Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005943.1 Hibiscus syriacus cultivar Beakdansim tig00013957_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: 71341
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:380 original size:13 final size:14
Alignment explanation
Indices: 355--383 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
345 ATAAAATGAG
355 ATAAATATAAATAA
1 ATAAATATAAATAA
369 ATAAAT-TAAATAA
1 ATAAATATAAATAA
382 AT
1 AT
384 TGAGATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAAATATAAATAA
Found at i:1839 original size:202 final size:204
Alignment explanation
Indices: 1500--2390 Score: 707
Period size: 202 Copynumber: 4.3 Consensus size: 204
1490 ACTTATCAAT
*
1500 AGTCAATTCCATACCGCCAAATACTCTTTCACCTTATCAGCAT--GCGAGAAAGAATACTCCGTG
1 AGTCAATTCCATACCGCCAAATACTC-TTCACCTTATCAGCATGAGCGA-AAAGAATACTTCGTG
* * * * *
1563 ACAACTACAACAGTCAAGACATTATTGTAGGCATTGATGAACATGGGTGGTGCAACAACAACTGA
64 GCAACTACAACA-CCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACAACAACTGC
* *
1628 AAATTTGCTTGGATCCTGAAAGTGTGCAACAATTAATTGAA-TAAAAATATGAGGAATTTTGAAA
128 AAATTTGCTTGGATCCTGAAAGCGTGCAACAATTAATTGAACTAAAAAGAT-AGGAATTTTGAAA
*
1692 TAATGAGCAGGTTAAA
192 TAAT-A-CA-GTTAAG
* * * *
1708 AGTCAATTCCATACCGCTAAATACTC-TCACCTTCTCAGCCTGAGCG-AAAGAGTACTTCGTGGC
1 AGTCAATTCCATACCGCCAAATACTCTTCACCTTATCAGCATGAGCGAAAAGAATACTTCGTGGC
* * * * * *
1771 AACTGCAACA-CAAGACATTCTTGTCGGTATTGATGAACACG-G-GGTCCAGCAACAACTGCAAA
66 AACTACAACACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACAACAACTGCAAA
* * * * *
1833 TTTGCTTGGGT-CTTAGAAGCGTGAAACAATTAATTGAAACTAAAAAAGATAGGAAAATTTAAAA
131 TTTGCTTGGATCCTGA-AAGCGTGCAACAATTAATTG-AACT-AAAAAGATAGG-AATTTTGAAA
1897 TAATTAACAAGTTAAG
192 TAA-T-AC-AGTTAAG
** * * * * *
1913 AGTTGATTCCATACTGCCAAAAACTCTTTCCCCTTATTAGCAT--GCTGAAAAGAATACTTCGTT
1 AGTCAATTCCATACCGCCAAATACTC-TTCACCTTATCAGCATGAGC-GAAAAGAATACTTCGTG
* ** * * *
1976 GCAATTGTAACAACCAAGACATTCTTTTATGCATTGATGAACATGTGTGGTTCAACAGA-AACTG
64 GCAACTACAAC-ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACA-ACAACTG
* * ** * * *
2040 CAAATTTTCTTGGATCCTAAAAAAGTGTAACAATTAATTGAA-TATAAAGAT-GAAATTTTGAAA
127 CAAATTTGCTTGGATCCTGAAAGCGTGCAACAATTAATTGAACTAAAAAGATAGGAATTTTGAAA
2103 T-A-A-AGTTAAG
192 TAATACAGTTAAG
* * * * * * *
2113 AGTCGATTCCATATCG-CTAATACCCTTTCACCTTCTCAGCTTGAG-GAAAAAAAAAATAC-TCT
1 AGTCAATTCCATACCGCCAAATACTC-TTCACCTTATCAGCATGAGCG---AAAAGAATACTTC-
* * * * * *
2175 GTGGCAACTACAATAGCCAAGACATTCTTGTAGGCATTGATAAACATGTGTGGTGTATCATCAAT
61 GTGGCAACTACAACA-CCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACAACAAC
* * *
2240 TGTAAATATGCTTGGATCCTGAAAGCGTGCAACAATTAATTTAAACTAAAAAGATAGGAATTTTT
125 TGCAAATTTGCTTGGATCCTGAAAGCGTGCAACAATTAA-TTGAACTAAAAAGATAGGAA-TTTT
***
2305 TTTATAATTAACATGTTAAG
188 GAAATAA-T-ACA-GTTAAG
* * * * *
2325 AGTCGATTCCACACCTCCAAAAACTC-TCACCTTTTCAGTCTATG-G-G-AAAGAATAC-TCTGT
1 AGTCAATTCCATACCGCCAAATACTCTTCACCTTATCAG-C-ATGAGCGAAAAGAATACTTC-GT
2385 GGCAAC
63 GGCAAC
2391 CTCAGTTTTA
Statistics
Matches: 544, Mismatches: 99, Indels: 80
0.75 0.14 0.11
Matches are distributed among these distances:
199 20 0.04
200 20 0.04
201 7 0.01
202 136 0.25
203 7 0.01
204 39 0.07
205 51 0.09
206 55 0.10
207 35 0.06
208 55 0.10
209 27 0.05
210 4 0.01
211 54 0.10
212 26 0.05
213 8 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (204 bp):
AGTCAATTCCATACCGCCAAATACTCTTCACCTTATCAGCATGAGCGAAAAGAATACTTCGTGGC
AACTACAACACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACAACAACTGCAAA
TTTGCTTGGATCCTGAAAGCGTGCAACAATTAATTGAACTAAAAAGATAGGAATTTTGAAATAAT
ACAGTTAAG
Found at i:2276 original size:413 final size:409
Alignment explanation
Indices: 1500--2390 Score: 934
Period size: 413 Copynumber: 2.2 Consensus size: 409
1490 ACTTATCAAT
* * *
1500 AGTCAATTCCATACCGCCAAATACTCTTTCACCTTATCAGCATGCGAGAAAGAATACTCCGTGAC
1 AGTCGATTCCATACTGCCAAAAACTCTTTCACCTTATCAGCATGCGAGAAAGAATACTCCGTGAC
**
1565 AACTACAACAGTCAAGACATTATTGTAGGCATTGATGAACATGGGTGGTGCAACAACAACTGAAA
66 AACTACAACAACCAAGACATTATTGTAGGCATTGATGAACATGGGTGGTGCAACAACAACTGAAA
* ** *
1630 ATTTGCTTGGATCCTGAAAGTGTGCAACAATTAATTGAATAAAAATATGAGGAATTTTGAAATAA
131 ATTTGCTTGGATCCTAAAAAAGTGCAACAATTAATTGAATAAAAAGATGA-GAATTTTGAAATAA
* *
1695 TGAGCAGGTTAAAAGTCAATTCCATACCGCTAAATACTCTCACCTTCTCAGCCTGAGCGAAAGAG
195 -GA-CAGGTTAAAAGTCAATTCCATACCGCTAAATACTCTCACCTTCTCAGCCTGAGCGAAAAAA
* * * *
1760 TACTTCGTGGCAACTGCAACACAAGACATTCTTGTCGGTATTGATGAACACGGGGTCCAGCAACA
258 TACTTCGTGGCAACTACAACACAAGACATTCTTGTAGGCATTGATAAACACGGGGTCCAGCAACA
* * *
1825 ACTGCAAATTTGCTTGGGTCTTAGAAGCGTGAAACAATTAATTGAAACTAAAAAAGATAGGAAAA
323 ACTGCAAATATGCTTGGATCTGAGAAGCGTGAAACAATTAATTGAAACT-AAAAAGATAGGAAAA
1890 TTTAAAATAATTAACAAGTTAAG
387 TTTAAAATAATTAACAAGTTAAG
* * * *
1913 AGTTGATTCCATACTGCCAAAAACTCTTTCCCCTTATTAGCATGCTGA-AAAGAATACTTCGTTG
1 AGTCGATTCCATACTGCCAAAAACTCTTTCACCTTATCAGCATGC-GAGAAAGAATACTCCG-TG
* ** * * * * *
1977 -CAATTGTAACAACCAAGACATTCTTTTATGCATTGATGAACATGTGTGGTTCAACAGA-AACTG
64 ACAACTACAACAACCAAGACATTATTGTAGGCATTGATGAACATGGGTGGTGCAACA-ACAACTG
* * * *
2040 CAAATTTTCTTGGATCCTAAAAAAGTGTAACAATTAATTGAATATAAAGATGA-AATTTTGAAAT
128 AAAATTTGCTTGGATCCTAAAAAAGTGCAACAATTAATTGAATAAAAAGATGAGAATTTTGAAAT
* * * * *
2104 -A-A-A-GTTAAGAGTCGATTCCATATCGCT-AATACCCTTTCACCTTCTCAGCTTGAG-GAAAA
193 AAGACAGGTTAAAAGTCAATTCCATACCGCTAAATA--CTCTCACCTTCTCAGCCTGAGCG----
* *
2163 AAAAAATAC-TCTGTGGCAACTACAATAGCCAAGACATTCTTGTAGGCATTGATAAACATGTGTG
252 AAAAAATACTTC-GTGGCAACTACAACA--CAAGACATTCTTGTAGGCATTGATAAACACG-G-G
** * * * * * *
2227 GTGTATCATCAATTGTAAATATGCTTGGATCCTGA-AAGCGTGCAACAATTAATTTAAACTAAAA
312 GTCCAGCAACAACTGCAAATATGCTTGGAT-CTGAGAAGCGTGAAACAATTAATTGAAACTAAAA
** *** *
2291 AGATAGGAATTTTTTTTATAATTAACATGTTAAG
376 AGATAGGAAAATTTAAAATAATTAACAAGTTAAG
* * *
2325 AGTCGATTCCACACCT-CCAAAAACTC--TCACCTTTTCAGTCTATG-G-GAAAGAATACTCTGT
1 AGTCGATTCCATA-CTGCCAAAAACTCTTTCACCTTATCAG-C-ATGCGAGAAAGAATACTCCGT
*
2385 GGCAAC
63 GACAAC
2391 CTCAGTTTTA
Statistics
Matches: 395, Mismatches: 63, Indels: 43
0.79 0.13 0.09
Matches are distributed among these distances:
404 4 0.01
405 22 0.06
406 20 0.05
408 3 0.01
409 22 0.06
410 25 0.06
411 39 0.10
412 57 0.14
413 195 0.49
414 8 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (409 bp):
AGTCGATTCCATACTGCCAAAAACTCTTTCACCTTATCAGCATGCGAGAAAGAATACTCCGTGAC
AACTACAACAACCAAGACATTATTGTAGGCATTGATGAACATGGGTGGTGCAACAACAACTGAAA
ATTTGCTTGGATCCTAAAAAAGTGCAACAATTAATTGAATAAAAAGATGAGAATTTTGAAATAAG
ACAGGTTAAAAGTCAATTCCATACCGCTAAATACTCTCACCTTCTCAGCCTGAGCGAAAAAATAC
TTCGTGGCAACTACAACACAAGACATTCTTGTAGGCATTGATAAACACGGGGTCCAGCAACAACT
GCAAATATGCTTGGATCTGAGAAGCGTGAAACAATTAATTGAAACTAAAAAGATAGGAAAATTTA
AAATAATTAACAAGTTAAG
Found at i:5368 original size:18 final size:17
Alignment explanation
Indices: 5327--5370 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
5317 CAATATAAAC
*
5327 AAAAATATAAAAGTATA
1 AAAAATATAAAAGAATA
5344 AATAAATATCAAAAGAATA
1 AA-AAATAT-AAAAGAATA
*
5363 GAAAATAT
1 AAAAATAT
5371 TATATCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 12 0.52
19 9 0.39
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (17 bp):
AAAAATATAAAAGAATA
Found at i:6517 original size:209 final size:207
Alignment explanation
Indices: 6077--8571 Score: 1794
Period size: 205 Copynumber: 12.1 Consensus size: 207
6067 CATCCAAAAA
* * * * *
6077 ATTCTTGTAGTCATTAATGAACACCTGTGGTGTAACAACAACTGCAAATTTGCTTGGATCTTGAA
1 ATTCTTGTAGGCATTGATGAACA--TGTGGTGCAACAACAACTGCAAATTTGCTTGGATCCTGGA
* * * * * * *
6142 AGCGTCCAACAATTAATTGAAACATAAAAAGATATGATATTTTAAAATAA-TAACCAAGTAAAGA
64 AGCGTGCAACAATTAATTGAATC-TAAAAAGATAGGAAATTTTGAAATAATTAA-CAGGTTAAGA
* * * * *
6206 GTCGATTCCATACCACCAAATACTCCTTCACCTTATTAGCC--A--GAAAGATATAGTTCGTGGC
127 GTCGATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGA-ATA-CTCTTGGC
* *
6267 AACTGCAACAGA-CAATAC
190 AACTACAACA-ACCAAGAC
* * * * *
6285 ATTTTTGTAGGCATTGATGAACATGTGCTACAACAGCAACTGCAAATTTGCTTAGATCCTGGAAG
1 ATTCTTGTAGGCATTGATGAACATGTGGTGCAACAACAACTGCAAATTTGCTTGGATCCTGGAAG
* * * * * *
6350 CATGCATCAATTAATTGACTCTAAAAAGATAGGAAATTTTGAAATAATTATCAGGTTAAAACTCG
66 CGTGCAACAATTAATTGAATCTAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTAAGAGTCG
* * * *
6415 ATTCCATACCGCCAAACACTCTTTCACCTCATCAGCCTGAGAGAAAAAAATACTGCTTGGCAACT
131 ATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCTGAG-GGAAAGAATACT-CTTGGCAACT
*
6480 ACAACAACCAATAC
194 ACAACAACCAAGAC
* * * *
6494 ATTCTTGTAGGCATTGATGAACATGTGTGAGGCAACAACAACTGCAAATTGGCTTGGATTCTGCA
1 ATTCTTGTAGGCATTGATGAACATGTG-G-TGCAACAACAACTGCAAATTTGCTTGGATCCTGGA
* * * * * *
6559 AGCGTACAACAATCAATTGAAACTCAAAAAGATAAGAAATTTTTAAATAATTAACATGTTAAGAG
64 AGCGTGCAACAATTAATTGAATCT-AAAAAGATAGGAAATTTTGAAATAATTAACAGGTTAAGAG
*
6624 TCGA-T---T-----C---TA-----TCACCTTATCAG-CTGGAGGGAAAGAATACTTCGTGGCA
128 TCGATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCT-GAGGGAAAGAATAC-TCTTGGCA
*
6671 ACT-CTAACAGCCAAGAC
191 ACTAC-AACAACCAAGAC
** * *
6688 ATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACATTAACTGCAAATTTTCTTGGATCCTAGA
