Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 38 of 433
Found at i:9880375 original size:21 final size:23
Alignment explanation
Indices: 9880334--9880377 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9880324 AAAAAATACA
*
9880334 TATGCGTAGTATATATAAAAATG
1 TATGCGTAATATATATAAAAATG
9880357 TATGCGTAATATA-ATAAAAAT
1 TATGCGTAATATATATAAAAAT
9880378 TACATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (23 bp):
TATGCGTAATATATATAAAAATG
Found at i:9881911 original size:27 final size:26
Alignment explanation
Indices: 9881863--9881994 Score: 158
Period size: 27 Copynumber: 4.9 Consensus size: 26
9881853 GCGAGGCTGC
* *
9881863 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
9881890 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
9881916 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
9881943 CAGATAATTGTGGCATAACCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
*
9881970 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
9881995 GACACTTCCT
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.08
27 84 0.88
28 3 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:9885830 original size:44 final size:42
Alignment explanation
Indices: 9885782--9886245 Score: 284
Period size: 44 Copynumber: 10.6 Consensus size: 42
9885772 ATGCCTTCGA
* * *
9885782 TCTGTTTCCCTCCTGCTTAAGGGGTTAAGATCTTGTAAATTTAG
1 TCTGTTACCCTACTGCTT-AGGGGTTAAGATC-TGTAAATTCAG
* * *
9885826 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CATCCTCAA
1 TCTGTTACCCTACTGCTTAGGGG-TTAAGA-TCTGTAAAT--TCAG
* *
9885870 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCGG
1 TCTGTTACCCTACTGCTTA-GGGGTTAAGATC-TGTAAATTCAG
* **
9885914 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT--CCTC-G
1 TCTGTTACCCTACTGCTTAGGGG-TTAAGA-TC-T-GTAAATTCAG
* *
9885957 ATCTGTTTCCCTACTACTTAGGGGATTAAGATCTGTAAATTCAG
1 -TCTGTTACCCTACTGCTTAGGGG-TTAAGATCTGTAAATTCAG
** * ** *
9886001 -CTTGTTACCCTACTGCTTAAGGGGTTAAAGCCCAT-CATCTTCAA
1 TC-TGTTACCCTACTGCTT-AGGGGTT-AAGATC-TGTAAATTCAG
* *
9886045 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTCAATTCAG
1 TCTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTCAG
* * *
9886088 -CGTGTTGCCCTACTGCTTAGAGGGTTAAGGTCTATAAATTCAG
1 TC-TGTTACCCTACTGCTTAG-GGGTTAAGATCTGTAAATTCAG
* ** * **
9886131 CCTGTTACCCTACTGCTTAGGGGTTTAAAGCCCAT-CATCTTC-G
1 TCTGTTACCCTACTGCTTAGGGG-TT-AAGATC-TGTAAATTCAG
* * *
9886174 ATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTCAATTCAG
1 -TCTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTCAG
* *
9886218 -CTTGTTAGCCTACTACTTAAGGGGTTAA
1 TC-TGTTACCCTACTGCTT-AGGGGTTAA
9886246 AGCTTGTGAA
Statistics
Matches: 328, Mismatches: 58, Indels: 69
0.72 0.13 0.15
Matches are distributed among these distances:
41 2 0.01
42 12 0.04
43 124 0.38
44 170 0.52
45 16 0.05
46 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (42 bp):
TCTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTCAG
Found at i:9886049 original size:87 final size:86
Alignment explanation
Indices: 9885647--9886115 Score: 459
Period size: 88 Copynumber: 5.4 Consensus size: 86
9885637 ATCTATATTT
* * * * * * *
9885647 TTCAGCCTT-TTACCCTACTGCTTAGGGGTCAAGGCTCATCATCTTTGATCTG-CTCCACTACTA
1 TTCAG-CTTGTTACCCTACTGCTTAGGGGTTAAAGCCCTTCATCTTCGATCTGTTTCC-CTACTG
* *
9885710 TTTAGGGAGA-TAAGATCTGAAAA
64 CTTAGGG-GATTAAGATCTGTAAA
* * * * * * *
9885733 TTTAGCCTGTTACCCTACTACTTAGCGGTTTAAG--GTTCAATGCCTTCGATCTGTTTCCCTCCT
1 TTCAGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCTTC-AT--CTTCGATCTGTTTCCCTACT
9885796 GCTTAAGGGG-TTAAGATCTTGTAAA
63 GCTT-AGGGGATTAAGATC-TGTAAA
* * * *
9885821 TTTAG-TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCCTCAATCTGTTTCCCTACTG
1 TTCAGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-CCCTTCATCTTCGATCTGTTTCCCTACTG
*
9885885 CTTAGGGGGTTAAGATCTTGTAAA
64 CTTAGGGGATTAAGATC-TGTAAA
* * * * *
9885909 TTC-GGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCCTCGATCTGTTTCCCTACTA
1 TTCAGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-CCCTTCATCTTCGATCTGTTTCCCTACTG
9885973 CTTAGGGGATTAAGATCTGTAAA
64 CTTAGGGGATTAAGATCTGTAAA
* *
9885996 TTCAGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCCCATCATCTTCAATCTGTTTCCCTACTGC
1 TTCAGCTTGTTACCCTACTGCTT-AGGGGTTAAAGCCCTTCATCTTCGATCTGTTTCCCTACTGC
* *
9886061 TTAGGGGGTTAAGATCTGTCAA
65 TTAGGGGATTAAGATCTGTAAA
* *
9886083 TTCAGCGTGTTGCCCTACTGCTTAGAGGGTTAA
1 TTCAGCTTGTTACCCTACTGCTTAG-GGGTTAA
9886116 GGTCTATAAA
Statistics
Matches: 328, Mismatches: 38, Indels: 33
0.82 0.10 0.08
Matches are distributed among these distances:
84 2 0.01
85 4 0.01
86 26 0.08
87 127 0.39
88 164 0.50
90 2 0.01
91 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (86 bp):
TTCAGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCTTCATCTTCGATCTGTTTCCCTACTGCT
TAGGGGATTAAGATCTGTAAA
Found at i:9886186 original size:87 final size:87
Alignment explanation
Indices: 9886090--9886248 Score: 221
Period size: 87 Copynumber: 1.8 Consensus size: 87
9886080 CAATTCAGCG
* * *
9886090 TGTTGCCCTACTGCTTAGAGGGTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTT-AGGGG
1 TGTTGCCCTACTACTTAGAGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTACTTAAGGGG
9886154 TTTAAAGCCCATCATCTTCGATC
66 -TTAAAGCCCATCATCTTCGATC
* * * * * *
9886177 TGTTTCCCTACTACTTAGGGGGTTAAGATCTGTCAATTCAGCTTGTTAGCCTACTACTTAAGGGG
1 TGTTGCCCTACTACTTAGAGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTACTTAAGGGG
9886242 TTAAAGC
66 TTAAAGC
9886249 TTGTGAATTC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 57 0.92
88 5 0.08
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (87 bp):
TGTTGCCCTACTACTTAGAGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTACTTAAGGGG
TTAAAGCCCATCATCTTCGATC
Found at i:9886259 original size:130 final size:129
Alignment explanation
Indices: 9885960--9886245 Score: 441
Period size: 130 Copynumber: 2.2 Consensus size: 129
9885950 GTCCTCGATC
* *
9885960 TGTTTCCCTACTACTTAGGGGATTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAAGGGG
1 TGTTGCCCTACTACTTAGGGG-TTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGG
*
9886025 TTAAAGCCCATCATCTTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTCAATTCAGCG
65 TTAAAGCCCATCATCTTCAATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTCAATTCAGCG
* * *
9886090 TGTTGCCCTACTGCTTAGAGGGTTAAGGTCTATAAATTCAGCCTGTTACCCTACTGCTT-AGGGG
1 TGTTGCCCTACTACTTAG-GGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGG
*
9886154 TTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTCAATTCAGC
65 -TTAAAGCCCATCATCTTCAATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTCAATTCAGC
*
9886219 T
129 G
9886220 TGTTAG-CCTACTACTTAAGGGGTTAA
1 TGTT-GCCCTACTACTT-AGGGGTTAA
9886246 AGCTTGTGAA
Statistics
Matches: 143, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
129 5 0.03
130 132 0.92
131 6 0.04
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (129 bp):
TGTTGCCCTACTACTTAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGGT
TAAAGCCCATCATCTTCAATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTCAATTCAGCG
Found at i:9886416 original size:66 final size:66
Alignment explanation
Indices: 9886310--9886441 Score: 219
Period size: 66 Copynumber: 2.0 Consensus size: 66
9886300 TCTATGCTTA
**
9886310 TGTCAAATGGTTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATAAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATAAAT
9886375 G
66 G
** *
9886376 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAATTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATAAAT
9886441 G
66 G
9886442 GTATATGAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATAAAT
G
Found at i:9892854 original size:2 final size:2
Alignment explanation
Indices: 9892847--9892882 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9892837 GATAATAATG
9892847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9892883 GTATTAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9893013 original size:21 final size:23
Alignment explanation
Indices: 9892972--9893015 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9892962 GAAAAATACA
*
9892972 TATGCGTAGTATATATAAAAATG
1 TATGCGTAATATATATAAAAATG
9892995 TATGCGTAATATA-ATAAAAAT
1 TATGCGTAATATATATAAAAAT
9893016 TACATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (23 bp):
TATGCGTAATATATATAAAAATG
Found at i:9893178 original size:2 final size:2
Alignment explanation
Indices: 9893171--9893196 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9893161 GTACGCTAAA
9893171 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
9893197 TAAATTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9893470 original size:23 final size:21
Alignment explanation
Indices: 9893417--9893457 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9893407 AATACAAAAC
*
9893417 AAAATATACACATAATATATT
1 AAAATATATACATAATATATT
*
9893438 AAAATATATACATTATATAT
1 AAAATATATACATAATATAT
9893458 ATATATATAT
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:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATATATACATAATATATT
Found at i:9895212 original size:28 final size:28
Alignment explanation
