGGCATCCTTCATCTTTTCACCA
1 TCCACTATGGTGACATCCTTCATCTTTTCACCA
46947914 T
1 T
46947915 GGAACCACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.19, C:0.31, G:0.10, T:0.39
Consensus pattern (33 bp):
TCCACTATGGTGACATCCTTCATCTTTTCACCA
Found at i:46951259 original size:24 final size:24
Alignment explanation
Indices: 46951226--46951294 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
46951216 AAATAATAAT
46951226 AATAATAATACAGT-ATAACTTTTA-
1 AATAATAATACA-TAATAA-TTTTAG
*
46951250 AGTAATAATACATAATAATTTTAG
1 AATAATAATACATAATAATTTTAG
*
46951274 AATAATAATACACAATAATTT
1 AATAATAATACATAATAATTT
46951295 CAAAAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
23 6 0.15
24 34 0.85
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.36
Consensus pattern (24 bp):
AATAATAATACATAATAATTTTAG
Found at i:46953223 original size:46 final size:46
Alignment explanation
Indices: 46953153--46953452 Score: 498
Period size: 46 Copynumber: 6.6 Consensus size: 46
46953143 TACGTATGAT
*
46953153 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
46953197 CACTTATCTCTTTATCACTTGATCAGATAAGTGTAGCTAAGTCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
46953243 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
46953289 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCGAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
46953335 CACTTATCACTTTGTCACTTGATCAGATAAGTGTCGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
46953381 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
46953427 CACTTATCACTTTGCCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
46953453 AGTACTCAAA
Statistics
Matches: 239, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
44 9 0.04
45 12 0.05
46 218 0.91
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:46959418 original size:16 final size:15
Alignment explanation
Indices: 46959391--46959434 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
46959381 ATGTACAATA
46959391 AATATATAAAATTAAT
1 AATAT-TAAAATTAAT
*
46959407 AATTATTAAAATCAAT
1 AA-TATTAAAATTAAT
*
46959423 AAAATTAAAATT
1 AATATTAAAATT
46959435 TAATGATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.33
16 13 0.54
17 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
AATATTAAAATTAAT
Found at i:46960102 original size:18 final size:18
Alignment explanation
Indices: 46960079--46960113 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46960069 AATTTAACTT
46960079 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
* *
46960097 TAATTAATTTTTTTAAA
1 TAATTAAATTATTTAAA
46960114 TTATAAACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:46962660 original size:208 final size:208
Alignment explanation
Indices: 46962298--46962710 Score: 718
Period size: 208 Copynumber: 2.0 Consensus size: 208
46962288 ACACTTAACC
* *
46962298 ACTGAAGAATATATACATTTGTGTTAGATATTTTCAGAAAAAAATAAATTATTCAGGGTGTTACA
1 ACTGAAGAATATATACATTTGTGTTAGATATTTACAGAAAAAAATAAATTATTCAAGGTGTTACA
* * *
46962363 AATCTACCTTTAAAAGAAATTTCTACCTCGAAATTTACTTGATCAGAACAGACAAGGATTCTGCT
66 AATCTACCCTTAAAAGAAATTTCTACCTCGAAATTTACCTGATCAAAACAGACAAGGATTCTGCT
* *
46962428 GACGCATCGAGTCCTCAAGTTCCCACGTGGCTCCCTCAGTGCCATGATTTTGCCACAAAACCTTC
131 GACGCATCGAGTCCTCAAGTTCCCACGTGGCTCCCTCAATGCCATGATTCTGCCACAAAACCTTC
46962493 ACTAACAGGAACT
196 ACTAACAGGAACT
*
46962506 ACTGAAGCATATATACATTTGTGTTAGATATTTACAGAAAAAAATAAATTATTCAAGGTGTTACA
1 ACTGAAGAATATATACATTTGTGTTAGATATTTACAGAAAAAAATAAATTATTCAAGGTGTTACA
* *
46962571 AGTCTACCCTTAAAAGAAATTTCTACCTCGAAATTTACCTGATCAAAACAGACGAGGATTCTGCT
66 AATCTACCCTTAAAAGAAATTTCTACCTCGAAATTTACCTGATCAAAACAGACAAGGATTCTGCT
* *
46962636 GACGCATCGAGTCCTCAGGTTCCCACGTGGCTCCCTCAATGCCATGATTCTGCCACAGAACCTTC
131 GACGCATCGAGTCCTCAAGTTCCCACGTGGCTCCCTCAATGCCATGATTCTGCCACAAAACCTTC
46962701 ACTAACAGGA
196 ACTAACAGGA
46962711 TGGACTTCCT
Statistics
Matches: 193, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
208 193 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (208 bp):
ACTGAAGAATATATACATTTGTGTTAGATATTTACAGAAAAAAATAAATTATTCAAGGTGTTACA
AATCTACCCTTAAAAGAAATTTCTACCTCGAAATTTACCTGATCAAAACAGACAAGGATTCTGCT
GACGCATCGAGTCCTCAAGTTCCCACGTGGCTCCCTCAATGCCATGATTCTGCCACAAAACCTTC
ACTAACAGGAACT
Found at i:46968031 original size:12 final size:12
Alignment explanation
Indices: 46968014--46968038 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46968004 ACACAGTCAA
46968014 ATTCAAATTCAG
1 ATTCAAATTCAG
46968026 ATTCAAATTCAG
1 ATTCAAATTCAG
46968038 A
1 A
46968039 CTCGGACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTCAAATTCAG
Found at i:46968313 original size:13 final size:13
Alignment explanation
Indices: 46968295--46968333 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
46968285 ATTTTATCCC
46968295 AAATACAGATACA
1 AAATACAGATACA
* *
46968308 AAATACAGGTAGA
1 AAATACAGATACA
46968321 AAATACAGATACA
1 AAATACAGATACA
46968334 GGAATTACAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.59, C:0.13, G:0.13, T:0.15
Consensus pattern (13 bp):
AAATACAGATACA
Found at i:46969328 original size:17 final size:17
Alignment explanation
Indices: 46969308--46969340 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46969298 ACGAATTTTG
46969308 AAAAA-AAAAAGCAAAAT
1 AAAAATAAAAA-CAAAAT
46969325 AAAAATAAAAACAAAA
1 AAAAATAAAAACAAAA
46969341 CCTGATAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (17 bp):
AAAAATAAAAACAAAAT
Found at i:46969899 original size:14 final size:14
Alignment explanation
Indices: 46969866--46969904 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
46969856 CCAGAACCCC
46969866 AAATCTTGAA-CTT
1 AAATCTTGAACCTT
*
46969879 GAATCTTGAACCTT
1 AAATCTTGAACCTT
46969893 AAATCTTGAACC
1 AAATCTTGAACC
46969905 CCGAGGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (14 bp):
AAATCTTGAACCTT
Found at i:46972922 original size:134 final size:135
Alignment explanation
Indices: 46972675--46973076 Score: 655
Period size: 134 Copynumber: 3.0 Consensus size: 135
46972665 CCGAAAACCC
* * *
46972675 AGAGAATTTTTTCCAAAATTTTAAAATTTTTCTTAGGTGCAAGGGACATACGCCCGTGTGGCCAG
1 AGAGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCCCGTGTGGCCAG
* *
46972740 GTCGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGCCGTGTGGGCATTCGATGTGAG
66 GCCGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGTCGTGTGGGCATTCGATGTGAG
46972805 GCACG
131 GCACG
*
46972810 A-AGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCTCGTGTGGCCAG
1 AGAGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCCCGTGTGGCCAG
* * *
46972874 GCCATGTGGTTCACATGGTCGAGAGGCACGCCCGTGTCTTAGGTCGTGTGGGCATTCGATGTAAG
66 GCCGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGTCGTGTGGGCATTCGATGTGAG
*
46972939 GCA-T
131 GCACG
* *
46972943 AGAGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGTAAGGGACACATGCCCGTGTGGCCAG
1 AGAGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCCCGTGTGGCCAG
** *
46973008 GCCGTGTGGTTCACAACGCCGAGAGGCACACCCGTGTCTTAGGTCGTGTGGGCATTCGATGTGAG
66 GCCGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGTCGTGTGGGCATTCGATGTGAG
46973073 GCAC
131 GCAC
46973077 ACGACCGTGT
Statistics
Matches: 246, Mismatches: 19, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
