Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010204.1 Corchorus capsularis cultivar CVL-1 contig10225, 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: 89671
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:6021 original size:27 final size:27
Alignment explanation
Indices: 5965--6021 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
5955 GATTGTCTTG
* **
5965 CTTTATATAAACCAATACCTTGATGGT
1 CTTTATATAAACCAATACCTTAATCAT
*
5992 CTTTATTATAAACTAATACC-TAATCAT
1 CTTTA-TATAAACCAATACCTTAATCAT
6019 CTT
1 CTT
6022 GAAGGAGTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (27 bp):
CTTTATATAAACCAATACCTTAATCAT
Found at i:8280 original size:52 final size:52
Alignment explanation
Indices: 8218--8358 Score: 282
Period size: 52 Copynumber: 2.7 Consensus size: 52
8208 GGTCCAATCC
8218 GATTTTATCAAATGGTTTTAACTAGGTCAATTGCACATCTAGTAAAATATAA
1 GATTTTATCAAATGGTTTTAACTAGGTCAATTGCACATCTAGTAAAATATAA
8270 GATTTTATCAAATGGTTTTAACTAGGTCAATTGCACATCTAGTAAAATATAA
1 GATTTTATCAAATGGTTTTAACTAGGTCAATTGCACATCTAGTAAAATATAA
8322 GATTTTATCAAATGGTTTTAACTAGGTCAATTGCACA
1 GATTTTATCAAATGGTTTTAACTAGGTCAATTGCACA
8359 ATCGGACCTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (52 bp):
GATTTTATCAAATGGTTTTAACTAGGTCAATTGCACATCTAGTAAAATATAA
Found at i:10197 original size:11 final size:11
Alignment explanation
Indices: 10181--10216 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
10171 CCATTATACT
10181 ATATCTAATTA
1 ATATCTAATTA
10192 ATATCTAATTA
1 ATATCTAATTA
10203 ATA-CTTAATTA
1 ATATC-TAATTA
10214 ATA
1 ATA
10217 ATGAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 1 0.04
11 23 0.96
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATCTAATTA
Found at i:19121 original size:18 final size:18
Alignment explanation
Indices: 19098--19147 Score: 77
Period size: 17 Copynumber: 2.8 Consensus size: 18
19088 CGAAAGATAA
19098 AGAAAAAGCTAATTTTGT
1 AGAAAAAGCTAATTTTGT
19116 AGAAAAAGC--ATGTTTGT
1 AGAAAAAGCTAAT-TTTGT
19133 AGAAAAAGCTAATTT
1 AGAAAAAGCTAATTT
19148 CAAGTGGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.07
17 14 0.48
18 11 0.38
19 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (18 bp):
AGAAAAAGCTAATTTTGT
Found at i:21671 original size:336 final size:323
Alignment explanation
Indices: 20363--24480 Score: 1805
Period size: 330 Copynumber: 12.6 Consensus size: 323
20353 GGTTTAATAC
* * * * **
20363 TTTAAAAATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATTATAAATTAATTTAG-AA
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
* * * * * * *
20427 AAAATAAAAAATACGATATTAAAAGCGTGAAAAGCCTTCCAATCTTTTTGGTGTTGAATTATATA
66 AAAATGAAAAAT--GATATTAGAAGCGTAAAAATCCTT-CAATATTTTTGGCGTTAAATTATATA
* ** * * * *
20492 -TTTTTATGAGTATTTTAGCAAAAAAATTAAGGAGAAATCTTT-GTGTTC-ATTTTTGCACAATT
128 TTTTTTATGAGTATTGT-G-ATCAAAATTAAGGAAAAATATTTCG-GGTCAATTTTTGCAAAATT
** * ** * * *** *
20554 TTAGCTGAAATCATGTACTGACTAATCATCACGGTGTTTGCCTAAAAACAAATTCCGGTGACC-C
190 TTAGCCAAAATC--G---TG--TAATCA-GA-TTTTTTTGGCTAAAAACGCGTTCCGG-GGCCTC
* * * *
20618 GGCTCAATTTTGCATGATTTTTTACT-CCGAGACTACTTGAAATATCTATAATCATCTAATCAAA
245 GG-TCAGTTTTGCATGA-TTTTTACTGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAA
20682 TCTCAGCCACATTGCA
308 TCTCAGCCACATTGCA
* * * * * *
20698 TTTAAGGATTTATTTTT-CGAGCATCTGAAT-TATGTTTCAATTTTATAAGAAATTAATGT-GGA
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCT-TGTTTCGATTTAATTAGAAATTAAT-TCGGA
* * * * * *
20760 AAAATATGAAAAACGATATTAGAAGCATGAAAAATCCTTCAATAATTTTGGCATTGAATTATATA
64 AAAAAATGAAAAATGATATTAGAAGCGT-AAAAATCCTTCAATATTTTTGGCGTTAAATTATATA
* * * * *
20825 TTTTTTATGAGTATTGTGACCAAAAATTCAGGAAATATCTTTCGGGTCAATTTTTACAAAATTTT
128 TTTTTTATGAGTATTGTGATC-AAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTT
* * * * * *
20890 AGCCGAAATCGTGTAATAACCATCATAGTTTTTGGCTAAAAAAGCGTTCCGGGACCCCGGCTCAG
192 AGCCAAAATCGTGTAAT---CA-GAT-TTTTTTGGCTAAAAACGCGTTCCGGGGCCTCGG-TCAG
* * * *
20955 ATTTGTATGATTTTTGCTGCCAAGACTCCTTGATATAT-TCATATTCATCTAATCAAATCTCAGC
251 TTTTGCATGATTTTTACTGCCAAGACTCCTTGAAATATCT-ATATTCATCTAATCAAATCTCAGC
* *
21019 CACTTTGAA
315 CACATTGCA
* **
21028 TTT-AAGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGATATTAATTTAGAA
1 TTTAAAG-ATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* * ** ** * *
21092 AAATATGAAAAATGATATTAAAAGCGTAAATTTCCACCAATATTTTTGGCGTCAAATTATATATA
65 AAAAATGAAAAATGATATTAGAAGCGTAAAAATCCTTCAATATTTTTGGCGTTAAATTATATATT
* * * * *
21157 TATTATGAGTATT-TTATCCGAAAATTAAGGAAAAATTTTTCGAGTCATTTTTTGCAAAATTTTA
130 TTTTATGAGTATTGTGAT-C-AAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTA
* * *
21221 GACAAAATCGTGTATGTTATCACGA--TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAGT
193 GCCAAAATCGTGTA----ATCA-GATTTTTTTGGCTAAAAACGCGTTCCGGGGCCTCG-GTCAGT
** ** * *
21284 TTTGCATGATTTTTTGTGCTGAGACTCCTTGAAATATCTATATTCATCTAATAAAATCTTAGCCA
252 TTTGCATGATTTTTACTGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCA
21349 CATTGCA
317 CATTGCA
* * *
21356 TTTAAAGATTTGGTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCCGAAA
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
* * * *
21421 AAAATTGAAAAATGATATTAGAAGTGTAAAAAGCCTTCAATCTTTTTGACGTTAAATTATATATT
66 AAAA-TGAAAAATGATATTAGAAGCGTAAAAATCCTTCAATATTTTTGGCGTTAAATTATATATT
* * * *
21486 TTTTATGAGTATTGTGGTTAAAATTTGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATATTAG
130 TTTTATGAGTATTGTGATCAAAA-TTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAG
*
21551 CCAAAATCGTGTACCATCAGAGTTTTTTTTTTTCGTGGCTAAAAACGCGATCCGGGGCCTCAGGT
194 CCAAAATCGTGTA--ATCAGA------TTTTTT--TGGCTAAAAACGCGTTCCGGGGCCTC-GGT
* * *
21616 CTGTTTTGCATGATTTTTATTGTCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCA
248 CAGTTTTGCATGATTTTTACTGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCA
*
21681 GCCACATTGGA
313 GCCACATTGCA
* *
21692 TTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
* * * * * *
21757 AAAGCAGGAAAAATGATATTAGAAGCATAAAAAATCTTTCAATATTTTTTGCGTTGAAGTATAT-
66 AAA--ATGAAAAATGATATTAGAAGCGT-AAAAATCCTTCAATATTTTTGGCGTTAAATTATATA
* * * * * * * **
21821 TTTTTTATGAGTA-TGTCAGCCAAAAAATGAGTAAATATCTTTCGGGTCAATTTTAACAAAATTT
128 TTTTTTATGAGTATTGTGA-TC-AAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTT
* * * * * ** * ****
21885 TAGGGTTTTGGCTAAAAACGTGTTCCAAGGCCCCGGGTCAGTTTT-ACATGAATTTTG-GTGT-C
191 TA--------GCCAAAATCGTG-T--AA----TCAGAT-TTTTTTGGC-T-AAAAACGCGT-TCC
** * ** * * * * * * * ** * *
21947 -AAGACTCCTTAAGATATCCAT-ATTCATCTAAT--CAA-A-T-C-TCAACCA-C-AT-TGCATT
237 GGGGCCTCGGTCAGTTTTGCATGATT--TTTACTGCCAAGACTCCTTGAAATATCTATATTCATC
* * *****
22001 TAA-C-GATTTGTTTTTACGA--GCA
300 TAATCAAATCT-CAGCCAC-ATTGCA
22023 TTT-AA-ATCTTG-TTTT----G------------------ATTTAATTAGAAATTAATTCGGAA
1 TTTAAAGAT-TTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* ** ** * ** * *** **** *
22063 AAATTATGAAAAGCGCGA--A-AAGTCCT-CGAAT-ATT---T-TTGGCGTTAAAT-GA-TATAT
65 AAA-AATGAAAAATGATATTAGAAG-CGTAAAAATCCTTCAATATTTTTG-GCGTTAAATTATAT
* * * * ** * * * *
22117 A--TTTTATGATTATT-TTAGCCAAAAATTGATAAAAAAAAATT-AGGTCAATTTTTACAAAATT
127 ATTTTTTATGAGTATTGTGA-TC-AAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATT
* * * * * * * * * *
22178 TTAGCCGAAATCGTGTACTAACCAACACGGTTTTTT-GCTAAAAATGTGTTTCAGGGCCCCGACT
190 TTAGCCAAAATCGTG---TAATC-AGA--TTTTTTTGGCTAAAAACGCGTTCCGGGGCCTCG-GT
* * *** * *
22242 CCGTTTTGCATGATTTTTGGC-GTTGAGACTCCTTAAAATATCTATATCCATCTAATCAAATCTC
248 CAGTTTTGCATGATTTTT-ACTGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTC
*
22306 AGCCACATTGAA
312 AGCCACATTGCA
22318 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
* * * * *
22383 AAAGTAGGAAAAATGATATTAGAAGCATAAAAAATCCTTCAATATTGTTT-GCATTGAAGTATAT
66 AAA--ATGAAAAATGATATTAGAAGCGT-AAAAATCCTTCAATATT-TTTGGCGTTAAATTATAT
* *** * * * * * * ** *
22447 TTTTTTTATGAGTA-TCACAGCCAAAAAATGAGGAAATATCTTTCGTGTCAATTTTAACAAAATG
127 ATTTTTTATGAGTATTGTGA-TC-AAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATT
* * ** * * ** *
22511 TTAGCCGAAATCGTGTAATAATCATCACGGTTTTTAGCTAAAAACGTGTTCCAAGGCCCCGGGTC
190 TTAGCCAAAATCGTG---TAATCA-GA-TTTTTTTGGCTAAAAACGCGTTCCGGGGCCTC-GGTC
* ** * * * *
22576 AGTTTTGCATGATTATTGGTGTCAAGACTCCTTGAGATATCCATATTCATCTAATCAAATCTCAA
249 AGTTTTGCATGATTTTTACTGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAG
*
22641 CCACATTGGA
314 CCACATTGCA
* *
22651 TTTAACGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATTAATTC-----
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
* * * * * *
22711 ---A-GAAAAAT--TATGAAAAGTGTGAAAAGTCC-TCTAATATTTTTGGCATTAAATGATATAT