Indices: 9895181--9895235 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
9895171 GTTATCATCC
9895181 AAAAATTATA-AA-AAAAATCTAAAAAATT
1 AAAAA-TATACAATAAAAAT-TAAAAAATT
*
9895209 AAAAATATACAATCAAAATTAAAAAAT
1 AAAAATATACAATAAAAATTAAAAAAT
9895236 ATATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.17
28 15 0.62
29 5 0.21
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (28 bp):
AAAAATATACAATAAAAATTAAAAAATT
Found at i:9895312 original size:16 final size:17
Alignment explanation
Indices: 9895291--9895324 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
9895281 ATATCTTTTC
9895291 ATATATTTTATA-AAAA
1 ATATATTTTATATAAAA
9895307 ATATATTTTATATAAAA
1 ATATATTTTATATAAAA
9895324 A
1 A
9895325 ATTATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATTTTATATAAAA
Found at i:9895329 original size:28 final size:28
Alignment explanation
Indices: 9895298--9895354 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
9895288 TTCATATATT
* *
9895298 TTATAAAAA-ATATATTTTATATAAAAAA
1 TTATAAAAATA-AAATTTTAAATAAAAAA
9895326 TTATAAAAATAAAATTTTAAATAAAAAA
1 TTATAAAAATAAAATTTTAAATAAAAAA
9895354 T
1 T
9895355 CAAATTCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
TTATAAAAATAAAATTTTAAATAAAAAA
Found at i:9895353 original size:14 final size:14
Alignment explanation
Indices: 9895311--9895354 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
9895301 TAAAAAATAT
*
9895311 ATTTTATATAAAAA
1 ATTTTAAATAAAAA
*
9895325 ATTATAAA-AATAAA
1 ATTTTAAATAA-AAA
9895339 ATTTTAAATAAAAA
1 ATTTTAAATAAAAA
9895353 AT
1 AT
9895355 CAAATTCATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTTTAAATAAAAA
Found at i:9900147 original size:46 final size:44
Alignment explanation
Indices: 9900043--9900150 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
9900033 TGTCTTTGAC
** * * *
9900043 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
9900087 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
9900133 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
9900151 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:9905589 original size:8 final size:8
Alignment explanation
Indices: 9905578--9905605 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
9905568 TTTATTTCCC
9905578 TTTTCTTT
1 TTTTCTTT
9905586 TTTTCTTT
1 TTTTCTTT
9905594 TTTTCTTT
1 TTTTCTTT
9905602 TTTT
1 TTTT
9905606 GCAATTCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTCTTT
Found at i:9905903 original size:12 final size:12
Alignment explanation
Indices: 9905888--9905912 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9905878 TTATATCATT
9905888 TCATTATTATCA
1 TCATTATTATCA
9905900 TCATTATTATCA
1 TCATTATTATCA
9905912 T
1 T
9905913 ATAGTACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCATTATTATCA
Found at i:9912012 original size:5 final size:5
Alignment explanation
Indices: 9912002--9912055 Score: 99
Period size: 5 Copynumber: 10.6 Consensus size: 5
9911992 AAGAAATTGT
9912002 TATTA TATTA TATTTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TA-TTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
9912053 TAT
1 TAT
9912056 AAATAAGTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 43 0.90
6 5 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:9912519 original size:14 final size:14
Alignment explanation
Indices: 9912500--9912528 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9912490 GAATTAAGAT
9912500 AGAAAAGTAAGTGA
1 AGAAAAGTAAGTGA
9912514 AGAAAAGTAAGTGA
1 AGAAAAGTAAGTGA
9912528 A
1 A
9912529 TTTAGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (14 bp):
AGAAAAGTAAGTGA
Found at i:9913484 original size:20 final size:20
Alignment explanation
Indices: 9913461--9913509 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9913451 AATTATATTG
*
9913461 AATTGAA-AAAATATATAATT
1 AATTGAATAAAATAT-GAATT
9913481 AATT-AATTAAAATATGAATT
1 AATTGAA-TAAAATATGAATT
9913501 AATTGAATA
1 AATTGAATA
9913510 CTGAAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.08
20 14 0.56
21 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (20 bp):
AATTGAATAAAATATGAATT
Found at i:9913652 original size:12 final size:12
Alignment explanation
Indices: 9913635--9913659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9913625 GCCGACTACT
9913635 GTTACTGTTACC
1 GTTACTGTTACC
9913647 GTTACTGTTACC
1 GTTACTGTTACC
9913659 G
1 G
9913660 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:9913753 original size:47 final size:47
Alignment explanation
Indices: 9913688--9913794 Score: 169
Period size: 47 Copynumber: 2.3 Consensus size: 47
9913678 CGGATATTGT
* *
9913688 TACTGTTACTATTTCGGATTCGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTCGTTCCGATGAGGTACTCTGTGTACCG
*
9913735 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTCGTTCCGATGAGGTACTCTGTGTACCG
* *
9913782 TATTGCTACTGTT
1 TACTGTTACTGTT
9913795 ACTGTTACTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (47 bp):
TACTGTTACTGTTCCGGATTCGTTCCGATGAGGTACTCTGTGTACCG
Found at i:9913970 original size:18 final size:18
Alignment explanation
Indices: 9913924--9913993 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
9913914 AGATCGACTG
* * *
9913924 TTACTGAATAATTTAATTG
1 TTACTGAATAA-CTGATTA
9913943 TTACTGAATAACTGATTA
1 TTACTGAATAACTGATTA
* * *
9913961 TTATTGAATAATTGATTT
1 TTACTGAATAACTGATTA
*
9913979 TTACCGAATAACTGA
1 TTACTGAATAACTGA
9913994 CTGTTCCTCA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 31 0.74
19 11 0.26
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (18 bp):
TTACTGAATAACTGATTA
Found at i:9920562 original size:28 final size:28
Alignment explanation
Indices: 9920493--9920593 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
9920483 GACAAGAGTG
* * * *
9920493 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
9920523 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
9920551 GCACTAAGTGTGCGAG-CTGAATATATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
9920580 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
9920594 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:9920587 original size:29 final size:28
Alignment explanation
Indices: 9920522--9920593 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
9920512 AAAATTGTAC
*
9920522 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
9920550 AGCACTAAGTGTGCGAG-CTGAATATATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
9920579 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
9920594 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:9925663 original size:27 final size:27
Alignment explanation
Indices: 9925613--9925754 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
9925603 GTGACGAAGT
9925613 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
*
9925640 CACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* * *
9925667 CACCAGATCAGATA-ATCGTAGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
*
9925694 CACCAGAACAGATATATGTGACAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
9925721 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
9925748 CACCAGA
1 CACCAGA
9925755 CGCTTCCTCC
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.11
27 86 0.87
28 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:9925695 original size:54 final size:54
Alignment explanation
Indices: 9925595--9925754 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 54
9925585 GCGAGGCTGC
* * *
9925595 CAGATAT-TGTGAC-GAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACTAGAA
1 CAGATATATGTGACAG-AGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* * *
9925648 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTAGCATAGCCACCAGAA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
9925702 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGA
9925755 CGCTTCCTCC
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
53 12 0.13
54 82 0.86
55 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:9925885 original size:25 final size:26
Alignment explanation
Indices: 9925857--9925930 Score: 96
Period size: 25 Copynumber: 2.8 Consensus size: 26
9925847 AAAATTAACC
* *
9925857 CTAGGGGTATAATGGTAATTTTGC-A
1 CTAGGGGTATAATAGTAATTTTCCAA
9925882 CTAGGGGTATAATAGTAATTTTCCATA
1 CTAGGGGTATAATAGTAATTTTCCA-A
*
9925909 CATAGGGGTATTATAGTAATTT
1 C-TAGGGGTATAATAGTAATTT
9925931 AACTGCTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 22 0.51
27 2 0.05
28 19 0.44
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (26 bp):
CTAGGGGTATAATAGTAATTTTCCAA
Found at i:9927396 original size:26 final size:26
Alignment explanation
Indices: 9927365--9927472 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
9927355 ATGAAATTCC
9927365 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9927391 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9927417 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9927443 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
9927469 ATCA
1 ATCA
9927473 ATATGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9929914 original size:47 final size:47
Alignment explanation
Indices: 9929856--9929962 Score: 169
