Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003361.1 Hibiscus syriacus cultivar Beakdansim tig00007071_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 69610
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:668 original size:17 final size:19
Alignment explanation
Indices: 646--691 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
636 AATGTAGAGT
646 TAATTTTGTA-A-GATTTA
1 TAATTTTGTATACGATTTA
663 TAA-TTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
*
681 TAATTGTGTAT
1 TAATTTTGTAT
692 GTGGATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
17 4 0.16
18 9 0.36
19 6 0.24
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:1415 original size:200 final size:198
Alignment explanation
Indices: 1032--1786 Score: 918
Period size: 200 Copynumber: 3.8 Consensus size: 198
1022 GGTAACATAT
* * * * * * *
1032 GTGTCGAAACGTTT-TAAAAAGTGTCAATCCCAAAAACATCAAAACCTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
1096 GGTAATTTTGT-AATATAACTGGTATAAATATACCAGTTTTATGTGAGAATAGGTCTAC-ATAAT
66 GGTAATTTT-TCAATGTAACCGGTAT-ACTAAACCAGTTTTATGAGAGAATAGGTCTACAAT-AT
* * * * * * *
1159 GTATCGACA-TTTTTTCATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAA
128 GTATCGACACTTGTGTAATT-TGTGTCGATAC-TTTTGTCCAGAAGGAATGCCCAAAAGGGTGCA
* *
1223 CGCATTAT
191 CGCAATAA
*
1231 GTGTCGATACATTTATTGAA-AA-TGTCGATCCCATAAACATCGAAACCCATAATTATAATGTAA
1 GTGTCGATACATTTA-T-AACAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAA
*
1294 TAGGTAATTTTTCAATGTAACCGGTATAACTAAACC-GATTTTATGAGAGAATAGATCTAC-ATA
64 TAGGTAATTTTTCAATGTAACCGGTAT-ACTAAACCAG-TTTTATGAGAGAATAGGTCTACAAT-
* * * *
1357 ATGTATCGACACTTCTGGAATTTGTGTCGATACTGTTTCTCCAGAAGGAATCCCCAAAAGGGTGC
126 ATGTATCGACACTTGTGTAATTTGTGTCGATACT-TTTGTCCAGAAGGAATGCCCAAAAGGGTGC
* *
1422 ACGTAAAAA
190 ACGCAATAA
*
1431 GTGTCGATACATTTATAAACAAGTATCGATCCCAGAAACATCGAAA-CCATAATTATAATGTAAT
1 GTGTCGATACATTTAT-AACAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
* * * *
1495 AAGTAATTTTTCAATGTAACCGGTATACAAATACCGGTTTTATGAGAGAATAGGTGTACAATATG
65 AGGTAATTTTTCAATGTAACCGGTATACTAA-ACCAGTTTTATGAGAGAATAGGTCTACAATATG
*
1560 TATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGTCCAAAAGGGGTGCAC
129 TATCGACACTTGTGTAATTTGTGTCGATACTTTT-GTCCAGAAGGAATGCCCAAAA-GGGTGCAC
*
1625 -CACTAA
192 GCAATAA
* * *
1631 GTGTCGATACATTTATAATAAGTGTCGATCCCAGAAACATCGAAATCCATAATTATAATATAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
1696 GGTAATTTTTCAATGTAACTGGTATACTTACACCAGTTTTATGAGAGAATAGGTGTACAATATGT
66 GGTAATTTTTCAATGTAACCGGTATAC-TAAACCAGTTTTATGAGAGAATAGGTCTACAATATGT
1761 ATCGACACTTGTGTAATTTGTGTCGA
130 ATCGACACTTGTGTAATTTGTGTCGA
1787 AGTATCGATC
Statistics
Matches: 491, Mismatches: 49, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
199 52 0.11
200 395 0.80
201 42 0.09
202 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (198 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATACTAAACCAGTTTTATGAGAGAATAGGTCTACAATATGTA
TCGACACTTGTGTAATTTGTGTCGATACTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGCAA
TAA
Found at i:1898 original size:135 final size:136
Alignment explanation
Indices: 1650--1921 Score: 467
Period size: 135 Copynumber: 2.0 Consensus size: 136
1640 CATTTATAAT
*
1650 AAGTGTCGATCCCAGAAACATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATGTAAC
1 AAGTATCGATCCCAGAAACATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATGTAAC
* **
1715 TGGTATACTTACACCAGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTT
66 CGGTATACAAACACCAGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTT
1780 GTGTCG
131 GTGTCG
*
1786 AAGTATCGATCCCAGAAACATCGAAA-CCATAATTATAATGTAATAGGTAATTTTTCAATGTAAC
1 AAGTATCGATCCCAGAAACATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATGTAAC
*
1850 CGGTATACAAATA-CAGGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATT
66 CGGTATACAAACACCA-GTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATT
1914 TGTGTCG
130 TGTGTCG
1921 A
1 A
1922 TACTTTTGGT
Statistics
Matches: 129, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
134 2 0.02
135 102 0.79
136 25 0.19
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (136 bp):
AAGTATCGATCCCAGAAACATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATGTAAC
CGGTATACAAACACCAGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTT
GTGTCG
Found at i:2073 original size:335 final size:335
Alignment explanation
Indices: 1451--2117 Score: 1246
Period size: 335 Copynumber: 2.0 Consensus size: 335
1441 ATTTATAAAC
1451 AAGTATCGATCCCAGAAACATCGAAACCATAATTATAATGTAATAAGTAATTTTTCAATGTAACC
1 AAGTATCGATCCCAGAAACATCGAAACCATAATTATAATGTAATAAGTAATTTTTCAATGTAACC
*
1516 GGTATACAAATACCGGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTTG
66 GGTATACAAATACAGGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTTG
1581 TGTCGATACTTTTGGTCCAGAAGGAATGTCCAAAAGGGGTGCACCACTAAGTGTCGATACATTTA
131 TGTCGATACTTTTGGTCCAGAAGGAATGTCCAAAAGGGGTGCACCACTAAGTGTCGATACATTTA
1646 TAATAAGTGTCGATCCCAGAAACATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATG
196 TAATAAGTGTCGATCCCAGAAACATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATG
*
1711 TAACTGGTATACTTACACCAGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTA
261 TAACCGGTATACTTACACCAGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTA
1776 ATTTGTGTCG
326 ATTTGTGTCG
*
1786 AAGTATCGATCCCAGAAACATCGAAACCATAATTATAATGTAATAGGTAATTTTTCAATGTAACC
1 AAGTATCGATCCCAGAAACATCGAAACCATAATTATAATGTAATAAGTAATTTTTCAATGTAACC
