Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008160.1 Hibiscus syriacus cultivar Beakdansim tig00110729_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1466564
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:742642 original size:46 final size:45
Alignment explanation
Indices: 742550--742643 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
742540 AAAAATGCAG
* * * *
742550 TGTTTCAAGGTGGAAAGAATGTTTCAAGGCCTTAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
* *
742595 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
742641 TGT
1 TGT
742644 CAAAAATTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 11 0.26
46 31 0.74
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
Found at i:747789 original size:35 final size:35
Alignment explanation
Indices: 747743--747823 Score: 162
Period size: 35 Copynumber: 2.3 Consensus size: 35
747733 GAGATTTGAA
747743 CTGTAGATGATATATATATATTTTGATTGGTTTTG
1 CTGTAGATGATATATATATATTTTGATTGGTTTTG
747778 CTGTAGATGATATATATATATTTTGATTGGTTTTG
1 CTGTAGATGATATATATATATTTTGATTGGTTTTG
747813 CTGTAGATGAT
1 CTGTAGATGAT
747824 GATAGTAGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (35 bp):
CTGTAGATGATATATATATATTTTGATTGGTTTTG
Found at i:748086 original size:3 final size:3
Alignment explanation
Indices: 748078--748128 Score: 77
Period size: 3 Copynumber: 16.7 Consensus size: 3
748068 ATGTAAATTA
748078 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT ATAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AAT AAT AAT
748124 AAT AA
1 AAT AA
748129 AAAAGACCCG
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 6 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:748442 original size:98 final size:100
Alignment explanation
Indices: 748159--748773 Score: 847
Period size: 98 Copynumber: 6.2 Consensus size: 100
748149 GGTGTCTACA
* * *
748159 ATAATAATAAAGGTAACGCTTTTTTGAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTT
1 ATAATAATAAAGGT-AGGCCTTCTTGAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTT
748224 CTATTTTAAAATTATATGATAAATCAAGTTTACATTT
65 -TATTTTAAAATTATATGATAAATCAAGTTTACATTT
* *
748261 ATAATAATAAAGTTA-GCCTTCTTGAAATGGTAAACCGTATAAATTACATTGTGTCAACCTTTTT
1 ATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTTT
*
748325 -TATTTAAAATT-TATGATAAATCAACTTTGA-ATTT
66 AT-TTTAAAATTATATGATAAATCAAGTTT-ACATTT
*
748359 ATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAA-CATA-AAATTACATTATGTCAACCTTTTT
1 ATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTTT
*
748422 ATTTTAAAATTATAAT-ATAAATCAAGTTTACACTT
66 ATTTTAAAATTAT-ATGATAAATCAAGTTTACATTT
* * *
748457 ATAATAATAAAGGTAGCGCCTTCTTAAAATGGTAAGCCGTATAAATTACATTATGTTAACCTTTT
1 ATAATAATAAAGGTAG-GCCTTCTTGAAATGGTAAACCGTATAAATTACATTATGTCAACC-TTT
748522 TTATTTTAAAATTATATGATAAATCAAGTTTGA-ATTT
64 TTATTTTAAAATTATATGATAAATCAAGTTT-ACATTT
* *
748559 ATAATAATAAAGGTAGG-C--CTTGAAATGGTAAACCATATAAATTACAATATGTCAACCTTTTT
1 ATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAACCGTATAAATTACATTATGTCAACC-TTTT
748621 TATTTTAAAATTATATGATAAATCAAGTTTACATTT
65 TATTTTAAAATTATATGATAAATCAAGTTTACATTT
* * * *****
748657 ATAATAATAAAGGCAGCGCCTTCTTGAAATGATAAACCGTATAAATTACATTATGTAAAAAAAAT
1 ATAATAATAAAGGTAG-GCCTTCTTGAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTT
* *
748722 TATTTTAAAATTATAAGATAAATCGAGTTTACATTT
65 TATTTTAAAATTATATGATAAATCAAGTTTACATTT
*
748758 ATAATAATATAGGTAG
1 ATAATAATAAAGGTAG
748774 CGACACTGTT
Statistics
Matches: 461, Mismatches: 34, Indels: 37
0.87 0.06 0.07
Matches are distributed among these distances:
97 34 0.07
98 159 0.34
99 50 0.11
100 50 0.11
101 71 0.15
102 96 0.21
103 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (100 bp):
ATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTTT
ATTTTAAAATTATATGATAAATCAAGTTTACATTT
Found at i:748568 original size:200 final size:202
Alignment explanation
Indices: 748159--748773 Score: 894
Period size: 200 Copynumber: 3.1 Consensus size: 202
748149 GGTGTCTACA
* * * *
748159 ATAATAATAAAGGTAACGCTTTTTTGAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTT
1 ATAATAATAAAGGT-AGGCCTTCTTGAAATGGTAAACCATATAAATTACATTATGTCAACCTTTT
*
748224 CTATTTTAAAATTATATGATAAATCAAGTTTACATTTATAATAATAAAGTTA--GCCTTCTTGAA
65 -TATTTTAAAATTATATGATAAATCAAGTTTACATTTATAATAATAAAGGTAGCGCCTTCTTGAA
* * *
748287 ATGGTAAACCGTATAAATTACATTGTGTCAACCTTTTTTA-TTTAAAATT-TATGATAAATCAAC
129 ATGGTAAACCGTATAAATTACATTATGTTAACCTTTTTTATTTTAAAATTATATGATAAATCAAG
748350 TTTGAATTT
194 TTTGAATTT
748359 ATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAA-CATA-AAATTACATTATGTCAACCTTTTT
1 ATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAACCATATAAATTACATTATGTCAACCTTTTT
* *
748422 ATTTTAAAATTATAAT-ATAAATCAAGTTTACACTTATAATAATAAAGGTAGCGCCTTCTTAAAA
66 ATTTTAAAATTAT-ATGATAAATCAAGTTTACATTTATAATAATAAAGGTAGCGCCTTCTTGAAA
*
748486 TGGTAAGCCGTATAAATTACATTATGTTAACCTTTTTTATTTTAAAATTATATGATAAATCAAGT
130 TGGTAAACCGTATAAATTACATTATGTTAACCTTTTTTATTTTAAAATTATATGATAAATCAAGT
748551 TTGAATTT
195 TTGAATTT
*
748559 ATAATAATAAAGGTAGG-C--CTTGAAATGGTAAACCATATAAATTACAATATGTCAACCTTTTT
1 ATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAACCATATAAATTACATTATGTCAACC-TTTT
*
748621 TATTTTAAAATTATATGATAAATCAAGTTTACATTTATAATAATAAAGGCAGCGCCTTCTTGAAA
65 TATTTTAAAATTATATGATAAATCAAGTTTACATTTATAATAATAAAGGTAGCGCCTTCTTGAAA
* ****** * *
748686 TGATAAACCGTATAAATTACATTATG-TAAAAAAAATTATTTTAAAATTATAAGATAAATCGAGT
130 TGGTAAACCGTATAAATTACATTATGTTAACCTTTTTTATTTTAAAATTATATGATAAATCAAGT
748750 TT-ACATTT
195 TTGA-ATTT
*
748758 ATAATAATATAGGTAG
1 ATAATAATAAAGGTAG
748774 CGACACTGTT
Statistics
Matches: 379, Mismatches: 26, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
196 46 0.12
197 39 0.10
198 55 0.15
199 99 0.26
200 140 0.37
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (202 bp):
ATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAACCATATAAATTACATTATGTCAACCTTTTT
ATTTTAAAATTATATGATAAATCAAGTTTACATTTATAATAATAAAGGTAGCGCCTTCTTGAAAT
GGTAAACCGTATAAATTACATTATGTTAACCTTTTTTATTTTAAAATTATATGATAAATCAAGTT
TGAATTT
Found at i:748764 original size:298 final size:297
Alignment explanation
Indices: 748159--748772 Score: 901
Period size: 298 Copynumber: 2.1 Consensus size: 297
748149 GGTGTCTACA
* * *
748159 ATAATAATAAAGGTAACGCTTTTTTGAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTT
1 ATAATAATAAAGGTAACGCCTTCTTAAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTT
*
748224 CTATTTTAAAATTATATGATAAATCAAGTTTACATTTATAATAATAAAGTTAGCCTTCTTGAAAT
66 CTATTTTAAAATTATATGATAAATCAAGTTTACATTTATAATAATAAAGGTAGCC-TCTTGAAAT
* * *
748289 GGTAAACCGTATAAATTACATTGTGTCAACCTTTTTTATTTAAAATTTATGATAAATCAACTTTG
130 GGTAAACCATATAAATTACAATATGTCAACCTTTTTTATTTAAAATTTATGATAAATCAACTTTG
* * * ****
748354 AATTTATAATAATAAAGGTAGGCCTTCTTGAAATGGTAAACATAAAATTACATTATGTCAACCTT
195 AATTTATAATAATAAAGGCAGGCCTTCTTGAAATGATAAACATAAAATTACATTATGTAAAAAAA
* *
748419 TTTATTTTAAAATTATAATATAAATCAAGTTTACACTT
260 ATTATTTTAAAATTATAAGATAAATCAAGTTTACACTT
* * *
748457 ATAATAATAAAGGTAGCGCCTTCTTAAAATGGTAAGCCGTATAAATTACATTATGTTAACCTTTT
1 ATAATAATAAAGGTAACGCCTTCTTAAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTT
* *
748522 TTATTTTAAAATTATATGATAAATCAAGTTTGA-ATTTATAATAATAAAGGTAGGC-CTTGAAAT
66 CTATTTTAAAATTATATGATAAATCAAGTTT-ACATTTATAATAATAAAGGTAGCCTCTTGAAAT
*
748585 GGTAAACCATATAAATTACAATATGTCAACCTTTTTTATTTTAAAATTATATGATAAATCAAGTT
130 GGTAAACCATATAAATTACAATATGTCAACCTTTTTTA-TTTAAAATT-TATGATAAATCAACTT
*
748650 T-ACATTTATAATAATAAAGGCAGCGCCTTCTTGAAATGATAAACCGTATAAATTACATTATGTA
193 TGA-ATTTATAATAATAAAGGCAG-GCCTTCTTGAAATGATAAA-CATA-AAATTACATTATGTA
* *
748714 AAAAAAATTATTTTAAAATTATAAGATAAATCGAGTTTACATTT
254 AAAAAAATTATTTTAAAATTATAAGATAAATCAAGTTTACACTT
*
748758 ATAATAATATAGGTA
1 ATAATAATAAAGGTA
748773 GCGACACTGT
Statistics
Matches: 283, Mismatches: 26, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
296 43 0.15
297 10 0.04
298 144 0.51
299 19 0.07
300 3 0.01
301 64 0.23
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (297 bp):
ATAATAATAAAGGTAACGCCTTCTTAAAATGGTAAACCGTATAAATTACATTATGTCAACCTTTT
CTATTTTAAAATTATATGATAAATCAAGTTTACATTTATAATAATAAAGGTAGCCTCTTGAAATG
GTAAACCATATAAATTACAATATGTCAACCTTTTTTATTTAAAATTTATGATAAATCAACTTTGA
ATTTATAATAATAAAGGCAGGCCTTCTTGAAATGATAAACATAAAATTACATTATGTAAAAAAAA
TTATTTTAAAATTATAAGATAAATCAAGTTTACACTT
Found at i:750103 original size:129 final size:130
Alignment explanation
Indices: 749900--750146 Score: 406
Period size: 129 Copynumber: 1.9 Consensus size: 130
749890 AATTTTCTTC
* **
749900 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTACTAACACATGTCAGAT
** *
749965 CCTGGTTAAATGATTAA-TTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCACATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCACATATAAA
* * *
750029 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTACTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTACTAACACATGTCAGAT
750094 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
750147 TATATAAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
129 74 0.69
130 34 0.31
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTACTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCACATATAAA
Found at i:750591 original size:35 final size:35
Alignment explanation
Indices: 750541--750616 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
750531 AATTGAATTT
* *
750541 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
750576 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
750611 AATTGA
1 AATTGA
750617 GGATTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:755300 original size:3 final size:3
Alignment explanation
Indices: 755292--755344 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
755282 TATATTTATT
* * *
755292 TAA TAA TAA TAA TAA TAA TAT TAA TATA TTA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
755338 TTA TAA T
1 TAA TAA T
755345 TATGAAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 39 0.95
4 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:755533 original size:46 final size:47
Alignment explanation
Indices: 755466--755852 Score: 629
Period size: 47 Copynumber: 8.3 Consensus size: 47
755456 GATGGAAATG