Period size: 47 Copynumber: 2.3 Consensus size: 47
9929846 CGGATATTGT
*
9929856 TACTGTTACTGTTTCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
* *
9929903 TACTGTTACTGTTCCGGATTTGTTCTGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
* *
9929950 TATTGCTACTGTT
1 TACTGTTACTGTT
9929963 ACTATTATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (47 bp):
TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
Found at i:9930119 original size:18 final size:18
Alignment explanation
Indices: 9930092--9930156 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
9930082 AGATCGAATG
9930092 TTACTGAATAACTGATTA
1 TTACTGAATAACTGATTA
* * *
9930110 TTATTGAATAATTGATTG
1 TTACTGAATAACTGATTA
* *
9930128 TTACCGAATAACTGACTA
1 TTACTGAATAACTGATTA
9930146 TTACTGAATAA
1 TTACTGAATAA
9930157 ATAATCGTTC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (18 bp):
TTACTGAATAACTGATTA
Found at i:9936425 original size:12 final size:12
Alignment explanation
Indices: 9936408--9936432 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9936398 CGACTACTGT
9936408 TACTGTTACCGA
1 TACTGTTACCGA
9936420 TACTGTTACCGA
1 TACTGTTACCGA
9936432 T
1 T
9936433 TCGGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (12 bp):
TACTGTTACCGA
Found at i:9936517 original size:47 final size:47
Alignment explanation
Indices: 9936459--9936565 Score: 169
Period size: 47 Copynumber: 2.3 Consensus size: 47
9936449 CGGATATTGT
*
9936459 TACTGTTACTGTTTCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
* *
9936506 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACTG
1 TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
* *
9936553 TATTGCTACTGTT
1 TACTGTTACTGTT
9936566 ACTGTTACTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (47 bp):
TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
Found at i:9936741 original size:18 final size:18
Alignment explanation
Indices: 9936693--9936778 Score: 73
Period size: 18 Copynumber: 4.7 Consensus size: 18
9936683 AAAGATCGAC
* *
9936693 TATTACTGAATAATTTAAT
1 TATTACTGAATAA-CTGAT
*
9936712 TGTTACTGAATAACTGAT
1 TATTACTGAATAACTGAT
* *
9936730 TATTATTGAATAATTGAT
1 TATTACTGAATAACTGAT
* * *
9936748 TGTTACCGAATAACTGAC
1 TATTACTGAATAACTGAT
* *
9936766 TGTTACTGTATAA
1 TATTACTGAATAA
9936779 ATAATCGTTC
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
18 42 0.78
19 12 0.22
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (18 bp):
TATTACTGAATAACTGAT
Found at i:9936759 original size:36 final size:37
Alignment explanation
Indices: 9936693--9936778 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 37
9936683 AAAGATCGAC
*
9936693 TATTACTGAATAATTTAATTGTTACTGAATAACTGAT
1 TATTACTGAATAATTTAATTGTTACCGAATAACTGAT
* * *
9936730 TATTATTGAATAA-TTGATTGTTACCGAATAACTGAC
1 TATTACTGAATAATTTAATTGTTACCGAATAACTGAT
* *
9936766 TGTTACTGTATAA
1 TATTACTGAATAA
9936779 ATAATCGTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 30 0.71
37 12 0.29
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (37 bp):
TATTACTGAATAATTTAATTGTTACCGAATAACTGAT
Found at i:9938180 original size:44 final size:44
Alignment explanation
Indices: 9938130--9938359 Score: 153
Period size: 44 Copynumber: 5.0 Consensus size: 44
9938120 AGTGAAGTAA
9938130 GATAAAGCTACAAATTCTATACCCCTAAAGTTGCAGTGGGTC-G
1 GATAAAGCTACAAATTCTATACCCCTAAAGTTGCAGTGGGTCAG
* * *
9938173 GATTAAAGCTACCATAGTAAGTCT-TATCTCCCTAAAGTTGTAGTGGAG-CAA
1 GA-TAAAGCTA-C--A--AATTCTATA-C-CCCTAAAGTTGCAGTGG-GTCAG
* * *
9938224 GATAAAGCTACAAATTCTATACCCCTGAAGTCGTAGTGGGTCAG
1 GATAAAGCTACAAATTCTATACCCCTAAAGTTGCAGTGGGTCAG
* * * *
9938268 GTTAAAGCTATCATAACGAATCT-TATCTCCCTAAAGTTGCAGTGGGGCAA
1 GATAAAGCTA-C--AA--ATTCTATA-C-CCCTAAAGTTGCAGTGGGTCAG
* * * * *
9938318 GATGATGTTACAAATCCTATACCCCTAAAGTTGCAATGGGTC
1 GATAAAGCTACAAATTCTATACCCCTAAAGTTGCAGTGGGTC
9938360 GAATGAAGCT
Statistics
Matches: 145, Mismatches: 22, Indels: 39
0.70 0.11 0.19
Matches are distributed among these distances:
43 3 0.02
44 52 0.36
45 12 0.08
46 4 0.03
47 6 0.04
48 4 0.03
49 13 0.09
50 48 0.33
51 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (44 bp):
GATAAAGCTACAAATTCTATACCCCTAAAGTTGCAGTGGGTCAG
Found at i:9938211 original size:94 final size:94
Alignment explanation
Indices: 9938042--9938578 Score: 517
Period size: 94 Copynumber: 5.7 Consensus size: 94
9938032 GGGGTGTAAC
* * * *
9938042 GCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATT
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGCTACCATAGCGAATCTTATC
* * *
9938107 TCCTTGAAGTTACAGTGAAGTAAGATAAA
66 TCCCTAAAGTTACAGTGAAGCAAGATAAA
* *
9938136 GCTACAAATTCTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGCTACCATAG-TAAGTCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGCTACCATAGCGAA-TCTTAT
** *
9938200 CTCCCTAAAGTTGTAGTGGAGCAAGATAAA
65 CTCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * * * *
9938230 GCTACAAATTCTATACCCCTGAAGTCGTAGTGGGTCAGG-TTAAAGCTATCATAACGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTC-GGATTAAAGCTACCATAGCGAATCTTAT
* ** * *
9938294 CTCCCTAAAGTTGCAGTGGGGCAAGATGAT
65 CTCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * *
9938324 GTTACAAATCCTATACCCCTAAAGTTGCAATGGGTC-GAATGAAGCTACCATAGCGAATCTTATC
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGCTACCATAGCGAATCTTATC
* * *
9938388 TCTCTGAAGTTACAGTGAAGCAAGATTAA
66 TCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * ** * * * *
9938417 GCTACAGATCCTGTACCCTTAAAGTCACAGTGGGTCAGAATGAAA-CTACAATAGCGAATCTTTT
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTC-GGATTAAAGCTACCATAGCGAATCTTAT
* * * * * *
9938481 CTCCTTGAACTTACAATGGAGCAAGATGAA
65 CTCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * * * * * * *
9938511 GCTACAAATCATATATCGCTAAAGTTGTAGTAGATCGGATTGAAA-CTACAATAGCAAATCTCAT
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTCGGATT-AAAGCTACCATAGCGAATCTTAT
9938575 CTCC
65 CTCC
9938579 ACGAAGATGC
Statistics
Matches: 362, Mismatches: 74, Indels: 14
0.80 0.16 0.03
Matches are distributed among these distances:
92 1 0.00
93 78 0.22
94 276 0.76
95 7 0.02
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (94 bp):
GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGCTACCATAGCGAATCTTATC
TCCCTAAAGTTACAGTGAAGCAAGATAAA
Found at i:9938477 original size:187 final size:187
Alignment explanation
Indices: 9938042--9938537 Score: 566
Period size: 187 Copynumber: 2.6 Consensus size: 187
9938032 GGGGTGTAAC
* * * *
9938042 GCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATT
1 GCTACAAATCCTATACCCCTGAAGTCGCAGTGGGTCAGAATGAAACTA-CATAGCGAATCTTATC
* * * * *
9938107 TCCTTGAAGTTACAGTGAAGTAAGATAAAGCTACAAATTCTATACCCCTAAAGTTGCAGTGGGTC
65 TCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTC
* * ** *
9938172 GGATTAAAGCTACCATAGTAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAA
130 GGAATAAAGCTACCATAGGAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * * *
9938230 GCTACAAATTCTATACCCCTGAAGTCGTAGTGGGTCAG-GTTAAAGCTATCATAACGAATCTTAT
1 GCTACAAATCCTATACCCCTGAAGTCGCAGTGGGTCAGAATGAAA-CTA-CATAGCGAATCTTAT
* * * * * *
9938294 CTCCCTAAAGTTGCAGTGGGGCAAGATGATGTTACAAATCCTATACCCCTAAAGTTGCAATGGGT
64 CTCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGT
* * * *
9938359 C-GAATGAAGCTACCATAGCGAA-TCTTATCTCTCTGAAGTTACAGTGAAGCAAGATTAA
129 CGGAATAAAGCTACCATAG-GAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * * * *
9938417 GCTACAGATCCTGTACCCTTAAAGTCACAGTGGGTCAGAATGAAACTACAATAGCGAATCTTTTC
1 GCTACAAATCCTATACCCCTGAAGTCGCAGTGGGTCAGAATGAAACTAC-ATAGCGAATCTTATC
* * * * *
9938482 TCCTTGAACTTACAATGGAGCAAGATGAAGCTACAAATCATATATCGCTAAAGTTG
65 TCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTG
9938538 TAGTAGATCG
Statistics
Matches: 253, Mismatches: 51, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
186 1 0.00
187 140 0.55
188 112 0.44
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (187 bp):
GCTACAAATCCTATACCCCTGAAGTCGCAGTGGGTCAGAATGAAACTACATAGCGAATCTTATCT
CCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTCG
GAATAAAGCTACCATAGGAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAAGATAAA
Found at i:9938723 original size:44 final size:44
Alignment explanation
Indices: 9938669--9938824 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 44
9938659 AATCTTATCT
9938669 CCCTGAAGTTGCAATGGAGTAAGATGAAGCTACAAATCCTATAC
1 CCCTGAAGTTGCAATGGAGTAAGATGAAGCTACAAATCCTATAC
* * * * *
9938713 CCTTGAAGTTGTAGTGG-GTTGAA-ATGAAACTACAATGGCAAATCTTAT-C
1 CCCTGAAGTTGCAATGGAG-T-AAGATGAAGCT---A---CAAATCCTATAC
* * *
9938762 TCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAAATCCTATAC
1 -CCCTGAAGTTGCAATGGAGTAAGATGAAGCTACAAATCCTATAC
*
9938807 CCCTAAAGTTGCAATGGA
1 CCCTGAAGTTGCAATGGA
9938825 TCAGAATGAA
Statistics
Matches: 87, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
43 1 0.01
44 45 0.52
45 3 0.03
47 2 0.02
49 3 0.03
50 32 0.37
51 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (44 bp):
CCCTGAAGTTGCAATGGAGTAAGATGAAGCTACAAATCCTATAC
Found at i:9938765 original size:94 final size:94
Alignment explanation
Indices: 9938042--9938884 Score: 514
Period size: 94 Copynumber: 9.0 Consensus size: 94
9938032 GGGGTGTAAC
