Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 27 of 91
Found at i:9252416 original size:11 final size:11
Alignment explanation
Indices: 9252400--9252424 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9252390 TTTATATGCG
9252400 ATAAAATAATA
1 ATAAAATAATA
9252411 ATAAAATAATA
1 ATAAAATAATA
9252422 ATA
1 ATA
9252425 TCTTATTATG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:9254056 original size:2 final size:2
Alignment explanation
Indices: 9254049--9254073 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9254039 AATTGCTGCC
9254049 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9254074 GTGTGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9255050 original size:25 final size:25
Alignment explanation
Indices: 9255015--9255074 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
9255005 TGATATATAT
* *
9255015 ATATATATGGCAAGGCCATAGGTTG
1 ATATATATGGCAAGGCCACAAGTTG
* *
9255040 ATATATGTGGCTAGGCCACAAGTTG
1 ATATATATGGCAAGGCCACAAGTTG
*
9255065 ATATACATGG
1 ATATATATGG
9255075 TTGCGATCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (25 bp):
ATATATATGGCAAGGCCACAAGTTG
Found at i:9260033 original size:35 final size:35
Alignment explanation
Indices: 9259985--9260053 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
9259975 TTCACCAAGC
* *
9259985 TTTACAATGGCTTTT-ACCAGGCTCAGCTAAAACCT
1 TTTACAATAGCTTTTCA-CAGGCTCAACTAAAACCT
* *
9260020 TTTACACTAGCTTTTCACGGGCTCAACTAAAACC
1 TTTACAATAGCTTTTCACAGGCTCAACTAAAACC
9260054 CCAAAGTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (35 bp):
TTTACAATAGCTTTTCACAGGCTCAACTAAAACCT
Found at i:9272046 original size:23 final size:23
Alignment explanation
Indices: 9272016--9272061 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9272006 CTAAGGAATG
9272016 AATAAATGATGTTTATGATGGTA
1 AATAAATGATGTTTATGATGGTA
9272039 AATAAATGATGTTTATGATGGTA
1 AATAAATGATGTTTATGATGGTA
9272062 TTGATAATTT
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:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (23 bp):
AATAAATGATGTTTATGATGGTA
Found at i:9273067 original size:49 final size:49
Alignment explanation
Indices: 9272995--9273114 Score: 195
Period size: 49 Copynumber: 2.4 Consensus size: 49
9272985 TGATATTGTG
* *
9272995 TGATGATGATGACCCGGCGATGTGCGAGTAGGGAGTGCACATAAGTCGA
1 TGATGATGATGACCCGACTATGTGCGAGTAGGGAGTGCACATAAGTCGA
* * *
9273044 TGATGATGATGACTCGACTATGTGCGAGTAGGGAGTGCGCATGAGTCGA
1 TGATGATGATGACCCGACTATGTGCGAGTAGGGAGTGCACATAAGTCGA
9273093 TGATGATGATGACCCGACTATG
1 TGATGATGATGACCCGACTATG
9273115 ATGATGAATG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.35, T:0.23
Consensus pattern (49 bp):
TGATGATGATGACCCGACTATGTGCGAGTAGGGAGTGCACATAAGTCGA
Found at i:9281369 original size:34 final size:34
Alignment explanation
Indices: 9281299--9281370 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
9281289 AATATCATCT
* *
9281299 TCATGTGTGCACTCCCTACTCGCACACTCTATCA
1 TCATGTGTGCACTCCCTACTCACACACTCTAACA
9281333 TCATGTGTGCACTCCCTACTCACACACT-TCAACA
1 TCATGTGTGCACTCCCTACTCACACACTCT-AACA
9281367 TCAT
1 TCAT
9281371 CACACAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 1 0.03
34 34 0.97
ACGTcount: A:0.24, C:0.38, G:0.10, T:0.29
Consensus pattern (34 bp):
TCATGTGTGCACTCCCTACTCACACACTCTAACA
Found at i:9282911 original size:20 final size:18
Alignment explanation
Indices: 9282888--9282942 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 18
9282878 AAAAACATAG
9282888 AAAGAGAGAAAAAAAATT
1 AAAGAGAGAAAAAAAATT
9282906 ACAA-AGAGAAAAGAAGAATT
1 A-AAGAGAGAAAA-AA-AATT
*
9282926 ATAGAGAGAAAAAAAAT
1 AAAGAGAGAAAAAAAAT
9282943 GAAAAGCGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 12 0.38
19 7 0.22
20 13 0.41
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.11
Consensus pattern (18 bp):
AAAGAGAGAAAAAAAATT
Found at i:9283287 original size:6 final size:6
Alignment explanation
Indices: 9283276--9283310 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9283266 TGATTCTAAT
9283276 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
9283311 TGGGATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:9283535 original size:158 final size:157
Alignment explanation
Indices: 9283337--9283625 Score: 456
Period size: 158 Copynumber: 1.8 Consensus size: 157
9283327 AAGAGTTTAC
* * * *
9283337 TAAATAAATAAGACTCTCAGATGATGGAATTTTGAGAAGGTTATAAATAATAGCTTCTTGGAAAT
1 TAAATAAATAAGACTCTCAGATAATGGAATTTTAAGAAGGTTATAAATAATAGATTCTTGAAAAT
*
9283402 TTCTAAGTGAGAAATTTTTCTTGAATTCTGTCATAAATGTTGGAGTTTTCAA-GAAATATTTCAA
66 TTCTAAGTGAGAAATTTTTCTTGAATTCTATCATAAATGTTGGAGTTTTCAAGGAAA-ATTTCAA
9283466 TAAGAGTTTTTGCTTATTTCAATCACAT
130 TAAGAGTTTTTGCTTATTTCAATCACAT
*
9283494 TAAATAAATAAAGACTTTCCA-ATAATGGAATTTTAAGAAGGTTATAAATAATAGATTCTTGAAA
1 TAAATAAAT-AAGACTCT-CAGATAATGGAATTTTAAGAAGGTTATAAATAATAGATTCTTGAAA
* * *
9283558 ATTTCTAAGTGAGAGATTTTTCTTGAATTTTATCATAAGTGTTGGAGTTTTCAAGGAAAATTTCA
64 ATTTCTAAGTGAGAAATTTTTCTTGAATTCTATCATAAATGTTGGAGTTTTCAAGGAAAATTTCA
9283623 ATA
129 ATA
9283626 TCAAAATTTT
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
157 9 0.08
158 105 0.88
159 6 0.05
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (157 bp):
TAAATAAATAAGACTCTCAGATAATGGAATTTTAAGAAGGTTATAAATAATAGATTCTTGAAAAT
TTCTAAGTGAGAAATTTTTCTTGAATTCTATCATAAATGTTGGAGTTTTCAAGGAAAATTTCAAT
AAGAGTTTTTGCTTATTTCAATCACAT
Found at i:9286197 original size:85 final size:84
Alignment explanation
Indices: 9286049--9286217 Score: 284
Period size: 85 Copynumber: 2.0 Consensus size: 84
9286039 TTTAGCATGC
* *
9286049 TTGAGGAGAGAGATCAAAAAGTGATATCAAGGGCTGGACGAAATTCTAGGGGAGAGAAATTGAAA
1 TTGAGGAGAGAGATCAAAAAGTGACATCAAGGGCTGAACGAAATTCTAGGGGAGAGAAATTGAAA
9286114 TTTTTAGGTTTTGATTTTT
66 TTTTTAGGTTTTGATTTTT
* **
9286133 NTTGAGGAGAGAGATCTAAAAGTGACATCAAGGGCTGAACGAAATTCTAGGGGAGAGATTTTGAA
1 -TTGAGGAGAGAGATCAAAAAGTGACATCAAGGGCTGAACGAAATTCTAGGGGAGAGAAATTGAA
9286198 ATTTTTAGGTTTTGATTTTT
65 ATTTTTAGGTTTTGATTTTT
9286218 AGTTAAATTG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (84 bp):
TTGAGGAGAGAGATCAAAAAGTGACATCAAGGGCTGAACGAAATTCTAGGGGAGAGAAATTGAAA
TTTTTAGGTTTTGATTTTT
Found at i:9288349 original size:39 final size:39
Alignment explanation
Indices: 9288278--9288384 Score: 133
Period size: 39 Copynumber: 2.7 Consensus size: 39
9288268 AGATAGGAGA
* * * * *
9288278 CAAAAATAGAAGGTTTTTCGCTGCAGGGAAATTGTGACC
1 CAAAAACAGAAAGTTTCTCGCTGCAGCGAAATTGTAACC
* * *
9288317 TAGAAACAGAATGTTTCTCGCTGCAGCGAAATTGTAACC
1 CAAAAACAGAAAGTTTCTCGCTGCAGCGAAATTGTAACC
*
9288356 CAAAAACAAAAAGTTTCTCGCTGCAGCGA
1 CAAAAACAGAAAGTTTCTCGCTGCAGCGA
9288385 GAATGAATTT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAAAACAGAAAGTTTCTCGCTGCAGCGAAATTGTAACC
Found at i:9295747 original size:2 final size:2
Alignment explanation
Indices: 9295700--9295738 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9295690 TATTATGTAG
9295700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9295739 CGAATATATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9295780 original size:20 final size:21
Alignment explanation
Indices: 9295740--9295780 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9295730 ATATATATAC
*
9295740 GAATATATGTTGTGCATTGAT
1 GAATATATGTTGTGCAATGAT
*
9295761 GAATA-ATGTTGTGTAATGAT
1 GAATATATGTTGTGCAATGAT
9295781 ATTGACTCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.41
Consensus pattern (21 bp):
GAATATATGTTGTGCAATGAT
Found at i:9297920 original size:21 final size:21
Alignment explanation
Indices: 9297894--9297942 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
9297884 CACAACACTC
9297894 TTTTCAACCTTTAAATGTTCT
1 TTTTCAACCTTTAAATGTTCT
*
9297915 TTTTCAACCTTTGAATGTTCT
1 TTTTCAACCTTTAAATGTTCT
9297936 TTTTCAA
1 TTTTCAA
9297943 GTTGGGGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.06, T:0.53
Consensus pattern (21 bp):
TTTTCAACCTTTAAATGTTCT
Found at i:9306814 original size:259 final size:258
Alignment explanation
Indices: 9306353--9306871 Score: 1020
Period size: 259 Copynumber: 2.0 Consensus size: 258
9306343 GCAACATGTA
9306353 AATAAGGATGGTGGTATATGCAGACGTAGAAAATGTTTGATGAAAGTAAATTTATAGTTGCTGCC
1 AATAAGGATGGTGGTATATGCAGACGTAGAAAATGTTTGATGAAAGTAAATTTATAGTTGCTGCC
*
9306418 ATATGCTAGGTAATTATTGTGGAAGTGATGGATAAACTTGATAAATATCCTTAAACAAGATTTAT
66 ATATGCTAGGTAATTATTGTGGAAATGATGGATAAACTTGATAAATATCCTTAAACAAGATTTAT
9306483 ATATGTGCTAGAGTCATAAATACGTTGCTGGTATCCATAATCTAAAGAATTATGCAAGTCAAGGA
131 ATATGTGCTAGAGTCATAAATACGTTGCTGGTATCCATAATCTAAAGAATTATGCAAGTCAAGGA
9306548 TAAAAGCCACTTTGGTGAAGAATGTGTCAAGATATAAGTAAATTGAATAAGGATTCATGATTG
196 TAAAAGCCACTTTGGTGAAGAATGTGTCAAGATATAAGTAAATTGAATAAGGATTCATGATTG
9306611 AANTAAGGATGGTGGTATATGCAGACGTAGAAAATGTTTGATGAAAGTAAATTTATAGTTGCTGC
1 AA-TAAGGATGGTGGTATATGCAGACGTAGAAAATGTTTGATGAAAGTAAATTTATAGTTGCTGC
9306676 CATATGCTAGGTAATTATTGTGGAAATGATGGATAAACTTGATAAATATCCTTAAACAAGATTTA
65 CATATGCTAGGTAATTATTGTGGAAATGATGGATAAACTTGATAAATATCCTTAAACAAGATTTA
9306741 TATATGTGCTAGAGTCATAAATACGTTGCTGGTATCCATAATCTAAAGAATTATGCAAGTCAAGG
130 TATATGTGCTAGAGTCATAAATACGTTGCTGGTATCCATAATCTAAAGAATTATGCAAGTCAAGG
9306806 ATAAAAGCCACTTTGGTGAAGAATGTGTCAAGATATAAGTAAATTGAATAAGGATTCATGATTG
195 ATAAAAGCCACTTTGGTGAAGAATGTGTCAAGATATAAGTAAATTGAATAAGGATTCATGATTG
9306870 AA
1 AA
9306872 GGAAAAAGAG
Statistics
Matches: 259, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
258 2 0.01
259 257 0.99
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.31
Consensus pattern (258 bp):
AATAAGGATGGTGGTATATGCAGACGTAGAAAATGTTTGATGAAAGTAAATTTATAGTTGCTGCC
ATATGCTAGGTAATTATTGTGGAAATGATGGATAAACTTGATAAATATCCTTAAACAAGATTTAT
ATATGTGCTAGAGTCATAAATACGTTGCTGGTATCCATAATCTAAAGAATTATGCAAGTCAAGGA
TAAAAGCCACTTTGGTGAAGAATGTGTCAAGATATAAGTAAATTGAATAAGGATTCATGATTG
Found at i:9308433 original size:2 final size:2
Alignment explanation
Indices: 9308428--9308458 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9308418 ACACATATTT
9308428 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
9308459 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9308513 original size:22 final size:23
Alignment explanation
Indices: 9308485--9308528 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
9308475 TACATATATA
9308485 CCCATCATCATCATCA-CACCAT
1 CCCATCATCATCATCACCACCAT
9308507 CCCATCATCATCATCACCACCA
1 CCCATCATCATCATCACCACCA
9308529 GCTCATGCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (23 bp):
CCCATCATCATCATCACCACCAT
Found at i:9308582 original size:43 final size:43
Alignment explanation
Indices: 9308533--9308642 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
9308523 CCACCAGCTC
* ** * *
9308533 ATGCGCACTCCCTACTCACACATGGCTAGGTCATCACTTGG-TT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATC-CTCGGCTT