* *
755466 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCTGAAGG-TT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
755512 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
755558 TTTGAAAAC-TCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
* *
755604 TTTGAAAACATCATGCACTGAAAGGCTTACAGATGACCCGAAGGCTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
* *
755651 TTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGCTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
* * *
755698 TTTCAAAACATCATGCACTGAAGGGCTTATAGATGACCTGAAGG-TT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
755744 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
* *
755791 TTTGAAAACATCATACACTGAAGGGTTTACAGATGACCCCGAAGGTTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCCGAAGG-TTT
755840 TTTGAAAACATCA
1 TTTGAAAACATCA
755853 AAAATCTCCC
Statistics
Matches: 321, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
45 34 0.11
46 107 0.33
47 156 0.49
48 8 0.02
49 16 0.05
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (47 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
Found at i:755793 original size:93 final size:94
Alignment explanation
Indices: 755466--755852 Score: 629
Period size: 93 Copynumber: 4.1 Consensus size: 94
755456 GATGGAAATG
* *
755466 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCTGAAGG-TTTTTGAAAACATCATGCAC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCATGCAC
755530 TGAAGGGCTTACAGATGACCCGAAGG-TT
66 TGAAGGGCTTACAGATGACCCGAAGGTTT
755558 TTTGAAAAC-TCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCATGCAC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCATGCAC
* *
755622 TGAAAGGCTTACAGATGACCCGAAGGCTT
66 TGAAGGGCTTACAGATGACCCGAAGGTTT
* * *
755651 TTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGCTTTTTCAAAACATCATGCAC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCATGCAC
* *
755716 TGAAGGGCTTATAGATGACCTGAAGG-TT
66 TGAAGGGCTTACAGATGACCCGAAGGTTT
*
755744 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCATACAC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCATGCAC
*
755809 TGAAGGGTTTACAGATGACCCCGAAGGTTTT
66 TGAAGGGCTTACAGATGA-CCCGAAGG-TTT
755840 TTTGAAAACATCA
1 TTTGAAAACATCA
755853 AAAATCTCCC
Statistics
Matches: 273, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
91 32 0.12
92 54 0.20
93 90 0.33
94 82 0.30
96 15 0.05
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (94 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCATGCAC
TGAAGGGCTTACAGATGACCCGAAGGTTT
Found at i:755974 original size:172 final size:173
Alignment explanation
Indices: 755687--756127 Score: 670
Period size: 177 Copynumber: 2.5 Consensus size: 173
755677 TTACAAATGA
* * * **
755687 CCCGAAGGCTTTTTCAAAACATCATGCACTGAAGGGCTTATAGATGACCTGAAGGTTTTTGAAAA
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCTGAAGG-TTTTGAAAA
*
755752 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCATACACTGAAGGG-
65 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTTTGAAAACATCATACACTGAAGGGC
*
755816 TT-TACAGATGACCCCGAAGGTTTTTTTGAAAACATCAAAAATCT
130 TTCTACAGATGA-CCCGAAGGTTTTTTTGAAAACATCAAAAAGCT
* * * *
755860 CCCGAAGGCTTTTTGAAGACATCCTGCACTGCAGGGCTTACGGATGACCCGGAGGTTTTGAAAGC
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCTGAAGGTTTTGAAAAC
** *
755925 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTTTGAAAACATCATGTACTGTAGGGCT
66 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTTTGAAAACATCATACACTGAAGGGCT
*
755990 TAGCCCTACAGATGACCCGAAGGTTTTTTTTAAAACATCAAAAAGCT
131 T----CTACAGATGACCCGAAGGTTTTTTTGAAAACATCAAAAAGCT
756037 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCTGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCTGAAGGTTTTGAAAAC
*
756102 ATCATGCACTGAAGGGCTTTCAGATG
66 ATCATGCACTGAAGGGCTTACAGATG
756128 TGGGAAATAG
Statistics
Matches: 242, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
172 68 0.28
173 49 0.20
177 116 0.48
178 9 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (173 bp):
CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCTGAAGGTTTTGAAAAC
ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTTTGAAAACATCATACACTGAAGGGCT
TCTACAGATGACCCGAAGGTTTTTTTGAAAACATCAAAAAGCT
Found at i:755988 original size:47 final size:47
Alignment explanation
Indices: 755860--755991 Score: 178
Period size: 45 Copynumber: 2.9 Consensus size: 47
755850 TCAAAAATCT
* * * *
755860 CCCGAAGGCTTTTTGAAGACATCCTGCACTGCAGGGCTTACGGATGA
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
755907 CCCGGAGG--TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
755952 CCCGAAGGCTTTTTGAAAACATCATGTACTGTAGGGCTTA
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTA
755992 GCCCTACAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 39 0.53
47 34 0.47
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (47 bp):
CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:756818 original size:22 final size:24
Alignment explanation
Indices: 756791--756870 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 24
756781 AATAAAGCTT
*
756791 TCATCTTTGAAAAGAGA-A-TCTA
1 TCATCTTTGAAAAGAGATAGGCTA
*
756813 TTATCTTT--AAAGAGATAGGCTA
1 TCATCTTTGAAAAGAGATAGGCTA
* *
756835 TCATCTTTG--AAGAAATAGTCTA
1 TCATCTTTGAAAAGAGATAGGCTA
*
756857 TCATATTTGAAAAG
1 TCATCTTTGAAAAG
756871 TGTGGATGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 7 0.15
21 1 0.02
22 36 0.77
24 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (24 bp):
TCATCTTTGAAAAGAGATAGGCTA
Found at i:760967 original size:72 final size:73
Alignment explanation
Indices: 760796--760996 Score: 253
Period size: 72 Copynumber: 2.7 Consensus size: 73
760786 TAATTGAAAC
* * ** *
760796 TTATCCATAAAGCCGGGGCGATTAACCAATTTCTCTAGAGGGACAGTTTTATTGCATATAATAGT
1 TTATCCATAAAGCCGGGGCTATTAACCAATTGCTCTAGAGGGACA-ACTTA-AGCATATAATAG-
760861 ATAACTGAATA
63 ATAACTGAATA
* * *
760872 TTATCCATAAAGCCGGGGTTATTAACCAATTGCTCTAGAGGGACAACTCAAGCATAATAA-A-CT
1 TTATCCATAAAGCCGGGGCTATTAACCAATTGCTCTAGAGGGACAACTTAAGCAT-ATAATAGAT
*
760935 AGCTGAATA
65 AACTGAATA
* *
760944 TTATCCATAAAGCCGGGGCTATTAACCAATTGCTTTAGGGGGACAACTTAAGC
1 TTATCCATAAAGCCGGGGCTATTAACCAATTGCTCTAGAGGGACAACTTAAGC
760997 TTTATTGTGT
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
72 58 0.52
74 5 0.05
75 6 0.05
76 42 0.38
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (73 bp):
TTATCCATAAAGCCGGGGCTATTAACCAATTGCTCTAGAGGGACAACTTAAGCATATAATAGATA
ACTGAATA
Found at i:762401 original size:16 final size:16
Alignment explanation
Indices: 762380--762412 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
762370 TGACCTGATC
762380 TTGGGTCAACTGATTA
1 TTGGGTCAACTGATTA
762396 TTGGGTCAACTGATTA
1 TTGGGTCAACTGATTA
762412 T
1 T
762413 ACCATACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (16 bp):
TTGGGTCAACTGATTA
Found at i:765049 original size:19 final size:20
Alignment explanation
Indices: 765025--765064 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
765015 ATTCATTCAG
*
765025 AAAAAA-TAAAAAATCAAAA
1 AAAAAATTAAAAAAACAAAA
765044 AAAAAATTAAAAAAACAAAA
1 AAAAAATTAAAAAAACAAAA
765064 A
1 A
765065 GTTAGAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (20 bp):
AAAAAATTAAAAAAACAAAA
Found at i:766115 original size:2 final size:2
Alignment explanation
Indices: 766108--766146 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
766098 AGAATATTAA
766108 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
766147 GAGAGTTTTG
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:766406 original size:23 final size:23
Alignment explanation
Indices: 766358--766443 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 23
766348 TTGTGTATAT
*
766358 ATATAACTAAATAATAATAAATA
1 ATATAAATAAATAATAATAAATA
766381 ATATAAATGAAATAATAATTTAAAT-
1 ATATAAAT-AAATAATAA--TAAATA
* *
766406 ATATTAA-AAGTAATAATAAAATA
1 ATATAAATAAATAATAAT-AAATA
*
766429 TTGA-AAATAAATAAT
1 AT-ATAAATAAATAAT
766444 GATTAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
21 1 0.02
22 4 0.08
23 18 0.36
24 16 0.32
25 6 0.12
26 5 0.10
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (23 bp):
ATATAAATAAATAATAATAAATA
Found at i:766413 original size:26 final size:24
Alignment explanation
Indices: 766366--766424 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
766356 ATATATAACT
*
766366 AAATAATAATAAATAATATAAATG
1 AAATAATAATAAATAATATAAAAG
766390 AAATAATAATTTAAAT-ATATTAAAAG
1 AAATAATAA--TAAATAATA-TAAAAG
*
766416 TAATAATAA
1 AAATAATAA
766425 AATATTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.30
25 3 0.10
26 18 0.60
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (24 bp):
AAATAATAATAAATAATATAAAAG
Found at i:766435 original size:21 final size:21
Alignment explanation
Indices: 766401--766443 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
766391 AATAATAATT
766401 TAAATATATTAAAAGT-AATAA
1 TAAATATATTAAAA-TAAATAA
766422 TAAA-ATATTGAAAATAAATAA
1 TAAATATATT-AAAATAAATAA
766443 T
1 T
766444 GATTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAATATATTAAAATAAATAA
Found at i:766437 original size:17 final size:15
Alignment explanation
Indices: 766417--766467 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
766407 TATTAAAAGT
766417 AATAATAAAATATTGAA
1 AATAA-AAAATATT-AA
*
766434 AATAAATAATGATTAA
1 AATAAAAAAT-ATTAA
766450 AATAAAAGAA-ATTAA
1 AATAAAA-AATATTAA
766465 AAT
1 AAT
766468 TATAAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 8 0.27
16 12 0.40
17 10 0.33
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (15 bp):
AATAAAAAATATTAA
Found at i:774784 original size:27 final size:27
Alignment explanation
Indices: 774726--774785 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
774716 AATGCAGGCT
* * *
774726 GGAATCCTCTATTGGATAGTATATACC
1 GGAACCCTCTATTAGATAGTATAGACC
* * *
774753 AGAACCCTCTATTAGATGGTATCGACC
1 GGAACCCTCTATTAGATAGTATAGACC
774780 GGAACC
1 GGAACC
774786 ACAGTCACCC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (27 bp):
GGAACCCTCTATTAGATAGTATAGACC
Found at i:777910 original size:19 final size:19
Alignment explanation
Indices: 777854--777916 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
777844 CTATTTAAAC