1851 GGTATACAAATACAGGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTTG
66 GGTATACAAATACAGGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTTG
*
1916 TGTCGATACTTTTGGTCTAGAAGGAATGTCCAAAAGGGGTGCACCACTAAGTGTCGATACATTTA
131 TGTCGATACTTTTGGTCCAGAAGGAATGTCCAAAAGGGGTGCACCACTAAGTGTCGATACATTTA
* *
1981 TAATAAGTGTCGATCCTAGAAATATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATG
196 TAATAAGTGTCGATCCCAGAAACATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATG
* *
2046 TAACCGGTATACTTATACC-GATTTTATGAGAGAATAGGTGTACAATATGTATTGACACTTGTGT
261 TAACCGGTATACTTACACCAG-TTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGT
2110 AATTTGTG
325 AATTTGTG
2118 CCGATACTTT
Statistics
Matches: 323, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
334 1 0.00
335 322 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (335 bp):
AAGTATCGATCCCAGAAACATCGAAACCATAATTATAATGTAATAAGTAATTTTTCAATGTAACC
GGTATACAAATACAGGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTTG
TGTCGATACTTTTGGTCCAGAAGGAATGTCCAAAAGGGGTGCACCACTAAGTGTCGATACATTTA
TAATAAGTGTCGATCCCAGAAACATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATG
TAACCGGTATACTTACACCAGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTA
ATTTGTGTCG
Found at i:2158 original size:200 final size:200
Alignment explanation
Indices: 1786--2677 Score: 1014
Period size: 200 Copynumber: 4.5 Consensus size: 200
1776 ATTTGTGTCG
* *
1786 AAGTATCGATCCCAGAAACATCGAAA-CCATAATTATAATGTAATAGGTAATTTTTCAATGTAAC
1 AAGTGTCGATCCCAGAAATATCGAAATCCATAATTATAATGTAATAGGTAATTTTTCAATGTAAC
* * *
1850 CGGTATACAA-ATACAGGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATT
66 CGGTATA-AATATACCGATTTTATGAGAGAATAGGTCTACAATATGTATCGACACTTGTGTAATT
* *
1914 TGTGTCGATACTTTTGGTCTAGAAGGAATGTCCAAAAGGGGTGCACCACT-AAGTGTCGATACAT
130 TGTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAA-GGGTGCACCACTAAAGTGTCGATACAT
*
1978 TTATAAT
194 TTATAAA
* *
1985 AAGTGTCGATCCTAGAAATATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAATGTAAC
1 AAGTGTCGATCCCAGAAATATCGAAATCCATAATTATAATGTAATAGGTAATTTTTCAATGTAAC
** * *
2050 CGGTATACTTATACCGATTTTATGAGAGAATAGGTGTACAATATGTATTGACACTTGTGTAATTT
66 CGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAATATGTATCGACACTTGTGTAATTT
*
2115 GTGCCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCACT-AAGTGTCGATACATT
131 GTGTCGATACTTTTGGTCCAGAAGGAATGCCC-AAAAGGGTGCACCACTAAAGTGTCGATACATT
*
2179 TATACA
195 TATAAA
* * * * *
2185 AAGTGTCGATCCTAAAAATATC-AAAACTCATAATTATACTGTAATAGGTAATTTTGT-AATATA
1 AAGTGTCGATCCCAGAAATATCGAAATC-CATAATTATAATGTAATAGGTAATTTT-TCAATGTA
* * * * * * *
2248 ACCGGTATAAATATACCGATTTTATGTGATAATAGGTCTA-TATAATGTATCGATACTTTTTTAT
64 ACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAAT-ATGTATCGACACTTGTGTAA
* * * ** * *
2312 TTTGTGTCGATACGTTTT-GTCTAGAATGAATGCCCAAAATGAAG-AACACATAAAGTATCGAT-
128 TTTGTGTCGATAC-TTTTGGTCCAGAAGGAATGCCCAAAAGGGTGCACCAC-TAAAGTGTCGATA
2374 -ATTTATAAA
191 CATTTATAAA
* * * * * * * * *
2383 AAGTGTCAATACCAG-AACATCGAAACCCTTAAATATAATGTAATATGTAAATTTACAATGTAAC
1 AAGTGTCGATCCCAGAAATATCGAAATCCATAATTATAATGTAATAGGTAATTTTTCAATGTAAC
* * * *
2447 CGGTATAATTATACCGATTTTATGAGA-AATAGGTCTACAACATGTATCGACACTTGTGGAATTG
66 CGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAATATGTATCGACACTTGTGTAATTT
* * *
2511 GTGTCGATACTTTTTGTCCAGAATGAATG-CC-AAAGGGTTGCATGCA-TAAAGTGTCGATAC-T
131 GTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAGGG-TGCA-CCACTAAAGTGTCGATACAT
*
2572 TTTTAAA
194 TTATAAA
* * * * *
2579 AAGTGTCGATCCCA-AGATATTGAAATCGATAATTATAATGTAATAGATAA-ATTTCAATGTAAC
1 AAGTGTCGATCCCAGAAATATCGAAATCCATAATTATAATGTAATAGGTAATTTTTCAATGTAAC
* *
2642 CGTTATAAATATACC-AGTTTTATGAGAAAATAGGTC
66 CGGTATAAATATACCGA-TTTTATGAGAGAATAGGTC
2678 ATCATAAAGT
Statistics
Matches: 588, Mismatches: 84, Indels: 45
0.82 0.12 0.06
Matches are distributed among these distances:
194 5 0.01
195 52 0.09
196 104 0.18
197 62 0.11
198 27 0.05
199 36 0.06
200 293 0.50
201 9 0.02
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (200 bp):
AAGTGTCGATCCCAGAAATATCGAAATCCATAATTATAATGTAATAGGTAATTTTTCAATGTAAC
CGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAATATGTATCGACACTTGTGTAATTT
GTGTCGATACTTTTGGTCCAGAAGGAATGCCCAAAAGGGTGCACCACTAAAGTGTCGATACATTT
ATAAA
Found at i:2298 original size:535 final size:536
Alignment explanation
Indices: 1255--2321 Score: 1544
Period size: 535 Copynumber: 2.0 Consensus size: 536
1245 ATTGAAAATG
*
1255 TCGATCCCATAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTA
1 TCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTA
* *
1320 TAACTAAACCGATTTTATGAGAGAATAGATCTACATAATGTATCGACACTTCTGGAATTTGTGTC
66 TAACAAAACAGATTTTATGAGAGAATAGATCTACATAATGTATCGACACTTCTGGAATTTGTGTC
*
1385 GATACTGTTTCTCCAGAAGGAATCCCCAAAAGGGTGCACGTAAAAAGTGTCGATACATTTATAAA
131 GATACTGTTTCTCCAGAAGGAATCCCCAAAAGGGTGCACGCAAAAAGTGTCGATACATTTATAAA
*
1450 CAAGTATCGATCCCAGAAACATCGAAACCATAATTATAATGTAATAAGTAATTTTTCAATGTAAC
196 CAAGTATCGATCCCAGAAACATCGAAACCATAATTATAATATAATAAGTAATTTTTCAATGTAAC
*
1515 CGGTATACAAATACCGGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTT
261 CGGTATACAAATACCGATTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTT
* * *
1580 GTGTCGATACTTTTGGTCCAGAAGGAATGTCCAAAAGGGGTGCACCACTAAGTGTCGATACATTT
326 GTGCCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCACTAAGTGTCGATACATTT
* *
1645 ATAATAAGTGTCGATCCCAGAAACATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAAT
391 ATAATAAGTGTCGATCCCAAAAACATCAAAATCCATAATTATAATATAATAGGTAATTTTTCAAT
* * ** *
1710 GTAACTGGTATACTTACACCAGTTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGT
456 ATAACCGGTATAAATACACCAGTTTTATGAGAGAATAGGTCTACAATATGTATCGACACTTGTGT
1775 AATTTGTGTCGAAGTA
521 AATTTGTGTCGAAGTA
1791 TCGATCCCAGAAACATCGAAA-CCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTA
1 TCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTA
* * * * *
1855 T-ACAAATACAGGTTTTATGAGAGAATAGGTGTACA-ATATGTATCGACACTTGTGTAATTTGTG
66 TAACAAA-ACAGATTTTATGAGAGAATAGATCTACATA-ATGTATCGACACTTCTGGAATTTGTG
* * ** **
1918 TCGATACT-TTTGGTCTAGAAGGAATGTCCAAAAGGGGTGCAC-CACTAAGTGTCGATACATTTA
129 TCGATACTGTTT-CTCCAGAAGGAATCCCCAAAA-GGGTGCACGCAAAAAGTGTCGATACATTTA
* * * * *
1981 T-AATAAGTGTCGATCCTAGAAATATCGAAATCCATAATTATAATATAATAGGTAATTTTTCAAT
192 TAAACAAGTATCGATCCCAGAAACATCGAAA-CCATAATTATAATATAATAAGTAATTTTTCAAT
** *
2045 GTAACCGGTATACTTATACCGATTTTATGAGAGAATAGGTGTACAATATGTATTGACACTTGTGT
256 GTAACCGGTATACAAATACCGATTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGT
2110 AATTTGTGCCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCACTAAGTGTCGATA
321 AATTTGTGCCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCACTAAGTGTCGATA
* * * *
2175 CATTTATACA-AAGTGTCGATCCTAAAAATATCAAAA-CTCATAATTATACTGTAATAGGTAATT
386 CATTTATA-ATAAGTGTCGATCCCAAAAACATCAAAATC-CATAATTATAATATAATAGGTAATT
* * * *
2238 TTGT-AATATAACCGGTATAAATATACC-GATTTTATGTGATAATAGGTCTA-TATAATGTATCG
449 TT-TCAATATAACCGGTATAAATACACCAG-TTTTATGAGAGAATAGGTCTACAAT-ATGTATCG
* * * *
2300 ATACTTTTTTATTTTGTGTCGA
511 ACACTTGTGTAATTTGTGTCGA
2322 TACGTTTTGT
Statistics
Matches: 474, Mismatches: 47, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
534 37 0.08
535 407 0.86
536 30 0.06
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (536 bp):
TCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTA
TAACAAAACAGATTTTATGAGAGAATAGATCTACATAATGTATCGACACTTCTGGAATTTGTGTC
GATACTGTTTCTCCAGAAGGAATCCCCAAAAGGGTGCACGCAAAAAGTGTCGATACATTTATAAA
CAAGTATCGATCCCAGAAACATCGAAACCATAATTATAATATAATAAGTAATTTTTCAATGTAAC
CGGTATACAAATACCGATTTTATGAGAGAATAGGTGTACAATATGTATCGACACTTGTGTAATTT
GTGCCGATACTTTTGGTCCAGAAGGAATGCCCAAAAAGGGTGCACCACTAAGTGTCGATACATTT
ATAATAAGTGTCGATCCCAAAAACATCAAAATCCATAATTATAATATAATAGGTAATTTTTCAAT
ATAACCGGTATAAATACACCAGTTTTATGAGAGAATAGGTCTACAATATGTATCGACACTTGTGT
AATTTGTGTCGAAGTA
Found at i:5251 original size:25 final size:25
Alignment explanation
Indices: 5223--5275 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
5213 TTGTGGGTAC
*
5223 ATTATTTGAACATTGTTATGTATAA
1 ATTATTTGAACATTGTTATATATAA
*
5248 ATTATTTTAACATTGTTATATATAA
1 ATTATTTGAACATTGTTATATATAA
5273 ATT
1 ATT
5276 TCTTGTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.51
Consensus pattern (25 bp):
ATTATTTGAACATTGTTATATATAA
Found at i:6393 original size:399 final size:396
Alignment explanation
Indices: 5568--6929 Score: 1676
Period size: 399 Copynumber: 3.4 Consensus size: 396
5558 TAAAGTTTCC
* *
5568 CATAAAGTGTCGATACAGTTTTAAAAAGTATCGATCCCAGAAACATCGAAATCC-ATAAATATAA
1 CATAAAGTGTCGATACAGTTTTAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAA
* * * **
5632 TGTAATAGGTAAATTTACAATATAACCGGTATAACTAAACCGATTTTATGAGAGAATAGGTCTAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGATTTTATGAGAAAATAGGTGAAC
* * * * * * *
5697 AAAATTTATCGACACTTCTGGAATTTGTGTCGATACTCTTTTTCTAAAAGGAATGCCCATAAAGG
130 ATAATGTATCGACACTTCTAGAATTTGTGTCGATACT-TTTGTCCAAAAGGAAT-ACCAAAAAGG
* *
5762 AAT-CA-CTCATAAAATGTCGAAACATTTTTAAAACGTATCGATCCCAAAAACATCGAAACCAAT
193 -GTGCACCT-ATAAAATGTCGATACATTTTTAAAA-GTATCGATCCCAAAAACATCGAAACCAAT
5825 -AATGATAATGTAATAGGTAATTTATAATATAACCGGTATAAATATACCGG-TTTATGTGAGAAT
255 AAAT-ATAATGTAATAGGTAATTTATAATATAACCGGTATAAATATACCGGTTTTATGTGAGAAT
* * * * * *
5888 AGGTCTACACAATATGTCGATAC-ATTTTAATGTTGTGTCGATACTTTTTGTACAGAATGAATGC
319 AGGTCTACATAATGTGTCGACACGA-TTGAATGTTGTGTCGATACTTTTTGTCCAAAATGAATG-
5952 CCAAAAGGGTGAACG
382 CCAAAAGGGTGAACG
* * *
5967 CATAAAGTGTCGATACA-TATATAAAAAGTATCGATCCCAAAAACGTCGAAATCGATAATTATAA
1 CATAAAGTGTCGATACAGT-TTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * *
6031 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCG-TTTTTTTAGAAAATAGAT-ATA
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGATTTTATGAGAAAATAGGTGA-A
* * * * * * *
6094 CATAATGTATCGACACTTGTAGAATTTATTTCTATACTTTTGGACCACAAGGAAAATCCAAAAAG
129 CATAATGTATCGACACTTCTAGAATTTGTGTCGATACTTTT-GTCCAAAAGGAATA-CCAAAAAG
* * *
6159 GGTGCACCTATAAATTGTCGATACATTTTTAAACAGTATCGATCCCTAAAACATCGAAACCCATA
192 GGTGCACCTATAAAATGTCGATACATTTTTAAA-AGTATCGATCCCAAAAACATCGAAACCAATA
* * *
6224 AATATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGTCAGAATA
256 AATATAATGTAATAGGTAA-TTTATAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATA
* * *
6289 GGTCTACATAATGTGTCGACACGATTGAATGATGTGTCGATACTTATTGTCCATAATGAATGCTC
320 GGTCTACATAATGTGTCGACACGATTGAATGTTGTGTCGATACTTTTTGTCCAAAATGAATGC-C
*
6354 AAAAGGGTGAACA
384 AAAAGGGTGAACG
6367 CATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACAGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * **
6431 GTAATATGTAAATTTATAATGTAACCGGT-TAAATATACCAGA-TTTATGTTAAAATAGGTGAAC
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACC-GATTTTATGAGAAAATAGGTGAAC
* * *
6494 ATAATGTATCGACACGTTTTAG-ATTTGTGTCGATATTTTTTGTCCAAAATGAATACC-AAAAGG
130 ATAATGTATCGACAC-TTCTAGAATTTGTGTCGATA-CTTTTGTCCAAAAGGAATACCAAAAAGG