*
9308576 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
*
9308619 ATGCGCACTCCTTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
9308643 GCCGAGTCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 4 0.07
43 55 0.93
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
Found at i:9311042 original size:3 final size:3
Alignment explanation
Indices: 9311027--9311061 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
9311017 GGGAGTGCAC
*
9311027 ATG ATG GTG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
9311062 ATTGAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:9311102 original size:38 final size:38
Alignment explanation
Indices: 9311051--9311130 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
9311041 GATGATGATG
9311051 ATGATGATGATATTGAAATGTGCGA-GTAGGGAGTGCAC
1 ATGATGATGATATTGAAATGTGC-ATGTAGGGAGTGCAC
***
9311089 ATGATGATGATATTGCCTTGTGCATGTAGGGAGTGCAC
1 ATGATGATGATATTGAAATGTGCATGTAGGGAGTGCAC
9311127 ATGA
1 ATGA
9311131 GCTGAGTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 1 0.03
38 37 0.97
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (38 bp):
ATGATGATGATATTGAAATGTGCATGTAGGGAGTGCAC
Found at i:9312570 original size:42 final size:41
Alignment explanation
Indices: 9312524--9312652 Score: 119
Period size: 36 Copynumber: 3.1 Consensus size: 41
9312514 GCACACGATG
*
9312524 ATGATGATGATATATTCCATGTGCGTGATGTGGGGGGAGCAC
1 ATGATGATGATATATTCCATGTGCGCGATGT-GGGGGAGCAC
*
9312566 ATGATG--GCAT-TAGTT--A--TGCGCGATGTGGGGGTGCAC
1 ATGATGATG-ATATA-TTCCATGTGCGCGATGTGGGGGAGCAC
*
9312602 ATGATGATGATGATATATGCCATGTGCACGATGTGGGGGACGCAC
1 ATGATGATGAT-ATAT-T-CCATGTGCGCGATGTGGGGGA-GCAC
9312647 ATGATG
1 ATGATG
9312653 GCATTAGTTG
Statistics
Matches: 70, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
36 15 0.21
37 11 0.16
38 2 0.03
39 4 0.06
40 3 0.04
41 4 0.06
42 7 0.10
44 14 0.20
45 10 0.14
ACGTcount: A:0.24, C:0.13, G:0.36, T:0.27
Consensus pattern (41 bp):
ATGATGATGATATATTCCATGTGCGCGATGTGGGGGAGCAC
Found at i:9312579 original size:84 final size:84
Alignment explanation
Indices: 9312441--9312689 Score: 364
Period size: 81 Copynumber: 3.0 Consensus size: 84
9312431 AGGGAGTGTG
* *
9312441 GATGATGAGAT-TGCCTATGTGCACGATGTGGGGGGGAGCACATGATGGCATTAGTTGTGCGCAA
1 GATGATGATATATGCC-ATGTGCACGATGT-GGGGGGAGCACATGATGGCATTAGTTGTGCGCGA
*
9312505 TGTGGGAGTGCACACGATGAT
64 TGTGGGGGTGCACACGATGAT
* ** *
9312526 GATGATGATATATTCCATGTGCGTGATGTGGGGGGAGCACATGATGGCATTAGTTATGCGCGATG
1 GATGATGATATATGCCATGTGCACGATGTGGGGGGAGCACATGATGGCATTAGTTGTGCGCGATG
9312591 TGGGGGTG--CAC-ATGAT
66 TGGGGGTGCACACGATGAT
*
9312607 GATGATGATATATGCCATGTGCACGATGT-GGGGGACGCACATGATGGCATTAGTTGTGCTCGAT
1 GATGATGATATATGCCATGTGCACGATGTGGGGGGA-GCACATGATGGCATTAGTTGTGCGCGAT
9312671 GTGGGGGTGCACACGATGA
65 GTGGGGGTGCACACGATGA
9312690 CTCCGGTTAT
Statistics
Matches: 147, Mismatches: 12, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
80 6 0.04
81 66 0.45
82 3 0.02
83 3 0.02
84 45 0.31
85 21 0.14
86 3 0.02
ACGTcount: A:0.23, C:0.14, G:0.37, T:0.26
Consensus pattern (84 bp):
GATGATGATATATGCCATGTGCACGATGTGGGGGGAGCACATGATGGCATTAGTTGTGCGCGATG
TGGGGGTGCACACGATGAT
Found at i:9312596 original size:36 final size:36
Alignment explanation
Indices: 9312543--9312688 Score: 121
Period size: 37 Copynumber: 3.8 Consensus size: 36
9312533 ATATATTCCA
*
9312543 TGTGCGTGATGTGGGGGGAGCACATGATGGCATTAGT
1 TGTGCGCGATGT-GGGGGAGCACATGATGGCATTAGT
* * * *
9312580 TATGCGCGATGTGGGGGTGCACATGATGATGATGATATATGCCA
1 TGTGCGCGATGTGGGGGAGCACATGATG--G--CAT-TA-G--T
*
9312624 TGTGCACGATGTGGGGGACGCACATGATGGCATTAGT
1 TGTGCGCGATGTGGGGGA-GCACATGATGGCATTAGT
* * *
9312661 TGTGCTCGATGTGGGGGTGCACACGATG
1 TGTGCGCGATGTGGGGGAGCACATGATG
9312689 ACTCCGGTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
36 24 0.28
37 26 0.30
38 1 0.01
39 1 0.01
40 4 0.05
41 4 0.05
42 1 0.01
43 1 0.01
44 15 0.17
45 10 0.11
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.26
Consensus pattern (36 bp):
TGTGCGCGATGTGGGGGAGCACATGATGGCATTAGT
Found at i:9312671 original size:37 final size:36
Alignment explanation
Indices: 9312550--9312688 Score: 116
Period size: 36 Copynumber: 3.6 Consensus size: 36
9312540 CCATGTGCGT
* *
9312550 GATGTGGGGGGAGCACATGATGGCATTAGTTATGCGC
1 GATGT-GGGGGAGCACATGATGGCATTAGTTGTGCAC
* * *
9312587 GATGTGGGGGTGCACATGATGATGATGATATATGCCATGTGCAC
1 GATGTGGGGGAGCACATGATG--G--CAT-TA-G--TTGTGCAC
*
9312631 GATGTGGGGGACGCACATGATGGCATTAGTTGTGCTC
1 GATGTGGGGGA-GCACATGATGGCATTAGTTGTGCAC
* *
9312668 GATGTGGGGGTGCACACGATG
1 GATGTGGGGGAGCACATGATG
9312689 ACTCCGGTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
36 24 0.29
37 21 0.26
38 1 0.01
39 1 0.01
40 4 0.05
41 4 0.05
42 1 0.01
43 1 0.01
44 15 0.18
45 10 0.12
ACGTcount: A:0.22, C:0.14, G:0.39, T:0.25
Consensus pattern (36 bp):
GATGTGGGGGAGCACATGATGGCATTAGTTGTGCAC
Found at i:9312862 original size:19 final size:21
Alignment explanation
Indices: 9312838--9312877 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9312828 ATTGAGAAAA
*
9312838 CTTGA-TTATTGT-CAATGTG
1 CTTGATTTAATGTACAATGTG
9312857 CTTGATTTAATGTACAATGTG
1 CTTGATTTAATGTACAATGTG
9312878 GCATGAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (21 bp):
CTTGATTTAATGTACAATGTG
Found at i:9315173 original size:29 final size:28
Alignment explanation
Indices: 9315118--9315171 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
9315108 GACAAGTGCT
9315118 GGGATGAAAAATTTATCGATTTGCCCTC
1 GGGATGAAAAATTTATCGATTTGCCCTC
9315146 GGGATAGAAAAA-TTAT-GATTTTGCCC
1 GGGAT-GAAAAATTTATCGA-TTTGCCC
9315172 CTATACTCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 2 0.08
28 16 0.67
29 6 0.25
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (28 bp):
GGGATGAAAAATTTATCGATTTGCCCTC
Found at i:9316195 original size:2 final size:2
Alignment explanation
Indices: 9316188--9316219 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9316178 ATTTGTCAAG
9316188 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
9316220 TATGATTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9317544 original size:88 final size:86
Alignment explanation
Indices: 9317436--9317596 Score: 198
Period size: 86 Copynumber: 1.8 Consensus size: 86
9317426 TTATATGTTG
* * * *
9317436 TTTTGGGTTAACTTGCTTAATTTTTGTATTTTCAAAATCATGCACATGCATCATGCA-CCAATAA
1 TTTTGGGTTAACTAGCTTAA-TTTT-TATCTTCAAAATAATGCACATGCATCATGCATCC-ACAA
9317500 TATAGGGATATCTACCATATGCTA
63 TATAGGGATATCTACCATATGCTA
* * * * * *
9317524 TTTTGTGTTAACTAGTTTAATTTTTCTCTTCACAATAATGCACTTGCATCATGCATCCACCATAT
1 TTTTGGGTTAACTAGCTTAATTTTTATCTTCAAAATAATGCACATGCATCATGCATCCACAATAT
9317589 AGGGATAT
66 AGGGATAT
9317597 TTGCCTTTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 39 0.63
87 6 0.10
88 17 0.27
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (86 bp):
TTTTGGGTTAACTAGCTTAATTTTTATCTTCAAAATAATGCACATGCATCATGCATCCACAATAT
AGGGATATCTACCATATGCTA
Found at i:9321034 original size:19 final size:19
Alignment explanation
Indices: 9321012--9321075 Score: 128
Period size: 19 Copynumber: 3.4 Consensus size: 19
9321002 GCAATTTTTC
9321012 AATTTTTTGGCAAAAATGT
1 AATTTTTTGGCAAAAATGT
9321031 AATTTTTTGGCAAAAATGT
1 AATTTTTTGGCAAAAATGT
9321050 AATTTTTTGGCAAAAATGT
1 AATTTTTTGGCAAAAATGT
9321069 AATTTTT
1 AATTTTT
9321076 CACTTTTACG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (19 bp):
AATTTTTTGGCAAAAATGT
Found at i:9325127 original size:367 final size:367
Alignment explanation
Indices: 9324453--9325187 Score: 1438
Period size: 367 Copynumber: 2.0 Consensus size: 367
9324443 ATTGAGGTGA
9324453 ATCAAGCTTGAAATGTTAAGGAAAAAAACTAATGGTAGCATCATGCACTTGAGATACGCAAATTG
1 ATCAAGCTTGAAATGTTAAGGAAAAAAACTAATGGTAGCATCATGCACTTGAGATACGCAAATTG
9324518 AAAGAAAATCTTTAAAGATTACTCTTTAATGAAAGCAACCATACTTGAGATGACAAATGGCCATA
66 AAAGAAAATCTTTAAAGATTACTCTTTAATGAAAGCAACCATACTTGAGATGACAAATGGCCATA
9324583 TTTCATATTCCTTTCACAAATATGAAATTATCCATCTGTTATCATCCTCATTGAGCTTGTCAAAT
131 TTTCATATTCCTTTCACAAATATGAAATTATCCATCTGTTATCATCCTCATTGAGCTTGTCAAAT
9324648 TCTTTTTTAAATTGAACCTTAGCCAAGGATCACCCTTCACACTAACGAGTAAATGCAAAGAAGGA
196 TCTTTTTTAAATTGAACCTTAGCCAAGGATCACCCTTCACACTAACGAGTAAATGCAAAGAAGGA
9324713 TTAAGGTCTTACTTTAAAGTACAAAAATATGCCTTTTATTGATTAAGACTTAACATCATACAAAG
261 TTAAGGTCTTACTTTAAAGTACAAAAATATGCCTTTTATTGATTAAGACTTAACATCATACAAAG
9324778 -AAAAAAAGAAAAATGATGGAAAAAAAAAG-AAAAGACCCAAG
326 AAAAAAAAG-AAAATGATGGAAAAAAAAAGAAAAAGACCCAAG
9324819 ANTCAAGCTTGAAATGTTAAGGAAAAAAACTAATGGTAGCATCATGCACTTGAGATACGCAAATT
1 A-TCAAGCTTGAAATGTTAAGGAAAAAAACTAATGGTAGCATCATGCACTTGAGATACGCAAATT
9324884 GAAAGAAAATCTTTAAAGATTACTCTTTAATGAAAGCAACCATACTTGAGATGACAAATGGCCAT
65 GAAAGAAAATCTTTAAAGATTACTCTTTAATGAAAGCAACCATACTTGAGATGACAAATGGCCAT
9324949 ATTTCATATTCCTTTCACAAATATGAAATTATCCATCTGTTATCATCCTCATTGAGCTTGTCAAA
130 ATTTCATATTCCTTTCACAAATATGAAATTATCCATCTGTTATCATCCTCATTGAGCTTGTCAAA
9325014 TTCTTTTTTAAATTGAACCTTAGCCAAGGATCACCCTTCACACTAACGAGTAAATGCAAAGAAGG
195 TTCTTTTTTAAATTGAACCTTAGCCAAGGATCACCCTTCACACTAACGAGTAAATGCAAAGAAGG
9325079 ATTAAGGTCTTACTTTAAAGTACAAAAATATGCCTTTTATTGATTAAGACTTAACATCATACAAA
260 ATTAAGGTCTTACTTTAAAGTACAAAAATATGCCTTTTATTGATTAAGACTTAACATCATACAAA
9325144 GAAAAAAAAGAAAATGATGGAAAAAAAAAGAAAAAGACCCAAG
325 GAAAAAAAAGAAAATGATGGAAAAAAAAAGAAAAAGACCCAAG
9325187 A
1 A
9325188 GGCATACAAA
Statistics
Matches: 366, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
366 1 0.00
367 344 0.94
368 21 0.06
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (367 bp):
ATCAAGCTTGAAATGTTAAGGAAAAAAACTAATGGTAGCATCATGCACTTGAGATACGCAAATTG
AAAGAAAATCTTTAAAGATTACTCTTTAATGAAAGCAACCATACTTGAGATGACAAATGGCCATA
TTTCATATTCCTTTCACAAATATGAAATTATCCATCTGTTATCATCCTCATTGAGCTTGTCAAAT
TCTTTTTTAAATTGAACCTTAGCCAAGGATCACCCTTCACACTAACGAGTAAATGCAAAGAAGGA
TTAAGGTCTTACTTTAAAGTACAAAAATATGCCTTTTATTGATTAAGACTTAACATCATACAAAG
AAAAAAAAGAAAATGATGGAAAAAAAAAGAAAAAGACCCAAG
Found at i:9327592 original size:17 final size:17
Alignment explanation
Indices: 9327570--9327602 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9327560 ATAATAATAA
9327570 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
9327587 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
9327603 TTATCAAGAA
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:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:9331943 original size:20 final size:21
Alignment explanation
Indices: 9331918--9331962 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
9331908 ATATTACCTT
*
9331918 TTTTCAC-TTGTTTCCTTGAA
1 TTTTCACATTGTTCCCTTGAA
9331938 TTTTCACATTGTTCCCTTGAA
1 TTTTCACATTGTTCCCTTGAA
9331959 TTTT
1 TTTT