66 AAAATGAAAAATGATATTAGAAGCGT-AAAAATCCTTC-AATATTTTTGGCGTTAAATTATATAT
* * * * * * * ** *
22769 ATTTCATGATTATT-TTAGCCAAA-T--GAAAAAAT-TTTTTGGTCAATTTTTGCAAAATTTTGG
129 TTTTTATGAGTATTGTGATCAAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAG
* * * * * * * * *
22829 CCGAAATCGTGTACTAACCAACACGGTTTTTTTTTTTGCTAAAAACGTGTTTCAGGGCCCCGACT
194 CCAAAATCGTG---T-A--ATCA--G--ATTTTTTTGGCTAAAAACGCGTTCCGGGGCCTCG-GT
* * * * *
22894 CAGTTTTGCATGATTTTTGGC-GTCGAGACTCCTTAAAATATCTATATCCATCTAATCAAATCTC
248 CAGTTTTGCATGATTTTT-ACTGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTC
*
22958 AGCTACATTGCA
312 AGCCACATTGCA
* * * *
22970 TTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTACAAATTAATTCAGAAA
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
* * * * * * * **
23035 AATATGAAAAACGATATTAAAAACGTGACAAGTCCTTCAATCTTTTTGTAGTTAAATTATATATA
66 AAAATGAAAAATGATATTAGAAGCGT-AAAAATCCTTCAATATTTTTGGCGTTAAATTATATAT-
** * * * * ** *
23100 TATATGTTCACAAGTGTTTTGGA-CAAAAATTGAGGAAAGATATTTTTGGTCAGTTTTTGC-AAA
129 T-T-T-TT-ATGAGTATTGT-GATC-AAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAA
* * * * * * ** ***
23163 TATTAGCCGAAATTGTGTACGTTAGTCGAAATCACGGTTTTTGGTTAAAAGTGCGTTCCAAAGCC
188 TTTTAGCCAAAATCGTGTA----A-TC-AGAT----TTTTTTGGCTAAAAACGCGTTCCGGGGCC
* * * * * * * ***
23228 CCGGTTCAGTGTGGCATGATTTTTGGC-GCCGAGACTCCTTGAAAACATCTATATTAATCTGGCC
243 TCGG-TCAGTTTTGCATGATTTTT-ACTGCCAAGACTCCTTG-AAATATCTATATTCATCTAATC
*
23292 AAAATCTCAGCCACATTGGA
305 -AAATCTCAGCCACATTGCA
*** * * *
23312 TTT-AAGAATTTG-TAAAACAAGCATCTGAATCATGTTTCGATTTAATT-G-AA--AA-T-----
1 TTTAAAG-ATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA
* * * * * * * *** * *
23365 -AATAGGAAAAACGATATTAGAAGCATGAAAAGTCCTTCAATCTTTATGGAAATGAATTATATAA
65 AAAAATGAAAAATGATATTAGAAGCGT-AAAAATCCTTCAATATTTTTGGCGTTAAATTATATAT
* * * * * *
23429 TTTTTATTATTATTGTG-GCTAAAATTGAGGAAATAACT-TTT-GGGTGAATTTTTGTAAAATTT
129 TTTTTATGAGTATTGTGATC-AAAATTAAGGAAA-AA-TATTTCGGGTCAATTTTTGCAAAATTT
* * * * * * * *
23491 TAGCCAAAATTATGTAATAACATCACGGTTTTTTT-GCTAAAAACTCGTTCTGGGGCCCCAGCTA
191 TAGCCAAAA-T-CGT-GT-A-ATCA-GATTTTTTTGGCTAAAAACGCGTTCCGGGGCCTC-GGTC
** * * * * *
23555 AGTTTTGCATGATCTTTGGC-GCCAATACTCTTTGAGATATCCATATTCATCTAATCATATCTCA
249 AGTTTTGCATGAT-TTTTACTGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCA
* * *
23619 GCTAGATTGAA
313 GCCACATTGCA
* *
23630 TTTAAAAATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
* ** * * * * * * * * *
23695 AATATGAAAAACAATATTAAAAACGTGAAAAGT-CTCCAATCTTTTTGGAGTTGAATTATACATA
66 AAAATGAAAAATGATATTAGAAGCGT-AAAAATCCTTCAATATTTTTGGCGTTAAATTATATATT
* * * * *
23759 TTTTAGGAGTATTGTGGCTAAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGTAAAATTTTAG
130 TTTTATGAGTATTGT-GATCAAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAG
* * * * * * * *
23824 CCGAAATCGTATACGATCACG-GTTTTTGGGTTAAAAACGCGTTCCGGGCCCTGGGTCAGTTTTA
194 CCAAAATCGTGTA--ATCA-GATTTTTTTGGCTAAAAACGCGTTCCGGGGCCTCGGTCAGTTTTG
** * * * *
23888 CATGATTTTTGGTGGCAAAACTCCTTGAAATATCTATATTCATCTAACCAAATCTTAGCCACATT
256 CATGATTTTTACTGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATT
*
23953 GGA
321 GCA
* * * * * *
23956 TTTAAGGATTTGTTTTTATGAGCATTTGAATCATGTTTCGATTTAATTAGAAATTAATT-TGAAA
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
* * * * * * *
24020 AAAATAGGAAAAACGATATTAGAACCGTGAGAAGTCCTTCAATCTTTTTGGTGTTGAATTATATA
66 AAAAT--GAAAAATGATATTAGAAGCGT-AAAAATCCTTCAATATTTTTGGCGTTAAATTATATA
* * * *
24085 TTTTTTATGAGTATTGTGGCTAAAAATTGAGG-AAAATATTTCGGGTCAGTTTTTG-AAACATTT
128 TTTTTTATGAGTATTGT-GATCAAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAA-ATTT
* * * *
24148 TAGCCGAAATCGTGTACCATCACGATTTTTTTGGCGAAAAATGCGGTT-CAGGGCCTCGGGTCAG
191 TAGCCAAAATCGTGTA--ATCA-GATTTTTTTGGCTAAAAACGC-GTTCCGGGGCCTC-GGTCAG
* * ** * *
24212 TTTTGCATGATTTTTGGC-GCCAAGAATCCTCAAAATATATCTATATTCATCTAAGCAAATCTTA
251 TTTTGCATGATTTTT-ACTGCCAAGACTCCT-TGAA-ATATCTATATTCATCTAATCAAATCTCA
* *
24276 TCCACATTGTA
313 GCCACATTGCA
* ** * *
24287 TTTAAGGATTTGTTTTTACGAATATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAA
1 TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
* * * * *
24352 TAAAATAGAAAATATGATATTAGAAGCGTGAAAAAGGCTTTCAAT-TTTTT-TCATTGAATTATA
66 -AAAAT-GAAAA-ATGATATTAGAAGCGT-AAAAA-TCCTTCAATATTTTTGGCGTTAAATTATA
* * * * * *
24415 TATTTTTTATGAATAGTT-TCGCT-AGAAATTGAGTAAAAATCTCTCGGGTCAATTTTTGCAAAA
126 TATTTTTTATGAGTA-TTGT-GATCA-AAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAA
24478 TTT
188 TTT
24481 GAGCTGAAAT
Statistics
Matches: 2935, Mismatches: 605, Indels: 488
0.73 0.15 0.12
Matches are distributed among these distances:
282 7 0.00
283 4 0.00
284 10 0.00
285 7 0.00
286 15 0.01
287 1 0.00
288 2 0.00
289 1 0.00
290 4 0.00
291 1 0.00
292 2 0.00
293 8 0.00
294 24 0.01
295 37 0.01
296 11 0.00
297 9 0.00
298 2 0.00
301 3 0.00
302 3 0.00
303 3 0.00
304 3 0.00
306 8 0.00
307 27 0.01
314 35 0.01
315 7 0.00
317 4 0.00
318 27 0.01
319 229 0.08
320 94 0.03
321 12 0.00
322 10 0.00
323 6 0.00
324 30 0.01
325 41 0.01
326 128 0.04
327 111 0.04
328 244 0.08
329 216 0.07
330 365 0.12
331 163 0.06
332 88 0.03
333 301 0.10
334 101 0.03
335 32 0.01
336 167 0.06
337 74 0.03
338 36 0.01
339 4 0.00
340 85 0.03
341 72 0.02
342 34 0.01
343 4 0.00
344 5 0.00
345 13 0.00
346 2 0.00
348 1 0.00
350 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (323 bp):
TTTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
AAAATGAAAAATGATATTAGAAGCGTAAAAATCCTTCAATATTTTTGGCGTTAAATTATATATTT
TTTATGAGTATTGTGATCAAAATTAAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCC
AAAATCGTGTAATCAGATTTTTTTGGCTAAAAACGCGTTCCGGGGCCTCGGTCAGTTTTGCATGA
TTTTTACTGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCA
Found at i:22330 original size:319 final size:319
Alignment explanation
Indices: 21890--24351 Score: 1892
Period size: 319 Copynumber: 7.5 Consensus size: 319
21880 AATTTTAGGG
* * * * * * *
21890 TTTTGGCTAAAAACGTGTTCCAAGGCCCCGGGTCAGTTTTACATGAATTTTGGTGTCAAGACTCC
1 TTTTTGCTAAAAACGCGTTTCAGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAAGACTCC
* * * * *
21955 TTAAGATATCCATATTCATCTAATCAAATCTCAACCACATTGCATTTAACGATTTGTTTTTACGA
66 TTAAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGA
* * *
22020 GCATTTAAATCTTGTTTTGATTTAATTAGAAATTAATTCGGAAAAATTATGAAAAGCGCGAAAAG
131 GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATTATGAAAAGCGTGAAAAG
* * * * * * *
22085 TCC-TCGAATATTTTTGGCGTTAAATGATATATATTTTATGATTATTTTAGCCAAAAATTGATAA
196 TCCTTC-AATCTTTTTGGAGTTGAATTATATATATTTTATGAGTATTGTAGCCAAAAATTGAGAA
* * * * *
22149 AAAAAAATTAGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCAACACGGT
260 AAAATATTTGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * ** * **
22209 TTTTTGCTAAAAATGTGTTTCAGGGCCCCGACTCCGTTTTGCATGATTTTTGGCGTTGAGACTCC
1 TTTTTGCTAAAAACGCGTTTCAGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAAGACTCC
* *
22274 TTAAAATATCTATATCCATCTAATCAAATCTCAGCCACATTGAATTTAAAGATTTGTTTTTACGA
66 TTAAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGA
*
22339 GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAGTAGGAAAAATGATATTA
131 GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAA-T------TATG--A--A
* * * * * * * * ***
22404 GAAGCATAAAAAATCCTTCAATATTGTTTGCA-TTGAAGTATATTTTTTTTATGAGTATCACAGC
184 -AAGCGTGAAAAGTCCTTCAATCTT-TTTGGAGTTGAATTATATATATTTTATGAGTATTGTAGC
* * * * * ** * * *
22468 CAAAAAATGAGGAAATATCTTTCGTGTCAATTTTAACAAAATGTTAGCCGAAATCGTGTAATAAT
247 CAAAAATTGAGAAAAAATATTT-GGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAC
22533 CATCACGGT
311 CATCACGGT
* * * * * *
22542 TTTTAGCTAAAAACGTGTTCCAAGGCCCCGGGTCAGTTTTGCATGATTATTGGTGTCAAGACTCC
1 TTTTTGCTAAAAACGCGTTTCAGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAAGACTCC
* * * * *
22607 TTGAGATATCCATATTCATCTAATCAAATCTCAACCACATTGGATTTAACGATTTGTTTTTACGA
66 TTAAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGA
* * *
22672 GCATCTAAATCTTGTTTCGATTTAATTAAAAATTAATTCAGAAAAATTATGAAAAGTGTGAAAAG
131 GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATTATGAAAAGCGTGAAAAG
* * * * * *
22737 TCC-TCTAATATTTTTGGCA-TTAAATGATATATATTTCATGATTATTTTAGCC--AAA-T--GA
196 TCCTTC-AATCTTTTTGG-AGTTGAATTATATATATTTTATGAGTATTGTAGCCAAAAATTGAGA
* * * *
22795 AAAAATTTTTTGGTCAATTTTTGCAAAATTTTGGCCGAAATCGTGTACTAACCAACACGGTTTTT
259 AAAAATATTTGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG-----
22860 T
319 T
* ** *
22861 TTTTTGCTAAAAACGTGTTTCAGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGTCGAGACTCC
1 TTTTTGCTAAAAACGCGTTTCAGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAAGACTCC
* * * *
22926 TTAAAATATCTATATCCATCTAATCAAATCTCAGCTACATTGCATTTAAGGATTTGTTTTTACGA
66 TTAAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGA
* * *
22991 GCATCTGAATCTTGTTTCGATTTAATTACAAATTAATTCAGAAAAA-TATGAAAAACGATATTAA
131 GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATTATG-AAAA-G-------
* * * ** * *
23055 AAACGTGACAAGTCCTTCAATCTTTTTGTAGTTAAATTATATATATATATGTTCACAAGTGTTTT
187 ---CGTGAAAAGTCCTTCAATCTTTTTGGAGTTGAA-T-TATATATAT-T-TT-ATGAGTATTGT
* * * * * * * *
23120 GGACAAAAATTGAGGAAAGATATTTTTGGTCAGTTTTTGC-AAATATTAGCCGAAATTGTGTACG
244 AGCCAAAAATTGAGAAAAAATA-TTTGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC-
* *
23184 TTAGTCGAAATCACGGT
307 -TA-AC--CATCACGGT
* * ** * ** * * * * *
23201 TTTTGGTTAAAAGTGCGTTCCAAAGCCCCGGTTCAGTGTGGCATGATTTTTGGCGCCGAGACTCC
1 TTTTTGCTAAAAACGCGTTTCAGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAAGACTCC
* * *** ***
23266 TTGAAAACATCTATATTAATCTGGCCAAAATCTCAGCCACATTGGATTT-AAGAATTTG-TAAAA
66 TT-AAAATATCTATATTCATCTAATC-AAATCTCAGCCACATTGGATTTAAAG-ATTTGTTTTTA
* * * * * * * * *
23329 CAAGCATCTGAATCATGTTTCGATTTAATT-GAAAATAA-TAGGAAAAACGATATTAGAAGCATG
128 CGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAA--TTATGAAAAGCGTG
* ** * * * *
23392 AAAAGTCCTTCAATCTTTATGGAAATGAATTATATA-ATTTTTATTATTATTGT-GGCTAAAATT
191 AAAAGTCCTTCAATCTTTTTGGAGTTGAATTATATATA-TTTTATGAGTATTGTAGCCAAAAATT
* * * * ** *
23455 GAGGAAATAACT-TTTGGGTGAATTTTTGTAAAATTTTAGCCAAAATTATGTAATAA-CATCACG
255 GA-GAAA-AAATATTTGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACG
23518 GTT
318 G-T
* * * * * * * *
23521 TTTTTGCTAAAAACTCG-TTCTGGGGCCCCAGCTAAGTTTTGCATGATCTTTGGCGCCAATACTC
1 TTTTTGCTAAAAACGCGTTTC-AGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAAGACTC
* * * * * * * * *
23585 TTTGAGATATCCATATTCATCTAATCATATCTCAGCTAGATTGAATTTAAAAATTTGTTTTTACG
65 CTTAAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACG
* *
23650 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATATGAAAAACAATATTAA
130 AGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAA-AT---------TATGAA
* * * * * *
23715 AAACGTGAAAAGT-CTCCAATCTTTTTGGAGTTGAATTATACATATTTTAGGAGTATTGTGGCTA
184 AAGCGTGAAAAGTCCTTCAATCTTTTTGGAGTTGAATTATATATATTTTATGAGTATTGTAGCCA
* * *
23779 AAAATTGAGGAAAAATATTTCGGGTCAATTTTTGTAAAATTTTAGCCGAAATC--GTA-T-ACGA
249 AAAATTGAGAAAAAATATTT-GGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCA
23840 TCACGGT
313 TCACGGT
* * * * * * * *
23847 TTTTGGGTTAAAAACGCG-TTCCGGGCCCTGGGTCAGTTTTACATGATTTTTGGTGGCAAAACTC
1 TTTT-TGCTAAAAACGCGTTTCAGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAAGACTC
* * * * *
23911 CTTGAAATATCTATATTCATCTAACCAAATCTTAGCCACATTGGATTTAAGGATTTGTTTTTATG
65 CTTAAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACG
* * * * * * *
23976 AGCATTTGAATCATGTTTCGATTTAATTAGAAATTAATTTGAAAAAAATAGGAAAAACGATATTA
130 AGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATTATG----A--A-A--A
* * * * *
24041 GAACCGTGAGAAGTCCTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTGTGGCT
186 G---CGTGAAAAGTCCTTCAATCTTTTTGGAGTTGAATTATATATATTTTATGAGTATTGTAGCC
* *
24106 AAAAATTGAG-GAAAATATTTCGGGTCAGTTTTTG-AAACATTTTAGCCGAAATCGTG---T-AC
248 AAAAATTGAGAAAAAATATTT-GGGTCAATTTTTGCAAA-ATTTTAGCCGAAATCGTGTACTAAC
*
24165 CATCACGATT
311 CATCACG-GT
* * * * * *
24175 TTTTTGGCGAAAAATGCGGTTCAGGGCCTCGGGTCAGTTTTGCATGATTTTTGGCGCCAAGAATC
1 TTTTT-GCTAAAAACGCGTTTCAGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAAGACTC
* * * * * *
24240 CTCAAAATATATCTATATTCATCTAAGCAAATCTTATCCACATTGTATTTAAGGATTTGTTTTTA
65 CT-TAAA-ATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTA
** * *
24305 CGAATATCTAAATCTTGTTTCGATTTAATCAGAAATTAATTTGGAAA
128 CGAGCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAA
24352 TAAAATAGAA
Statistics
Matches: 1711, Mismatches: 325, Indels: 202
0.76 0.15 0.09
Matches are distributed among these distances:
314 41 0.02
315 11 0.01
317 1 0.00
318 30 0.02
319 377 0.22
320 101 0.06
321 6 0.00
322 5 0.00
323 4 0.00
324 25 0.01
325 35 0.02
326 137 0.08
327 81 0.05
328 82 0.05
329 86 0.05
330 107 0.06
331 98 0.06
332 68 0.04
333 202 0.12
334 1 0.00
335 9 0.01
337 3 0.00
338 1 0.00
339 7 0.00
340 88 0.05
341 68 0.04
342 30 0.02
343 1 0.00
345 6 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (319 bp):
TTTTTGCTAAAAACGCGTTTCAGGGCCCCGGGTCAGTTTTGCATGATTTTTGGCGTCAAGACTCC
TTAAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGA
GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATTATGAAAAGCGTGAAAAG
TCCTTCAATCTTTTTGGAGTTGAATTATATATATTTTATGAGTATTGTAGCCAAAAATTGAGAAA
AAATATTTGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGT
Found at i:24865 original size:2 final size:2
Alignment explanation
Indices: 24858--24887 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24848 ACTCCTTAAA
24858 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
24888 TCATCTAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25513 original size:332 final size:332
Alignment explanation
Indices: 24883--25761 Score: 1046
Period size: 332 Copynumber: 2.7 Consensus size: 332
24873 TATATATATA
* * * * * **
24883 TATATTCATCTAACCAAATCTCATCCACATTGTATTTAAAGATTTGTTTTTACGAGTATCCAAAT
1 TATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
* * * * *
24948 GTTATTTCGATTTAATTAGAAATTATTTTAGAAATAAAATAGGAAAAACGATATTAGAAGCGTGA
66 CTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAAAATAGGAAAAACAATATTAGAAGCGT--
* * * * * * *
25013 AAAAAACTTTC-ATTTTTTTGGTGTTAAATTATATATTTTTTATGAATA-TTTCGCTATAAATTG
129 AAAAATCCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTATGAATATTTTAGCCAAAAATTG
25076 AGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTATACTAACCATCACGGT
194 A-GAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTATACTAACCATCACGGT
*
25141 TTTTGGCTAAAAACGCGTTTCGAGACCCGACTCAGTTTTGCATGCTTTTTGG-TACCAAGACTCC
258 TTTTGGCTAAAAACGCGTTTCGAGACCCGACTCAGTTTTGCATGATTTTTGGCT-CCAAGACTCC
25205 TTGAAACAT-T
322 TTGAAACATCT
* * *
25215 TATATTCATCTAATCAAATCTCAGCCACATTGGAATTAAGGATTTGTTTTTGCGAGCATCTGAAT
1 TATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
* * * * *
25280 CTTGTTTCGATTTAATTATAAATTAATTCAGAATAAAAAAAAGGAAAAACAATATTAGAAGTGTT
66 CTTGTTTCGATTTAATTAGAAATTAATTTAGAA-AAAAAATAGGAAAAACAATATTAGAAGCGTA
* *
25345 AAAATCCCTTCAATTTTTTTGACGTCGAATTATATATTTTTTATGAATATTTTAGCCAAAAATTG
130 AAAAT-CCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTATGAATATTTTAGCCAAAAATTG
* * * ***
25410 AGAAAATATCTTTTGGGTCAATTTTTGCAAAATTTTAGTCGAAATCGTGTA-T-GTTA-CACGGT
194 AGAAAA-ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTATACTAACCATCACGGT
* * * * ** *
25472 TTTTTGCTAAAAACGCG-TTCTGTGGCCACGGCTTTGTTTTGCATGATTTTTGGCTCCGAGACTC
258 TTTTGGCTAAAAACGCGTTTC-GAGACC-CGACTCAGTTTTGCATGATTTTTGGCTCCAAGACTC
*
25536 CTTGAAATATCT
321 CTTGAAACATCT
* * * *
25548 T-TATTCATCTAATCAAATCTCAACTACATTGGATTTAAGAATTT-CTTTTACGTGCATCTGAAT
1 TATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
* * *
25611 CTTGTTTCGATTTAATTAGAAATTAATTTAG--AAGAAATATGAAAAACAATATTAAAAGCGTGA
66 CTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAAAATAGGAAAAACAATATTAGAAGCGT-A
* * * * * * *
25674 AAAGTTCTTCAATATTTTTGGCGTTGAATTATATATATATTATGAGTATTTTTGCCAAAAATTGA
130 AAAATCCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTATGAATATTTTAGCCAAAAATTGA
25739 GAAGAAATCTTTCGGGTC-ATTTT
195 GAA-AAATCTTTCGGGTCAATTTT
25762 ACCATCATGG
Statistics
Matches: 468, Mismatches: 68, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
327 5 0.01
328 91 0.19
329 6 0.01
330 3 0.01
331 75 0.16
332 166 0.35
333 68 0.15
334 54 0.12
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39
Consensus pattern (332 bp):
TATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
CTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAAAATAGGAAAAACAATATTAGAAGCGTAA
AAATCCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTATGAATATTTTAGCCAAAAATTGAG
AAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTATACTAACCATCACGGTTTT
TGGCTAAAAACGCGTTTCGAGACCCGACTCAGTTTTGCATGATTTTTGGCTCCAAGACTCCTTGA
AACATCT
Found at i:26701 original size:30 final size:30
Alignment explanation
Indices: 26665--26773 Score: 191
Period size: 30 Copynumber: 3.6 Consensus size: 30
26655 CCACCCGTCA
26665 CAGTGCCTCCAGTGACTGTTCCTAAACTCC
1 CAGTGCCTCCAGTGACTGTTCCTAAACTCC
26695 CAGTGCCTCCAGTGACTGTTCCTAAACTCC
1 CAGTGCCTCCAGTGACTGTTCCTAAACTCC
* *
26725 CGGTGCCTCCAGTGACTGTTCCTAAACTTC
1 CAGTGCCTCCAGTGACTGTTCCTAAACTCC
*
26755 CGGTGCCTCCAGTGACTGT
