Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold436
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: 700632
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:417196 original size:13 final size:13
Alignment explanation
Indices: 417178--417215 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
417168 AGCAAGTGAA
417178 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
*
417191 AAAAAAAAGAGAG
1 AAAAAAAAGAAAG
417204 AAAAAAAAGAAA
1 AAAAAAAAGAAA
417216 ATTCCAAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:418809 original size:155 final size:155
Alignment explanation
Indices: 418527--419203 Score: 751
Period size: 155 Copynumber: 4.4 Consensus size: 155
418517 GCATTATCTC
* * * * * * * *
418527 AAGTCCTTTAGGTGTATCGAGTATTTTTATGTCGAAGGTATCTCCTAAAGGTATTTTCATAATTT
1 AAGTCCTTTAGGGGTATCGAGTACTTTTACGTAGAAGGTATCCCCTAAGGGCATTTTCGTAATTT
* * * * ** ** *
418592 TTTAGAAAT-GAGTCCTAGGTTGTCACTGAGTTTGCTTTTACACCCAAGGTAGATATTTAGGATA
66 TTTAG-ACTCAAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATA
418656 GGTTCATCTCATCTATTATCCTCTTT
130 GGTTCATCTCATCTATTATCCTCTTT
* ** * * *
418682 AAGTCTTTTAGGGGTATC-AGGTACTTTTACGTTTAAAGTATCCCTTAAGGGCATTTTCATAATT
1 AAGTCCTTTAGGGGTATCGA-GTACTTTTACGTAGAAGGTATCCCCTAAGGGCATTTTCGTAATT
* *
418746 TTTTAG-CTCCCAGTCCTAGGTTGTCACCGGGTCCACTTTTATGCCGAAGGTAGATATTTAGGAT
65 TTTTAGACT-CAAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGAT
418810 AGGTTCATCTCATCTATTATCCTCTTT
129 AGGTTCATCTCATCTATTATCCTCTTT
* * *
418837 AAGTCCTTTAGGGGTA-CTGAGTACTTTTACGTCGAAGGTATCCCCTAAAGGCATTTTTGTAATT
1 AAGTCCTTTAGGGGTATC-GAGTACTTTTACGTAGAAGGTATCCCCTAAGGGCATTTTCGTAATT
** * ** *
418901 TTTTAGAACTGTA-TCTTAGGTTGTCACTAGGTCTGCTTTTATGCCGAAGGTAGATATTTAGGAT
65 TTTTAG-ACTCAAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGAT
418965 AGGTTCATCTCATCTATTATCCTCTTT
129 AGGTTCATCTCATCTATTATCCTCTTT
* *
418992 AAGTCCTTT-GTGGGTATCGAGTACTTTTACATAGAAGGTATCCCCTAAGGGCATTTTCGTAGTT
1 AAGTCCTTTAG-GGGTATCGAGTACTTTTACGTAGAAGGTATCCCCTAAGGGCATTTTCGTAATT
* * * * ** *
419056 TTTTAGAATCAAGTCCTAGGTTGTCACCGAGTCCGCTTTTATGCCAAAGGTGGGCAGTTAGGATA
65 TTTTAGACTCAAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATA
* * * * *
419121 GGTTTATCCCATTTCA-AACCCT-TTT
130 GGTTCATCTCATCT-ATTATCCTCTTT
* * * *
419146 AAGTCCTTTAGGGGTATCGGGTACTTTTACATCGAAGATATCCCCT-AGGAGCATTTTC
1 AAGTCCTTTAGGGGTATCGAGTACTTTTACGTAGAAGGTATCCCCTAAGG-GCATTTTC
419204 AAAATTTTCC
Statistics
Matches: 447, Mismatches: 62, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
153 4 0.01
154 58 0.13
155 379 0.85
156 4 0.01
157 2 0.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (155 bp):
AAGTCCTTTAGGGGTATCGAGTACTTTTACGTAGAAGGTATCCCCTAAGGGCATTTTCGTAATTT
TTTAGACTCAAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATAG
GTTCATCTCATCTATTATCCTCTTT
Found at i:419097 original size:310 final size:309
Alignment explanation
Indices: 418527--419211 Score: 873
Period size: 310 Copynumber: 2.2 Consensus size: 309
418517 GCATTATCTC
* * * * *
418527 AAGTCCTTTAGGTGTATCGAGTATTTTTATGTCGAAGGTATCTCCTAAAGGTATTTTCATAATTT
1 AAGTCCTTTAGGGGTATCGAGTACTTTTACGTCGAAGGTATCCCCTAAAGGCATTTTCATAATTT
*
418592 TTTAGAAATGAGTCCTAGGTTGTCACTGAGTTTGCTTTTACACCCAAGGTAGATATTTAGGATAG
66 TTTAGAAATGAGTCCTAGGTTGTCACTGAGTCTGCTTTTACACCCAAGGTAGATATTTAGGATAG
* * **
418657 GTTCATCTCATCTATTATCCTCTTTAAGTCTTTTAGGGGTATCAGGTACTTTTACGTTTAAAGTA
131 GTTCATCTCATCTATTATCCTCTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACATAGAAAGTA
* * * *
418722 TCCCTTAAGGGCATTTTCATAATTTTTTAGCTCCCAGTCCTAGGTTGTCACCGGGTCCACTTTTA
196 TCCCCTAAGGGCATTTTCATAATTTTTTAGATCCAAGTCCTAGGTTGTCACCGAGTCCACTTTTA
* * * * * *
418787 TGCCGAAGGTAGATATTTAGGATAGGTTCATCTCATCT-ATTATCCTCTTT
261 TGCCAAAGGTAGACAGTTAGGATAGGTTCATCCCATCTCA-AACCCT-TTT
**
418837 AAGTCCTTTAGGGGTA-CTGAGTACTTTTACGTCGAAGGTATCCCCTAAAGGCATTTTTGTAATT
1 AAGTCCTTTAGGGGTATC-GAGTACTTTTACGTCGAAGGTATCCCCTAAAGGCATTTTCATAATT
* * ** *
418901 TTTTAGAACTGTA-TCTTAGGTTGTCACT-AGGTCTGCTTTTATGCCGAAGGTAGATATTTAGGA
65 TTTTAGAAATG-AGTCCTAGGTTGTCACTGA-GTCTGCTTTTACACCCAAGGTAGATATTTAGGA
418964 TAGGTTCATCTCATCTATTATCCTCTTTAAGTCCTTT-GTGGGTATC-GAGTACTTTTACATAGA
128 TAGGTTCATCTCATCTATTATCCTCTTTAAGTCCTTTAG-GGGTATCAG-GTACTTTTACATAGA
* * * *
419027 AGGTATCCCCTAAGGGCATTTTCGTAGTTTTTTAGAAT-CAAGTCCTAGGTTGTCACCGAGTCCG
191 AAGTATCCCCTAAGGGCATTTTCATAATTTTTTAG-ATCCAAGTCCTAGGTTGTCACCGAGTCCA
* * * *
419091 CTTTTATGCCAAAGGTGGGCAGTTAGGATAGGTTTATCCCATTTCAAACCCTTTT
255 CTTTTATGCCAAAGGTAGACAGTTAGGATAGGTTCATCCCATCTCAAACCCTTTT
* * * * *
419146 AAGTCCTTTAGGGGTATCGGGTACTTTTACATCGAAGATATCCCCT-AGGAGCATTTTCAAAATT
1 AAGTCCTTTAGGGGTATCGAGTACTTTTACGTCGAAGGTATCCCCTAAAG-GCATTTTCATAATT
419210 TT
65 TT
419212 CCTACAAAAC
Statistics
Matches: 324, Mismatches: 42, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
308 2 0.01
309 61 0.19
310 258 0.80
311 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (309 bp):
AAGTCCTTTAGGGGTATCGAGTACTTTTACGTCGAAGGTATCCCCTAAAGGCATTTTCATAATTT
TTTAGAAATGAGTCCTAGGTTGTCACTGAGTCTGCTTTTACACCCAAGGTAGATATTTAGGATAG
GTTCATCTCATCTATTATCCTCTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACATAGAAAGTA
TCCCCTAAGGGCATTTTCATAATTTTTTAGATCCAAGTCCTAGGTTGTCACCGAGTCCACTTTTA
TGCCAAAGGTAGACAGTTAGGATAGGTTCATCCCATCTCAAACCCTTTT
Found at i:421154 original size:16 final size:16
Alignment explanation
Indices: 421133--421163 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
421123 TTTTCGGTTT
421133 AAAAAAAAAAGAGAAA
1 AAAAAAAAAAGAGAAA
*
421149 AAAAAATAAAGAGAA
1 AAAAAAAAAAGAGAA
421164 CAAGCTTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAGAGAAA
Found at i:421418 original size:272 final size:272
Alignment explanation
Indices: 420932--421482 Score: 1084
Period size: 272 Copynumber: 2.0 Consensus size: 272
420922 TCGAGGAAAA
420932 TAGACTTTAAAGTGGAAAGGGCCATACGTAGTAATGTGCATTTTCTTCAGAAGAGTCTTGATCTT
1 TAGACTTTAAAGTGGAAAGGGCCATACGTAGTAATGTGCATTTTCTTCAGAAGAGTCTTGATCTT
*
420997 AATCGAAATGGATGGTAATGACTTACCCAGTCCGGTGAACTCTGATTCTGTAAAAAAGTATTACG
66 AATCGAAATGGATGGTAATGACTTACCCAGTCCGGTGAACTCTGATTCTGTAAAAAAATATTACG
*
421062 CTTAAAAGCATGTAGGGATGAAAACCCAAAAACCCAAAAAAGGGCATCCCACCTTCTTTTCTTTT
131 CTTAAAAGCATGTAGGGATGAAAACCCAAAAACCCAAAAAAGGGCATCCCACCTTCCTTTCTTTT
421127 CGGTTTAAAAAAAAAAGAGAAAAAAAAATAAAGAGAACAAGCTTAAGTTGAAAACCCGAAAGGGC
196 CGGTTTAAAAAAAAAAGAGAAAAAAAAATAAAGAGAACAAGCTTAAGTTGAAAACCCGAAAGGGC
421192 GGCTTAAATGAC
261 GGCTTAAATGAC
421204 TAGACTTTAAAGTGGAAAGGGCCATACGTAGTAATGTGCATTTTCTTCAGAAGAGTCTTGATCTT
1 TAGACTTTAAAGTGGAAAGGGCCATACGTAGTAATGTGCATTTTCTTCAGAAGAGTCTTGATCTT
421269 AATCGAAATGGATGGTAATGACTTACCCAGTCCGGTGAACTCTGATTCTGTAAAAAAATATTACG
66 AATCGAAATGGATGGTAATGACTTACCCAGTCCGGTGAACTCTGATTCTGTAAAAAAATATTACG
421334 CTTAAAAGCATGTAGGGATGAAAACCCAAAAACCCAAAAAAGGGCATCCCACCTTCCTTTCTTTT
131 CTTAAAAGCATGTAGGGATGAAAACCCAAAAACCCAAAAAAGGGCATCCCACCTTCCTTTCTTTT
421399 CGGTTTAAAAAAAAAAGAGAAAAAAAAATAAAGAGAACAAGCTTAAGTTGAAAACCCGAAAGGGC
196 CGGTTTAAAAAAAAAAGAGAAAAAAAAATAAAGAGAACAAGCTTAAGTTGAAAACCCGAAAGGGC
421464 GGCTTAAATGAC
261 GGCTTAAATGAC
421476 TAGACTT
1 TAGACTT
421483 CTTTTCCTCA
Statistics
Matches: 277, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
272 277 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (272 bp):
TAGACTTTAAAGTGGAAAGGGCCATACGTAGTAATGTGCATTTTCTTCAGAAGAGTCTTGATCTT
AATCGAAATGGATGGTAATGACTTACCCAGTCCGGTGAACTCTGATTCTGTAAAAAAATATTACG
CTTAAAAGCATGTAGGGATGAAAACCCAAAAACCCAAAAAAGGGCATCCCACCTTCCTTTCTTTT
CGGTTTAAAAAAAAAAGAGAAAAAAAAATAAAGAGAACAAGCTTAAGTTGAAAACCCGAAAGGGC
GGCTTAAATGAC
Found at i:421426 original size:16 final size:16
Alignment explanation
Indices: 421405--421435 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
421395 TTTTCGGTTT
421405 AAAAAAAAAAGAGAAA
1 AAAAAAAAAAGAGAAA
*
421421 AAAAAATAAAGAGAA
1 AAAAAAAAAAGAGAA
421436 CAAGCTTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAGAGAAA
Found at i:422600 original size:68 final size:68
Alignment explanation
Indices: 422414--422600 Score: 200
Period size: 68 Copynumber: 2.6 Consensus size: 68
422404 AAACTTAAAC
* *
422414 CCTTTTA-TTTTAGTCCTCAAATAGCAAGACGCTTTTCCTTTTTCTTTTTTAAAGCCCACATAAG
1 CCTTTTACTTTTAGTCCTCAAAGAGCAAGACG------CTTTTTCTTTTTTAAAGCCCACACAAG
*
422478 TTGGTGACA
60 CTGGTGACA
*
422487 CCTTTTACCTTTTTAGTCCTCAAAGAGCAAGACGATTTTTCTTTTTTCAAAGCCCACACAAGCTG
1 CCTTTTA-C-TTTTAGTCCTCAAAGAGCAAGACGCTTTTTCTTTTTT-AAAGCCCACACAAGCTG
422552 GT-AGCA
63 GTGA-CA
* * *
422558 CCTTTTA-TTTTAGTCTTCAAAGAGCAGGACGCTTTTCCTTTTT
1 CCTTTTACTTTTAGTCCTCAAAGAGCAAGACGCTTTTTCTTTTT
422601 CTTTTTCAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 15
0.81 0.06 0.12
Matches are distributed among these distances:
68 32 0.32
70 13 0.13
71 26 0.26
73 7 0.07
76 23 0.23
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (68 bp):
CCTTTTACTTTTAGTCCTCAAAGAGCAAGACGCTTTTTCTTTTTTAAAGCCCACACAAGCTGGTG
ACA
Found at i:426700 original size:13 final size:13
Alignment explanation
Indices: 426682--426707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
426672 TACACCAAGT
426682 ATGTATCGATACA
1 ATGTATCGATACA
426695 ATGTATCGATACA
1 ATGTATCGATACA
426708 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:426705 original size:32 final size:33
Alignment explanation
Indices: 426664--426727 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
426654 TAGCCAAACT
**
426664 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
426696 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
426728 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:430906 original size:25 final size:25
Alignment explanation
Indices: 430858--430913 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 25
430848 AGAAAAGCTT
430858 AAAAGATTTTAGTGAAAGTAAAAAA
1 AAAAGATTTTAGTGAAAGTAAAAAA
430883 AAAATGATTTTAGTGAAAGTAAAAAA
1 AAAA-GATTTTAGTGAAAGTAAAAAA
430909 AAAAG
1 AAAAG
430914 GTTTAAGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (25 bp):
AAAAGATTTTAGTGAAAGTAAAAAA
Found at i:434692 original size:167 final size:164
Alignment explanation
Indices: 434329--435050 Score: 718
Period size: 167 Copynumber: 4.4 Consensus size: 164
434319 GAAAAATTCA
* * *
434329 AAAATGAATGAATTTTTTAAAATTTATTTAATATTAATTAAATAATAATATTTGATGAATTTTAA
1 AAAATGAATGAATTTTTGAAAA-TTATTTAATATGAATTAAATAATAATATTTAATGAATTTTAA
* * * * ** * * * **
434394 AAATTAGAATCAAGAAAAATCCCCTTGAAAATATTTATGGAGTAGAAAACTCTATATTTCATAAA
65 AAATAAAAAACAAGAAAAATTCCCTCAAAAACATTTAAGGAGTAGAAAACTCTGTATTTCGGAAA
* * *
434459 TAGGAAAATTTCTAAGAAAAAGTTC-AAGACTTATG
130 TAGAAAAATTTCTAAGAAAAA-TTCAAAAACTCATG
** * *
434494 AAAATGGTTGAATTTTTGAAAAAATATTTAATATGAATTAAATAATAATATTTAATGAATTTTGA
1 AAAATGAATGAATTTTTG-AAAATTATTTAATATGAATTAAATAATAATATTTAATGAATTTTAA
* *
434559 AAATGAAAAAACAAGAAAAATTCTCTCAAAAACATTTAAGGAGTAGAAAACTTTGTATTTCGGAA
65 AAAT-AAAAAACAAGAAAAATTCCCTCAAAAACATTTAAGGAGTAGAAAACTCTGTATTTCGGAA
*
434624 TTAGAAAAATTTC-AAGGAACAAATTCAAAAACTCATG
129 ATAGAAAAATTTCTAA-GAA-AAATTCAAAAACTCATG
* *
434661 AAAATGATTGAATTTTTGAAAATTGATTTAATATGAATTAAATAATAATATTTTATGAATTTTAA
1 AAAATGAATGAATTTTTGAAAATT-ATTTAATATGAATTAAATAATAATATTTAATGAATTTT-A
* * * * *
434726 AAAATAAAAATA-AAGAAGAATTCCCCCGAAAACATTTATA-GTGTAGAAAACTCCGTA-TTCGG
64 AAAATAAAAA-ACAAGAAAAATTCCCTCAAAAACATTTA-AGGAGTAGAAAACTCTGTATTTCGG
* *
434788 AAACAGGAAAATTTCTAAGAAAAAATT-AAAAA-TCATG
127 AAATAGAAAAATTTCTAAG-AAAAATTCAAAAACTCATG
* * *
434825 AAAATGAATAAACTTTTGAAAATTATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
1 AAAATGAATGAATTTTTGAAAATTATTTAATATGAATTAAATAATAATATTTAATGAATTTTAAA
* * * *
434890 TATTAAAAACTAA-AAAAAATCCCTCCAAAAACATTTATGGAGTAGAAAACTCTGTATTTC-GAA
66 AATAAAAAAC-AAGAAAAATTCCCT-CAAAAACATTTAAGGAGTAGAAAACTCTGTATTTCGGAA
* ** * *
434953 ACAAGAGGAATTTCAAAG-AAAA-TCAATAACTCAT-
129 A-TAGAAAAATTTCTAAGAAAAATTCAAAAACTCATG
* * * * *
434987 AAAATAAAAGGAAATTTTT-AACATTGATTTAATGGTG-ATTAAATGATAATATTTAGA-GAATT
1 AAAAT-GAATG-AATTTTTGAAAATT-ATTTAAT-ATGAATTAAATAATAATATTTA-ATGAATT
435049 TT
61 TT
435051 GATGTTCACA
Statistics
Matches: 468, Mismatches: 65, Indels: 49
0.80 0.11 0.08
Matches are distributed among these distances:
161 2 0.00
162 30 0.06
163 80 0.17
164 76 0.16
165 67 0.14
166 96 0.21
167 110 0.24
168 7 0.01
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (164 bp):
AAAATGAATGAATTTTTGAAAATTATTTAATATGAATTAAATAATAATATTTAATGAATTTTAAA
AATAAAAAACAAGAAAAATTCCCTCAAAAACATTTAAGGAGTAGAAAACTCTGTATTTCGGAAAT
AGAAAAATTTCTAAGAAAAATTCAAAAACTCATG
Found at i:434708 original size:332 final size:330
Alignment explanation
Indices: 434329--435050 Score: 856
Period size: 330 Copynumber: 2.2 Consensus size: 330
434319 GAAAAATTCA
* * *
434329 AAAATGAATGAATTTTTTAAAATTTATTTAATATTAATTAAATAATAATATTTGATGAATTTT-A
1 AAAATGAATGAATTTTTGAAAATTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
* * * * * * * *
434393 AAAATTAGAATCAAGAA-AAATCCCCTTGAAAATATTTATGGAGTAGAAAACTCTATATTTCATA