9331963 TCCATCTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.16, C:0.20, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTTCACATTGTTCCCTTGAA
Found at i:9335245 original size:12 final size:12
Alignment explanation
Indices: 9335216--9335248 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
9335206 TGTTAAATTG
9335216 TGAATGAAAAAGA
1 TGAA-GAAAAAGA
9335229 T-AAGAAAAAGA
1 TGAAGAAAAAGA
9335240 TGAAGAAAA
1 TGAAGAAAA
9335249 TAGAATAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 9 0.47
13 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (12 bp):
TGAAGAAAAAGA
Found at i:9342597 original size:15 final size:13
Alignment explanation
Indices: 9342565--9342589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9342555 ATTTTCAAAA
9342565 ATTTTATAAAATT
1 ATTTTATAAAATT
9342578 ATTTTATAAAAT
1 ATTTTATAAAAT
9342590 CCTATTTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:9343480 original size:100 final size:99
Alignment explanation
Indices: 9343307--9343503 Score: 367
Period size: 100 Copynumber: 2.0 Consensus size: 99
9343297 ATCTAACAAC
9343307 TTTCTCTCTCTAAACCCATATGATCAGATTTGAATCCATCATCAAAACACATAATTTAACCATGG
1 TTTCTCTCTCTAAACCCATATGATCAGATTTGAATCCATCATCAAAACACATAATTTAACCATGG
9343372 AAAATAAGGAGAAATGCATGGAAATGATAAATCT
66 AAAATAAGGAGAAATGCATGGAAATGATAAATCT
*
9343406 NTTTCTCTCTCTAAACCCATATGATCAGATTTGAATCCATCATCAAAACATATAATTTAACCATG
1 -TTTCTCTCTCTAAACCCATATGATCAGATTTGAATCCATCATCAAAACACATAATTTAACCATG
*
9343471 GAAAATAAGGAGAACTGCATGGAAATGATAAAT
65 GAAAATAAGGAGAAATGCATGGAAATGATAAAT
9343504 ATTAAGCTAA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (99 bp):
TTTCTCTCTCTAAACCCATATGATCAGATTTGAATCCATCATCAAAACACATAATTTAACCATGG
AAAATAAGGAGAAATGCATGGAAATGATAAATCT
Found at i:9343898 original size:28 final size:29
Alignment explanation
Indices: 9343840--9343903 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
9343830 GCAAATTTTT
* * *
9343840 AAAAATTACACTTTTAACCGCATAAAGTG
1 AAAAATTACACTTTTAACCCCAAAAACTG
*
9343869 AAAAATTACA-TTTTTACCCCAAAAACTG
1 AAAAATTACACTTTTAACCCCAAAAACTG
9343897 AAAAATT
1 AAAAATT
9343904 GCCCATAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTAACCCCAAAAACTG
Found at i:9348615 original size:21 final size:19
Alignment explanation
Indices: 9348589--9348629 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
9348579 AATTTAAAAC
9348589 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
9348610 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
9348629 A
1 A
9348630 CTCAACACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:9351024 original size:38 final size:38
Alignment explanation
Indices: 9350929--9351072 Score: 139
Period size: 38 Copynumber: 3.8 Consensus size: 38
9350919 CACTTGATTT
* * *
9350929 AATGTCCTAGATAGTGGGGA-CTGTACCATTGTCCAAGA
1 AATGTCCTAGATAGTGGGGATC-ATACCATTATCCATGA
* **
9350967 AATGTCTTA-ATTAACGGGGATCATACCATTATCCATGA
1 AATGTCCTAGA-TAGTGGGGATCATACCATTATCCATGA
* * * *
9351005 AATGTCCTAGATAGTGGGGACCTTACCATTATTCGTGA
1 AATGTCCTAGATAGTGGGGATCATACCATTATCCATGA
* * *
9351043 ATTGTCCTAAATACTGGGGATCATACCATT
1 AATGTCCTAGATAGTGGGGATCATACCATT
9351073 GTCCTTGTGT
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
37 1 0.01
38 82 0.96
39 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (38 bp):
AATGTCCTAGATAGTGGGGATCATACCATTATCCATGA
Found at i:9351062 original size:76 final size:76
Alignment explanation
Indices: 9350929--9351072 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 76
9350919 CACTTGATTT
* * *
9350929 AATGTCCTAGATAGTGGGGACTGTACCATTGTCCAAGAAATGTCTTAATTAACGGGGATCATACC
1 AATGTCCTAGATAGTGGGGACTGTACCATTATCCAAGAAATGTCCTAAATAACGGGGATCATACC
9350994 ATTATCCATGA
66 ATTATCCATGA
* ** *
9351005 AATGTCCTAGATAGTGGGGACCT-TACCATTATTCGTGAATTGTCCTAAAT-ACTGGGGATCATA
1 AATGTCCTAGATAGTGGGGA-CTGTACCATTATCCAAGAAATGTCCTAAATAAC-GGGGATCATA
9351068 CCATT
64 CCATT
9351073 GTCCTTGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 2 0.03
76 55 0.93
77 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (76 bp):
AATGTCCTAGATAGTGGGGACTGTACCATTATCCAAGAAATGTCCTAAATAACGGGGATCATACC
ATTATCCATGA
Found at i:9360980 original size:12 final size:12
Alignment explanation
Indices: 9360963--9361001 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
9360953 TCTCTTGTCT
9360963 TTTTCTTTTTTC
1 TTTTCTTTTTTC
9360975 TTTTCTTTTTT-
1 TTTTCTTTTTTC
*
9360986 TTTTATTTTTTGC
1 TTTTCTTTTTT-C
9360999 TTT
1 TTT
9361002 ACTCTCTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 10 0.42
12 11 0.46
13 3 0.12
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:9360981 original size:18 final size:17
Alignment explanation
Indices: 9360955--9360989 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9360945 CCCCTTTCTC
9360955 TCTTGTCTTTTTCTTTTT
1 TCTTGTCTTTTT-TTTTT
*
9360973 TCTTTTCTTTTTTTTTT
1 TCTTGTCTTTTTTTTTT
9360990 ATTTTTTGCT
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:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (17 bp):
TCTTGTCTTTTTTTTTT
Found at i:9362088 original size:36 final size:36
Alignment explanation
Indices: 9362048--9362123 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
9362038 CTTAACCTTC
*
9362048 AAAAGTTAGTGTGAGGGTTATCGCTTAATCTTGTTA
1 AAAAGTCAGTGTGAGGGTTATCGCTTAATCTTGTTA
* *
9362084 AAAAGTCAGTGTGAGGGTTATTGCTTGATCTTGTTA
1 AAAAGTCAGTGTGAGGGTTATCGCTTAATCTTGTTA
9362120 AAAA
1 AAAA
9362124 AACAATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.37
Consensus pattern (36 bp):
AAAAGTCAGTGTGAGGGTTATCGCTTAATCTTGTTA
Found at i:9364773 original size:2 final size:2
Alignment explanation
Indices: 9364768--9364812 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9364758 CTTATATATA
9364768 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9364810 TG T
1 TG T
9364813 CTAGTGTAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:9373148 original size:10 final size:11
Alignment explanation
Indices: 9373121--9373155 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
9373111 TATGGCCAGC
*
9373121 CAAAGCAAGAA
1 CAAAGGAAGAA
9373132 CAAAGGAAGAA
1 CAAAGGAAGAA
9373143 -AAAGGAAGAA
1 CAAAGGAAGAA
9373153 CAA
1 CAA
9373156 GAACCTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.66, C:0.11, G:0.23, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:9375851 original size:43 final size:43
Alignment explanation
Indices: 9375790--9375924 Score: 198
Period size: 43 Copynumber: 3.1 Consensus size: 43
9375780 CAACTCTCCC
* * * * *
9375790 TCAGCTCACGTGCACTCCCACATCACACATAACTGGGTTATCA
1 TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
*
9375833 TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATTA
1 TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
* *
9375876 TCAGCTCATGTGCACTACTACACCGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
9375919 TCAGCT
1 TCAGCT
9375925 GTTATTTATC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 83 1.00
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
Found at i:9380083 original size:10 final size:10
Alignment explanation
Indices: 9380068--9380106 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
9380058 ATAAAGATCT
9380068 CACTTTCTAG
1 CACTTTCTAG
**
9380078 CACTTTCTCCT
1 CACTTTCT-AG
9380089 CACTTTCTAG
1 CACTTTCTAG
9380099 CACTTTCT
1 CACTTTCT
9380107 TCTTCTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.15, C:0.36, G:0.05, T:0.44
Consensus pattern (10 bp):
CACTTTCTAG
Found at i:9380090 original size:21 final size:21
Alignment explanation
Indices: 9380066--9380106 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
9380056 GTATAAAGAT
9380066 CTCACTTTCTAGCACTTTCTC
1 CTCACTTTCTAGCACTTTCTC
9380087 CTCACTTTCTAGCACTTTCT
1 CTCACTTTCTAGCACTTTCT
9380107 TCTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.37, G:0.05, T:0.44
Consensus pattern (21 bp):
CTCACTTTCTAGCACTTTCTC
Found at i:9381396 original size:36 final size:36
Alignment explanation
Indices: 9381356--9381445 Score: 117
Period size: 36 Copynumber: 2.5 Consensus size: 36
9381346 GTGGAGTGCT
* **
9381356 GTGTGGGAGTGCACATGATGATATTTGCCATATGCA
1 GTGTGGGAGTGCACATGACGATATTAACCATATGCA
* * * *
9381392 GTGTGGGAGTGCACATGACGGTATTAACTATGTGCG
1 GTGTGGGAGTGCACATGACGATATTAACCATATGCA
9381428 GTGTGGGAGTGCACATGA
1 GTGTGGGAGTGCACATGA
9381446 GCTGGGGTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.28
Consensus pattern (36 bp):
GTGTGGGAGTGCACATGACGATATTAACCATATGCA
Found at i:9381795 original size:84 final size:84
Alignment explanation
Indices: 9381669--9381828 Score: 248
Period size: 84 Copynumber: 1.9 Consensus size: 84
9381659 TACTGCAACA
* * * * *
9381669 AGAATGGATTTTCGCTGCAGCGAAAATCTTCCTAATCCCATTTGCACTATTCTCGCTGCAGCCAA
1 AGAATGGATTTTCACTACAGCGAAAATCCTCATAACCCCATTTGCACTATTCTCGCTGCAGCCAA
9381734 ATTAATTTTCGTTACAGTG
66 ATTAATTTTCGTTACAGTG
* *
9381753 AGAATGGATTTTCACTACAGCGAATATCCTCATAACCCCATTTGCACTGTTCTCGCTGCAGCCAA
1 AGAATGGATTTTCACTACAGCGAAAATCCTCATAACCCCATTTGCACTATTCTCGCTGCAGCCAA
*
9381818 ATTGATTTTCG
66 ATTAATTTTCG
9381829 CTATAATGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 68 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (84 bp):
AGAATGGATTTTCACTACAGCGAAAATCCTCATAACCCCATTTGCACTATTCTCGCTGCAGCCAA
ATTAATTTTCGTTACAGTG
Found at i:9381878 original size:62 final size:62
Alignment explanation
Indices: 9381801--9382010 Score: 208
Period size: 62 Copynumber: 3.4 Consensus size: 62
9381791 CATTTGCACT
*
9381801 GTTCTCGCTGCAGCCAAATTGATTTTCGCTATAATGAAAAACTTTCTGTCTTGAGAATCACC
1 GTTCTCGCTGCAGCCAAATTGATTTTCGCTACAATGAAAAACTTTCTGTCTTGAGAATCACC
* * * * * * * *
9381863 GTTCTCGTTACAGCCAAATTGATTTTTGCTGCAGTGAGAAACTTTCTGTCTTGGGAATCACT
1 GTTCTCGCTGCAGCCAAATTGATTTTCGCTACAATGAAAAACTTTCTGTCTTGAGAATCACC
* * * * * * * * *
9381925 ATTCTTGCTGCAGCCAAATTGATTTTCACTGC-A-GCAAGAAACTTTCTATCATGGGAGTCACT
1 GTTCTCGCTGCAGCCAAATTGATTTTCGCTACAATG-AA-AAACTTTCTGTCTTGAGAATCACC
* *
9381987 GTTCTCACTGTAGCCAAATTGATT
1 GTTCTCGCTGCAGCCAAATTGATT
9382011 CTTATTGCAG
Statistics
Matches: 122, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
60 1 0.01
61 1 0.01
62 120 0.98
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (62 bp):
GTTCTCGCTGCAGCCAAATTGATTTTCGCTACAATGAAAAACTTTCTGTCTTGAGAATCACC
Found at i:9381992 original size:124 final size:124
Alignment explanation
Indices: 9381797--9382030 Score: 283
Period size: 124 Copynumber: 1.9 Consensus size: 124
9381787 ACCCCATTTG
* * * * *
9381797 CACTGTTCTCGCTGCAGCCAAATTGATTTTCGCTATAATGAAAAACTTTCTGTCTTGAGAATCAC
1 CACTATTCTCGCTGCAGCCAAATTGATTTTCACTAGAATGAAAAACTTTCTATCATGAGAATCAC
** * *
9381862 CGTTCTCGTTACAGCCAAATTGATTTTTGCTGCAGTGAGAAACTTTCTGTCTTGGGAAT
66 CGTTCTCACTACAGCCAAATTGATTCTTACTGCAGTGAGAAACTTTCTGTCTTGGGAAT
* * * *