**
777854 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
777874 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
777894 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
777913 TAAA
1 TAAA
777917 CTAAAATATC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:781082 original size:40 final size:40
Alignment explanation
Indices: 781038--781119 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
781028 ACCGTAGTGC
781038 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
781078 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
781118 TA
1 TA
781120 TAAACCTGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:787065 original size:16 final size:15
Alignment explanation
Indices: 787029--787071 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
787019 AATAAAATAA
787029 ATAA-AATAAATA-T
1 ATAATAATAAATATT
787042 ATAATAATAAATATT
1 ATAATAATAAATATT
*
787057 AATAGTAATAAATAT
1 -ATAATAATAAATAT
787072 AAAAGGGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 8 0.31
15 1 0.04
16 13 0.50
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
ATAATAATAAATATT
Found at i:788380 original size:42 final size:42
Alignment explanation
Indices: 788307--788389 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
788297 TTTACAAGTA
* *
788307 TAACATTATAGGTTTAGAGTACTCTAATACTAAATACTTTAC
1 TAACATTATAGGTTTAGACTACTCTAATACTAAAAACTTTAC
* * * *
788349 TAACATTATATGTTTGGACTACTTTATTACTAAAAACTTTA
1 TAACATTATAGGTTTAGACTACTCTAATACTAAAAACTTTA
788390 ATAATACACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.41
Consensus pattern (42 bp):
TAACATTATAGGTTTAGACTACTCTAATACTAAAAACTTTAC
Found at i:788789 original size:11 final size:11
Alignment explanation
Indices: 788773--788895 Score: 69
Period size: 11 Copynumber: 11.2 Consensus size: 11
788763 AACTCAAATT
788773 TATTTTATTAA
1 TATTTTATTAA
788784 TATTTTATTAA
1 TATTTTATTAA
** *
788795 TAACTCA--AA
1 TATTTTATTAA
788804 TTTATTTTATTAA
1 --TATTTTATTAA
788817 TATTTTATTAA
1 TATTTTATTAA
** *
788828 TAACTCA--AA
1 TATTTTATTAA
788837 TTTATTTTATTAA
1 --TATTTTATTAA
788850 TATTTTATTAA
1 TATTTTATTAA
** *
788861 TAACTCA--AA
1 TATTTTATTAA
788870 TTTATTTTATTAA
1 --TATTTTATTAA
788883 TATTTTATTAA
1 TATTTTATTAA
788894 TA
1 TA
788896 ACTCAAATTT
Statistics
Matches: 82, Mismatches: 18, Indels: 24
0.66 0.15 0.19
Matches are distributed among these distances:
9 6 0.07
11 70 0.85
13 6 0.07
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:788793 original size:33 final size:33
Alignment explanation
Indices: 788756--788937 Score: 334
Period size: 33 Copynumber: 5.6 Consensus size: 33
788746 ACATGGCATC
788756 TATTAATAACTCAAATTTATTTTATTAATATTT
1 TATTAATAACTCAAATTTATTTTATTAATATTT
788789 TATTAATAACTCAAATTTATTTTATTAATATTT
1 TATTAATAACTCAAATTTATTTTATTAATATTT
788822 TATTAATAACTCAAATTTATTTTATTAATATTT
1 TATTAATAACTCAAATTTATTTTATTAATATTT
788855 TATTAATAACTCAAATTTATTTTATTAATATTT
1 TATTAATAACTCAAATTTATTTTATTAATATTT
788888 TATTAATAACTCAAATTTATTTTATTAATA---
1 TATTAATAACTCAAATTTATTTTATTAATATTT
788918 TATTAATAACTCAAAGTTTA
1 TATTAATAACTCAAA-TTTA
788938 AATTACTTTT
Statistics
Matches: 148, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
30 15 0.10
31 4 0.03
33 129 0.87
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.52
Consensus pattern (33 bp):
TATTAATAACTCAAATTTATTTTATTAATATTT
Found at i:794529 original size:41 final size:44
Alignment explanation
Indices: 794413--794529 Score: 98
Period size: 45 Copynumber: 2.7 Consensus size: 44
794403 ATAAGGGATC
* * * *
794413 TGTTCCGCTGTCACTCAGGGAATATCAGATCTGAGTATGTTCAT
1 TGTTCCACTGTCACTCAGGGAATATCAAATCAGAGTATGTACAT
* * * * * *
794457 TCATTCCACTGTTC-TTCAAGGAAAATTAAATCAGTGTA-G-AC-T
1 T-GTTCCACTG-TCACTCAGGGAATATCAAATCAGAGTATGTACAT
794499 TGTTCCACTGTCACTCAGGGAATATCAAATC
1 TGTTCCACTGTCACTCAGGGAATATCAAATC
794530 TTGAATATGA
Statistics
Matches: 55, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
40 2 0.04
41 22 0.40
42 2 0.04
43 1 0.02
44 2 0.04
45 24 0.44
46 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TGTTCCACTGTCACTCAGGGAATATCAAATCAGAGTATGTACAT
Found at i:794675 original size:66 final size:66
Alignment explanation
Indices: 794560--794915 Score: 579
Period size: 66 Copynumber: 5.4 Consensus size: 66
794550 CCGCTTTTGT
* * * * * ** *
794560 TGAAGGGAATATTAGATC-TGGGGGATTTGATCCATTGAATTAAAACAGACTTGTTCCACTTACT
1 TGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACT
794624 C
66 C
794625 TGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACT
1 TGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACT
794690 C
66 C
** *
794691 TGAAGAAAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACT
1 TGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACT
794756 C
66 C
794757 TGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACT
1 TGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACT
794822 C
66 C
* *
794823 TGAAGGGAATATCAAATCTTAGAGAAGTTGATCCATTGAATCGAAGCAGATTTGTTCCACTTACT
1 TGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACT
794888 C
66 C
*
794889 TGAAGGGAATATCAAATCTTGTAGAAG
1 TGAAGGGAATATCAAATCTTGGAGAAG
794916 AGAAACCTGT
Statistics
Matches: 272, Mismatches: 18, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
65 16 0.06
66 256 0.94
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (66 bp):
TGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTACT
C
Found at i:796121 original size:15 final size:15
Alignment explanation
Indices: 796094--796160 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 15
796084 CCTTATTTTA
796094 TTTTTTC-TTTTC-T
1 TTTTTTCATTTTCAT
796107 TTTTTCTCATTTTC-T
1 TTTTT-TCATTTTCAT
796122 TTTCTTTCATTTTTCAT
1 TTT-TTTCA-TTTTCAT
*
796139 TTTTTGTCTTTTTCAT
1 TTTTT-TCATTTTCAT
796155 TTTTTT
1 TTTTTT
796161 TTCAGGCGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
13 5 0.11
14 2 0.04
15 13 0.28
16 21 0.45
17 6 0.13
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (15 bp):
TTTTTTCATTTTCAT
Found at i:803020 original size:11 final size:11
Alignment explanation
Indices: 803006--803035 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
802996 TGCAATGTAG
803006 ATGCAATATGA
1 ATGCAATATGA
*
803017 ATGCAAAATGA
1 ATGCAATATGA
803028 ATGCAATA
1 ATGCAATA
803036 CAAGGTGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (11 bp):
ATGCAATATGA
Found at i:812454 original size:10 final size:10
Alignment explanation
Indices: 812439--812470 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
812429 AACTCAAGGT
812439 TCCAAATTGA
1 TCCAAATTGA
812449 TCCAAATTGA
1 TCCAAATTGA
812459 TCCAAATTGA
1 TCCAAATTGA
812469 TC
1 TC
812471 TCCAAATCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (10 bp):
TCCAAATTGA
Found at i:813150 original size:15 final size:15
Alignment explanation
Indices: 813130--813186 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
813120 TTCCGGAAAA
*
813130 TGAATTACTGTAATT
1 TGAATTACTGGAATT
**
813145 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
813160 TGAATTACTGGAATT
1 TGAATTACTGGAATT
813175 TGAATTA-TGGAA
1 TGAATTACTGGAA
813187 AATGAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 5 0.14
15 32 0.86
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.37
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:813195 original size:29 final size:30
Alignment explanation
Indices: 813124--813195 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
813114 TTGGTTTTCC
*
813124 GGAAAATGAATTACTGTAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATTACT
813154 GGAAAATGAATTACTGGAATTTGAATTA-T
1 GGAAAATGAATTACTGGAATTTGAATTACT
813183 GGAAAATGAATTA
1 GGAAAATGAATTA
813196 TATTTCTGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 14 0.34
30 27 0.66
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.33
Consensus pattern (30 bp):
GGAAAATGAATTACTGGAATTTGAATTACT
Found at i:813433 original size:10 final size:10
Alignment explanation
Indices: 813418--813447 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
813408 TTTTAGTGAA
813418 ATAAAATATT
1 ATAAAATATT
813428 ATAAAATATT
1 ATAAAATATT
*
813438 ATAAATTATT
1 ATAAAATATT
813448 TATTAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAAAATATT
Found at i:813520 original size:23 final size:23
Alignment explanation
Indices: 813471--813533 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
813461 GTGTTATATT
* **
813471 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
*
813494 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTAATTAAA
813517 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
813534 AAATAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 22 0.65
24 1 0.03
25 11 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:813527 original size:12 final size:12
Alignment explanation
Indices: 813493--813533 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
813483 TATTAATTAG
813493 TATA-TTTTAAA
1 TATATTTTTAAA
813504 TATATTTATTAAA
1 TATATTT-TTAAA
813517 -ATATTATTTAAA
1 TATATT-TTTAAA
813529 TATAT
1 TATAT
813534 AAATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.15
12 12 0.46
13 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATATTTTTAAA
Found at i:813561 original size:19 final size:19
Alignment explanation
Indices: 813509--813584 Score: 59
Period size: 19 Copynumber: 4.0 Consensus size: 19
813499 TTAAATATAT
813509 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTA-TTAA
* *
813528 ATATATAAATAATATTATTCA
1 TTAT-TAAAT-ATATTATTAA
* **
813549 TTATTAAATATATAATTTT
1 TTATTAAATATATTATTAA
813568 TTATT--ATATATTATTAA
1 TTATTAAATATATTATTAA
813585 AATAAAAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
17 9 0.20
19 15 0.33
20 9 0.20
21 6 0.13
22 6 0.13
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTAAATATATTATTAA
Found at i:813652 original size:33 final size:34
Alignment explanation
Indices: 813626--813691 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
813616 TATAATTGAT
813626 TATT-TTATATAATATTAA-AAATATATAATATTA
1 TATTATTATA-AATATTAATAAATATATAATATTA
813659 TATTATTATAAATATTAATAAATA-ACTAATATT
1 TATTATTATAAATATTAATAAATATA-TAATATT
813692 TTGATGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (34 bp):