1 ATTCTTGTAGGCATTGATGAACA--TGTGGTGCAACAACAACTGCAAATTTGCTTGGATCCTGGA
** * * * *
6753 AGCAAGCAATAATAAATTGAATATAAAAA-ATATTGGAAATTTTGAAATAATTAACATGTTAAGA
64 AGCGTGCAACAATTAATTGAATCTAAAAAGATA--GGAAATTTTGAAATAATTAACAGGTTAAGA
* * * * ** * *
6817 CTCCATTCCATACCTCTAAATAAACTTGT-ACCATATCAGCTTGAGGGAAAGAATACTCTATGGC
127 GTCGATTCCATACCGCCAAATACTCTT-TCACCTTATCAGCCTGAGGGAAAGAATACTCT-TGGC
**
6881 AACTACAACAGTCAAGAC
190 AACTACAACAACCAAGAC
* * * * * ** *
6899 ATTATAGTAGGCATTGATGAACATGTGTGGTGAAACAACAATTGCAATTCTTTTTTGGATCATGG
1 ATTCTTGTAGGCATTGATGAACA--TGTGGTGCAACAACAACTGCAAAT-TTGCTTGGATCCTGG
* * * * *
6964 AGGCGTCCAACAATTAATTAAAACTAAAAAATATAGGAAA-TTTGTAAATAATTAACAGGTTAAG
63 AAGCGTGCAACAATTAATTGAATCT-AAAAAGATAGGAAATTTTG-AAATAATTAACAGGTTAAG
* * *
7028 AG-CATATTCCATACCGCCAAATACTCTTTCTCCTTATCAACCTGAGGGAAAGAATA--C-T---
126 AGTC-GATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACTCTTGGC
*
7086 -ACGT---GC--CCAAGAC
190 AAC-TACAACAACCAAGAC
* * * * * * *
7099 ATTCTTGTAAGTATTGATGAACATGTGTGGTGTAGCAACAACTACAAATTTTC-TGGAATCATGG
1 ATTCTTGTAGGCATTGATGAACA--TGTGGTGCAACAACAACTGCAAATTTGCTTGG-ATCCTGG
* * * * *
7163 AAGTGTGAAACAATTCATTGAATCTTAAAAATATAGGAAGTTTTGAAATAATTAACAGGTTAAGA
63 AAGCGTGCAACAATTAATTGAATC-TAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTAAGA
* * * ** *
7228 GTCAATTACATACCGCGAAATACTCTGCCACCTTATCAGCCTGAGGGAAAGAATACTC--AG--A
127 GTCGATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACTCTTGGCAA
* *
7289 --AC--C-GCCAAAAC
192 CTACAACAACCAAGAC
* * * * * *
7300 ATTCTTGTGGGCATTGATGAAGATGTGTGATGTAGCATCAATTGCAAATTTGCTTGGATCCTGGA
1 ATTCTTGTAGGCATTGATGAACATGTG-G-TGCAACAACAACTGCAAATTTGCTTGGATCCTGGA
* * * * *
7365 AGCGT--AA-AACTTAATTGAATATAAAAA-AGAGGAAATTTTGAAATGAGTAATAGGTTAAGAG
64 AGCGTGCAACAA-TTAATTGAATCTAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTAAGAG
* * * * * *
7426 TCAATTCCATACCGCCAAATACTATTTCACGTTATAATCCTGAGGGAAAGAATACTCTGTGGTAA
128 TCGATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACTCT-TGGCAA
* *
7491 CTACAACAGCTAAGAC
192 CTACAACAACCAAGAC
* ** * * *
7507 ATTCTTGTAGGCATTAATGAACAAGTGTGGTGCGGCAGCAACCGCAAATTTGCTTGGATCCTGTA
1 ATTCTTGTAGGCATTGATGAAC-A-TGTGGTGCAACAACAACTGCAAATTTGCTTGGATCCTGGA
* * *
7572 AGCGTGCAACAATTAATTAAATCTAAAAA-ATATGAGAAATTTTGAAATATTTAATAGGTTAAGA
64 AGCGTGCAACAATTAATTGAATCTAAAAAGATA-G-GAAATTTTGAAATAATTAACAGGTTAAGA
* * * * * * * *
7636 GTAGATT-CATTA-CGCTAAATACTCGTTT-ACCTAATCAACTTGAGGGAAGGAATACTTCGTGA
127 GTCGATTCCA-TACCGCCAAATACTC-TTTCACCTTATCAGCCTGAGGGAAAGAATAC-TCTTGG
* * *
7698 AAACTGCAACAGCCAAGAC
189 CAACTACAACAACCAAGAC
* * * *
7717 ATTCTTGTAGGCATTGATGAACATGTGAGGTGCAACAACAACTGAAAATTTGGTTAGATCTTGGA
1 ATTCTTGTAGGCATTGATGAACATGT--GGTGCAACAACAACTGCAAATTTGCTTGGATCCTGGA
* * ***** * **
7782 AGTGTGCAACCA-TAATTGAATCTAAAAAGATAATTTTTTTTGAAGTAATTAACAAATTAAGAGT
64 AGCGTGCAACAATTAATTGAATCTAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTAAGAGT
* * *** * *
7846 CGATTCCATAACGCCAAATACTCTTTCACCTTATTAGCCTGTTTGAAAGAATATTCCGTGGCAAC
129 CGATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACT-CTTGGCAAC
* * *
7911 TGCAATAA--AAAAC
193 TACAACAACCAAGAC
** * * * *** * **
7924 ATTC-T-T-GGC-TTGATGAACATGTATGGTGCCGCAGCAACTACAAATTTGATCAAATCTTATA
1 ATTCTTGTAGGCATTGATGAACATG--TGGTGCAACAACAACTGCAAATTTGCTTGGATCCTGGA
* * * * * * *
7985 AGCATGCAACAATTAATTGATTCTAAAAAATATAGGAAAATTTGAAATAATTAACCGATCAAGAG
64 AGCGTGCAACAATTAATTGAATCT-AAAAAGATAGGAAATTTTGAAATAATTAACAGGTTAAGAG
* * * * ** *
8050 TCGATTCCATACCTCCAAATACTCTTTCACCTTACCAGCCTTAGAGAGCGAATACTCTATGGAAA
128 TCGATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACTCT-TGGCAA
8115 C-AC-ACAA-C-AGAC
192 CTACAACAACCAAGAC
** * *
8127 ATTC--GTAGGCATTGATGAACATTTGTGGTGCAGTAACAATTGGAAATTTGCTTGGATCCTGGA
1 ATTCTTGTAGGCATTGATGAACA--TGTGGTGCAACAACAACTGCAAATTTGCTTGGATCCTGGA
* ** * * * ** * * *
8190 AACGTGCAACAATTGGTTGAATCTTAAAAAGATAGAAAATTTTAAAATAATTAATATATCAATAC
64 AGCGTGCAACAATTAATTGAATC-TAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTAAGAG
* * * * * * * * *
8255 TCGATTCTATACCTCCAAATACTTTTTGACCTTATTAACATGAGGGAAAGGATACTTTGTGGCAA
128 TCGATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACTCT-TGGCAA
* *
8320 CTGCAACAATCAAGAC
192 CTACAACAACCAAGAC
* * * * * * * *
8336 ATTCTTATAGGCATTGATGAACATGAGCGGTTCAATAACAACTGCTAATTTTCTTGGATCCTAGT
1 ATTCTTGTAGGCATTGATGAACAT--GTGGTGCAACAACAACTGCAAATTTGCTTGGATCCTGGA
* * * *
8401 AGCGTGAAACAATTAATTGAA-CTTAAAAATATGGGAAA-TTTGAAATAATTAATAGGTTAAGAG
64 AGCGTGCAACAATTAATTGAATC-TAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTAAGAG
* * * * *
8464 TCGATTCCATACCGCCAAATACTCTTTCATCTTAAT-AGACTGAGGGAAATAATAATTTGTGGCA
128 TCGATTCCATACCGCCAAATACTCTTTCACCTT-ATCAGCCTGAGGGAAAGAATACTCT-TGGCA
8528 AC-AGCAACAACCAAGAC
191 ACTA-CAACAACCAAGAC
*
8545 ATTCTTGTAGGCATTGATGCACATGTG
1 ATTCTTGTAGGCATTGATGAACATGTG
8572 TGTGTGATGG
Statistics
Matches: 1814, Mismatches: 363, Indels: 221
0.76 0.15 0.09
Matches are distributed among these distances:
192 3 0.00
193 6 0.00
194 128 0.07
195 17 0.01
196 4 0.00
197 78 0.04
198 12 0.01
199 121 0.07
200 56 0.03
201 56 0.03
202 6 0.00
203 60 0.03
204 22 0.01
205 283 0.16
206 59 0.03
207 76 0.04
208 62 0.03
209 246 0.14
210 139 0.08
211 238 0.13
212 134 0.07
213 5 0.00
214 3 0.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (207 bp):
ATTCTTGTAGGCATTGATGAACATGTGGTGCAACAACAACTGCAAATTTGCTTGGATCCTGGAAG
CGTGCAACAATTAATTGAATCTAAAAAGATAGGAAATTTTGAAATAATTAACAGGTTAAGAGTCG
ATTCCATACCGCCAAATACTCTTTCACCTTATCAGCCTGAGGGAAAGAATACTCTTGGCAACTAC
AACAACCAAGAC
Found at i:6803 original size:194 final size:194
Alignment explanation
Indices: 6463--6816 Score: 475
Period size: 194 Copynumber: 1.8 Consensus size: 194
6453 GAGAGAAAAA
* *
6463 AATACTGCTTGGCAACTACAACAACCAATACATTCTTGTAGGCATTGATGAACATGTGTGAGGCA
1 AATACTGCGTGGCAACTACAACAACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGAGGCA
* * * *
6528 ACAACAACTGCAAATTGGCTTGGATTCTGCAAGCGTACAACAATCAATTGAAACTCAAAAAGATA
66 ACAACAACTGCAAATTGGCTTGGATCCTGCAAGCGAACAACAATAAATTGAAACTAAAAAAGATA
*
6593 AGAAATTTTTAAATAATTAACATGTTAAGAGTCGATTCTATCACCTTATCAGCTGGAGGGAAAG
131 AGAAATTTTGAAATAATTAACATGTTAAGAGTCGATTCTATCACCTTATCAGCTGGAGGGAAAG
* *
6657 AATACTTCGTGGCAACT-CTAACAGCCAAGACATTCTTGTAGGCATTGATGAACATGTGTG-GTG
1 AATACTGCGTGGCAACTAC-AACAACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGAG-G
** ** *
6720 CAACATTAACTGCAAATTTTCTTGGATCCTAG-AAGC-AAGCAATAATAAATTGAATA-TAAAAA
64 CAACAACAACTGCAAATTGGCTTGGATCCT-GCAAGCGAA-CAACAATAAATTGAA-ACTAAAAA
* **
6782 ATATTGGAAATTTTGAAATAATTAACATGTTAAGA
126 AGATAAGAAATTTTGAAATAATTAACATGTTAAGA
6817 CTCCATTCCA
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
193 3 0.02
194 133 0.96
195 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (194 bp):
AATACTGCGTGGCAACTACAACAACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGAGGCA
ACAACAACTGCAAATTGGCTTGGATCCTGCAAGCGAACAACAATAAATTGAAACTAAAAAAGATA
AGAAATTTTGAAATAATTAACATGTTAAGAGTCGATTCTATCACCTTATCAGCTGGAGGGAAAG
Found at i:7617 original size:408 final size:410
Alignment explanation
Indices: 6633--8517 Score: 1401
Period size: 408 Copynumber: 4.6 Consensus size: 410
6623 GTCGATTCTA
* * *
6633 TCACCTTATCAGCTGGAGGGAAAGAATACT-TCGTGGCAACTCTAACAGCCAAGACATTCTTGTA
1 TCACCTTATAACCT-GAGGGAAAGAATACTCT-GTGGCAACTC-AACA-CTAAGACATTCTTGTA
* ** **
6697 GGCATTGATGAACATGTGTGGTGCAACATTAACTGCAAATTTTCTTGGATCCTAG-AAGCAAGCA
62 GGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTTCTTGGATCCT-GTAAGCGTGCA
* * * * * *
6761 ATAATAAATTGAATATAAAAAATATTG-GAAATTTTGAAATAATTAACATGTTAAGACTCCATTC
126 ACAATTAATTGAATCTAAAAAATA-TGAGAAATTTTGAAATAATTAACAGGTTAAGAGTCAATTC
* * * * *
6825 CATACCTCTAAATAAACT-TGT-ACCATATCAGCTTGAGGGAAAGAATACTCTATGGCAACTACA
190 CATACCGCCAAAT--ACTCTGTCACCTTATCAGCCTGAGGGAAAGAATACTCAAT-GC-A--AC-
* * * * * * **
6888 ACAGTCAAGACATTATAGTAGGCATTGATGAACATGTGTGGTGAAACAACAATTGCAATTCTTTT
248 -C-GCCAAAACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACAACAATTGCAAAT-TTGC
* * * * *
6953 TTGGATCATGGAGGCGTCCAACAATTAATT-AAAACTAAAAAATATAGGAAA-TTTGTAAATAAT
310 TTGGATCCTGGAAGCGT-CAACAATTAATTGAATA-T-AAAAAGAGAGGAAATTTTG-AAATAAT
*
7016 TAACAGGTTAAGAG-CATATTCCATACCGCCAAATACTCTT
371 TAACAGATTAAGAGTCA-ATTCCATACCGCCAAATACTCTT
* *
7056 TCTCCTTATCAACCTGAGGGAAAGAATACTAC-GT-G-----C--C-C-AAGACATTCTTGTAAG
1 TCACCTTAT-AACCTGAGGGAAAGAATACT-CTGTGGCAACTCAACACTAAGACATTCTTGTAGG
* * * * * * *
7110 TATTGATGAACATGTGTGGTGTAGCAACAACTACAAATTTTC-TGGAATCATGGAAGTGTGAAAC
64 CATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTTCTTGG-ATCCTGTAAGCGTGCAAC
* * * *
7174 AATTCATTGAATCTTAAAAATAT-AGGAAGTTTTGAAATAATTAACAGGTTAAGAGTCAATTACA
128 AATTAATTGAATCTAAAAAATATGA-GAAATTTTGAAATAATTAACAGGTTAAGAGTCAATTCCA
* *
7238 TACCGCGAAATACTCTGCCACCTTATCAGCCTGAGGGAAAGAATACTC-A-G-AACCGCCAAAAC
192 TACCGCCAAATACTCTGTCACCTTATCAGCCTGAGGGAAAGAATACTCAATGCAACCGCCAAAAC
* * * * * *
7300 ATTCTTGTGGGCATTGATGAAGATGTGTGATGTAGCATCAATTGCAAATTTGCTTGGATCCTGGA
257 ATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACAACAATTGCAAATTTGCTTGGATCCTGGA
* * * *