1 CAGTGCCTCCAGTGACTGT
26774 GCCTCCCGTG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 77 1.00
ACGTcount: A:0.17, C:0.35, G:0.20, T:0.28
Consensus pattern (30 bp):
CAGTGCCTCCAGTGACTGTTCCTAAACTCC
Found at i:26777 original size:15 final size:15
Alignment explanation
Indices: 26757--26846 Score: 81
Period size: 15 Copynumber: 6.0 Consensus size: 15
26747 TAAACTTCCG
26757 GTGCCTCCAGTGACT
1 GTGCCTCCAGTGACT
*
26772 GTGCCTCCCGTGACT
1 GTGCCTCCAGTGACT
* ** * ** *
26787 GTTCCTAAACTTCCG
1 GTGCCTCCAGTGACT
*
26802 GTACCTCCAGTGACT
1 GTGCCTCCAGTGACT
* *
26817 GTTCCTCCAGTGACG
1 GTGCCTCCAGTGACT
26832 GTGCCTCCAGTGACT
1 GTGCCTCCAGTGACT
26847 AAACCACCAA
Statistics
Matches: 55, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 55 1.00
ACGTcount: A:0.14, C:0.34, G:0.23, T:0.28
Consensus pattern (15 bp):
GTGCCTCCAGTGACT
Found at i:26787 original size:75 final size:75
Alignment explanation
Indices: 26697--26846 Score: 228
Period size: 75 Copynumber: 2.0 Consensus size: 75
26687 TAAACTCCCA
* **
26697 GTGCCTCCAGTGACTGTTCCTAAACTCCCGGTGCCTCCAGTGACTGTTCCTAAACTTCCGGTGCC
1 GTGCCTCCAGTGACTGTTCCTAAACTCCCGGTACCTCCAGTGACTGTTCCTAAACTGACGGTGCC
26762 TCCAGTGACT
66 TCCAGTGACT
* * ** *
26772 GTGCCTCCCGTGACTGTTCCTAAACTTCCGGTACCTCCAGTGACTGTTCCTCCAGTGACGGTGCC
1 GTGCCTCCAGTGACTGTTCCTAAACTCCCGGTACCTCCAGTGACTGTTCCTAAACTGACGGTGCC
26837 TCCAGTGACT
66 TCCAGTGACT
26847 AAACCACCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.15, C:0.35, G:0.22, T:0.28
Consensus pattern (75 bp):
GTGCCTCCAGTGACTGTTCCTAAACTCCCGGTACCTCCAGTGACTGTTCCTAAACTGACGGTGCC
TCCAGTGACT
Found at i:26791 original size:45 final size:45
Alignment explanation
Indices: 26727--26830 Score: 181
Period size: 45 Copynumber: 2.3 Consensus size: 45
26717 TAAACTCCCG
*
26727 GTGCCTCCAGTGACTGTTCCTAAACTTCCGGTGCCTCCAGTGACT
1 GTGCCTCCAGTGACTGTTCCTAAACTTCCGGTACCTCCAGTGACT
*
26772 GTGCCTCCCGTGACTGTTCCTAAACTTCCGGTACCTCCAGTGACT
1 GTGCCTCCAGTGACTGTTCCTAAACTTCCGGTACCTCCAGTGACT
*
26817 GTTCCTCCAGTGAC
1 GTGCCTCCAGTGAC
26831 GGTGCCTCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.15, C:0.35, G:0.21, T:0.29
Consensus pattern (45 bp):
GTGCCTCCAGTGACTGTTCCTAAACTTCCGGTACCTCCAGTGACT
Found at i:26839 original size:30 final size:30
Alignment explanation
Indices: 26760--26846 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 30
26750 ACTTCCGGTG
* *
26760 CCTCCAGTGACTGTGCCTCCCGTGACTGTT
1 CCTCCAGTGACGGTGCCTCCAGTGACTGTT
** * ** *
26790 CCTAAACTTCCGGTACCTCCAGTGACTGTT
1 CCTCCAGTGACGGTGCCTCCAGTGACTGTT
26820 CCTCCAGTGACGGTGCCTCCAGTGACT
1 CCTCCAGTGACGGTGCCTCCAGTGACT
26847 AAACCACCAA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.15, C:0.36, G:0.22, T:0.28
Consensus pattern (30 bp):
CCTCCAGTGACGGTGCCTCCAGTGACTGTT
Found at i:32183 original size:331 final size:330
Alignment explanation
Indices: 29833--34053 Score: 4052
Period size: 331 Copynumber: 12.8 Consensus size: 330
29823 CCCACCTCAA
** * * * *
29833 TTTTGCATGATTTTTTACTCCGAGACTACTTGAAATATCTATATTCATCTAATCAAATCTCAACC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * * * * *
29898 ACATAGGACTTAAGGATTTGTTTTTACGAGCATCCGTATCTTGTTTCGATTTAATTAGAAGTTAA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATTAA
* * * * ** ** * *
29963 TTCAGAAAAATAGGAAAAACAATATTAGAAA-CATCAAAAACCCTTTAATCTTTCTGGCGTTGAA
131 TTCAGAAAAATATGAAAAACGATATTA-AAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGAA
* * * * * *
30027 --ATATATATTTCATGAGTATTTTAGTCAATAATCGA-GAAAA-TATCTTTTGGATCAA-TTTTT
195 TTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACT-T-TTTCGGGT-AATTTTTT
* * * * ** * * *
30087 ACAAAATTTTAGCCGAAATCATGTAATAACCATCACAATATTTGGCTAAAAAAGCGTTTTG-GGA
257 GCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGG-
* *
30151 CACCGACTCAG
321 C-CCGGCTTAG
* * * * * *
30162 TTTTGCATGATTTTTGG-GCCAAGACTCATTGAGATATCCACATTCATCTAATCAAATCTTAGCT
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * * *
30226 ACATTGGATTTAAGAATTTGTTTTTACGAGCATCTA-AATATTGTTTCGATTTAATTAGAATTTA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATC-AGAATCTTATTTCGATTTAATTAGAAATTA
** * *
30290 ATTCAGAAAAAATATGAAAGGCGATATTAAAAGCGTGAAAAGTCATCCAATCTTTTTGGTGTTAA
130 ATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGA
* * * * * **** * *
30355 ATTATATATATTTCATAAATATTTTATCCAAAAATTGAGAAAAAAAAATTCAGAGTCATTTTTTG
194 ATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACTTTTTC-GGGTAATTTTTTG
* * * *
30420 CAAAATTTTAGCCAAAATCGTATACTAATCATCATGGTCTTTT-GCTAAAAAACGCGTTTCGGGG
258 CAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGT-TTTTGGCT-AAAAACGCGTTTCGAGG
* *
30484 CCCCCGCTCAG
321 -CCCGGCTTAG
* ** * *
30495 TTTTGCAAGATTTTTGATGTCAAGACTCCTTGAAATATCTATATTCATCTAAT-AAACTCTTAGC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAA-TCTCAGC
* * * * * **
30559 CATATTACATTGAAGGATTTGTTTTTAAGAGCATCTGAATCTCGTTTCGATTTAATTAGAAATTA
65 CACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATTA
** * ** * *
30624 ATTTTGAAAAAATATGAAAAACGATATTAAAAGCGCGAAAACCCCTTCAATCTTTTTGGTATTGA
130 ATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGA
* * * * * *
30689 ATTATATATTTTTTATGAGTAATGTGGCTAAAAATTGAGG-AAACATCTTTT-GGATCAA-TTTT
194 ATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAC-T-TTTTCGGGT-AATTTTT
* * * * * * *
30751 TACAAAATTTTAGCCAAAATCGTGTAATAATCATTACAGTTTTTGGCCAAAAACGCGTTCTGGA-
256 TGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT-TCGAG
30815 GCCCGG-TTCAG
320 GCCCGGCTT-AG
* * * *
30826 TTTTGAATGATTTTTTGCGCCGAGACTCCTTGAAATATCTATATTCATCTAACCAAA--T---CC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * * * *
30886 -CA--GC---T----A-TT-TTTTTACGAGTAT-ATGAATCATGTTTTGATTTAATCAAAAATTA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCA-GAATCTTATTTCGATTTAATTAGAAATTA
* ** * * *
30938 ATTCAGAAAAATTAGGAAAAACGATATTAAAAGCGTGAAAAAACACTTCAATCTTTTGGGAGATT
130 ATTCAGAAAAA-TATGAAAAACGATATTAAAAGCGTGAAAAGTC-CTCCAATCTTTTTGGTG-TT
* * * * *
31003 -AATTATATATTTTTTATAAGTATTGTGGCTAAAAATTGAGGAAGAA-TATTTTC-GGTCAA-TT
192 GAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAA-AACT-TTTTCGGGT-AATTT
* * * ** ***** ** *
31064 TTTGCAAAATATTAGGCAAAATCGTGTACCATCACGTTTTTTTTTTTTTTTTCTAAAAACGCATT
254 TTTGCAAAATTTTAGCCAAAATCGTGTA-C-TAAC--CATCACGGTTTTTGGCTAAAAACGCGTT
*
31129 TCGGGGCCCCAGG-TTAG
315 TCGAGG-CCC-GGCTTAG
* *
31146 TTTTGCAT-ATTTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAAC
1 TTTTGCATGA-TTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGC
* * * *
31210 CACATTGGATTTAAGGATTTGTTTTTACGAGCATTTA-AATCTTGTTTCAATTTAATTAGAAATT
65 CACATTGCATTTAAGGATTTGTTTTTACGAGCA-TCAGAATCTTATTTCGATTTAATTAGAAATT
* * ** * ** * * ***
31274 AATTCGGAAAAAATAGGAAAAACGATATTATGAGCGTAAAAAACCCTTCAAT-ATTTTCACGTTG
129 AATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTG
* * * *
31338 AGTTATATAATTTTTTATGAATATTTTAGCCAAAAATTGA-GAAAA-TATCTTTCGAGTCAATTT
193 AATTATAT-ATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACT-T-TTTCGGGT-AATTT
* * * * *
31401 TTT-CAAAATGTTAGCCAAAATCGTATAATAATCATCACGGATTTTTTTTTTTTGCTAAAAACGC
254 TTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGG-------TTTTTGGCTAAAAACGC
* * * * * *
31465 ATCTCTAGGCCCGGGTCAA
312 GTTTCGAGGCCCGGCTTAG
* * * * *
31484 TTTTGCATGATTTTTGGTGTCAAGACTCCTTG-AGTATCCATATTCATCTAATCAAATCTCAGTC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * *
31548 ACCTTGCTTTTAAGGA-------TTATGAGCAT-ATGAATCTTATTTCGATTTAATTACAAATTA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCA-GAATCTTATTTCGATTTAATTAGAAATTA
* * * * * * ** *
31605 ATTCAAAAAAAATATGAAAAACGATATGAAATGCATGAAAAGTCCTCCAACCATTTTGGCATTAA
130 ATTC-AGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGA
* * * * **** * *
31670 ATTATATAAATTTCATGAGTATTTTAGGCAAAAATTGAGAAAAAAAAAATTCTGGATCATTTTTT
194 ATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAG-GAAAACTTTTTC-GGGTAATTTTTT
* * * ***** **
31735 GCAAAAATTTAGCCAAAATCGTGTA-TCACGGCTTTTTTTTTTTTTTCTAAAAAAACGCGTTTC-
257 GCAAAATTTTAGCCAAAATCGTGTACTAAC--CATCACGGTTTTTGGCT--AAAAACGCGTTTCG
* *
31798 AGGTCCCCTGCTCAG
318 AGG--CCCGGCTTAG
** * *
31813 TTTTGCATGATTTTTTGGCATCAAAACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGT
1 TTTTGCATGA-TTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGC
*
31878 CACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGGAATTA
65 CACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATTA
* * * *
31943 ATTCAGAAAAATATGAAAAACAATATTAAAAGCATGAAAAGTCCTCCAATATTTTTGGTGTTAAA
130 ATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGAA
* *