9381921 CACTATTCTTGCTGCAGCCAAATTGATTTTCACT-GCA-GCAAGAAACTTTCTATCATGGGAGTC
1 CACTATTCTCGCTGCAGCCAAATTGATTTTCACTAGAATG-AA-AAACTTTCTATCATGAGAATC
* ** *
9381984 ACTGTTCTCACTGTAGCCAAATTGATTCTTATTGCAGTGAGAAACTT
64 ACCGTTCTCACTACAGCCAAATTGATTCTTACTGCAGTGAGAAACTT
9382031 GCGTACTTGA
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
122 1 0.01
123 3 0.03
124 87 0.96
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (124 bp):
CACTATTCTCGCTGCAGCCAAATTGATTTTCACTAGAATGAAAAACTTTCTATCATGAGAATCAC
CGTTCTCACTACAGCCAAATTGATTCTTACTGCAGTGAGAAACTTTCTGTCTTGGGAAT
Found at i:9382020 original size:62 final size:61
Alignment explanation
Indices: 9381797--9382030 Score: 198
Period size: 62 Copynumber: 3.8 Consensus size: 61
9381787 ACCCCATTTG
* * * ** * * * * *
9381797 CACTGTTCTCGCTGCAGCCAAATTGATTTTCGCTATAATGAAAAACTTTCTGTCTTGAGAAT
1 CACTATTCTCACTGCAGCCAAATTGATTTT-ACTGCAGTGAGAAACTTTCTATCATGGGAAT
** ** * * * *
9381859 CACCGTTCTCGTTACAGCCAAATTGATTTTTGCTGCAGTGAGAAACTTTCTGTCTTGGGAAT
1 CACTATTCTCACTGCAGCCAAATTGA-TTTTACTGCAGTGAGAAACTTTCTATCATGGGAAT
** ** *
9381921 CACTATTCTTGCTGCAGCCAAATTGATTTTCACTGCAGCAAGAAACTTTCTATCATGGGAGT
1 CACTATTCTCACTGCAGCCAAATTGATTTT-ACTGCAGTGAGAAACTTTCTATCATGGGAAT
* * *
9381983 CACTGTTCTCACTGTAGCCAAATTGATTCTTATTGCAGTGAGAAACTT
1 CACTATTCTCACTGCAGCCAAATTGATT-TTACTGCAGTGAGAAACTT
9382031 GCGTACTTGA
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
61 4 0.03
62 133 0.93
63 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (61 bp):
CACTATTCTCACTGCAGCCAAATTGATTTTACTGCAGTGAGAAACTTTCTATCATGGGAAT
Found at i:9388102 original size:21 final size:21
Alignment explanation
Indices: 9388078--9388118 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9388068 GTATAAATAT
* *
9388078 CTCACTTTCTAGCACTTTCTC
1 CTCACTATCCAGCACTTTCTC
9388099 CTCACTATCCAGCACTTTCT
1 CTCACTATCCAGCACTTTCT
9388119 TCTTCTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.39, G:0.05, T:0.39
Consensus pattern (21 bp):
CTCACTATCCAGCACTTTCTC
Found at i:9389416 original size:36 final size:36
Alignment explanation
Indices: 9389373--9389456 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
9389363 TGCGATGTCA
* *
9389373 GAGTGCACATGATGATATTTGCCATATGCGGTGTGG
1 GAGTGCACATGACGATATTAGCCATATGCGGTGTGG
* * ** *
9389409 GATTGCACATGACGGTATTAGGTATGTGCGGTGTGG
1 GAGTGCACATGACGATATTAGCCATATGCGGTGTGG
9389445 GAGTGCACATGA
1 GAGTGCACATGA
9389457 GCTGGGGTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.29
Consensus pattern (36 bp):
GAGTGCACATGACGATATTAGCCATATGCGGTGTGG
Found at i:9389582 original size:2 final size:2
Alignment explanation
Indices: 9389577--9389606 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9389567 TATGAAGTAG
9389577 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
9389607 TCATATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9389820 original size:62 final size:61
Alignment explanation
Indices: 9389742--9389975 Score: 227
Period size: 62 Copynumber: 3.8 Consensus size: 61
9389732 ACCCCATTTG
* * ** *
9389742 CACTGTTCTCGTTGTAGCCAAATTGATTTTCACTACAATGAGAAACTTTCTATCTTTGGAAT
1 CACTATTCTCGTTGTAGCCAAATTGATTTTCGCTACAGCGAGAAACTTT-TATCTTAGGAAT
* * *
9389804 CACTATTCCCGTTGTAGCCAAATTGATTTTCGCTACAGGGAGAAACATTTTGTCTTAGGAAT
1 CACTATTCTCGTTGTAGCCAAATTGATTTTCGCTACAGCGAGAAAC-TTTTATCTTAGGAAT
* * * * * ** * * *
9389866 CATTATTCTCGCTGCAACCAAATTGATTTTCGTTGGAGCGAGAATCTTTATATCTTGGGAGT
1 CACTATTCTCGTTGTAGCCAAATTGATTTTCGCTACAGCGAGAAACTTT-TATCTTAGGAAT
* * * *
9389928 CATTGTTCTCGTTGTAGCCAAATTGATTCTT-GCTGCAGCAAGAAACTT
1 CACTATTCTCGTTGTAGCCAAATTGATT-TTCGCTACAGCGAGAAACTT
9389976 GCGTACTTGG
Statistics
Matches: 141, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
61 3 0.02
62 133 0.94
63 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (61 bp):
CACTATTCTCGTTGTAGCCAAATTGATTTTCGCTACAGCGAGAAACTTTTATCTTAGGAAT
Found at i:9391365 original size:61 final size:60
Alignment explanation
Indices: 9391198--9391366 Score: 169
Period size: 60 Copynumber: 2.8 Consensus size: 60
9391188 ATAAGAGATC
* * * * * * *
9391198 AAAACAAAAAGTTTTTCGATGCAGCGAGAAT-CAATCTCGTTGCAGTGAAATTTTTACCCA
1 AAAACAAAAAGTTTCTCGCTGCAGTGAGAATGC-ATCTCGTTGTAGCGAAATTGTAACCCA
* * * * * * *
9391258 TAAACATAATGTTTCTCGCTGCAGTGAGATTGAATCTCGCTATAGCGAAATTGTAACCCA
1 AAAACAAAAAGTTTCTCGCTGCAGTGAGAATGCATCTCGTTGTAGCGAAATTGTAACCCA
* *
9391318 GAAAACAGAAAGTTTCTCGCTGCAGTGAGAATGCATTTCGTTGTAGCGA
1 -AAAACAAAAAGTTTCTCGCTGCAGTGAGAATGCATCTCGTTGTAGCGA
9391367 GAAGCTACAG
Statistics
Matches: 85, Mismatches: 22, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
60 45 0.53
61 40 0.47
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (60 bp):
AAAACAAAAAGTTTCTCGCTGCAGTGAGAATGCATCTCGTTGTAGCGAAATTGTAACCCA
Found at i:9391647 original size:2 final size:2
Alignment explanation
Indices: 9391642--9391668 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9391632 ACACATATTT
9391642 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
9391669 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9391784 original size:43 final size:43
Alignment explanation
Indices: 9391736--9391845 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 43
9391726 TCACCAGCTC
* ** * *
9391736 ATGCGCACTCCCTACTAGCACATGGCTAGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATC-CTCGGCTT
9391779 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
9391822 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
9391846 GCCGAGTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
Found at i:9393948 original size:33 final size:33
Alignment explanation
Indices: 9393906--9393986 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
9393896 ATCATATCAA
* * * * *
9393906 ATTAGCATGTCACGTCATCATTAATTATGATAT
1 ATTAGCATGTCACATCATAATCAATTATAATAC
*
9393939 ATTAACATGTCACATCATAATCAATTATAATAC
1 ATTAGCATGTCACATCATAATCAATTATAATAC
*
9393972 GTTAGCATGTCACAT
1 ATTAGCATGTCACAT
9393987 TAATACCTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (33 bp):
ATTAGCATGTCACATCATAATCAATTATAATAC
Found at i:9402358 original size:17 final size:17
Alignment explanation
Indices: 9402336--9402368 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9402326 ACTGTTGATT
9402336 GGTTCCTGCTAAACTCC
1 GGTTCCTGCTAAACTCC
9402353 GGTTCCTGCTAAACTC
1 GGTTCCTGCTAAACTC
9402369 TCACCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.30
Consensus pattern (17 bp):
GGTTCCTGCTAAACTCC
Found at i:9405200 original size:63 final size:62
Alignment explanation
Indices: 9405094--9405216 Score: 183
Period size: 63 Copynumber: 2.0 Consensus size: 62
9405084 GCTCATCTTT
* * *
9405094 CTCTCTCAACTCTCTGAACTGTCTCACTTTGTCAACTCACTGTTGAGCACCATCGTCATCAG
1 CTCTCTCAACTCTCTGAACTATATCACTCTGTCAACTCACTGTTGAGCACCATCGTCATCAG
* * *
9405156 CTCTTTCAACTCTCTGAACTATATGAGCTCTGTCAACTCTCTGTTGAGCACCATCGTCATC
1 CTCTCTCAACTCTCTGAACTATATCA-CTCTGTCAACTCACTGTTGAGCACCATCGTCATC
9405217 GGGTTGTGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
62 22 0.41
63 32 0.59
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (62 bp):
CTCTCTCAACTCTCTGAACTATATCACTCTGTCAACTCACTGTTGAGCACCATCGTCATCAG
Found at i:9405600 original size:31 final size:31
Alignment explanation
Indices: 9405562--9405638 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
9405552 GTGTCAGCGT
9405562 TGGCGTGTTACAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
*
9405593 TGGCGTGTTATAACATTTTACGTTATATGCA
1 TGGCGTGTTACAACATTTTACGTTATATGCA
9405624 TGGCGTGTTACAACA
1 TGGCGTGTTACAACA
9405639 GACTGACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (31 bp):
TGGCGTGTTACAACATTTTACGTTATATGCA
Found at i:9406861 original size:11 final size:11
Alignment explanation
Indices: 9406845--9406875 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9406835 ATAAGAGTAA
9406845 AAAGGTCATGT
1 AAAGGTCATGT
9406856 AAAGGTCATGT
1 AAAGGTCATGT
*
9406867 AAAGCTCAT
1 AAAGGTCAT
9406876 TATGAGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (11 bp):
AAAGGTCATGT
Found at i:9409736 original size:117 final size:117
Alignment explanation
Indices: 9409529--9409915 Score: 553
Period size: 117 Copynumber: 3.3 Consensus size: 117
9409519 TGACATCTTG
* * *
9409529 TGGTGACACTTTGAGTGGAAGA-AGATACTTGGTGTGACACGCTGAGTGCATGTATATTTCTATG
1 TGGTGACACGTTGAGTGGAA-ACAGATACTTGGTGTGACACGCTGAGTGCATGCAAATTTCTATG
* * * * *
9409593 GTGACACGCTGACTTCTTGCAATATTGTGGGGTGACACGGCACGCCCCAATTG
65 GTGACATGCTGACTTCTTGCAGTATTGTGGGGTGACATGGCATGCCCCAATTA
* ** *
9409646 TGGTGACATGTTGAGTGGAAACAGATACTTGGCATGACACGCTGAGTGCATGCAGATTTCTATGG
1 TGGTGACACGTTGAGTGGAAACAGATACTTGGTGTGACACGCTGAGTGCATGCAAATTTCTATGG
**
9409711 TGGGATGCTGACTTCTTGCAGTATTGTGGGGTGACATGGCATGCCCCAATTA
66 TGACATGCTGACTTCTTGCAGTATTGTGGGGTGACATGGCATGCCCCAATTA
** * * *
9409763 TGGTGACACACTGAGTGGAAGCAGATACTTGGTGTGACATGCTGAGTGCATGCAAATTTTTATGG
1 TGGTGACACGTTGAGTGGAAACAGATACTTGGTGTGACACGCTGAGTGCATGCAAATTTCTATGG
*
9409828 TGACATGCTGACTTCTTGTAGTATTGTGGGGTGACATGGCATGCCCCAATTA
66 TGACATGCTGACTTCTTGCAGTATTGTGGGGTGACATGGCATGCCCCAATTA
*
9409880 TGG-GAACACGTTGAGTGGAAGCAGATACTTGGTGTG
1 TGGTG-ACACGTTGAGTGGAAACAGATACTTGGTGTG
9409916 CATGCTAACT
Statistics
Matches: 241, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
116 2 0.01
117 239 0.99
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (117 bp):
TGGTGACACGTTGAGTGGAAACAGATACTTGGTGTGACACGCTGAGTGCATGCAAATTTCTATGG
TGACATGCTGACTTCTTGCAGTATTGTGGGGTGACATGGCATGCCCCAATTA
Found at i:9412271 original size:145 final size:144
Alignment explanation
Indices: 9412114--9412378 Score: 370
Period size: 145 Copynumber: 1.8 Consensus size: 144
9412104 TTACCGATGG
* * *
9412114 GTCGTTAACACTGTGC-TTCTGAAGAGGACCTCTCAGTAGTTAAAGAGCTGTTGTCTCATGGTCC
1 GTCGTTAACACTGT-CATT-TGAAGAGGACCTCTCAGTAGTTAAAGAGCTGTCGTCGCATAGTCC
* * *
9412178 AACTGCAAACATAGATATTTTATTCAATAATCATATATGGAATTGTTGAACACAAACTGTTATAA
64 AACTGCAAACACAGATATGTTATTCAATAATCACATATGGAATTGTTGAACACAAACTGTTATAA
9412243 TCGTTCTTACCGGCTC
129 TCGTTCTTACCGGCTC
* * * ***
9412259 GTCGTTATCACTGTCAGTTTGAGGAGGACCTTTCAGTAGTTGTGGAGCTGTCGTCGCATAGTCCA
1 GTCGTTAACACTGTCA-TTTGAAGAGGACCTCTCAGTAGTTAAAGAGCTGTCGTCGCATAGTCCA
* *
9412324 ATTGCAAACACAGATATGTTATTCGATAATCACATATGGAATTGTTGAACACAAA
65 ACTGCAAACACAGATATGTTATTCAATAATCACATATGGAATTGTTGAACACAAA
9412379 TCATTAGAAC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
144 1 0.01
145 101 0.97
146 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (144 bp):
GTCGTTAACACTGTCATTTGAAGAGGACCTCTCAGTAGTTAAAGAGCTGTCGTCGCATAGTCCAA
CTGCAAACACAGATATGTTATTCAATAATCACATATGGAATTGTTGAACACAAACTGTTATAATC
GTTCTTACCGGCTC
Found at i:9413829 original size:31 final size:31
Alignment explanation
Indices: 9413794--9413868 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