66 AAAATAAAAATAAAGAAGAAATCCCC-CGAAAACATTTATAGAGTAGAAAACTCCATA-TTCAGA
* * * * * ** * *
434457 AATAGGAAAATTTCTAAGAAAAAGTTCAAGACTTATGAAAATGGTTGAATTTTTGAAAAAATATT
129 AACAGGAAAATTTCTAAGAAAAAATT-AAAAATCATGAAAATGAATAAACTTTTG-AAAAATATT
* *
434522 TAATATGAATTAAATAATAATATTTAATGAATTTTGAAA-ATGAAAAAAC-AAGAAAAAT-TCTC
192 TAATATGAATTAAATAATAATATTTAATGAATTTT-AAATAT-AAAAAACTAAAAAAAATCCCTC
*
434584 TCAAAAACATTTAAGGAGTAGAAAACTTTGTATTTCGGAATTAGAAAAATTTCAAGGAACAAATT
255 -CAAAAACATTTAAGGAGTAGAAAACTCTGTATTTCGGAATTAGAAAAATTTCAAGGAACAAATT
434649 CAAAAACTCATG
319 CAAAAACTCATG
* *
434661 AAAATGATTGAATTTTTGAAAATTGATTTAATATGAATTAAATAATAATATTTTATGAATTTTAA
1 AAAATGAATGAATTTTTGAAAATTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
* * * *
434726 AAAATAAAAATAAAGAAGAATTCCCCCGAAAACATTTATAGTGTAGAAAACTCCGTATTCGGAAA
66 AAAATAAAAATAAAGAAGAAATCCCCCGAAAACATTTATAGAGTAGAAAACTCCATATTCAGAAA
*
434791 CAGGAAAATTTCTAAGAAAAAATTAAAAATCATGAAAATGAATAAACTTTTGAAAATTATTTAAT
131 CAGGAAAATTTCTAAGAAAAAATTAAAAATCATGAAAATGAATAAACTTTTGAAAAATATTTAAT
* *
434856 ATGAATTAAATAATAATATTTGATGAATTTTAAATATTAAAAACTAAAAAAAATCCCTCCAAAAA
196 ATGAATTAAATAATAATATTTAATGAATTTTAAATATAAAAAACTAAAAAAAATCCCTCCAAAAA
* * ** ** * *
434921 CATTTATGGAGTAGAAAACTCTGTATTTCGAAACAAGAGGAATTTCAAAG-A-AAA-TCAATAAC
261 CATTTAAGGAGTAGAAAACTCTGTATTTCGGAATTAGAAAAATTTCAAGGAACAAATTCAAAAAC
434983 TCAT-
326 TCATG
* * * * *
434987 AAAATAAAAGGAAATTTTT-AACATTGATTTAATGGTG-ATTAAATGATAATATTTAGA-GAATT
1 AAAAT-GAATG-AATTTTTGAAAATTGATTTAAT-ATGAATTAAATAATAATATTT-GATGAATT
435049 TT
62 TT
435051 GATGTTCACA
Statistics
Matches: 334, Mismatches: 47, Indels: 23
0.83 0.12 0.06
Matches are distributed among these distances:
326 5 0.01
327 49 0.15
328 13 0.04
329 10 0.03
330 100 0.30
331 24 0.07
332 86 0.26
333 40 0.12
334 7 0.02
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (330 bp):
AAAATGAATGAATTTTTGAAAATTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
AAAATAAAAATAAAGAAGAAATCCCCCGAAAACATTTATAGAGTAGAAAACTCCATATTCAGAAA
CAGGAAAATTTCTAAGAAAAAATTAAAAATCATGAAAATGAATAAACTTTTGAAAAATATTTAAT
ATGAATTAAATAATAATATTTAATGAATTTTAAATATAAAAAACTAAAAAAAATCCCTCCAAAAA
CATTTAAGGAGTAGAAAACTCTGTATTTCGGAATTAGAAAAATTTCAAGGAACAAATTCAAAAAC
TCATG
Found at i:436116 original size:83 final size:83
Alignment explanation
Indices: 435994--436241 Score: 250
Period size: 83 Copynumber: 3.0 Consensus size: 83
435984 CTGATAGGTA
* * * * * * * *
435994 AACAAGGGATGAAAGGTTGACCAGGGCTGAGCTGATAAGTCAACAAAGGGCAAGGGAGTTTACCA
1 AACAAGGGATAAAAGGTTAACTAGGGCTAAACCGATAAGTCAACAAAGGGTAAAGGAGTTTACCA
436059 AGGATTGAGCCGACAAGT
66 AGGATTGAGCCGACAAGT
* * * *
436077 AA-ACGGAGATGAAAA-GTTAACTAGGGCTAAACCGATAAGTCAACAAAAGATAAAGGAGTTCAC
1 AACAAGG-GAT-AAAAGGTTAACTAGGGCTAAACCGATAAGTCAACAAAGGGTAAAGGAGTTTAC
* *
436140 CAGGGATTGAG-CGACAGGT
64 CAAGGATTGAGCCGACAAGT
* * * * *
436159 AAGCAAGGGATAAAAGGTTGACTAGGGCTGAATCAATAAGTCAACAAAGGGTAAAGAAGTTTACC
1 AA-CAAGGGATAAAAGGTTAACTAGGGCTAAACCGATAAGTCAACAAAGGGTAAAGGAGTTTACC
* * *
436224 GAGGACTGAGCCTACAAG
65 AAGGATTGAGCCGACAAG
436242 CAAATGGGGA
Statistics
Matches: 131, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
82 16 0.12
83 104 0.79
84 11 0.08
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.16
Consensus pattern (83 bp):
AACAAGGGATAAAAGGTTAACTAGGGCTAAACCGATAAGTCAACAAAGGGTAAAGGAGTTTACCA
AGGATTGAGCCGACAAGT
Found at i:436781 original size:32 final size:32
Alignment explanation
Indices: 436740--436803 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
436730 GTGGTAACCG
436740 TATGTCAAATAAGAATGAGGCAAATTTGACCA
1 TATGTCAAATAAGAATGAGGCAAATTTGACCA
436772 TATGTCAAATAAGAATGAGGCAAATTTGACCA
1 TATGTCAAATAAGAATGAGGCAAATTTGACCA
436804 GGGTGGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (32 bp):
TATGTCAAATAAGAATGAGGCAAATTTGACCA
Found at i:436824 original size:44 final size:43
Alignment explanation
Indices: 436776--437263 Score: 333
Period size: 44 Copynumber: 11.1 Consensus size: 43
436766 TGACCATATG
* *
436776 TCAAATAAGAATGAGGCAAATTTGACCAGGGTGGTAACCATACA
1 TCAAATAAGAATGA-GAAAATTTGACTAGGGTGGTAACCATACA
* * * * *
436820 TCAAATCAGAATGAAAAGAATCTGACCAAGGTGGTAACCATACA
1 TCAAATAAGAATGAGAA-AATTTGACTAGGGTGGTAACCATACA
* ** * * **
436864 TCAGA-GGGAAATAAGAAGAGTTTGACTAGGGTGGTAACCATATG
1 TCAAATAAG-AATGAGAA-AATTTGACTAGGGTGGTAACCATACA
* * * * * * *
436908 TTAAATAAAAAGGAGGTAGATTTGACTAGGGTGATAACCATACG
1 TCAAATAAGAATGA-GAAAATTTGACTAGGGTGGTAACCATACA
* * * * *
436952 TCAAATCAGAATGAAAAGAATTTGCCTAGGGTGGTAACTATACG
1 TCAAATAAGAATGAGAA-AATTTGACTAGGGTGGTAACCATACA
* * * *
436996 TCAAACCAA-AATGAGAAGAGTTTGACTAGGGTAGTAACTATACA
1 TCAAA-TAAGAATGAGAA-AATTTGACTAGGGTGGTAACCATACA
* *
437040 TCAAACAAGAATGAGGAAAATTTGACTAGGGTGGTCACCATA-A
1 TCAAATAAGAATGA-GAAAATTTGACTAGGGTGGTAACCATACA
* * * * *
437083 GTCAAATTAGAATGAAAAGAATCTGATTAGTGTGGTAACCATACA
1 -TCAAATAAGAATGAGAA-AATTTGACTAGGGTGGTAACCATACA
* *
437128 TCAAAT-CGAAATGAGAAAAGTTTGACTAGGGTGGTAATCATA-A
1 TCAAATAAG-AATGAGAAAA-TTTGACTAGGGTGGTAACCATACA
* * * * **
437171 GTTAAA-AGGAA-GAAGGCAGATTTGACTAAAGTGGTAACCATACA
1 -TCAAATAAGAATG-A-GAAAATTTGACTAGGGTGGTAACCATACA
* * **
437215 TCAAATTAGAATGAAAAGAATCAGACTAGGGTGGTAACCATACA
1 TCAAATAAGAATGAGAA-AATTTGACTAGGGTGGTAACCATACA
437259 TCAAA
1 TCAAA
437264 CCGAAATAAG
Statistics
Matches: 344, Mismatches: 79, Indels: 42
0.74 0.17 0.09
Matches are distributed among these distances:
42 1 0.00
43 40 0.12
44 295 0.86
45 8 0.02
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.23
Consensus pattern (43 bp):
TCAAATAAGAATGAGAAAATTTGACTAGGGTGGTAACCATACA
Found at i:436933 original size:164 final size:163
Alignment explanation
Indices: 436612--436933 Score: 419
Period size: 164 Copynumber: 2.0 Consensus size: 163
436602 GTAACCACAC
* * * * * *
436612 GTCAAATAGGAAGAGGTAGATTTAACTAGGGTGGTAACCATGCATCTAATCAAAATAAAAAGAAT
1 GTCAAATAAGAAGAGGCAAATTTAACCAGGGTGGTAACCATACATCAAATCAAAATAAAAAGAAT
* * * * * *
436677 CTGACCAGGGTGGTAACCATACGTTAGACAAAAATGAGAAGGGTTTGACAAGGGTGGTAACCGTA
66 CTGACCAAGGTGGTAACCATACATCAGACAAAAATAAGAAGAGTTTGACAAGGGTGGTAACCATA
* *
436742 TGTCAAATAAGAATGAGGCAAATTTGACCATAT
131 TGTCAAATAAAAAGGAGGCAAATTTGACCATAT
* * *
436775 GTCAAATAAGAATGAGGCAAATTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAA
1 GTCAAATAAGAA-GAGGCAAATTTAACCAGGGTGGTAACCATACATCAAATCAAAATAAAAAGAA
*** *
436840 TCTGACCAAGGTGGTAACCATACATCAGAGGGAAATAAGAAGAGTTTGACTAGGGTGGTAACCAT
65 TCTGACCAAGGTGGTAACCATACATCAGACAAAAATAAGAAGAGTTTGACAAGGGTGGTAACCAT
* * *
436905 ATGTTAAATAAAAAGGAGGTAGATTTGAC
130 ATGTCAAATAAAAAGGAGGCAAATTTGAC
436934 TAGGGTGATA
Statistics
Matches: 134, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
163 11 0.08
164 123 0.92
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.22
Consensus pattern (163 bp):
GTCAAATAAGAAGAGGCAAATTTAACCAGGGTGGTAACCATACATCAAATCAAAATAAAAAGAAT
CTGACCAAGGTGGTAACCATACATCAGACAAAAATAAGAAGAGTTTGACAAGGGTGGTAACCATA
TGTCAAATAAAAAGGAGGCAAATTTGACCATAT
Found at i:437013 original size:132 final size:132
Alignment explanation
Indices: 436768--437300 Score: 629
Period size: 132 Copynumber: 4.0 Consensus size: 132
436758 GGCAAATTTG
* *
436768 ACCATATGTCAAATAAGAATGAGGCAAATTTGACCAGGGTGGTAACCATACATCAAATCAGAATG
1 ACCATATGTCAAATAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACATCAAATCAGAATG
* * * **
436833 AAAAGAATCTGACCAAGGTGGTAACCATACATCAGAGGGAAATAAGAAGAGTTTGACTAGGGTGG
66 AAAAGAATCTGACTAGGGTGGTAACCATACATCAAACCGAAATAAGAAGAGTTTGACTAGGGTGG
436898 TA
131 TA
* * * * * *
436900 ACCATATGTTAAATAAAAAGGAGGTAGATTTGACTAGGGTGATAACCATACGTCAAATCAGAATG
1 ACCATATGTCAAATAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACATCAAATCAGAATG
* * * * * * *
436965 AAAAGAATTTGCCTAGGGTGGTAACTATACGTCAAACCAAAATGAGAAGAGTTTGACTAGGGTAG
66 AAAAGAATCTGACTAGGGTGGTAACCATACATCAAACCGAAATAAGAAGAGTTTGACTAGGGTGG
437030 TA
131 TA
* ** * * * * *
437032 ACTATACATCAAACAAGAATGAGGAAAATTTGACTAGGGTGGTCACCATA-AGTCAAATTAGAAT
1 ACCATATGTCAAATAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACA-TCAAATCAGAAT
* * * * *
437096 GAAAAGAATCTGATTAGTGTGGTAACCATACATCAAATCGAAATGAGAAAAGTTTGACTAGGGTG
65 GAAAAGAATCTGACTAGGGTGGTAACCATACATCAAACCGAAATAAGAAGAGTTTGACTAGGGTG
437161 GTA
130 GTA
* * * * * * ** *
437164 ATCATAAGTTAAA-AGGAAGAAGGCAGATTTGACTAAAGTGGTAACCATACATCAAATTAGAATG
1 ACCATATGTCAAATAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACATCAAATCAGAATG
* * * *
437228 AAAAGAATCAGACTAGGGTGGTAACCATACATCAAACCGAAATAAGAAGAGTTTGACCAAGGTGA
66 AAAAGAATCTGACTAGGGTGGTAACCATACATCAAACCGAAATAAGAAGAGTTTGACTAGGGTGG
437293 TA
131 TA
437295 ACCATA
1 ACCATA
437301 CAACAAATGG
Statistics
Matches: 333, Mismatches: 66, Indels: 5
0.82 0.16 0.01
Matches are distributed among these distances:
131 104 0.31
132 229 0.69
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (132 bp):
ACCATATGTCAAATAAGAAGGAGGCAAATTTGACTAGGGTGGTAACCATACATCAAATCAGAATG
AAAAGAATCTGACTAGGGTGGTAACCATACATCAAACCGAAATAAGAAGAGTTTGACTAGGGTGG
TA
Found at i:437782 original size:90 final size:89
Alignment explanation
Indices: 437657--437902 Score: 318
Period size: 90 Copynumber: 2.7 Consensus size: 89
437647 TGCCTCAAGA
* * *
437657 AAATCTAGCTTTGTGATGCATCAATACCATTTAGTGGTTGAATGAAGGAGATATGATTAGGAATG
1 AAATCAAGCTTTATGATGCATCAATACCATCTAGTGGTTGAATGAAGG-GATATGATT-GGAATG
* *
437722 TGC-GGGCCACACCCTTACTCTAAGG
64 TGCTAGGCCACACCCTTACCCTAAGG
* * *
437747 AAATCAAGTTTTATGATGCATCAATACCATCTAGTGGTTGAATGAAAGGGATGTGATTGAGAATA
1 AAATCAAGCTTTATGATGCATCAATACCATCTAGTGGTTGAATG-AAGGGATATGATTG-GAATG
*
437812 T-CTAGGCCACACCCTTCCCCTAAGG
64 TGCTAGGCCACACCCTTACCCTAAGG
* *
437837 AAATCAAGCTTTGTGATGCA-CAATACCATCTAGTGGTTGAATGATGGGGATATGATTTGGAATG
1 AAATCAAGCTTTATGATGCATCAATACCATCTAGTGGTTGAATGA-AGGGATATGA-TTGGAATG
437901 TG
64 TG
437903 TGGTTCCCTC
Statistics
Matches: 136, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
88 1 0.01
89 38 0.28
90 93 0.68
91 4 0.03
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (89 bp):
AAATCAAGCTTTATGATGCATCAATACCATCTAGTGGTTGAATGAAGGGATATGATTGGAATGTG
CTAGGCCACACCCTTACCCTAAGG
Found at i:439341 original size:88 final size:87
Alignment explanation
Indices: 439115--439433 Score: 243
Period size: 88 Copynumber: 3.6 Consensus size: 87
439105 AATACAAATG
* * * * * *
439115 CAAGTATCAATAGAATGGCAAATGCATATATGAAAT-AGTGCAAATACCAATCTTATCTAAAGTG
1 CAAGCATCAATAGAAGGGCAAATGC--ATATGAAATGA-TGC-AATACCAATATTATCAAAACTA
* *
439179 CAAATGTGCATGAAATAATGCATCTA
62 CAAATGTGCATGAAATAACGCAACTA
* * * * *
439205 CAAGCACCCAT-GAAGAGGCTAATGCACATGAAATGATGCCAATGCCAATATTATCAAAACTACA
1 CAAGCATCAATAGAAG-GGCAAATGCATATGAAATGATG-CAATACCAATATTATCAAAACTACA
* * *
439269 AATGTGCGTGAGATGACGCAACTA
64 AATGTGCATGAAATAACGCAACTA
* * * * *
439293 CAAGCATCAATAAAAGGGCAAATGCATATGATATGATGCAGATACCAATGTCGTGT-AAAA-TGC
1 CAAGCATCAATAGAAGGGCAAATGCATATGAAATGATGCA-ATACCAATAT--TATCAAAACTAC
* * * *
439356 AAATATGCATGAAACAATGCAAATA
63 AAATGTGCATGAAATAACGCAACTA
* * * *
439381 CAGGCATCAGTA-AAGTGGCAAATGCATATTAAATGATGCAAATGCCAATATTA
1 CAAGCATCAATAGAAG-GGCAAATGCATATGAAATGATGC-AATACCAATATTA
439434 CCTGAATGCA
Statistics
Matches: 180, Mismatches: 40, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
86 1 0.01
87 5 0.03
88 143 0.79
89 13 0.07
90 18 0.10
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.23
Consensus pattern (87 bp):
CAAGCATCAATAGAAGGGCAAATGCATATGAAATGATGCAATACCAATATTATCAAAACTACAAA
TGTGCATGAAATAACGCAACTA
Found at i:439421 original size:20 final size:20
Alignment explanation
Indices: 439398--439469 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
439388 CAGTAAAGTG
439398 GCAAATGCATATTAAATGAT
1 GCAAATGCATATTAAATGAT
**
439418 GCAAATGCCAATATTACCTGAAT
1 GCAAATG-C-ATATTAAATG-AT
* *
439441 GCAAATGCATGTAAAATGAT
1 GCAAATGCATATTAAATGAT
*
439461 ACAAATGCA
1 GCAAATGCA
439470 AGCATCAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 17 0.40
21 7 0.17
22 9 0.21
23 9 0.21
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
GCAAATGCATATTAAATGAT
Found at i:444694 original size:153 final size:153
Alignment explanation
Indices: 444491--444821 Score: 417
Period size: 153 Copynumber: 2.2 Consensus size: 153
444481 ATGTACCCGG
* *
444491 TACCCCTAAAGGACTTAAAAA-TATTATAGATGGGATGAACCTATCCTAAATACCCA-CTTTCGG
1 TACCCCTAAAGGACTTAAAAAGGA-TATAAATGGGATGAACCTATCCTAAATACCCACCTTT-GG
* *
444554 CATAAAAGC-AGACCTAGTGACAA-CTAAGGACTC-GATTCTAGAAAATTATAAAAATGCCCCTA
64 CATAAAAGCGA-ACCGA-TGACAACCT-AGGACTCGGA-TCTAAAAAATTATAAAAATGCCCCTA
* *
444616 -AGGATACCTTCGAA-TTAAAAGTGCCTGA
125 GAGGATACCTT-GAACGTAAAACTGCCTGA
444644 TACCCCTAAAGGACTTAAAAAGGATATAAATGGGATGAACCTATCCTAAATACCCACCTTTGGCA
1 TACCCCTAAAGGACTTAAAAAGGATATAAATGGGATGAACCTATCCTAAATACCCACCTTTGGCA
* * *
444709 TAAAAGCGAACCGATTACAACCTAGGACTCGGATCTAAAAAATTATTAAAATGCCCCTAGGGGAT
66 TAAAAGCGAACCGATGACAACCTAGGACTCGGATCTAAAAAATTATAAAAATGCCCCTAGAGGAT
* * *
444774 ACCTTTAACGTAGAACTGCTTGA