* * * * * *
9938042 GCTACAAATCCTATACCCCTGAAGTTGCAGTGGG-TCAGATTGAAGCTACCATAGCGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGA-AATGAAACTACAATAGCAAATCTTAT
* * * * * *
9938106 TTCCTTGAAGTTACAGTGAAGTAAGATAAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * * *
9938136 GCTACAAATTCTATACCCCTAAAGTTGCAGTGGGTCG-GATTAAAGCTACCATAGTAAGTCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGAAATGAAA-CTACAATAGCAAATCTTAT
* * *
9938200 CTCCCTAAAGTTGTAGTGGAGCAAGATAAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * ** * * *
9938230 GCTACAAATTCTATACCCCTGAAGTCGTAGTGGG-TCAGGTTAAAGCTATC-ATAACGAATCTTA
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGAAATGAAA-CTA-CAATAGCAAATCTTA
* * *
9938293 TCTCCCTAAAGTTGCAGTGGGGCAAGATGAT
64 TCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * *
9938324 GTTACAAATCCTATACCCCTAAAGTTGCAATGGGTCG-AATGAAGCTACCATAGCGAATCTTATC
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * * *
9938388 TCTCTGAAGTTACAGTGAAGCAAGATTAA
66 TCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * ** * * *
9938417 GCTACAGATCCTGTACCCTTAAAGTCACAGTGGG-TCAGAATGAAACTACAATAGCGAATCTTTT
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGA-AATGAAACTACAATAGCAAATCTTAT
* * * *
9938481 CTCCTTGAACTTACAATGGAGCAAGATGAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * * * * * *
9938511 GCTACAAATCATATATCGCTAAAGTTGTAGTAGATCGGATTGAAACTACAATAGCAAATCTCATC
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * * * * *
9938576 TCCAC-GAAGATGCAATGGCGTATGATAAA
66 TCC-CTGAAGTTGCAGTGGAGCAAGATGAA
* ** * * ** * * **
9938605 GGTACAACAT--TA-A-ATCT--AGTTTTC-TTGAATTTGCAGTGAAA-T-GGATGAAGCAGCAA
1 GCTACAA-ATCCTATACCCCTAAAG-TTGCAGTG-GGTTGAAATGAAACTACAAT--AGCA--AA
* *
9938661 TCTTATCTCCCTGAAGTTGCAATGGAGTAAGATGAA
59 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * *
9938697 GCTACAAATCCTATACCCTTGAAGTTGTAGTGGGTTGAAATGAAACTACAATGGCAAATCTTATC
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * *
9938762 TCCCTGAAGTTGTAGTAGAGTAAGATGAA
66 TCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * *
9938791 GCTACAAATCCTATACCCCTAAAGTTGCAAT-GGATCAGAATGAAACTACTACAACAAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGA-AATGAAACTACAATAGCAAATCTTAT
* * * *
9938855 CTCCTTGAAGTTGCAATGAAGCAAGTTGAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
9938885 ACTGTGACAC
Statistics
Matches: 572, Mismatches: 149, Indels: 56
0.74 0.19 0.07
Matches are distributed among these distances:
88 2 0.00
89 4 0.01
90 14 0.02
91 5 0.01
92 39 0.07
93 77 0.13
94 406 0.71
95 4 0.01
96 14 0.02
97 5 0.01
98 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (94 bp):
GCTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
TCCCTGAAGTTGCAGTGGAGCAAGATGAA
Found at i:9938790 original size:50 final size:46
Alignment explanation
Indices: 9938659--9938797 Score: 117
Period size: 50 Copynumber: 3.0 Consensus size: 46
9938649 ATGAAGCAGC
* *
9938659 AATCTTATCTCCCTGAAGTTGCAATGGAGTAAGATGAAGCT---ACA
1 AATCTTATCTCCCTGAAGTTGTAGT-GAGTAAGATGAAGCTACAACA
* * * *
9938703 AATCCTATAC-CCTTGAAGTTGTAGTGGGTTGAA-ATGAAACTACAATGGCA
1 AATCTTAT-CTCCCTGAAGTTGTAGTGAG-T-AAGATGAAGCTACAA---CA
9938753 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAA
1 AATCTTATCTCCCTGAAGTTGTAGT-GAGTAAGATGAAGCTACAA
9938798 ATCCTATACC
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
43 2 0.03
44 27 0.37
45 3 0.04
47 1 0.01
49 3 0.04
50 35 0.48
51 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (46 bp):
AATCTTATCTCCCTGAAGTTGTAGTGAGTAAGATGAAGCTACAACA
Found at i:9940172 original size:30 final size:30
Alignment explanation
Indices: 9940134--9940212 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
9940124 TTTCTATCCC
9940134 ATTT-TAATTTAATCCTTTAATTTCTGTT-T
1 ATTTATAATTTAATCCTTTAATTT-TGTTAT
* * *
9940163 CTTTATAA-TTAAGGCTTTTAATTTTGTTAT
1 ATTTATAATTTAA-TCCTTTAATTTTGTTAT
* *
9940193 ATTTTTAATTTAGTCCTTTA
1 ATTTATAATTTAATCCTTTA
9940213 TTCACAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
29 11 0.29
30 24 0.63
31 3 0.08
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.59
Consensus pattern (30 bp):
ATTTATAATTTAATCCTTTAATTTTGTTAT
Found at i:9945448 original size:17 final size:17
Alignment explanation
Indices: 9945394--9945449 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
9945384 AGGTGGCAAA
*
9945394 TATAAATT-TTAAAAAT
1 TATAAATTAATAAAAAT
9945410 TA-AGAA-TAATTAAAAAT
1 TATA-AATTAA-TAAAAAT
9945427 ATATAAATTAATAAAAAT
1 -TATAAATTAATAAAAAT
9945445 TATAA
1 TATAA
9945450 TTTTTTTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
15 2 0.06
16 4 0.12
17 12 0.36
18 11 0.33
19 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
TATAAATTAATAAAAAT
Found at i:9945651 original size:26 final size:24
Alignment explanation
Indices: 9945594--9945651 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 24
9945584 TGAAAAAAAA
9945594 ATATAAAATATAAAATTATAAATT
1 ATATAAAATATAAAATTATAAATT
9945618 -TATGAAAATATATACAATTA-AAATAT
1 ATAT-AAAATATA-A-AATTATAAAT-T
9945644 ATATAAAA
1 ATATAAAA
9945652 AACCTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 8 0.28
25 5 0.17
26 10 0.34
27 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
ATATAAAATATAAAATTATAAATT
Found at i:9950397 original size:22 final size:22
Alignment explanation
Indices: 9950362--9950416 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
9950352 TAATAATATA
*
9950362 TTTTTAAAAAATAAATTCCAAG
1 TTTTTAAAATATAAATTCCAAG
* *
9950384 TTTTTATAATATAAATTCCATG
1 TTTTTAAAATATAAATTCCAAG
9950406 TTTTTAAAATA
1 TTTTTAAAATA
9950417 AGTTCGAGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTTTAAAATATAAATTCCAAG
Found at i:9953088 original size:16 final size:16
Alignment explanation
Indices: 9953067--9953097 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9953057 TCAAATTTGT
9953067 GCCTCTAATCCTTTAG
1 GCCTCTAATCCTTTAG
9953083 GCCTCTAATCCTTTA
1 GCCTCTAATCCTTTA
9953098 AGATTCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.39
Consensus pattern (16 bp):
GCCTCTAATCCTTTAG
Found at i:9953287 original size:9 final size:9
Alignment explanation
Indices: 9953273--9953297 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9953263 ATCTTGTGGA
9953273 AAAAAAAAC
1 AAAAAAAAC
9953282 AAAAAAAAC
1 AAAAAAAAC
9953291 AAAAAAA
1 AAAAAAA
9953298 TCTATGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:9954928 original size:19 final size:19
Alignment explanation
Indices: 9954904--9954942 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9954894 GACACATGGA
9954904 ACATAACTCACTATCTTAT
1 ACATAACTCACTATCTTAT
9954923 ACATAACTCACTATCTTAT
1 ACATAACTCACTATCTTAT
9954942 A
1 A
9954943 AAATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (19 bp):
ACATAACTCACTATCTTAT
Found at i:9955934 original size:14 final size:15
Alignment explanation
Indices: 9955910--9955939 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9955900 TCTTTCTTTC
9955910 TTTTTTGTTTTTTTG
1 TTTTTTGTTTTTTTG
9955925 TTTTTT-TTTTTTTG
1 TTTTTTGTTTTTTTG
9955939 T
1 T
9955940 ACAACTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTTGTTTTTTTG
Found at i:9957313 original size:177 final size:176
Alignment explanation
Indices: 9956886--9957504 Score: 814
Period size: 176 Copynumber: 3.5 Consensus size: 176
9956876 TTGAGGCACC
9956886 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
* ** **
9956951 CTAAAATTTAGCTGTTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCGTT
66 CTAAAATTTAACCATTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCCAT
* * *
9957016 AGTTTTCTATGACAAAAGAAAAGAAAGAAAGAATGGAGATGTGTCT
131 AATTTTCTATGTCAAAAGAAAAGAAAGAAAGAATGGACATGTGTCT
* * * * *
9957062 AAATTATGTCTAAATTAAAGTATAGAGATTAAATCTCAAATTTAAGCTAAATATAGGGAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
* * * * * * *
9957127 ATGAAATTTAGCCACTCTTATATAATCTTTAAAAATTTGATGGATCAGAATTGAAATTTAGCCAG
66 CTAAAATTTAACCATTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCCAT
*
9957192 AATTTTCTATGTCAAAAGAAAAGGAAAGAAAGAATGGCCATGTGTCT
131 AATTTTCTATGTCAAAAGAAAA-GAAAGAAAGAATGGACATGTGTCT
* * * * *
9957239 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTTAAATTTGAGCAAAATATAGGGATCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
* * * *
9957304 CTAAAATTTAACCATTCTTATATAATC-TTAAAAAGGTAGAGGGATTAGAACTAAAATTTAGCCA
66 CTAAAATTTAACCATTCTTATATAATCTTTAAAAA-GTTGATGGATTAGAATTGAAATTTAGCCA
* *
9957368 CTACTTTT-TCATGTCAAAAGAAAA-AAA-AAAGAATGGACAAGTGTCT
130 -TAATTTTCT-ATGTCAAAAGAAAAGAAAGAAAGAATGGACATGTGTCT
* * * * **
9957414 AAATTATATCAAAATTAAAGTATAGAAATTAAATATCAAATTTGAGTGAAATATAAGAATTAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
* *
9957479 TTAAAATTTAACCATTTTTATATAAT
66 CTAAAATTTAACCATTCTTATATAAT
9957505 TCTAAAAGTA
Statistics
Matches: 390, Mismatches: 49, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
175 97 0.25
176 145 0.37
177 129 0.33
178 19 0.05
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.31
Consensus pattern (176 bp):
AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
CTAAAATTTAACCATTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCCAT
AATTTTCTATGTCAAAAGAAAAGAAAGAAAGAATGGACATGTGTCT
Found at i:9958077 original size:18 final size:20