7365 AGCGT-AA-AACTTAATTGAATATAAAAA-AGAGGAAATTTTGAAATGAGTAATAGGTTAAGAGT
322 AGCGTCAACAA-TTAATTGAATATAAAAAGAGAGGAAATTTTGAAATAATTAACAGATTAAGAGT
*
7427 CAATTCCATACCGCCAAATACTATT
386 CAATTCCATACCGCCAAATACTCTT
* *
7452 TCACGTTATAATCCTGAGGGAAAGAATACTCTGTGGTAACTACAACAGCTAAGACATTCTTGTAG
1 TCACCTTATAA-CCTGAGGGAAAGAATACTCTGTGGCAACT-CAACA-CTAAGACATTCTTGTAG
* * * * * *
7517 GCATTAATGAACAAGTGTGGTGCGGCAGCAACCGCAAATTTGCTTGGATCCTGTAAGCGTGCAAC
63 GCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTTCTTGGATCCTGTAAGCGTGCAAC
* * *
7582 AATTAATTAAATCTAAAAAATATGAGAAATTTTGAAATATTTAATAGGTTAAGAGT-AGATT-CA
128 AATTAATTGAATCTAAAAAATATGAGAAATTTTGAAATAATTAACAGGTTAAGAGTCA-ATTCCA
* * * * * *
7645 TTA-CGCTAAATACTC-GTTTACCTAATCAACTTGAGGGAAGGAATACTTCGTGAAAACTGCAAC
192 -TACCGCCAAATACTCTG-TCACCTTATCAGCCTGAGGGAAAGAATAC-TC-----AA-TGCAAC
* * * * * * *
7708 AGCCAAGACATTCTTGTAGGCATTGATGAACATGTGAGGTGCAACAACAACTGAAAATTTGGTTA
248 CGCCAAAACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACAACAATTGCAAATTTGCTTG
* * * * * ***** * *
7773 GATCTTGGAAGTGTGCAACCA-TAATTGAATCTAAAAAGATAATTTTTTTTGAAGTAATTAACAA
313 GATCCTGGAAGCGT-CAACAATTAATTGAATATAAAAAGAGAGGAAATTTTGAAATAATTAACAG
* *
7837 ATTAAGAGTCGATTCCATAACGCCAAATACTCTT
377 ATTAAGAGTCAATTCCATACCGCCAAATACTCTT
* *** * * * * *
7871 TCACCTTATTAGCCTGTTTGAAAGAATATTCCGTGGCAACTGCAATA-AAAAACATTC-T-T-GG
1 TCACCTTA-TAACCTGAGGGAAAGAATACTCTGTGGCAACT-CAACACTAAGACATTCTTGTAGG
* * * * ** *** * * *
7932 C-TTGATGAACATGTATGGTGCCGCAGCAACTACAAATTTGATCAAATCTTATAAGCATGCAACA
64 CATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTTCTTGGATCCTGTAAGCGTGCAACA
* * * * * *
7996 ATTAATTGATTCTAAAAAATAT-AGGAAAATTTGAAATAATTAACCGATCAAGAGTCGATTCCAT
129 ATTAATTGAATCTAAAAAATATGA-GAAATTTTGAAATAATTAACAGGTTAAGAGTCAATTCCAT
* * * * * ** * * * *
8060 ACCTCCAAATACTCTTTCACCTTACCAGCCTTAGAGAGCGAATACTCTATGGAAACACACAACAG
193 ACCGCCAAATACTCTGTCACCTTATCAGCCTGAGGGAAAGAATACTCAATGCAACCGC-CAA-A-
* ** *
8125 ACATTC--GTAGGCATTGATGAACATTTGTGGTGCAGTAACAATTGGAAATTTGCTTGGATCCTG
255 ACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAACAACAATTGCAAATTTGCTTGGATCCTG
* ** * * * * * * * *
8188 GAAACGTGCAACAATTGGTTGAATCTTAAAAAGATAGAAAATTTTAAAATAATTAATATATCAAT
320 GAAGCGT-CAACAATTAATTGAAT-ATAAAAAGAGAGGAAATTTTGAAATAATTAACAGATTAAG
* * * * *
8253 ACTCGATTCTATACCTCCAAATACTTTT
383 AGTCAATTCCATACCGCCAAATACTCTT
* * * * * *
8281 TGACCTTATTAACATGAGGGAAAGGATACTTTGTGGCAACTGCAACAATCAAGACATTCTTATAG
1 TCACCTTA-TAACCTGAGGGAAAGAATACTCTGTGGCAACT-CAACACT-AAGACATTCTTGTAG
* * * ** * *
8346 GCATTGATGAACATGAGCGGTTCAATAACAACTGCTAATTTTCTTGGATCCTAGT-AGCGTGAAA
63 GCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTTCTTGGATCCT-GTAAGCGTGCAA
* * * *
8410 CAATTAATTGAA-CTTAAAAATATGGGAAA-TTTGAAATAATTAATAGGTTAAGAGTCGATTCCA
127 CAATTAATTGAATCTAAAAAATATGAGAAATTTTGAAATAATTAACAGGTTAAGAGTCAATTCCA
* * * *
8473 TACCGCCAAATACTCTTTCATCTTAAT-AGACTGAGGGAAATAATA
192 TACCGCCAAATACTCTGTCACCTT-ATCAGCCTGAGGGAAAGAATA
8518 ATTTGTGGCA
Statistics
Matches: 1153, Mismatches: 243, Indels: 141
0.75 0.16 0.09
Matches are distributed among these distances:
395 3 0.00
396 74 0.06
397 14 0.01
398 9 0.01
399 3 0.00
400 17 0.01
401 46 0.04
402 1 0.00
403 1 0.00
404 2 0.00
405 1 0.00
406 2 0.00
407 43 0.04
408 181 0.16
409 14 0.01
410 101 0.09
411 149 0.13
412 10 0.01
413 103 0.09
414 102 0.09
415 19 0.02
416 53 0.05
417 77 0.07
418 15 0.01
419 81 0.07
420 3 0.00
422 1 0.00
423 25 0.02
424 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (410 bp):
TCACCTTATAACCTGAGGGAAAGAATACTCTGTGGCAACTCAACACTAAGACATTCTTGTAGGCA
TTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTTCTTGGATCCTGTAAGCGTGCAACAAT
TAATTGAATCTAAAAAATATGAGAAATTTTGAAATAATTAACAGGTTAAGAGTCAATTCCATACC
GCCAAATACTCTGTCACCTTATCAGCCTGAGGGAAAGAATACTCAATGCAACCGCCAAAACATTC
TTGTAGGCATTGATGAACATGTGTGGTGCAACAACAATTGCAAATTTGCTTGGATCCTGGAAGCG
TCAACAATTAATTGAATATAAAAAGAGAGGAAATTTTGAAATAATTAACAGATTAAGAGTCAATT
CCATACCGCCAAATACTCTT
Found at i:9122 original size:26 final size:26
Alignment explanation
Indices: 9093--9150 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
9083 ATGCATTTTC
* *
9093 TTTTTTACTTTA-ATATATATTTTTAT
1 TTTTTTACATTATATATATA-TATTAT
*
9119 TTTTTTAGATTATATATATATATTAT
1 TTTTTTACATTATATATATATATTAT
9145 TTTTTT
1 TTTTTT
9151 TATTATCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTTTTACATTATATATATATATTAT
Found at i:9148 original size:50 final size:52
Alignment explanation
Indices: 9101--9201 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 52
9091 TCTTTTTTAC
* * *
9101 TTTAATAT-A-TATTTTT-ATTTTTTTAGAT-TATATATATATATTATTTTT
1 TTTAATATCAGTATTTTTAATTTATATAGATATATATATATATACTATTTTT
* * *
9149 TTTATTATCAGTTTTTTTAATTTATATATATATATATATATATACTATTTTT
1 TTTAATATCAGTATTTTTAATTTATATAGATATATATATATATACTATTTTT
9201 T
1 T
9202 ATTTTTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
48 7 0.16
49 1 0.02
50 6 0.14
51 9 0.21
52 20 0.47
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (52 bp):
TTTAATATCAGTATTTTTAATTTATATAGATATATATATATATACTATTTTT
Found at i:9176 original size:2 final size:2
Alignment explanation
Indices: 9171--9236 Score: 66
Period size: 2 Copynumber: 34.0 Consensus size: 2
9161 TTTTTTAATT
* * * *
9171 TA TA TA TA TA TA TA TA TA TA TA CTA T- TT TT TA T- TT TT TA T-
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
9211 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9237 ATTTTTACTT
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
1 3 0.05
2 53 0.91
3 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:9207 original size:42 final size:43
Alignment explanation
Indices: 9105--9255 Score: 147
Period size: 42 Copynumber: 3.6 Consensus size: 43
9095 TTTTACTTTA
*
9105 ATATAT-ATTTTTATTTTTTTAGATTATATATATATAT-TAT-T
1 ATATATAATTTTTACTTTTTTA-ATTATATATATATATATATAT
* * * * * *
9146 -TTTTTTATTATCAGTTTTTTTAATT-TATATATATATATATAT
1 ATATATAATTTTTA-CTTTTTTAATTATATATATATATATATAT
*
9188 ATATACTATTTTTTA-TTTTTT-ATTATATATATATATATATAT
1 ATATA-TAATTTTTACTTTTTTAATTATATATATATATATATAT
9230 ATATATAATTTTTACTTTTTT-ATTAT
1 ATATATAATTTTTACTTTTTTAATTAT
9256 TATTTTATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
40 14 0.15
41 22 0.24
42 48 0.53
43 2 0.02
44 5 0.05
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (43 bp):
ATATATAATTTTTACTTTTTTAATTATATATATATATATATAT
Found at i:9274 original size:13 final size:12
Alignment explanation
Indices: 9247--9334 Score: 67
Period size: 12 Copynumber: 7.5 Consensus size: 12
9237 ATTTTTACTT
9247 TTTTA-TTATTA
1 TTTTATTTATTA
9258 TTTTATTTATTA
1 TTTTATTTATTA
9270 GTTTTATTTA-TA
1 -TTTTATTTATTA
* *
9282 TATTT-TTTCTTC
1 T-TTTATTTATTA
* *
9294 TTTTCTTTATTT
1 TTTTATTTATTA
*
9306 TTTTATAT-TTA
1 TTTTATTTATTA
* *
9317 TTTTACTTACTA
1 TTTTATTTATTA
9329 TTTTAT
1 TTTTAT
9335 CTTTAATTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
11 20 0.33
12 31 0.52
13 9 0.15
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:9320 original size:23 final size:23
Alignment explanation
Indices: 9252--9349 Score: 67
Period size: 23 Copynumber: 4.2 Consensus size: 23
9242 TACTTTTTTA
* *
9252 TTATTATTTTATTTATTAGTTTTAT
1 TTATTATTTTATAT-TTA-TTTTCT
*
9277 TTATATATTTT-T-TCTTCTTTTCT
1 TTAT-TATTTTATAT-TTATTTTCT
*
9300 TTATTTTTTTATATTTATTTTAC-
1 TTATTATTTTATATTTATTTT-CT
* * *
9323 TTACTATTTTATCTTTAATTTCT
1 TTATTATTTTATATTTATTTTCT
9346 TTAT
1 TTAT
9350 CTTATCTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
22 6 0.10
23 36 0.62
24 5 0.09
25 5 0.09
26 6 0.10
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.71
Consensus pattern (23 bp):
TTATTATTTTATATTTATTTTCT
Found at i:9321 original size:19 final size:19
Alignment explanation
Indices: 9239--9321 Score: 55
Period size: 19 Copynumber: 4.3 Consensus size: 19
9229 TATATATAAT
*
9239 TTTTACTTTTTTATTATTA
1 TTTTATTTTTTTATTATTA
*
9258 TTTTA-TTTATTAGTT-TTA
1 TTTTATTTTTTTA-TTATTA
* * *
9276 TTTATATATTTTTTCTTCTTT
1 TTT-TAT-TTTTTTATTATTA
9297 TCTTTATTTTTTTA-TATTTA
1 T-TTTATTTTTTTATTA-TTA
9317 TTTTA
1 TTTTA
9322 CTTACTATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
18 12 0.24
19 14 0.28
20 11 0.22
21 11 0.22
22 2 0.04
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (19 bp):
TTTTATTTTTTTATTATTA
Found at i:9362 original size:58 final size:60
Alignment explanation
Indices: 9239--9368 Score: 137
Period size: 59 Copynumber: 2.2 Consensus size: 60
9229 TATATATAAT
* * * * *
9239 TTTTACTTTTTTATTATTATTTTATTTATTAGTTTTATTTATATATTTTTTCTTCTTTTC
1 TTTTATTTTTTTATTATTATTTTACTTACTAGTTTTATTTATATATTTTTTCATCTTATC
9299 -TTTATTTTTTTA-TATTTATTTTACTTACTA-TTTTATCTT-TA-ATTTCTTT-ATCTTATC
1 TTTTATTTTTTTATTA-TTATTTTACTTACTAGTTTTAT-TTATATATTT-TTTCATCTTATC
9356 TTTTATTTGTTTT
1 TTTTATTT-TTTT
9369 TTCTTCATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
57 10 0.17
58 20 0.33
59 30 0.50
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (60 bp):
TTTTATTTTTTTATTATTATTTTACTTACTAGTTTTATTTATATATTTTTTCATCTTATC
Found at i:12488 original size:9 final size:9
Alignment explanation
Indices: 12474--12543 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