133 1 0.00
134 244 0.99
135 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (135 bp):
AGAGAATTTTTCCCAAAATTTTAAAATTTTCCTTAGGTGCAAGGGACACACGCCCGTGTGGCCAG
GCCGTGTGGTTCACATGGCCGAGAGGCACGCCCGTGTCTTAGGTCGTGTGGGCATTCGATGTGAG
GCACG
Found at i:46974267 original size:63 final size:63
Alignment explanation
Indices: 46974114--46974270 Score: 165
Period size: 63 Copynumber: 2.5 Consensus size: 63
46974104 GCTCGAAGAC
* * * * **
46974114 TAAACAGAAGCACATAAGTGCTAAAC-AAAGACCCATAAGGGTTGAATGGAAACCCATAAGGAT
1 TAAACAAAAGCTCAAAAGTGCTAAACGGAA-ACCCATAAGGGTTGAACAGAAACCCATAAGGAT
* * * *
46974177 TAAACAAAAGCTCAAAAGAGCTGAACGGAAACCCATTAGGGTTGAACAGAAACTCAT-AGGAAT
1 TAAACAAAAGCTCAAAAGTGCTAAACGGAAACCCATAAGGGTTGAACAGAAACCCATAAGG-AT
***
46974240 TAAACAAAAGCTCGTGAGTGCTAAACGGAAA
1 TAAACAAAAGCTCAAAAGTGCTAAACGGAAA
46974271 GTAAAAATGA
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
62 3 0.04
63 72 0.94
64 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (63 bp):
TAAACAAAAGCTCAAAAGTGCTAAACGGAAACCCATAAGGGTTGAACAGAAACCCATAAGGAT
Found at i:46977006 original size:11 final size:11
Alignment explanation
Indices: 46976990--46977084 Score: 51
Period size: 11 Copynumber: 8.9 Consensus size: 11
46976980 TTAAAAAGAG
46976990 TATTTTAAAAA
1 TATTTTAAAAA
46977001 TATTTT--AAA
1 TATTTTAAAAA
46977010 -A--TTAAAAA
1 TATTTTAAAAA
*
46977018 GCATTTTAAAAA
1 -TATTTTAAAAA
*
46977030 TATTTTATTTAAA
1 TATTTTA--AAAA
*
46977043 -A-TTAAAAAA
1 TATTTTAAAAA
* **
46977052 TAATAAAAAAA
1 TATTTTAAAAA
46977063 GTATTTTAAAAA
1 -TATTTTAAAAA
46977075 TATTTTAAAA
1 TATTTTAAAA
46977085 TTAAAAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
6 2 0.03
8 4 0.06
9 6 0.09
10 2 0.03
11 32 0.49
12 16 0.25
13 3 0.05
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:46977031 original size:29 final size:31
Alignment explanation
Indices: 46976969--46977036 Score: 104
Period size: 29 Copynumber: 2.2 Consensus size: 31
46976959 ACCAAAAATT
*
46976969 TATTTTAAAAATTAAAAAGAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAGAGCATTTTAAAAA
46977001 TATTTTAAAATT-AAAA-AGCATTTTAAAAA
1 TATTTTAAAATTAAAAAGAGCATTTTAAAAA
46977030 TATTTTA
1 TATTTTA
46977037 TTTAAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 19 0.54
30 4 0.11
31 6 0.17
32 6 0.17
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (31 bp):
TATTTTAAAATTAAAAAGAGCATTTTAAAAA
Found at i:46977090 original size:17 final size:17
Alignment explanation
Indices: 46977068--46977106 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
46977058 AAAAAGTATT
* *
46977068 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
46977085 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
*
46977102 ATAAA
1 TTAAA
46977107 TATACTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:46979565 original size:27 final size:27
Alignment explanation
Indices: 46979527--46979582 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
46979517 ACTTCAAAGA
46979527 GATAGAATGTACCAGCAATCACATCTG
1 GATAGAATGTACCAGCAATCACATCTG
46979554 GATAGAATGTACCAGCAATCACATCTG
1 GATAGAATGTACCAGCAATCACATCTG
46979581 GA
1 GA
46979583 GTCATAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (27 bp):
GATAGAATGTACCAGCAATCACATCTG
Found at i:46982418 original size:42 final size:42
Alignment explanation
Indices: 46982354--46982487 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 42
46982344 AGGCTAAACA
* * * *
46982354 GAAGTTCATAAGTGCTAAACAAAAACCCGTAAGGGTTGAACG
1 GAAGCTCATAAGAGCTGAACAAAAACCCATAAGGGTTGAACG
* * * *
46982396 GAAGCTCATAAGAGCTGAACAAAAACCTATAAGGATTAAACA
1 GAAGCTCATAAGAGCTGAACAAAAACCCATAAGGGTTGAACG
* * ** *
46982438 AAAGCTCAAAAGAGCTGAACGGAAACCCATTAGGGTTGAACG
1 GAAGCTCATAAGAGCTGAACAAAAACCCATAAGGGTTGAACG
*
46982480 GAAACTCA
1 GAAGCTCA
46982488 AAGGAGTTAA
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTGAACAAAAACCCATAAGGGTTGAACG
Found at i:46989647 original size:24 final size:22
Alignment explanation
Indices: 46989594--46989678 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 22
46989584 ATTTGAATTT
* *
46989594 TTATAAATTTTTT-TTATAAAAA
1 TTAT-AATTTTTTATAAAAAAAA
*
46989616 TTGTAATTTTTTATACAAAAAAA
1 TTATAATTTTTTATA-AAAAAAA
* * *
46989639 TTATGAATTTTTTTTTATAAAACA
1 TTAT-AA-TTTTTTATAAAAAAAA
46989663 TTATAAATTTTTTATA
1 TTAT-AATTTTTTATA
46989679 TTTTTATTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
21 8 0.16
22 4 0.08
23 17 0.34
24 13 0.26
25 8 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATAATTTTTTATAAAAAAAA
Found at i:46990034 original size:29 final size:29
Alignment explanation
Indices: 46989953--46990034 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
46989943 TAACAATTAG
*
46989953 ACTAGAATTTTGAAATTTGAAAAGTAGTGAT
1 ACTA-AATTTT-AAATTTGAAAAGTAATGAT
**
46989984 ACTAAATTCTTAAAAGT-AAAAGTATATGA-
1 ACTAAATT-TTAAATTTGAAAAGTA-ATGAT
*
46990013 ACTAAATTTTAAATTTGCAAAG
1 ACTAAATTTTAAATTTGAAAAG
46990035 AATACATGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
28 6 0.14
29 19 0.45
30 11 0.26
31 6 0.14
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.34
Consensus pattern (29 bp):
ACTAAATTTTAAATTTGAAAAGTAATGAT
Found at i:46991286 original size:61 final size:62
Alignment explanation
Indices: 46991212--46991384 Score: 154
Period size: 61 Copynumber: 2.8 Consensus size: 62
46991202 TTATCTAAAA
* * *
46991212 TTAGCCTTCTAATGTTTAC-ACATTTTATTAATTTGATTCTAAATATAAAAAAATCAACAAAT
1 TTAGCCTTCTAATGTTTACAAAATTTT-TCAATTTAATTCTAAATATAAAAAAATCAACAAAT
* * * * * *
46991274 TTAGCGTT-TAATGTTTACAAAATTTTTCATTTTAATTCTAATTTTAAAAAATTCAATAAAT
1 TTAGCCTTCTAATGTTTACAAAATTTTTCAATTTAATTCTAAATATAAAAAAATCAACAAAT
* * * *** * * *
46991335 TTGGCCCTC-AATATTTACAAAATCAATCAATTTAATCCTAACTCTAAAAA
1 TTAGCCTTCTAATGTTTACAAAATTTTTCAATTTAATTCTAAATATAAAAA
46991385 TTTAATTTTA
Statistics
Matches: 89, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
61 76 0.85
62 13 0.15
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.40
Consensus pattern (62 bp):
TTAGCCTTCTAATGTTTACAAAATTTTTCAATTTAATTCTAAATATAAAAAAATCAACAAAT
Found at i:46999277 original size:41 final size:41
Alignment explanation
Indices: 46999213--46999290 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
46999203 ACAACTTACT
*
46999213 TGATACAATACACCAGCATGAAGCTTGCTAGGCACAAAGCC
1 TGATACAATACACCAGCACGAAGCTTGCTAGGCACAAAGCC
* *
46999254 TGATATAATACACCGGCACGAAGCTTGCTAGGCACAA
1 TGATACAATACACCAGCACGAAGCTTGCTAGGCACAA
46999291 TGTAATAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (41 bp):
TGATACAATACACCAGCACGAAGCTTGCTAGGCACAAAGCC
Found at i:47002277 original size:41 final size:41
Alignment explanation
Indices: 47002191--47002280 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 41
47002181 TACTGACTAA
* ** *
47002191 GCCTGATATAATAGATTGGCACAAAGCCTACTAGGCACAAT
1 GCCTGATATAATACACCGGCACAAAGCCTACTAGGCACAAG
* ** * *
47002232 GCCTGATATAATACACCGGTACAAAGCCTGTTGGGCTCAAG
1 GCCTGATATAATACACCGGCACAAAGCCTACTAGGCACAAG
47002273 GCCTGATA
1 GCCTGATA
47002281 CACTATCTCC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (41 bp):
GCCTGATATAATACACCGGCACAAAGCCTACTAGGCACAAG
Found at i:47007290 original size:26 final size:27