TATTATTATAAATATTAATAAATATATAATATTA
Found at i:813954 original size:42 final size:42
Alignment explanation
Indices: 813868--813979 Score: 190
Period size: 42 Copynumber: 2.7 Consensus size: 42
813858 ATTACATTCT
* *
813868 GGAAAACCAATTACGTGAAACAAACA-TGGAAAACATTTTAC
1 GGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTAC
*
813909 GGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTTC
1 GGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTAC
813951 GGAAAACGAATTACGTGAAACAAACACGG
1 GGAAAACGAATTACGTGAAACAAACACGG
813980 TAATTCGGGG
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
41 25 0.37
42 42 0.63
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (42 bp):
GGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTAC
Found at i:814829 original size:261 final size:262
Alignment explanation
Indices: 814294--814950 Score: 1001
Period size: 261 Copynumber: 2.5 Consensus size: 262
814284 ATAGTTTACC
* *
814294 TAATCATAATACTTTGTGATCTTAACCTATTTGATTGTCGTGGGGAACGACAAGGCTCCATCGGC
1 TAATCATAATACTTTGTGCTCTTAACCTATTTGATTGTCGTGGGGAACGCCAAGGCTCCATCGGC
*
814359 TAAAACTTTCATAATATTTTAGGTGCAATCGCTTTTATTTTTTAAAATGATAATATTCCAGATTG
66 TAAAACTTTCATAATATTTTAGGCGCAATCGCTTTTATTTTTTAAAATGATAATATTCCAGATTG
* * * * * *
814424 CAACGTGCTTTCTTTGGGGGTCATGAGACTTTGGGCGCAATCTATTCTATTAATACACAAGTTGA
131 CAACGTACTTTCTTTAGGGGTCACGACACTCTGGGCGCAATCTATTATATTAATACACAAGTTGA
* *
814489 CATTACAAGTTGCAACCTATTTCCATTAGAACCGTGATATTCTGGGTGCAACAATTTCTATTTTG
196 CATTACAAGTGGCAACCTATTTCCATTAGAACCGTGATATTCTAGGTGCAACAATTTCTATTTTG
*
814554 CC
261 CA
* * *
814556 TAATCCTAATACTTTGTGCTCTTAACCTATTTGATTGCCGTGGGGAACGCCAAGGCTCCATCGAC
1 TAATCATAATACTTTGTGCTCTTAACCTATTTGATTGTCGTGGGGAACGCCAAGGCTCCATCGGC
* * * * *
814621 TAAAACTTTCATTATACTATAGGCGCAATCGTTTTTATTTTTTAAAATGATAA-ATTCCATATTG
66 TAAAACTTTCATAATATTTTAGGCGCAATCGCTTTTATTTTTTAAAATGATAATATTCCAGATTG
*
814685 CAATGTACTTTCTTTAGGGGTCACGACACTCTGGGCGCAATCTATTATATTAATACACAAGTTGA
131 CAACGTACTTTCTTTAGGGGTCACGACACTCTGGGCGCAATCTATTATATTAATACACAAGTTGA
* * * ** *
814750 CATTACAAGTGGCAACTTATTTCCTTTAGAACCGTGATATTCTAGGTGCGACCGTTTCTATTTTT
196 CATTACAAGTGGCAACCTATTTCCATTAGAACCGTGATATTCTAGGTGCAACAATTTCTATTTTG
*
814815 TA
261 CA
* * *
814817 TAATCGTAATACTTTGTTCTCTTAACCTATTTGATTGTCGTGGGGAACGCCAAGGCTCCATTGGC
1 TAATCATAATACTTTGTGCTCTTAACCTATTTGATTGTCGTGGGGAACGCCAAGGCTCCATCGGC
* * *
814882 TAAAACTTTCGTAATATTTTAGGCACAATCGCTTTTATTTTTTAAAATGATAATATTTCAGATTG
66 TAAAACTTTCATAATATTTTAGGCGCAATCGCTTTTATTTTTTAAAATGATAATATTCCAGATTG
814947 CAAC
131 CAAC
814951 ATAATTCTAG
Statistics
Matches: 352, Mismatches: 42, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
261 232 0.66
262 120 0.34
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (262 bp):
TAATCATAATACTTTGTGCTCTTAACCTATTTGATTGTCGTGGGGAACGCCAAGGCTCCATCGGC
TAAAACTTTCATAATATTTTAGGCGCAATCGCTTTTATTTTTTAAAATGATAATATTCCAGATTG
CAACGTACTTTCTTTAGGGGTCACGACACTCTGGGCGCAATCTATTATATTAATACACAAGTTGA
CATTACAAGTGGCAACCTATTTCCATTAGAACCGTGATATTCTAGGTGCAACAATTTCTATTTTG
CA
Found at i:820636 original size:14 final size:16
Alignment explanation
Indices: 820617--820648 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
820607 GTCATTTGTT
820617 CGAACATA-AAT-GAA
1 CGAACATATAATCGAA
820631 CGAACATATAATCGAA
1 CGAACATATAATCGAA
820647 CG
1 CG
820649 TTCACAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.16, T:0.16
Consensus pattern (16 bp):
CGAACATATAATCGAA
Found at i:822747 original size:182 final size:179
Alignment explanation
Indices: 822443--822795 Score: 598
Period size: 182 Copynumber: 2.0 Consensus size: 179
822433 ATATCAGAAA
* *
822443 TTTAGGATCGGATAATAAAATATATGATATGAATATAAACCTTAATTCAATAAAAAAATTAAATT
1 TTTAGGATCGGATAATAAAATATATGATATGAATATAAACCTTAATTCAAAAAAAAAATAAAATT
*
822508 AAATTCTAATATTTTATAACTTTAAATAATATATTTATCAAAATATATTTAAATAATTTTAAACT
66 AAATTATAATATTTTATAACTTTAAATAATATATTTATCAAAATATATTTAAATAATTTTAAACT
* *
822573 AAATATTTAATATTTCTTTTATAGACATAAAAAATTAATAAATCGGAAG
131 AAATATTTAATATTTATTTTATAGACATAAAAAATAAATAAATCGGAAG
* * *
822622 TTTAGGATCGGATAATAGAATATATGATATGAATATAAACTTTAATTTGATAAAAAAAAATAAAA
1 TTTAGGATCGGATAATAAAATATATGATATGAATATAAACCTTAA-TTCA-AAAAAAAAAT-AAA
*
822687 ATTTAATTATAATATTTTATAACTTTAAATAATATATTTATCAAAATATATTTAAATAATTTTAA
63 ATTAAATTATAATATTTTATAACTTTAAATAATATATTTATCAAAATATATTTAAATAATTTTAA
822752 ACTAAATATTTAATATTTATTTTATAGACATAAAAAATAAATAA
128 ACTAAATATTTAATATTTATTTTATAGACATAAAAAATAAATAA
822796 TTTAAAGTTT
Statistics
Matches: 162, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
179 43 0.27
180 3 0.02
181 9 0.06
182 107 0.66
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (179 bp):
TTTAGGATCGGATAATAAAATATATGATATGAATATAAACCTTAATTCAAAAAAAAAATAAAATT
AAATTATAATATTTTATAACTTTAAATAATATATTTATCAAAATATATTTAAATAATTTTAAACT
AAATATTTAATATTTATTTTATAGACATAAAAAATAAATAAATCGGAAG
Found at i:828592 original size:20 final size:20
Alignment explanation
Indices: 828567--828609 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
828557 TCTATTAGCT
828567 CATTTAGAACCATGTAGATG
1 CATTTAGAACCATGTAGATG
* * *
828587 CATTTAGAAGCATTTAGTTG
1 CATTTAGAACCATGTAGATG
828607 CAT
1 CAT
828610 GTTGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (20 bp):
CATTTAGAACCATGTAGATG
Found at i:836330 original size:19 final size:19
Alignment explanation
Indices: 836306--836342 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
836296 GTTTGTATTT
*
836306 TCTTTTCACTTTTACTTTA
1 TCTTTTCACTTTAACTTTA
*
836325 TCTTTTTACTTTAACTTT
1 TCTTTTCACTTTAACTTT
836343 CTTTCATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (19 bp):
TCTTTTCACTTTAACTTTA
Found at i:847338 original size:2 final size:2
Alignment explanation
Indices: 847331--847372 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
847321 TCAATCTTGT
847331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
847373 GTAGTTTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:849429 original size:28 final size:28
Alignment explanation
Indices: 849390--849458 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
849380 GAGCCCCAAC
*
849390 TTTTTATATTTATAA-TAAGGTC-CCTAAT
1 TTTTTATATTTATAATTAAGATCTCC--AT
849418 TTTTTATATTTATAATTAAGATCTCCAT
1 TTTTTATATTTATAATTAAGATCTCCAT
849446 TTTTTATATTTAT
1 TTTTTATATTTAT
849459 TATTTGAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
28 30 0.79
29 6 0.16
30 2 0.05
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (28 bp):
TTTTTATATTTATAATTAAGATCTCCAT
Found at i:849476 original size:29 final size:28
Alignment explanation
Indices: 849390--849479 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
849380 GAGCCCCAAC
* *
849390 TTTTTATATTTATAA-TAAGGTCCCTAAT
1 TTTTTATATTTATAATTAAGAT-CTTAAT
**
849418 TTTTTATATTTATAATTAAGATCTCCAT
1 TTTTTATATTTATAATTAAGATCTTAAT
* * *
849446 TTTTTATATTTATTATTTGAGTTCTTAAT
1 TTTTTATATTTA-TAATTAAGATCTTAAT
849475 TTTTT
1 TTTTT
849480 TTAATTTCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 30 0.59
29 21 0.41
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.59
Consensus pattern (28 bp):
TTTTTATATTTATAATTAAGATCTTAAT
Found at i:849728 original size:2 final size:2
Alignment explanation
Indices: 849721--849749 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
849711 GGGTTCAAAT
849721 TA TA 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 TA TA T
849750 TCTCTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:856346 original size:14 final size:14
Alignment explanation
Indices: 856324--856361 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
856314 CTGGGCATCT
*
856324 GAGGTCATCCGACC
1 GAGGCCATCCGACC
856338 GAGGCCATCCGACC
1 GAGGCCATCCGACC
856352 GAGGCCATCC
1 GAGGCCATCC
856362 CAGAGCATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.21, C:0.39, G:0.29, T:0.11
Consensus pattern (14 bp):
GAGGCCATCCGACC
Found at i:856349 original size:10 final size:10
Alignment explanation
Indices: 856350--856399 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
856340 GGCCATCCGA
856350 CCGAGGCCAT
1 CCGAGGCCAT
*
856360 CCCAGAG-CAT
1 CCGAG-GCCAT
856370 CCGAGGCCAT
1 CCGAGGCCAT
856380 CCGAGAG-CAT
1 CCGAG-GCCAT
856390 CCGAGGCCAT
1 CCGAGGCCAT
856400 TCGAACGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.24, C:0.38, G:0.28, T:0.10
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:856375 original size:20 final size:20
Alignment explanation
Indices: 856350--856399 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
856340 GGCCATCCGA
856350 CCGAGGCCATCCCAGAGCAT
1 CCGAGGCCATCCCAGAGCAT
*
856370 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCCAGAGCAT
856390 CCGAGGCCAT
1 CCGAGGCCAT
856400 TCGAACGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.38, G:0.28, T:0.10
Consensus pattern (20 bp):
CCGAGGCCATCCCAGAGCAT
Found at i:856452 original size:33 final size:33
Alignment explanation
Indices: 856381--856452 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
856371 CGAGGCCATC
* ** *
856381 CGAGAGCATCCGAGGCCATTCGAACGAATTATG
1 CGAGGGCATCCGAGGCCAACCGAACGAACTATG
* * *
856414 TGAGGGCATCCGAGGGCAACCGAACGAGCTATG
1 CGAGGGCATCCGAGGCCAACCGAACGAACTATG
856447 CGAGGG
1 CGAGGG
856453 AAGCCGAGCG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.24, G:0.35, T:0.14
Consensus pattern (33 bp):
CGAGGGCATCCGAGGCCAACCGAACGAACTATG
Found at i:860559 original size:34 final size:34
Alignment explanation
Indices: 860509--860574 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
860499 GTTCTTCTTA
* * *
860509 TTATTACTTATTTTTTTTATTATGAATATATTTG
1 TTATTACTAATATTTTTTATTATGAAAATATTTG
* *
860543 TTATTACTAATATTTTTTTTTTTGAAAATATT
1 TTATTACTAATATTTTTTATTATGAAAATATT
860575 GATATTTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.64
Consensus pattern (34 bp):
TTATTACTAATATTTTTTATTATGAAAATATTTG
Found at i:861607 original size:20 final size:21
Alignment explanation
Indices: 861554--861607 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
861544 ACCCAGACAT
*
861554 GGTACCGATACCACAACTAGG
1 GGTACCGATACCACAACAAGG
* *
861575 GAAGTATCGATACC-CTACAAGG
1 G--GTACCGATACCACAACAAGG
861597 GGTACCGATAC
1 GGTACCGATAC
861608 TACTCCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 9 0.33
21 1 0.04
22 7 0.26
23 10 0.37