12464 CAATCAAAAC
*
12474 AAAAATAGA
1 AAAAAGAGA
*
12483 AAAAATAGA
1 AAAAAGAGA
*
12492 AAAAA-AGC
1 AAAAAGAGA
*
12500 AAAGAGA-A
1 AAAAAGAGA
12508 AAAAAGAGA
1 AAAAAGAGA
*
12517 AAAAAAAGA
1 AAAAAGAGA
*
12526 AAAATTGAAGA
1 AAAA-AG-AGA
12537 AAAAAGA
1 AAAAAGA
12544 AGACAATATG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
8 12 0.24
9 29 0.59
10 1 0.02
11 7 0.14
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:12684 original size:69 final size:69
Alignment explanation
Indices: 12602--12739 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
12592 GATTCAAACT
* * *
12602 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCATTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCTAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
12667 TCAA
66 TCAA
*
12671 ATGAGATTGATCAAGCACAATCATTTCTAAATCACTGAATCACTCCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCTAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
12736 TCAA
66 TCAA
12740 GAGAGAGACA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCTAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:13676 original size:32 final size:32
Alignment explanation
Indices: 13627--13719 Score: 141
Period size: 32 Copynumber: 2.9 Consensus size: 32
13617 AATGAGGAAC
* *
13627 ATTGAGGGCATTCTTGGAGATTCAACATTGAAT
1 ATTG-GGGCATTTTTGGAGATTCAACATCGAAT
13660 ATTGGGGCATTTTTGGAGATTCAACATCGAAT
1 ATTGGGGCATTTTTGGAGATTCAACATCGAAT
* *
13692 ATTGGGGCATCTTTGGGGATTCAACATC
1 ATTGGGGCATTTTTGGAGATTCAACATC
13720 CTGATACAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
32 52 0.93
33 4 0.07
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (32 bp):
ATTGGGGCATTTTTGGAGATTCAACATCGAAT
Found at i:14537 original size:106 final size:106
Alignment explanation
Indices: 14352--14548 Score: 277
Period size: 106 Copynumber: 1.9 Consensus size: 106
14342 ATATCGTGCC
* * *
14352 ACTCGAGACAACACAAGTTGAACTTCACAACGAAGGGACTGCTGGTTGTCAACAAACAATTTCTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGCTGTCAACAAACAATTTCTC
* *
14417 AATTTCGGAGCCAATTTCAACTTCACAGTGAAGGACATTGG
66 AATTCCAGAGCCAATTTCAACTTCACAGTGAAGGACATTGG
* * * * *
14458 ACTCGAGACAGCACAAGTTCAATTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGCTGTCAACAAACAATTTCTC
* * *
14523 AGTTCCAGAGCCAATTTTAATTTCAC
66 AATTCCAGAGCCAATTTCAACTTCAC
14549 GGCGGATGAT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
106 78 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGCTGTCAACAAACAATTTCTC
AATTCCAGAGCCAATTTCAACTTCACAGTGAAGGACATTGG
Found at i:14919 original size:87 final size:87
Alignment explanation
Indices: 14828--15000 Score: 301
Period size: 87 Copynumber: 2.0 Consensus size: 87
14818 GTTACTCTTG
*
14828 AAACATAAACATTGAAAATATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCTTG
1 AAACATAAACATTGAAAATATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCCCTTG
*
14893 AAACGAAATTTTGTCTCCCTTA
66 AAACAAAATTTTGTCTCCCTTA
* * *
14915 AAACATAAACATTGAAAATATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCCCTTG
1 AAACATAAACATTGAAAATATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCCCTTG
14980 AAACAAAATTTTGTCTCCCTT
66 AAACAAAATTTTGTCTCCCTT
15001 GAGACATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (87 bp):
AAACATAAACATTGAAAATATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCCCTTG
AAACAAAATTTTGTCTCCCTTA
Found at i:15030 original size:101 final size:102
Alignment explanation
Indices: 14915--15149 Score: 346
Period size: 101 Copynumber: 2.3 Consensus size: 102
14905 GTCTCCCTTA
* * *
14915 AAACATAAACATTGAAAATATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCCCTTG
1 AAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCCCTTG
*
14980 AAACAAAATTTTGTCTCCCTTGAGACATTTTCTCTTG
66 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* * * * *
15017 AAA-ATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATGGTTTCCCTTG
1 AAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCCCTTG
* *
15081 AAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCTTT
66 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* *
15118 AAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 AAACATAAACATTGAAAACATTTCCCTTGAAA
15150 CACAAAATAT
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
101 90 0.76
102 28 0.24
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (102 bp):
AAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCCCTTG
AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
Found at i:15097 original size:37 final size:37
Alignment explanation
Indices: 15050--15122 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
15040 CTTTGAAATT
* *
15050 AATTTTGTCTCTCTTGAGATGGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
* *
15087 AATTTTGTCTCCCTTGAGATAGTTTCTCTTTAAACA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACA
15123 TAAACCTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
Found at i:15237 original size:37 final size:37
Alignment explanation
Indices: 15187--15289 Score: 181
Period size: 36 Copynumber: 2.8 Consensus size: 37
15177 AAAACGAGTT
*
15187 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTATCTC
*
15224 TTGAGACAGTTTCCCTTGAAAC-AAATTTTGTATCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTATCTC
15260 TTGAGACAGTTTCCCTTGAAACAAAATCTT
1 TTGAGACAGTTTCCCTTGAAACAAAATCTT
15290 TGAATATCTT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 34 0.55
37 28 0.45
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATCTTGTATCTC
Found at i:15355 original size:102 final size:102
Alignment explanation
Indices: 15200--15386 Score: 245
Period size: 102 Copynumber: 1.8 Consensus size: 102
15190 AGACAGTTTC
*
15200 CCTTGAAACAAAATCTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTATCTCTTGAG
1 CCTTGAAACAAAATCTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTATCTCTTGAG
15265 ACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
66 ACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
* * * * *
15302 CCTTGAAAC-AAAT-TTCGTCTCCCTTGAGACA-TTTTCTTTTAGAACTAAGTTTTGTCTCTCTT
1 CCTTGAAACAAAATCTT-GTCTCCCTTGAGACAGTTTCCCTTGA-AAC-AAATTTTGTATCTCTT
* **
15364 GAGGCAGTTTCTTTTGAAACAAA
63 GAGACAGTTTCCCTTGAAACAAA
15387 TTTTGTCCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 9 0.12
101 21 0.29
102 43 0.59
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (102 bp):
CCTTGAAACAAAATCTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTATCTCTTGAG
ACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTT
Found at i:15402 original size:36 final size:36
Alignment explanation
Indices: 15187--15420 Score: 150
Period size: 36 Copynumber: 6.6 Consensus size: 36
15177 AAAACGAGTT
** * *
15187 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
1 TTGAGACAGTTTCTTTTGAAAC-AAATTTTGTCCCTC
** **
15224 TTGAGACAGTTTCCCTTGAAACAAATTTTGTATCTC
1 TTGAGACAGTTTCTTTTGAAACAAATTTTGTCCCTC
** *
15260 TTGAGACAGTTTCCCTTGAAACAAA----AT--CT-
1 TTGAGACAGTTTCTTTTGAAACAAATTTTGTCCCTC
* *
15289 TTGA-ATA-TCTT-TTCCTTGAAACAAATTTCGTCTCC-C
1 TTGAGACAGT-TTCTT--TTGAAACAAATTTTGTC-CCTC
* * *
15325 TTGAGACATTTTCTTTT-AGAACTAAGTTTTGTCTCTC
1 TTGAGACAGTTTCTTTTGA-AAC-AAATTTTGTCCCTC
* *
15362 TTGAGGCAGTTTCTTTTGAAACAAATTTTGTCCCTG
1 TTGAGACAGTTTCTTTTGAAACAAATTTTGTCCCTC
*
15398 TTGAGACAGTTTCTCTTGAAACA
1 TTGAGACAGTTTCTTTTGAAACA
15421 CAAAAAAAAC
Statistics
Matches: 161, Mismatches: 18, Indels: 37
0.75 0.08 0.17
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
29 14 0.09
30 2 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 80 0.50
37 53 0.33
38 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
TTGAGACAGTTTCTTTTGAAACAAATTTTGTCCCTC
Found at i:15448 original size:35 final size:39
Alignment explanation
Indices: 15406--15495 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
15396 TGTTGAGACA
*
15406 GTTTCTCTTGAAACACA-A-A-AAAAACCC-TCGAAATT
1 GTTTCTCTTGAAACACACACACAAAAACCCTTCGAAAAT
*
15441 GTTTCTCTTGAAACACACACACAAAAACCCTTTGAAAAT
1 GTTTCTCTTGAAACACACACACAAAAACCCTTCGAAAAT
15480 GTTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
15496 CAAACCCTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
35 17 0.35
36 1 0.02
37 1 0.02
38 8 0.16
39 22 0.45
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (39 bp):
GTTTCTCTTGAAACACACACACAAAAACCCTTCGAAAAT
Found at i:15634 original size:84 final size:85
Alignment explanation
Indices: 15503--15660 Score: 228
Period size: 84 Copynumber: 1.9 Consensus size: 85
15493 CACCAAACCC
* * ** *
15503 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGT
1 TCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTACAACATAACTCAAGGAAAGAAGGGC
15568 TATCTGTCACCAAAAGACAT
66 TATCTGTCACCAAAAGACAT
** * *
15588 TCGAGTTCGACTATGCTCAGC-TCTAAGGCACATCATTTACAGCATAACTCAAGGAAAGAAGGGC
1 TCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTACAACATAACTCAAGGAAAGAAGGGC
15652 TATCTGTCA
66 TATCTGTCA
15661 ATAAAATTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
84 46 0.72
85 18 0.28
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (85 bp):