Alignment explanation
Indices: 47007242--47007305 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
47007232 TTAATATACG
* *
47007242 ATAAAATTATTTTAATTTATTAAATATA
1 ATAAAATTA-TTTAATCTATTAAAAATA
47007270 A-AAAATTATTTAATCCT-TTAAAAATA
1 ATAAAATTATTTAAT-CTATTAAAAATA
*
47007296 ATGAAATTAT
1 ATAAAATTAT
47007306 ATCATATTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 15 0.48
27 15 0.48
28 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
ATAAAATTATTTAATCTATTAAAAATA
Found at i:47014064 original size:30 final size:30
Alignment explanation
Indices: 47014003--47014065 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
47013993 ACATATTTTA
* *
47014003 TTGTTAATTTTGTTATTATTTTAAATACAT
1 TTGTTAATTTTGTTATTATTTCAAAGACAT
* *
47014033 TTGTTAATTTTGTTATTATTTCAGAGGCAT
1 TTGTTAATTTTGTTATTATTTCAAAGACAT
47014063 TTG
1 TTG
47014066 CTTTTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTCAAAGACAT
Found at i:47015376 original size:12 final size:12
Alignment explanation
Indices: 47015359--47015388 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47015349 TCAGTGAGTT
47015359 ACACGGCCTAGC
1 ACACGGCCTAGC
*
47015371 ACACGGCCTGGC
1 ACACGGCCTAGC
47015383 ACACGG
1 ACACGG
47015389 GCATGTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:47023641 original size:125 final size:125
Alignment explanation
Indices: 47023417--47023840 Score: 582
Period size: 125 Copynumber: 3.4 Consensus size: 125
47023407 ATGTGGACGT
* * * * * *
47023417 GAAGAATTTGTGAAATCGTGCCCTCCTAGACACGCTTTTGCTGCAGTTGGTCTTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGTAGGTCTTGGAAGAAATAA
*
47023482 TTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATACTTTATGA
66 TTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGA
* * * * *
47023542 GAAGAATTTGTTAAATCGCGCCCACGTGGACCCGCTTTTGCTACAGTAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGTAGGTCTTGGAAGAAATAA
* * * * * *
47023606 TTTCGAGTTAACGTTTTTGAGTAAATAGTATTAAAAACGCTTCAAGCAGGATGCTATT-TGA
66 TTTCGAGTTGACGTTTCTGAGAAAATAGTA-TAAAATCGCTTCTACCAGGATGCT-TTATGA
* * * * *
47023667 GAAGAATTTCTAAAATCGCGCCCTCGTGGACTCGCTTTTGCTACAGTTGGTCTTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGTAGGTCTTGGAAGAAATAA
*
47023732 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGA
66 TTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGA
* *
47023792 GAAGAATTTGTGAAATCGCGCCCACGTGGGCGCGCTTTTGCTACAGTAG
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGTAG
47023841 CATGTTTGGG
Statistics
Matches: 257, Mismatches: 38, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
124 37 0.14
125 183 0.71
126 37 0.14
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGTAGGTCTTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGA
Found at i:47029428 original size:12 final size:12
Alignment explanation
Indices: 47029392--47029445 Score: 71
Period size: 11 Copynumber: 4.8 Consensus size: 12
47029382 TTAAATATGG
47029392 ATTTGAGA-GAA
1 ATTTGAGAGGAA
47029403 ATTTTGA-AGG-A
1 A-TTTGAGAGGAA
47029414 ATTTGAGAGGAA
1 ATTTGAGAGGAA
47029426 A-TTGAGAGGAA
1 ATTTGAGAGGAA
47029437 ATTTGAGAG
1 ATTTGAGAG
47029446 AGGATTAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.13
11 18 0.47
12 15 0.39
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:47029439 original size:23 final size:22
Alignment explanation
Indices: 47029392--47029445 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
47029382 TTAAATATGG
47029392 ATTTGAGA-GAAATTTTGAAGGA
1 ATTTGAGAGGAAA-TTTGAAGGA
47029414 ATTTGAGAGGAAA-TTGAGAGGAA
1 ATTTGAGAGGAAATTTGA-AGG-A
47029437 ATTTGAGAG
1 ATTTGAGAG
47029446 AGGATTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.14
22 11 0.38
23 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (22 bp):
ATTTGAGAGGAAATTTGAAGGA
Found at i:47032405 original size:19 final size:20
Alignment explanation
Indices: 47032383--47032425 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
47032373 AAAAAAATTA
*
47032383 GAATTTTTATAAA-TATTTT
1 GAATTTTTAAAAATTATTTT
47032402 GAA-TTTTAAAAATTATTTT
1 GAATTTTTAAAAATTATTTT
47032421 GAATT
1 GAATT
47032426 ATTTTGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 12 0.57
20 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
GAATTTTTAAAAATTATTTT
Found at i:47032414 original size:18 final size:18
Alignment explanation
Indices: 47032369--47032425 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
47032359 TTTAGAATTT
* *
47032369 TTTTAAAAA-AATTAGAA
1 TTTTAAAAATATTTTGAA
*
47032386 TTTTTATAAATATTTTGAA
1 -TTTTAAAAATATTTTGAA
47032405 TTTTAAAAATTATTTTGAA
1 TTTTAAAAA-TATTTTGAA
47032424 TT
1 TT
47032426 ATTTTGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:47033034 original size:30 final size:30
Alignment explanation
Indices: 47033000--47033061 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
47032990 CTTAACAAGT
47033000 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* *
47033030 AAATGCCTTTAAAATAATAATAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
47033060 AA
1 AA
47033062 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:47034154 original size:45 final size:45
Alignment explanation
Indices: 47034103--47034189 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
47034093 CTACTAAATA
**
47034103 TTTAACTAAATTGTATACAATTTATTATAAATTATTTAAATTAAT
1 TTTAACTAAATTACATACAATTTATTATAAATTATTTAAATTAAT
** * *
47034148 TTTAACTAAATTACATAGTATTTATTGTTAATTATTTAAATT
1 TTTAACTAAATTACATACAATTTATTATAAATTATTTAAATT
47034190 TGATTAAGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (45 bp):
TTTAACTAAATTACATACAATTTATTATAAATTATTTAAATTAAT
Found at i:47044590 original size:4 final size:4
Alignment explanation
Indices: 47044581--47044615 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
47044571 TTATAGTTGT
*
47044581 ATAC ATAC ATAC ATAC ATAC GTAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
47044616 TTACCTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:47048583 original size:8 final size:7
Alignment explanation
Indices: 47048566--47048629 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 7
47048556 TCCAAACAAG
47048566 ATAAAGTA
1 ATAAA-TA
47048574 ATAAATTA
1 ATAAA-TA
47048582 ATAAATA
1 ATAAATA
47048589 ATAAATA
1 ATAAATA
47048596 ATAAAATAAA
1 AT-AAAT--A
47048606 ATAAA-A
1 ATAAATA
*
47048612 ATAAAGA
1 ATAAATA
47048619 A-AAATA
1 ATAAATA
47048625 A-AAAT
1 ATAAAT
47048630 TGGGTTGCCT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
6 15 0.30
7 13 0.26
8 16 0.32
9 3 0.06
10 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (7 bp):
ATAAATA
Found at i:47048593 original size:23 final size:24
Alignment explanation
Indices: 47048566--47048617 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
47048556 TCCAAACAAG
*
47048566 ATAAAGTAAT-AAAT-TAATAAATA
1 ATAAAGTAATAAAATAAAATAAA-A
47048589 ATAAA-TAATAAAATAAAATAAAA
1 ATAAAGTAATAAAATAAAATAAAA
47048612 ATAAAG
1 ATAAAG
47048618 AAAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 4 0.16
23 15 0.60
24 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAAAGTAATAAAATAAAATAAAA
Found at i:47048616 original size:16 final size:16
Alignment explanation