9413784 GTTAGCCCAT
9413794 AATGTTGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
9413825 AATGTTGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
9413856 AATGTTATAACAC
1 AATGTTGTAACAC
9413869 ACCAACGTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (31 bp):
AATGTTGTAACACGCCATGCATATAACGTAA
Found at i:9414646 original size:47 final size:46
Alignment explanation
Indices: 9414547--9414900 Score: 210
Period size: 47 Copynumber: 7.6 Consensus size: 46
9414537 TGTCACAGAT
* * * ** * * * *
9414547 CTCCATGGAGTCTGACAAACTCTGAACTTGTCGTGTCGCAGATTAC
1 CTCCATGGCGTGTCACAAACTCTGAAGATGGCATGTCACAGATTCC
* * * *
9414593 CGCCATGGTGTGTCATAAACTCTGAATGATGGCATGTCATAGATTCC
1 CTCCATGGCGTGTCACAAACTCTGAA-GATGGCATGTCACAGATTCC
* * ** * *
9414640 CTCCATGGTGTGTTACAAACTCTGAACCTTGCAGTGTCATAGATTCC
1 CTCCATGGCGTGTCACAAACTCTGAAGATGGCA-TGTCACAGATTCC
* * * * * *
9414687 CTTCATGCCATGCCACAAACTCTGAACACTGACATGTCACAGATTCC
1 CTCCATGGCGTGTCACAAACTCTGAAGA-TGGCATGTCACAGATTCC
* * * * * *
9414734 TTCCAT-GCTGTGTCACAAACTTTGAACACTGACGA-GTCACAAATTCG
1 CTCCATGGC-GTGTCACAAACTCTGAAGA-TGGC-ATGTCACAGATTCC
* * * * *
9414781 CTCCATGCCGTGTCACAAACTCTGAACGCTGG-AGTGCCATAAATTCC
1 CTCCATGGCGTGTCACAAACTCTGAA-GATGGCA-TGTCACAGATTCC
* * * * * * *
9414828 CTCCGTGGAGTGCCACAAACTCTAAAAGCTGCCTTGTCACAGATTCC
1 CTCCATGGCGTGTCACAAACTCT-GAAGATGGCATGTCACAGATTCC
*
9414875 CTCCATAGCGTGTCACAAACTCTGAA
1 CTCCATGGCGTGTCACAAACTCTGAA
9414901 TGTTGCTGTG
Statistics
Matches: 237, Mismatches: 60, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
45 1 0.00
46 28 0.12
47 201 0.85
48 7 0.03
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (46 bp):
CTCCATGGCGTGTCACAAACTCTGAAGATGGCATGTCACAGATTCC
Found at i:9414785 original size:141 final size:141
Alignment explanation
Indices: 9414635--9414900 Score: 333
Period size: 141 Copynumber: 1.9 Consensus size: 141
9414625 CATGTCATAG
** * * * *
9414635 ATTCCCTCCATGGTGTGTTACAAACTCTGAAC-CTTGCAGTGTCATAGATTCCCTTCATGCCA-T
1 ATTCCCTCCATGCCGTGTCACAAACTCTGAACGC-TGCAGTGCCATAAATTCCCTCCATG-CAGT
* * *
9414698 GCCACAAACTCTGAACA-CTGACATGTCACAGATTCCTTCCAT-GCTGTGTCACAAACTTTGAAC
64 GCCACAAACTCT-AAAAGCTGACATGTCACAGATTCCCTCCATAGC-GTGTCACAAACTCTGAAC
9414761 ACTGACGAGTCACAA
127 ACTGACGAGTCACAA
* * * *
9414776 ATTCGCTCCATGCCGTGTCACAAACTCTGAACGCTGGAGTGCCATAAATTCCCTCCGTGGAGTGC
1 ATTCCCTCCATGCCGTGTCACAAACTCTGAACGCTGCAGTGCCATAAATTCCCTCCATGCAGTGC
* *
9414841 CACAAACTCTAAAAGCTGCCTTGTCACAGATTCCCTCCATAGCGTGTCACAAACTCTGAA
66 CACAAACTCTAAAAGCTGACATGTCACAGATTCCCTCCATAGCGTGTCACAAACTCTGAA
9414901 TGTTGCTGTG
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
140 4 0.04
141 99 0.93
142 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (141 bp):
ATTCCCTCCATGCCGTGTCACAAACTCTGAACGCTGCAGTGCCATAAATTCCCTCCATGCAGTGC
CACAAACTCTAAAAGCTGACATGTCACAGATTCCCTCCATAGCGTGTCACAAACTCTGAACACTG
ACGAGTCACAA
Found at i:9414827 original size:94 final size:92
Alignment explanation
Indices: 9414547--9414900 Score: 293
Period size: 94 Copynumber: 3.8 Consensus size: 92
9414537 TGTCACAGAT
* * * * * * * ** *
9414547 CTCCATGGAGTCTGACAAACTCTGAAC-TTGTCGTGTCGCAGATTACCGCCATGGTGTGTCATAA
1 CTCCATGGTGTGTCACAAACTCTGAACACTG-CGTGTCACAGATTCCCTCCATGCCGTGTCACAA
* *
9414611 ACTCTGAATGATGGCATGTCATAGATTCC
65 ACTCTGAACGCTGG-ATGTCATAGATTCC
* * * * *
9414640 CTCCATGGTGTGTTACAAACTCTGAAC-CTTGCAGTGTCATAGATTCCCTTCATGCCATGCCACA
1 CTCCATGGTGTGTCACAAACTCTGAACAC-TGC-GTGTCACAGATTCCCTCCATGCCGTGTCACA
* * *
9414704 AACTCTGAACACTGACATGTCACAGATTCC
64 AACTCTGAACGCTG-GATGTCATAGATTCC
* * * * * *
9414734 TTCCATGCTGTGTCACAAACTTTGAACACTGACGAGTCACAAATTCGCTCCATGCCGTGTCACAA
1 CTCCATGGTGTGTCACAAACTCTGAACACTG-CGTGTCACAGATTCCCTCCATGCCGTGTCACAA
* *
9414799 ACTCTGAACGCTGGAGTGCCATAAATTCC
65 ACTCTGAACGCTGGA-TGTCATAGATTCC
* * * * *
9414828 CTCCGTGGAGTGCCACAAACTCT-AAAAGCTGCCTTGTCACAGATTCCCTCCATAG-CGTGTCAC
1 CTCCATGGTGTGTCACAAACTCTGAACA-CTG-CGTGTCACAGATTCCCTCCAT-GCCGTGTCAC
9414891 AAACTCTGAA
63 AAACTCTGAA
9414901 TGTTGCTGTG
Statistics
Matches: 206, Mismatches: 47, Indels: 15
0.77 0.18 0.06
Matches are distributed among these distances:
93 29 0.14
94 174 0.84
95 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (92 bp):
CTCCATGGTGTGTCACAAACTCTGAACACTGCGTGTCACAGATTCCCTCCATGCCGTGTCACAAA
CTCTGAACGCTGGATGTCATAGATTCC
Found at i:9416788 original size:60 final size:60
Alignment explanation
Indices: 9416701--9416848 Score: 224
Period size: 60 Copynumber: 2.5 Consensus size: 60
9416691 CGAAATACAT
* *
9416701 TCTCGCTGCAGCGAGAAACTTTTTGTTTCTAGGTTGCAATTTCACTGTAGCGAGATTGAA
1 TCTCGCTGCAGCGAGAAACTTTTTGTTTCTAGGTTACAATTTCACTGCAGCGAGATTGAA
* * * * *
9416761 TTTCGCCGCAGCGAGAAACATTCTGTTTCTAGGTTACAATTTCGCTGCAGCGAGATTGAA
1 TCTCGCTGCAGCGAGAAACTTTTTGTTTCTAGGTTACAATTTCACTGCAGCGAGATTGAA
*
9416821 TCTCGCTGCAGCGAAAAACTTTTTGTTT
1 TCTCGCTGCAGCGAGAAACTTTTTGTTT
9416849 TGGTCTCCTA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (60 bp):
TCTCGCTGCAGCGAGAAACTTTTTGTTTCTAGGTTACAATTTCACTGCAGCGAGATTGAA
Found at i:9417777 original size:47 final size:47
Alignment explanation
Indices: 9417708--9417856 Score: 235
Period size: 47 Copynumber: 3.2 Consensus size: 47
9417698 GTGACAGTTG
*
9417708 CCGTGTCATAGATTCCCTCCATGTCGTGTCACAAACTCTGAACCCTA
1 CCGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCCTA
* *
9417755 CCGTGTCATAGATTCCCTCCATGGCATGTCGCAAACTCTGAACCCTA
1 CCGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCCTA
* * *
9417802 CCGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTAAACCCTG
1 CCGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCCTA
*
9417849 CTGTGTCA
1 CCGTGTCA
9417857 CAGTCATGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (47 bp):
CCGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCCTA
Found at i:9496926 original size:58 final size:57
Alignment explanation
Indices: 9496836--9497002 Score: 307
Period size: 58 Copynumber: 2.9 Consensus size: 57
9496826 AAGTAGTTTC
9496836 CATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATACGATGCAAAATAGTAAG
1 CATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATAC-ATGCAAAATAGTAAG
9496894 CATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATACAATGCAAAATAGTAAG
1 CATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATAC-ATGCAAAATAGTAAG
*
9496952 CATGTGATAGATTTATTTTATACGATTTAATAAATGCTATACATGCAAAAT
1 CATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATACATGCAAAAT
9497003 GAGACTTTAA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
57 9 0.08
58 98 0.92
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (57 bp):
CATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATACATGCAAAATAGTAAG
Found at i:9498440 original size:20 final size:20
Alignment explanation
Indices: 9498395--9498432 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9498385 TTTTGGCCCC
9498395 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
9498415 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
9498433 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:9504355 original size:19 final size:18
Alignment explanation
Indices: 9504310--9504356 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
9504300 TACAGGTGAG
*
9504310 AATAATATTTTAAGATAA
1 AATAATATTTTAAAATAA
* *
9504328 ACTATTATTTTATAAATAA
1 AATAATATTTTA-AAATAA
9504347 AATAATATTT
1 AATAATATTT
9504357 AAATATTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AATAATATTTTAAAATAA
Found at i:9505269 original size:36 final size:36
Alignment explanation
Indices: 9505207--9505288 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 36
9505197 GGCACGGAAA
*
9505207 AGGGAGAGAAAGCAAGAGCTAGTGCTGCCAGGTTTGTG
1 AGGGAGA-AAAGCAAGAGCTAGTGCTGCCA-GTTTGAG
* *
9505245 AGGGAGAAAAG-AAGAG-TTGTTGCTGCTAGTTTGAG
1 AGGGAGAAAAGCAAGAGCTAG-TGCTGCCAGTTTGAG
*
9505280 AGAGAGAAA
1 AGGGAGAAA
9505289 TGAGGGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
35 16 0.41
36 12 0.31
37 4 0.10
38 7 0.18
ACGTcount: A:0.34, C:0.09, G:0.38, T:0.20
Consensus pattern (36 bp):
AGGGAGAAAAGCAAGAGCTAGTGCTGCCAGTTTGAG
Found at i:9505444 original size:2 final size:2
Alignment explanation
Indices: 9505437--9505498 Score: 65
Period size: 2 Copynumber: 32.0 Consensus size: 2
9505427 GGCAGTAGAA
* * *
9505437 AT AT AT AT AT AT AT AT AT AT AT AC AT AA AT AT AT A- AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
9505478 AA AT AA AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
9505499 CAAGTGGGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:9512261 original size:20 final size:20
Alignment explanation
Indices: 9512216--9512253 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9512206 TTTTGGCCCC
*
9512216 ATTTGACTTATTGGAGTATA
1 ATTTGACTCATTGGAGTATA
9512236 ATTTGACTCATTGGAGTA
1 ATTTGACTCATTGGAGTA
9512254 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTGACTCATTGGAGTATA
Found at i:9518523 original size:2 final size:2
Alignment explanation
Indices: 9518507--9518544 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
9518497 CTATACATTC
*
9518507 AT AT -T AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9518545 CATGATTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9529034 original size:21 final size:22
Alignment explanation
Indices: 9529009--9529049 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9528999 CCTAGGTGGA
*
9529009 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
9529030 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
9529050 AAAAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:9529050 original size:20 final size:21
Alignment explanation
Indices: 9529009--9529053 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9528999 CCTAGGTGGA
*
9529009 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
9529030 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
9529050 AAAA
1 AAAA
9529054 AAAGGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:9529054 original size:21 final size:20
Alignment explanation
Indices: 9529007--9529054 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
9528997 ACCCTAGGTG
*
9529007 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
9529027 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
9529049 GAAAAA
1 GAAAAA
9529055 AAGGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:9537501 original size:21 final size:21
Alignment explanation
Indices: 9537447--9537511 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
9537437 AGATGTTCTT
**
9537447 CATCTATCGATAGATG-AGCT
1 CATCTATCGATAGATGAAGAA
* * *
9537467 TATTTATTGATAGATGAAGAA
1 CATCTATCGATAGATGAAGAA
* *
9537488 CATCTATCGATAGATTAATAA
1 CATCTATCGATAGATGAAGAA
9537509 CAT
1 CAT
9537512 TTTTCAAATT