* * * * *
6557 GTTGCACGTATAAAGTGTTGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAT
193 G-TGCACCTATAAAATGTCGATACAT-TTTT-AAAAGTATCGATCCCAAAAACATCGAAACCAAT
* * * * * * *
6622 AATTATAATGTAATAGGTAAATTTACAATTTAACCGGTATAAATATAGCGATTTTATGAGAAAAT
255 AAATATAATGTAATAGGT-AATTTATAATATAACCGGTATAAATATACCGGTTTTATGTGAGAAT
** * *
6687 AGGTGAACATAATGTATCGACACGTTTGAGAT-TTGTGTCGATACTTTTTGTCCAAAATGAATGC
319 AGGTCTACATAATGTGTCGACACGATTGA-ATGTTGTGTCGATACTTTTTGTCCAAAATGAATGC
*
6751 CAAAAGGGTTGCACG
383 CAAAAGGG-TGAACG
* *
6766 CATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATTGAAACCGATAATTATAA
1 CATAAAGTGTCGATACA-GTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * * *
6831 TGTAATAGGTAAATTTACAATGTAACCGATATAAATATACTGGTTTTATGAGAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGATTTTATGAGAAAATAGGTGAAC
*
6896 ATAATGTATCGACACGTTTTAG-ATTTGTGTCGAT
130 ATAATGTATCGACAC-TTCTAGAATTTGTGTCGAT
6930 GCTTATAAAT
Statistics
Matches: 839, Mismatches: 96, Indels: 53
0.85 0.10 0.05
Matches are distributed among these distances:
397 11 0.01
398 171 0.20
399 409 0.49
400 113 0.13
401 73 0.09
402 62 0.07
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (396 bp):
CATAAAGTGTCGATACAGTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGATTTTATGAGAAAATAGGTGAACA
TAATGTATCGACACTTCTAGAATTTGTGTCGATACTTTTGTCCAAAAGGAATACCAAAAAGGGTG
CACCTATAAAATGTCGATACATTTTTAAAAGTATCGATCCCAAAAACATCGAAACCAATAAATAT
AATGTAATAGGTAATTTATAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTA
CATAATGTGTCGACACGATTGAATGTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGG
TGAACG
Found at i:6744 original size:201 final size:199
Alignment explanation
Indices: 5568--6929 Score: 1543
Period size: 201 Copynumber: 6.8 Consensus size: 199
5558 TAAAGTTTCC
* * *
5568 CATAAAGTGTCGATACAGTTTTAAAAAGTATCGATCCCAGAAACATCGAAATCC-ATAAATATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAA
* * * *
5632 TGTAATAGGTAAATTTACAATATAACCGGTATAACTAAACCGATTTTATGAGAGAATAGGTCTAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAAC
* * * * *
5697 AAAATTTATCGACAC-TTCTG-GAATTTGTGTCGATACTCTTTT-TCTAAAAGGAATGCCCATAA
130 ATAATGTATCGACACGTT-TGAG-ATTTGTGTCGATACT-TTTTGTCCAAAATGAAT-ACCA-AA
* *
5759 AGGAAT-CACT
190 AGG-GTGCACG
* * * * *
5769 CATAAAATGTCGAAACATTTTTAAAACGTATCGATCCCAAAAACATCGAAACCAATAATGATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * *
5834 GTAATAGGT-AATTTATAATATAACCGGTATAAATATACCG-GTTTATGTGAGAATAGGTCTACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACA
* * * * * * * * *
5897 CAATATGTCGATACATTTTA-ATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAAAAGGG
131 TAATGTATCGACACGTTTGAGAT-TTGTGTCGATACTTTTTGTCCAAAATGAAT-ACCAAAAGGG
*
5961 TGAACG
194 TGCACG
* * * *
5967 CATAAAGTGTCGATACATATATAAAAAGTATCGATCCCAAAAACGTCGAAATCGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * *
6032 GTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCG-TTTTTTTAGAAAATAGAT-ATAC
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCA-AC
* * * * * * * *
6095 ATAATGTATCGACAC--TTGTAGAATTTATTTCTATACTTTTGGACCACAAGGAAAATCCAAAAA
130 ATAATGTATCGACACGTTTG-AG-ATTTGTGTCGATACTTTTTGTCCAAAATGAATA-CC-AAAA
6158 GGGTGCAC-
191 GGGTGCACG
* * * * *
6166 CTATAAATTGTCGATACATTTTTAAACAGTATCGATCCCTAAAACATCGAAACCCATAAATATAA
1 C-ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* ** * * ** * *
6231 TGTAATAGGTAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGTCAGAATAGGTCTAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAAC
* * * * * *
6296 ATAATGTGTCGACACGATTGA-ATGATGTGTCGATACTTATTGTCCATAATGAATGCTCAAAAGG
130 ATAATGTATCGACACGTTTGAGAT-TTGTGTCGATACTTTTTGTCCAAAATGAATAC-CAAAAGG
* *
6360 GTGAACA
193 GTGCACG
6367 CATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * ** *
6431 GTAATATGTAAATTTATAATGTAACCGGT-TAAATATACCAGA-TTTATGTTAAAATAGGTGAAC
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACC-GATTTTATGAGAAAATAGGTCAAC
* *
6494 ATAATGTATCGACACGTTTTAGATTTGTGTCGATATTTTTTGTCCAAAATGAATACCAAAAGGGT
130 ATAATGTATCGACACGTTTGAGATTTGTGTCGATACTTTTTGTCCAAAATGAATACCAAAAGGG-
6559 TGCACG
194 TGCACG
* * *
6565 TATAAAGTGTTGATACATGTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATACAT-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * *
6630 TGTAATAGGTAAATTTACAATTTAACCGGTATAAATATAGCGATTTTATGAGAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAAC
*
6695 ATAATGTATCGACACGTTTGAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGT
130 ATAATGTATCGACACGTTTGAGATTTGTGTCGATACTTTTTGTCCAAAATGAATACCAAAAGGG-
6760 TGCACG
194 TGCACG
* *
6766 CATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATTGAAACCGATAATTATAA
1 CATAAAGTGTCGATACAT-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * * * *
6831 TGTAATAGGTAAATTTACAATGTAACCGATATAAATATACTGGTTTTATGAGAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAAC
*
6896 ATAATGTATCGACACGTTTTAGATTTGTGTCGAT
130 ATAATGTATCGACACGTTTGAGATTTGTGTCGAT
6930 GCTTATAAAT
Statistics
Matches: 993, Mismatches: 140, Indels: 56
0.84 0.12 0.05
Matches are distributed among these distances:
197 11 0.01
198 169 0.17
199 206 0.21
200 238 0.24
201 365 0.37
202 1 0.00
203 3 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (199 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCAACA
TAATGTATCGACACGTTTGAGATTTGTGTCGATACTTTTTGTCCAAAATGAATACCAAAAGGGTG
CACG
Found at i:6779 original size:599 final size:596
Alignment explanation
Indices: 5567--6911 Score: 1685