TCGAGTTCGACTACACTCAGCTTCGAAGGCACATCATTTACAACATAACTCAAGGAAAGAAGGGC
TATCTGTCACCAAAAGACAT
Found at i:16716 original size:29 final size:29
Alignment explanation
Indices: 16676--16801 Score: 102
Period size: 29 Copynumber: 4.4 Consensus size: 29
16666 TTATTATCAG
*
16676 TTTTATTAATTTATATATATATTTACTATT
1 TTTTATT-ATTTATATATATATTTATTATT
* *
16706 TTTTATTATTTATTTATATATATATTA-T
1 TTTTATTATTTATATATATATTTATTATT
*
16734 TTTTACTTTTTTAT-TAT-TATTTTATTTATT
1 TTTTA-TTATTTATATATATA-TTTA-TTATT
* * *
16764 TGTT-TTATTTATATAT-TTTTTCTTATT
1 TTTTATTATTTATATATATATTTATTATT
16791 TTTCT-TTATTT
1 TTT-TATTATTT
16802 TCTTTATTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
27 9 0.11
28 29 0.36
29 31 0.39
30 11 0.14
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (29 bp):
TTTTATTATTTATATATATATTTATTATT
Found at i:16720 original size:4 final size:4
Alignment explanation
Indices: 16677--16911 Score: 55
Period size: 4 Copynumber: 58.8 Consensus size: 4
16667 TATTATCAGT
* * * *
16677 TTTA TTAA TTTA TATA TATA TTTA -CTA TTT- TTTA -TTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
16722 TATA TATA TTATT TTTA CTTT- TTTA -TTA -TTA TTTTA TTTA TTTGT
1 TTTA TTTA TT-TA TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA TTT-A
* * * * *
16767 TTTA TTTA TATA TTT- TTTC TTATT TTTC TTTA TTTTC TTTA TTT- TTT-
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA -TTTA TTTA TTTA TTTA
* * * * * * *
16814 TGTA TTTA TTTTA CTTA -CTA TTTTA TCT- TTAA TTTT TTTA TCTTA TCT-
1 TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA T-TTA TTTA
* * *
16862 TTTA TTTAA TTTA TTT- TTTC TTAA TTTTAA TTTAA TTAA TTTA TTTA
1 TTTA TTT-A TTTA TTTA TTTA TTTA -TTT-A TTT-A TTTA TTTA TTTA
16909 TTT
1 TTT
16912 CTTACCTTTT
Statistics
Matches: 171, Mismatches: 37, Indels: 46
0.67 0.15 0.18
Matches are distributed among these distances:
3 33 0.19
4 96 0.56
5 41 0.24
6 1 0.01
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:16755 original size:49 final size:50
Alignment explanation
Indices: 16697--16809 Score: 119
Period size: 49 Copynumber: 2.3 Consensus size: 50
16687 TATATATATA
* *
16697 TTTACTATTTTTTATTATTT-ATTTATATATATATTATTT-TTA-CTTT-
1 TTTATTATTTTTTATTATTTGATTTATATATATATTATTTCTTATTTTTC
* * *
16743 TTTATTATTATTTTATTTATTTGTTTTATTTATATATTTTTTCTTATTTTTC
1 TTTATTATT-TTTTA-TTATTTGATTTATATATATATTATTTCTTATTTTTC
*
16795 TTTATT-TTCTTTATT
1 TTTATTATTTTTTATT
16810 TTTTTGTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
46 8 0.15
47 5 0.09
48 6 0.11
49 18 0.33
50 7 0.13
51 5 0.09
52 6 0.11
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (50 bp):
TTTATTATTTTTTATTATTTGATTTATATATATATTATTTCTTATTTTTC
Found at i:16759 original size:28 final size:27
Alignment explanation
Indices: 16728--16797 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
16718 TTTATATATA
16728 TATTATTTTTACTTTTTTAT-TATTATTT
1 TATTATTTTT-CTTTTTTATATATT-TTT
*
16756 TATTTATTTGTT-TTATTTATATATTTTT
1 TA-TTATTT-TTCTTTTTTATATATTTTT
*
16784 TCTTATTTTTCTTT
1 TATTATTTTTCTTT
16798 ATTTTCTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
26 2 0.06
27 8 0.23
28 13 0.37
29 10 0.29
30 2 0.06
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (27 bp):
TATTATTTTTCTTTTTTATATATTTTT
Found at i:16762 original size:9 final size:9
Alignment explanation
Indices: 16711--16911 Score: 65
Period size: 9 Copynumber: 21.1 Consensus size: 9
16701 CTATTTTTTA
16711 TTATTTATT
1 TTATTTATT
16720 TATATATATATT
1 T-TAT-T-TATT
*
16732 ATT-TTTACT
1 -TTATTTATT
16741 TT-TTTATT
1 TTATTTATT
16749 ATTATTT-TAT
1 -TTATTTAT-T
*
16759 TTATTTGTT
1 TTATTTATT
16768 TTATTTA-T
1 TTATTTATT
* *
16776 ATATTTTTT
1 TTATTTATT
*
16785 CTTATTTTTCT
1 -TTATTTAT-T
16796 TTATTT-TCT
1 TTATTTAT-T
*
16805 TTATTTTTT
1 TTATTTATT
16814 TGTATTTATT
1 T-TATTTATT
* *
16824 TTACTTACT
1 TTATTTATT
*
16833 AT-TTTATCT
1 TTATTTAT-T
16842 TTAATTT-TT
1 TT-ATTTATT
16851 TTATCTTATCTT
1 TTAT-TTA--TT
*
16863 TTATTTAAT
1 TTATTTATT
*
16872 TTATTTTTT
1 TTATTTATT
*
16881 CTTAATTTTAAT
1 -TT-A-TTTATT
* *
16893 TTAATTAAT
1 TTATTTATT
16902 TTATTTATT
1 TTATTTATT
16911 T
1 T
16912 CTTACCTTTT
Statistics
Matches: 148, Mismatches: 21, Indels: 46
0.69 0.10 0.21
Matches are distributed among these distances:
8 18 0.12
9 67 0.45
10 35 0.24
11 12 0.08
12 15 0.10
13 1 0.01
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (9 bp):
TTATTTATT
Found at i:16780 original size:17 final size:18
Alignment explanation
Indices: 16754--16791 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
16744 TTATTATTAT
*
16754 TTTATTTATTTGTT-TTA
1 TTTATATATTTGTTCTTA
*
16771 TTTATATATTTTTTCTTA
1 TTTATATATTTGTTCTTA
16789 TTT
1 TTT
16792 TTCTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTATATATTTGTTCTTA
Found at i:16819 original size:10 final size:9
Alignment explanation
Indices: 16750--16826 Score: 66
Period size: 9 Copynumber: 8.3 Consensus size: 9
16740 TTTTTTATTA
*
16750 TTATTTTAT
1 TTATTTTTT
*
16759 TTATTTGTT
1 TTATTTTTT
*
16768 TTA-TTTAT
1 TTATTTTTT
*
16776 ATATTTTTT
1 TTATTTTTT
16785 CTTATTTTTCT
1 -TTATTTTT-T
*
16796 TTATTTTCT
1 TTATTTTTT
16805 TTATTTTTT
1 TTATTTTTT
*
16814 TGTATTTATT
1 T-TATTTTTT
16824 TTA
1 TTA
16827 CTTACTATTT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
8 5 0.09
9 26 0.48
10 22 0.41
11 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.77
Consensus pattern (9 bp):
TTATTTTTT
Found at i:16826 original size:19 final size:18
Alignment explanation
Indices: 16706--16826 Score: 68
Period size: 19 Copynumber: 6.3 Consensus size: 18
16696 ATTTACTATT
16706 TTTTATTATTTATTTATATATA
1 TTTTATT-TTT-TTTAT-T-TA
*
16728 TATTATTTTTACTTT-TTTA
1 TTTTATTTTT--TTTATTTA
* *
16747 TTATTATTTTATTTATTTG
1 TT-TTATTTTTTTTATTTA
* * *
16766 TTTTA-TTTATATATTTT
1 TTTTATTTTTTTTATTTA
16783 TTCTTATTTTTCTTTATTT-
1 TT-TTATTTTT-TTTATTTA
16802 TCTTTATTTTTTTGTATTTA
1 T-TTTATTTTTTT-TATTTA
16822 TTTTA
1 TTTTA
16827 CTTACTATTT
Statistics
Matches: 81, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
17 12 0.15
18 11 0.14
19 29 0.36
20 16 0.20
21 4 0.05
22 9 0.11
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTATTTTTTTTATTTA
Found at i:16843 original size:46 final size:45
Alignment explanation
Indices: 16705--16854 Score: 119
Period size: 46 Copynumber: 3.2 Consensus size: 45
16695 TATTTACTAT
* * * *
16705 TTTTTATTATTTATTTATATATATATTATTTTTACTTTTTTAT-TATTA
1 TTTTT-TTATTTGTTT-TATTTATA-TATTCTTACTATTTTATCT-TTA
* *
16753 TTTTATTTATTTGTTTTATTTATATATTTTTTCTTATTTT-TCTTTA
1 TTTT-TTTATTTGTTTTATTTATATATTCTTAC-TATTTTATCTTTA
*
16799 TTTTCTTTATTTTTTTGTATTTAT-T-TTACTTACTATTTTATCTTTAA
1 TTTT-TTTATTTGTTT-TATTTATATATT-CTTACTATTTTATCTTT-A
16846 TTTTTTTAT
1 TTTTTTTAT
16855 CTTATCTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 16
0.78 0.07 0.14
Matches are distributed among these distances:
45 8 0.09
46 40 0.46
47 25 0.29
48 13 0.15
49 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (45 bp):
TTTTTTTATTTGTTTTATTTATATATTCTTACTATTTTATCTTTA
Found at i:16844 original size:23 final size:22
Alignment explanation
Indices: 16787--16853 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
16777 TATTTTTTCT
*
16787 TATTTTTCTTTATTTTCTTTAT
1 TATTTTTCTTTATTTTCTTTAC
* *
16809 TTTTTTGTATTTATTTTAC-TTAC
1 TATTTT-TCTTTATTTT-CTTTAC
16832 TATTTTATCTTTAATTTT-TTTA
1 TATTTT-TCTTT-ATTTTCTTTA
16854 TCTTATCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
22 5 0.14
23 24 0.69
24 6 0.17
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.73
Consensus pattern (22 bp):
TATTTTTCTTTATTTTCTTTAC
Found at i:16894 original size:26 final size:26
Alignment explanation
Indices: 16841--16903 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
16831 CTATTTTATC
*
16841 TTTAATTT-TTTTATCTTATCTTTTA
1 TTTAATTTATTTTATCTTATCTTTAA
*
16866 TTTAATTTATTTTTTCTTAAT-TTTAA
1 TTTAATTTATTTTATCTT-ATCTTTAA
*
16892 TTTAATTAATTT
1 TTTAATTTATTT
16904 ATTTATTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.24
26 23 0.70
27 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTAATTTATTTTATCTTATCTTTAA
Found at i:24436 original size:15 final size:15
Alignment explanation
Indices: 24416--24451 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24406 ATGATTTCCA
*
24416 TCATGAATGCCTTCT
1 TCATGAATACCTTCT
*
24431 TCATGACTACCTTCT
1 TCATGAATACCTTCT
24446 TCATGA
1 TCATGA
24452 TCGAGTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATGAATACCTTCT
Found at i:27428 original size:24 final size:24
Alignment explanation
Indices: 27396--27450 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
27386 TGAAATTGTA
27396 GTTGGTTTATATACTCTTTGGTTC
1 GTTGGTTTATATACTCTTTGGTTC
*
27420 GTTGGTTTATATACTCTTTGGTTT
1 GTTGGTTTATATACTCTTTGGTTC
27444 GTTGGTT
1 GTTGGTT
27451 ACGCCTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.11, C:0.09, G:0.24, T:0.56
Consensus pattern (24 bp):
GTTGGTTTATATACTCTTTGGTTC
Found at i:30070 original size:211 final size:211
Alignment explanation
Indices: 29660--30982 Score: 1228
Period size: 211 Copynumber: 6.3 Consensus size: 211