Alignment explanation
Indices: 9958050--9958093 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
9958040 AAATAGGGAC
*
9958050 TAAAATATTA-TTTT-ACTT
1 TAAAAAATTAGTTTTGACTT
9958068 TAAAAAATTAGTTTTGACTT
1 TAAAAAATTAGTTTTGACTT
9958088 TAAAAA
1 TAAAAA
9958094 CCATATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 10 0.43
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAAAATTAGTTTTGACTT
Found at i:9960027 original size:18 final size:18
Alignment explanation
Indices: 9960004--9960038 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9959994 GATACTTGAA
9960004 TTTAATAATTAAATTTAT
1 TTTAATAATTAAATTTAT
**
9960022 TTTAATTGTTAAATTTA
1 TTTAATAATTAAATTTA
9960039 AAAAATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTAATAATTAAATTTAT
Found at i:9962128 original size:21 final size:22
Alignment explanation
Indices: 9962102--9962149 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
9962092 AGAAGTATAT
**
9962102 TTATATTA-AAATTTATTTAAA
1 TTATATTAGAAAAATATTTAAA
9962123 TTATATTATGAAAAATATTTAAA
1 TTATATTA-GAAAAATATTTAAA
9962146 TTAT
1 TTAT
9962150 TTTTAGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATATTAGAAAAATATTTAAA
Found at i:9971196 original size:23 final size:23
Alignment explanation
Indices: 9971153--9971196 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
9971143 ACTATGCAAT
9971153 CTCACAATTTCTCGAATGTAAAC
1 CTCACAATTTCTCGAATGTAAAC
9971176 CTCAGCAAGTTTCT-GAA-GTAA
1 CTCA-CAA-TTTCTCGAATGTAA
9971197 CCAATCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 8 0.42
24 6 0.32
25 5 0.26
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (23 bp):
CTCACAATTTCTCGAATGTAAAC
Found at i:9976841 original size:22 final size:23
Alignment explanation
Indices: 9976793--9976848 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
9976783 ACTTTATGTT
9976793 TATT-ACATAA-AATTAATATTA
1 TATTAACATAATAATTAATATTA
*
9976814 TATTAACATAATAATTATTATT-
1 TATTAACATAATAATTAATATTA
*
9976836 TCTTAA-ATAATAA
1 TATTAACATAATAA
9976849 GTAAATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 11 0.35
22 11 0.35
23 9 0.29
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTAACATAATAATTAATATTA
Found at i:9979451 original size:29 final size:31
Alignment explanation
Indices: 9979392--9979456 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
9979382 AAATTTTAAA
* * *
9979392 ATTATATATGAATTTTGATTTATTTTGTAAT
1 ATTATATATAAATTTTGATTTATTGTATAAT
9979423 ATTATATATAAATTTTGA-TT-TTGTATAAT
1 ATTATATATAAATTTTGATTTATTGTATAAT
*
9979452 TTTAT
1 ATTAT
9979457 GTGTGTATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.37
30 2 0.07
31 17 0.57
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (31 bp):
ATTATATATAAATTTTGATTTATTGTATAAT
Found at i:9979454 original size:16 final size:16
Alignment explanation
Indices: 9979433--9979475 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9979423 ATTATATATA
9979433 AATTTTGATTTTGTAT
1 AATTTTGATTTTGTAT
*
9979449 AATTTT-ATGTGTGTAT
1 AATTTTGAT-TTTGTAT
*
9979465 CATTTTGATTT
1 AATTTTGATTT
9979476 AATTCAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 2 0.09
16 18 0.82
17 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.14, T:0.60
Consensus pattern (16 bp):
AATTTTGATTTTGTAT
Found at i:9984844 original size:43 final size:42
Alignment explanation
Indices: 9984751--9984879 Score: 231
Period size: 42 Copynumber: 3.0 Consensus size: 42
9984741 CCGTGGATGA
9984751 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
1 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
9984793 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAAATCTCATTT
1 TAAGGATGATTTCATGGAATGAGTGTTTTTCC-AATCTCATTT
*
9984836 TAAGGATGATTTTGATGGAATGAGTGTTTTTCCAATCTCATTT
1 TAAGGATGA-TTTCATGGAATGAGTGTTTTTCCAATCTCATTT
9984879 T
1 T
9984880 TAGGCAAGTT
Statistics
Matches: 84, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
42 32 0.38
43 30 0.36
44 22 0.26
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (42 bp):
TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
Found at i:9993256 original size:42 final size:42
Alignment explanation
Indices: 9993193--9993296 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
9993183 CTTTGTTTTC
** *
9993193 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
9993236 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
9993277 TCGATGCCATAGCCCAACTA
1 TCGATGCCATAGCCCAACTA
9993297 CACGAATCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
41 2 0.04
42 51 0.94
43 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:9993453 original size:31 final size:31
Alignment explanation
Indices: 9993418--9993566 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
9993408 CTTGTCACTT
* * *
9993418 GTAGCCGAAACTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
9993449 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
9993480 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
9993511 GTAGCCGGAACTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
9993542 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
9993567 TGTCATTTGT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:9993646 original size:50 final size:51
Alignment explanation
Indices: 9993542--9993670 Score: 183
Period size: 50 Copynumber: 2.5 Consensus size: 51
9993532 CACTGATCAG
* *
9993542 GTAGCTGAAGCTACCACTTT-TCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCA-TTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
9993593 GTAGCCGAAGCTATCATTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCATTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
9993643 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCATTTATCACTTGT
9993671 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCATTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:9995116 original size:31 final size:31
Alignment explanation
Indices: 9995078--9995139 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
9995068 AGTTATGAAA
9995078 TAACTTATAATGTCTAGAAAAAGTATTAATT
1 TAACTTATAATGTCTAGAAAAAGTATTAATT
9995109 TAACTTATAATGTCTAGAAAAAGTATTAATT
1 TAACTTATAATGTCTAGAAAAAGTATTAATT
9995140 GAGAAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (31 bp):
TAACTTATAATGTCTAGAAAAAGTATTAATT
Found at i:9996282 original size:50 final size:51
Alignment explanation
Indices: 9996205--9996333 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
9996195 GACCATGGCA
9996205 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
9996256 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
9996306 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
9996334 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:9996347 original size:31 final size:31
Alignment explanation
Indices: 9996309--9996488 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
9996299 ACAAATGACA
*
9996309 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9996340 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
9996371 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
9996402 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
9996433 AGTGAAAAATGGTAGCTCCAGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9996464 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
9996489 AAGTGACAAG
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 2 0.01
31 133 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:9996499 original size:7 final size:7
Alignment explanation
Indices: 9996487--9996515 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
9996477 AGCTTCGGCT
9996487 ACAAGTG
1 ACAAGTG
9996494 ACAAGTG
1 ACAAGTG
9996501 ACAAGTG
1 ACAAGTG
9996508 ACAAGTG
1 ACAAGTG
9996515 A
1 A
9996516 TTTCCGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:9996669 original size:42 final size:43
Alignment explanation
Indices: 9996621--9996720 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 43
9996611 TTCGTGTAGT
*
9996621 TGGGCTATGGCATCGA-TATATGAATATGTGTAAGACCATAGC
1 TGGGCTATGGCATCGATTATATGAAGATGTGTAAGACCATAGC
* *
9996663 TGGGCTATGGCATC-ATTATGTGAAGATGTGTAAGACCATAGT
1 TGGGCTATGGCATCGATTATATGAAGATGTGTAAGACCATAGC
**
9996705 TGAACTATGGCATCGA
1 TGGGCTATGGCATCGA
9996721 GAAAACGAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
41 1 0.02
42 49 0.96
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
TGGGCTATGGCATCGATTATATGAAGATGTGTAAGACCATAGC
Found at i:10010152 original size:3 final size:3
Alignment explanation
Indices: 10010131--10010206 Score: 53
Period size: 3 Copynumber: 25.3 Consensus size: 3
10010121 GAGGCATGCT
* * * * * * *
10010131 CAG CAA CAG CAG CAT CAG CAG CAA CAA CAA CAG CAG CAT CAG CAG CAA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * *
10010179 CAA CAA CAG CAG CAG CAA CAG CAA CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG C
10010207 CACAGCAACA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.45, C:0.34, G:0.18, T:0.03
Consensus pattern (3 bp):
CAG
Found at i:10010163 original size:24 final size:24
Alignment explanation
Indices: 10010134--10010213 Score: 124
Period size: 24 Copynumber: 3.3 Consensus size: 24
10010124 GCATGCTCAG