Indices: 47048588--47048629 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
47048578 ATTAATAAAT
47048588 AATAAATAATAAA-ATAA
1 AATAAA-AATAAAGA-AA
47048605 AATAAAAATAAAGAAA
1 AATAAAAATAAAGAAA
47048621 AATAAAAAT
1 AATAAAAAT
47048630 TGGGTTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (16 bp):
AATAAAAATAAAGAAA
Found at i:47056082 original size:78 final size:77
Alignment explanation
Indices: 47055983--47056188 Score: 245
Period size: 78 Copynumber: 2.6 Consensus size: 77
47055973 CTAGGGTAAG
* *
47055983 TTAATTTTTTAAGCGTTACTTAAAATATTAAAGAGATTTTAAAAATTTTAAAGAATTAGAAAATC
1 TTAATTTTTTAA-CGTTACTTAAAATATTAAAGAGATTTTAAAAAATTAAAAGAATTAGAAAATC
*
47056048 ACAGAAAAATCTA
65 ACAGAAAAATCAA
* * * * *
47056061 TTAATTTTTTATACCTCACTTAAAACATTAAACGA-CTTTTAAAAAATTAAAAGAATTCGAAAAT
1 TTAATTTTTTA-ACGTTACTTAAAATATTAAA-GAGATTTTAAAAAATTAAAAGAATTAGAAAAT
*
47056125 CATAGAAAAATCAA
64 CACAGAAAAATCAA
* * *
47056139 TTAATTTCTTAAATGTTACTTAAAATATTAAAGAG-CTTTAAACAAATTAA
1 TTAATTT-TTTAACGTTACTTAAAATATTAAAGAGATTTTAAA-AAATTAA
47056189 GTAACTCCTA
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
77 8 0.07
78 94 0.87
79 6 0.06
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (77 bp):
TTAATTTTTTAACGTTACTTAAAATATTAAAGAGATTTTAAAAAATTAAAAGAATTAGAAAATCA
CAGAAAAATCAA
Found at i:47064050 original size:38 final size:37
Alignment explanation
Indices: 47064008--47064110 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 37
47063998 TTACTGCCCT
* * *
47064008 ATTGAGAACATGATAAGCATGTCTACTGTTAATGATGA
1 ATTGAGTACATGTTAA-CATGTCTACTGTTAATGAAGA
*
47064046 ATTGAGTACATGTTAAACATGTCTACTGTTAGTGAAGA
1 ATTGAGTACATGTT-AACATGTCTACTGTTAATGAAGA
47064084 ATTGAGTACATGTTATACATGTCTACT
1 ATTGAGTACATGTTA-ACATGTCTACT
47064111 TCTAATGTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
37 1 0.02
38 56 0.95
39 2 0.03
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (37 bp):
ATTGAGTACATGTTAACATGTCTACTGTTAATGAAGA
Found at i:47070043 original size:23 final size:24
Alignment explanation
Indices: 47070016--47070069 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
47070006 TAGTAAATTT
** *
47070016 TAATATAAATATATTTATTTTTAA
1 TAATATAAATATAAATATTTTAAA
*
47070040 -AATATTAATATAAATATTTTAAA
1 TAATATAAATATAAATATTTTAAA
47070063 TAATATA
1 TAATATA
47070070 TTAAGAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAATATAAATATAAATATTTTAAA
Found at i:47070070 original size:14 final size:14
Alignment explanation
Indices: 47070012--47070071 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
47070002 ATATTAGTAA
47070012 ATTTTAATATAAAT
1 ATTTTAATATAAAT
* *
47070026 ATATTTATTTTTAAA-
1 AT-TTTA-ATATAAAT
*
47070041 ATATTAATATAAAT
1 ATTTTAATATAAAT
47070055 ATTTTAA-ATAATAT
1 ATTTTAATATAA-AT
47070069 ATT
1 ATT
47070072 AAGAATATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
13 9 0.25
14 16 0.44
15 6 0.17
16 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTTAATATAAAT
Found at i:47070102 original size:13 final size:14
Alignment explanation
Indices: 47070068--47070104 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
47070058 TTAAATAATA
47070068 TATTAAGAATATTAT
1 TATTAA-AATATTAT
47070083 T-TTAAAAT-TTAT
1 TATTAAAATATTAT
47070095 TATTAAAATA
1 TATTAAAATA
47070105 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.25
13 10 0.50
14 4 0.20
15 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TATTAAAATATTAT
Found at i:47070135 original size:17 final size:18
Alignment explanation
Indices: 47070113--47070159 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
47070103 TAAAATTTTA
47070113 ATATTATATAATTTAT-C
1 ATATTATATAATTTATAC
*
47070130 ATATTAT-TAA-GTATAC
1 ATATTATATAATTTATAC
47070146 ATATTTATATAATT
1 ATA-TTATATAATT
47070160 ATTTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 11 0.46
18 3 0.12
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATTATATAATTTATAC
Found at i:47070617 original size:37 final size:36
Alignment explanation
Indices: 47070561--47070654 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 36
47070551 CATTCTTGGT
* * * * * *
47070561 AGGGAATAACTCCTATTCATTTTTGTTTTTGCTCTGC
1 AGGGAAT-ACTCTTGTTCATTTCTGTCTTTACTCTAC
47070598 AGGGAATCACTCTTGTTCATTTCTGTCTTTACTCTAC
1 AGGGAAT-ACTCTTGTTCATTTCTGTCTTTACTCTAC
47070635 AGGGAAT-CTCATTGTTCATT
1 AGGGAATACTC-TTGTTCATT
47070655 CTTGGTTGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
35 3 0.06
36 9 0.18
37 37 0.76
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (36 bp):
AGGGAATACTCTTGTTCATTTCTGTCTTTACTCTAC
Found at i:47073376 original size:3 final size:3
Alignment explanation
Indices: 47073368--47073401 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
47073358 GATCTTTTAC
47073368 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
47073402 TTTAAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:47073998 original size:4 final size:4
Alignment explanation
Indices: 47073991--47074015 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
47073981 TAATAGAAAG
47073991 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
47074016 GACATTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:47074170 original size:10 final size:9
Alignment explanation
Indices: 47074151--47074188 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
47074141 AATAGACATG
47074151 AAAATAAAT
1 AAAATAAAT
47074160 AAAATTAAAT
1 AAAA-TAAAT
47074170 AAGAATAAAT
1 AA-AATAAAT
47074180 AAAA-AAAT
1 AAAATAAAT
47074188 A
1 A
47074189 TACAAGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 5 0.19
9 6 0.22
10 14 0.52
11 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:47074987 original size:153 final size:153
Alignment explanation
Indices: 47074799--47075211 Score: 538
Period size: 154 Copynumber: 2.7 Consensus size: 153
47074789 CGAGATAATT
*
47074799 AAAAAAATCAAAA-TTTTTTTTAAAAATTTTAAACTTTCCTTTAAAATGACTTAAAAAAAACATA
1 AAAAAAATCAAAACTTTATTTT-AAAATTTTAAACTTTCCTTTAAAATGAC-T-AAAAAAACATA
*
47074863 TTTTTATTTTTCAAAATCCAAACTTTCTCTTTTTTTAAAAAAAAAAACTATTTTTCTTAAAGATT
63 TTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTTTAAAAAAAAAAACTATTTTTCTTAAAGATT
* *
47074928 AAAGCTTTTA-TTTTAAAGTAGTT-G-
128 AAAACTTTTACTTTGAAA-TAGTTGGA
*
47074952 AAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACT-AAAAAACAGATTT
1 AAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAAAAACATATTT
* * * * * *
47075016 TTATTTTTCAAAATTTAAATTTTCTCCTTTTTTATTAAAAAAATATTATTTTTCTTAAAGATTAA
66 TTATTTTTCAAAATCTAAACTTTCTCTTTTTTTA-AAAAAAAAAACTATTTTTCTTAAAGATTAA
47075081 AACTTTTACTTTGAAATAGTTGGAA
130 AACTTTTACTTTGAAATAGTTGG-A
* * * *
47075106 AAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTTCTTTAAAATAACTAGAAAAAACATA-T
1 AAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACTA-AAAAAACATATT
* * *
47075170 ATT-TTTTTAAAAATCTAAAC-TT-TCTTTTTTAAAAAAAAAAAA
65 TTTATTTTTCAAAATCTAAACTTTCTCTTTTTTTAAAAAAAAAAA
47075212 TCAAAACTTT
Statistics
Matches: 228, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
150 42 0.18
151 47 0.21
152 16 0.07
153 43 0.19
154 68 0.30
155 3 0.01
156 9 0.04
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (153 bp):
AAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAAAAACATATTT
TTATTTTTCAAAATCTAAACTTTCTCTTTTTTTAAAAAAAAAAACTATTTTTCTTAAAGATTAAA
ACTTTTACTTTGAAATAGTTGGA
Found at i:47075133 original size:20 final size:20
Alignment explanation
Indices: 47075108--47075151 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
47075098 AGTTGGAAAA
47075108 AAAAATCAAAACTTTGT-TTT
1 AAAAATCAAAACTTT-TCTTT
**
47075128 AAAAATTTAAACTTTTCTTT
1 AAAAATCAAAACTTTTCTTT
47075148 AAAA
1 AAAA
47075152 TAACTAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAAATCAAAACTTTTCTTT
Found at i:47081730 original size:11 final size:11
Alignment explanation
Indices: 47081714--47081742 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
47081704 ACCATTCAAA
47081714 GAATTTTCTAT
1 GAATTTTCTAT
47081725 GAATTTTCTAT
1 GAATTTTCTAT
47081736 GAATTTT
1 GAATTTT
47081743 ATGGGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (11 bp):
GAATTTTCTAT
Found at i:47089099 original size:36 final size:36
Alignment explanation
Indices: 47089047--47089129 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
47089037 ATATATAATT
* * * * * * *
47089047 ATCACTTTTAAATATTACAACTATATCATTATGCCGA
1 ATCACTTAT-AATATTACAAATACACCAATATACCAA
47089084 ATCACTTATAATATTACAAATACACCAATATACCAA
1 ATCACTTATAATATTACAAATACACCAATATACCAA
47089120 ATCACTTATA
1 ATCACTTATA
47089130 TGCTCAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 31 0.79
37 8 0.21
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.34
Consensus pattern (36 bp):
ATCACTTATAATATTACAAATACACCAATATACCAA
Found at i:47089380 original size:43 final size:43
Alignment explanation
Indices: 47089332--47089461 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 43
47089322 GGCTCGTACA
* *
47089332 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACATGTAAACACATATCG
* * *
47089375 ATGCCACTGTCCTAGATAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAATGTCCTAGA-CGTGGTCTTACATGTAAACACATA-TCG
* * *
47089418 ATACCAACGTCCTAGACGTGGTCTTACATGAAAACACATATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACATGTAAACACATATCG
47089461 A
1 A
47089462 AATCCTATGT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.03
43 68 0.94
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACGTGGTCTTACATGTAAACACATATCG
Found at i:47091942 original size:17 final size:17
Alignment explanation
Indices: 47091911--47091955 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
47091901 ATATTTCACA
47091911 TTTTAAT-ATTT--TAT
1 TTTTAATAATTTAATAT
47091925 TTTTAATAATTTAATAT
1 TTTTAATAATTTAATAT
*
47091942 TTTTAAAAATTTAA
1 TTTTAATAATTTAA
47091956 AATGAAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
17 16 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAATAATTTAATAT
Found at i:47094471 original size:25 final size:25
Alignment explanation
Indices: 47094437--47094487 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
47094427 TCTTGAAAAC
47094437 TTTAACCTTTTTAAAAACACAACGA
1 TTTAACCTTTTTAAAAACACAACGA
47094462 TTTAACCTTTTTAAAAACACAACGA
1 TTTAACCTTTTTAAAAACACAACGA
47094487 T
1 T
47094488 AATAATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (25 bp):
TTTAACCTTTTTAAAAACACAACGA
Found at i:47100369 original size:21 final size:21
Alignment explanation
Indices: 47100345--47100404 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
47100335 CTAATATTAC
*
47100345 ATGCAAACCCATATGTTATTT
1 ATGCGAACCCATATGTTATTT
* *
47100366 ATGCGAACCAATATATTATTT
1 ATGCGAACCCATATGTTATTT
*
47100387 ATGTGAACCCTATATGTT
1 ATGCGAACCC-ATATGTT
47100405 TGTGACATGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 26 0.81
22 6 0.19
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
ATGCGAACCCATATGTTATTT
Found at i:47100434 original size:21 final size:20
Alignment explanation
Indices: 47100409--47100464 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
47100399 TATGTTTGTG
47100409 ACATGCAAACCCCTATGA-ATT
1 ACATGCAAA-CCCTA-GATATT
**
47100430 ACATGTGAACCCTAGATTATT
1 ACATGCAAACCCTAGA-TATT
*
47100451 ACATGCAAATCCTA
1 ACATGCAAACCCTA
47100465 TGTGTTTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 5 0.18
21 21 0.75
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.27
Consensus pattern (20 bp):
ACATGCAAACCCTAGATATT
Found at i:47103313 original size:17 final size:17
Alignment explanation
Indices: 47103291--47103340 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
47103281 TCTCAGATTT
47103291 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
47103308 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
47103325 TGATACCCATATCTTT
1 TGATACCCATATCTTT
47103341 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:47107839 original size:17 final size:17
Alignment explanation
Indices: 47107817--47107866 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
47107807 TCTCAGATTT
47107817 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
47107834 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
47107851 TGATACCCATATCTTT
1 TGATACCCATATCTTT
47107867 TACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:47108336 original size:8 final size:8
Alignment explanation
Indices: 47108325--47108354 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47108315 ACATTTTAAA
47108325 AAAATTCC
1 AAAATTCC
*
47108333 AAAATTCT
1 AAAATTCC
47108341 AAAATTCC
1 AAAATTCC
47108349 AAAATT
1 AAAATT
47108355 TTAAAATTTT
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:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATTCC
Found at i:47108360 original size:8 final size:8
Alignment explanation
Indices: 47108333--47108371 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
47108323 AAAAAATTCC
*
47108333 AAAATTCT
1 AAAATTTT
**
47108341 AAAATTCC
1 AAAATTTT
47108349 AAAATTTT
1 AAAATTTT
47108357 AAAATTTT
1 AAAATTTT
47108365 AAAATTT
1 AAAATTT
47108372 CTCATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (8 bp):
AAAATTTT
Found at i:47108371 original size:16 final size:16
Alignment explanation
Indices: 47108325--47108362 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
47108315 ACATTTTAAA
*
47108325 AAAATTCCAAAATTCT
1 AAAATTCCAAAATTTT
47108341 AAAATTCCAAAATTTT
1 AAAATTCCAAAATTTT
47108357 AAAATT
1 AAAATT
47108363 TTAAAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTCCAAAATTTT
Found at i:47108794 original size:26 final size:26
Alignment explanation
Indices: 47108765--47108821 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
47108755 AAAATAAAAA
* *
47108765 TAAAAATTA-TAATTTATAAAAAATCT
1 TAAAAATTAGGAA-TTATAAAAAATAT
47108791 T-AAAATTAGGAATTATAAAAAATAT
1 TAAAAATTAGGAATTATAAAAAATAT
47108816 TAAAAA
1 TAAAAA
47108822 GATAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (26 bp):
TAAAAATTAGGAATTATAAAAAATAT
Found at i:47110587 original size:21 final size:21
Alignment explanation
Indices: 47110544--47110587 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
47110534 CATGGACGTT
*
47110544 TGGCTACCCCACACGCCTATG
1 TGGCTACCCCACACGCCCATG
* * *
47110565 TGGCTACTCCACATGCCCGTG
1 TGGCTACCCCACACGCCCATG
47110586 TG
1 TG
47110588 CTCAGACCGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.39, G:0.23, T:0.23
Consensus pattern (21 bp):