29650 TAACTATTTA
* * * * * *
29660 TTGAA-CTTCAAAAAGATAGGAAATTTTGAAATGATTAACATGTTAAGAGTCGATTCTATGCCAC
1 TTGAATCTT-AAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCAC
* * * ** **
29724 AAAATACTTTTTCATCTTATCAGCCAGAGGGAAAGAATA-T-TGTACTACAACTG-AA-AATGCC
65 CAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGT--GGCAACTGCAACAA--CC
* * * * *
29785 AAGATATTCTTATAGGCATTAATGAACATGTGTGGTGCAGCAGCAGCTGCAAATTTGTTTGGATC
126 AAGACATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATC
* * *
29850 CTAGAAGCGTGCATCAATTAA
191 CTGGAAGCGTGCAACAATTAG
** * * * * *
29871 TTGAATCTTAAAAATCTAGAAAATTTTGAAATAAGTATCAGGTTAAAAGTCAATTCCATACCGCT
1 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCACC
* ** * * * * *
29936 AAATAATCTTTCACCTTATCAATCTTA-GAAAGAGAATACTTTGTGACAACTACAACAAACAAGA
66 AAATACTCTTTCACCTTATCAGCCTTAGGGAA-AGAATACTCTGTGGCAACTGCAACAACCAAGA
* * * * *
30000 CATTCTTGTAGGCATTGATGAACATTTTTGGTGCAACAACAACTGCAAATTTGCTTAGATCCTGG
130 CATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTGG
*
30065 AAGCGTGCAATAATTAG
195 AAGCGTGCAACAATTAG
* * * *
30082 TTGAATCTTAAAAAGATATG-AAATTTTGAAATAATTAACAGGTTTAGATTCGATTCCATACTAC
1 TTGAATCTTAAAAAGATA-GAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCAC
* * * **
30146 CAAATACTCTTTCACCTTATCAGCCTTAGGGAATA-AATACTCCCGTTGAAACAACAACAACCAA
65 CAAATACTCTTTCACCTTATCAGCCTTAGGGAA-AGAATACT-CTGTGGCAACTGCAACAACCAA
* * * * * *
30210 GACATTCTTATAGGCATTGATAAACATGTGTAGTGCAGTAACAACTGTAAACTTGATTGGATCCT
128 GACATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCT
** * * * *
30275 AAAAGCGAGAAATAATTAT
193 GGAAGCGTGCAACAATTAG
* * * * * * * *
30294 TTGAATCTTAAAAAGATAGGAAATTTTGAAATAACTAACTGGTTATGATTCAATTCTATACCTCC
1 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCACC
* * * * * *
30359 AAATACTATTTTATCTTATTAGCCTGAGGGAAAGAATACTCTATGGCAACTGCAACAACCAAGAC
66 AAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGAC
* ** * * * *
30424 ATTCTTATAGGCATTGATGAACATGTATGGTTTAACAACAACTGCTAATTTGCTTGTATCTTGGA
131 ATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTGGA
* ** * *
30489 AGCATTTAACAACTAA
196 AGCGTGCAACAATTAG
** * * **
30505 CCGAA-CGTCAAAAAGATAGAAAATTTTGAAATAATTAACAGGTTAAGAGTCGATTCCATACCGT
1 TTGAATC-TTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCAC
* * * * * ** * * * *
30569 CAAATACACTTTCATCTTATCAACCTGATGGAAAGAATGTTATGTGGCAACTGCAACAGCCTATA
65 CAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGA
* * ** * *
30634 CATTC-TAGTAGGCATTGGTGAACATGTGTGGTGTAGCAGTAACTACAAATTTGCTTGGATCCTT
130 CATTCTTA-TAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTG
* * *
30698 GAAACGTACAAAAATTAG
194 GAAGCGTGCAACAATTAG
* * * * * * * **
30716 TTGAATCTTAAAAAGATATAAAATTTTGAAATAATTTACAAGTGAATACTCGATTTTATACCACC
1 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCACC
* *
30781 AAATACTCTTTCACCTTATTAG-TTTGAGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGA
66 AAATACTCTTTCACCTTATCAGCCTT-AGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGA
* * * * * ** * *
30845 CATTCTTATAGGCAATGATGAACATGTGTGGTTCAGCAGCAACTACTAATTTTATTGGATCTTGC
130 CATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTGG
*
30910 AAACGTGCAACAATTAG
195 AAGCGTGCAACAATTAG
*
30927 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGACTCGATTC
1 TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTC
30983 TGTATGTTGA
Statistics
Matches: 889, Mismatches: 207, Indels: 32
0.79 0.18 0.03
Matches are distributed among these distances:
210 7 0.01
211 692 0.78
212 185 0.21
213 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (211 bp):
TTGAATCTTAAAAAGATAGAAAATTTTGAAATAAGTAACAGGTTAAGAGTCGATTCCATACCACC
AAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACAACCAAGAC
ATTCTTATAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGGATCCTGGA
AGCGTGCAACAATTAG
Found at i:32622 original size:54 final size:54
Alignment explanation
Indices: 32541--32852 Score: 394
Period size: 54 Copynumber: 5.8 Consensus size: 54
32531 TAATTATTTC
* * * * *
32541 AACTCATTAT-AAGTTCCGTGGGGTGCACACGTAGTTCCGATACGGTCATTCATA
1 AACTTATTATGAA-TTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* * * * *
32595 AACTCATTATGAATTCCATGAGTTGCACACTTAGTGCCGATACAGTCATTCATA
1 AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* *
32649 AACTTATTATAAAATT-CGTGGGTTGCACACTTAGTGCCGATACGATCGTTCATA
1 AACTTATTAT-GAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* * *
32703 AACTTATTATGAATTCTGTGGGTTGCACACTTAGTGCTGATATGGTCGTTCATA
1 AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* * ***
32757 AACTTATTATGAATTCCATGGGTTGCACACTTAATTTTGATACGGTCGTTCATA
1 AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
* *
32811 AACATATTATGAATTTCGTGGGTTGCACACTTAGTGCCGATA
1 AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATA
32853 TGTAGAAATG
Statistics
Matches: 224, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
53 4 0.02
54 214 0.96
55 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (54 bp):
AACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATA
Found at i:32831 original size:162 final size:162
Alignment explanation
Indices: 32541--32852 Score: 437
Period size: 162 Copynumber: 1.9 Consensus size: 162
32531 TAATTATTTC
*
32541 AACTCATTATAAGTTCCGTGGGGTGCACACGTAGTTCCGATACGGTCATTCATAAACTCATTATG
1 AACTCATTATAAGTTCCGTGGGGTGCACACGTAGTGCCGATACGGTCATTCATAAACTCATTATG
* *
32606 AATTCCATGAGTTGCACACTTAGTGCCGATACAGTCATTCATAAACTTATTATAAAATTCGTGGG
66 AATTCCATGAGTTGCACACTTAATGCCGATACAGTCATTCATAAACATATTATAAAATTCGTGGG
32671 TTGCACACTTAGTGCCGATACGATCGTTCATA
131 TTGCACACTTAGTGCCGATACGATCGTTCATA
* * * * * * * *
32703 AACTTATTATGAA-TTCTGTGGGTTGCACACTTAGTGCTGATATGGTCGTTCATAAACTTATTAT
1 AACTCATTAT-AAGTTCCGTGGGGTGCACACGTAGTGCCGATACGGTCATTCATAAACTCATTAT
* *** * * * *
32767 GAATTCCATGGGTTGCACACTTAATTTTGATACGGTCGTTCATAAACATATTATGAATTTCGTGG
65 GAATTCCATGAGTTGCACACTTAATGCCGATACAGTCATTCATAAACATATTATAAAATTCGTGG
32832 GTTGCACACTTAGTGCCGATA
130 GTTGCACACTTAGTGCCGATA
32853 TGTAGAAATG
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
162 128 0.98
163 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (162 bp):
AACTCATTATAAGTTCCGTGGGGTGCACACGTAGTGCCGATACGGTCATTCATAAACTCATTATG
AATTCCATGAGTTGCACACTTAATGCCGATACAGTCATTCATAAACATATTATAAAATTCGTGGG
TTGCACACTTAGTGCCGATACGATCGTTCATA
Found at i:34516 original size:20 final size:19
Alignment explanation
Indices: 34480--34532 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
34470 TCAGCTGAGT
* *
34480 AGTATCGATAACGAAGGGA
1 AGTATCGATACCAAAGGGA
34499 GAGTATCGATACCAAAGGGA
1 -AGTATCGATACCAAAGGGA
*
34519 AGGAATCGATACCA
1 A-GTATCGATACCA
34533 TTCAAAAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:38694 original size:20 final size:20
Alignment explanation
Indices: 38669--38719 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
38659 ATTCAATCAA
*
38669 TATCGATACCGAAGGG-AGAG
1 TATCGATACCAAAGGGAAG-G
38689 TATCGATACCAAAGGGAAGG
1 TATCGATACCAAAGGGAAGG
*
38709 TGTCGATACCA
1 TATCGATACCA
38720 TTTAGAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (20 bp):
TATCGATACCAAAGGGAAGG
Found at i:38793 original size:22 final size:20
Alignment explanation
Indices: 38741--38812 Score: 92
Period size: 22 Copynumber: 3.5 Consensus size: 20
38731 ATGTAAAAAT
38741 GGTATCGATACCATAGTA-G
1 GGTATCGATACCATAGTATG
* *
38760 GGTATCGGTACCGTAGTATG
1 GGTATCGATACCATAGTATG
*
38780 GTAGTATCGATACCATGGTATG
1 G--GTATCGATACCATAGTATG
38802 GGTATCGATAC
1 GGTATCGATAC
38813 TGAGGAGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 16 0.36
20 12 0.27
22 17 0.38
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATAGTATG
Found at i:39223 original size:56 final size:56
Alignment explanation
Indices: 39151--39633 Score: 736
Period size: 56 Copynumber: 8.7 Consensus size: 56
39141 TAAGTGTGGA
39151 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
39207 AAAACGTAAGAAATTCATACTAAGTGGATGAATTTCCCTATAGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
39263 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTAGGGGAACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
39319 AAAAATTAAGAAATTCATACTAAGTGGATGAATTTTCGTATTGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
39375 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
**
39431 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTTGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
39487 AAAACTTGAGAAATTCATACTAAGTGGATGAATTTCGGTATGGGCACTTTATGT-T
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * * * *
39542 TAAATTTAAGAAATTCATACTAAGTGGGTGAATTTCTGTATGGCCACTATATGTGC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * *
39598 AAAAC-TAGGAAATTTATATTAAGTGTATGAATTTCC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCC
39634 ATATTGGTAG
Statistics
Matches: 388, Mismatches: 38, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
55 73 0.19
56 315 0.81
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (56 bp):
AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
Found at i:40688 original size:61 final size:61