131 ACCTTGAACGTAAAACTGCCTGA
*
444797 T-CTCCCTAAAGGATTTAAAAAGGAT
1 TAC-CCCTAAAGGACTTAAAAAGGAT
444822 GAAGGATGTG
Statistics
Matches: 157, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
152 39 0.25
153 112 0.71
154 6 0.04
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (153 bp):
TACCCCTAAAGGACTTAAAAAGGATATAAATGGGATGAACCTATCCTAAATACCCACCTTTGGCA
TAAAAGCGAACCGATGACAACCTAGGACTCGGATCTAAAAAATTATAAAAATGCCCCTAGAGGAT
ACCTTGAACGTAAAACTGCCTGA
Found at i:446226 original size:130 final size:130
Alignment explanation
Indices: 446089--446395 Score: 379
Period size: 130 Copynumber: 2.4 Consensus size: 130
446079 CATTTCCCGA
* * ** *
446089 TGAAAAATTAATGTTTTGGTGATAAAAAGGGGGTTGGAGTATCCCCGATGGTGTCAA-A-TCGAT
1 TGAAAAATTAATATTTTAGAAATAAAAATGGGGTTGGAGTATCCCCGATGGTG--AACAGTCGAT
* *
446152 ATTTTGAAAATAAAAAT-GGGGTTACAGTATCCTCT-TGAAAATAACGGGGTTGGAGTATCCCCG
64 ATTTTGAAAAT-AAAATCGGGGTTACAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCG
446215 ATGG
127 ATGG
* * * * * * * *
446219 TGGAAAATCAATATTTTAGAAAGAAAAATGAGGTTAGAGTATCCTCGATGGTGAACAGTTGATGT
1 TGAAAAATTAATATTTTAGAAATAAAAATGGGGTTGGAGTATCCCCGATGGTGAACAGTCGATAT
* *
446284 TTTGAAAATAAAATCGGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCTGATGG
66 TTTGAAAATAAAATCGGGGTTACAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGG
*
446349 TGAAAAATTAATATTTTAGAAATTAAAACTGGGGTTGGAGTATCCCC
1 TGAAAAATTAATATTTTAGAAA-TAAAAATGGGGTTGGAGTATCCCC
446396 TTGAAAACAA
Statistics
Matches: 148, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
128 2 0.01
129 6 0.04
130 120 0.81
131 20 0.14
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (130 bp):
TGAAAAATTAATATTTTAGAAATAAAAATGGGGTTGGAGTATCCCCGATGGTGAACAGTCGATAT
TTTGAAAATAAAATCGGGGTTACAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGG
Found at i:446254 original size:79 final size:79
Alignment explanation
Indices: 446118--446264 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 79
446108 TGATAAAAAG
** * * *
446118 GGGGTTGGAGTATCCCCGATGGTGTCAAATCGATATTTTGAAAATAAAAATGGGGTTACAGTATC
1 GGGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTGAAAAGAAAAATGAGGTTACAGTATC
446183 CTCTTGAAAATAAC
66 CTCTTGAAAATAAC
*
446197 GGGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTT-AGAAAGAAAAATGAGGTTAGAGTAT
1 GGGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTGA-AAAGAAAAATGAGGTTACAGTAT
446261 CCTC
65 CCTC
446265 GATGGTGAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 1 0.02
79 60 0.98
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTGAAAAGAAAAATGAGGTTACAGTATC
CTCTTGAAAATAAC
Found at i:446391 original size:80 final size:80
Alignment explanation
Indices: 446250--446423 Score: 212
Period size: 80 Copynumber: 2.2 Consensus size: 80
446240 AGAAAAATGA
* * * * *
446250 GGTTAGAGTAT-CCTCGATGGTGAACAGTTGATGTTTTGAAAATAAAATCGGGGTTAGAGTATCC
1 GGTTGGAGTATCCCTCGATGGTGAAAAATTAATATTTTGAAAATAAAATCGGGGTTAGAGTATCC
*
446314 CCTCAG-AAATAACGG
66 CCT-AGAAAACAACGG
* *
446329 GGTTGGAGTATCCCT-GATGGTGAAAAATTAATATTTTAGAAATTAAAA-CTGGGGTTGGAGTAT
1 GGTTGGAGTATCCCTCGATGGTGAAAAATTAATATTTT-GAAAATAAAATC-GGGGTTAGAGTAT
*
446392 CCCCTTGAAAACAACGG
64 CCCCTAGAAAACAACGG
446409 GGTTGGAGTATCCCT
1 GGTTGGAGTATCCCT
446424 TCAGAGACAA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
79 30 0.37
80 52 0.63
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (80 bp):
GGTTGGAGTATCCCTCGATGGTGAAAAATTAATATTTTGAAAATAAAATCGGGGTTAGAGTATCC
CCTAGAAAACAACGG
Found at i:446411 original size:28 final size:29
Alignment explanation
Indices: 446379--446449 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
446369 AATTAAAACT
*
446379 GGGGTTGGAGTATCCCCTTGA-AAACAAC
1 GGGGTTGGAGTATCCCCTTCAGAAACAAC
*
446407 GGGGTTGGAGTAT-CCCTTCAGAGACAAC
1 GGGGTTGGAGTATCCCCTTCAGAAACAAC
446435 GGGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
446450 TCAATGGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 6 0.15
28 32 0.82
29 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.23
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCTTCAGAAACAAC
Found at i:446491 original size:187 final size:185
Alignment explanation
Indices: 446250--446606 Score: 459
Period size: 187 Copynumber: 1.9 Consensus size: 185
446240 AGAAAAATGA
* * * *
446250 GGTTAGAGTATCCTCGATGGTGAACAGTTGATGTTTTGAAAATAAAATCGGGGTTAGAGTATCCC
1 GGTTAGAGTATCCTCAATGGTAAAAAGTTGATATTTTGAAAATAAAATCGGGGTTAGAGTATCCC
* *
446315 CTC-AGAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATTAATATTTTAGAAATTAAAACT
66 CTCGA-AAATAACAGGGTTGGAGTATCCCTGATGGTGAAAAATCAATATTTTAG-AATTAAAA-T
* * *
446379 GGGGTTGGAGTATCCCC-TTGAAAACAACGGGGTTGGAGTATCCCTTCAGAGACAACGG
128 CGGGTTGGAGTATCCCCGCTG-AAACAACGGGGTTAGAGTATCCCTTCAGAGACAACGG
* * * *
446437 GGTTGGAGTATCCTCAATGGTAAAAATTTGATATTTT-AGAAATAAAATCGGGGTTGGAGTGTCC
1 GGTTAGAGTATCCTCAATGGTAAAAAGTTGATATTTTGA-AAATAAAATCGGGGTTAGAGTATCC
* * * * * * *
446501 CTTCGAAAATAATAGGGTTGGAGTATCCTTGATGGTGGAATATCGATATTTTAGAATTTAAATCG
65 CCTCGAAAATAACAGGGTTGGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAATTAAAATCG
*
446566 GGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCC
130 GGTTGGAGTATCCCCGCTGAAACAACGGGGTTAGAGTATCC
446607 TCGATGGTGG
Statistics
Matches: 146, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
185 37 0.25
186 10 0.07
187 98 0.67
188 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (185 bp):
GGTTAGAGTATCCTCAATGGTAAAAAGTTGATATTTTGAAAATAAAATCGGGGTTAGAGTATCCC
CTCGAAAATAACAGGGTTGGAGTATCCCTGATGGTGAAAAATCAATATTTTAGAATTAAAATCGG
GTTGGAGTATCCCCGCTGAAACAACGGGGTTAGAGTATCCCTTCAGAGACAACGG
Found at i:446549 original size:79 final size:79
Alignment explanation
Indices: 446406--446797 Score: 472
Period size: 79 Copynumber: 5.0 Consensus size: 79
446396 TTGAAAACAA
** * * * * * *
446406 CGGGGTTGGAGTATCCCTTCAGAGACAACGGGGTTGGAGTATCCTCAATGGT-AAAAATTTGATA
1 CGGGGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCCTCGATGGTGGAAAA-TTGATA
446470 TTTTAGAAATAAAAT
65 TTTTAGAAATAAAAT
* ** * * * * * *
446485 CGGGGTTGGAGTGTCCCTTC-GAAAATAATAGGGTTGGAGTATCCTTGATGGTGGAATATCGATA
1 CGGGGTTGGAGTATCCCCGCTG-AAACAATGGGGTTAGAGTATCCTCGATGGTGGAAAATTGATA
* *
446549 TTTTAGAATTTAAAT
65 TTTTAGAAATAAAAT
446564 C-GGGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCCTCGATGGTGGAAAATTGATAT
1 CGGGGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCCTCGATGGTGGAAAATTGATAT
446628 TTTAGAAATAAAAT
66 TTTAGAAATAAAAT
* *
446642 TGGGGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCCTCGATGGTAGAAAATTGATAT
1 CGGGGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCCTCGATGGTGGAAAATTGATAT
446707 TTTAGAAATAAAAT
66 TTTAGAAATAAAAT
* * * *
446721 TGGGGTTGGAGTATCCCCTCAGAAA-AATGGGGTTGGAGTATCC-CTGATGGTGGAAAATT-AGT
1 CGGGGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCCTC-GATGGTGGAAAATTGA-T
*
446783 ATTTTAAAAATAAAA
64 ATTTTAGAAATAAAA
446798 ACATCAATGA
Statistics
Matches: 277, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
77 2 0.01
78 110 0.40
79 162 0.58
80 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCCTCGATGGTGGAAAATTGATAT
TTTAGAAATAAAAT
Found at i:446614 original size:157 final size:159
Alignment explanation
Indices: 446408--446797 Score: 497
Period size: 157 Copynumber: 2.5 Consensus size: 159
446398 GAAAACAACG
* * * * *
446408 GGGTTGGAGTATCCCTTCAGAGACAACGGGGTTGGAGTATCCTCAATGGT-AAAAATTTGATATT
1 GGGTTGGAGTATCCCCTCAGAAACAATGGGGTTGGAGTATCCTCGATGGTGGAAAATTTGATATT
* ** * * *
446472 TTAGAAATAAAATCGGGGTTGGAGTGTCCCTTC-GAAAATAATAGGGTTGGAGTATCCTTGATGG
66 TTAGAAATAAAATCGGGGTTGGAGTATCCCCGCTG-AAACAATAGGGTTAGAGTATCCTCGATGG
* * * *
446536 TGGAATATCGATATTTTAGAATTTAAA-TC
130 TAGAAAATCGATATTTTAGAAATAAAATTC
* * *
446565 GGGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCCTCGATGGTGGAAAA-TTGATATT
1 GGGTTGGAGTATCCCCTCAGAAACAATGGGGTTGGAGTATCCTCGATGGTGGAAAATTTGATATT
* *
446629 TTAGAAATAAAATTGGGGTTGGAGTATCCCCGCTGAAACAATGGGGTTAGAGTATCCTCGATGGT
66 TTAGAAATAAAATCGGGGTTGGAGTATCCCCGCTGAAACAATAGGGTTAGAGTATCCTCGATGGT
* *
446694 AGAAAATTGATATTTTAGAAATAAAATTG
131 AGAAAATCGATATTTTAGAAATAAAATTC
*
446723 GGGTTGGAGTATCCCCTCAGAAA-AATGGGGTTGGAGTATCC-CTGATGGTGGAAAATTAG-TAT
1 GGGTTGGAGTATCCCCTCAGAAACAATGGGGTTGGAGTATCCTC-GATGGTGGAAAATTTGATAT
*
446785 TTTAAAAATAAAA
65 TTTAGAAATAAAA
446798 ACATCAATGA
Statistics
Matches: 201, Mismatches: 27, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
156 1 0.00
157 171 0.85
158 29 0.14
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (159 bp):
GGGTTGGAGTATCCCCTCAGAAACAATGGGGTTGGAGTATCCTCGATGGTGGAAAATTTGATATT
TTAGAAATAAAATCGGGGTTGGAGTATCCCCGCTGAAACAATAGGGTTAGAGTATCCTCGATGGT
AGAAAATCGATATTTTAGAAATAAAATTC
Found at i:451837 original size:20 final size:20
Alignment explanation
Indices: 451812--451906 Score: 111
Period size: 20 Copynumber: 4.7 Consensus size: 20
451802 AAAAACCTAG
*
451812 ATGTATCGATACAATGAGAA
1 ATGTATCAATACAATGAGAA
451832 ATGTATCAATACAATGAGAA
1 ATGTATCAATACAATGAGAA
**
451852 ATGTATCAATACAATTTGAA
1 ATGTATCAATACAATGAGAA
* *
451872 GCATGTATCGATACATTGA-AGA
1 --ATGTATCAATACAATGAGA-A
451894 ATGTATCAATACA
1 ATGTATCAATACA
451907 TTTAGGTCAA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 49 0.77
21 1 0.02
22 14 0.22
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (20 bp):
ATGTATCAATACAATGAGAA
Found at i:451943 original size:93 final size:93
Alignment explanation
Indices: 451832--452002 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
451822 ACAATGAGAA
*
451832 ATGTATCAATACAATGAGAAATGTATCAATACAATTTGAAGCATGTATCGATACATTGAAGAATG
1 ATGTATCAATACAATGAGAAATGTATCAATACAATTTAAAGCATGTATCGATACATTGAAGAATG
451897 TATCAATACATTTAGGTCAAAAACCCAG
66 TATCAATACATTTAGGTCAAAAACCCAG
* * * * **
451925 ATGTATCGATATAATGAGAAATGTATCGATACAATTTAAAGCATGTATCGATACATTTATTAATG
1 ATGTATCAATACAATGAGAAATGTATCAATACAATTTAAAGCATGTATCGATACATTGAAGAATG
*
451990 TATCGATACATTT
66 TATCAATACATTT
452003 CCTTAGTAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (93 bp):
ATGTATCAATACAATGAGAAATGTATCAATACAATTTAAAGCATGTATCGATACATTGAAGAATG
TATCAATACATTTAGGTCAAAAACCCAG
Found at i:451973 original size:22 final size:21
Alignment explanation
Indices: 451925--451999 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 21
451915 AAAAACCCAG
* * *
451925 ATGTATCGATATAA-TGAGAA
1 ATGTATCGATACAATTTATAA
451945 ATGTATCGATACAATTTA-AA
1 ATGTATCGATACAATTTATAA
*
451965 GCATGTATCGATAC-ATTTATTA
1 --ATGTATCGATACAATTTATAA
451987 ATGTATCGATACA
1 ATGTATCGATACA
452000 TTTCCTTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
20 27 0.57
21 7 0.15
22 13 0.28
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTTATAA
Found at i:451991 original size:113 final size:113
Alignment explanation
Indices: 451793--452001 Score: 280
Period size: 113 Copynumber: 1.8 Consensus size: 113
451783 GTATTGATAT
* *
451793 ATTTGGGTAAAAAACCTAGATGTATCGATACAATGAGAAATGTATCAATACAATGAGAAATGTAT
1 ATTTAGGTAAAAAACCCAGATGTATCGATACAATGAGAAATGTATCAATACAATGAGAAATGTAT
*
451858 CAATACAATTTGAAGCATGTATCGATACATTGAAGAATGTATCAATAC
66 CAATACAATTTGAAGAATGTATCGATACATTGAAGAATGTATCAATAC
* * * *
451906 ATTTAGGTCAAAAACCCAGATGTATCGATATAATGAGAAATGTATCGATACAATTTA-AAGCATG
1 ATTTAGGTAAAAAACCCAGATGTATCGATACAATGAGAAATGTATCAATACAA-TGAGAA--ATG
* **
451970 TATCGATAC-ATTT-ATTAATGTATCGATACATT
63 TATCAATACAATTTGAAGAATGTATCGATACATT
452002 TCCTTAGTAG
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
113 66 0.80
114 6 0.07
115 11 0.13
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (113 bp):
ATTTAGGTAAAAAACCCAGATGTATCGATACAATGAGAAATGTATCAATACAATGAGAAATGTAT
CAATACAATTTGAAGAATGTATCGATACATTGAAGAATGTATCAATAC
Found at i:452832 original size:62 final size:57
Alignment explanation
Indices: 452713--452841 Score: 159
Period size: 62 Copynumber: 2.2 Consensus size: 57
452703 AGATGATAAG
** *
452713 GATGAGAAAAATGATAAAGGTGCCAATTGCTAATTCAAGGCCGATATTAGGCTTAAA
1 GATGAGAAAAATGATAAAAATGACAATTGCTAATTCAAGGCCGATATTAGGCTTAAA
* *
452770 GATGAGAAGAATGATAAAAAATGACAATATGCTGATTCAAGGCCAGCGATATTAGGCTTAAA
1 GATGAGAAAAATGAT-AAAAATGACAAT-TGCTAATTCAAGG-C--CGATATTAGGCTTAAA
*
452832 GATGACAAAA
1 GATGAGAAAA
452842 GTGCCGACGT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 14 0.23
58 9 0.15
59 12 0.20
60 1 0.02
62 24 0.40
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (57 bp):
GATGAGAAAAATGATAAAAATGACAATTGCTAATTCAAGGCCGATATTAGGCTTAAA
Found at i:453039 original size:52 final size:52
Alignment explanation
Indices: 452983--453195 Score: 158
Period size: 52 Copynumber: 3.9 Consensus size: 52
452973 CGACATTGAG
* * *
452983 CTTAAAAATGTTAAAGATGCTAATATACTAATTCAAGGCCAGTAATATCAGA
1 CTTAAAAATGATAAAGATGCCAATATACTAATTCAAGGCCAGCAATATCAGA
* * * * *
453035 CTTAAAGATGATAAGAATGATAGAGGTGCCAATATGCTGATTCATGGCCAGCAATATCAGG
1 CTTAAA-A--AT--G-AT-A-A-AGATGCCAATATACTAATTCAAGGCCAGCAATATCAGA
** * * * * * *
453096 CTTAGGAATAATAAAGATGCTAATATGCTAATTCAAGGCCAACGATATCGGA