10010134 CAACAGCAGCATCAGCAGCAACAA
1 CAACAGCAGCATCAGCAGCAACAA
10010158 CAACAGCAGCATCAGCAGCAACAA
1 CAACAGCAGCATCAGCAGCAACAA
* * *
10010182 CAACAGCAGCAGCAACAGCAACAG
1 CAACAGCAGCATCAGCAGCAACAA
*
10010206 CCACAGCA
1 CAACAGCA
10010214 ACAGCCACAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.45, C:0.35, G:0.17, T:0.03
Consensus pattern (24 bp):
CAACAGCAGCATCAGCAGCAACAA
Found at i:10010203 original size:18 final size:18
Alignment explanation
Indices: 10010131--10010240 Score: 93
Period size: 18 Copynumber: 6.3 Consensus size: 18
10010121 GAGGCATGCT
* *
10010131 CAGCAACAGCAGCATCAG
1 CAGCAACAGCAACAGCAG
*
10010149 CAGCAACAACAACAGCAG
1 CAGCAACAGCAACAGCAG
* * * *
10010167 CATCAGCAGCAACAACAA
1 CAGCAACAGCAACAGCAG
* *
10010185 CAGCAGCAGCAACAGCAA
1 CAGCAACAGCAACAGCAG
*
10010203 CAGCCACAGCAACAGC--
1 CAGCAACAGCAACAGCAG
10010219 CA-CAAC-GCCAACAGCAG
1 CAGCAACAG-CAACAGCAG
10010236 CAGCA
1 CAGCA
10010241 GCGAAGAGAA
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
14 1 0.01
15 10 0.13
16 2 0.03
17 2 0.03
18 60 0.80
ACGTcount: A:0.44, C:0.36, G:0.18, T:0.02
Consensus pattern (18 bp):
CAGCAACAGCAACAGCAG
Found at i:10010211 original size:6 final size:6
Alignment explanation
Indices: 10010131--10010218 Score: 86
Period size: 6 Copynumber: 14.7 Consensus size: 6
10010121 GAGGCATGCT
* * * * * * *
10010131 CAGCAA CAGCAG CATCAG CAGCAA CAACAA CAGCAG CATCAG CAGCAA
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA
* * *
10010179 CAACAA CAGCAG CAGCAA CAGCAA CAGCCA CAGCAA CAGC
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGC
10010219 CACAACGCCA
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.44, C:0.35, G:0.18, T:0.02
Consensus pattern (6 bp):
CAGCAA
Found at i:10010651 original size:28 final size:28
Alignment explanation
Indices: 10010618--10010680 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
10010608 AAAAAAAAAA
10010618 GTCATGTATTATTTCCTTTATTTGCTTT
1 GTCATGTATTATTTCCTTTATTTGCTTT
10010646 GTCATGTATTATTTCCTTTATTTGCTTT
1 GTCATGTATTATTTCCTTTATTTGCTTT
10010674 GTCATGT
1 GTCATGT
10010681 CTTTGTTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.14, C:0.14, G:0.13, T:0.59
Consensus pattern (28 bp):
GTCATGTATTATTTCCTTTATTTGCTTT
Found at i:10027775 original size:122 final size:122
Alignment explanation
Indices: 10027553--10027847 Score: 375
Period size: 122 Copynumber: 2.4 Consensus size: 122
10027543 TCATACTCAA
* * * *
10027553 TTTTTTCCCTTTATTTGCTGAATGATTATACCAAAAGATTCTATCATAAATTTTCAAAATTTTCA
1 TTTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCA-AAGTTTCCAAAATTTTCA
* * *
10027618 AATACTTCAAAACAAAATTTACACAGTTTATTTTAG-CCATTACGTACATTTTACCCC
65 AACACTTCAAAACAAAATTTACACAGTTTACTTTAGTCCATTACGTACATATTACCCC
* **
10027675 TTTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCACAGTTTACCAATTTTTTCA
1 TTTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCAAAGTTT-CCAAAATTTTCA
* * *
10027740 AACACTTCAAAACAAAATTTATACTA-TTTACTTTAGTCCTTTACTTACATATTACCCC
65 AACACTTCAAAACAAAATTTACAC-AGTTTACTTTAGTCCATTACGTACATATTACCCC
* * *
10027798 TTTTTT---TTGTATTTGTTGAATTATTGTACCAAAAAATTCTATCATAGTTT
1 TTTTTTCCCTT-TATTTGTTGAATGATTGTACCAAAAGATTCTATCAAAGTTT
10027848 TTCAAACACT
Statistics
Matches: 153, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
120 2 0.01
121 42 0.27
122 84 0.55
123 25 0.16
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (122 bp):
TTTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCAAAGTTTCCAAAATTTTCAA
ACACTTCAAAACAAAATTTACACAGTTTACTTTAGTCCATTACGTACATATTACCCC
Found at i:10028566 original size:19 final size:19
Alignment explanation
Indices: 10028542--10028584 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
10028532 GTTACGATGT
10028542 GGCCGTTACACTGCGTTGC
1 GGCCGTTACACTGCGTTGC
10028561 GGCCGTTACACTGCGTTGC
1 GGCCGTTACACTGCGTTGC
10028580 GGCCG
1 GGCCG
10028585 CAATTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.33, G:0.35, T:0.23
Consensus pattern (19 bp):
GGCCGTTACACTGCGTTGC
Found at i:10039311 original size:16 final size:17
Alignment explanation
Indices: 10039289--10039333 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
10039279 CTTTTGTAGG
10039289 ATTAATATATTAAAATT
1 ATTAATATATTAAAATT
*
10039306 -TTAATA-ATTAAATTT
1 ATTAATATATTAAAATT
10039321 ATTAATATTATTA
1 ATTAATA-TATTA
10039334 TATTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.33
16 12 0.50
18 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAATATATTAAAATT
Found at i:10040562 original size:25 final size:25
Alignment explanation
Indices: 10040534--10040581 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
10040524 AAATTTTCAA
*
10040534 TACA-AATTATTAACTTATCAAAATG
1 TACATAATTATTAACATA-CAAAATG
*
10040559 TACATAATTTTTAACATACAAAA
1 TACATAATTATTAACATACAAAA
10040582 AAAAATTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (25 bp):
TACATAATTATTAACATACAAAATG
Found at i:10041549 original size:3 final size:3
Alignment explanation
Indices: 10041541--10041599 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
10041531 GTTATGACTT
10041541 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10041589 TTA TTA TTA TT
1 TTA TTA TTA TT
10041600 CTCTCTTTTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10043293 original size:20 final size:21
Alignment explanation
Indices: 10043268--10043307 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
10043258 ACCTCGAACA
10043268 TTGAACTCC-AAA-CTTGAATC
1 TTGAAC-CCTAAACCTTGAATC
10043288 TTGAACCCTAAACCTTGAAT
1 TTGAACCCTAAACCTTGAAT
10043308 TTGGGGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 9 0.50
21 7 0.39
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (21 bp):
TTGAACCCTAAACCTTGAATC
Found at i:10045063 original size:22 final size:23
Alignment explanation
Indices: 10045020--10045063 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10045010 AAAAAATATT
*
10045020 AAAAAAGAAACAAAAATTAAAAA
1 AAAAAAGAAACAAAAATCAAAAA
10045043 AAAAAAGAAGA-AAAAA-CAAAA
1 AAAAAAGAA-ACAAAAATCAAAA
10045064 TATTTCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.84, C:0.05, G:0.07, T:0.05
Consensus pattern (23 bp):
AAAAAAGAAACAAAAATCAAAAA
Found at i:10049068 original size:7 final size:7
Alignment explanation
Indices: 10049052--10049086 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
10049042 TGCCGTTTAT
10049052 AAAA-AA
1 AAAAGAA
10049058 AAAAGAA
1 AAAAGAA
10049065 AAAAGAA
1 AAAAGAA
*
10049072 AAAAGGA
1 AAAAGAA
10049079 AAAAGAA
1 AAAAGAA
10049086 A
1 A
10049087 TTCAATGCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 4 0.15
7 22 0.85
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:10058469 original size:93 final size:93
Alignment explanation
Indices: 10058357--10058527 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
10058347 GCCCCTAAGT
*
10058357 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10058421 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
10058450 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10058515 CGAGTTCGGATGC
66 CGAGTTCGGATGC
10058528 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:10058523 original size:46 final size:47
Alignment explanation
Indices: 10058352--10058524 Score: 221
Period size: 46 Copynumber: 3.7 Consensus size: 47
10058342 AACCCGCCCC
* * *
10058352 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* *
10058398 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* *
10058446 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
10058491 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
10058525 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.54
47 31 0.28
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:10058984 original size:30 final size:30
Alignment explanation
Indices: 10058950--10059009 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
10058940 ATTTAATACG
10058950 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
10058980 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
10059010 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:10061940 original size:64 final size:64
Alignment explanation
Indices: 10061831--10061960 Score: 197
Period size: 64 Copynumber: 2.0 Consensus size: 64
10061821 ATAAACATCT
* * *
10061831 TGATCGGTAGTAATCTTGCATATGTTGCAGACATACTGCATCTCTTTGTGAGCATCCTGTTATA
1 TGATCGGTAGTAATCCTGCATATGTTGCAGACATACTGCAGCTCTTTATGAGCATCCTGTTATA
* * * *
10061895 TGATTGGTAGTGATCCTGCATGTGTTGCGGACATACTGCAGCTCTTTATGAGCATCCTGTTATA
1 TGATCGGTAGTAATCCTGCATATGTTGCAGACATACTGCAGCTCTTTATGAGCATCCTGTTATA
10061959 TG
1 TG
10061961 GCTCTCTGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (64 bp):
TGATCGGTAGTAATCCTGCATATGTTGCAGACATACTGCAGCTCTTTATGAGCATCCTGTTATA
Found at i:10064529 original size:35 final size:35
Alignment explanation
Indices: 10064462--10064552 Score: 148
Period size: 35 Copynumber: 2.6 Consensus size: 35
10064452 AAAATGTGAA
*
10064462 ACGTAGGTATGGT-ATTTCCATACCGAGTTATGAT
1 ACGTAGGTATGGTAATTTCCATACCGAGCTATGAT
*
10064496 ACGTAGGTATGGTAATTTCCATACTGAGCTATGAT
1 ACGTAGGTATGGTAATTTCCATACCGAGCTATGAT
*
10064531 ACGTAGGTATGGTATTTTCCAT
1 ACGTAGGTATGGTAATTTCCAT
10064553 GAGGAAAACC