Alignment explanation
Indices: 40607--40727 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 61
40597 CACTAAGTGC
* *
40607 AGGTTGTGGGCACAACCTTATGTGTCATATCCGGATTAACACTAGA-CTGTAAGCCTAGTAT
1 AGGTGGTGGGAACAACCTTATGTGTCATATCCGGATTAACACTAGAGC-GTAAGCCTAGTAT
* * *
40668 AGGTGGTGGGAACGACCTTATGTGTCATATCCGGATTAGCACTAGAGCGTAAGCTTAGTA
1 AGGTGGTGGGAACAACCTTATGTGTCATATCCGGATTAACACTAGAGCGTAAGCCTAGTA
40728 CAAGTTTAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 53 0.98
62 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (61 bp):
AGGTGGTGGGAACAACCTTATGTGTCATATCCGGATTAACACTAGAGCGTAAGCCTAGTAT
Found at i:42704 original size:4 final size:4
Alignment explanation
Indices: 42695--44867 Score: 2903
Period size: 4 Copynumber: 545.5 Consensus size: 4
42685 AAATATTATC
* *
42695 TACA TACA TACA TACA CACA CACA TACA TAC- -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42741 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
42789 TACA TACA TACA TACA TACA TACA TATA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
42837 TACA TGCA TACA TACA CACA TGCA TGCG TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42885 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42933 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
42981 TACA TACA TACA TACA TACA TACA TACA TACA T--A TACA TGCA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
43027 TACA TACA TACA TACA TACA TACA TACA TATA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43075 TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
43121 TACA TACA TACA TACA TACA TACA TACA TCCA TACA TACA TCCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43169 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T--A TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43215 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
43263 TACA TACA TACA TACA TACA TACA TGCA TAC- -ACA TGCA TAC- -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43307 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43355 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43403 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43451 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43499 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43547 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
43595 TACA TACA TACA TACA TACA TACA TACA TACA TATA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43643 TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43689 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43737 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43785 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
43833 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
43881 TACA TACA TACA TACA TACA TACA TACA TACA TATA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
43929 TATA TACA TACA TACA TACA TACA TACA TATA TACA TACA T--A TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * ** * * *
43975 TGCA TACA TACA TACA TGCA TGCA TGCA TGCA TGTA TGCA TGCA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
44023 TACA TATA TATA TACA TACA TACA TACA TACA TACA TACA TACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * ** *
44071 TGCA TACA TACA TGCA TGCA TACA TGCA TGTA TGCA TACA TAC- -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
44117 TACA TGCA TACA TAC- -ACA TACA TGCA TACA TGCACA TACA TGCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA T--ACA TACA TACA TACA
* * * * * * * * * * *
44165 TGCA TACA TGCC TGCA TATGCA TGCA TGCC TGCA TATGCA TGCA TGCC
1 TACA TACA TACA TACA TA--CA TACA TACA TACA TA--CA TACA TACA
* * ** * ** * * * *
44213 TGCA TATGCA TGCA TGGA TGCA GGCA TGCA TACA CACA TGCA TGCA TACA
1 TACA TA--CA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
44263 CACA TGCA TGCA TACA CACA TATA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
44311 TACA TGCA TACA CACA TACA TGCA TACA TGCA TACA TGCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
** * *
44359 TTGA TATA TACA TACA TACA TACA TACA TACA TATA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
44407 TACA TATA TATA TACA TATA TACA TATA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * ** * * **
44455 TGCA TACA TACA TACA TACA TGCA TACA TGTA TGCA TGCA TGA-A TGTA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T-ACA TACA
** * * * * *
44503 TGTA TGCA TACA TACA TGCACA TGCA TACA TGCA TACA TGCA TACA TGCA
1 TACA TACA TACA TACA T--ACA TACA TACA TACA TACA TACA TACA TACA
* ** * * * * *
44553 TACA TGACA TGCA TGTA TACA CACA TACA TGCA TACA CACA TGCA TGCA
1 TACA T-ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * *
44602 TGCA TACA CACA TGCA TACA TGCA CACA TGCA TACA TGCA CACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
44650 CACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
44698 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
44746 TACA TACA TACA TACA TACA TACA TGCA TACA TACA CACA TGCA TGCG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * *
44794 TACA CACA TACA TGCA TACA CACA TATA TGCA TACA CACA TACA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
** * *
44842 TACA TGGA TACA CACA CACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
44868 TACTTTTGTT
Statistics
Matches: 1946, Mismatches: 190, Indels: 66
0.88 0.09 0.03
Matches are distributed among these distances:
2 20 0.01
4 1905 0.98
5 4 0.00
6 17 0.01
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:48508 original size:211 final size:211
Alignment explanation
Indices: 47874--50300 Score: 2598
Period size: 211 Copynumber: 11.5 Consensus size: 211
47864 ACTCAACACT
* * * * * *
47874 ATACTTCCAAATACTCTTACACCTTATTAGCCTGAGGGAAAGAATACTCTGTGGCATCTACAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * **
47939 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTTCAACAGCAACTGTTAATTAT-CTTG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATT-TGCTTG
* * * * * * * * *
48003 GATCCTAGAAGCATGTAACTATTAATTGAA-CATAAAAAAGATAGAAAATTTTGAAATAATAAAT
130 GATCCTGGAAGCGTGCAACAATTAGTTGAATC-TTAAAAAGATAGGAAATTTTGAAATAATTAAC
**
48067 AGGTTAAGAGTTTATTCC
194 AGGTTAAGAGTCGATTCC
* * * * * * * * *** * *
48085 ATACCGACAAATAGTTTTTCATCTTATCAGCCTGAGGAAAAGAAAACTCCACGGCAACTACAACT
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * * * *
48150 ACCAAGATATTCTTGTAGGCATTGATAAACATGTGCGGTGCAGCAGCAAATGCAAATTTGTTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * * * *
48215 ATCCT-GAAGCGTGCATCAATTAATTGAATCTAAAAAAGATA-GAAACTTTTGAAATAAGTATCA
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAA-TTTTGAAATAATTAACA
*
48278 AGTTAAGAGTCGATTCC
195 GGTTAAGAGTCGATTCC
* * * * * ** *
48295 ATACTGCTAAATA-TACTTTCACATTATTAACCTTAGAGACCGAATACTCTATGGCAACTGCAAC
1 ATACTGCCAAATACT-CTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAAC
* * * * * *
48359 AGCCAAGACATTCTTGTAGGCATTAATGAACATGTTTGATGCAACAACAACTACAAAATTT-CTT
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGC-AAATTTGCTT
* *
48423 GGATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAATAGATAGGAAAATTTGAAATAATTAAC
129 GGATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAAC
* *
48488 AGGTTTAGAGTCGTTTCC
194 AGGTTAAGAGTCGATTCC
* * * * * *
48506 ATAATGCCAACTACTCTTTTACCTTATCAGCCTTAGGGAATGAATACTCCGTGGCAACAGCAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * *
48571 ACCAAGACATTCTTATAGGAATTGATGAACATGTGTAGTGCAGCAACAACTGCAAATTTGCTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * * *
48636 ATCCTGGAAGCATGCAACAACTGGTTGAATCTTAAAAGGATAGGAAATTTTGAAATAATTAACAG
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
* ** *
48701 GTTATGTTTCGATTCT
196 GTTAAGAGTCGATTCC
* * * * *
48717 ATACCT-CCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTTTGTGGTAACTACAAC
1 ATA-CTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAAC
* * * * *
48781 AGCCAAGACATTCTTGTAGGCATTGATGAACATGTGTTGTTCAGCAACAACTACTAATTTGCTTT
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGC-TT
* * * *
48846 GGATCCTGGAAGCATTCAACAATTAATTGAA-CGTAAAAAAGATAGGAAATTTTGAAATAATTAA
129 GGATCCTGGAAGCGTGCAACAATTAGTTGAATC-TTAAAAAGATAGGAAATTTTGAAATAATTAA
* *
48910 CAGGTTAAGAGTTGATTCA
193 CAGGTTAAGAGTCGATTCC
* * * * * * * * *
48929 ATACCGCCAAATATTCCTTCATCTTATCAGCCTTAGGGAACGGATGCTCCGTGGCAACTACAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * * * *
48994 ACCAAGAAATTCTTTTAGACATTGATGAACATGTGTGGTACAACAACAATTGCAAATTTGCTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
** * * ** *
49059 ATCCTGGAAATGTG-ATACAATTAGTTCAATATTGGAAAGATAGAAAATTTTGAAATAATTAACA
131 ATCCTGGAAGCGTGCA-ACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACA
* * *
49123 GATTAAGACTCGATTCT
195 GGTTAAGAGTCGATTCC
* * * *
49140 ATACCT-CCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTCTTTGGTAACTGCAAC
1 ATA-CTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAAC
* * * * **
49204 AACCAAGACATTCTTGTAGACAATGATGAACATGTGTGGTTCAGCATCAACTGCTCATTTGCTTG
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTG
* * * *