32008 TTATATATATTTTATGAGTACTTTAGCCAAAAATTAAGGAAAACTTTTTCGGGTAATTTTTTGCA
195 TTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCA
**
32073 AAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGGCCCG
260 AAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGGCCCG
32138 GACTTAG
325 G-CTTAG
32145 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
*
32210 ACATTGCATTTAAGGATTTGTTTTTACGAGAATCAGAATCTTATTTCGATTTAATTAGAAATTAA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATTAA
* * * **** **
32275 TTCAGAAAAATATGAAAAACAATATTAAAAGCATGAAAAGTCCTCCAATATTAAAAG-CATGAAT
131 TTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGAAT
* *
32339 TATATATATTTTATGAGTACTTTAGCAAAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCA
196 TATATATATTTTATGAGTATTTTAGC-CAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCA
** * *
32404 AAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGGGCCCG
260 AAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGGCCCG
32469 GACTTAG
325 G-CTTAG
* * *
32476 TTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTTTATTCATATAATCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* *
32541 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGGAATTAA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATTAA
* * * *
32606 TTCAGAAAAATATGAAAAACAATATTAAAAGCATGAAAAGTCCTCCAATATTTTT-GTGTTAAAT
131 TTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGAAT
* *
32670 TATATATATATTATGAGTAATTTAGCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCAA
196 TATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCAA
** * * * * *
32735 AATTTTAGCTGAAATCGTGTATTAACCATCACTGTTTTTGGCTAAAAACGCTTTTCGGGGCCTTG
261 AATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGGCC-CG
*
32800 ACTTAG
325 GCTTAG
* * *
32806 TTTTGCATGATTTTTGACGCCAAGACTCCTTGAAATATCTATACTAATCTAATCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* *
32871 ACATTGAATTTAAGGATTTGTTTTTACGAGCATCTA-AATTTTATTTCGATTTAATTAGAAATTA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATC-AGAATCTTATTTCGATTTAATTAGAAATTA
* * *
32935 ATTCAGAAAAATATGGAAAACGATATTAAAAACGTGAAAAGTCCTCCAATCTTTTTGGTGTTAAA
130 ATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGAA
* *
33000 TTATATATATTTTATGAGTACTTTACCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCA
195 TTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCA
* *
33065 AAATTTTAGCTAAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAACGCGTTTC-AGGGCCC
260 AAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGA-GGCCC
33129 GGACTTAG
324 GG-CTTAG
* * *
33137 TTTTGCATGATTTTTGGCGCCAAGACTCCTTCAAATATATATACTCATCTAATCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * *
33202 ACATTGAATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATTAA
* * *
33267 TTCAGAAAAATATGGAAAACGATATTAAAAACGTGAAAAGTCCTCCAATCTTTTTGGAGTTGAAT
131 TTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGAAT
* * * * * * * * *
33332 TATATATATATTATGAGTATTGTGGCTAAAAAATGAGTTAAAA-TATTTCGGTTTAA-TTTTTGT
196 TATATATATTTTATGAGTATTTTAGCCAAAAATTGAG-GAAAACTTTTTCGG-GTAATTTTTTGC
** * * *
33395 AAAATTTTAGCTGAAATCGTG---T-ACCATCGCGGTTTTTTAGCTAAAAACGCATTTC-AGGGC
259 AAAATTTTAGCCAAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTTCGA-GG-
* *
33455 CCCGAGATCAG
321 CCCG-GCTTAG
* * * * * *
33466 TTTTGCATGATTCTTTTTGTGGCAAAACTCCTTGAAATATCTATATTCATCTAACCTAATCTCAG
1 TTTTGCATGA-T-TTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAG
* * ** *
33531 CCACATTGGATTTAAGGATTTGTTTTTACAAGCATTTGAACCTTA-TTCGATTTAATTAGAAATT
64 CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATT
* * * * * * * *
33595 AATTCAAAAAAATAGGAAAAACAATATTAGAAGCGTTAAAAGCCCT-CAATCTTTTTGATGTCGA
129 AATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGA
* * * * * *
33659 ATTATATAT-TTTTAATGATTATTTTTGCCAAAAATTGAGG-AAACATCTTTCAGGTCACTTTTT
194 ATTATATATATTTT-ATGAGTATTTTAGCCAAAAATTGAGGAAAAC-TTTTTCGGGTAATTTTTT
* * * * * *
33722 GCAAAATTTTAGCCGAAATCGTGTGCTAACCATCACAGTTTTTTTGCTAAAAACGC-ATTCTGGG
257 GCAAAATTTTAGCCAAAATCGTGTACTAACCATCAC-GGTTTTTGGCTAAAAACGCGTTTC-GAG
33786 GCCACGGCTCT-G
320 GCC-CGGCT-TAG
* * * * * *
33798 TTTTGCATGATTTTTTGCGTCGAGACTCCTTGAAATATCTTTATTCATCTGATCAAATCTTAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * * * * *
33863 ACATTGGATATAAGGATTTGTTTTTACGTGCATCTGAATCTTGTTTCAATTTAATTATAAATTAA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATTAA
* **
33928 ATCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCATTGAA
131 TTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGAA
* * * * * * * *
33993 TTATATGTATTTTATAAGTATTTTGGCCAAAAAATGAGGAAAAATCTTTCGAGTCATTTTT
195 TTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTT
34054 ATCATCATGG
Statistics
Matches: 3268, Mismatches: 492, Indels: 260
0.81 0.12 0.06
Matches are distributed among these distances:
313 5 0.00
314 67 0.02
315 92 0.03
316 4 0.00
317 4 0.00
318 2 0.00
319 20 0.01
320 57 0.02
321 4 0.00
322 1 0.00
323 1 0.00
325 3 0.00
326 12 0.00
327 14 0.00
328 145 0.04
329 168 0.05
330 559 0.17
331 1124 0.34
332 178 0.05
333 177 0.05
334 204 0.06
335 53 0.02
336 71 0.02
337 200 0.06
338 78 0.02
339 25 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (330 bp):
TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
ACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATTAA
TTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGTGTTGAAT
TATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCAA
AATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGGCCCGG
CTTAG
Found at i:32869 original size:661 final size:654
Alignment explanation
Indices: 29833--34053 Score: 4087
Period size: 661 Copynumber: 6.4 Consensus size: 654
29823 CCCACCTCAA
** * * * *
29833 TTTTGCATGATTTTTTACTCCGAGACTACTTGAAATATCTATATTCATCTAATCAAATCTCAACC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * * * *
29898 ACATAGGACTTAAGGATTTGTTTTTACGAGCATCCGTATCTTGTTTCGATTTAATTAGAAGTTAA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * * * ** ** * *
29963 TTCAGAAAAATAGGAAAAACAATATTAGAAA-CATCAAAAACCCTTTAATCTTTCTGGCGTTGAA
131 TTCAGAAAAATATGAAAAACGATATTA-AAAGCGTGAAAAGTCCTCCAATCTTT-TTGTGTTGAA
* * * * * * * *
30027 --ATATATATTTCATGAGTATTTTAGTCAATAATCGA-GAAAATATCTTTTGGATCAA-TTTTTA
194 TTATATATATTTTATGAGTAATTTAGCCAAAAATTGAGGAAAAT-T-TTTCGGGT-AATTTTTTG
* * * * * * *
30088 CAAAATTTTAGCCGAAATCATGTAATAACCATCACAATATTTGGCTAAAAAAGCGTTTTGGGACA
256 CAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAACGCATTTCGGGGC-
* * * * *
30153 CCGACTCAGTTTTGCATGATTTTTGGGCCAAGACTCATTGAGATATCCACATTCATCTAATCAAA
320 CCGACTCAGTTTTGCATGATTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAA
* * * * * *
30218 TCTTAGCTACATTGGATTTAAGAATTTGTTTTTACGAGCATCTA-AATATTGTTTCGATTTAATT
385 TCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATC-AGAATCTTATTTCGATTTAATT
* ** *
30282 AGAATTTAATTCAGAAAAAATATGAAAGGCGATATTAAAAGCGTGAAAAGTCATCCAATCTTTTT
449 AGAAATTAATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATC-TTTT
* * * * * * **** * *
30347 GGTGTTAAATTATATATATTTCATAAATATTTTATCCAAAAATTGAGAAAAAAAAATTCAGAGTC
512 -G-GATAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACTTTTTC-GGGTA
* * * *
30412 ATTTTTTGCAAAATTTTAGCCAAAATCGTATACTAATCATCATGGTCTTTTGCTAAAAAACGCGT
574 ATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTTGCT-AAAAACGCGT
* *
30477 TTCGGGGCCCCCGCTCAG
638 TTCGGGG-CCCGGCTTAG
* ** * *
30495 TTTTGCAAGATTTTTGATGTCAAGACTCCTTGAAATATCTATATTCATCTAAT-AAACTCTTAGC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAA-TCTCAGC
* * * * *
30559 CATATTACATTGAAGGATTTGTTTTTAAGAGCATCTGAATCTCGTTTCGATTTAATTAGAAATTA
65 CACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
** * ** * *
30624 ATTTTGAAAAAATATGAAAAACGATATTAAAAGCGCGAAAACCCCTTCAATCTTTTTGGTATTGA
130 ATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTT-GTGTTGA
* * * * *
30689 ATTATATATTTTTTATGAGTAATGTGGCTAAAAATTGAGGAAACATCTTTT-GGATCAA-TTTTT
193 ATTATATATATTTTATGAGTAATTTAGCCAAAAATTGAGGAAA-AT-TTTTCGGGT-AATTTTTT
* * * * * * *
30752 ACAAAATTTTAGCCAAAATCGTGTAATAATCATTACAGTTTTTGGCCAAAAACGC-GTTCTGGAG
255 GCAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAACGCATTTC-GGGG
** * * *
30816 CCCGGTTCAGTTTTGAATGATTTTTTGCGCCGAGACTCCTTGAAATATCTATATTCATCTAACCA
319 CCCGACTCAGTTTTGCATGA-TTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCA
* * * *
30881 AA--T---CC-CA--GC---T----A-TT-TTTTTACGAGTAT-ATGAATCATGTTTTGATTTAA
383 AATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCA-GAATCTTATTTCGATTTAA
* * * ** *