Period size: 599 Copynumber: 2.2 Consensus size: 596
5557 TTAAAGTTTC
* *
5567 CCATAAAGTGTCGATACAGTTTTAAAAAGTATCGATCCCAGAAACATCGAAATCCATAAATATAA
1 CCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCA-AAACATCGAAACCCATAAATATAA
* * *
5632 TGTAATAGGTAAATTTACAATATAACCGGTATAACTAAACCGATTTTATGAGAGAATAGGTCTAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATA-CGGTTTTATGAGAGAATAGGTCTAC
* * * * * *
5697 AAAATTTATCGACAC-TTCTGGAATTTGTGTCGATACTCTTTTTCTAAAAGGAATGCCCATAAAG
129 ATAATGTATCGACACGATCTGGAATATGTGTCGATACTCTTTGTCCAAAAGGAATGCCCATAAAG
* * *
5761 GAATCACTCATAAAATGTCGAAACATTTTTAAAACGTATCGATCCCAAAAACATCGAAACCAATA
194 GAATAACACATAAAATGTCGAAACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATA
* *
5826 ATGATAATGTAATAGGTAATTTATAATATAACCGGTATAAATATACCGGTTTATGTGAGAATAGG
259 ATGATAATGTAATAGGTAATTTATAATATAACCGGTATAAATATACCGATTTATGTGAAAATAGG
* * * * *
5891 TCTACACAATATGTCGATACATTTTAATGTTGTGTCGATACTTTTTGTACAGAATGAATGCCCAA
324 TCAACACAATATATCGACACATTTTAATGTTGTGTCGATACTTTTTGTACAAAATGAATGACCAA
* * *
5956 AAGGGTGAACGCATAAAGTGTCGATACATATATAAAAAGTATCGATCCCAAAAACGTCGAAATCG
389 AAGGGTGAACGCATAAAGTGTCGATACATATATAAAAAGTATCGATCCAAAAAACATCGAAACCG
* *
6021 ATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGTTTTTTTAGAAAA
454 ATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGTTTTATGAGAAAA
* * *
6086 TAGATATACATAATGTATCGACACTTGTAGAATTTATTTCTATACTTTTGGACCACAAGGAAAAT
519 TAGATATACATAATGTATCGACACTTGTAGAATTTATGTCGATACTTTTGGACCAAAAGG-AAAT
6151 CCAAAAAGGGTGCA
583 CCAAAAAGGGTGCA
* *
6165 CCTATAAATTGTCGATACATTTTTAAACAGTATCGATCCCTAAAACATCGAAACCCATAAATATA
1 CC-ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCC-AAAACATCGAAACCCATAAATATA
* ** **
6230 ATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGTCAGAATAGGTCTA
64 ATGTAATAGGTAAATTTACAATATAACCGGTATAAATATA-CGGTTTTATGAGAGAATAGGTCTA
* * * *
6295 CATAATGTGTCGACACGAT-T-GAATGATGTGTCGATACT-TATTGTCCATAATGAATGCTCA-A
128 CATAATGTATCGACACGATCTGGAAT-ATGTGTCGATACTCT-TTGTCCAAAAGGAATGCCCATA
* * *
6356 AAGG-GTGAACACATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACC
191 AAGGAAT-AACACATAAAATGTCGAAACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACC
* * * * *
6419 GATAATTATAATGTAATATGTAAATTTATAATGTAACCGGT-TAAATATACCAGATTTATGTTAA
255 AATAATGATAATGTAATAGGT-AATTTATAATATAACCGGTATAAATATACC-GATTTATGTGAA
* * * * * *
6483 AATAGGTGAACATAATGTATCGACACGTTTTAGAT-TTGTGTCGATATTTTTTGTCCAAAATGAA
318 AATAGGTCAACACAATATATCGACACATTTTA-ATGTTGTGTCGATACTTTTTGTACAAAATGAA
* * * * *
6547 T-ACCAAAAGGGTTGCACGTATAAAGTGTTGATACATGTTTTAAAAAGTATCGATCCAAAAAACA
382 TGACCAAAAGGG-TGAACGCATAAAGTGTCGATACAT-ATATAAAAAGTATCGATCCAAAAAACA
* * *
6611 TCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATTTAACCGGTATAAATATAGCGATTT
445 TCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCG-TTT
* * * *
6676 TATGAGAAAATAGGTGA-ACATAATGTATCGACACGTT-T-GAGATTTGTGTCGATACTTTTTGT
509 TATGAGAAAATAGAT-ATACATAATGTATCGACAC-TTGTAGA-ATTTATGTCGATACTTTTGGA
*
6738 CCAAAATG-AATGCC-AAAAGGGTTGCA
571 CCAAAAGGAAAT-CCAAAAAGGG-TGCA
* * * *
6764 CGCATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAACATTGAAACCGATAATTAT
1 C-CATAAAGTGTCGATACAT-TTTTAAAAAGTATCGATCC-CAAAACATCGAAACCCATAAATAT
* * * **
6829 AATGTAATAGGTAAATTTACAATGTAACCGATATAAATATACTGGTTTTATGAGAAAATAGGTGA
63 AATGTAATAGGTAAATTTACAATATAACCGGTATAAATATAC-GGTTTTATGAGAGAATAGGTCT
6894 ACATAATGTATCGACACG
127 ACATAATGTATCGACACG
6912 TTTTAGATTT
Statistics
Matches: 641, Mismatches: 85, Indels: 40
0.84 0.11 0.05
Matches are distributed among these distances:
597 72 0.11
598 139 0.22
599 261 0.41
600 166 0.26
601 3 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (596 bp):
CCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAACATCGAAACCCATAAATATAAT
GTAATAGGTAAATTTACAATATAACCGGTATAAATATACGGTTTTATGAGAGAATAGGTCTACAT
AATGTATCGACACGATCTGGAATATGTGTCGATACTCTTTGTCCAAAAGGAATGCCCATAAAGGA
ATAACACATAAAATGTCGAAACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAAT
GATAATGTAATAGGTAATTTATAATATAACCGGTATAAATATACCGATTTATGTGAAAATAGGTC
AACACAATATATCGACACATTTTAATGTTGTGTCGATACTTTTTGTACAAAATGAATGACCAAAA
GGGTGAACGCATAAAGTGTCGATACATATATAAAAAGTATCGATCCAAAAAACATCGAAACCGAT
AATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAAACCGTTTTATGAGAAAATA
GATATACATAATGTATCGACACTTGTAGAATTTATGTCGATACTTTTGGACCAAAAGGAAATCCA
AAAAGGGTGCA
Found at i:11141 original size:199 final size:199
Alignment explanation
Indices: 10434--11357 Score: 1018
Period size: 201 Copynumber: 4.6 Consensus size: 199
10424 ACCTAAATAT
*
10434 GTGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAAACATCTAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCAATAATTATAATGTAA
* * * * * * * * *
10497 GAGGTAAATTAACAATGTAATCGGTATAAATATACCGG-TTAATTAGAAAACATGTCGACATAAT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGATAAAATAGGTC-AAATAAT
* * *
10561 GTATCGACA-TTTGTGTAATTTGTGTCGATACTTATTGTCCAGAGTAAATGCCCAAACGAGGTGC
128 GTATCGACACTTT-T-AAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGC
*
10625 ACACATAAA
191 ACGCATAAA
* * * * * *
10634 GTATTGATACAATTATTAAAAGTATCGATCCCAATAAA-ATTGAAACCGATAATTATAATGCAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCAATAATTATAATGTAAT
* * *
10698 AGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGTTAAAATAGGTGAACATAATG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGATAAAATAGGTCAA-ATAATG
* * * *
10763 TATCGACACGTTTTATATTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAAG-GGTTGCA