TGGCTACCCCACACGCCCATG
Found at i:47113525 original size:226 final size:226
Alignment explanation
Indices: 47113131--47113586 Score: 885
Period size: 226 Copynumber: 2.0 Consensus size: 226
47113121 ATTAACCATC
*
47113131 AAATCACTAAAATTTTCGAACCAAACTTCAATATACCTATATAGTAATTTCGTAAATATTTTTAT
1 AAATCACTAAAATTTTCAAACCAAACTTCAATATACCTATATAGTAATTTCGTAAATATTTTTAT
*
47113196 AAAATTTTTATGAGCTCGATTTATAGAAATGAGGTCTCGATACCTTATTTTCCAAAATCACTTGA
66 AAAATTTTTATGAGCTCGATTTATAGAAATGAGGTCCCGATACCTTATTTTCCAAAATCACTTGA
47113261 CTTTAGGGACAACCCACTTGTACCTAAATATTCGTTCAAATAGAAAAATTATCAAATCAAAATTC
131 CTTTAGGGACAACCCACTTGTACCTAAATATTCGTTCAAATAGAAAAATTATCAAATCAAAATTC
47113326 TGAATAATACTATATTTGACTCGTAAATATT
196 TGAATAATACTATATTTGACTCGTAAATATT
*
47113357 AAATCACTAAAATTTTCAAACCAAATTTCAATATACCTATATAGTAATTTCGTAAATATTTTTAT
1 AAATCACTAAAATTTTCAAACCAAACTTCAATATACCTATATAGTAATTTCGTAAATATTTTTAT
47113422 AAAATTTTTATGAGCTCGATTTATAGAAATGAGGTCCCGATACCTTATTTTCCAAAATCACTTGA
66 AAAATTTTTATGAGCTCGATTTATAGAAATGAGGTCCCGATACCTTATTTTCCAAAATCACTTGA
47113487 CTTTAGGGACAACCCACTTGTACCTAAATATTCGTTCAAATAGAAAAATTATCAAATCAAAATTC
131 CTTTAGGGACAACCCACTTGTACCTAAATATTCGTTCAAATAGAAAAATTATCAAATCAAAATTC
47113552 TGAATAATACTATATTTGACTCGTAAATATT
196 TGAATAATACTATATTTGACTCGTAAATATT
47113583 AAAT
1 AAAT
47113587 AATAATATTT
Statistics
Matches: 227, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
226 227 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (226 bp):
AAATCACTAAAATTTTCAAACCAAACTTCAATATACCTATATAGTAATTTCGTAAATATTTTTAT
AAAATTTTTATGAGCTCGATTTATAGAAATGAGGTCCCGATACCTTATTTTCCAAAATCACTTGA
CTTTAGGGACAACCCACTTGTACCTAAATATTCGTTCAAATAGAAAAATTATCAAATCAAAATTC
TGAATAATACTATATTTGACTCGTAAATATT
Found at i:47134969 original size:30 final size:31
Alignment explanation
Indices: 47134935--47134994 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
47134925 AAACCTTTTA
*
47134935 TTTTCCCCCAAAATTTTTACTCCC-TCTCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCTCAC
* *
47134965 TTTTCCCCTAAAACTTTTATTCCCTTCTCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCTCA
47134995 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCTCAC
Found at i:47135619 original size:19 final size:20
Alignment explanation
Indices: 47135582--47135619 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
47135572 AAGTTAATAA
*
47135582 AAATTTTGATTAAGGTGGAC
1 AAATTTTGATTAAGATGGAC
*
47135602 AAATTTT-ATTACGATGGA
1 AAATTTTGATTAAGATGGA
47135620 TGGCAGTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (20 bp):
AAATTTTGATTAAGATGGAC
Found at i:47136639 original size:23 final size:24
Alignment explanation
Indices: 47136596--47136641 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
47136586 GGTAACATAG
*
47136596 GAAATTTATGTTTTTTATTTGTAA
1 GAAATTTATGCTTTTTATTTGTAA
47136620 GAAATTTATGCTTTTT-TTTGTA
1 GAAATTTATGCTTTTTATTTGTA
47136642 TTTTTTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.59
Consensus pattern (24 bp):
GAAATTTATGCTTTTTATTTGTAA
Found at i:47136731 original size:16 final size:16
Alignment explanation
Indices: 47136710--47136742 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47136700 ATGTATATAG
47136710 GTTGATTGTGTTTACT
1 GTTGATTGTGTTTACT
47136726 GTTGATTGTGTTTACT
1 GTTGATTGTGTTTACT
47136742 G
1 G
47136743 CAAATTTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.27, T:0.55
Consensus pattern (16 bp):
GTTGATTGTGTTTACT
Found at i:47156333 original size:30 final size:30
Alignment explanation
Indices: 47156276--47156337 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
47156266 GCTTTTTGAA
* *
47156276 AATATTTACAAAAAAAAGCATCTAATTTTT
1 AATATTTACAAAAAAAAGCACCAAATTTTT
*
47156306 AATATTTAC-AAAAAGAGCAACCAAATTTTT
1 AATATTTACAAAAAAAAGC-ACCAAATTTTT
47156336 AA
1 AA
47156338 AAACAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAAAAGCACCAAATTTTT
Found at i:47156334 original size:29 final size:30
Alignment explanation
Indices: 47156276--47156334 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
47156266 GCTTTTTGAA
* * *
47156276 AATATTTACAAAAAAAAGCATCTAATTTTT
1 AATATTTACAAAAAAAAGCAACCAAATTTT
*
47156306 AATATTTAC-AAAAAGAGCAACCAAATTTT
1 AATATTTACAAAAAAAAGCAACCAAATTTT
47156335 TAAAAACAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAAAAGCAACCAAATTTT
Found at i:47166481 original size:14 final size:14
Alignment explanation
Indices: 47166462--47166499 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
47166452 GTTTGGTAGT
47166462 AAAATG-TTTTCTGG
1 AAAATGATTTT-TGG
47166476 AAAATGATTTTTGG
1 AAAATGATTTTTGG
47166490 AAAATGATTT
1 AAAATGATTT
47166500 ACTTTTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (14 bp):
AAAATGATTTTTGG
Found at i:47166528 original size:34 final size:33
Alignment explanation
Indices: 47166468--47166532 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
47166458 TAGTAAAATG
* * *
47166468 TTTTCTGGAAAATGATTTTTGGAAAATGATTTAC
1 TTTTCTAGAAAATGATTTCTGAAAAAT-ATTTAC
47166502 TTTTCTAGAAAATGATTTACT-AAAAATATTT
1 TTTTCTAGAAAATGATTT-CTGAAAAATATTT
47166533 TCTAGTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.15
34 22 0.81
35 1 0.04
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (33 bp):
TTTTCTAGAAAATGATTTCTGAAAAATATTTAC
Found at i:47166638 original size:20 final size:20
Alignment explanation
Indices: 47166610--47166659 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
47166600 TGGAAAAGTT
47166610 ATTTTTATATATATTAATAA
1 ATTTTTATATATATTAATAA
* * *
47166630 ATTTATATACATGTTAATAA
1 ATTTTTATATATATTAATAA
47166650 ATTTTTATAT
1 ATTTTTATAT
47166660 TTTAAATTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTTTATATATATTAATAA
Found at i:47169189 original size:13 final size:13
Alignment explanation
Indices: 47169171--47169196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47169161 CCATTATTCA
47169171 TATATCTCTCACT
1 TATATCTCTCACT
47169184 TATATCTCTCACT
1 TATATCTCTCACT
47169197 CCTAACCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATCTCTCACT
Found at i:47170575 original size:11 final size:11
Alignment explanation
Indices: 47170559--47170586 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
47170549 TATTTTATTA
47170559 TTTATCATCTT
1 TTTATCATCTT
47170570 TTTATCATCTT
1 TTTATCATCTT
47170581 TTTATC
1 TTTATC
47170587 TTTTCTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTATCATCTT
Found at i:47171083 original size:26 final size:26
Alignment explanation
Indices: 47171052--47171115 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
47171042 AACCCACAGG
47171052 TCGTGTGAGCATGCCCATTTCACAAC
1 TCGTGTGAGCATGCCCATTTCACAAC
*
47171078 TTGTGTGAGCATGCCCATTTCACAAC
1 TCGTGTGAGCATGCCCATTTCACAAC
47171104 TCGTGTGAGCAT
1 TCGTGTGAGCAT
47171116 TGATGTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (26 bp):
TCGTGTGAGCATGCCCATTTCACAAC
Found at i:47171182 original size:48 final size:48
Alignment explanation
Indices: 47171127--47171222 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
47171117 GATGTAAAAG
**
47171127 AAAGGTTA-TGTTTATATGTAAAGGCATGTTATGTGTGAGATTTCCCGA
1 AAAGGTTACT-TTTATATGTAAAGGCACATTATGTGTGAGATTTCCCGA
*
47171175 AAAGGTTACTTTTATATGTAAAGGCACATTATGTGTGAGCTTTCCCGA