30928 TCAAAAATTAATTCAGAAAAATTAGGAAAAACGATATTAAAAGCGTGAAAAAACACTTCAATCTT
447 TTAGAAATTAATTCAGAAAAA-TATGAAAAACGATATTAAAAGCGTGAAAAGTC-CTCCAATCTT
* * * * * *
30993 TTGGGAGATTAATTATATATTTTTTATAAGTATTGTGGCTAAAAATTGAGGAAGAA-TATTTTC-
510 TT--G-GATAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAA-AACT-TTTTCG
* * * ** ***** *
31056 GGTCAA-TTTTTGCAAAATATTAGGCAAAATCGTGTACCATCACGTTTTTTTTTTTTTTTTCTAA
570 GGT-AATTTTTTGCAAAATTTTAGCCAAAATCGTGTA-C-TAAC--CATCACGGTTTTTTGCTAA
*
31120 AAACGCATTTCGGGGCCCCAGG-TTAG
630 AAACGCGTTTCGGGG-CCC-GGCTTAG
* *
31146 TTTTGCAT-ATTTTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAAC
1 TTTTGCATGA-TTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGC
* * * *
31210 CACATTGGATTTAAGGATTTGTTTTTACGAGCATTTAAATCTTGTTTCAATTTAATTAGAAATTA
65 CACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
* * ** * ** * * *** *
31275 ATTCGGAAAAAATAGGAAAAACGATATTATGAGCGTAAAAAACCCTTCAATATTTTCACGTTGAG
130 ATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGTGTTGAA
* * * *
31340 TTATATAATTTTTTATGAATATTTTAGCCAAAAATTGA-GAAAATATCTTTCGAGTCAATTTTTT
194 TTATAT-ATATTTTATGAGTAATTTAGCCAAAAATTGAGGAAAAT-T-TTTCGGGT-AATTTTTT
* * * * * * *
31404 -CAAAATGTTAGCCAAAATCGTATAATAATCATCACGGATTTTTTTTTTTTGCTAAAAACGCATC
255 GCAAAATTTTAGCCGAAATCGTGTAATAACCATCAC--A-----GTTTTTGGCTAAAAACGCATT
** ** * * * * *
31468 TCTAGGCCCGGGTCAATTTTGCATGATTTTTGGTGTCAAGACTCCTTG-AGTATCCATATTCATC
313 TCGGGGCCCGACTCAGTTTTGCATGATTTTT-GCGCCAAGACTCCTTGAAATATCTATATTCATC
* * * *
31532 TAATCAAATCTCAGTCACCTTGCTTTTAAGGA-------TTATGAGCAT-ATGAATCTTATTTCG
377 TAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCA-GAATCTTATTTCG
* * * * *
31589 ATTTAATTACAAATTAATTCAAAAAAAATATGAAAAACGATATGAAATGCATGAAAAGTCCTCCA
441 ATTTAATTAGAAATTAATTC-AGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCA
* * * * * ****
31654 ACCATTTTGGCATTAAATTATATAAATTTCATGAGTATTTTAGGCAAAAATTGAGAAAAAAAAAA
505 ATC-TTTTGG-A-TAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAG-GAAAACTTT
* * * * * ***** *
31719 TTCTGGATCATTTTTTGCAAAAATTTAGCCAAAATCGTGTA-TCACGGCTTTTTTTTTTTTTTCT
566 TTC-GGGTAATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAC--CATCACGGTTTTTTGCT
** * *
31783 AAAAAAACGCGTTTCAGGTCCCCTGCTCAG
628 --AAAAACGCGTTTC-GGGGCCCGGCTTAG
** * *
31813 TTTTGCATGATTTTTTGGCATCAAAACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGT
1 TTTTGCATGA-TTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGC
* * *
31878 CACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGGAATTA
65 CACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
* * * *
31943 ATTCAGAAAAATATGAAAAACAATATTAAAAGCATGAAAAGTCCTCCAATATTTTTGGTGTTAAA
130 ATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTT-GTGTTGAA
* *
32008 TTATATATATTTTATGAGTACTTTAGCCAAAAATTAAGGAAAACTTTTTCGGGTAATTTTTTGCA
194 TTATATATATTTTATGAGTAATTTAGCCAAAAATTGAGGAAAA-TTTTTCGGGTAATTTTTTGCA
* * * * *
32073 AAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGGCCCG
258 AAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAACGCATTTCGGGGCCC-
*
32138 GACTTAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAAT
322 GACTCAGTTTTGCATGATTTTT-GCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAAT
*
32203 CTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGAATCAGAATCTTATTTCGATTTAATTAG
386 CTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAG
* * * ** *
32268 AAATTAATTCAGAAAAATATGAAAAACAATATTAAAAGCATGAAAAGTCCTCCAATATTAAAAGC
451 AAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTT--TTGG
* * *
32333 ATGAATTATATATATTTTATGAGTACTTTAGCAAAAAAATTGAGGAAAACTTTTTCGGGTAATTT
514 ATAAATTATATATATTTTATGAGTATTTTAGC-CAAAAATTGAGGAAAACTTTTTCGGGTAATTT
**
32398 TTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGG
578 TTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGG
32463 GGCCCGGACTTAG
643 GGCCCGG-CTTAG
* * *
32476 TTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTTTATTCATATAATCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* *
32541 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGGAATTAA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * * *
32606 TTCAGAAAAATATGAAAAACAATATTAAAAGCATGAAAAGTCCTCCAATATTTTTGTGTTAAATT
131 TTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGTGTTGAATT
*
32671 ATATATATATTATGAGTAATTTAGCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCAAA
196 ATATATATTTTATGAGTAATTTAGCCAAAAATTGAGGAAAA-TTTTTCGGGTAATTTTTTGCAAA
* * * * *
32736 ATTTTAGCTGAAATCGTGTATTAACCATCACTGTTTTTGGCTAAAAACGCTTTTCGGGGCCTTGA
260 ATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAACGCATTTCGGGGCC-CGA
* * *
32801 CTTAGTTTTGCATGATTTTTGACGCCAAGACTCCTTGAAATATCTATACTAATCTAATCAAATCT
324 CTCAGTTTTGCATGATTTTTG-CGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCT
* *
32866 CAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTA-AATTTTATTTCGATTTAATTAGA
388 CAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATC-AGAATCTTATTTCGATTTAATTAGA
* *
32930 AATTAATTCAGAAAAATATGGAAAACGATATTAAAAACGTGAAAAGTCCTCCAATCTTTTTGGTG
452 AATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATC-TTTT-G-G
* * *
32995 TTAAATTATATATATTTTATGAGTACTTTACCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTT
514 ATAAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTT
* * * *
33060 TTGCAAAATTTTAGCTAAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAACGCGTTTCAGG
579 TTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGG
33125 GCCCGGACTTAG
644 GCCCGG-CTTAG
* * *
33137 TTTTGCATGATTTTTGGCGCCAAGACTCCTTCAAATATATATACTCATCTAATCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * *
33202 ACATTGAATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * *
33267 TTCAGAAAAATATGGAAAACGATATTAAAAACGTGAAAAGTCCTCCAATCTTTTTGGAGTTGAAT
131 TTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTT-GTGTTGAAT
* * * * * * * *
33332 TATATATATATTATGAGT-ATTGTGGCTAAAAAATGAGTTAAAATATTTCGGTTTAA-TTTTTGT
195 TATATATATTTTATGAGTAATT-TAGCCAAAAATTGAG-GAAAATTTTTCGG-GTAATTTTTTGC
* * * * *
33395 AAAATTTTAGCTGAAATCGTG---T-ACCATCGCGGTTTTTTAGCTAAAAACGCATTTCAGGGCC
257 AAAATTTTAGCCGAAATCGTGTAATAACCATCACAG-TTTTTGGCTAAAAACGCATTTC-GGGGC
* * * * *
33456 CCGAGATCAGTTTTGCATGATTCTTTTTGTGGCAAAACTCCTTGAAATATCTATATTCATCTAAC
320 CCGA-CTCAGTTTTGCATGA---TTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAAT
* * * ** *
33521 CTAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACAAGCATTTGAACCTTA-TTCGATTTA
381 CAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTA
* * * * * *
33585 ATTAGAAATTAATTCAAAAAAATAGGAAAAACAATATTAGAAGCGTTAAAAGCCCT-CAATCTTT
446 ATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTT
* * * * * *
33649 TTGATGTCGAATTATATAT-TTTTAATGATTATTTTTGCCAAAAATTGAGG-AAACATCTTTCAG
511 TGGA--T-AAATTATATATATTTT-ATGAGTATTTTAGCCAAAAATTGAGGAAAAC-TTTTTCGG
* * * * *
33712 GTCACTTTTTGCAAAATTTTAGCCGAAATCGTGTGCTAACCATCACAGTTTTTTTGCTAAAAACG
571 GTAATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCAC-GGTTTTTTGCTAAAAACG
*
33777 C-ATTCTGGGGCCACGGCTCT-G
635 CGTTTC-GGGGCC-CGGCT-TAG
* * * * * *
33798 TTTTGCATGATTTTTTGCGTCGAGACTCCTTGAAATATCTTTATTCATCTGATCAAATCTTAGCC
1 TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * * *
33863 ACATTGGATATAAGGATTTGTTTTTACGTGCATCTGAATCTTGTTTCAATTTAATTATAAATTAA
66 ACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
*
33928 ATCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTG-GCATTGA
131 TTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGTG--TTGA
* * * * * * * *
33992 ATTATATGTATTTTATAAGTATTTTGGCCAAAAAATGAGGAAAAATCTTTCGAGTCATTTTT
193 ATTATATATATTTTATGAGTAATTTAGCCAAAAATTGAGG-AAAATTTTTCGGGTAATTTTT
34054 ATCATCATGG
Statistics
Matches: 2995, Mismatches: 446, Indels: 236
0.81 0.12 0.06
Matches are distributed among these distances:
646 1 0.00
647 5 0.00
648 100 0.03
649 52 0.02
650 26 0.01
651 240 0.08
652 18 0.01
653 1 0.00
654 1 0.00
657 28 0.01
658 54 0.02
659 41 0.01
660 133 0.04
661 820 0.27
662 611 0.20
663 87 0.03
664 19 0.01
665 162 0.05
666 92 0.03
667 241 0.08
668 219 0.07
669 42 0.01
670 1 0.00
672 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (654 bp):
TTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
ACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
TTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGTGTTGAATT
ATATATATTTTATGAGTAATTTAGCCAAAAATTGAGGAAAATTTTTCGGGTAATTTTTTGCAAAA
TTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTTGGCTAAAAACGCATTTCGGGGCCCGACT
CAGTTTTGCATGATTTTTGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAG
CCACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGAAATT
AATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTGGATAAATT
ATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCAAA
ATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTTCGGGGCCCGGC
TTAG
Found at i:33047 original size:992 final size:987
Alignment explanation
Indices: 29833--34053 Score: 4252
Period size: 992 Copynumber: 4.3 Consensus size: 987
29823 CCCACCTCAA
* * * *
29833 TTTTGCATGATTTTTTACTCCGAGACTACTTGAAATATCTATATTCATCTAATCAAATCTCAACC
1 TTTTGCATGATTTTTTGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * * *
29898 ACATAGGACTTAAGGATTTGTTTTTACGAGCATCCGTATCTTGTTTCGATTTAATTAGAAGTTAA
66 ACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * * ** ** * *
29963 TTCAGAAAAATA-GGAAAAACAATATTAGAAA-CATCAAAAACCCTTTAATCTTTCTGGCGTTGA
131 TTCAGAAAAATATGG-AAAACGATATTA-AAAGCGTGAAAAGTCCTCCAATCTTTTTGGCGTTAA
* * * * * * *
30026 A--ATATATATTTCATGAGTATTTTAGTCAATAATCGA-GAAAATATCTTTTGGATCAA-TTTTT
194 ATTATATATATTTTATGAGTACTTTAGCCAAAAATTGAGGAAAAT-T-TTTCGGGT-AATTTTTT
* ** * * ** * * *
30087 ACAAAATTTTAGCCGAAATCATGTAATAACCATCACAATATTTGGCTAAAAAAGCGTTTTG-GGA
256 GCAAAATTTTAGCTAAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAACGCGTTTCGAGGA
* * * * *
30151 CACC-GACTCAGTTTTGCATGATTTTTGG-GCCAAGACTCATTGAGATATCCACATTCATCTAAT
321 C-CCGGACTTAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAAT
* * * * *
30214 CAAATCTTAGCTACATTGGATTTAAGAATTTGTTTTTACGAGCATCTAAATATTGTTTCGATTTA
385 CAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGAATC-AAATCTTATTTCGATTTA
* ** * *
30279 ATTAGAATTTAATTCAGAAAAAATATGAAAGGCGATATTAAAAGCGTGAAAAGTCATCCAATCTT
449 ATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATATT
** * * * * * * * * *
30344 TTTGGTGTTAAATTATATATATTTCATAAATATTTTATCCAAAAATTGAGAAAAAAAAATTCAGA
514 TTAAG-CTTGAATTATATATATTTTATGAATATTTTAGCAAAAAATTGAG-GAAAATATTTC-GA
* * * *
30409 GTCATTTTTTGCAAAATTTTAGCCAAAATCGTATACTAATCATCATGGTCTTTTGCTAAAAAACG
576 GTAATTTTTTGCAAAATTTTAGCCAAAATCGTATACTAACCATCACGGTTTTTTGCT-AAAAACG
* * * *
30474 CGTTTCGGGGCCCCCGCTCAGTTTTGCAAGATTTTTGATGTCAAGACTCCTTGAAATATCTATAT
640 CATTTCGGGG-CCCGGCTCAGTTTTGCATGATTTTTGGTGTCAAGACTCCTTGAAATATCTATAT
* * * * * **
30539 TCATCTAAT-AAACTCTTAGCCATATTACATTGAAGGATTTGTTTTTAAGAGCATCTGAATCTCG
704 TCATCTAATCAAA-TCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTA
** * ** *
30603 TTTCGATTTAATTAGAAATTAATTTTGAAAAAATATGAAAAACGATATTAAAAGCGCGAAAACCC
768 TTTCGATTTAATTAGAAATTAA-TTCAAAAAAATATGAAAAACAATATTAAAAGCATGAAAAGCC
* * * * * * *
30668 CTTCAATCTTTTTGGTATTGAATTATATAT-TTTTTATGAGTAATGTGGCTAAAAATTGAGGAAA
832 CTCCAATATTTTT-GTATTAAATTATATATATTTTAATGAGTAATTTAGCCAAAAATTGAGGAAA
* * *
30732 CATCTTTT-GGATCAA-TTTTTACAAAATTTTAGCCAAAATCGTGTAATAATCATTACAGTTTTT
896 CAT-TTTTCGGAT-AATTTTTTGCAAAATTTTAGCCAAAATCGTGT-ATAACCATCACAGTTTTT
* * * *
30795 GGCCAAAAACGCGTTCTGGAGCCCGGTTCAG
958 GGCTAAAAACGCTTTCTGGGGCCCGCTT-AG
* *
30826 TTTTGAATGATTTTTTGCGCCGAGACTCCTTGAAATATCTATATTCATCTAACCAAA--T---CC
1 TTTTGCATGATTTTTTGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * * * * *
30886 -CA---G--CT----A-TT-TTTTTACGAGTATATGAATCATGTTTTGATTTAATCAAAAATTAA
66 ACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
** * * *
30939 TTCAGAAAAAT-TAGGAAAAACGATATTAAAAGCGTGAAAAAACACTTCAATCTTTTGGGAGATT
131 TTCAGAAAAATAT-GG-AAAACGATATTAAAAGCGTGAAAAGTC-CTCCAATCTTTTTGGCG-TT
* * * *
31003 -AATTATATATTTTTTATAAGTA-TTGTGGCTAAAAATTGAGGAAGAATATTTTC-GGTCAA-TT
192 AAATTATATATATTTTATGAGTACTT-TAGCCAAAAATTGAGGAA-AAT-TTTTCGGGT-AATTT
* * ** *** * ** *
31064 TTTGCAAAATATTAGGC-AAAATCGTGTACCATCACGTTTTTTTTTTTTTTTTCTAAAAACGCAT
253 TTTGCAAAATTTTA-GCTAAAATCGTGTA-C-TAAC--CATCACTGTTTTTGGCTAAAAACGCGT
* * *
31128 TTCGGGGCCCCAGG--TTAGTTTTGCAT-ATTTTTTTGCGCCAAGACTCCTTGAAATATCTATAT
313 TTCGAGGACCC-GGACTTAGTTTTGCATGA-TTTTTGGCGCCAAGACTCCTTGAAATATCTATAT
* * * * *
31190 TCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATTTAAATCTTGT
376 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAG-AATCAAATCTTAT
* * * ** * **
31255 TTCAATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAAACGATATTATGAGCGTAAAAAACCC
440 TTCGATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCC
* * * * *
31320 TTCAATATTTTCA-CGTTGAGTTATATAATTTTTTATGAATATTTTAGCCAAAAATTGA-GAAAA
505 TCCAATATTTTAAGC-TTGAATTATAT-ATATTTTATGAATATTTTAGCAAAAAATTGAGGAAAA
* * *
31383 TATCTTTCGAGTCAATTTTTT-CAAAATGTTAGCCAAAATCGTATAATAATCATCACGGATTTTT
568 TA--TTTCGAGT-AATTTTTTGCAAAATTTTAGCCAAAATCGTATACTAACCATCACGG------
* ** * *
31447 TTTTTTTGCTAAAAACGCATCTCTAGGCCCGGGTCAATTTTGCATGATTTTTGGTGTCAAGACTC
624 -TTTTTTGCTAAAAACGCATTTCGGGGCCCGGCTCAGTTTTGCATGATTTTTGGTGTCAAGACTC
* * * * * *
31512 CTTG-AGTATCCATATTCATCTAATCAAATCTCAGTCACCTTGCTTTTAAGGA-------TTATG
688 CTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACG
* * * *
31569 AGCATATGAATCTTATTTCGATTTAATTACAAATTAATTCAAAAAAAATATGAAAAACGATATGA
753 AGCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTC-AAAAAAATATGAAAAACAATATTA
* * * * * * * * *
31634 AATGCATGAAAAGTCCTCCAACCATTTTGGCATTAAATTATATA-AATTTCATGAGTATTTTAGG
817 AAAGCATGAAAAGCCCTCCAA-TATTTTTGTATTAAATTATATATATTTTAATGAGTAATTTAGC
* * *** * * *
31698 CAAAAATTGAGAAAAAAAAAATTCTGGATCATTTTTTGCAAAAATTTAGCCAAAATCGTGTATCA
881 CAAAAATTGAG-GAAACATTTTTC-GGATAATTTTTTGCAAAATTTTAGCCAAAATCGTGTATAA
* ***** ** * ** *
31763 CGGCTTTTTTTTTTTTTTCTAAAAAAACGCGTTTCAGGTCCCCTGCTCAG
944 C--CATCACAGTTTTTGGCT--AAAAACGC-TTTCTGGGGCCC-GCTTAG
* *
31813 TTTTGCATGATTTTTTG-GCATCAAAACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAG
1 TTTTGCATGATTTTTTGCGC--CGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAG
* * * * *
31877 TCACATTGCATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTATTTCGATTTAATTAGGAATT
64 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATT
* * * * *
31942 AATTCAGAAAAATATGAAAAACAATATTAAAAGCATGAAAAGTCCTCCAATATTTTTGGTGTTAA
129 AATTCAGAAAAATATGGAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCGTTAA
*
32007 ATTATATATATTTTATGAGTACTTTAGCCAAAAATTAAGGAAAACTTTTTCGGGTAATTTTTTGC
194 ATTATATATATTTTATGAGTACTTTAGCCAAAAATTGAGGAAAA-TTTTTCGGGTAATTTTTTGC
* *
32072 AAAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGAGG-CC
258 AAAATTTTAGCTAAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAACGCGTTTCGAGGACC
32136 CGGACTTAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAA
323 CGGACTTAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAA
* *
32201 ATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGAATCAGAATCTTATTTCGATTTAATT
388 ATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGAATCA-AATCTTATTTCGATTTAATT
* * **
32266 AGAAATTAATTCAG-AAAAATATGAAAAACAATATTAAAAGCATGAAAAGTCCTCCAATATTAAA
452 AGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATATTTTA
* * * * *
32330 AGCATGAATTATATATATTTTATGAGTACTTTAGCAAAAAAATTGAGGAAAACTTTTTCGGGTAA
517 AGCTTGAATTATATATATTTTATGAATATTTTAGC-AAAAAATTGAGGAAAA-TATTTCGAGTAA
** * *
32395 TTTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTT
580 TTTTTTGCAAAATTTTAGCCAAAATCGTATACTAACCATCACGGTTTTTTGCTAAAAACGCATTT
* * * *
32460 CGGGGCCCGGACTTAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAAATATCTTTATTCATA
645 CGGGGCCCGG-CTCAGTTTTGCATGATTTTTGGTGTCAAGACTCCTTGAAATATCTATATTCATC
32525 TAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGA
709 TAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGA
* * *
32590 TTTAATTAGGAATTAATTCAGAAAAATATGAAAAACAATATTAAAAGCATGAAAAGTCCTCCAAT
774 TTTAATTAGAAATTAATTCAAAAAAATATGAAAAACAATATTAAAAGCATGAAAAGCCCTCCAAT
* *
32655 ATTTTTGTGTTAAATTATATATATATT-ATGAGTAATTTAGCCAAAAATTGAGGAAA-ACTTTTT
839 ATTTTTGTATTAAATTATATATATTTTAATGAGTAATTTAGCCAAAAATTGAGGAAACA-TTTTT
* ** *
32718 CGGGTAATTTTTTGCAAAATTTTAGCTGAAATCGTGTATTAACCATCACTGTTTTTGGCTAAAAA
903 CGGATAATTTTTTGCAAAATTTTAGCCAAAATCGTGTA-TAACCATCACAGTTTTTGGCTAAAAA
*
32783 CGCTTT-TCGGGGCCTTGACTTAG
967 CGCTTTCT-GGGGCC-CG-CTTAG
* * *
32806 TTTTGCATGA-TTTTTGACGCCAAGACTCCTTGAAATATCTATACTAATCTAATCAAATCTCAGC
1 TTTTGCATGATTTTTTG-CGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGC
* * * *
32870 CACATTGAATTTAAGGATTTGTTTTTACGAGCATCTAAATTTTATTTCGATTTAATTAGAAATTA
65 CACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA
* *
32935 ATTCAGAAAAATATGGAAAACGATATTAAAAACGTGAAAAGTCCTCCAATCTTTTTGGTGTTAAA
130 ATTCAGAAAAATATGGAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCGTTAAA
*
33000 TTATATATATTTTATGAGTACTTTACCCAAAAATTGAGGAAAACTTTTTCGGGTAATTTTTTGCA
195 TTATATATATTTTATGAGTACTTTAGCCAAAAATTGAGGAAAA-TTTTTCGGGTAATTTTTTGCA
*