1 CTTAAAAATGATAAAGATGCCAATATACTAATTCAAGGCCAGCAATATCAGA
* * *
453148 CTTAAAAATGACAAA-AGTGCCAATATACTGATTCAAGGCCAGCGATAT
1 CTTAAAAATGATAAAGA-TGCCAATATACTAATTCAAGGCCAGCAATAT
453196 TGGACTTAGA
Statistics
Matches: 124, Mismatches: 27, Indels: 20
0.73 0.16 0.12
Matches are distributed among these distances:
51 1 0.01
52 74 0.60
53 2 0.02
54 1 0.01
55 4 0.03
57 1 0.01
58 3 0.02
59 1 0.01
60 2 0.02
61 35 0.28
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (52 bp):
CTTAAAAATGATAAAGATGCCAATATACTAATTCAAGGCCAGCAATATCAGA
Found at i:453201 original size:52 final size:52
Alignment explanation
Indices: 453060--453292 Score: 166
Period size: 52 Copynumber: 4.5 Consensus size: 52
453050 AATGATAGAG
* * ** *
453060 GTGCCAATATGCTGATTCATGGCCAGCAATATCAGG-CTTAGGAAT-AATAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCAATAT-TGGACTTAAAAATGAAGAAA
* * * * *
453111 GATGCTAATATGCTAATTCAAGGCCAACGATATCGGACTTAAAAATGACA-AAA
1 G-TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGA-AGAAA
* * * * ** *
453164 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAGAGATGGTGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGAAGAAA
** * * * * * *
453216 GTAACAATATGTTGATCCAAGACCAGCAACATTGGACTTGAAGATGAAGAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGAAGAAA
* * *
453268 GTGCTAATATACTGATTCAGGGCCA
1 GTGCCAATATGCTGATTCAAGGCCA
453293 ACGACATTAG
Statistics
Matches: 138, Mismatches: 39, Indels: 9
0.74 0.21 0.05
Matches are distributed among these distances:
51 3 0.02
52 129 0.93
53 5 0.04
54 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (52 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAATGAAGAAA
Found at i:453469 original size:32 final size:32
Alignment explanation
Indices: 453433--453583 Score: 151
Period size: 32 Copynumber: 4.7 Consensus size: 32
453423 TGGAAGGGGA
*
453433 TGCCACCAACGTGTGTGGGCTTTTGAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAGAAGGT
*
453465 TGCCACCAACTTGTGTGGGC-TTTGAGGAAGAT
1 TGCCACCAACTTGTGTGGGCTTTTGA-GAAGGT
* * * * *
453497 TACCACCGACTTGTATGGGCTTTGGGGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAGAAGGT
** * ** *
453529 TGCCACCGGCTTGTGTGAGCTTTCAAGAAAGGA
1 TGCCACCAACTTGTGTGGGCTTTTGAG-AAGGT
*
453562 TGCGACCAACTTGTGTGGGCTT
1 TGCCACCAACTTGTGTGGGCTT
453584 AAAAGGATGA
Statistics
Matches: 96, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
31 5 0.05
32 66 0.69
33 25 0.26
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTTGAGAAGGT
Found at i:454240 original size:28 final size:27
Alignment explanation
Indices: 454193--454279 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
454183 GACCATAGCC
*
454193 ATTGCAAGTTTCTTGATTCCACTGAGG
1 ATTGCAATTTTCTTGATTCCACTGAGG
* *
454220 ATTGCAATTTGTCATGATTCCTCT-AGGG
1 ATTGCAATTT-TCTTGATTCCACTGA-GG
* * *
454248 ATTAGCATTTTTCTTGATTCCATTGAAG
1 ATT-GCAATTTTCTTGATTCCACTGAGG
454276 ATTG
1 ATTG
454280 TAGGCTGCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
27 11 0.23
28 30 0.62
29 7 0.15
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTGCAATTTTCTTGATTCCACTGAGG
Found at i:455214 original size:12 final size:12
Alignment explanation
Indices: 455186--455226 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
455176 ACCCTTCTTT
455186 TTTTGTTTTTTAG
1 TTTT-TTTTTTAG
455199 --TTTTTTTTAG
1 TTTTTTTTTTAG
*
455209 TTTTTTTTTTAA
1 TTTTTTTTTTAG
455221 TTTTTT
1 TTTTTT
455227 GTATACGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 15 0.60
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTTAG
Found at i:455217 original size:11 final size:10
Alignment explanation
Indices: 455191--455216 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
455181 TCTTTTTTTG
455191 TTTTTTAGTT
1 TTTTTTAGTT
455201 TTTTTTAGTT
1 TTTTTTAGTT
455211 TTTTTT
1 TTTTTT
455217 TTAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (10 bp):
TTTTTTAGTT
Found at i:460715 original size:13 final size:13
Alignment explanation
Indices: 460697--460753 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
460687 CATAAAGTAT
460697 TGTATCGATACAG
1 TGTATCGATACAG
460710 TGTATCGATACATAAGTG
1 TGTATCGATAC---A--G
*
460728 TTGTATCGATACAA
1 -TGTATCGATACAG
460742 TGTATCGATACA
1 TGTATCGATACA
460754 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 23 0.62
16 2 0.05
18 1 0.03
19 11 0.30
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:460734 original size:19 final size:19
Alignment explanation
Indices: 460676--460772 Score: 83
Period size: 19 Copynumber: 5.7 Consensus size: 19
460666 TTTCAATGAT
*
460676 TTGTATCGATACATAAAGTA
1 TTGTATCGATACAT-AAGTG
460696 TTGTATCGATAC---A--G
1 TTGTATCGATACATAAGTG
460710 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
460728 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
460742 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
460760 TTGTATCGATACA
1 TTGTATCGATACA
460773 ATGTAAGCTA
Statistics
Matches: 64, Mismatches: 1, Indels: 25
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
15 2 0.03
16 2 0.03
17 2 0.03
18 1 0.02
19 23 0.36
20 12 0.19
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:460737 original size:32 final size:32
Alignment explanation
Indices: 460677--460777 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
460667 TTCAATGATT
*
460677 TGTATCGATACATAAAGTATTGTATCGATACAG
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
*
460710 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
460742 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
460774 TGTA
1 TGTA
460778 AGCTACTGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:460833 original size:13 final size:13
Alignment explanation
Indices: 460815--460839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
460805 ATCACTCAAA
460815 TGTATCGATACAT
1 TGTATCGATACAT
460828 TGTATCGATACA
1 TGTATCGATACA
460840 GTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:460883 original size:86 final size:84
Alignment explanation
Indices: 460729--460912 Score: 205
Period size: 86 Copynumber: 2.2 Consensus size: 84
460719 ACATAAGTGT
* *
460729 TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATGTAAGCTACTGCCAAAAAA
1 TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATACAATGTAAGCAACTGCC-AAAAA
*
460794 TGTATCGATACA-TCACTCAAA
65 TGTATCGATACACT-A-TAAAA
* * * *
460815 TGTATCGATACATTGTATCGATACAGTGA-TCTTTGTATCGATAC-ATGTAGGCAAATTTGCC-C
1 TGTATCGATACATTGTATCGATACA-TAAGT-TTTGTATCGATACAATGTAAGC-AA-CTGCCAA
*
460877 AGATGTATCGATACACTATAAAA
62 AAATGTATCGATACACTATAAAA
460900 TGTATCGATACAT
1 TGTATCGATACAT
460913 GCAGGCAAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
85 17 0.20
86 47 0.55
87 17 0.20
88 4 0.05
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (84 bp):
TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATACAATGTAAGCAACTGCCAAAAAT
GTATCGATACACTATAAAA
Found at i:460904 original size:52 final size:52
Alignment explanation
Indices: 460848--460976 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
460838 CAGTGATCTT
* *
460848 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
460900 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
*
460952 TGTATCGGTACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
460977 TCATATTTCA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
Found at i:467714 original size:12 final size:11
Alignment explanation
Indices: 467697--467753 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
467687 AAAAATGATG
467697 AAAAAAAAACAA
1 AAAAAAAAAC-A
467709 ACAAAAAAAACA
1 A-AAAAAAAACA
*
467721 CAAAAAAAA-A
1 AAAAAAAAACA
*
467731 AAAACAAAACA
1 AAAAAAAAACA
467742 AAAAATAAAACA
1 AAAAA-AAAACA
467754 TAGAAAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
10 8 0.21
11 13 0.34
12 8 0.21
13 9 0.24
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:467714 original size:14 final size:14
Alignment explanation
Indices: 467697--467746 Score: 73
Period size: 15 Copynumber: 3.4 Consensus size: 14
467687 AAAAATGATG
467697 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
*
467711 AAAAAAAACACAAAA
1 AAAAAAAA-ACAAAC
467726 AAAAAAAAACAAAAC
1 AAAAAAAAAC-AAAC
467741 AAAAAA
1 AAAAAA
467747 TAAAACATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 10 0.31
15 22 0.69
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAC
Found at i:469145 original size:34 final size:34
Alignment explanation
Indices: 469092--469209 Score: 141
Period size: 34 Copynumber: 3.4 Consensus size: 34
469082 TCCGTGGCAC
469092 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
469126 CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTCC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTT-T
* * *
469161 CCTTTTAAAGTCCACAAC-CCTATGGCAC-CTTGTT
1 CCTTTT-AAGCCCACAACTCC-GTGGCACTCTTTTT
469195 CCTTTTAAGCCCACA
1 CCTTTTAAGCCCACA
469210 CAAGTCGGTG
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
33 8 0.11
34 37 0.51
35 11 0.15
36 17 0.23
ACGTcount: A:0.20, C:0.36, G:0.11, T:0.32
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:469238 original size:33 final size:32
Alignment explanation
Indices: 469201--469590 Score: 609
Period size: 33 Copynumber: 11.9 Consensus size: 32
469191 TGTTCCTTTT
*
469201 AAGCCCACACAAGTCGGTGGCAACCTTCTTCCA
1 AAGCCCACACAAGTCGGTGGCAACCTTC-TCTA
*
469234 AAGCCCACACAAGTCGGTGGCAACCCTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCTA
*
469266 AAGCCCACACAAGTTGGTGGCAACCATTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACC-TTCTCTA
* *
469299 AAGCCCACACAAGTCGGTGGCAACTTTCTTCCA
1 AAGCCCACACAAGTCGGTGGCAACCTTC-TCTA
*
469332 AAGCCCACACAAGTCGGTGGCAACCATTCTTTA
1 AAGCCCACACAAGTCGGTGGCAACC-TTCTCTA
469365 AAGCCCACACAAGTCGGTGGCAACCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCTA
* *
469397 AAGCCCACACAAGTCGGTGGCAACTTTCTTCCA
1 AAGCCCACACAAGTCGGTGGCAACCTTC-TCTA
469430 AAGCCCACACAAGTCGGTGGCAACCATTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACC-TTCTCTA
*
469463 AAGCCCATACAAGTCGGTGGCAACCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCTA
469495 AAGCCCACACAAGTCGGTGGCAACCTTCTTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTC-TCTA
*
469528 AAGCCCACACAAGTTGGTGGCAACCATTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACC-TTCTCTA
469561 AAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAGCCCACACAAGTCGGTGGCAA-CCTTCT
469591 AAGTCCAATG
Statistics
Matches: 330, Mismatches: 19, Indels: 16
0.90 0.05 0.04
Matches are distributed among these distances:
32 97 0.29
33 222 0.67
34 11 0.03
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.20
Consensus pattern (32 bp):
AAGCCCACACAAGTCGGTGGCAACCTTCTCTA
Found at i:469274 original size:98 final size:96
Alignment explanation
Indices: 469201--469590 Score: 620
Period size: 98 Copynumber: 4.0 Consensus size: 96
469191 TGTTCCTTTT
*
469201 AAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAACC-CTCTCT
1 AAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTCT
*
469265 AAAGCCCACACAAGTTGGTGGCAACCATTCTCTA
66 AAAG-CC-CACAAGTCGGTGGCAACC-TTCTCTA
* *
469299 AAGCCCACACAAGTCGGTGGCAACTTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTTT
1 AAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTCT
469364 AAAGCCCACACAAGTCGGTGGCAACCTTCTCTA
66 AAAG-CC-CACAAGTCGGTGGCAACCTTCTCTA
*
469397 AAGCCCACACAAGTCGGTGGCAACTTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTCT
1 AAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTCT
469462 AAAGCCCATACAAGTCGGTGGCAACCTTCTCTA
66 AAAGCCC--ACAAGTCGGTGGCAACCTTCTCTA
* *
469495 AAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTTGGTGGCAACCATTCTCT
1 AAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTCT
469560 AAAGCCCACACAAGTCGGTGGCAACCCTTCT
66 AAAG-CC-CACAAGTCGGTGGCAA-CCTTCT
469591 AAGTCCAATG
Statistics
Matches: 278, Mismatches: 8, Indels: 11
0.94 0.03 0.04
Matches are distributed among these distances:
96 1 0.00
97 2 0.01
98 237 0.85
99 37 0.13
100 1 0.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.20
Consensus pattern (96 bp):
AAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTCT
AAAGCCCACAAGTCGGTGGCAACCTTCTCTA
Found at i:469585 original size:131 final size:130
Alignment explanation
Indices: 469201--469590 Score: 631
Period size: 131 Copynumber: 3.0 Consensus size: 130
469191 TGTTCCTTTT
* *
469201 AAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTC-TCTAAAGCCCACACAAGTCGGTGGCAACCTTCTCTA
*
469266 AAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAA-CTTTCTTC
65 AAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATTC-TC
469330 CA
129 CA
*
469332 AAGCCCACACAAGTCGGTGGCAACCATTCTTTAAAGCCCACACAAGTCGGTGGCAACCTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACC-TTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTCTA
* * *
469397 AAGCCCACACAAGTCGGTGGCAA-CTTTCTTCCAAAGCCCACACAAGTCGGTGGCAACCATTCTC