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.34
Consensus pattern (21 bp):
CATCTATCGATAGATGAAGAA
Found at i:9541747 original size:39 final size:37
Alignment explanation
Indices: 9541693--9541794 Score: 136
Period size: 38 Copynumber: 2.7 Consensus size: 37
9541683 ACCCGGCTCA
9541693 TGTACATCCCCCCACATCGTGCACAT-AGTCGACACCATCG
1 TGTACATCCCCCCACATCGTGCACATCAGT-G---CCATCG
*
9541733 TGTGCAT-CCCCCACATCGTGCACAATCAGTGCCATCG
1 TGTACATCCCCCCACATCGTGCAC-ATCAGTGCCATCG
9541770 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
9541795 CAGGCACTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
37 13 0.23
38 16 0.28
39 16 0.28
40 9 0.16
41 3 0.05
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.21
Consensus pattern (37 bp):
TGTACATCCCCCCACATCGTGCACATCAGTGCCATCG
Found at i:9541787 original size:19 final size:19
Alignment explanation
Indices: 9541693--9541790 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 19
9541683 ACCCGGCTCA
9541693 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* ** **
9541712 TGCACATAGTCGACACCATCG
1 TGTACAT-CCCCCCA-CATCG
*
9541733 TGTGCAT-CCCCCACATCG
1 TGTACATCCCCCCACATCG
* ****
9541751 TGCACAATCAGTGC-CATCG
1 TGTAC-ATCCCCCCACATCG
9541770 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
9541789 TG
1 TG
9541791 CACACAGGCA
Statistics
Matches: 53, Mismatches: 21, Indels: 10
0.63 0.25 0.12
Matches are distributed among these distances:
18 12 0.23
19 27 0.51
20 4 0.08
21 10 0.19
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.21
Consensus pattern (19 bp):
TGTACATCCCCCCACATCG
Found at i:9541918 original size:2 final size:2
Alignment explanation
Indices: 9541906--9541948 Score: 68
Period size: 2 Copynumber: 21.0 Consensus size: 2
9541896 ATTCACCATG
*
9541906 CA CA GCA CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA
1 CA CA -CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
9541949 TATATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.47, G:0.02, T:0.02
Consensus pattern (2 bp):
CA
Found at i:9547545 original size:58 final size:58
Alignment explanation
Indices: 9547460--9547572 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
9547450 CATCTTTACA
* * *
9547460 TGCATAGCATTTATTAAATCATATAAAATAAATATATCACATGCATACTACTTTGCAT
1 TGCATAGCATTTATTAAATCACATAAAATAAATATATCACAGGCAAACTACTTTGCAT
** * *
9547518 TGCATAGCATTTATTAAATTGCATAAAATAAATCTATCATAGGCAAACTACTTTG
1 TGCATAGCATTTATTAAATCACATAAAATAAATATATCACAGGCAAACTACTTTG
9547573 GATGATTTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (58 bp):
TGCATAGCATTTATTAAATCACATAAAATAAATATATCACAGGCAAACTACTTTGCAT
Found at i:9549258 original size:179 final size:180
Alignment explanation
Indices: 9548825--9549298 Score: 531
Period size: 179 Copynumber: 2.6 Consensus size: 180
9548815 TGCTGTATCT
* * *
9548825 TTAGGAATTTAATT-TCAACAAAATTTATCC-TGATAGATAACTCATGGAACTATTCCAGAATAA
1 TTAGGAATTTAATTCCCAATAAAATTTATCCTTGATAGATAACTCATGGAACAATTCCAGAATAA
* * *
9548888 ATTTTCAGGATTTCAGGAGATGATTTGGCCAT-TC-AAAAAATTCAAAAACCGTGACCTTTATCT
66 ATTTTCAGGATTTTAGGAGATGTTTTGG-C-TGTCAAAAAAATTC-AAAACCATGACCTTTATCT
* * * *
9548951 GCAGGAGGCAGAATTGGTTTTTGAGTCCTTTTGAAATTCTTTGTGACTAAAAC
128 GCAGGAGGCAGAATTGGTTTTTGAGTCCTTTCGAAACTATTTGTGACTAAAAA
* *
9549004 TTAGAAATTTAATTCCTAATAAAATTTATCCTT-ATAGATAACTCATGGAA-ATATTCCAGAATA
1 TTAGGAATTTAATTCCCAATAAAATTTATCCTTGATAGATAACTCATGGAACA-ATTCCAGAATA
*
9549067 AATTTTCAGGATTTTAGGAGGTGTTTTGGCTGTCAAAAAAATTCAAAACCATGACCTTTATCTGC
65 AATTTTCAGGATTTTAGGAGATGTTTTGGCTGTCAAAAAAATTCAAAACCATGACCTTTATCTGC
* ** * * *
9549132 -GGAGGCAG-TTTCGG-TTTTGTCTTTCTTTCGAAGCTATTTGGTGGC-AAAAA
130 AGGAGGCAGAATT-GGTTTTTG-AGTCCTTTCGAAACTATTT-GTGACTAAAAA
* * * * *
9549182 TTCAGGAATTTAATTCCCAATTAAATTT-TCCTTGATAGACAACTTATGGAACAATTCCATAGT-
1 TT-AGGAATTTAATTCCCAATAAAATTTATCCTTGATAGATAACTCATGGAACAATTCCAGAATA
* * * *
9549245 AATTTTCCAGGATTTTAGAAAACGTTTTTGCTGTCAAAAAAATTCAAAACCATG
65 AATTTT-CAGGATTTTAGGAGATGTTTTGGCTGTCAAAAAAATTCAAAACCATG
9549299 GCTTGCTGCT
Statistics
Matches: 252, Mismatches: 31, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
177 7 0.03
178 40 0.16
179 127 0.50
180 77 0.31
181 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (180 bp):
TTAGGAATTTAATTCCCAATAAAATTTATCCTTGATAGATAACTCATGGAACAATTCCAGAATAA
ATTTTCAGGATTTTAGGAGATGTTTTGGCTGTCAAAAAAATTCAAAACCATGACCTTTATCTGCA
GGAGGCAGAATTGGTTTTTGAGTCCTTTCGAAACTATTTGTGACTAAAAA
Found at i:9555969 original size:15 final size:13
Alignment explanation
Indices: 9555942--9556005 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 13
9555932 GTAGACACCT
9555942 AAAAAAATA-AATA
1 AAAAAAATATAA-A
9555955 AAAAAAATTATAATA
1 AAAAAAA-TATAA-A
9555970 AAATAAAATATAAA
1 AAA-AAAATATAAA
*
9555984 ATAAAATAATTTAAA
1 A-AAAA-AATATAAA
9555999 AAAAAAA
1 AAAAAAA
9556006 AGAGAAGGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
13 9 0.20
14 10 0.22
15 22 0.49
16 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAAAATATAAA
Found at i:9555986 original size:17 final size:16
Alignment explanation
Indices: 9555950--9555992 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
9555940 CTAAAAAAAT
9555950 AAATAAAA-AAAATTA
1 AAATAAAATAAAATTA
*
9555965 TAATAAAATAAAATATA
1 AAATAAAATAAAAT-TA
9555982 AAATAAAATAA
1 AAATAAAATAA
9555993 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 12 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAAATTA
Found at i:9556001 original size:17 final size:17
Alignment explanation
Indices: 9555943--9555992 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
9555933 TAGACACCTA
9555943 AAAAAAT-AAAT-AAA-
1 AAAAAATAAAATAAAAT
* *
9555957 AAAAATTATAATAAAAT
1 AAAAAATAAAATAAAAT
*
9555974 AAAATATAAAATAAAAT
1 AAAAAATAAAATAAAAT
9555991 AA
1 AA
9555993 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 3 0.11
17 16 0.57
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAAATAAAATAAAAT
Found at i:9558384 original size:78 final size:77
Alignment explanation
Indices: 9558290--9558505 Score: 254
Period size: 78 Copynumber: 2.8 Consensus size: 77
9558280 ATTTTCGCCA
* * * *
9558290 ACGTCTAGAGGACGGGTTCCCGGATCCACACGTTATGACAGATGGCGACTCCACTAGGGAGCAAT
1 ACGTCTAGCGGTCGGGTTCTCGGACCCACACGTTAT-ACAGATGGCGACTCCACTAGGGAGCAAT
9558355 TTAATTTACGTCG
65 TTAATTTACGTCG
* * *
9558368 ACGTCTAGCGGTCGGGTTCTCGGACCCGCATGTTACTACAGATGGCGACTCCA-TTGTGGAGCAA
1 ACGTCTAGCGGTCGGGTTCTCGGACCCACACGTTA-TACAGATGGCGACTCCACTAG-GGAGCAA
*
9558432 TTTAATTTTCGTCG
64 TTTAATTTACGTCG
* * * * * * *
9558446 GCGTCTAGCGATCGGGTTTTCGAACCCACACATTACAACAGATGGCGACTCCACTGGGGA
1 ACGTCTAGCGGTCGGGTTCTCGGACCCACACGTTA-TACAGATGGCGACTCCACTAGGGA
9558506 CATCGAGTCG
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
77 2 0.02
78 113 0.96
79 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (77 bp):
ACGTCTAGCGGTCGGGTTCTCGGACCCACACGTTATACAGATGGCGACTCCACTAGGGAGCAATT
TAATTTACGTCG
Found at i:9569732 original size:62 final size:62
Alignment explanation
Indices: 9569619--9570106 Score: 696
Period size: 62 Copynumber: 7.9 Consensus size: 62
9569609 CATTAAAGAA
* * *
9569619 TTAAATCGAACTTGTTGTGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAATTTTGT
* * *
9569681 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGC
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAATTTTGT
* * * *
9569743 TTAAATCGAACTTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAATTTTGT
* * *
9569805 TTAAATCAAACCTGTTGTGAGATAGATCGAGCCTAGATTAAGTTTAAGAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAATTTTGT
*
9569867 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAA--TT-T
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAATTTTGT
* *
9569926 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCT-AGAAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTTTAAG-AATTTTAATTTTGT
* * * *
9569988 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAATTTTGT
** * * * * *
9570050 TTAAATCGAATATGTTGTGAGATAGGTCGAGTCTAGATTAAATCTAAAAATTTTAAT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAAT
9570107 CGAATATGGG
Statistics
Matches: 377, Mismatches: 44, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
58 2 0.01
59 51 0.14
60 2 0.01
61 2 0.01
62 319 0.85
63 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (62 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAATTTTGT
Found at i:9569839 original size:124 final size:124
Alignment explanation
Indices: 9569619--9570106 Score: 804
Period size: 124 Copynumber: 4.0 Consensus size: 124
9569609 CATTAAAGAA
* *
9569619 TTAAATCGAACTTGTTGTGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGTTTA
1 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGTTTA
*
9569684 AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGC
66 AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGT
*
9569743 TTAAATCGAACTTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGTTTA
1 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGTTTA
* * *
9569808 AATCAAACCTGTTGTGAGATAGATCGAGCCTAGATTAAGTTTAAGAATTTTAATTTTGT
66 AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGT
* *
9569867 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAA--TT-TTTA
1 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGTTTA
9569929 AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCT-AGAAATTTTAATTTTGT
66 AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAG-AATTTTAATTTTGT
*
9569988 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGTTTA
1 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGTTTA
** * * *
9570053 AATCGAATATGTTGTGAGATAGGTCGAGTCTAGATTAAATCTAAAAATTTTAAT
66 AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAAT
9570107 CGAATATGGG
Statistics
Matches: 340, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
120 2 0.01
121 110 0.32
122 2 0.01
123 2 0.01
124 223 0.66
125 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (124 bp):
TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGTTTA
AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGT
Found at i:9570052 original size:245 final size:247
Alignment explanation
Indices: 9569619--9570106 Score: 802
Period size: 245 Copynumber: 2.0 Consensus size: 247
9569609 CATTAAAGAA
* * * *
9569619 TTAAATCGAACTTGTTGTGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGTTTA
1 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAA-TTTGTTTA
9569684 AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGCTTAAAT
65 AATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGCTTAAAT
* *
9569749 CGAACTTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTTAATTTTGTTTAAATCAA
130 CGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGTTTAAATCAA
* * * *
9569814 ACCTGTTGTGAGATAGATCGAGCCTAGATTAAGTTTAAGAATTTTAATTTTGT
195 ACATGTTGTGAGATAGATCGAGCCTAGATTAAATCTAAAAATTTTAATTTTGT
9569867 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAA-TT-TTTAA
1 TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAATTTGTTTAA
*
9569930 ATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCT-AGAAATTTTAATTTTGTTTAAAT
66 ATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAG-AATTTTAATTTTGCTTAAAT
*
9569994 CGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGTTTAAATCGA
130 CGAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGTTTAAATCAA
* * *
9570059 ATATGTTGTGAGATAGGTCGAGTCTAGATTAAATCTAAAAATTTTAAT
195 ACATGTTGTGAGATAGATCGAGCCTAGATTAAATCTAAAAATTTTAAT
9570107 CGAATATGGG
Statistics
Matches: 224, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
244 2 0.01
245 168 0.75
246 2 0.01
248 52 0.23
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (247 bp):
TTAAATCGAACCTGTTATGAGATAGGTCGAGCCTAAATTAAGTTTAAGAATTTTAATTTGTTTAA
ATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAAGAATTTTAATTTTGCTTAAATC
GAACCTGTTATGAGATAGGTCGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGTTTAAATCAAA
CATGTTGTGAGATAGATCGAGCCTAGATTAAATCTAAAAATTTTAATTTTGT
Found at i:9570211 original size:102 final size:103
Alignment explanation
Indices: 9570012--9570302 Score: 296
Period size: 102 Copynumber: 2.7 Consensus size: 103
9570002 TTATGAGATA
* ** * * *
9570012 GGTCGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGTTTAAATCGAATATGTTGTGAGATAGGT
1 GGTCAAGCCTAAATCAAGTCTAGGAATTTCAATTTTGTTTAAATCGAACATATTGTGAGATAGGT
* *
9570077 CGAGTCTAGATTAAATCTAAAAATTTTAATCGAATATG
66 CGAGCCAAGATTAAATCTAAAAATTTTAATCGAATATG
* *
9570115 GGTCAAGCCTAAATCAAGTCTA-GAATTTTAATTTTGTTTAAATCGAACCTATTGTGAGATAGGT
1 GGTCAAGCCTAAATCAAGTCTAGGAATTTCAATTTTGTTTAAATCGAACATATTGTGAGATAGGT
**
9570179 CGAGCCAAGATTAAATCTAGGAATTTTAATCGAATTTGTTCTAATATG
66 CGAGCCAAGATTAAATCTAAAAATTTTAATC------G----AATATG
* * * * * * * *
9570227 GGTCAAGCCTAGATCGAGTCTAGAAATTTCATTTTTATTTAAATCGAACTTATTTTGAGATAAGT
1 GGTCAAGCCTAAATCAAGTCTAGGAATTTCAATTTTGTTTAAATCGAACATATTGTGAGATAGGT
*
9570292 CGAGCCTAGAT
66 CGAGCCAAGAT
9570303 CGATTTGATT
Statistics
Matches: 155, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
102 65 0.42
103 18 0.12
108 1 0.01
112 26 0.17
113 45 0.29
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (103 bp):
GGTCAAGCCTAAATCAAGTCTAGGAATTTCAATTTTGTTTAAATCGAACATATTGTGAGATAGGT
CGAGCCAAGATTAAATCTAAAAATTTTAATCGAATATG
Found at i:9570246 original size:164 final size:165
Alignment explanation
Indices: 9569950--9570250 Score: 367
Period size: 164 Copynumber: 1.8 Consensus size: 165
9569940 TTGTGAGATA
* * * *
9569950 GGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTGTTTAAATCGAACCTGTTATGAGATAGGT
1 GGTCAAGCCTAAATCAAGTCTAGAAATTTTAATTTTGTTTAAATCGAACCTATTATGAGATAGGT
* * * **** * * *
9570015 CGAGCCTAAATTTAGTTTAGGAATTTCAATTTTGTTTAAATCGAATATGTTGTGAGATAGGTCGA
66 CGAGCCTAAATTAAATCTAGGAATTTCAATCGAATTTAAATCGAATATGTGGTAAGATAGATCGA
9570080 GTCTAGATTAAATCTAAAAATTTTAATCGAATATG
131 GTCTAGATTAAATCTAAAAATTTTAATCGAATATG
*
9570115 GGTCAAGCCTAAATCAAGTCTAG-AATTTTAATTTTGTTTAAATCGAACCTATTGTGAGATAGGT
1 GGTCAAGCCTAAATCAAGTCTAGAAATTTTAATTTTGTTTAAATCGAACCTATTATGAGATAGGT
* ** * *
9570179 CGAGCC-AAGATTAAATCTAGGAATTTTAATCGAATTT-GTTCTAATATG-GGTCAAGCCTAGAT
66 CGAGCCTAA-ATTAAATCTAGGAATTTCAATCGAATTTAAATCGAATATGTGGT-AAG-ATAGAT
9570241 CGAGTCTAGA
128 CGAGTCTAGA
9570251 AATTTCATTT
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
162 2 0.02
163 12 0.11
164 79 0.70
165 20 0.18
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.36
Consensus pattern (165 bp):
GGTCAAGCCTAAATCAAGTCTAGAAATTTTAATTTTGTTTAAATCGAACCTATTATGAGATAGGT
CGAGCCTAAATTAAATCTAGGAATTTCAATCGAATTTAAATCGAATATGTGGTAAGATAGATCGA
GTCTAGATTAAATCTAAAAATTTTAATCGAATATG
Found at i:9570452 original size:17 final size:16
Alignment explanation
Indices: 9570416--9570458 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
9570406 CACCGAAAAA
9570416 AAAAT-AAA-AAAATT
1 AAAATAAAATAAAATT
*
9570430 ATAATAAAATAAAATAT
1 AAAATAAAATAAAAT-T
9570447 AAAATAAAATAA
1 AAAATAAAATAA
9570459 TTAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.17
15 3 0.12
16 5 0.21
17 12 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATAAAATAAAATT
Found at i:9570467 original size:12 final size:12
Alignment explanation
Indices: 9570411--9570468 Score: 57
Period size: 12 Copynumber: 4.6 Consensus size: 12
9570401 ATAGACACCG
9570411 AAAAAAA-AATA
1 AAAAAAATAATA
9570422 AAAAAATTATAATA
1 AAAAAA--ATAATA
9570436 AAATAAAAT-ATA
1 AAA-AAAATAATA
9570448 AAATAAAATAATTA
1 AAA-AAAATAA-TA
9570462 AAAAAAA
1 AAAAAAA
9570469 AAAAGGAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.15
12 12 0.29
13 8 0.20
14 12 0.29
15 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAAAATAATA
Found at i:9572036 original size:7 final size:7
Alignment explanation
Indices: 9572020--9572071 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
9572010 ATATGGATCT
*
9572020 AAATAGA
1 AAATAAA
9572027 AAATAAA
1 AAATAAA
9572034 AAATAAA
1 AAATAAA
9572041 AAATAATA
1 AAATAA-A
9572049 ATAATAATA
1 A-AATAA-A
*
9572058 AACTAAA
1 AAATAAA
9572065 TAAATAA
1 -AAATAA
9572072 TCCATGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
7 20 0.51
8 11 0.28
9 8 0.21
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (7 bp):
AAATAAA
Found at i:9572537 original size:16 final size:16
Alignment explanation
Indices: 9572512--9572550 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9572502 GNAAATAGAA
9572512 AATAAAAATAAAAAAT
1 AATAAAAATAAAAAAT
* *
9572528 AATAATAATAATAAAT
1 AATAAAAATAAAAAAT
9572544 AAATAAA
1 -AATAAA
9572551 TAATCCATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAAATAAAAAAT
Found at i:9572541 original size:483 final size:483
Alignment explanation
Indices: 9572020--9572985 Score: 1900
Period size: 483 Copynumber: 2.0 Consensus size: 483
9572010 ATATGGATCT
9572020 AAATAGAAAATAAAAAATAAAAAATAATAATAATAATAAACTAAATAAATAATCCATG-AAAAAA
1 AAATAGAAAATAAAAAATAAAAAATAATAATAATAATAAA-TAAATAAATAATCCATGAAAAAAA
9572084 AATGACAAAATAAATATATAAGTAAGGTGATAAATTATTAAACATATAATCGGATGAATTATGAA
65 AATGACAAAATAAATATATAAGTAAGGTGATAAATTATTAAACATATAATCGGATGAATTATGAA
9572149 CCGCTTAAGTCAATAAACGCGTCCATGTAGACATCATCACTTTATCTTGTCATAGCATGCCACAT
130 CCGCTTAAGTCAATAAACGCGTCCATGTAGACATCATCACTTTATCTTGTCATAGCATGCCACAT
9572214 TTATCTTGCAAATGGTGCAAGAGTTTCGATGATGGGATTTCCCTGAAGAGCTTGTAGAGACGAGT
195 TTATCTTGCAAATGGTGCAAGAGTTTCGATGATGGGATTTCCCTGAAGAGCTTGTAGAGACGAGT
9572279 TTTTTCGGGAATATCTCTAGGTGAGGAGAATTTCGAGACTTCATTAAAGCGTTGGGATGGTCTTC
260 TTTTTCGGGAATATCTCTAGGTGAGGAGAATTTCGAGACTTCATTAAAGCGTTGGGATGGTCTTC
9572344 GAATAATTTTTCAATAAAAGATTTCCGACCCCATTATTTAAAATAAATGAGTCATGACATCATTT
325 GAATAATTTTTCAATAAAAGATTTCCGACCCCATTATTTAAAATAAATGAGTCATGACATCATTT
9572409 TACGCTTGCATCACGTGCATACGTAAAACCAAATAAAATATTCAAGCAGTCAGTTTAATAAAATT
390 TACGCTTGCATCACGTGCATACGTAAAACCAAATAAAATATTCAAGCAGTCAGTTTAATAAAATT
9572474 TAGTTAATAAGTAGGGAATAAATCAAAAG
455 TAGTTAATAAGTAGGGAATAAATCAAAAG
9572503 NAAATAGAAAAT-AAAAATAAAAAATAATAATAATAATAAATAAATAAATAATCCATGAAAAAAA
1 -AAATAGAAAATAAAAAATAAAAAATAATAATAATAATAAATAAATAAATAATCCATGAAAAAAA
9572567 AATGACAAAATAAATATATAAGTAAGGTGATAAATTATTAAACATATAATCGGATGAATTATGAA
65 AATGACAAAATAAATATATAAGTAAGGTGATAAATTATTAAACATATAATCGGATGAATTATGAA
9572632 CCGCTTAAGTCAATAAACGCGTCCATGTAGACATCATCACTTTATCTTGTCATAGCATGCCACAT
130 CCGCTTAAGTCAATAAACGCGTCCATGTAGACATCATCACTTTATCTTGTCATAGCATGCCACAT
9572697 TTATCTTGCAAATGGTGCAAGAGTTTCGATGATGGGATTTCCCTGAAGAGCTTGTAGAGACGAGT
195 TTATCTTGCAAATGGTGCAAGAGTTTCGATGATGGGATTTCCCTGAAGAGCTTGTAGAGACGAGT
9572762 TTTTTCGGGAATATCTCTAGGTGAGGAGAATTTCGAGACTTCATTAAAGCGTTGGGATGGTCTTC
260 TTTTTCGGGAATATCTCTAGGTGAGGAGAATTTCGAGACTTCATTAAAGCGTTGGGATGGTCTTC
9572827 GAATAATTTTTCAATAAAAGATTTCCGACCCCATTATTTAAAATAAATGAGTCATGACATCATTT
325 GAATAATTTTTCAATAAAAGATTTCCGACCCCATTATTTAAAATAAATGAGTCATGACATCATTT
9572892 TACGCTTGCATCACGTGCATACGTAAAACCAAATAAAATATTCAAGCAGTCAGTTTAATAAAATT
390 TACGCTTGCATCACGTGCATACGTAAAACCAAATAAAATATTCAAGCAGTCAGTTTAATAAAATT
9572957 TAGTTAATAAGTAGGGAATAAATCAAAAG
455 TAGTTAATAAGTAGGGAATAAATCAAAAG
9572986 TAGACTATAA
Statistics
Matches: 481, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
482 17 0.04
483 453 0.94
484 11 0.02
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (483 bp):
AAATAGAAAATAAAAAATAAAAAATAATAATAATAATAAATAAATAAATAATCCATGAAAAAAAA
ATGACAAAATAAATATATAAGTAAGGTGATAAATTATTAAACATATAATCGGATGAATTATGAAC
CGCTTAAGTCAATAAACGCGTCCATGTAGACATCATCACTTTATCTTGTCATAGCATGCCACATT
TATCTTGCAAATGGTGCAAGAGTTTCGATGATGGGATTTCCCTGAAGAGCTTGTAGAGACGAGTT
TTTTCGGGAATATCTCTAGGTGAGGAGAATTTCGAGACTTCATTAAAGCGTTGGGATGGTCTTCG
AATAATTTTTCAATAAAAGATTTCCGACCCCATTATTTAAAATAAATGAGTCATGACATCATTTT
ACGCTTGCATCACGTGCATACGTAAAACCAAATAAAATATTCAAGCAGTCAGTTTAATAAAATTT
AGTTAATAAGTAGGGAATAAATCAAAAG
Found at i:9577997 original size:163 final size:164
Alignment explanation
Indices: 9577707--9578017 Score: 538
Period size: 163 Copynumber: 1.9 Consensus size: 164
9577697 AGAAGCCTGC
* *
9577707 TAACAGGACTGCTTATAGAAACCTGAGATTGAGCATGGATTTATTGAACTGTTTTATTCTTTTAG
1 TAACAGGACTGCTTATAGAAACCCGAGATTGAGCATGGATTTATTGAACTGTTTTATCCTTTTAG
9577772 CTTGCTTTAATTCAGCTTATTTCTTTGTCTCGGTTTCACCAAGTTGTCTAAATCCTTTTGCTCCT
66 CTTGCTTTAATTCAGCTTATTTCTTTGTCTCGGTTTCACCAAGTTGTCTAAATCCTTTTGCTCCT
9577837 TCCTTGTTCTTCTTTCACATGAATGTTGAGATTA
131 TCCTTGTTCTTCTTTCACATGAATGTTGAGATTA
9577871 TAACAGGACTGCTTA-A-AAACCCCGAGATTGAGCATGGATTTATTGAACTGTTTTATCCTTTTA
1 TAACAGGACTGCTTATAGAAA-CCCGAGATTGAGCATGGATTTATTGAACTGTTTTATCCTTTTA
*
9577934 GCTTGCTTTAGTTCAGCTTATTTCTTTGTCTCAGGTTTCACCAAGTTGTCTAAATCC-TTTGCTC
65 GCTTGCTTTAATTCAGCTTATTTCTTTGTCTC-GGTTTCACCAAGTTGTCTAAATCCTTTTGCTC
* *
9577998 TTTTCTTGTTCTTCTTTCAC
129 CTTCCTTGTTCTTCTTTCAC
9578018 CATATTGGAT
Statistics
Matches: 140, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
162 3 0.02
163 98 0.70
164 39 0.28
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (164 bp):
TAACAGGACTGCTTATAGAAACCCGAGATTGAGCATGGATTTATTGAACTGTTTTATCCTTTTAG
CTTGCTTTAATTCAGCTTATTTCTTTGTCTCGGTTTCACCAAGTTGTCTAAATCCTTTTGCTCCT
TCCTTGTTCTTCTTTCACATGAATGTTGAGATTA
Found at i:9580990 original size:12 final size:12
Alignment explanation
Indices: 9580973--9581000 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9580963 ACAAAAATAT
9580973 TAAAAATTATAA
1 TAAAAATTATAA
9580985 TAAAAATTATAA
1 TAAAAATTATAA
9580997 TAAA
1 TAAA
9581001 TAAGATGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAAAATTATAA
Found at i:9581556 original size:86 final size:86
Alignment explanation