49269 GATCCTGGAAGCATGCAACAATTAATT-AAACATAAAAAAGATAGGAAATTTTGAAATAATTAAC
130 GATCCTGGAAGCGTGCAACAATTAGTTGAATC-TTAAAAAGATAGGAAATTTTGAAATAATTAAC
*
49333 ATGTTAAGAGTCGATTCC
194 AGGTTAAGAGTCGATTCC
* * * *** * * *
49351 ATACCGCCAAATACTCTTTCATCTTATCAGCCTAAGGGAAAGAATACTCCACGACAATTGCAACT
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * * *
49416 ACCAAGATATTTTTTTAGGCATTGATGAACATGTGTGGTGCAGCAACAAGTGCAAATTTGTTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * * ** * * *
49481 ATCTTGGAAGCGTGCATCAATTAATTGAATCTCCAAAAGATAGGAAATTTTAAAATAAGTAACAA
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
*
49546 GTTAAGAGTTGATTCC
196 GTTAAGAGTCGATTCC
** * * * * * ** * *
49562 ATACCACTAAATACTTTTTCACCTTATCAACCTTAGAGAATGAATACTCCATGGAAACTGCAATA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * * * * *
49627 GCCAAGACATTCTTATAGGCATTGATGAACATATGTGGTGTAACAACAACTGAAAATTTTCTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * *
49692 ATCCTGGAAGTGTTCAACAATTAGTTGAATCTTAAAAACATAGGAAATTTTGAAATAATTAACAG
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
49757 GTTTAA-AGTCGATTCC
196 G-TTAAGAGTCGATTCC
* * * * * * *
49773 ATACTACCAAATACTCTTTCAGCTTATAAGCCTTAGGGAATGAATACTCAGTGGCAACAGTAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * **
49838 ACCAAAACATTCTTGTAGGCATTGATGAACATGTTTGGTGCAGCAACAACTGCAAATTTGCTTTT
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * * *
49903 ATCCTAGAAGTGTGCAATAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAATAG
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
* * *
49968 GTTAAGACTCAATTCT
196 GTTAAGAGTCGATTCC
* * *
49984 ATACCT-CCAAATACTCTTTCACCTTATCAACCTTTGGGAAAGAATACTCTGTGGCACCTGCAAC
1 ATA-CTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAAC
* * * * * * *
50048 AGCTAAGATATTCTTGTAGGCATTGATGAACATGTGTGGCGCAGTAGCAACTACAAATTT-CTTG
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTG
* * * * * *
50112 GATCCTGAAAGTGTGCAACAATTAGCTGAATGTCAAAAAGATAGGAAATTTTGAAATAACTAACA
130 GATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACA
*
50177 GGTTAAGAGTCAATTCC
195 GGTTAAGAGTCGATTCC
* * *
50194 ATACTGCCAAATATTCTTTCTCCTTATCAGCCTTAGGGAACGAATACT-TCGTGGCAACTGCAAC
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCT-GTGGCAACTGCAAC
* * * * *
50258 AGCCAAGACATTCTTGTAGACACTAATGAACATGTGAGGTGCA
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCA
50301 ACAGTAACTG
Statistics
Matches: 1835, Mismatches: 356, Indels: 51
0.82 0.16 0.02
Matches are distributed among these distances:
209 7 0.00
210 331 0.18
211 1306 0.71
212 191 0.10
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (211 bp):
ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
GTTAAGAGTCGATTCC
Found at i:51776 original size:20 final size:20
Alignment explanation
Indices: 51751--51789 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51741 AATGCATGTT
*
51751 TATTTTATTTTATATTTTAC
1 TATTTTATATTATATTTTAC
*
51771 TATTTTATATTATCTTTTA
1 TATTTTATATTATATTTTA
51790 TTTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTATATTATATTTTAC
Found at i:51783 original size:25 final size:24
Alignment explanation
Indices: 51749--51819 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 24
51739 CTAATGCATG
51749 TTTATTTTATTTTATATTTTACTAT
1 TTTA-TTTATTTTATATTTTACTAT
*
51774 TTTATATTATCTTT-TATTTTAATTAT
1 TTTAT-TTAT-TTTATATTTT-ACTAT
*
51800 TTTGATTAATTTTAT-TTTTA
1 TTT-ATTTATTTTATATTTTA
51820 ATTGTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 2 0.05
25 21 0.54
26 14 0.36
27 2 0.05
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.70
Consensus pattern (24 bp):
TTTATTTATTTTATATTTTACTAT
Found at i:53416 original size:211 final size:211
Alignment explanation
Indices: 53036--53445 Score: 513
Period size: 211 Copynumber: 1.9 Consensus size: 211
53026 TCGACAAACT
* * * *
53036 GCAAATTTGTTTGGATCCTGGAAGTGTGCAACAATTAATTGAATCTAAAAAAGATAGGAACTTTT
1 GCAAATTTGTTTGGATACTGGAAGCGTACAACAATTAATTGAATCTAAAAAAGATAGGAAATTTT
* * ** * *
53101 GAAATGATTAACATGTTAAGAGTCTATTCCTTACCGCTAAATACTCTTTCATCGTGTCAACCTCG
66 GAAATAATTAACAGGTTAAGAGTCTATTCCTTACCGAGAAATACTCTTTCACCGTATCAACCTCG
* * * *
53166 GGGAACGAACACTCCGTGGCAATTGCAACAGGAAAGACATTCTTGTAGGCATTGATGAACATGTC
131 GGGAAAGAACACTCCGTGGCAACTACAACAGCAAAGACATTCTTGTAGGCATTGATGAACATGTC
53231 TGGTGCAGCAACAACG
196 TGGTGCAGCAACAACG
* * * *
53247 GCAAATTTGCTTT-GATATTGGAAGCGTACAACAATTAGTTGAATCTTAAAATGATAGGAAATTT
1 GCAAATTTG-TTTGGATACTGGAAGCGTACAACAATTAATTGAATCTAAAAAAGATAGGAAATTT
* * *
53311 TGAAATAATTAACAGGTTAAGAGT-TGATTCCATT-CTGAGAAATACTCTTTCACCTTATCAGCC
65 TGAAATAATTAACAGGTTAAGAGTCT-ATTCC-TTACCGAGAAATACTCTTTCACCGTATCAACC
* ** * *
53374 T-GAGGGAAAGAATACTTTGTGGCAACTACAACAGCTAAGACATTCTTGTAGGCATTGATTAACA
128 TCG-GGGAAAGAACACTCCGTGGCAACTACAACAGCAAAGACATTCTTGTAGGCATTGATGAACA
*
53438 TGTGTGGT
192 TGTCTGGT
53446 ACAGTAGCAA
Statistics
Matches: 168, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
210 2 0.01
211 161 0.96
212 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (211 bp):
GCAAATTTGTTTGGATACTGGAAGCGTACAACAATTAATTGAATCTAAAAAAGATAGGAAATTTT
GAAATAATTAACAGGTTAAGAGTCTATTCCTTACCGAGAAATACTCTTTCACCGTATCAACCTCG
GGGAAAGAACACTCCGTGGCAACTACAACAGCAAAGACATTCTTGTAGGCATTGATGAACATGTC
TGGTGCAGCAACAACG
Found at i:56688 original size:42 final size:43
Alignment explanation
Indices: 56623--56802 Score: 175
Period size: 44 Copynumber: 4.1 Consensus size: 43
56613 ATAGAGGTTT
* ** ** *
56623 TAATTTTTTTTAATCCCGTTTTTTAAATTTATAATAGAGGCACC
1 TAATTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGC-CC
* * * *
56667 T-ATTTTTTT-AATCTCACTTTTTATCTTCATAATTGAGACCAC
1 TAATTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGCC-C
** *
56709 TAATTTTTTTCAATCTTATTTTTTACCTTTATAATTGAGGCCC
1 TAATTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGCCC
* *
56752 TTAATTTTTTTCAATCCCACTTTTTACTTTTATAATTTAGGCCC
1 -TAATTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGCCC
56796 TTAATTT
1 -TAATTT
56803 CATCATTTCT
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 24 0.21
43 17 0.15
44 72 0.63
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.52
Consensus pattern (43 bp):
TAATTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGGCCC
Found at i:57625 original size:23 final size:23
Alignment explanation
Indices: 57599--57643 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
57589 AATATTTATT
*
57599 TTCATCCATTAATACATAATATG
1 TTCATACATTAATACATAATATG
*
57622 TTCATACATTAATGCATAATAT
1 TTCATACATTAATACATAATAT
57644 CTATAAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (23 bp):
TTCATACATTAATACATAATATG
Found at i:59367 original size:51 final size:51
Alignment explanation
Indices: 59311--59408 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
59301 ACAACATGCC
*
59311 AAAATTCTAAGTTCTCATCACCATTCACAGATTACTATGCTAATATAAACA
1 AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATAAACA
59362 AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATA
1 AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATA
59409 GTTTTTTGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (51 bp):
AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATAAACA
Found at i:66184 original size:153 final size:153
Alignment explanation
Indices: 65901--66196 Score: 520
Period size: 153 Copynumber: 1.9 Consensus size: 153
65891 GAAGTTGGCT
* *
65901 ACGTTGCACTCGGTTGCTGAACATGGAGAACATTGTTATTCGGCTGAGTCGCGACCGAGTTACGA
1 ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGAGTCGCGACCGAGTTACGA
* *
65966 CCATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCTTCTTTGGTCTTTCCTCC
66 CCATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCGTCATTGGTCTTTCCTCC
66031 ATCATTAACAGTTGGCTTACACA
131 ATCATTAACAGTTGGCTTACACA
*
66054 ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGATTCGCGACCGAGTTACGA
1 ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGAGTCGCGACCGAGTTACGA
* * *
66119 CCATCAAATATGACATTACTGTTATTACCAGCTGCCATCAACGGAGCGTCATTGGTCTTTGCTCC
66 CCATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCGTCATTGGTCTTTCCTCC
66184 ATCATTAACAGTT
131 ATCATTAACAGTT
66197 TGCTGAACAT
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
153 135 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (153 bp):
ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGAGTCGCGACCGAGTTACGA
CCATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCGTCATTGGTCTTTCCTCC
ATCATTAACAGTTGGCTTACACA
Found at i:66563 original size:29 final size:29
Alignment explanation
Indices: 66530--66624 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
66520 ATAGAATTAT
** * *
66530 AATAAAGGAAAAATTGTTTTGGAATTTCC
1 AATAAAGGAAAAAGCGTTTTGAAATTTAC
* *
66559 AATAAAGGATAAAGCGTTTTGAAATTTAT
1 AATAAAGGAAAAAGCGTTTTGAAATTTAC
*
66588 AATAAAGGACAAAA-CGTTGTG-AATTTAC
1 AATAAAGGA-AAAAGCGTTTTGAAATTTAC
*
66616 AATTAAGGA
1 AATAAAGGA
66625 CAATTTTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.25
29 38 0.69
30 3 0.05
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (29 bp):
AATAAAGGAAAAAGCGTTTTGAAATTTAC
Done.