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 13 0.25
35 40 0.75
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (35 bp):
ACGTAGGTATGGTAATTTCCATACCGAGCTATGAT
Found at i:10070261 original size:6 final size:6
Alignment explanation
Indices: 10070250--10070291 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
10070240 GGGAGACGAC
10070250 GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG
1 GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG GGGGAG
10070292 CTTTGGCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.00, G:0.83, T:0.00
Consensus pattern (6 bp):
GGGGAG
Found at i:10071880 original size:15 final size:15
Alignment explanation
Indices: 10071860--10071895 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10071850 TTAAAAATTT
*
10071860 TCAAATCTAATTGAG
1 TCAAATCGAATTGAG
10071875 TCAAATCGAATTGAG
1 TCAAATCGAATTGAG
*
10071890 TGAAAT
1 TCAAAT
10071896 TATTCAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (15 bp):
TCAAATCGAATTGAG
Found at i:10079015 original size:40 final size:40
Alignment explanation
Indices: 10078960--10079041 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
10078950 TGTTTAGAGA
10078960 TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
1 TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
*
10079000 TAGCAAAATAAATCATGGTAAAGCACTCACTTCAAAAAAC
1 TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
10079040 TA
1 TA
10079042 AGTTTCCCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.20
Consensus pattern (40 bp):
TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
Found at i:10080348 original size:20 final size:18
Alignment explanation
Indices: 10080319--10080441 Score: 58
Period size: 18 Copynumber: 6.7 Consensus size: 18
10080309 AAGGGTTAAT
*
10080319 TTTAAT-TTTTGAATATTA
1 TTTAATATTTTTAAT-TTA
*
10080337 TTTAATATTTTT--TTCA
1 TTTAATATTTTTAATTTA
* * *
10080353 TTTATGTAATTTTAATTAA
1 TTTA-ATATTTTTAATTTA
*
10080372 TTTTAAT-TTTTGAATATTA
1 -TTTAATATTTTTAAT-TTA
*
10080391 TTTAATATTTTTTATTTA
1 TTTAATATTTTTAATTTA
*
10080409 TGTAAT-TTTAATTAATTTGTA
1 TTTAATATTT--TTAA-TT-TA
*
10080430 TTTTATATTTTT
1 TTTAATATTTTT
10080442 TTTATAACAA
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
16 6 0.08
17 10 0.13
18 26 0.33
19 19 0.24
20 8 0.10
21 6 0.08
22 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTAATATTTTTAATTTA
Found at i:10080433 original size:52 final size:54
Alignment explanation
Indices: 10080314--10080426 Score: 212
Period size: 54 Copynumber: 2.1 Consensus size: 54
10080304 ATGGTAAGGG
10080314 TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
1 TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
10080368 TTAATTTTAATTTTTGAATATTATTTAATA-TTTTTT-ATTTATGTAATTTTAA
1 TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
10080420 TTAATTT
1 TTAATTT
10080427 GTATTTTATA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 23 0.39
53 6 0.10
54 30 0.51
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.64
Consensus pattern (54 bp):
TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
Found at i:10085766 original size:14 final size:14
Alignment explanation
Indices: 10085747--10085776 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10085737 AGCCTGAATC
10085747 TCCCAATTATAGAA
1 TCCCAATTATAGAA
10085761 TCCCAATTATAGAA
1 TCCCAATTATAGAA
10085775 TC
1 TC
10085777 ATTCCACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (14 bp):
TCCCAATTATAGAA
Found at i:10086181 original size:24 final size:24
Alignment explanation
Indices: 10086149--10086198 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
10086139 ATGGGTAAAT
*
10086149 TACCATTTTACCCTTAATATTTCA
1 TACCATTTTACCCCTAATATTTCA
10086173 TACCATTTTACCCCTAATATTTCA
1 TACCATTTTACCCCTAATATTTCA
10086197 TA
1 TA
10086199 GTTTTACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (24 bp):
TACCATTTTACCCCTAATATTTCA
Found at i:10088759 original size:8 final size:8
Alignment explanation
Indices: 10088746--10088793 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
10088736 AATAAATGTG
10088746 GTTAGTCT
1 GTTAGTCT
10088754 GTTAGTCT
1 GTTAGTCT
*
10088762 GTTAGTGT
1 GTTAGTCT
*
10088770 GTTAGCTACA
1 GTTAG-T-CT
10088780 GTTAGTCT
1 GTTAGTCT
*
10088788 GCTAGT
1 GTTAGT
10088794 TACTGAAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
8 26 0.79
9 2 0.06
10 5 0.15
ACGTcount: A:0.17, C:0.12, G:0.27, T:0.44
Consensus pattern (8 bp):
GTTAGTCT
Found at i:10090766 original size:40 final size:39
Alignment explanation
Indices: 10090722--10090847 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 39
10090712 GGGACTCAAC
*
10090722 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * *
10090762 CCGGATTTAGTAACTCGCACGTATGCCGTT-GGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCC-TTCGGATCTTAGT
*
10090802 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
10090842 CCGGAT
1 CCGGAT
10090848 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
39 2 0.03
40 60 0.83
41 10 0.14
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:10096530 original size:8 final size:8
Alignment explanation
Indices: 10096517--10096556 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
10096507 AATAAAGGTG
10096517 GTTAGTCT
1 GTTAGTCT
10096525 GTTAGTCT
1 GTTAGTCT
*
10096533 GTTAGCTACA
1 GTTAG-T-CT
10096543 GTTAGTCT
1 GTTAGTCT
10096551 GTTAGT
1 GTTAGT
10096557 TAATATCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 20 0.71
9 2 0.07
10 6 0.21
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.45
Consensus pattern (8 bp):
GTTAGTCT
Found at i:10097028 original size:34 final size:33
Alignment explanation
Indices: 10096990--10097083 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 33
10096980 AAACACTAAT
* *
10096990 CCCTAATTTTATTTATTTATTTAAAACCCTTAAA
1 CCCTAA-TTTATTTATTTATTTAAAAACCATAAA
*
10097024 CCCTAATTTACTTAATTTATTTAAAAACCATAAA
1 CCCTAATTTA-TTTATTTATTTAAAAACCATAAA
*
10097058 CCCTAATTTAATTATTT-TTTATAAAA
1 CCCTAATTTATTTATTTATTTA-AAAA
10097084 TAATACTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
32 4 0.08
33 13 0.25
34 36 0.68
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (33 bp):
CCCTAATTTATTTATTTATTTAAAAACCATAAA
Found at i:10097196 original size:33 final size:35
Alignment explanation
Indices: 10097120--10097197 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
10097110 AAATCCACTA
*
10097120 AAACCTTAAATCCTAACTTATTTTAACAAAAACAT
1 AAACCTTAAATCCTAAATTATTTTAACAAAAACAT
* * *
10097155 AAACCTTAAA-CCTAAATTATTTTAGCAAAACCCT
1 AAACCTTAAATCCTAAATTATTTTAACAAAAACAT
10097189 AAA-CTTAAA
1 AAACCTTAAA
10097198 AACCCTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 6 0.15
34 23 0.59
35 10 0.26
ACGTcount: A:0.49, C:0.21, G:0.01, T:0.29
Consensus pattern (35 bp):
AAACCTTAAATCCTAAATTATTTTAACAAAAACAT
Found at i:10098920 original size:71 final size:71
Alignment explanation
Indices: 10098834--10098997 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
10098824 CGATTTGTCT
10098834 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10098899 CTTTCA
66 CTTTCA
10098905 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10098970 CTTTCA
66 CTTTCA
10098976 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
10098998 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:10099035 original size:71 final size:70
Alignment explanation
Indices: 10098834--10099031 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
10098824 CGATTTGTCT
* * * *
10098834 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10098899 CTTTCA
65 CTTTCA
* * * *
10098905 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10098970 CTTTCA
65 CTTTCA
* *
10098976 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
10099032 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:10104405 original size:71 final size:71
Alignment explanation
Indices: 10104319--10104482 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
10104309 CGATTTGTCT
10104319 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10104384 CTTTCA
66 CTTTCA
10104390 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10104455 CTTTCA
66 CTTTCA
10104461 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
10104483 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:10104520 original size:71 final size:70
Alignment explanation
Indices: 10104319--10104516 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
10104309 CGATTTGTCT
* * * *
10104319 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10104384 CTTTCA
65 CTTTCA
* * * *
10104390 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
10104455 CTTTCA
65 CTTTCA
* *
10104461 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
10104517 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:10107107 original size:17 final size:17
Alignment explanation
Indices: 10107082--10107117 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10107072 TGTGAACGGG
*
10107082 TAAAGATTGCATCCTAC
1 TAAAAATTGCATCCTAC
*
10107099 TAAAAATTGTATCCTAC
1 TAAAAATTGCATCCTAC
10107116 TA
1 TA
10107118 TCACACGCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (17 bp):
TAAAAATTGCATCCTAC