Indices: 9581377--9581742 Score: 527
Period size: 86 Copynumber: 4.2 Consensus size: 86
9581367 ATTATTAAAA
*
9581377 GTAAAATAAATTTATATTACTTGAACTAATGATGCAAACTTAAATATAT-AAATTTTCTATATTA
1 GTAAAATAAATTTATATTACTTGAACT-ATGACGCAAACTTAAATATATAAAATTTT-TATATTA
* * *
9581441 ATTGAACTTGTAAAGTAATAAAT
64 GTTGAACTTGTAAACTAACAAAT
* *
9581464 ATAAAATAAATTTATATTACTTGAACTATGACACAAACTTAAATATATAAAATTTTTATATTAGT
1 GTAAAATAAATTTATATTACTTGAACTATGACGCAAACTTAAATATATAAAATTTTTATATTAGT
* *
9581529 TAAACTTATAAACTAACAAAT
66 TGAACTTGTAAACTAACAAAT
* * * *
9581550 GCAAAATAAATTTATATTACTTAAATTATGACGTAAACTTAAATATATAAAATTTTTATATTAGT
1 GTAAAATAAATTTATATTACTTGAACTATGACGCAAACTTAAATATATAAAATTTTTATATTAGT
* *
9581615 TGAACTTGTAAGCTAATAAAT
66 TGAACTTGTAAACTAACAAAT
* * *
9581636 GTAAAATAAATTTATATTACTTGAAATATGATGCAAACTTAAATATATAAAATTTTTATAATAGT
1 GTAAAATAAATTTATATTACTTGAACTATGACGCAAACTTAAATATATAAAATTTTTATATTAGT
*
9581701 TGAACTTGTAGACTAACAAAT
66 TGAACTTGTAAACTAACAAAT
* *
9581722 GTAATATTAATTTATATTACT
1 GTAAAATAAATTTATATTACT
9581743 CAAACTAGTA
Statistics
Matches: 249, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
86 216 0.87
87 33 0.13
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (86 bp):
GTAAAATAAATTTATATTACTTGAACTATGACGCAAACTTAAATATATAAAATTTTTATATTAGT
TGAACTTGTAAACTAACAAAT
Found at i:9581689 original size:42 final size:42
Alignment explanation
Indices: 9581384--9581690 Score: 179
Period size: 42 Copynumber: 7.1 Consensus size: 42
9581374 AAAGTAAAAT
9581384 AAATTTATATTACTTGAACTAATGATGCAAACTTAAATATATA
1 AAATTTATATTACTTGAACT-ATGATGCAAACTTAAATATATA
* * * *
9581427 AATTTTCTATATTAATTGAACT-TG-T--AAAGTAATAAATATAAAA
1 AA-ATT-TATATTACTTGAACTATGATGCAAACT--TAAATAT-ATA
**
9581470 TAAATTTATATTACTTGAACTATGACACAAACTTAAATATATA
1 -AAATTTATATTACTTGAACTATGATGCAAACTTAAATATATA
* * * *
9581513 AAATTTTTATATTAGTTAAACT-T-AT--AAAC-TAACAAATGCAAAA
1 AAA--TTTATATTACTTGAACTATGATGCAAACTTAA-ATAT---ATA
* * * *
9581556 TAAATTTATATTACTTAAATTATGACGTAAACTTAAATATATA
1 -AAATTTATATTACTTGAACTATGATGCAAACTTAAATATATA
* * * * *
9581599 AAATTTTTATATTAGTTGAACT-TGTAAGCTAA--TAAATGTAAAA
1 AAA--TTTATATTACTTGAACTATG-ATGCAAACTTAAATAT-ATA
*
9581642 TAAATTTATATTACTTGAAATATGATGCAAACTTAAATATATA
1 -AAATTTATATTACTTGAACTATGATGCAAACTTAAATATATA
9581685 AAATTT
1 AAATTT
9581691 TTATAATAGT
Statistics
Matches: 201, Mismatches: 33, Indels: 61
0.68 0.11 0.21
Matches are distributed among these distances:
39 3 0.01
40 11 0.05
42 76 0.38
43 26 0.13
44 57 0.28
45 14 0.07
46 11 0.05
47 3 0.01
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (42 bp):
AAATTTATATTACTTGAACTATGATGCAAACTTAAATATATA
Found at i:9587297 original size:22 final size:22
Alignment explanation
Indices: 9587255--9587297 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9587245 CTACCTTTTT
**
9587255 CACTTGTTTTCTTGATTTTCCA
1 CACTTGTTTTCTTGAAATTCCA
9587277 CACTT-TTTCTCTTGAAATTCC
1 CACTTGTTT-TCTTGAAATTCC
9587298 TCACCTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.16, C:0.26, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTTTCTTGAAATTCCA
Found at i:9587668 original size:20 final size:20
Alignment explanation
Indices: 9587643--9587688 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
9587633 CTTTTAAACC
9587643 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
9587663 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
9587683 TCAAAT
1 TCAAAT
9587689 GGAGACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:9590407 original size:60 final size:60
Alignment explanation
Indices: 9590330--9590511 Score: 256
Period size: 60 Copynumber: 3.0 Consensus size: 60
9590320 ATACATGATC
**** *
9590330 ACCTACTCGTGGGAACTGCCCACGCCATTTTATATAAATCGGGGCTTCAAGTCCCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCCCCTTT
* * * *
9590390 ACCTATTCATGGGAACTGCTCACGCCACCCAATATAAATTGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCCCCTTT
* * *
9590450 ACTTACTCGTGGGAACTGCCCACGCCACCCAATATGAATCGGGGCTTCAGGTCCCCTTTT
1 ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCCCCTTT
9590510 AC
1 AC
9590512 AATCAAATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 106 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.26
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCCCCTTT
Found at i:9591402 original size:34 final size:34
Alignment explanation
Indices: 9591364--9591436 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
9591354 TTTCCTTCTT
*
9591364 CTTTTTCTT-TTCTTCCAGCCGACCTTACTTTTCC
1 CTTTTTCTTCTAC-TCCAGCCGACCTTACTTTTCC
* *
9591398 CTTTTTCTTCTACTCTAGCCGACCTTCCTTTTCC
1 CTTTTTCTTCTACTCCAGCCGACCTTACTTTTCC
9591432 CTTTT
1 CTTTT
9591437 CTACTCCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 33 0.94
35 2 0.06
ACGTcount: A:0.08, C:0.36, G:0.05, T:0.51
Consensus pattern (34 bp):
CTTTTTCTTCTACTCCAGCCGACCTTACTTTTCC
Found at i:9591447 original size:33 final size:34
Alignment explanation
Indices: 9591380--9591450 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
9591370 CTTTTCTTCC
*
9591380 AGCCGACCTTACTTTTCCCTTTTTCTTCTACTCT
1 AGCCGACCTTACTTTTCCCTTTTTCTACTACTCT
* *
9591414 AGCCGACCTTCCTTTTCCC-TTTTCTACTCCTCT
1 AGCCGACCTTACTTTTCCCTTTTTCTACTACTCT
9591447 AGCC
1 AGCC
9591451 AGCCTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.11, C:0.39, G:0.07, T:0.42
Consensus pattern (34 bp):
AGCCGACCTTACTTTTCCCTTTTTCTACTACTCT
Found at i:9591481 original size:15 final size:15
Alignment explanation
Indices: 9591461--9591521 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
9591451 AGCCTTTATT
*
9591461 CTTTCTTTTTCTTTC
1 CTTTCTTTCTCTTTC
9591476 CTTTCTTTCTCTTTC
1 CTTTCTTTCTCTTTC
* * *
9591491 C-CTCCTTCTCCTTC
1 CTTTCTTTCTCTTTC
9591505 CTTTCCTTTCTCCTTTC
1 CTTT-CTTTCT-CTTTC
9591522 TTCTTTATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
14 11 0.31
15 16 0.44
16 5 0.14
17 4 0.11
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (15 bp):
CTTTCTTTCTCTTTC
Found at i:9591496 original size:19 final size:19
Alignment explanation
Indices: 9591459--9591510 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
9591449 CCAGCCTTTA
* **
9591459 TTCTTTCTTTTTCTTTCCT
1 TTCTTTCTCTTTCCCTCCT
9591478 TTCTTTCTCTTTCCCTCCT
1 TTCTTTCTCTTTCCCTCCT
*
9591497 TCTCCTTC-CTTTCC
1 T-TCTTTCTCTTTCC
9591511 TTTCTCCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCTTTCTCTTTCCCTCCT
Found at i:9591711 original size:17 final size:18
Alignment explanation
Indices: 9591687--9591731 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
9591677 TGACCCTCAT
*
9591687 CTTTCTTTCCTTT-TTTTC
1 CTTTCTTT-ATTTCTTTTC
9591705 C-TTCTTTATTTCTTTTC
1 CTTTCTTTATTTCTTTTC
9591722 CTTTCTTTAT
1 CTTTCTTTAT
9591732 GGTGTGCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
18 9 0.38
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
CTTTCTTTATTTCTTTTC
Found at i:9596698 original size:32 final size:31
Alignment explanation
Indices: 9596660--9596765 Score: 106
Period size: 32 Copynumber: 3.2 Consensus size: 31
9596650 TTTACCGGGA
9596660 TCAACCAAAACCCAAAGTAGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGT-GTTTTTCAAAGGC
* * **
9596692 TTAACCATAACCTTTCACAA-TGATTTTTCACGGGC
1 TCAACCAAAACC---CA-AAGTG-TTTTTCAAAGGC
9596727 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGT-GTTTTTCAAAGGC
9596759 TCAACCA
1 TCAACCA
9596766 CAACTTACAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
31 2 0.03
32 30 0.51
33 1 0.02
34 1 0.02
35 23 0.39
36 2 0.03
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.25
Consensus pattern (31 bp):
TCAACCAAAACCCAAAGTGTTTTTCAAAGGC
Found at i:9596719 original size:35 final size:34
Alignment explanation
Indices: 9596629--9596805 Score: 111
Period size: 35 Copynumber: 5.2 Consensus size: 34
9596619 CTAGGCTTAG
** *
9596629 CCAAAACCTTTCACAATGGTTTTT-ACCGGGATCAA
1 CCAAAACC-TTCACAATGGTTTTTCA-AAGGCTCAA
* *
9596664 CCAAAACC--CA-AAGTAGTTTTTCAAAGGCTTAA
1 CCAAAACCTTCACAA-TGGTTTTTCAAAGGCTCAA
* * **
9596696 CCATAACCTTTCACAATGATTTTTCACGGGCTCAA
1 CCAAAACC-TTCACAATGGTTTTTCAAAGGCTCAA
9596731 CCAAAACC--CA-AAGTGGTTTTTCAAAGGCTCAA
1 CCAAAACCTTCACAA-TGGTTTTTCAAAGGCTCAA
* * *
9596763 CCACAA-CTTACAACAATGGTTTTTC-ACGAGATCAA
1 CCAAAACCTT-C-ACAATGGTTTTTCAAAG-GCTCAA
9596798 CCAAAACC
1 CCAAAACC
9596806 CAACAACTAA
Statistics
Matches: 109, Mismatches: 19, Indels: 27
0.70 0.12 0.17
Matches are distributed among these distances:
31 5 0.05
32 44 0.40
33 1 0.01
34 3 0.03
35 51 0.47
36 5 0.05
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (34 bp):
CCAAAACCTTCACAATGGTTTTTCAAAGGCTCAA
Found at i:9596731 original size:67 final size:67
Alignment explanation
Indices: 9596621--9596808 Score: 263
Period size: 67 Copynumber: 2.8 Consensus size: 67
9596611 GGCTTTTACT
*
9596621 AGGCTTAGCCAAAACCTTTCACAATGGTTTTT-ACCGGGATCAACCAAAACCCAAAGTAGTTTTT
1 AGGCTTAACCAAAACCTTTCACAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTAGTTTTT
9596685 CAA
65 CAA
* * * *
9596688 AGGCTTAACCATAACCTTTCACAATGATTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTC
1 AGGCTTAACCAAAACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTAGTTTTTC
9596753 AA
66 AA
* * * *
9596755 AGGCTCAACCACAA-CTTACAACAATGGTTTTTCACGAGATCAACCAAAACCCAA
1 AGGCTTAACCAAAACCTTTC-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
9596809 CAACTAATTT
Statistics
Matches: 108, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
66 4 0.04
67 103 0.95
68 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (67 bp):
AGGCTTAACCAAAACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTAGTTTTTC
AA
Found at i:9605722 original size:42 final size:42
Alignment explanation
Indices: 9605675--9605760 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
9605665 CCTTGAAAGT
*
9605675 TAGTCTTGTTGCATAAAGTTCCTTTTGGAACCCACACTTGTC
1 TAGTCTCGTTGCATAAAGTTCCTTTTGGAACCCACACTTGTC
9605717 TAGTCTCGTTGCATAAAGTTCCTTTTGGAACCCACACTTGTC
1 TAGTCTCGTTGCATAAAGTTCCTTTTGGAACCCACACTTGTC
9605759 TA
1 TA
9605761 AATTTGCAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (42 bp):
TAGTCTCGTTGCATAAAGTTCCTTTTGGAACCCACACTTGTC
Found at i:9608139 original size:32 final size:32
Alignment explanation
Indices: 9608103--9608213 Score: 143
Period size: 32 Copynumber: 3.4 Consensus size: 32
9608093 TTTACTGAGA
9608103 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* **
9608135 TCAACCATAACCTTTCACAA-TGGTTTTTCACGGGC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCAAAGGC
9608170 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
*
9608202 TCAACCACAACC
1 TCAACCAAAACC
9608214 TATGTCACGA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
31 2 0.03
32 37 0.55
35 26 0.39
36 2 0.03
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Done.