65 AAGCCCACACAAGTTGGTGGCAACCATTC-TCTAAAGCCCACACAAGTCGGTGGCAACCATTCTC
*
469461 TA
129 CA
*
469463 AAGCCCATACAAGTCGGTGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTC-TCTA
*
469528 AAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
65 AAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATTCT
469591 AAGTCCAATG
Statistics
Matches: 240, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
130 38 0.16
131 191 0.80
132 11 0.05
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.20
Consensus pattern (130 bp):
AAGCCCACACAAGTCGGTGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTCTAA
AGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATTCTCCA
Found at i:469702 original size:49 final size:49
Alignment explanation
Indices: 469590--470336 Score: 912
Period size: 49 Copynumber: 15.7 Consensus size: 49
469580 GCAACCCTTC
* *
469590 TAAGTCCAATGTAGCTGGCCTTGAATCAGCAAATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
*
469633 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
* *
469682 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC--C--
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
*
469726 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TCTT
* *
469774 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
* * *
469823 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACC-TC--C--
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
*
469867 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TCTT
*
469915 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
*
469964 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC--
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
*
470007 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TCTT
* *
470056 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TCTTCTT
* * * *
470108 TAAGTCCAATTTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
*
470157 TAAGTCCAATACAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
* *
470206 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
*
470249 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CTTCTT
* * * * *
470301 TAAGTTCAATGTAACTGGCCTTGAATTAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
470337 ACATCCTTTT
Statistics
Matches: 620, Mismatches: 42, Indels: 75
0.84 0.06 0.10
Matches are distributed among these distances:
43 186 0.30
44 3 0.00
45 3 0.00
46 5 0.01
47 3 0.00
48 5 0.01
49 332 0.54
50 4 0.01
51 1 0.00
52 78 0.13
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
Found at i:469747 original size:92 final size:94
Alignment explanation
Indices: 469590--470291 Score: 877
Period size: 92 Copynumber: 7.5 Consensus size: 94
469580 GCAACCCTTC
* *
469590 TAAGTCCAATGTAGCTGGCCTTGAATCAGCAAATTGGCACCTT-T-AAGTCCAATATCGCTGGCC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCAAGTCCAATATCGCTGGCC
469653 TTGAATCAGCATATTGGCACCTTCTTCTT
66 TTGAATCAGCATATTGGCACCTTCTTCTT
* *
469682 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC-CAAGTCCAATATCGCTGGCC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCAAGTCCAATATCGCTGGCC
469745 TTGAATCAGCATATTGGCACCTT-TATCTT
66 TTGAATCAGCATATTGGCACCTTCT-TCTT
* * * *
469774 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TC---AAGTCCAATATCGCT
* *
469839 GGCCTTGAATCAACACATTGGCACC-TC--C--
62 GGCCTTGAATCAGCATATTGGCACCTTCTTCTT
* *
469867 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TC-TCAAGTCCAATATCGCT
469931 GGCCTTGAATCAGCATATTGGCACCTTCTTCTT
62 GGCCTTGAATCAGCATATTGGCACCTTCTTCTT
* *
469964 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCT-AAGTCCAATATTGCTGGCC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCAAGTCCAATATCGCTGGCC
470027 TTGAATCAGCATATTGGCACCTT-TATCTT
66 TTGAATCAGCATATTGGCACCTTCT-TCTT
* *
470056 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATTTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TC-TC---AAGTCCAATATC
* *
470121 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
59 GCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
* * *
470157 TAAGTCCAATACAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TC---AAGTCCAATATCGCT
*
470222 GGCCTTGAATCAGCACATTGGCA----C--CTT
62 GGCCTTGAATCAGCATATTGGCACCTTCTTCTT
470249 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
470292 TTCCATCTTT
Statistics
Matches: 550, Mismatches: 30, Indels: 60
0.86 0.05 0.09
Matches are distributed among these distances:
91 3 0.01
92 327 0.59
93 5 0.01
94 4 0.01
95 7 0.01
96 2 0.00
97 2 0.00
98 117 0.21
99 1 0.00
101 82 0.15
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (94 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCAAGTCCAATATCGCTGGCC
TTGAATCAGCATATTGGCACCTTCTTCTT
Found at i:469839 original size:141 final size:141
Alignment explanation
Indices: 469591--470290 Score: 1059
Period size: 141 Copynumber: 5.0 Consensus size: 141
469581 CAACCCTTCT
* * *
469591 AAGTCCAATGTAGCTGGCCTTGAATCAGCAAATTGGCA-C-----CTTTAAGTCCAATATCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
*
469650 GCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACA
66 GCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
469715 TTGGCACCTCC
131 TTGGCACCTCC
469726 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
* * *
469791 GCCTTAAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACA
66 GCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
469856 TTGGCACCTCC
131 TTGGCACCTCC
469867 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
469932 GCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
66 GCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
*
469997 TTGGCACCTCT
131 TTGGCACCTCC
*
470008 AAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
* * *
470073 GCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATTTCGCTGGCCTTGAATCAGC
66 GCCTTGAATCAGCATATTGGCACC--T-TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
470138 ACATTGGCACCTTCATC
128 ACATTGGCACC-TC--C
*
470155 TTTAAGTCCAATA-CAGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TCTTTAAGTCCAATGT
1 ---AAGTCCAATATC-GCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAGTCCAATAT
* *
470218 AGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCA
61 CGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCA
*
470277 GCATATTGGCACCT
126 GCACATTGGCACCT
470291 TTTCCATCTT
Statistics
Matches: 527, Mismatches: 21, Indels: 29
0.91 0.04 0.05
Matches are distributed among these distances:
135 35 0.07
136 1 0.00
140 1 0.00
141 360 0.68
143 2 0.00
144 45 0.09
145 2 0.00
150 80 0.15
151 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (141 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTG
GCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
TTGGCACCTCC
Found at i:470182 original size:101 final size:100
Alignment explanation
Indices: 470007--470336 Score: 471
Period size: 101 Copynumber: 3.4 Consensus size: 100
469997 TTGGCACCTC
* * * *
470007 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATC-GC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATA-CAGC
470071 TGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTT
* *
470108 TAAGTCCAATTTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATACAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATACAGCT
*
470173 GGCCTTGAATCAGCATATTGGCACC--TTCTTCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTTCATCTT
*
470206 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATACAGCT
470265 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTT-CATCTT
* * *
470301 TAAGTTCAATGTAACTGGCCTTGAATTAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
470337 ACATCCTTTT
Statistics
Matches: 213, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
92 43 0.20
94 3 0.01
95 38 0.18
98 43 0.20
99 1 0.00
100 1 0.00
101 84 0.39
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (100 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATACAGCT
GGCCTTGAATCAGCATATTGGCACCTTTTCATCTT
Found at i:471028 original size:19 final size:19
Alignment explanation
Indices: 470970--471066 Score: 74
Period size: 13 Copynumber: 5.7 Consensus size: 19
470960 TTTCAATGAT
*
470970 TTGTATCGATACATAAAGTA
1 TTGTATCGATACAT-AAGTG
470990 TTGTATCGATAC---A--G
1 TTGTATCGATACATAAGTG
471004 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
471022 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
471036 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
*
471054 TTGTATTGATACA
1 TTGTATCGATACA
471067 ATGTAAGCTA
Statistics
Matches: 63, Mismatches: 2, Indels: 25
0.70 0.02 0.28
Matches are distributed among these distances:
13 22 0.35
15 2 0.03
16 2 0.03
17 2 0.03
18 1 0.02
19 22 0.35
20 12 0.19
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:471031 original size:32 final size:32
Alignment explanation
Indices: 470971--471071 Score: 157
Period size: 32 Copynumber: 3.1 Consensus size: 32
470961 TTCAATGATT
*
470971 TGTATCGATACATAAAGTATTGTATCGATACAG
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
*
471004 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
* *
471036 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
471068 TGTA
1 TGTA
471072 AGCTACTGCC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:471127 original size:13 final size:13
Alignment explanation
Indices: 471109--471133 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
471099 ATCACTCAAA
471109 TGTATCGATACAT
1 TGTATCGATACAT
471122 TGTATCGATACA
1 TGTATCGATACA
471134 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:471183 original size:52 final size:52
Alignment explanation
Indices: 471142--471270 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
471132 CACTGATCTT
* *
471142 TGTATCGATATATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
471194 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
471246 TGTATCGGTACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
471271 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:477443 original size:6 final size:6
Alignment explanation
Indices: 477427--477456 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
477417 ATTTTTATTA
*
477427 AAAAAT TAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
477457 CCTAAGATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:477939 original size:55 final size:55
Alignment explanation
Indices: 477875--477993 Score: 222
Period size: 55 Copynumber: 2.2 Consensus size: 55
477865 TTAAGGCGAT
477875 TCAAATTATTATTAAGTCAAGAGTCATTCTATCTCCTAAATGAAAAAGAAAATAA
1 TCAAATTATTATTAAGTCAAGAGTCATTCTATCTCCTAAATGAAAAAGAAAATAA
477930 TCAAATTATTATTAAGTCAAGAGTCATTCTATCTCCTAAATGAAAAAGAAAATAA
1 TCAAATTATTATTAAGTCAAGAGTCATTCTATCTCCTAAATGAAAAAGAAAATAA
*
477985 AC-AATTATT
1 TCAAATTATT
477994 GGAATACAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 7 0.11
55 56 0.89
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (55 bp):
TCAAATTATTATTAAGTCAAGAGTCATTCTATCTCCTAAATGAAAAAGAAAATAA
Found at i:478276 original size:159 final size:159
Alignment explanation
Indices: 478098--478404 Score: 497
Period size: 159 Copynumber: 1.9 Consensus size: 159
478088 TTCTTGGGAA
478098 TATTAATTCAATTTAATTTTATTTATTCTCGAAAAGACCATTTCGCACCCTAATGGAAACCTGAA
1 TATTAATTCAATTTAATTTTATTTATTCTCGAAAAGACCATTTCGCACCCTAATGGAAACCTGAA
* **
478163 AGGATATGAAACATTTTTGAAATCTTCTATACCCCTACGGATGCCCATAGGAACATAAAAAATTA
66 AGGATACGAAACATTTTAAAAATCTTCTATACCCCTACGGATGCCCATAGGAACATAAAAAATTA
478228 GAAAAAATAATTAAAATTTGTCCCGAAAG
131 GAAAAAATAATTAAAATTTGTCCCGAAAG
* * * *
478257 TATTAATTCAATTTTATTTTATTTATTTTCGAAAATACCATTTCGTACCCTAATGGAAACCTGAA
1 TATTAATTCAATTTAATTTTATTTATTCTCGAAAAGACCATTTCGCACCCTAATGGAAACCTGAA
** * * * *
478322 AGGATACGAAATGTTTTAAAAATCTTCTATACTCCTATGGATGCCCATAGGAATATAAAAGATTA
66 AGGATACGAAACATTTTAAAAATCTTCTATACCCCTACGGATGCCCATAGGAACATAAAAAATTA
478387 GAAAAAATAATTAAAATT
131 GAAAAAATAATTAAAATT
478405 AATTTTATCA
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
159 135 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (159 bp):
TATTAATTCAATTTAATTTTATTTATTCTCGAAAAGACCATTTCGCACCCTAATGGAAACCTGAA
AGGATACGAAACATTTTAAAAATCTTCTATACCCCTACGGATGCCCATAGGAACATAAAAAATTA
GAAAAAATAATTAAAATTTGTCCCGAAAG
Found at i:485332 original size:21 final size:23
Alignment explanation
Indices: 485277--485332 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
485267 TTTATTAAAA
485277 TTAAA-ATTTT-TGTATTTATTT
1 TTAAATATTTTATGTATTTATTT
485298 TTAAATATTATTTAT-TATTTA-TT
1 TTAAATA-T-TTTATGTATTTATTT
485321 TTAAATATTTTA
1 TTAAATATTTTA
485333 ATAAAATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 9 0.29
22 2 0.06
23 10 0.32
24 9 0.29
25 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTAAATATTTTATGTATTTATTT
Found at i:488004 original size:2 final size:2
Alignment explanation