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (21 bp):
GGTACCGATACCACAACAAGG
Found at i:864313 original size:6 final size:6
Alignment explanation
Indices: 864302--864390 Score: 178
Period size: 6 Copynumber: 14.8 Consensus size: 6
864292 TCTTATTGTT
864302 CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA
1 CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA
864350 CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCT
1 CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCTA CTTCT
864391 CTTTACTCTA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 83 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.51
Consensus pattern (6 bp):
CTTCTA
Found at i:868029 original size:15 final size:15
Alignment explanation
Indices: 868009--868046 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
867999 TACATGGAGT
868009 GATGAAGAAGATTTC
1 GATGAAGAAGATTTC
868024 GATGAAGAAGATTTC
1 GATGAAGAAGATTTC
868039 GATGAAGA
1 GATGAAGA
868047 GGAACAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (15 bp):
GATGAAGAAGATTTC
Found at i:869446 original size:37 final size:36
Alignment explanation
Indices: 869371--869446 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
869361 TTTTTATATT
*
869371 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
869407 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
869444 TTT
1 TTT
869447 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:869626 original size:20 final size:20
Alignment explanation
Indices: 869590--869627 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
869580 ATCCTATTCC
**
869590 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
869610 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
869628 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:872742 original size:23 final size:22
Alignment explanation
Indices: 872700--872781 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 22
872690 ATAGGGCAGA
* *
872700 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATTCCCCCTTGAAG
872722 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC-TTGAAG
*
872745 GGGAACCGATTCCCCCCT--AG
1 GGGAACCGATTCCCCCTTGAAG
* *
872765 GGGAATCGATACCCCCT
1 GGGAACCGATTCCCCCT
872782 AGGGTTCTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.30
22 15 0.28
23 22 0.42
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTTGAAG
Found at i:880626 original size:56 final size:56
Alignment explanation
Indices: 880564--880676 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
880554 ATATGAAAAG
*
880564 ATTGTTTGATTTTGTGAAGTATATTTCTCAATTATATCTGATTAAGAGTTAAGGTT
1 ATTGTTTGATTTTGTGAAGTATATGTCTCAATTATATCTGATTAAGAGTTAAGGTT
880620 ATTGTTTGATTTTGTGAAGTATATGTCTCAATTATATCTGATTAAGAGTTAAGGTT
1 ATTGTTTGATTTTGTGAAGTATATGTCTCAATTATATCTGATTAAGAGTTAAGGTT
880676 A
1 A
880677 CCTCAAAGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.47
Consensus pattern (56 bp):
ATTGTTTGATTTTGTGAAGTATATGTCTCAATTATATCTGATTAAGAGTTAAGGTT
Found at i:889498 original size:20 final size:21
Alignment explanation
Indices: 889452--889512 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
889442 TTCCCCTGTG
889452 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
889475 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
889495 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
889513 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:896719 original size:28 final size:26
Alignment explanation
Indices: 896682--896735 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
896672 AATTAGGGCT
*
896682 TTTTCAAAAATAAAATATTTTAAAATTA
1 TTTTAAAAAAT-AAA-ATTTTAAAATTA
896710 TTTTAAAAAATAAAATTTTAAAATTA
1 TTTTAAAAAATAAAATTTTAAAATTA
896736 AAAGATTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.48
27 3 0.12
28 10 0.40
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTTAAAAAATAAAATTTTAAAATTA
Found at i:902726 original size:46 final size:47
Alignment explanation
Indices: 902659--902752 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 47
902649 CCTTCTGTAA
*
902659 ATATAATTTTTAGTACCTAATTTACATGCAATAAG-ATTTAATTTTT
1 ATATAATTTTTAGTACCTAATTAACATGCAATAAGAATTTAATTTTT
**
902705 ATATAATTTTTAGTACCTAATTAATGTGCAATAAGATATTTAATTTTT
1 ATATAATTTTTAGTACCTAATTAACATGCAATAAGA-ATTTAATTTTT
902753 TTAACAATGC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 32 0.74
48 11 0.26
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (47 bp):
ATATAATTTTTAGTACCTAATTAACATGCAATAAGAATTTAATTTTT
Found at i:902815 original size:29 final size:28
Alignment explanation
Indices: 902744--902818 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
902734 AATAAGATAT
* * *
902744 TTAATTTTTTTAACAATGCAATTAGGCA
1 TTAATTTTTTTAATAGTGCAATTACGCA
*
902772 TGTAATTTTTTTAATAGTGCAATTACGTA
1 T-TAATTTTTTTAATAGTGCAATTACGCA
902801 CTTAATTTTTTTAATAGT
1 -TTAATTTTTTTAATAGT
902819 ATAATTGGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 1 0.02
29 39 0.95
30 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (28 bp):
TTAATTTTTTTAATAGTGCAATTACGCA
Found at i:903511 original size:23 final size:22
Alignment explanation
Indices: 903465--903514 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
903455 AATTTGATAA
* *
903465 AATAAAAAAAAAACAAAGACAT
1 AATAAAAAAAAAACAAAAAAAT
*
903487 AATATAAAAAAAAATAAAAAAAT
1 AATA-AAAAAAAAACAAAAAAAT
903510 AATAA
1 AATAA
903515 TTACCGTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (22 bp):
AATAAAAAAAAAACAAAAAAAT
Found at i:905233 original size:43 final size:42
Alignment explanation
Indices: 905168--905300 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 42
905158 AATTAGCGGT
* *
905168 GTTTGTGGAAAAAATGCCACAAAAAGTATAGGTATATAGTGGC
1 GTTT-TGGAAAAAATGCCACAAAAAGTCTAGGTATATAATGGC
* **
905211 GTTTTGGAAAGAAAAGCCAC-AAAAGATCTAGGTATATACCGGC
1 GTTTTGGAAA-AAATGCCACAAAAAG-TCTAGGTATATAATGGC
** *
905254 GTTTTGGAAACAAATGCCGTAAAAGGTCTAGGTATATAATGGC
1 GTTTTGGAAA-AAATGCCACAAAAAGTCTAGGTATATAATGGC
905297 GTTT
1 GTTT
905301 ACAAAGGCAG
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 11 0.14
43 61 0.80
44 4 0.05
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (42 bp):
GTTTTGGAAAAAATGCCACAAAAAGTCTAGGTATATAATGGC
Found at i:905689 original size:158 final size:160
Alignment explanation
Indices: 905458--905874 Score: 495
Period size: 158 Copynumber: 2.6 Consensus size: 160
905448 GGTTTATAGC
* * *
905458 GGCGTTTTTAGAACAAATGCCGCTAAAGACTTGTACTTTAGCTTTCTATAAAAACACCGCTAAAG
1 GGCGTTTTTA-TACAAATGCCGCTAAAAACTAGTACTTTAG-TTTCTATAAAAACACCGCTAAAG
* *
905523 ACT-GTACTTTAGTGGCGTTTCTATA-AAAGCATCGCTAAAGACT-GTA-CTTTAGTAGCGTTTT
64 ACTCATACTTTAGTGGCGTTTTTATACAAA-CATCGCTAAAGACTCGTACCTTTAGTAGCGTTTT
* *
905584 TATACAAACACCGCTATAGAATCGT-ACTTTAGT
128 TATACAAACACCACTATAGAATCATGA-TTTAGT
* * *
905617 GGTGTTTTTATACAAATGCCGCTAAAAACTAGTACTTTTAGTTTGTA-AAAAACACCACTAAAGA
1 GGCGTTTTTATACAAATGCCGCTAAAAACTAGTAC-TTTAGTTTCTATAAAAACACCGCTAAAGA
* * *
905681 CTCATACTTTAGTGGCGTTTTTATACAAACGTCGCTAAATACTCTTACCTTTAGTAGCGTTTTTA
65 CTCATACTTTAGTGGCGTTTTTATACAAACATCGCTAAAGACTCGTACCTTTAGTAGCGTTTTTA
* *
905746 TACAAACGCCACTATAGACTCATGATTTAGT
130 TACAAACACCACTATAGAATCATGATTTAGT
* * * * * * * *
905777 GGCGTTTGTATTTACAAACGCCGTTATAAACTCGTACTTTAGTGGGTTTTATACAAACGCCGCTA
1 GGCGTTT-T-TATACAAATGCCGCTAAAAACTAGTACTTTAGT---TTCTATAAAAACACCGCTA
905842 AAGACTCATACTTTAGTGGCGTTTTTATACAAA
61 AAGACTCATACTTTAGTGGCGTTTTTATACAAA
905875 TGCCGCTATA
Statistics
Matches: 221, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
157 18 0.08
158 59 0.27
159 19 0.09
160 48 0.22
161 8 0.04
162 22 0.10
164 4 0.02
165 43 0.19
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (160 bp):
GGCGTTTTTATACAAATGCCGCTAAAAACTAGTACTTTAGTTTCTATAAAAACACCGCTAAAGAC
TCATACTTTAGTGGCGTTTTTATACAAACATCGCTAAAGACTCGTACCTTTAGTAGCGTTTTTAT
ACAAACACCACTATAGAATCATGATTTAGT
Found at i:905734 original size:42 final size:41
Alignment explanation
Indices: 905458--905891 Score: 380
Period size: 41 Copynumber: 10.8 Consensus size: 41
905448 GGTTTATAGC
* * *
905458 GGCGTTTTTAGAACAAATGCCGCTAAAGACTTGTACTTTA--
1 GGCGTTTTTA-TACAAACGCCGCTAAAGACTCGTACTTTAGT
* * *
905498 -GC-TTTCTATAAAAACACCGCTAAAGACT-GTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
*
905536 GGCGTTTCTATA-AAA-GCATCGCTAAAGACT-GTACTTTAGT
1 GGCGTTTTTATACAAACGC--CGCTAAAGACTCGTACTTTAGT
* * * *
905576 AGCGTTTTTATACAAACACCGCTATAGAATCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* * * *
905617 GGTGTTTTTATACAAATGCCGCTAAAAACTAGTACTTT--T
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* * * * * *
905656 --AGTTTGTA-AAAAACACCACTAAAGACTCATACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* * *
905694 GGCGTTTTTATACAAACGTCGCTAAATACTCTTACCTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTA-CTTTAGT
* * * *
905736 AGCGTTTTTATACAAACGCCACTATAGACTCATGA-TTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGT-ACTTTAGT
* *
905777 GGCGTTTGTATTTACAAACGCCGTTATAA-ACTCGTACTTTAGT
1 GGCGTTT-T-TATACAAACGCCGCTA-AAGACTCGTACTTTAGT
*
905820 GG-G-TTTTATACAAACGCCGCTAAAGACTCATACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
* *
905859 GGCGTTTTTATACAAATGCCGCTATAGACTCGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGT
905892 GTTTACAATT
Statistics
Matches: 317, Mismatches: 54, Indels: 45
0.76 0.13 0.11
Matches are distributed among these distances:
36 28 0.09
37 22 0.07
38 9 0.03
39 37 0.12
40 56 0.18
41 99 0.31
42 38 0.12
43 27 0.09
44 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
Found at i:914313 original size:44 final size:44
Alignment explanation
Indices: 914265--914362 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
914255 GGGCTTATTT
** * *
914265 GCGGCGTTTTTTAATTACAAATGTCGCTAAATACACAGTCAATA
1 GCGGCGTTTTTTAAAGACAAACGCCGCTAAATACACAGTCAATA
* *
914309 GCGGCG-TTTGTAAAGATAAACGCCGCTAAATACACAGTCAATA
1 GCGGCGTTTTTTAAAGACAAACGCCGCTAAATACACAGTCAATA
* *
914352 GCAGCATTTTT
1 GCGGCGTTTTT
914363 AAATACACAG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 35 0.80
44 9 0.20
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (44 bp):
GCGGCGTTTTTTAAAGACAAACGCCGCTAAATACACAGTCAATA
Found at i:914792 original size:37 final size:37
Alignment explanation