Found at i:10107860 original size:32 final size:32
Alignment explanation
Indices: 10107811--10107890 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 32
10107801 CATTTAATAA
10107811 GTTTGCATATTTAATTATGACTTGCATTATAT
1 GTTTGCATATTTAATTATGACTTGCATTATAT
* * *
10107843 GTTTGCATCTTTGATTATGACTTGCATTATGT
1 GTTTGCATATTTAATTATGACTTGCATTATAT
10107875 GTTCTGC--ATTTAATTA
1 GTT-TGCATATTTAATTA
10107891 AGTCATGCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.17
32 32 0.76
33 3 0.07
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (32 bp):
GTTTGCATATTTAATTATGACTTGCATTATAT
Found at i:10108038 original size:49 final size:48
Alignment explanation
Indices: 10107932--10108038 Score: 110
Period size: 49 Copynumber: 2.2 Consensus size: 48
10107922 AATGTATGTG
* *
10107932 TTTTAATTATGTCATGTATTAAGTAGCTTCTATGTCAATTAAGTTGCA
1 TTTTAATTATGTCATGCATTAAGTAACTTCTATGTCAATTAAGTTGCA
* * * *
10107980 TATTAAATTATGTCATGCATTATGTAACTCATTTAT-TC-ATTTAGTTTGCA
1 T-TTTAATTATGTCATGCATTAAGTAACT--TCTATGTCAATTAAG-TTGCA
10108030 TTTTAATTA
1 TTTTAATTA
10108039 AACCATGCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
48 1 0.02
49 35 0.73
50 8 0.17
51 4 0.08
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (48 bp):
TTTTAATTATGTCATGCATTAAGTAACTTCTATGTCAATTAAGTTGCA
Found at i:10109310 original size:5 final size:5
Alignment explanation
Indices: 10109300--10109349 Score: 82
Period size: 5 Copynumber: 9.6 Consensus size: 5
10109290 AAATAGAAAG
10109300 ATTTT ATTTT ATTTT ATTATTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT A-T-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
10109350 AATTTAGGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 37 0.86
6 2 0.05
7 4 0.09
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:10112647 original size:39 final size:39
Alignment explanation
Indices: 10112592--10112737 Score: 238
Period size: 39 Copynumber: 3.7 Consensus size: 39
10112582 TTCCAACCCA
* *
10112592 AATGCCTTCGGAACTTAGCCCGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * *
10112631 GATGCCTTCGAGACTTAGCCCAGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
10112670 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
10112709 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
10112738 ATCTCACACA
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 98 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:10113235 original size:2 final size:2
Alignment explanation
Indices: 10113228--10113252 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10113218 ATTTAATACG
10113228 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
10113253 TTAAGGCACA
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:10119450 original size:39 final size:39
Alignment explanation
Indices: 10119395--10119572 Score: 243
Period size: 39 Copynumber: 4.6 Consensus size: 39
10119385 TTCCAACCCA
* *
10119395 AATGCCTTCGGAACTTAGCCCGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
10119434 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
10119473 AATGTCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * *
10119512 AATGCCTTCGAGACTTAGCCCAGATATAAATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATAT-AATATCAGCACG
* * *
10119550 AAGGCCTGCGGGTCTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
10119573 TTAAAATCCT
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 18 0.15
39 101 0.81
40 5 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:10122989 original size:35 final size:35
Alignment explanation
Indices: 10122943--10123012 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
10122933 AACTTTTCTG
10122943 CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
1 CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
* *
10122978 CAAGAACATCCAAGTGCACGAGATGGAAAACTTAA
1 CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
10123013 GTTTCAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.14
Consensus pattern (35 bp):
CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
Found at i:10124444 original size:5 final size:5
Alignment explanation
Indices: 10124430--10124462 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10124420 AAATAGAAAG
*
10124430 ATTTT ATTTT GTTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
10124463 AATTTAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:10133355 original size:24 final size:24
Alignment explanation
Indices: 10133316--10133362 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
10133306 AAAAGAAGAA
10133316 ATTCAAGAATAAAAATAAATAAAG
1 ATTCAAGAATAAAAATAAATAAAG
10133340 ATTCAA-AATAATAAATAAATAAA
1 ATTCAAGAATAA-AAATAAATAAA
10133363 ATGAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
ATTCAAGAATAAAAATAAATAAAG
Found at i:10140961 original size:25 final size:26
Alignment explanation
Indices: 10140927--10140984 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
10140917 CTTATTTCAT
* *
10140927 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATCAAAAATATTTAAAAACATAA
10140952 TAAATCAAAAATATTTAAAAACATAA
1 TAAATCAAAAATATTTAAAAACATAA
10140978 -AAA-CAAA
1 TAAATCAAA
10140985 TATTAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 4 0.13
25 14 0.47
26 12 0.40
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAATCAAAAATATTTAAAAACATAA
Found at i:10140988 original size:22 final size:22
Alignment explanation
Indices: 10140960--10141002 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10140950 AATAAATCAA
*
10140960 AAATATTTAAAA-ACATAAAAAC
1 AAATA-TTAAAACAAATAAAAAC
10140982 AAATATTAAAACAAATAAAAA
1 AAATATTAAAACAAATAAAAA
10141003 TGATACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATATTAAAACAAATAAAAAC
Found at i:10142286 original size:29 final size:30
Alignment explanation
Indices: 10142221--10142300 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 30
10142211 ATGAATTATG
* * *
10142221 ATTTAATATGTAATTGTATAAATAAACTTTG-
1 ATTTAATA--TAATTTTATACATAAAATTTGA
* *
10142252 ATTTTATATAATTTTATACATAAAATTTTA
1 ATTTAATATAATTTTATACATAAAATTTGA
*
10142282 ATTTAATTTAATTTT-TACA
1 ATTTAATATAATTTTATACA
10142301 AATCATTAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 21 0.51
30 13 0.32
31 7 0.17
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
ATTTAATATAATTTTATACATAAAATTTGA
Found at i:10142471 original size:27 final size:30
Alignment explanation
Indices: 10142405--10142489 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 30
10142395 ATATATTTAA
* *
10142405 ACCACAATTAGAATTTCATATATATAAATAT
1 ACCA-AATTAAAATTTCATATATACAAATAT
10142436 ACCAAATTAAAATTT-ATATATACAAATTACAT
1 ACCAAATTAAAATTTCATATATACAAA-T--AT
**
10142468 ATTAAATTAAAA-TTCATATATA
1 ACCAAATTAAAATTTCATATATA
10142490 ATTTTAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 10 0.22
30 11 0.24
31 6 0.13
32 19 0.41
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.36
Consensus pattern (30 bp):
ACCAAATTAAAATTTCATATATACAAATAT
Found at i:10147196 original size:16 final size:15
Alignment explanation
Indices: 10147175--10147210 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
10147165 ATATGTTTTC
10147175 TTTTTTATTCTTTTAT
1 TTTTTTATTC-TTTAT
*
10147191 TTTTTTGTTCTTTAT
1 TTTTTTATTCTTTAT
10147206 TTTTT
1 TTTTT
10147211 GTCTTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.08, C:0.06, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTTATTCTTTAT
Found at i:10147361 original size:19 final size:20
Alignment explanation
Indices: 10147330--10147369 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
10147320 ATAATTCACA
*
10147330 AAATAATATTTAAAATATAT
1 AAATAATATTTAAAAAATAT
10147350 AAATAA-ATTTAAAAAATAT
1 AAATAATATTTAAAAAATAT
10147369 A
1 A
10147370 TTCAAGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATAATATTTAAAAAATAT
Found at i:10147973 original size:2 final size:2
Alignment explanation
Indices: 10147966--10147997 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10147956 ATCTCAAGTG
10147966 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10147998 CACAATAATA
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):
TA
Found at i:10148110 original size:56 final size:55
Alignment explanation
Indices: 10148014--10148119 Score: 140
Period size: 56 Copynumber: 1.9 Consensus size: 55
10148004 AATAGTTACG
* * *
10148014 TAAGAATCAAGTTACTAAAAGATAATATTCCATAACAATATCCTATAACATCTCAT
1 TAAGAATCAAATTACTAAAAAATAATATCCCATAACAATATCCTA-AACATCTCAT
* * * *
10148070 TAAGAATCAAATTATTAAAAAATAATATCCCATTATAATATTCTAAACAT
1 TAAGAATCAAATTACTAAAAAATAATATCCCATAACAATATCCTAAACAT
10148120 TAACCTACAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
55 5 0.12
56 38 0.88
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (55 bp):
TAAGAATCAAATTACTAAAAAATAATATCCCATAACAATATCCTAAACATCTCAT
Found at i:10149163 original size:15 final size:15
Alignment explanation
Indices: 10149145--10149176 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10149135 TATTAGGGTT
10149145 AGATTTATAGTAAAA
1 AGATTTATAGTAAAA
10149160 AGATTTATAGTAAAA
1 AGATTTATAGTAAAA
10149175 AG
1 AG
10149177 TGAAAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
AGATTTATAGTAAAA
Done.