129 TATCGACAC-TTTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGG-TGCA
10826 CGCATAAA
192 CGCATAAA
* * *
10834 GTGTCGATACATGTT-TTAAAAAGTATCGATCCAAAAAATATCGAAACCGATAATTATAATGTAA
1 GTGTCGATACAT-TTATT-AAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAA
* *
10898 TATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGATAAAATAGGTCATAATAAA
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGATAAAATAGGTCA-AATAAT
* *
10963 GTATCTACACTTATTAAATTTGTGTCGATACATT-TTGTCCATAATGAATG-CCAAACG-GGTGC
128 GTATCGACACTT-TTAAATTTGTGTCGATAC-TTATTGTCCAGAATGAATGCCCAAACGAGGTGC
11025 ACGCATAAA
191 ACGCATAAA
* * *
11034 GTGTCGATACATTTATTAAAACTATCGATCCCAAAAACATCGAAACCAATAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * ** * * *
11099 AGTAAATTTACAATGTACCCAATAGAAATATACCGATTTTATGAAAAAATAGGTCTAAATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGATAAAATAGGTC-AAATAATGT
* * *
11164 ATCGACACTCTTTAAATTTATGTCGATACTTGTT-TCCAGAATGAATGTCC-AACGAGGTGCACG
130 ATCGACACT-TTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACG
11227 CATAAA
194 CATAAA
* * * * ** *
11233 ATGTCGATACATTTA--AAATTGTATCGAT-CTAAAAACATCAAAACTGATAATTATAATTTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAAT
** * * * *
11295 AGGTAAATTTGTAATATTACCGGTATAAATATACC-GATTTACTTATAAAATAGGTCAATATAA
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTA-TGATAAAATAGGTCAA-ATAA
11358 GCGTTACCTA
Statistics
Matches: 619, Mismatches: 82, Indels: 49
0.83 0.11 0.07
Matches are distributed among these distances:
196 6 0.01
197 72 0.12
198 25 0.04
199 158 0.26
200 142 0.23
201 209 0.34
202 4 0.01
203 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGATAAAATAGGTCAAATAATGTA
TCGACACTTTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACGCA
TAAA
Found at i:11190 original size:400 final size:398
Alignment explanation
Indices: 10434--11357 Score: 1100
Period size: 400 Copynumber: 2.3 Consensus size: 398
10424 ACCTAAATAT
* * * *
10434 GTGTCGATACATTTTCT-AAAAGTATCGACCCAAAAAACATCTAAACCAATAATTATAATGTAAG
1 GTGTCGATACATTTT-TAAAAAGTATCGATCCAAAAAACATCAAAACCGATAATTATAATGTAAT
* * * * * * * *
10498 AGGTAAATTAACAATGTAATCGGTATAAATATACCGGTTAATTAGAAAACATGTCGACATAATGT
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATTATAAAATAGGTC-AAATAAAGT
* * *
10563 ATCGACATTTGTGTAATTTGTGTCGATACTTATTGTCCAGAGTAAATGCCCAAACGAGGTGCACA
129 ATCGACACTTATGTAATTTGTGTCGATACTTATTGTCCAGAATAAATGCCCAAACGAGGTGCACA
* * * * *
10628 CATAAAGTATTGATACAATTATTAAAAGTATCGATCCCAATAAAATTGAAACCGATAATTATAAT
194 CATAAAGTATCGATACAATTATTAAAACTATCGATCCCAATAAAATCGAAACCAATAATTACAAT
* ** * * * **
10693 GCAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGTTAAAATAGGTGAACA
259 GCAATAAGTAAATTTACAATGTAACCAATAGAAATATACCGATTTTATGAAAAAATAGGTGAACA
* * *
10758 TAATGTATCGACACGTTTTATATTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAA-AGGG
324 TAATGTATCGACACGTTTTAAATTTATGTCGATACTTGTT-TCCAAAATGAATGTCCAAAGA-GG
10821 TTGCACGCATAAA
387 -TGCACGCATAAA
* *
10834 GTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAATATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACAT-TTTTAAAAAGTATCGATCCAAAAAACATCAAAACCGATAATTATAATGTAAT
* *
10899 ATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGATAAAATAGGTCATAATAAAG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATTATAAAATAGGTCA-AATAAAG
* * *
10964 TATCTACACTTAT-TAAATTTGTGTCGATACATT-TTGTCCATAATGAATG-CCAAACG-GGTGC
128 TATCGACACTTATGT-AATTTGTGTCGATAC-TTATTGTCCAGAATAAATGCCCAAACGAGGTGC
* * *
11025 ACGCATAAAGTGTCGATACATTTATTAAAACTATCGATCCCAA-AAACATCGAAACCAATAATTA
191 ACACATAAAGTATCGATACAATTATTAAAACTATCGATCCCAATAAA-ATCGAAACCAATAATTA
** *
11089 CAATGTGATAAGTAAATTTACAATGTACCCAATAGAAATATACCGATTTTATGAAAAAATAGGTC
255 CAATGCAATAAGTAAATTTACAATGTAACCAATAGAAATATACCGATTTTATGAAAAAATAGGT-
* * *
11154 TAA-ATAATGTATCGACAC-TCTTTAAATTTATGTCGATACTTGTTTCCAGAATGAATGTCCAAC
319 GAACATAATGTATCGACACGT-TTTAAATTTATGTCGATACTTGTTTCCAAAATGAATGTCCAAA
11217 GAGGTGCACGCATAAA
383 GAGGTGCACGCATAAA
* * * * *
11233 ATGTCGATACA--TTTAAAATTGTATCGAT-CTAAAAACATCAAAACTGATAATTATAATTTAAT
1 GTGTCGATACATTTTTAAAA-AGTATCGATCCAAAAAACATCAAAACCGATAATTATAATGTAAT
** * * *
11295 AGGTAAATTTGTAATATTACCGGTATAAATATACCGATTTACTTATAAAATAGGTCAATATAA
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTA-TTATAAAATAGGTCAA-ATAA
11358 GCGTTACCTA
Statistics
Matches: 450, Mismatches: 60, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
395 5 0.01
396 85 0.19
397 8 0.02
399 38 0.08
400 165 0.37
401 91 0.20
402 56 0.12
403 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (398 bp):
GTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCAAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATTATAAAATAGGTCAAATAAAGTAT
CGACACTTATGTAATTTGTGTCGATACTTATTGTCCAGAATAAATGCCCAAACGAGGTGCACACA
TAAAGTATCGATACAATTATTAAAACTATCGATCCCAATAAAATCGAAACCAATAATTACAATGC
AATAAGTAAATTTACAATGTAACCAATAGAAATATACCGATTTTATGAAAAAATAGGTGAACATA
ATGTATCGACACGTTTTAAATTTATGTCGATACTTGTTTCCAAAATGAATGTCCAAAGAGGTGCA
CGCATAAA
Found at i:19820 original size:24 final size:24
Alignment explanation
Indices: 19783--19831 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
19773 AATTCATTTT
*
19783 ACGTAAAC-ATTTTTAGGTAATTC
1 ACGTAAACAATTTTCAGGTAATTC
*
19806 ACGTAAAACAATTTTCATGTAATTC
1 ACGT-AAACAATTTTCAGGTAATTC
19831 A
1 A
19832 TTTTACGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 4 0.18
25 14 0.64
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (24 bp):