Indices: 914743--914820 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
914733 AAAAGCGCTA
*
914743 CTACATACCTGTTTTGCTGTAATGAGCCCTCCATGTG
1 CTACAAACCTGTTTTGCTGTAATGAGCCCTCCATGTG
*
914780 CTACAAACCTGTTTTGCTGTAGTGAGCCCTCCATGTG
1 CTACAAACCTGTTTTGCTGTAATGAGCCCTCCATGTG
914817 CTAC
1 CTAC
914821 TCGTCATGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.33
Consensus pattern (37 bp):
CTACAAACCTGTTTTGCTGTAATGAGCCCTCCATGTG
Found at i:915637 original size:16 final size:16
Alignment explanation
Indices: 915616--915648 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
915606 ATAGCAATAT
915616 TGAACGAGTGAAGGTC
1 TGAACGAGTGAAGGTC
915632 TGAACGAGTGAAGGTC
1 TGAACGAGTGAAGGTC
915648 T
1 T
915649 CATAGCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.21
Consensus pattern (16 bp):
TGAACGAGTGAAGGTC
Found at i:918505 original size:15 final size:15
Alignment explanation
Indices: 918485--918515 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
918475 CGATCCTTCC
918485 TCCCAACTATATATT
1 TCCCAACTATATATT
918500 TCCCAACTATATATT
1 TCCCAACTATATATT
918515 T
1 T
918516 AACAAACGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (15 bp):
TCCCAACTATATATT
Found at i:920950 original size:32 final size:31
Alignment explanation
Indices: 920873--920951 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
920863 TGTAATGTGT
920873 GTGTAT-ATATATAT-AATAGTTGTTGAAAA
1 GTGTATAATATATATAAATAGTTGTTGAAAA
** *
920902 -TAAATATATATAATATAAATAGTTTTTGAAAA
1 GTGTATA-ATAT-ATATAAATAGTTGTTGAAAA
920934 CGTGTATAATATATATAA
1 -GTGTATAATATATATAA
920952 TTTTTGAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
28 3 0.08
30 4 0.10
31 4 0.10
32 20 0.51
33 4 0.10
34 4 0.10
ACGTcount: A:0.47, C:0.01, G:0.11, T:0.41
Consensus pattern (31 bp):
GTGTATAATATATATAAATAGTTGTTGAAAA
Found at i:920984 original size:28 final size:28
Alignment explanation
Indices: 920910--920964 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
920900 AATAAATATA
* * *
920910 TATAATATAAATAGTTTTTGAAAACGTG
1 TATAATATATATAATTTTTGAAAACATG
920938 TATAATATATATAATTTTTGAAAACAT
1 TATAATATATATAATTTTTGAAAACAT
920965 ATTATATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (28 bp):
TATAATATATATAATTTTTGAAAACATG
Found at i:921077 original size:3 final size:3
Alignment explanation
Indices: 921069--921152 Score: 64
Period size: 3 Copynumber: 27.3 Consensus size: 3
921059 ATATAATATA
* * *
921069 TAT TAT TAT TATT TAT TAT TAT TACA TAT GAT TAT ATAA TATT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT -TAT TA-T TAT TAT
* * *
921118 TAT TGT TGT TAT TAT TAT TAT TAA T-T TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
921153 TTTCTGTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
2 3 0.05
3 53 0.82
4 9 0.14
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:921086 original size:10 final size:10
Alignment explanation
Indices: 921071--921153 Score: 57
Period size: 10 Copynumber: 8.2 Consensus size: 10
921061 ATAATATATA
921071 TTATTATTAT
1 TTATTATTAT
921081 TTATTATTA-
1 TTATTATTAT
* *
921090 TTACATATGA-
1 TTA-TTATTAT
*
921100 TTATATAATAT
1 TTAT-TATTAT
921111 TTATTATTATT
1 TTATTATTA-T
*
921122 GTTGTTATTA-
1 -TTATTATTAT
921132 TTATTATTAAT
1 TTATTATT-AT
921143 TTATT-TTAT
1 TTATTATTAT
921152 TT
1 TT
921154 TTCTGTTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
9 14 0.24
10 26 0.45
11 10 0.17
12 8 0.14
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (10 bp):
TTATTATTAT
Found at i:922909 original size:20 final size:21
Alignment explanation
Indices: 922874--922912 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
922864 GTAAGTTTAA
*
922874 ATTTTAATTTATTTTTGATCC
1 ATTTTAATTTACTTTTGATCC
922895 ATTTT-ATTTACTTTTGAT
1 ATTTTAATTTACTTTTGAT
922913 TATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (21 bp):
ATTTTAATTTACTTTTGATCC
Found at i:941958 original size:39 final size:39
Alignment explanation
Indices: 941896--942459 Score: 794
Period size: 39 Copynumber: 14.5 Consensus size: 39
941886 AAAAACAATA
* *
941896 TCAAGTGAGAT-AAATCTTCTGTTTTGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
*
941934 TCAAACGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* *
941973 TCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTGTC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* *
942012 TCAAGAGAGATAAAATCTTCTGTTTCGAGTGAAGCTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
*
942051 TCAAGTGAGATAAAGATCTTCTGTTTCGAGTGAAACTATC
1 TCAAGCGAGATAAA-ATCTTCTGTTTCGAGTGAAACTATC
* * * *
942091 TCAAGCGAGATAAAGTCTTCTGTTACGAATGAAATTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
*
942130 TCAAGCGAGATAAAATCTTCCGTTTCGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* * *
942169 TCTAGCGAGATAAAATCTTCTATTTCTAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
*
942208 TCAAGCGAGATAAAATCTTTTGTTTCGAGTGAAA-TAATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT-ATC
* *
942247 TCAAGCGAGATAAATTCTTCTGTTTTGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* * *
942286 TCAAGCAAGATAAAAATATTTTGTTTCGAGTGAAACTATC
1 TCAAGCGAGAT-AAAATCTTCTGTTTCGAGTGAAACTATC
* ** *
942326 TCAAGCGAGATAAAGTCTTCTGTTTTAAATGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
* * *
942365 TCAAGCGAGAT-AAATGTTTTCTTTCGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
*
942403 TCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
1 TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
*
942442 TCAAGTGAGAT-AAATCTT
1 TCAAGCGAGATAAAATCTT
942460 GTTTTAAAAA
Statistics
Matches: 465, Mismatches: 55, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
38 47 0.10
39 346 0.74
40 72 0.15
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (39 bp):
TCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATC
Found at i:942318 original size:235 final size:234
Alignment explanation
Indices: 941896--942459 Score: 846
Period size: 235 Copynumber: 2.4 Consensus size: 234
941886 AAAAACAATA
* * * *
941896 TCAAGTGAGATAAATCTTCTGTTTTGAGTGAAACTATCTCAAACGAGATAAAATCTTCTGTTTCG
1 TCAAGCGAGATAAATCTTCCGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCG
*
941961 AGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTGTCTCAAGAGAGATAAA
66 AGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGAGAGATAAA
* ** * *
942026 ATCTTCTGTTTCGAGTGAAGCTATCTCAAGTGAGATAAAGATCTTCTGTTTCGAGTGAAACTATC
131 ATCTTCTGTTTCGAGTGAAACTATCTCAAGCAAGATAAAAATATTCTGTTTCGAGTGAAACTATC
* *
942091 TCAAGCGAGATAAAGTCTTCTGTTACGAATGAAATTATC
196 TCAAGCGAGATAAAGTCTTCTGTTACAAATGAAACTATC
* *
942130 TCAAGCGAGATAAAATCTTCCGTTTCGAGTGAAACTATCTCTAGCGAGATAAAATCTTCTATTTC
1 TCAAGCGAGAT-AAATCTTCCGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTC
* * * *
942195 TAGTGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGTGAAA-TAATCTCAAGCGAGATA
65 GAGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACT-ATCTCAAGAGAGATA
* * *
942259 AATTCTTCTGTTTTGAGTGAAACTATCTCAAGCAAGATAAAAATATTTTGTTTCGAGTGAAACTA
129 AAATCTTCTGTTTCGAGTGAAACTATCTCAAGCAAGATAAAAATATTCTGTTTCGAGTGAAACTA
**
942324 TCTCAAGCGAGATAAAGTCTTCTGTTTTAAATGAAACTATC
194 TCTCAAGCGAGATAAAGTCTTCTGTTACAAATGAAACTATC
* * *
942365 TCAAGCGAGATAAATGTTTTC-TTTCGAGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTC
1 TCAAGCGAGATAAAT-CTTCCGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTC
942429 GAGTGAAACTATCTCAAGTGAGAT-AAATCTT
65 GAGTGAAACTATCTCAAGTGAGATAAAATCTT
942460 GTTTTAAAAA
Statistics
Matches: 297, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
233 7 0.02
234 77 0.26
235 213 0.72
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (234 bp):
TCAAGCGAGATAAATCTTCCGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCG
AGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGAGAGATAAA
ATCTTCTGTTTCGAGTGAAACTATCTCAAGCAAGATAAAAATATTCTGTTTCGAGTGAAACTATC
TCAAGCGAGATAAAGTCTTCTGTTACAAATGAAACTATC
Found at i:951008 original size:25 final size:25
Alignment explanation
Indices: 950979--951184 Score: 241
Period size: 25 Copynumber: 8.2 Consensus size: 25
950969 GTAGATATAT
* * *
950979 TTGCACTCAAAAGTGCCTTGTATAA
1 TTGCACTCGAAAGTGCCTCGTAGAA
* * *
951004 TTGCACTCGAAAATGCCTTGTAGAT
1 TTGCACTCGAAAGTGCCTCGTAGAA
* * * *
951029 TTACACTCGAAAGTGTCTCATATAA
1 TTGCACTCGAAAGTGCCTCGTAGAA
*
951054 TTGCACTCTAAAGTGCCTCGTAGAA
1 TTGCACTCGAAAGTGCCTCGTAGAA
**
951079 TTGCACTCGAAAGTGCCTAATAGAA
1 TTGCACTCGAAAGTGCCTCGTAGAA
** * *
951104 TCACACTCGAAAGTTCCTTGTAGAA
1 TTGCACTCGAAAGTGCCTCGTAGAA
*
951129 TTGCACTCGAAAGTGCCTCATAGAA
1 TTGCACTCGAAAGTGCCTCGTAGAA
*
951154 TTTCACTCGAAAGTGCCTCGTAGAA
1 TTGCACTCGAAAGTGCCTCGTAGAA
951179 TTGCAC
1 TTGCAC
951185 CGTAGGTGCC
Statistics
Matches: 149, Mismatches: 32, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 149 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (25 bp):
TTGCACTCGAAAGTGCCTCGTAGAA
Found at i:952784 original size:26 final size:26
Alignment explanation
Indices: 952759--952808 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
952749 TCCATGAAAT
*
952759 TATCATAATT-TCATCATATGATAAA
1 TATCATAATTATCATCATAAGATAAA
* *
952784 TGTCATAATTATCATGATAAGATAA
1 TATCATAATTATCATCATAAGATAA
952809 TAGAGTTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (26 bp):
TATCATAATTATCATCATAAGATAAA
Found at i:956615 original size:2 final size:2
Alignment explanation
Indices: 956608--956636 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
956598 ATCAGTTCTT
956608 TA TA 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 TA TA T
956637 CTTTCATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:957671 original size:2 final size:2
Alignment explanation
Indices: 957664--957706 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
957654 TTTTTAAAAC
957664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
957706 A
1 A
957707 CCCCCATCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:957893 original size:24 final size:24
Alignment explanation
Indices: 957866--957917 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
957856 AACGGATATA
*
957866 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
957890 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
957914 TCAA
1 TCAA
957918 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:958004 original size:24 final size:24