Indices: 487997--488031 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
487987 AAATAATTAG
487997 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 A
488032 AACCAGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:492052 original size:166 final size:163
Alignment explanation
Indices: 491625--492052 Score: 549
Period size: 166 Copynumber: 2.6 Consensus size: 163
491615 TTCAAACATC
* * * * *
491625 AAAATTCATCAAATATTATCATTTATTTCATATTAAATTAGTTTTGAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTTATATT-AATCATTTTTCAAAAATTAATTCATTTTCA
** *
491690 TGAGTTTTTGAATTTTTTCCTTG-AAT--TTTTTTTGAAATACGGAGTTTTCTACTCTGTAAATT
65 TGAGTTTTTGAATTTTTTCCTTGAAATCCTTTTTTCAAAATACGGAGTTTTCTACTCCGTAAATT
* * *
491752 TTTTCGGGGGGCTTTTTCTTGTTTTTTGATTTTT
130 TTTTCGAGGGGATTTTTCTTGGTTTTTGATTTTT
* * * *
491786 AAAATTCATCAAATATTGTTATTTATTTTGTATTAATTCATTTTTCAAAAATTCATTCATTTCCA
1 AAAATTCATCAAATATTATTATTTATTTTATATTAA-TCATTTTTCAAAAATTAATTCATTTTCA
** * *
491851 T-AAATTTTGAATTTTTTCCTTAAAATTCTCTTTTTTCCAAAATACGGAGTTTTCTTCTCCGTAA
65 TGAGTTTTTGAATTTTTTCCTTGAAA-TC-CTTTTTT-CAAAATACGGAGTTTTCTACTCCGTAA
491915 ATTTTTTCGAGGGGATTTTTCTTGGTTTTTGATTTTT
127 ATTTTTTCGAGGGGATTTTTCTTGGTTTTTGATTTTT
* * *
491952 AAAATCCATTAAATATTATTATTTATTTTATATTGAATCATTTTTCAAAAATTTATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTTATATT-AATCATTTTTCAAAAATTAATTCATTTTCA
* *
492017 TGAGTTTTTAAATTTTTTCTTTGAAATCCCTTTTTT
65 TGAGTTTTTGAATTTTTTCCTTGAAAT-CCTTTTTT
492053 TCCTGAAAAA
Statistics
Matches: 227, Mismatches: 30, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
160 20 0.09
161 56 0.25
162 1 0.00
165 6 0.03
166 122 0.54
167 22 0.10
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.53
Consensus pattern (163 bp):
AAAATTCATCAAATATTATTATTTATTTTATATTAATCATTTTTCAAAAATTAATTCATTTTCAT
GAGTTTTTGAATTTTTTCCTTGAAATCCTTTTTTCAAAATACGGAGTTTTCTACTCCGTAAATTT
TTTCGAGGGGATTTTTCTTGGTTTTTGATTTTT
Found at i:492567 original size:14 final size:13
Alignment explanation
Indices: 492542--492580 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
492532 AGTTGCTTGG
492542 AAAAGAGAAAAAA
1 AAAAGAGAAAAAA
*
492555 AAAAGATGAAAAAT
1 AAAAGA-GAAAAAA
492569 AAAAGA-AAAAAA
1 AAAAGAGAAAAAA
492581 GGAGACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 12 0.52
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (13 bp):
AAAAGAGAAAAAA
Found at i:492733 original size:12 final size:12
Alignment explanation
Indices: 492690--492732 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
492680 TTTTAGCAAG
492690 GAAAAAAAGAGA
1 GAAAAAAAGAGA
*
492702 GAAAAAAAGTGA
1 GAAAAAAAGAGA
*
492714 GAAAAAAGGAGA
1 GAAAAAAAGAGA
492726 GAAAAAA
1 GAAAAAA
492733 GAAAATTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (12 bp):
GAAAAAAAGAGA
Found at i:493042 original size:30 final size:30
Alignment explanation
Indices: 493006--493063 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
492996 GAATCTGATG
493006 TGGTGTTGATGATGCTGATTTTTGTGTGAC
1 TGGTGTTGATGATGCTGATTTTTGTGTGAC
493036 TGGTGTTGATGATGCTGATTTTTGTGTG
1 TGGTGTTGATGATGCTGATTTTTGTGTG
493064 TTTTGGCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.12, C:0.05, G:0.34, T:0.48
Consensus pattern (30 bp):
TGGTGTTGATGATGCTGATTTTTGTGTGAC
Found at i:494653 original size:156 final size:155
Alignment explanation
Indices: 494481--494801 Score: 428
Period size: 156 Copynumber: 2.1 Consensus size: 155
494471 CAGAACCAAT
* * *
494481 TCCTAGGTTGTCACCGGGTCTGCTTTTATACCGAAGGTGGGTATTTAGGGTAAGTTCATCCCATC
1 TCCTAGGTTGCCACCGGGTCCGCTTTTATACCGAAGGTAGGTATTTAGGGTAAGTTCATCCCATC
* *
494546 TCTAATCTTTTTAAGTCCTTT-AGGTTTACTAGGATACTTGCACATCGAAAGTATCCCCATAGGG
66 TCTAATCTTTTTAAGTCCTTTAAGG-TTACCA-GATACTTGCACATCGAAAGTATACCCATAGGG
* *** *
494610 GTATTTTTGTAATTTCTTAAAATTGAG
129 GCATTTTCAAAATTTCTTAAAATCGAG
* * * * *
494637 TCTTAGGTTGCCACCGGGTCCGCTTTTATGCTGAAGGTAGGTATTTAGGGTAGGTTTATCCCATC
1 TCCTAGGTTGCCACCGGGTCCGCTTTTATACCGAAGGTAGGTATTTAGGGTAAGTTCATCCCATC
* * * * *
494702 TCTAATCTTTTTAAGTCTTTTAAGGTTACCAGATACTTTCACGTCGAAGGTATACCTATAGGGGC
66 TCTAATCTTTTTAAGTCCTTTAAGGTTACCAGATACTTGCACATCGAAAGTATACCCATAGGGGC
*
494767 ATTTTCAAAATTTCTTAGAATCGAG
131 ATTTTCAAAATTTCTTAAAATCGAG
494792 TCCTAGGTTG
1 TCCTAGGTTG
494802 TCACAAGTGA
Statistics
Matches: 142, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
155 57 0.40
156 82 0.58
157 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (155 bp):
TCCTAGGTTGCCACCGGGTCCGCTTTTATACCGAAGGTAGGTATTTAGGGTAAGTTCATCCCATC
TCTAATCTTTTTAAGTCCTTTAAGGTTACCAGATACTTGCACATCGAAAGTATACCCATAGGGGC
ATTTTCAAAATTTCTTAAAATCGAG
Found at i:498048 original size:13 final size:13
Alignment explanation
Indices: 498030--498055 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
498020 CAATTTTTTG
498030 TGTATCGATACAT
1 TGTATCGATACAT
498043 TGTATCGATACAT
1 TGTATCGATACAT
498056 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:500453 original size:21 final size:21
Alignment explanation
Indices: 500429--500475 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
500419 TTTAATGCTG
500429 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
500449 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
500470 ATTTTG
1 ATTTTG
500476 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:500614 original size:13 final size:13
Alignment explanation
Indices: 500596--500634 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
500586 ATAATCACCC
*
500596 TGTATCGATACAG
1 TGTATCGATACAA
500609 TGTATCGATACAA
1 TGTATCGATACAA
500622 TGTATCGATACAA
1 TGTATCGATACAA
500635 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:500645 original size:20 final size:20
Alignment explanation
Indices: 500620--500698 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
500610 GTATCGATAC
500620 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
500640 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
500665 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
500685 CATGTATCGATACA
1 AATGTATCGATACA
500699 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:502732 original size:15 final size:15
Alignment explanation
Indices: 502712--502742 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
502702 ATTTCGTTTA
*
502712 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
502727 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
502742 G
1 G
502743 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:506830 original size:13 final size:13
Alignment explanation
Indices: 506812--506837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
506802 CAATTTTTTG
506812 TGTATCGATACAT
1 TGTATCGATACAT
506825 TGTATCGATACAT
1 TGTATCGATACAT
506838 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:508156 original size:13 final size:13
Alignment explanation
Indices: 508138--508163 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
508128 TACAGCAAGT
508138 ATGTATCGATACA
1 ATGTATCGATACA
508151 ATGTATCGATACA
1 ATGTATCGATACA
508164 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:510412 original size:21 final size:21
Alignment explanation
Indices: 510379--510423 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
510369 TTGCAAGTTG
*
510379 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
510401 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
510421 AAA
1 AAA
510424 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:512243 original size:15 final size:15
Alignment explanation
Indices: 512223--512253 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
512213 TAAAAATGTC
*
512223 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
512238 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
512253 C
1 C
512254 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:514347 original size:20 final size:20
Alignment explanation
Indices: 514268--514347 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
514258 AATGTCCAAA
*
514268 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
514288 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
514313 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
514333 TTGTATCGATACATT
1 ATGTATCGATACATT
514348 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:514351 original size:13 final size:13
Alignment explanation
Indices: 514333--514371 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
514323 ACATTTTTCT
514333 TTGTATCGATACA
1 TTGTATCGATACA
514346 TTGTATCGATACA
1 TTGTATCGATACA
*
514359 CTGTATCGATACA
1 TTGTATCGATACA
514372 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:516933 original size:13 final size:13
Alignment explanation
Indices: 516915--516940 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
516905 TACAGCAAGT
516915 ATGTATCGATACA
1 ATGTATCGATACA
516928 ATGTATCGATACA
1 ATGTATCGATACA
516941 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:519968 original size:20 final size:21
Alignment explanation
Indices: 519935--519974 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
519925 ACAATTTGTA
519935 TCGATACAATAAGTGAATGTT
1 TCGATACAATAAGTGAATGTT
519956 TCGATAC-ATAAGTGAATGT
1 TCGATACAATAAGTGAATGT
519975 ATTGATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (21 bp):
TCGATACAATAAGTGAATGTT
Found at i:519981 original size:20 final size:21
Alignment explanation
Indices: 519931--519981 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
519921 TTTTACAATT
*
519931 TGTATCGATACAATAAGTGAA
1 TGTATTGATACAATAAGTGAA
519952 TGT-TTCGATAC-ATAAGTGAA
1 TGTATT-GATACAATAAGTGAA
519972 TGTATTGATA
1 TGTATTGATA
519982 TAGGTCTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (21 bp):
TGTATTGATACAATAAGTGAA
Found at i:520127 original size:52 final size:52
Alignment explanation
Indices: 520041--520160 Score: 136
Period size: 52 Copynumber: 2.3 Consensus size: 52
520031 TCTAGAAAGA
* *** *
520041 AAATGTATCAATATATTTTTCATTGTATTGATACATTAT-GAGTTTTTAACCT
1 AAATGTATCAATACATTTTTCATTGTACCAATACATTATAG-GTTTTTAACCC
* *
520093 AAATGTATCAATACATTATTT-ATTGTACCAATACATTCTAGGTTTTTGACCC
1 AAATGTATCAATACATT-TTTCATTGTACCAATACATTATAGGTTTTTAACCC
*
520145 AAATGTATCGATACAT
1 AAATGTATCAATACAT
520161 GCAGGCTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 54 0.93
53 4 0.07
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.42
Consensus pattern (52 bp):
AAATGTATCAATACATTTTTCATTGTACCAATACATTATAGGTTTTTAACCC
Found at i:521529 original size:32 final size:32
Alignment explanation
Indices: 521454--521543 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
521444 TGAAATCGAC
*
521454 AATCTAAACTCGAAAATGACCCAAACCCAAAAT
1 AATCTAAACTCG-AAATGACCCGAACCCAAAAT
* **
521487 AACCTAAACTCGAAATGACCCGAACCTGAAAT
1 AATCTAAACTCGAAATGACCCGAACCCAAAAT
* * *
521519 GATCTGAACTCGAAATGACCTGAAC
1 AATCTAAACTCGAAATGACCCGAAC
521544 TTAAATTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 38 0.78
33 11 0.22
ACGTcount: A:0.44, C:0.27, G:0.12, T:0.17
Consensus pattern (32 bp):
AATCTAAACTCGAAATGACCCGAACCCAAAAT
Found at i:521544 original size:16 final size:16
Alignment explanation
Indices: 521460--521544 Score: 73
Period size: 16 Copynumber: 5.2 Consensus size: 16
521450 CGACAATCTA
**
521460 AACTCGAAAATGACCCA
1 AACTCG-AAATGACCTG
* * * *
521477 AACCCAAAATAACCTA
1 AACTCGAAATGACCTG
*
521493 AACTCGAAATGACCCG
1 AACTCGAAATGACCTG
*
521509 AAC-CTGAAATGATCTG
1 AACTC-GAAATGACCTG
521525 AACTCGAAATGACCTG
1 AACTCGAAATGACCTG
521541 AACT
1 AACT
521545 TAAATTTAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.89
17 5 0.09
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (16 bp):
AACTCGAAATGACCTG
Found at i:522413 original size:16 final size:17
Alignment explanation
Indices: 522390--522449 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 17
522380 CCGAAACAAT
*
522390 TCGAACCCAAAATGATC
1 TCGAACCCAAAATGAAC
*
522407 T-GAACCCGAAAT-AAC
1 TCGAACCCAAAATGAAC
522422 TCGAACCCAAAATG-AC
1 TCGAACCCAAAATGAAC
* *
522438 CCAAACCCAAAA
1 TCGAACCCAAAA
522450 ATAACCCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 3 0.08
16 32 0.89
17 1 0.03
ACGTcount: A:0.47, C:0.32, G:0.10, T:0.12
Consensus pattern (17 bp):
TCGAACCCAAAATGAAC
Found at i:522445 original size:32 final size:32
Alignment explanation
Indices: 522366--522454 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
522356 ACCCGAATCT
* * * *
522366 AAAATGACTCAAATCCGAAACAATTCGAACCC
1 AAAATGACCCAAACCCGAAATAACTCGAACCC
* **
522398 AAAATGATCTGAACCCGAAATAACTCGAACCC
1 AAAATGACCCAAACCCGAAATAACTCGAACCC
*
522430 AAAATGACCCAAACCCAAAAATAAC
1 AAAATGACCCAAACCC-GAAATAAC
522455 CCAAAAATTT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
32 38 0.84
33 7 0.16
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.13
Consensus pattern (32 bp):
AAAATGACCCAAACCCGAAATAACTCGAACCC
Found at i:522456 original size:17 final size:16
Alignment explanation