1 AAAGGTTACTTTTATATGTAAAGGCACATTATGTGTGAGATTTCCCGA
47171223 GTATCCGAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 43 0.98
49 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.36
Consensus pattern (48 bp):
AAAGGTTACTTTTATATGTAAAGGCACATTATGTGTGAGATTTCCCGA
Found at i:47172244 original size:54 final size:54
Alignment explanation
Indices: 47172178--47172301 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
47172168 GTGTTCCAAG
* * ** *
47172178 TCAATGAGTTACACGGCCTAGCACATGGCCTGGCACACGGGTGTGTGTGG-TAAC
1 TCAATGAGTTACACAGCCTAACACATGGCCTGGCACACAAGTGTGTGGGGCT-AC
*
47172232 TCAGA-GAGTTACACAGCCTAACACATGGTCTGGCACACAAGTGTGTGGGGCTAC
1 TCA-ATGAGTTACACAGCCTAACACATGGCCTGGCACACAAGTGTGTGGGGCTAC
47172286 TCAATGAGTTACACAG
1 TCAATGAGTTACACAG
47172302 GCTGGGACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
53 1 0.02
54 58 0.95
55 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (54 bp):
TCAATGAGTTACACAGCCTAACACATGGCCTGGCACACAAGTGTGTGGGGCTAC
Found at i:47175518 original size:36 final size:35
Alignment explanation
Indices: 47175467--47175590 Score: 133
Period size: 36 Copynumber: 3.5 Consensus size: 35
47175457 ACATCGATAT
* *
47175467 TCCAACCAAAACACACTAGATGCTCAAAAGAGCTAA
1 TCCATCCAAAACACAC-AGATGCTCAAAAGAGTTAA
*
47175503 TCCATCCAAAACACACCAGATGCTCAAAATAGTTAA
1 TCCATCCAAAACACA-CAGATGCTCAAAAGAGTTAA
** **
47175539 TCCATATGAAATGTA-ACAGATGCTCAAAAGAGTTAA
1 TCCAT-CCAAA-ACACACAGATGCTCAAAAGAGTTAA
*
47175575 TCCATCCGAAACACAC
1 TCCATCCAAAACACAC
47175591 CAATGGCTCC
Statistics
Matches: 71, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
34 1 0.01
35 4 0.06
36 60 0.85
37 5 0.07
38 1 0.01
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (35 bp):
TCCATCCAAAACACACAGATGCTCAAAAGAGTTAA
Found at i:47182454 original size:28 final size:28
Alignment explanation
Indices: 47182396--47182464 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
47182386 TAATGAGATT
*
47182396 AGCACTAAGTGTGCGAGTATAAGGGTAA
1 AGCACTAAGTGTGCGAGTATAAGGATAA
* * ** *
47182424 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTATAAGGATAA
47182452 AGCACTAAGTGTG
1 AGCACTAAGTGTG
47182465 TGTACTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATAAGGATAA
Found at i:47183328 original size:25 final size:22
Alignment explanation
Indices: 47183272--47183381 Score: 123
Period size: 25 Copynumber: 4.7 Consensus size: 22
47183262 GTGTTATAAA
*
47183272 TTTAATGTATAATGCTGTCAAAT
1 TTTAATGTATAATGCTGTC-CAT
47183295 TTTAA-GTATATTGATGCTGTCCAT
1 TTTAATGTATA---ATGCTGTCCAT
47183319 TTTAATGTATAATGCTGTCCAAT
1 TTTAATGTATAATGCTGTCC-AT
* *
47183342 TTTGAGTATATTAATGCTGTCCAT
1 TTT-AATGTA-TAATGCTGTCCAT
47183366 TTTAATGTATAATGCT
1 TTTAATGTATAATGCT
47183382 ACCCAATTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
22 21 0.28
23 14 0.19
24 16 0.21
25 24 0.32
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (22 bp):
TTTAATGTATAATGCTGTCCAT
Found at i:47183343 original size:47 final size:46
Alignment explanation
Indices: 47183270--47183481 Score: 230
Period size: 47 Copynumber: 4.5 Consensus size: 46
47183260 TTGTGTTATA
*
47183270 AATTTAATGTATAATGCTGTCAAATTTTAAGTATATTGATGCTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTAAGTATATT-ATGCTGTCC
* *
47183317 ATTTTAATGTATAATGCTGTCCAATTTTGAGTATATTAATGCTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTAAGTATATT-ATGCTGTCC
* ** * * *
47183364 ATTTTAATGTATAATGCTACCCAATTTTGAGTATATTTAAGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTAAGTATA-TTATGCTGTCC
** *
47183411 AATTCGATGTATAATGCTGTCC-A-TTTAGAGCATATTATTGCTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTA-AGTATATTA-TGCTGTCC
* *
47183457 AATTTGATGAATAATTGCTGTCCAA
1 AATTTAATGTATAA-TGCTGTCCAA
47183482 AACAGGCTTG
Statistics
Matches: 141, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
45 6 0.04
46 24 0.17
47 108 0.77
48 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (46 bp):
AATTTAATGTATAATGCTGTCCAATTTTAAGTATATTATGCTGTCC
Found at i:47183397 original size:22 final size:22
Alignment explanation
Indices: 47183278--47183481 Score: 112
Period size: 22 Copynumber: 8.7 Consensus size: 22
47183268 TAAATTTAAT
* *
47183278 GTATAATGCTGTCAAATTTTAA
1 GTATAATGCTGTCCAATTTTGA
*
47183300 GTATATTGATGCTGTCC-ATTTTAA
1 GTATA---ATGCTGTCCAATTTTGA
47183324 TGTATAATGCTGTCCAATTTTGA
1 -GTATAATGCTGTCCAATTTTGA
*
47183347 GTATATTAATGCTGTCC-ATTTTAA
1 G--TA-TAATGCTGTCCAATTTTGA
**
47183371 TGTATAATGCTACCCAATTTTGA
1 -GTATAATGCTGTCCAATTTTGA
* * *
47183394 GTATATTTAAGCTGTCTAA-TTCGA
1 GTATA---ATGCTGTCCAATTTTGA
*
47183418 TGTATAATGCTGTCC-ATTTAGA
1 -GTATAATGCTGTCCAATTTTGA
*
47183440 GCATATTATTGCTGTCCAA-TTTGA
1 G--TA-TAATGCTGTCCAATTTTGA
*
47183464 TGAATAATTGCTGTCCAA
1 -GTATAA-TGCTGTCCAA
47183482 AACAGGCTTG
Statistics
Matches: 143, Mismatches: 18, Indels: 41
0.71 0.09 0.20
Matches are distributed among these distances:
21 2 0.01
22 42 0.29
23 27 0.19
24 33 0.23
25 39 0.27
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.42
Consensus pattern (22 bp):
GTATAATGCTGTCCAATTTTGA
Found at i:47186232 original size:39 final size:39
Alignment explanation
Indices: 47186185--47186262 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
47186175 GGTACATTTT
*
47186185 TGTGTTATAAATTTAATGTATAATGCTGTCCAATTTTAA
1 TGTGTTATAAATTTAATGTATAATGCTATCCAATTTTAA
47186224 TGTGTTATAAATTTAATGTATAATGCTATCCAATTTTAA
1 TGTGTTATAAATTTAATGTATAATGCTATCCAATTTTAA
47186263 GTATATTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (39 bp):
TGTGTTATAAATTTAATGTATAATGCTATCCAATTTTAA
Found at i:47186259 original size:22 final size:22
Alignment explanation
Indices: 47186233--47186306 Score: 87
Period size: 22 Copynumber: 3.2 Consensus size: 22
47186223 ATGTGTTATA
*
47186233 AATTTAATGTATAATGCTATCC
1 AATTTAATGTATAATGCTGTCC
47186255 AATTTTAA-GTATATTGATGCTGTCC
1 AA-TTTAATGTATA---ATGCTGTCC
*
47186280 ATTTTAATGTATAATGCTGTCC
1 AATTTAATGTATAATGCTGTCC
47186302 AATTT
1 AATTT
47186307 TTGAGTATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 20 0.45
23 5 0.11
24 5 0.11
25 14 0.32
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (22 bp):
AATTTAATGTATAATGCTGTCC
Found at i:47186280 original size:25 final size:24
Alignment explanation
Indices: 47186246--47186378 Score: 91
Period size: 25 Copynumber: 5.6 Consensus size: 24
47186236 TTAATGTATA
*
47186246 ATGCTATCCAATTTTAAGTATATT
1 ATGCTGTCCAATTTTAAGTATATT
47186270 GATGCTGTCC-ATTTTAATGTATA--
1 -ATGCTGTCCAATTTTAA-GTATATT
*
47186293 ATGCTGTCCAATTTTTGAGTATATTT
1 ATGCTGTCCAA-TTTTAAGTATA-TT
* * ** *
47186319 AAGCTGTCTAATTCGATGTATA--
1 ATGCTGTCCAATTTTAAGTATATT
*
47186341 ATGCTGTCC-A-TTTAGAGCATATT
1 ATGCTGTCCAATTTTA-AGTATATT
47186364 ATTGCTGTCCAATTT
1 A-TGCTGTCCAATTT
47186379 GATGAATAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
20 2 0.02
21 5 0.06
22 16 0.20
23 7 0.09
24 20 0.24
25 21 0.26
26 11 0.13
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (24 bp):
ATGCTGTCCAATTTTAAGTATATT
Found at i:47186289 original size:47 final size:46
Alignment explanation
Indices: 47186233--47186398 Score: 156
Period size: 48 Copynumber: 3.5 Consensus size: 46
47186223 ATGTGTTATA
47186233 AATTTAATGTATAATGCTATCCAATTTTAAGTATATTGATGCTGTCC