ACGTAAACAATTTTCAGGTAATTC
Found at i:19858 original size:30 final size:29
Alignment explanation
Indices: 19806--19879 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
19796 TAGGTAATTC
* * * *
19806 ACGTAAAACAATTTTCATGTAATTCATTTT
1 ACGT-AAATAATTTTAAAGTAATCCATTTT
19836 ACGTCAAATAATTTTAAAGTAATCCATTTT
1 ACGT-AAATAATTTTAAAGTAATCCATTTT
*
19866 ACGTAAATTATTTT
1 ACGTAAATAATTTT
19880 CGAGAAAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 9 0.24
30 29 0.76
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (29 bp):
ACGTAAATAATTTTAAAGTAATCCATTTT
Found at i:20848 original size:18 final size:19
Alignment explanation
Indices: 20821--20858 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
20811 TATATATATA
*
20821 TATATATATTAATATTCTT
1 TATATATATTAATATACTT
*
20840 TATAT-TATTGATATACTT
1 TATATATATTAATATACTT
20858 T
1 T
20859 TCTATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
TATATATATTAATATACTT
Found at i:21039 original size:13 final size:16
Alignment explanation
Indices: 21020--21055 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 16
21010 CCTTTATTAT
21020 TTATTTTT-CT-TTTA
1 TTATTTTTACTGTTTA
21034 -TATTTTTACTGTTTA
1 TTATTTTTACTGTTTA
21049 TTATTTT
1 TTATTTT
21056 CTTCATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.37
14 2 0.11
15 4 0.21
16 6 0.32
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (16 bp):
TTATTTTTACTGTTTA
Found at i:22240 original size:2 final size:2
Alignment explanation
Indices: 22233--22265 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22223 AAAATTATTT
22233 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22266 TTCGGGACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24683 original size:16 final size:17
Alignment explanation
Indices: 24662--24695 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24652 ACTATTCATA
24662 TGAATAGT-AAATTTTG
1 TGAATAGTAAAATTTTG
24678 TGAATAGTAAAATTTTG
1 TGAATAGTAAAATTTTG
24695 T
1 T
24696 CGACGATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (17 bp):
TGAATAGTAAAATTTTG
Found at i:25956 original size:2 final size:2
Alignment explanation
Indices: 25949--25975 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25939 CCTTTTTCTC
25949 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 A
25976 ACATATTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26054 original size:21 final size:21
Alignment explanation
Indices: 26028--26075 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
26018 ACATGACCTA
26028 TTATGACTTATTATCAATATC
1 TTATGACTTATTATCAATATC
26049 TTATGACTTATTATCAATATC
1 TTATGACTTATTATCAATATC
*
26070 TCATGA
1 TTATGA
26076 TCACATGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (21 bp):
TTATGACTTATTATCAATATC
Found at i:26394 original size:2 final size:2
Alignment explanation
Indices: 26387--26453 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
26377 CTACACAATC
26387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26429 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 A
26454 CTATCAGTAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26550 original size:20 final size:20
Alignment explanation
Indices: 26525--26562 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26515 TACCCATTGA
**
26525 AGTGCATCGGTGCATTCTAC
1 AGTGCATCAATGCATTCTAC
26545 AGTGCATCAATGCATTCT
1 AGTGCATCAATGCATTCT
26563 TTAACAGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCAATGCATTCTAC
Found at i:30130 original size:21 final size:21
Alignment explanation
Indices: 30104--30151 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
30094 ACATGACCTA
30104 TTATGACTTATTATCAATATC
1 TTATGACTTATTATCAATATC
30125 TTATGACTTATTATCAATATC
1 TTATGACTTATTATCAATATC
*
30146 TCATGA
1 TTATGA
30152 TCACATGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (21 bp):
TTATGACTTATTATCAATATC
Found at i:30470 original size:2 final size:2
Alignment explanation
Indices: 30463--30487 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30453 CTACACAATC
30463 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 A
30488 CTATCAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30612 original size:24 final size:20
Alignment explanation
Indices: 30563--30620 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
30553 TTCTCATTGA
*
30563 AGTGCATCGGTGCATTCTAC
1 AGTGCATCGATGCATTCTAC
30583 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
30606 AGGTGCATCGATGCA
1 A-GTGCATCGATGCA
30621 CTACCATGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:30819 original size:21 final size:20
Alignment explanation
Indices: 30773--30812 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30763 ATGCACACAA
* *
30773 CCCAGAAATTATATTTTGAG
1 CCCAAAAATTATACTTTGAG
30793 CCCAAAAATTATTACTTTGA
1 CCCAAAAATTA-TACTTTGA
30813 CCTCAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (20 bp):
CCCAAAAATTATACTTTGAG
Found at i:40194 original size:18 final size:18
Alignment explanation
Indices: 40168--40204 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
40158 TCGTTTACCT
40168 GACCCGTTGACCCAACCC
1 GACCCGTTGACCCAACCC
* *
40186 GACCTGTTGACCCGACCC
1 GACCCGTTGACCCAACCC
40204 G
1 G
40205 TTGACCCGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.46, G:0.22, T:0.14
Consensus pattern (18 bp):
GACCCGTTGACCCAACCC
Found at i:40198 original size:13 final size:13
Alignment explanation
Indices: 40182--40225 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