Indices: 522409--522459 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
522399 AAATGATCTG
* * *
522409 AACCCGAAATAACTCG
1 AACCCAAAATAACCCA
*
522425 AACCCAAAATGACCCA
1 AACCCAAAATAACCCA
522441 AACCCAAAAATAACCCA
1 AACCC-AAAATAACCCA
522458 AA
1 AA
522460 AATTTTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.53, C:0.33, G:0.06, T:0.08
Consensus pattern (16 bp):
AACCCAAAATAACCCA
Found at i:527350 original size:52 final size:52
Alignment explanation
Indices: 527294--527422 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
527284 TACTGATCTT
527294 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
527346 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
527398 TGTATCGATACATGCATGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
527423 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:533935 original size:13 final size:13
Alignment explanation
Indices: 533917--533942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
533907 TACAGTAAGT
533917 ATGTATCGATACA
1 ATGTATCGATACA
533930 ATGTATCGATACA
1 ATGTATCGATACA
533943 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:536194 original size:21 final size:21
Alignment explanation
Indices: 536161--536205 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
536151 TTGCAAGTTG
*
536161 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
536183 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
536203 AAA
1 AAA
536206 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:540132 original size:20 final size:20
Alignment explanation
Indices: 540053--540132 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
540043 AATGTCCAAA
*
540053 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
540073 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
540098 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
540118 TTGTATCGATACATT
1 ATGTATCGATACATT
540133 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:540136 original size:13 final size:13
Alignment explanation
Indices: 540118--540156 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
540108 ACATTTTTCT
540118 TTGTATCGATACA
1 TTGTATCGATACA
540131 TTGTATCGATACA
1 TTGTATCGATACA
*
540144 CTGTATCGATACA
1 TTGTATCGATACA
540157 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:542693 original size:13 final size:13
Alignment explanation
Indices: 542675--542700 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
542665 TACAGCAAGT
542675 ATGTATCGATACA
1 ATGTATCGATACA
542688 ATGTATCGATACA
1 ATGTATCGATACA
542701 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:543825 original size:61 final size:60
Alignment explanation
Indices: 543689--543934 Score: 237
Period size: 61 Copynumber: 4.0 Consensus size: 60
543679 GGCCCACAAC
* * * * * * *
543689 ATTGGACTTAAAGATGATGAAG-ATGA-GAAGAGTGTCAATGTGCTGATTCAAGGTCAGTGAC
1 ATTGGGCTTAAAGAT-A-GAAGAATGATAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGAT
* * * * * *
543750 GTTGGACTTAAAGATACGAAGAATGATAAAGGTGCCAATGTGCTGATTCATGACCAGCGGT
1 ATTGGGCTTAAAGATA-GAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
* * *
543811 ATTGGGGTTGAAGATGAGAAGAATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
1 ATTGGGCTTAAAGAT-AGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
* * *
543872 ATTGGGCTTAAATAGA-AGAAAAATGATAAAGGTGCTAATATGTTGATTCAAGGCCAGCGAT
1 ATTGGGCTT-AA-AGATAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
543933 AT
1 AT
543935 CACATTAAAA
Statistics
Matches: 155, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
60 5 0.03
61 142 0.92
62 5 0.03
63 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (60 bp):
ATTGGGCTTAAAGATAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
Found at i:543857 original size:122 final size:122
Alignment explanation
Indices: 543699--543930 Score: 279
Period size: 122 Copynumber: 1.9 Consensus size: 122
543689 ATTGGACTTA
* * * * * *
543699 AAGATGATGAAGATGAGAAGAGTGTCAATGTGCTGATTCAAGGTCAGTGACGTTGGACTTAAAGA
1 AAGATGATGAAGATGAAAAGAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* * * * *
543764 TACGAAGAATGATAAAGGTGCCAATGTGCTGATTCATGACCAGCGGTATTGGGGTTG
66 GAAGAAAAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGCGGTATTGGGGTTG
* *
543821 AAGATGA-GAAGAATGACAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 AAGATGATGAAG-ATGA-AAAGAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
* * * *
543884 TAGAAGAAAAATGATAAAGGTGCTAATATGTTGATTCAAGGCCAGCG
64 GAGAAGAAAAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGCG
543931 ATATCACATT
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
121 4 0.04
122 84 0.92
123 3 0.03
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (122 bp):
AAGATGATGAAGATGAAAAGAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
GAAGAAAAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGCGGTATTGGGGTTG
Found at i:551222 original size:20 final size:20
Alignment explanation
Indices: 551170--551225 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
551160 TGTATCGATA
**
551170 AATTGTATCGATACATGTTC
1 AATTGTATCGATACATGGAC
* *
551190 -ATTATATCAATACATGGAC
1 AATTGTATCGATACATGGAC
551209 AATTGTATCGATACATG
1 AATTGTATCGATACATG
551226 AAACTGGTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
AATTGTATCGATACATGGAC
Found at i:551291 original size:13 final size:13
Alignment explanation
Indices: 551270--551300 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
551260 CAAAACATGG
*
551270 TACAATGTATCGA
1 TACATTGTATCGA
551283 TACATTGTATCGA
1 TACATTGTATCGA
551296 TACAT
1 TACAT
551301 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:551291 original size:33 final size:32
Alignment explanation
Indices: 551254--551320 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 32
551244 CTATCACTAT
551254 TTGTATCAAAACATG-GTACAATGTATCGATACA
1 TTGTATCAAAACATGAG-A-AATGTATCGATACA
* *
551287 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCAAAACATG-AGAAATGTATCGATACA
551320 T
1 T
551321 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (32 bp):
TTGTATCAAAACATGAGAAATGTATCGATACA
Found at i:557114 original size:20 final size:20
Alignment explanation
Indices: 557089--557139 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
557079 CCAGAAGTAA
557089 CGATACATTTTTCAATGTAT
1 CGATACATTTTTCAATGTAT
* * *
557109 CGATACATGTATGAATGTAT
1 CGATACATTTTTCAATGTAT
557129 CGATACATTTT
1 CGATACATTTT
557140 GTCTTTTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
CGATACATTTTTCAATGTAT
Found at i:557228 original size:51 final size:52
Alignment explanation
Indices: 557103--557240 Score: 158
Period size: 51 Copynumber: 2.7 Consensus size: 52
557093 ACATTTTTCA
* * * * *
557103 ATGTATCGATACA-TGTATGAATGTATCGATACATTTTGTCTTTTTACCCAG
1 ATGTATCGATACATTGAATCAATGTATCGATACATTCTGTCTCTTAACCCAG
* **
557154 ATGTATCAATACATT-CTTCAATGTATCGATACATTCTGTCTCTTAACCCAG
1 ATGTATCGATACATTGAATCAATGTATCGATACATTCTGTCTCTTAACCCAG
* *
557205 ATTTATCGATACATTGAAT-AATGTATCAATAC-TTCT
1 ATGTATCGATACATTGAATCAATGTATCGATACATTCT
557241 AGTTAAAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
50 4 0.05
51 67 0.92
52 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (52 bp):
ATGTATCGATACATTGAATCAATGTATCGATACATTCTGTCTCTTAACCCAG
Found at i:561280 original size:155 final size:155
Alignment explanation
Indices: 560995--561359 Score: 400
Period size: 154 Copynumber: 2.3 Consensus size: 155
560985 AATAATCACG
* * * *
560995 TAAGACTTGATTCTAATGTAAAATTACCAAAATGT-CTTAGAGGTATACCTTT-GATACTAAAGT
1 TAAGACTTGGTTCTAA--TAAAATTACAAAAATATCCTTAG-GGTATA-CTTTCGACACTAAAGT
* * * * * *
561058 ATCCCAATAACCCTAAAAGACTTTAAAATAATCATATATGGGATGAACCTATCCTAAATGTATAC
62 ATCCCAATAACCCTAAAAAACTATAAAATAATCATAAATGGGATGAAACTATCCTAAATGCACAC
** * *
561123 CTTTGGTATAAAAGCATCCCGGTGATAACC
127 CTTTGACAT-AAAGCAACCCGGTGACAACC
561153 TAAGACTTGGTTCTAATAAAATTACAAAAATATCCTTAGGGTATACTTTCGACA-TGAAAGTATC
1 TAAGACTTGGTTCTAATAAAATTACAAAAATATCCTTAGGGTATACTTTCGACACT-AAAGTATC
** *
561217 CTGATAACCCTAAAAAAC-ATGAAATAATCATAAATGGGATGAAACTATCCTAAATGCACACCTT
65 CCAATAACCCTAAAAAACTATAAAATAATCATAAATGGGATGAAACTATCCTAAATGCACACCTT
* *
561281 TGACATAAAGCAACCTGGTGACAGCC
130 TGACATAAAGCAACCCGGTGACAACC
** * * *
561307 T-AGAACTTGGTTCT-ATGAAAATTATTAAAATACCCTTGGGGTATACGTTCGAC
1 TAAG-ACTTGGTTCTAAT-AAAATTACAAAAATATCCTTAGGGTATACTTTCGAC
561360 GGGAAATTAT
Statistics
Matches: 178, Mismatches: 24, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
153 4 0.02
154 58 0.33
155 49 0.28
156 47 0.26
157 5 0.03
158 15 0.08
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (155 bp):
TAAGACTTGGTTCTAATAAAATTACAAAAATATCCTTAGGGTATACTTTCGACACTAAAGTATCC
CAATAACCCTAAAAAACTATAAAATAATCATAAATGGGATGAAACTATCCTAAATGCACACCTTT
GACATAAAGCAACCCGGTGACAACC
Found at i:561757 original size:167 final size:164
Alignment explanation
Indices: 561481--562000 Score: 654
Period size: 167 Copynumber: 3.1 Consensus size: 164
561471 AATTAAACCT
* * ** * * *
561481 TTAAACTTTTGAAAATTTTATTTCATACCTGATAAAAAATCGATAGGATATGAAAAGCCTT-AAA
1 TTAAACTTTTAAAAATTTCATTTCATACCTGACGAAAAATTGAGAGGATATGAAAAGTCTTGAAA
* * * *
561545 AGTTTCTATACACCTATGGAAGGCAATAAGAATAATAGAAATCTTTAAAAATGATTAAAATGATG
66 A-TTTTTATAC-CCCATGGAAGGCCATAAGAATAATAGAAATCTTTAAAAATGAATAAAATGATG
* *
561610 ATTTTACCTAAGAAAACTAAAATTTGCTATTTAATTCC
129 ATTTTACCT-TGAAAACTAAAATTTACTATTTAA-TCC
* *
561648 TTAAACTTTTAAAAATTTCATTTCATACCAGACGAAAAATTGAGAGGATAGGAAAAGTCTTGAAA
1 TTAAACTTTTAAAAATTTCATTTCATACCTGACGAAAAATTGAGAGGATATGAAAAGTCTTGAAA
* * *
561713 ATTTTTATACTCCCATGGAAGGCCACAAGAATAATAAAAATCTTTAAAAATGACTAAAATGATGA
66 ATTTTTATAC-CCCATGGAAGGCCATAAGAATAATAGAAATCTTTAAAAATGAATAAAATGATGA
**
561778 TTTTACCTTTTAAACTAAAATTTACTATTTAAT-C
130 TTTTACCTTGAAAACTAAAATTTACTATTTAATCC
* ** *
561812 TCTAAACTTTTAAAAATTTCATTTCGTATTTGACGAAAAACTT-AGAGGATATGAAAAGTCTGGA
1 T-TAAACTTTTAAAAATTTCATTTCATACCTGACGAAAAA-TTGAGAGGATATGAAAAGTCTTGA
* * * *
561876 AAATTCTT-TACCCCTATGGAA-GCCATAGGAATAATAGAAATCTTTAAAAATGAAGAAAATGTT
64 AAATTTTTATACCCC-ATGGAAGGCCATAAGAATAATAGAAATCTTTAAAAATGAATAAAATGAT
*
561939 GATTTTATCTCTGAAAACTAAAATTTACTATTTAATCC
128 GATTTTACCT-TGAAAACTAAAATTTACTATTTAATCC
561977 TTAAACTTTTAAAAATTTTCATTT
1 TTAAACTTTTAAAAA-TTTCATTT
562001 TAGTCCTTAT
Statistics
Matches: 310, Mismatches: 36, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
163 48 0.15
164 48 0.15
165 71 0.23
166 22 0.07
167 117 0.38
168 4 0.01
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (164 bp):
TTAAACTTTTAAAAATTTCATTTCATACCTGACGAAAAATTGAGAGGATATGAAAAGTCTTGAAA
ATTTTTATACCCCATGGAAGGCCATAAGAATAATAGAAATCTTTAAAAATGAATAAAATGATGAT
TTTACCTTGAAAACTAAAATTTACTATTTAATCC
Found at i:562739 original size:149 final size:150
Alignment explanation
Indices: 562464--562758 Score: 565
Period size: 149 Copynumber: 2.0 Consensus size: 150
562454 GAAATTTCAT
562464 AAATAATATCATAAATGCATAAACAAGTTTTCATCAAGCTTAAAAATGCATGAGATCACTAATAT
1 AAATAATATCATAAATGCATAAACAAGTTTTCATCAAGCTTAAAAATGCATGAGATCACTAATAT
*
562529 TTCAACTTGAATTGATATGAATATGACAAGATAAATATGATAAAACACATATTCATAGAGATATC
66 TTCAACATGAATTGATATGAATATGACAAGATAAATATGATAAAACACATATTCATAGAGATATC
562594 ATCATTTCTACTAATATTTC
131 ATCATTTCTACTAATATTTC
562614 AAATAATATCATAAATGCATAAACAAGTTTT-ATCAAGCTTAAAAATGCATGAGATCACTAATAT
1 AAATAATATCATAAATGCATAAACAAGTTTTCATCAAGCTTAAAAATGCATGAGATCACTAATAT
*
562678 TTCAACATGAATTGATATGAATATGACAAGATAAATATGATAAAACACATATTCATGGAGATATC
66 TTCAACATGAATTGATATGAATATGACAAGATAAATATGATAAAACACATATTCATAGAGATATC
562743 ATCATTTCTACTAATA
131 ATCATTTCTACTAATA
562759 AACACAAATT
Statistics
Matches: 143, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
149 112 0.78
150 31 0.22
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (150 bp):
AAATAATATCATAAATGCATAAACAAGTTTTCATCAAGCTTAAAAATGCATGAGATCACTAATAT
TTCAACATGAATTGATATGAATATGACAAGATAAATATGATAAAACACATATTCATAGAGATATC
ATCATTTCTACTAATATTTC
Found at i:564011 original size:2 final size:2
Alignment explanation
Indices: 564004--564029 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
563994 GATAATGCCA
564004 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
564030 TTCTTGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:569926 original size:20 final size:20
Alignment explanation
Indices: 569901--569977 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
569891 ATAAAAGGAC
*
569901 AGAATGTTTCCATACATTGA
1 AGAATGTATCCATACATTGA
* *
569921 AGAATGTATCGATACATTCA
1 AGAATGTATCCATACATTGA
* *
569941 TA-CATGTATCAATACATTGA
1 -AGAATGTATCCATACATTGA
* * *
569961 AAAATATATCGATACAT
1 AGAATGTATCCATACAT
569978 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (20 bp):
AGAATGTATCCATACATTGA
Found at i:571086 original size:56 final size:56
Alignment explanation
Indices: 570897--571355 Score: 492
Period size: 56 Copynumber: 8.0 Consensus size: 56
570887 AAAAAAAAAA
* *