Alignment explanation
Indices: 957889--958007 Score: 141
Period size: 24 Copynumber: 5.0 Consensus size: 24
957879 CATAAATCAG
* * *
957889 GTCAAGTATCATATCAGAAATCAG
1 GTCAAGTATCAGATCAGAATTCAT
* * *
957913 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATTCAT
*
957937 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATTCAT
* *
957961 GTC-AGATATAATATCAGAATTCAT
1 GTCAAG-TATCAGATCAGAATTCAT
957985 GTCAAGTATCAGATCAGAATTCA
1 GTCAAGTATCAGATCAGAATTCA
958008 AATCGAAAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.02
24 77 0.95
25 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATTCAT
Found at i:960534 original size:15 final size:15
Alignment explanation
Indices: 960504--960555 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
960494 GGTCAACAGT
960504 GGTCAACGTCGGTCAAC
1 GGTCAACG--GGTCAAC
*
960521 GGTCAATGGGTCAAC
1 GGTCAACGGGTCAAC
960536 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
960551 AGGTC
1 -GGTC
960556 GGGTCAACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 21 0.66
16 4 0.12
17 7 0.22
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.17
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:960550 original size:8 final size:8
Alignment explanation
Indices: 960494--960555 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
960484 TCAAAGTTTT
960494 GGTCAACAG
1 GGTCAAC-G
960503 TGGTCAACG
1 -GGTCAACG
960512 TCGGTCAAC-
1 --GGTCAACG
*
960521 GGTCAATG
1 GGTCAACG
960529 GGTCAAC-
1 GGTCAACG
960536 GGTCAACG
1 GGTCAACG
*
960544 GGTCAACA
1 GGTCAACG
960552 GGTC
1 GGTC
960556 GGGTCAACAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 13 0.29
8 17 0.38
9 1 0.02
10 14 0.31
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.18
Consensus pattern (8 bp):
GGTCAACG
Found at i:960560 original size:13 final size:13
Alignment explanation
Indices: 960542--960573 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
960532 CAACGGTCAA
960542 CGGGTCAACAGGT
1 CGGGTCAACAGGT
960555 CGGGTCAACAGGT
1 CGGGTCAACAGGT
960568 CGGGTC
1 CGGGTC
960574 GGGTCAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.25, G:0.41, T:0.16
Consensus pattern (13 bp):
CGGGTCAACAGGT
Found at i:960575 original size:18 final size:18
Alignment explanation
Indices: 960552--960596 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
960542 CGGGTCAACA
960552 GGTCGGGTCAACAG-GTCG
1 GGTCGGGTCAA-AGAGTCG
*
960570 GGTCGGGTCAATGAGTCG
1 GGTCGGGTCAAAGAGTCG
960588 GGTCGGGTC
1 GGTCGGGTC
960597 GGGTTATGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (18 bp):
GGTCGGGTCAAAGAGTCG
Found at i:963359 original size:39 final size:39
Alignment explanation
Indices: 963316--963395 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
963306 GCCCATCAAC
963316 TCTTTTAATTTTAATCCTATATATATTTTTAAAACTTTT
1 TCTTTTAATTTTAATCCTATATATATTTTTAAAACTTTT
*
963355 TCTTTTAATTTTAATCCTATATATATTTTTTAAACTTTT
1 TCTTTTAATTTTAATCCTATATATATTTTTAAAACTTTT
963394 TC
1 TC
963396 ATTCAACTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (39 bp):
TCTTTTAATTTTAATCCTATATATATTTTTAAAACTTTT
Found at i:964548 original size:14 final size:14
Alignment explanation
Indices: 964529--964555 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
964519 GTGAAACTAC
964529 ATGTTTCCATGAGG
1 ATGTTTCCATGAGG
964543 ATGTTTCCATGAG
1 ATGTTTCCATGAG
964556 TAGCAGCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (14 bp):
ATGTTTCCATGAGG
Found at i:965132 original size:36 final size:36
Alignment explanation
Indices: 965092--965196 Score: 131
Period size: 36 Copynumber: 2.9 Consensus size: 36
965082 GGCTCCGTTG
* *
965092 ATTCCAAATCCTTTCCAACCTCCACCAGCACCACTA
1 ATTCCAAATCCCTTCCAGCCTCCACCAGCACCACTA
* * *
965128 ATTCC-AATCCCCTTCCAGCCTCCGCCAGCTCCACTT
1 ATTCCAAAT-CCCTTCCAGCCTCCACCAGCACCACTA
* *
965164 ATTCCAAACCCCTTCCAGCCTCCTCCAGCACCA
1 ATTCCAAATCCCTTCCAGCCTCCACCAGCACCA
965197 GCTCCATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 3 0.05
36 54 0.92
37 2 0.03
ACGTcount: A:0.24, C:0.49, G:0.06, T:0.22
Consensus pattern (36 bp):
ATTCCAAATCCCTTCCAGCCTCCACCAGCACCACTA
Found at i:965199 original size:42 final size:42
Alignment explanation
Indices: 965114--965328 Score: 264
Period size: 45 Copynumber: 5.1 Consensus size: 42
965104 TTCCAACCTC
* * *
965114 CACCAGCACCACTAATTCCAATCCCCTTCCAG---CCTCC-G
1 CACCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTCCAG
965152 --CCAGCTCCACTT-ATTCCAAACCCCTTCCAGCCTCCTCCAG
1 CACCAGCTCCA-TTAATTCCAAACCCCTTCCAGCCTCCTCCAG
* *
965192 CACCAGCTCCATTAATTCCAAACCCCTTCCAGCGTCCTCCGG
1 CACCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTCCAG
*
965234 CACCGCCAGCTCCATTAATTCCGAACCCCTTCCAGCCTCCTCCAG
1 CA---CCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTCCAG
965279 CACCTCCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTCCAG
1 CA---CCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTCCAG
965324 CACCA
1 CACCA
965329 CCTGCACCAC
Statistics
Matches: 156, Mismatches: 10, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
36 25 0.16
37 1 0.01
39 5 0.03
40 1 0.01
41 2 0.01
42 40 0.26
45 82 0.53
ACGTcount: A:0.22, C:0.49, G:0.09, T:0.20
Consensus pattern (42 bp):
CACCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTCCAG
Found at i:965354 original size:87 final size:86
Alignment explanation
Indices: 965170--965346 Score: 228
Period size: 90 Copynumber: 2.0 Consensus size: 86
965160 ACTTATTCCA
* *
965170 AACCCCTTCCAGCCTCCTCCAGCACCAGCTCCATTAATTCCAAACCCCTTCCAGCGTCCTCCGGC
1 AACCCCTTCCAGCCTCCTCCAGCACCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTCCAGC
* * ** **
965235 ACCGCCAGCTCCATTAATTCC
66 ACCACCAGCACCACCAACACC
965256 GAACCCCTTCCAGCCTCCTCCAGCACCTCCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTC
1 -AACCCCTTCCAGCCTCCTCCAGCA---CCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTC
* *
965321 CAGCACCACCTGCACCACCAGCACC
62 CAGCACCACCAGCACCACCAACACC
965346 A
1 A
965347 TGGTTCCATC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 24 0.31
89 1 0.01
90 52 0.68
ACGTcount: A:0.22, C:0.50, G:0.10, T:0.19
Consensus pattern (86 bp):
AACCCCTTCCAGCCTCCTCCAGCACCAGCTCCATTAATTCCAAACCCCTTCCAGCCTCCTCCAGC
ACCACCAGCACCACCAACACC
Found at i:968953 original size:35 final size:35
Alignment explanation
Indices: 968905--969013 Score: 146
Period size: 35 Copynumber: 3.1 Consensus size: 35
968895 TCTAAACCTT
* *
968905 AAATTGAAGTATTTTAGAATTTGGGGTTTAAAATT
1 AAATTGAATTATTTTAGAATTTGGGGTTTAAAATG
* * *
968940 TAATTGAATTATTTTAGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGGGTTTAAAATG
* * *
968975 AAATTGAATTACTTTAGAAATTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGGGTTTAAAATG
969010 AAAT
1 AAAT
969014 GGAAGACTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTGGGGTTTAAAATG
Found at i:975314 original size:3 final size:3
Alignment explanation
Indices: 975268--975335 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
975258 TTGTAATATT
* * *
975268 TAA TAAA TAA TATA TAA CT-A TAA TTA TAA TTA TAA TAC TAA TAA TAA
1 TAA T-AA TAA TA-A TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
975315 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
975336 ATTTAAATGA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 1 0.02
3 43 0.84
4 7 0.14
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:975327 original size:18 final size:18
Alignment explanation
Indices: 975306--975341 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
975296 ATTATAATAC
*
975306 TAATAATAATAATTTTAA
1 TAATAATAATAAATTTAA
975324 TAATAATAATAAATTTAA
1 TAATAATAATAAATTTAA
975342 ATGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATAAATTTAA
Found at i:975628 original size:76 final size:76
Alignment explanation
Indices: 975467--976408 Score: 1674
Period size: 76 Copynumber: 12.4 Consensus size: 76
975457 GAAATGTTGA
* * * * *
975467 AAACATCAGGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGTTCCTG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCCG
975532 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* *
975544 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCAGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
975609 AAGCTTTTTGG
66 AGGCTTTTTGG
975620 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
975685 AGGCTTTTTGG
66 AGGCTTTTTGG
*
975696 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCAGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
975761 AAGCTTTTTGG
66 AGGCTTTTTGG
975772 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
975837 AGGCGTTTTGG
66 AGGCTTTTTGG
* *
975848 AAATATCATGCACTGAAGGACTTACAGATGACCTGAAGGCTTTG-AAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
975912 AGGCGTTTTGG
66 AGGCTTTTTGG
975923 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
975987 AGGCTTTTTGG
66 AGGCTTTTTGG
975998 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
976062 AGGCTTTTTGG
66 AGGCTTTTTGG
976073 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
976138 AGGATTTTTTGG
66 AGG-CTTTTTGG
*
976150 AAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
976215 AGGCTTTTTGG
66 AGGCTTTTTGG
*
976226 AAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
976291 AGGCTTTTTTGG
66 AGGC-TTTTTGG
*
976303 AAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
976368 AGGCTTTTTGG
66 AGGCTTTTTGG
976379 AAACATCATGCACTGAAGGACTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
976409 TGAGAAATAG
Statistics
Matches: 838, Mismatches: 24, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
75 222 0.26
76 429 0.51
77 187 0.22
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:977108 original size:22 final size:22
Alignment explanation
Indices: 977083--977137 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
977073 CATAAAGTTT
*
977083 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
977105 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
977127 TCATCTTTGAA
1 TCATCTTTGAA
977138 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:987944 original size:13 final size:13
Alignment explanation
Indices: 987926--987953 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
987916 CCACCGTATT