40172 CGTTGACCCA
*
40182 ACCCGACCTGTTG
1 ACCCGACCCGTTG
40195 ACCCGACCCGTTG
1 ACCCGACCCGTTG
**
40208 ACCCGAGTCGTTG
1 ACCCGACCCGTTG
40221 ACCCG
1 ACCCG
40226 TTGACTGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.41, G:0.25, T:0.18
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:40237 original size:15 final size:15
Alignment explanation
Indices: 40216--40252 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
40206 TGACCCGAGT
*
40216 CGTTGACCCGTTGAC
1 CGTTGACCCATTGAC
*
40231 TGTTGACCCATTGAC
1 CGTTGACCCATTGAC
40246 CGTTGAC
1 CGTTGAC
40253 TGGCGTTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.16, C:0.30, G:0.24, T:0.30
Consensus pattern (15 bp):
CGTTGACCCATTGAC
Found at i:41722 original size:20 final size:20
Alignment explanation
Indices: 41697--41742 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
41687 TGTCAATACC
41697 TGAATGACATAGATATTACT
1 TGAATGACATAGATATTACT
*
41717 TGAATGCCATAGATATTACT
1 TGAATGACATAGATATTACT
41737 TGAATG
1 TGAATG
41743 TGTGTTCGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (20 bp):
TGAATGACATAGATATTACT
Found at i:43668 original size:13 final size:13
Alignment explanation
Indices: 43650--43723 Score: 67
Period size: 13 Copynumber: 5.3 Consensus size: 13
43640 AGTGGTCAAC
43650 GGTCAACGGGTCG
1 GGTCAACGGGTCG
43663 GGTCAACGGGTCG
1 GGTCAACGGGTCG
* *
43676 GATCAACAGGTCGGGTTG
1 GGTC-A-A---CGGGTCG
*
43694 GGTCAACGGGTCA
1 GGTCAACGGGTCG
*
43707 GGTAAACGGGTCG
1 GGTCAACGGGTCG
43720 GGTC
1 GGTC
43724 GGGTCATGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
13 35 0.73
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 9 0.19
ACGTcount: A:0.19, C:0.20, G:0.43, T:0.18
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:43691 original size:31 final size:31
Alignment explanation
Indices: 43656--43729 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
43646 CAACGGTCAA
*
43656 CGGGTCGGGTCAACGGGTC-GGATCAACAGGT
1 CGGGTCGGGTCAACGGGTCAGG-TAAACAGGT
* *
43687 CGGGTTGGGTCAACGGGTCAGGTAAACGGGT
1 CGGGTCGGGTCAACGGGTCAGGTAAACAGGT
43718 CGGGTCGGGTCA
1 CGGGTCGGGTCA
43730 TGACCGGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.18, C:0.20, G:0.45, T:0.18
Consensus pattern (31 bp):
CGGGTCGGGTCAACGGGTCAGGTAAACAGGT
Found at i:54792 original size:8 final size:8
Alignment explanation
Indices: 54781--54823 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
54771 TTTTTTGGTT
54781 TTTTCTCC
1 TTTTCTCC
54789 TTTTCTCC
1 TTTTCTCC
54797 TTTTCTCC
1 TTTTCTCC
*
54805 TTTTTTTCC
1 -TTTTCTCC
54814 TTTT-TCC
1 TTTTCTCC
54821 TTT
1 TTT
54824 CTATTTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 6 0.18
8 20 0.61
9 7 0.21
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTCTCC
Found at i:57515 original size:18 final size:18
Alignment explanation
Indices: 57488--57522 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57478 CCACTATGAA
*
57488 ATGTCTCGAAGGACCACT
1 ATGTCCCGAAGGACCACT
57506 ATGTCCCGAAGGACCAC
1 ATGTCCCGAAGGACCAC
57523 GTAGAACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACT
Found at i:57879 original size:18 final size:18
Alignment explanation
Indices: 57834--57882 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
57824 TCATTCATGT
* *
57834 CATATATCATATACCAATA
1 CATATAACACATA-CAATA
57853 CATATAACACATACAAT-
1 CATATAACACATACAATA
57870 CATATCAACACAT
1 CATAT-AACACAT
57883 GCCTATATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 5 0.19
18 11 0.41
19 11 0.41
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (18 bp):
CATATAACACATACAATA
Found at i:59647 original size:54 final size:54
Alignment explanation
Indices: 59562--59667 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
59552 TGACATGGAA
* * *
59562 TTTAGTTTTCAATATTTCAGAATGAAGAAGATGAGTCGACT-GTCCAGGTAAGCG
1 TTTAGTTTTCAATATTTCAAAAAGAAAAAGATGAGTCGA-TGGTCCAGGTAAGCG
*
59616 TTTAGTTTTCAATGTTTCAAAAAGAAAAAGATGAGTCGATGGTCCAGGTAAG
1 TTTAGTTTTCAATATTTCAAAAAGAAAAAGATGAGTCGATGGTCCAGGTAAG
59668 AGTTAACGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
53 1 0.02
54 46 0.98
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (54 bp):
TTTAGTTTTCAATATTTCAAAAAGAAAAAGATGAGTCGATGGTCCAGGTAAGCG
Found at i:61389 original size:19 final size:19
Alignment explanation
Indices: 61365--61406 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
61355 CTTAATTTTC
*
61365 AATAATACTTAAAATAATT
1 AATAATACTTAAAATAAAT
*
61384 AATAATATTTAAAATAAAT
1 AATAATACTTAAAATAAAT
61403 AATA
1 AATA
61407 TCACTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAATACTTAAAATAAAT
Found at i:62397 original size:21 final size:22
Alignment explanation
Indices: 62350--62397 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
62340 ATTACTAAAA
* *
62350 ATTTTGAGTTATTTGAGTTACT
1 ATTTTAAGTTATTCGAGTTACT
*
62372 A-TTTAAGTTATTCGAGTT-GT
1 ATTTTAAGTTATTCGAGTTACT
62392 ATTTTA
1 ATTTTA
62398 TAACTCAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 19 0.86
22 1 0.05
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (22 bp):
ATTTTAAGTTATTCGAGTTACT
Found at i:62525 original size:19 final size:19
Alignment explanation
Indices: 62498--62537 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
62488 TATAATATAT
* *
62498 ATATCTTGAATTAAAATAA
1 ATATATTGAATAAAAATAA
62517 ATATATTGAATAAAAATAA
1 ATATATTGAATAAAAATAA
62536 AT
1 AT
62538 TTAATGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
ATATATTGAATAAAAATAA
Done.