570897 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGG
1 GTGCCACTAAC-T-TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T-TGTGGGCTTTGAAAGG
* * *
570959 GTGCCACCAATTTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGGCTTTAAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGGG--TGCCACTGACTTGTGGGCTTTGAAAGG
* *
571017 GTGCCACTAACTTGTGGGCTTTGAAAGGGTACCATTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
571073 GTGCTACTGACTTGTGGGCTTTGGAAA-GGTGCCACTGATTTGTGTGGGCTTTAAAAGG
1 GTGCCACTAACTTGTGGGCTTT-GAAAGGGTGCCACTGA-CT-TGTGGGCTTTGAAAGG
*
571131 GTATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGTCTTTTG-AAGAG
1 G--TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-TTTGAAAG-G
* * * * * *
571190 ATACCACTGACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * * *
571246 ATGCCGCTAACTCGTGGGCTTTGAAAGGGTGCCGCTGACTTGTGGGCTTGGAAAAG
1 GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * * *
571302 ATACCACTAACTTATGGGCTTTGAAAGGATGCCACTGACCTATGGGCTTT-AAAG
1 GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
571356 AGATGAACGT
Statistics
Matches: 338, Mismatches: 48, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
55 3 0.01
56 145 0.43
57 48 0.14
58 68 0.20
59 14 0.04
60 50 0.15
61 1 0.00
62 9 0.03
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (56 bp):
GTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:571244 original size:144 final size:141
Alignment explanation
Indices: 570943--571340 Score: 471
Period size: 144 Copynumber: 2.8 Consensus size: 141
570933 CACCGACTTG
* *
570943 TGTGGGCTTTGAAAGGGTGCCACCAATTTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAA-GGTGCCACCAATTTGTGGGCTTTAAAAGGGTATGCCACTAACTTGTGGGC
* * *
571008 TTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTACCATTGACTTGTGGGCTTTGAAAGG
65 TTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATACCACTGACTTGTGAGCTTTGAAAGG
* * *
571073 GTGCTACTGACT
130 ATGCCACTAACT
* *
571085 TGTGGGCTTTGGAAAGGTGCCACTGATTTGTGTGGGCTTTAAAAGGGTATGCCACTAACTTGTGG
1 TGTGGGCTTT-GAAAGGTGCCAC-CAATT-TGTGGGCTTTAAAAGGGTATGCCACTAACTTGTGG
* * *
571150 GCTTTGAAAGGGTGCCACTGACTTGTGGTCTTTTG-AAGAGATACCACTGACTTGTGAGCTTTGA
63 GCTTTAAAAGGGTGCCACTAACTTGTGGGC-TTTGAAAG-GATACCACTGACTTGTGAGCTTTGA
571214 AAGGATGCCACTAACT
126 AAGGATGCCACTAACT
* * * * * * *
571230 TGTGGGCTTTGAAAGGATGCCGCTAACTCGTGGGCTTTGAAAGGG--TGCCGCTGACTTGTGGGC
1 TGTGGGCTTTGAAAGG-TGCCACCAATTTGTGGGCTTTAAAAGGGTATGCCACTAACTTGTGGGC
* * * * *
571293 TTGGAAAA-GATACCACTAACTTATGGGCTTTGAAAGGATGCCACTGAC
65 TT-TAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATACCACTGAC
571341 CTATGGGCTT
Statistics
Matches: 219, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
140 15 0.07
141 36 0.16
142 21 0.10
143 22 0.10
144 71 0.32
145 54 0.25
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.29
Consensus pattern (141 bp):
TGTGGGCTTTGAAAGGTGCCACCAATTTGTGGGCTTTAAAAGGGTATGCCACTAACTTGTGGGCT
TTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATACCACTGACTTGTGAGCTTTGAAAGGA
TGCCACTAACT
Found at i:571245 original size:201 final size:203
Alignment explanation
Indices: 570897--571327 Score: 552
Period size: 201 Copynumber: 2.1 Consensus size: 203
570887 AAAAAAAAAA
*
570897 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGGTG
1 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAAGGGTG
* * * * *
570962 CCACCAATTTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAA
66 CCACCAACTTGTGGGCTTTGAAAGAGTATACCACTGACTTGTGAGCTTTAAAAGGATGCCACTAA
* * * * *
571027 CTTGTGGGCTTTGAAAGGGTACCATTGACTTGTGGGCTTTGAAAGGGTGCTACTGACTTGTGGGC
131 CTTGTGGGCTTTGAAAGGATACCACTAACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
571092 TTTGGAAAG
196 -TTGGAAAG
* * * *
571101 GTGCCACTGATTTGTGTGGGCTTT-AAAAGGGTATGCCACTAAC-T-TGTGGGCTTTGAAAGGGT
1 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGT-TGCCACCAACTTGTGTGGGCTTTGAAAGGGT
** * *
571163 GCCACTGACTTGTGGTCTTTTG-AAGAG-ATACCACTGACTTGTGAGCTTTGAAAGGATGCCACT
65 GCCACCAACTTGTGGGC-TTTGAAAGAGTATACCACTGACTTGTGAGCTTTAAAAGGATGCCACT
* * *
571226 AACTTGTGGGCTTTGAAAGGATGCCGCTAACTCGTGGGCTTTGAAAGGGTGCCGCTGACTTGTGG
129 AACTTGTGGGCTTTGAAAGGATACCACTAACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGG
571291 GCTTGGAAAAG
194 GCTTGG-AAAG
* * *
571302 ATACCACTAAC-T-TATGGGCTTTGAAA
1 GTGCCACTAACTTGTGTGGGCTTTGAAA
571328 GGATGCCACT
Statistics
Matches: 196, Mismatches: 27, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
199 9 0.05
200 8 0.04
201 102 0.52
202 35 0.18
203 12 0.06
204 30 0.15
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (203 bp):
GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAAGGGTG
CCACCAACTTGTGGGCTTTGAAAGAGTATACCACTGACTTGTGAGCTTTAAAAGGATGCCACTAA
CTTGTGGGCTTTGAAAGGATACCACTAACTCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
TTGGAAAG
Found at i:571360 original size:28 final size:28
Alignment explanation
Indices: 570911--571360 Score: 447
Period size: 28 Copynumber: 15.7 Consensus size: 28
570901 CACTAACTTG
* *
570911 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GATGCCACTGAC-T
* ** *
570942 GTGTGGGCTTTGAAAGGGTGCCACCAATT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
570971 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* * *
571001 TGTGGGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
571029 TGTGGGCTTTGAAAGGGTACCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
571057 TGTGGGCTTTGAAAGGGTGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
571085 TGTGGGCTTTGGAAAGG-TGCCACTGATTT
1 TGTGGGCTTT-GAAAGGATGCCACTGA-CT
* *
571114 GTGTGGGCTTTAAAAGGGTATGCCACTAACT
1 -TGTGGGCTTTGAAA-GG-ATGCCACTGACT
*
571145 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
571173 TGTGGTCTTTTG-AAGAGATACCACTGACT
1 TGTGGGC-TTTGAAAG-GATGCCACTGACT
* *
571202 TGTGAGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
571230 TGTGGGCTTTGAAAGGATGCCGCTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
571258 CGTGGGCTTTGAAAGGGTGCCGCTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
571286 TGTGGGCTTGGAAAAGATACCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
571314 TATGGGCTTTGAAAGGATGCCACTGACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
571342 TATGGGCTTT-AAAGAGATG
1 TGTGGGCTTTGAAAG-GATG
571361 AACGTTCTAG
Statistics
Matches: 356, Mismatches: 50, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
27 4 0.01
28 233 0.65
29 40 0.11
30 55 0.15
31 5 0.01
32 19 0.05
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:572607 original size:6 final size:6
Alignment explanation
Indices: 572596--572645 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
572586 GTTTTTCGCT
* *
572596 TTTTTG TTTTTG -GTTT- TTTTTG TTTTTG GTTTTG TTTTT- TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
572641 TTTTT
1 TTTTT
572646 TGGGGGCACG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 11 0.30
6 26 0.70
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:572614 original size:16 final size:16
Alignment explanation
Indices: 572595--572646 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
572585 GGTTTTTCGC
572595 TTTTTTGTTTTTGGTT
1 TTTTTTGTTTTTGGTT
572611 TTTTTTGTTTTTGGTT
1 TTTTTTGTTTTTGGTT
*
572627 TTGTTTT-TTTTTTGTT
1 TT-TTTTGTTTTTGGTT
572643 TTTT
1 TTTT
572647 GGGGGCACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 2 0.06
16 28 0.82
17 4 0.12
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TTTTTTGTTTTTGGTT
Found at i:572621 original size:23 final size:24
Alignment explanation
Indices: 572595--572648 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
572585 GGTTTTTCGC
*
572595 TTTTTTGTTTTTG-GTTTTTTTTG
1 TTTTTTGGTTTTGTGTTTTTTTTG
*
572618 -TTTTTGGTTTTGTTTTTTTTTTG
1 TTTTTTGGTTTTGTGTTTTTTTTG
572641 TTTTTTGG
1 TTTTTTGG
572649 GGGCACGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 11 0.41
23 9 0.33
24 7 0.26
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (24 bp):
TTTTTTGGTTTTGTGTTTTTTTTG
Found at i:580805 original size:33 final size:33
Alignment explanation
Indices: 580749--580814 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
580739 AAATTCCCAG
*
580749 ATGTATCGATACAAAGATCAATGTATGGATACA
1 ATGTATCGATACAAAGATCAATGTATCGATACA
**
580782 ATGTATCGATACATTGAGT-AATGTATCGATACA
1 ATGTATCGATACAAAGA-TCAATGTATCGATACA
580815 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCGATACA
Found at i:590593 original size:36 final size:35
Alignment explanation
Indices: 590536--590650 Score: 110
Period size: 36 Copynumber: 3.1 Consensus size: 35
590526 AACCAGATCC
590536 CTTTTCAAAG-CCCACATAAGTTGGTGGCATTCC-TTTCT
1 CTTTT-AAAGTCCCAC--AAGTTGGTGGCA--CCTTTTCT
*
590574 -TTTTAAAGTCCATACAAGTTGGTGGCACCTTTTTCT
1 CTTTTAAAGTCC-CACAAGTTGGTGGCACC-TTTTCT
*
590610 CTTTTTAAGTCCCACAAGTTGGTGGCACCATTTTCT
1 CTTTTAAAGTCCCACAAGTTGGTGGCACC-TTTTCT
*
590646 TTTTT
1 CTTTT
590651 CTTTTCAAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
34 2 0.03
36 47 0.70
37 16 0.24
38 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.42
Consensus pattern (35 bp):
CTTTTAAAGTCCCACAAGTTGGTGGCACCTTTTCT
Found at i:590895 original size:81 final size:81
Alignment explanation
Indices: 590752--590938 Score: 232
Period size: 81 Copynumber: 2.3 Consensus size: 81
590742 GGGAGCACAA
* * * * **
590752 TTTTCTTTTTAAAGCCCACATAAGCTAGCGACACTCTTTTTCTCTATTTAAGCCCATGTAAGTTG
1 TTTTCCTTTTAAAGCCCACACAAGCTAGAGACACTCTTTTTCTCTATTTAAACCCACATAAGTTG
*
590817 GTGGCACCACTTTCTT
66 GTGGCACCACTTTCCT
* * * * *
590833 TTTTCCTATTTAAAGCCCGCACAAGCTGGAGATACT-TTTTTCTCTTTTTAAACTCACATAAGTT
1 TTTTCCT-TTTAAAGCCCACACAAGCTAGAGACACTCTTTTTCTCTATTTAAACCCACATAAGTT
*
590897 GGTGGCACCCCTTTCCT
65 GGTGGCACCACTTTCCT
590914 TTTTCCTTTTCAAAGCCCACACAAG
1 TTTTCCTTTT-AAAGCCCACACAAG
590939 TTGGTGGCAC
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.03
81 64 0.71
82 23 0.26
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (81 bp):
TTTTCCTTTTAAAGCCCACACAAGCTAGAGACACTCTTTTTCTCTATTTAAACCCACATAAGTTG
GTGGCACCACTTTCCT
Found at i:590917 original size:44 final size:44
Alignment explanation
Indices: 590869--591056 Score: 131
Period size: 44 Copynumber: 4.6 Consensus size: 44
590859 TGGAGATACT
* * *
590869 TTTTTCTCTTTTTAAA-CTCACATAAGTTGGTGGCACCCCTTTCC
1 TTTTTC-CTTTTCAAAGCCCACACAAGTTGGTGGCACCCCTTTCC
590913 TTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCC-TT--
1 TTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCCTTTCC
* * * *
590953 TTCTT-C--TT-AAAGCCCGCACAAGCTAGCT-GCA--CC-TT--
1 TTTTTCCTTTTCAAAGCCCACACAAG-TTGGTGGCACCCCTTTCC
* * * * *
590988 TTTAT-CTTTTTAAA-CACACATAAGTTGGTGGCACCCCTTTAC
1 TTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCCTTTCC
591030 TTTTTCCTTTTCAAAGCCCACACAAGT
1 TTTTTCCTTTTCAAAGCCCACACAAGT
591057 CGATGGCAAC
Statistics
Matches: 113, Mismatches: 18, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
35 8 0.07
36 19 0.17
37 17 0.15
38 3 0.03
39 3 0.03
40 6 0.05
42 6 0.05
43 19 0.17
44 32 0.28
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (44 bp):
TTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCCTTTCC
Found at i:590974 original size:117 final size:116
Alignment explanation
Indices: 590842--591056 Score: 351
Period size: 117 Copynumber: 1.8 Consensus size: 116
590832 TTTTTCCTAT
* * *
590842 TTAAAGCCCGCACAAGCTGGAGAT-ACTTTTTTCTCTTTTTAAACTCACATAAGTTGGTGGCACC
1 TTAAAGCCCGCACAAGCT--AGATCACCTTTTTATCTTTTTAAACACACATAAGTTGGTGGCACC
*
590906 CCTTTCCTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTTCTTC
64 CCTTTACTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTTCTTC
*
590959 TTAAAGCCCGCACAAGCTAGCTGCACCTTTTTATCTTTTTAAACACACATAAGTTGGTGGCACCC
1 TTAAAGCCCGCACAAGCTAGAT-CACCTTTTTATCTTTTTAAACACACATAAGTTGGTGGCACCC
591024 CTTTACTTTTTCCTTTTCAAAGCCCACACAAGT
65 CTTTACTTTTTCCTTTTCAAAGCCCACACAAGT
591057 CGATGGCAAC
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
115 3 0.03
117 88 0.97
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (116 bp):
TTAAAGCCCGCACAAGCTAGATCACCTTTTTATCTTTTTAAACACACATAAGTTGGTGGCACCCC
TTTACTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTTCTTC
Found at i:591033 original size:36 final size:37
Alignment explanation
Indices: 590919--591034 Score: 103
Period size: 36 Copynumber: 3.2 Consensus size: 37
590909 TTCCTTTTTC
* *
590919 CTTTTCAAAGCCCACACAAGTTGGTGGCA-CCCTTTT
1 CTTTTTAAAGCCCACACAAGTTGGTGGCACCCCTTTA
* * * * **
590955 CTTCTTAAAGCCCGCACAAGCTAGCT-GCACCTTTTTA
1 CTTTTTAAAGCCCACACAAG-TTGGTGGCACCCCTTTA
* *
590992 TCTTTTTAAA-CACACATAAGTTGGTGGCACCCCTTTA
1 -CTTTTTAAAGCCCACACAAGTTGGTGGCACCCCTTTA
591029 CTTTTT
1 CTTTTT
591035 CCTTTTCAAA
Statistics
Matches: 60, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
36 29 0.48
37 23 0.38
38 8 0.13
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.34
Consensus pattern (37 bp):
CTTTTTAAAGCCCACACAAGTTGGTGGCACCCCTTTA
Done.