987926 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
987939 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
987952 CC
1 CC
987954 ATAACGGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.64, G:0.29, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:988774 original size:3 final size:3
Alignment explanation
Indices: 988728--988795 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
988718 TTGTAATATT
* * *
988728 TAA TAAA TAA TATA TAA CT-A TAA TTA TAA TTA TAA TAC TAA TAA TAA
1 TAA T-AA TAA TA-A TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
988775 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
988796 ATTTAAATGA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 1 0.02
3 43 0.84
4 7 0.14
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:988787 original size:18 final size:18
Alignment explanation
Indices: 988766--988801 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
988756 ATTATAATAC
*
988766 TAATAATAATAATTTTAA
1 TAATAATAATAAATTTAA
988784 TAATAATAATAAATTTAA
1 TAATAATAATAAATTTAA
988802 ATGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATAAATTTAA
Found at i:990549 original size:14 final size:14
Alignment explanation
Indices: 990532--990560 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
990522 ATGTATCTCC
990532 TAGAATACCATTGA
1 TAGAATACCATTGA
990546 TAGAATACCATTGA
1 TAGAATACCATTGA
990560 T
1 T
990561 TGAAACGAGT
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:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (14 bp):
TAGAATACCATTGA
Found at i:992466 original size:51 final size:51
Alignment explanation
Indices: 992408--992510 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 51
992398 AAATTGTCAC
* *
992408 AAACCACCCACCACA-GATTTATGTGGAAAAATATAAAAGTAAGAAAAGTAG
1 AAACCACCCACCACATAATTT-TGTGGAAAAATATAAAAGAAAGAAAAGTAG
* **
992459 AAACCACCCATCACATAATTTTGTGGAAAAATATTGAAGAAAGAAAAGTAG
1 AAACCACCCACCACATAATTTTGTGGAAAAATATAAAAGAAAGAAAAGTAG
992510 A
1 A
992511 GATAAGGATG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 42 0.91
52 4 0.09
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (51 bp):
AAACCACCCACCACATAATTTTGTGGAAAAATATAAAAGAAAGAAAAGTAG
Found at i:993403 original size:20 final size:19
Alignment explanation
Indices: 993380--993426 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
993370 CGATATACCA
993380 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
993400 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
993420 GGTAAAA
1 GGTAAAA
993427 TGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:993503 original size:181 final size:182
Alignment explanation
Indices: 993168--993640 Score: 716
Period size: 181 Copynumber: 2.6 Consensus size: 182
993158 GATCCAAATT
* * * *
993168 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
** * * * * *
993232 AAAACCGGTAAAGCGCTACTGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
993297 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
993350 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
993415 AAACCGGTAAAATGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
993479 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
** * *
993531 AAAAAAATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
993596 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
993641 CGTAAGTACG
Statistics
Matches: 266, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
181 170 0.64
182 96 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:993584 original size:20 final size:19
Alignment explanation
Indices: 993561--993607 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
993551 CGATATAACA
993561 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
993581 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
993601 GGTAAAA
1 GGTAAAA
993608 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:993609 original size:17 final size:19
Alignment explanation
Indices: 993570--993612 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
993560 AGGTAAAAAT
993570 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
993590 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
993607 ATGATA
1 ATGATA
993613 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:995834 original size:21 final size:21
Alignment explanation
Indices: 995810--995853 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
995800 AAGACAATCA
995810 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
995831 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
995852 AG
1 AG
995854 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:995929 original size:33 final size:33
Alignment explanation
Indices: 995887--995952 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
995877 AAATAGATGG
*
995887 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
995920 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
995953 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:997764 original size:19 final size:19
Alignment explanation
Indices: 997740--997788 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
997730 AATGTAGGGT
997740 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
997759 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
997778 TATTTTTGTAT
1 TAATTTTGTAT
997789 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:998256 original size:200 final size:200
Alignment explanation
Indices: 997907--999080 Score: 2131
Period size: 200 Copynumber: 5.9 Consensus size: 200
997897 CAATATGGCC
* * *
997907 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTTGATACCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
997972 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
998037 GAATGTGTCTAAATAATGTGTCGACACATTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
998102 TGGAA
196 TGGAA
* *
998107 AACAGTGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAATATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
998172 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
998237 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCTAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
998302 TGGAA
196 TGGAA
* * *
998307 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAATGTGTCGATCCCAAAAATATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
998372 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
998437 GAATATGTCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
131 GAATATGTCTAAATAATGTGTCGACAC-TTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
998502 ATGGAA
195 ATGGAA
998508 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
998572 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
998637 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTTGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
998702 TGGAA
196 TGGAA
* *
998707 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTTGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
998772 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
998837 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCATAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
998902 T-GAA
196 TGGAA
* *
998906 AACAGGATGTAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
998970 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
999035 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
999081 CTAATTTAAA
Statistics
Matches: 945, Mismatches: 27, Indels: 7
0.97 0.03 0.01
Matches are distributed among these distances:
197 19 0.02
198 94 0.10
199 163 0.17
200 568 0.60
201 101 0.11
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:1000555 original size:6 final size:6
Alignment explanation
Indices: 1000544--1000637 Score: 80
Period size: 6 Copynumber: 15.7 Consensus size: 6
1000534 CAAGCGGTCA
* * * * *
1000544 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * *
1000592 CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG ATGAAG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
1000638 TGATCCAAAC
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:1000596 original size:36 final size:36
Alignment explanation
Indices: 1000544--1000625 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
1000534 CAAGCGGTCA
*
1000544 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
* *
1000580 ATGACGATGAAGCTGACGATGAAGATGATGACGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
*
1000616 ATGATGATGA
1 ATGAAGATGA
1000626 TGATGAAGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.21
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
Found at i:1000629 original size:9 final size:9
Alignment explanation
Indices: 1000561--1000641 Score: 81
Period size: 9 Copynumber: 9.0 Consensus size: 9
1000551 TGAAGCTGAC
*
1000561 GATGAAGAT
1 GATGATGAT
*
1000570 GACGATGAT
1 GATGATGAT
*
1000579 GATGACGAT
1 GATGATGAT
* * *
1000588 GAAGCTGAC
1 GATGATGAT
*
1000597 GATGAAGAT
1 GATGATGAT
*
1000606 GATGACGAT
1 GATGATGAT
1000615 GATGATGAT
1 GATGATGAT
*
1000624 GATGATGAA
1 GATGATGAT
1000633 GATGATGAT
1 GATGATGAT
1000642 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.23
Consensus pattern (9 bp):
GATGATGAT
Found at i:1000641 original size:12 final size:12
Alignment explanation
Indices: 1000544--1000637 Score: 98
Period size: 12 Copynumber: 7.8 Consensus size: 12
1000534 CAAGCGGTCA
*
1000544 ATGAAGATGAAG
1 ATGACGATGAAG
*
1000556 CTGACGATGAAG
1 ATGACGATGAAG
*
1000568 ATGACGATGATG
1 ATGACGATGAAG
1000580 ATGACGATGAAG
1 ATGACGATGAAG
*
1000592 CTGACGATGAAG
1 ATGACGATGAAG
* * *
1000604 ATGATGACGATG
1 ATGACGATGAAG
* *
1000616 ATGATGATGATG
1 ATGACGATGAAG
*
1000628 ATGAAGATGA
1 ATGACGATGA
1000638 TGATCCAAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 70 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1001857 original size:16 final size:16
Alignment explanation
Indices: 1001836--1001869 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1001826 TATCCACAAC
*
1001836 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
1001852 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
1001868 AA
1 AA
1001870 TGTAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Done.