1 AATTTAATGTATAATGCTATCCAATTTTAAGTATATT-ATGCTGTCC
* * * * *
47186280 ATTTTAATGTATAATGCTGTCCAATTTTTGAGTATATTTAAGCTGTCT
1 AATTTAATGTATAATGCTATCCAA-TTTTAAGTATA-TTATGCTGTCC
** * *
47186328 AATTCGATGTATAATGCTGTCC-A-TTTAGAGCATATTATTGCTGTCC
1 AATTTAATGTATAATGCTATCCAATTTTA-AGTATATTA-TGCTGTCC
* * *
47186374 AATTTGATGAATAAATTCTATCCAA
1 AATTTAATGTAT-AATGCTATCCAA
47186399 AACAGGGTTG
Statistics
Matches: 97, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
45 6 0.06
46 21 0.22
47 31 0.32
48 37 0.38
49 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (46 bp):
AATTTAATGTATAATGCTATCCAATTTTAAGTATATTATGCTGTCC
Found at i:47192818 original size:28 final size:28
Alignment explanation
Indices: 47192785--47192858 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
47192775 TAATGAGATT
* * **
47192785 AGCACTAAGTGTGCTAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTATAAGGGTAA
47192812 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTATAAGGGTAA
*
47192841 AGCACTAAGTGTACGAGT
1 AGCACTAAGTGTGCGAGT
47192859 TTGATTATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 1 0.03
28 36 0.90
29 3 0.08
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATAAGGGTAA
Found at i:47193730 original size:25 final size:25
Alignment explanation
Indices: 47193699--47193879 Score: 143
Period size: 24 Copynumber: 7.6 Consensus size: 25
47193689 ATTTAATGTA
*
47193699 TAATGCTGTCCAATTTTAAGTTTAT
1 TAATGCTGTCCAATTTTAAGTATAT
* *
47193724 TGATGCTGTCC-ATTTTAA-TTTA-
1 TAATGCTGTCCAATTTTAAGTATAT
* *
47193746 TAGTGCTGTCCAATTTTGAGTATAT
1 TAATGCTGTCCAATTTTAAGTATAT
*
47193771 TAATGCTGTCC-ATTTTAA-TGTA-
1 TAATGCTGTCCAATTTTAAGTATAT
*
47193793 TAATGCTGTCCAATTTTGAGTATATT
1 TAATGCTGTCCAATTTTAAGTATA-T
* ** *
47193819 TAA-GCTGTCTAA-TTCGA-TGTA-
1 TAATGCTGTCCAATTTTAAGTATAT
*
47193840 TAATGCTGTCC-A-TTTAGAGCATAT
1 TAATGCTGTCCAATTTTA-AGTATAT
*
47193864 TATTGCTGTCCAATTT
1 TAATGCTGTCCAATTT
47193880 GATGAATAAT
Statistics
Matches: 124, Mismatches: 19, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
21 6 0.05
22 27 0.22
23 24 0.19
24 33 0.27
25 29 0.23
26 5 0.04
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (25 bp):
TAATGCTGTCCAATTTTAAGTATAT
Found at i:47193755 original size:22 final size:23
Alignment explanation
Indices: 47193690--47193809 Score: 136
Period size: 23 Copynumber: 5.1 Consensus size: 23
47193680 GTGTTATAAA
47193690 TTTAATGTATAATGCTGTCCAAT
1 TTTAATGTATAATGCTGTCCAAT
* *
47193713 TTTAAGTTTATTGATGCTGTCC-AT
1 TTTAA-TGTA-TAATGCTGTCCAAT
* *
47193737 TTTAATTTATAGTGCTGTCCAAT
1 TTTAATGTATAATGCTGTCCAAT
* *
47193760 TTTGAGTATATTAATGCTGTCC-AT
1 TTT-AATGTA-TAATGCTGTCCAAT
47193784 TTTAATGTATAATGCTGTCCAAT
1 TTTAATGTATAATGCTGTCCAAT
47193807 TTT
1 TTT
47193810 GAGTATATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
22 20 0.24
23 23 0.28
24 19 0.23
25 20 0.24
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (23 bp):
TTTAATGTATAATGCTGTCCAAT
Found at i:47193759 original size:47 final size:47
Alignment explanation
Indices: 47193690--47193899 Score: 244
Period size: 47 Copynumber: 4.5 Consensus size: 47
47193680 GTGTTATAAA
* * *
47193690 TTTAATGTATAATGCTGTCCAATTTTAAGTTTATTGATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTAATGCTGTCCAT
* *
47193737 TTTAATTTATAGTGCTGTCCAATTTTGAGTATATTAATGCTGTCCAT
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTAATGCTGTCCAT
* *
47193784 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTTAA-GCTGTCTAA
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATA-TTAATGCTGTCCAT
** * * * *
47193831 TTCGATGTATAATGCTGTCC-ATTTAGAGCATATTATTGCTGTCCAA
1 TTTAATGTATAATGCTGTCCAATTTTGAGTATATTAATGCTGTCCAT
* * *
47193877 TTTGATGAATAATTGTTGTCCAA
1 TTTAATGTATAA-TGCTGTCCAA
47193900 AACAGGCTTG
Statistics
Matches: 141, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
45 3 0.02
46 28 0.20
47 105 0.74
48 5 0.04
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (47 bp):
TTTAATGTATAATGCTGTCCAATTTTGAGTATATTAATGCTGTCCAT
Found at i:47202590 original size:23 final size:23
Alignment explanation
Indices: 47202564--47202609 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
47202554 TGTTCAATAA
47202564 ATATACATGAAAGGGTATAATGT
1 ATATACATGAAAGGGTATAATGT
47202587 ATATACATGAAAGGGTATAATGT
1 ATATACATGAAAGGGTATAATGT
47202610 CTTTTGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (23 bp):
ATATACATGAAAGGGTATAATGT
Found at i:47203276 original size:12 final size:12
Alignment explanation
Indices: 47203259--47203297 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
47203249 CGACTCGCCC
47203259 ATATTAATTTTT
1 ATATTAATTTTT
*
47203271 ATATTATTTTTT
1 ATATTAATTTTT
*
47203283 ATA-TAATTTTA
1 ATATTAATTTTT
47203294 ATAT
1 ATAT
47203298 ATATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:47203464 original size:30 final size:30
Alignment explanation
Indices: 47203420--47203480 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
47203410 ACTTAACAAG
47203420 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
47203450 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
47203480 C
1 C
47203481 TATAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:47204491 original size:2 final size:2
Alignment explanation
Indices: 47204484--47204533 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
47204474 ATGACTTTTG
47204484 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47204526 AT AT AT AT
1 AT AT AT AT
47204534 TCTGAATATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47209378 original size:17 final size:17
Alignment explanation
Indices: 47209353--47209386 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47209343 AAGAAAACTA
*
47209353 TTTAATTAATTTTTATT
1 TTTAATTAATTATTATT
*
47209370 TTTATTTAATTATTATT
1 TTTAATTAATTATTATT
47209387 GAATAAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTAATTAATTATTATT
Found at i:47214530 original size:21 final size:21
Alignment explanation
Indices: 47214504--47214553 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
47214494 TACACGTTTG
* *
47214504 GCCACATGGCCACGTTCTTGA
1 GCCACACGACCACGTTCTTGA
*
47214525 GCCACACGACCATGTTCTTGA
1 GCCACACGACCACGTTCTTGA
47214546 GCCACACG
1 GCCACACG
47214554 GGCTAAGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.36, G:0.22, T:0.20
Consensus pattern (21 bp):
GCCACACGACCACGTTCTTGA
Found at i:47229273 original size:12 final size:10
Alignment explanation
Indices: 47229247--47229271 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47229237 TAAAGGAAAC
47229247 TATATTTCAA
1 TATATTTCAA
47229257 TATATTTCAA
1 TATATTTCAA
47229267 TATAT
1 TATAT
47229272 ATATATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATTTCAA
Found at i:47230275 original size:5 final size:5
Alignment explanation
Indices: 47230259--47230306 Score: 69
Period size: 5 Copynumber: 9.2 Consensus size: 5
47230249 TAAAGAAAGA
*
47230259 AAAAT GAAAAT AAAAT AAAAT AAAAT AAAAT AAAAAC AAAAT AAAAT A
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT A
47230307 TAAAAACTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
5 30 0.77
6 9 0.23
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Done.