33065 AAATTTTAGCTAAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAACGCGTTTC-AGGGCCC
259 AAATTTTAGCTAAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAACGCGTTTCGAGGACCC
* * *
33129 GGACTTAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTCAAATATATATACTCATCTAATCAAA
324 GGACTTAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAA
* * *
33194 TCTCAGCCACATTGAATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTA
389 TCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGAATC-AAATCTTATTTCGATTTAATTA
* * *
33259 GAAATTAATTCAG-AAAAATATGGAAAACGATATTAAAAACGTGAAAAGTCCTCCAATCTTTTTG
453 GAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAAT-ATTTT-
* * * * * *
33323 GAG-TTGAATTATATATATATTATGAGTATTGTGGCTAAAAAA-TGAGTTAAAATATTTCG-GTT
516 AAGCTTGAATTATATATATTTTATGAATATTTTAGC-AAAAAATTGAG-GAAAATATTTCGAG--
* ** * *
33385 TAA-TTTTTGTAAAATTTTAGCTGAAATCG--T-GT-ACCATCGCGGTTTTTTAGCTAAAAACGC
577 TAATTTTTTGCAAAATTTTAGCCAAAATCGTATACTAACCATCACGGTTTTTT-GCTAAAAACGC
* * * * *
33445 ATTTCAGGGCCCCGAGATCAGTTTTGCATGATTCTTTTTGTGGCAAAACTCCTTGAAATATCTAT
641 ATTTC-GGGGCCCG-GCTCAGTTTTGCATGA-T-TTTTGGTGTCAAGACTCCTTGAAATATCTAT
* * * * * *
33510 ATTCATCTAACCTAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACAAGCATTTGAACCTT
702 ATTCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTT
* * * *
33575 A-TTCGATTTAATTAGAAATTAATTCAAAAAAATAGGAAAAACAATATTAGAAGCGTTAAAAGCC
767 ATTTCGATTTAATTAGAAATTAATTCAAAAAAATATGAAAAACAATATTAAAAGCATGAAAAGCC
* * * * *
33639 CT-CAATCTTTTTG-ATGTCGAATTATATAT-TTTTAATGATTATTTTTGCCAAAAATTGAGGAA
832 CTCCAATATTTTTGTAT-T-AAATTATATATATTTTAATGAGTAATTTAGCCAAAAATTGAGGAA
* * * * *
33701 ACATCTTTCAGG-TCACTTTTTGCAAAATTTTAGCCGAAATCGTGTGCTAACCATCACAGTTTTT
895 ACATTTTTC-GGATAATTTTTTGCAAAATTTTAGCCAAAATCGTGT-ATAACCATCACAG-TTTT
* *
33765 TTGCTAAAAACGCATTCTGGGGCCACGGCTCT-G
957 TGGCTAAAAACGCTTTCTGGGGCC-C-GCT-TAG
* * * *
33798 TTTTGCATGATTTTTTGCGTCGAGACTCCTTGAAATATCTTTATTCATCTGATCAAATCTTAGCC
1 TTTTGCATGATTTTTTGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
* * * *
33863 ACATTGGATATAAGGATTTGTTTTTACGTGCATCTGAATCTTGTTTCAATTTAATTATAAATTAA
66 ACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * * *
33928 ATCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCATTGAA
131 TTCAG-AAAAATATGGAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCGTTAAA
* * * * * * * *
33993 TTATATGTATTTTATAAGTATTTTGGCCAAAAAATGAGGAAAAATCTTTCGAGTCATTTTT
195 TTATATATATTTTATGAGTACTTTAGCCAAAAATTGAGG-AAAATTTTTCGGGTAATTTTT
34054 ATCATCATGG
Statistics
Matches: 2694, Mismatches: 410, Indels: 248
0.80 0.12 0.07
Matches are distributed among these distances:
976 50 0.02
977 24 0.01
978 16 0.01
979 4 0.00
980 54 0.02
981 120 0.04
982 21 0.01
983 37 0.01
984 94 0.03
985 179 0.07
986 12 0.00
987 28 0.01
988 88 0.03
989 57 0.02
990 49 0.02
991 182 0.07
992 766 0.28
993 268 0.10
994 10 0.00
995 10 0.00
996 33 0.01
997 37 0.01
998 142 0.05
999 199 0.07
1000 43 0.02
1001 3 0.00
1002 14 0.01
1003 78 0.03
1004 27 0.01
1005 48 0.02
1006 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (987 bp):
TTTTGCATGATTTTTTGCGCCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCC
ACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
TTCAGAAAAATATGGAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCGTTAAAT
TATATATATTTTATGAGTACTTTAGCCAAAAATTGAGGAAAATTTTTCGGGTAATTTTTTGCAAA
ATTTTAGCTAAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAACGCGTTTCGAGGACCCGG
ACTTAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAATCAAATC
TCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGAATCAAATCTTATTTCGATTTAATTAGAA
ATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATATTTTAAGCT
TGAATTATATATATTTTATGAATATTTTAGCAAAAAATTGAGGAAAATATTTCGAGTAATTTTTT
GCAAAATTTTAGCCAAAATCGTATACTAACCATCACGGTTTTTTGCTAAAAACGCATTTCGGGGC
CCGGCTCAGTTTTGCATGATTTTTGGTGTCAAGACTCCTTGAAATATCTATATTCATCTAATCAA
ATCTCAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATT
AGAAATTAATTCAAAAAAATATGAAAAACAATATTAAAAGCATGAAAAGCCCTCCAATATTTTTG
TATTAAATTATATATATTTTAATGAGTAATTTAGCCAAAAATTGAGGAAACATTTTTCGGATAAT
TTTTTGCAAAATTTTAGCCAAAATCGTGTATAACCATCACAGTTTTTGGCTAAAAACGCTTTCTG
GGGCCCGCTTAG
Found at i:61840 original size:16 final size:16
Alignment explanation
Indices: 61819--61853 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
61809 ACAATTCAGA
61819 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
61835 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
61851 AAG
1 AAG
61854 TATTTCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (16 bp):
AAGCAGAAAAGCTCTG
Found at i:64724 original size:29 final size:29
Alignment explanation
Indices: 64673--64729 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
64663 TAATGAAACG
*
64673 TGGAGAAGGAGAAGGGAAGACGTGGAGAC
1 TGGAGAAGGAGAAAGGAAGACGTGGAGAC
*
64702 TGGAGAAGGAGAACATGAA-ACGTGGAGA
1 TGGAGAAGGAGAA-AGGAAGACGTGGAGA
64730 AGGGAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.40, C:0.07, G:0.44, T:0.09
Consensus pattern (29 bp):
TGGAGAAGGAGAAAGGAAGACGTGGAGAC
Found at i:64735 original size:29 final size:29
Alignment explanation
Indices: 64674--64736 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
64664 AATGAAACGT
* **
64674 GGAGAAGGAGAAGGGAAGACGTGGAGACT
1 GGAGAAGGAGAAAGGAAGACGTGGAGAAG
*
64703 GGAGAAGGAGAACATGAA-ACGTGGAGAAG
1 GGAGAAGGAGAA-AGGAAGACGTGGAGAAG
64732 GGAGA
1 GGAGA
64737 GAAAGAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 26 0.90
30 3 0.10
ACGTcount: A:0.41, C:0.06, G:0.46, T:0.06
Consensus pattern (29 bp):
GGAGAAGGAGAAAGGAAGACGTGGAGAAG
Found at i:65061 original size:16 final size:18
Alignment explanation
Indices: 65040--65074 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
65030 AAAATCATAA
65040 TCAATTAAT-AT-ATTAT
1 TCAATTAATCATAATTAT
65056 TCAATTAATCATAATTAT
1 TCAATTAATCATAATTAT
65074 T
1 T
65075 ATATTCAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TCAATTAATCATAATTAT
Found at i:66257 original size:438 final size:438
Alignment explanation
Indices: 65418--66260 Score: 1117
Period size: 438 Copynumber: 1.9 Consensus size: 438
65408 TTTTGAATAA
* * ** *
65418 TCCATGAAACTCATTAATCAAATTCTACTTTCAAGTCCTTAGTGAAAGTCATAGATCACACGATA
1 TCCACGAAACTCATTAATCAAATTCTACTTTCAAGCCCTTAACGAAAGTCATAGATCACACAATA
* * * *
65483 ACCTTTCAACCGACACTTGAAGAACCTCAATCGGACATGTGGACCGAAAATTACACGATATTAAA
66 ACCTTTCAACCGACACTTAAACAACCTCAATCGGACAAGTGGACCGAAAATTACACAATATTAAA
* * *
65548 TAGACCAATAATAGAAAGCACAAAATTTCGGAAACATTTTTTTAGAATCAAAACATCAAAATTAG
131 TAGACCAACAATAGAAACCACAAAATTTCAGAAACATTTTTTTAGAATCAAAACATCAAAATTAG
* * * *
65613 TTTTTGAGTCTTTAATGAAAGTTGTAAATCATTAAATTACCTTTCAATAGACTCTTGAATCACCT
196 CTTTTGAGTCCTTAACGAAAGTTGTAAATCATGAAATTACCTTTCAATAGACTCTTGAATCACCT
* * * * *
65678 TGATCCGACAAATATAGCAAAAAATAAAAGAATTAAAGCCAAAACATTAAATCGTCTAACCCAGA
261 TCATCCGACAAACAAAACAAAAAATAAAAGAATTAAAGCCAAAACATTAAATCGTCCAACCCAGA
* * * * *
65743 ATTTGTGAGGGATTAAATAGCATAAAGCATAAAAGTATGAGGACCATTTAATAAATAATCCAAAA
326 AATTGTGAGGGACTAAATAGCAAAAAGCATAAAAGTATGAGGACCACTTAATAAATAAACCAAAA
65808 AAAATATTTGTTTATGGAGACCAAATATAAAAATTCCCTCTCAAACCC
391 AAAATATTTGTTTATGGAGACCAAATATAAAAATTCCCTCTCAAACCC
* *
65856 TCCACGAAACTCATTAATCAAATTC-AGCTTTCAGGCCCTTAACGAAAGTCGTAGATCACACAAT
1 TCCACGAAACTCATTAATCAAATTCTA-CTTTCAAGCCCTTAACGAAAGTCATAGATCACACAAT
* * * * *
65920 AATCTTTTAACCGACACTTAAACAATCTCAATCGGACAAGTGGACCGAAAATTATACAATATTAG
65 AACCTTTCAACCGACACTTAAACAACCTCAATCGGACAAGTGGACCGAAAATTACACAATATTAA
** * * * * *
65985 ATAGACCGGCAATCGAGACCACAAAATTTCATAAGCA-TTTTTTAGAA-CTAAAACATTAAAATT
130 ATAGACCAACAATAGAAACCACAAAATTTCAGAAACATTTTTTTAGAATC-AAAACATCAAAATT
* * *
66048 -GACTTTTGAGTCCTTCACGAAAGTTGTAGATCATGAAATTACCTTTTAATAGACAT-TTGAATC
194 AG-CTTTTGAGTCCTTAACGAAAGTTGTAAATCATGAAATTACCTTTCAATAGAC-TCTTGAATC
* ** * *
66111 ACCTTCATCGGACAAACAAAAC-AAAAATAAAAGAATTAAAGCTGAAACGTTCAATCGTCCAACC
257 ACCTTCATCCGACAAACAAAACAAAAAATAAAAGAATTAAAGCCAAAACATTAAATCGTCCAACC
*
66175 C-GAAAATTGTGAGGGACTAAATAGCAAAAAGCATAAAAGTAT-AGGGACCACTTGATAAATAAA
322 CAG-AAATTGTGAGGGACTAAATAGCAAAAAGCATAAAAGTATGA-GGACCACTTAATAAATAAA
66238 CCAACAAAAAATGATTTGTTTAT
385 CCAA-AAAAAAT-ATTTGTTTAT
66261 TATAAGTGGG
Statistics
Matches: 348, Mismatches: 49, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
435 2 0.01
436 96 0.28
437 100 0.29
438 150 0.43
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (438 bp):
TCCACGAAACTCATTAATCAAATTCTACTTTCAAGCCCTTAACGAAAGTCATAGATCACACAATA
ACCTTTCAACCGACACTTAAACAACCTCAATCGGACAAGTGGACCGAAAATTACACAATATTAAA
TAGACCAACAATAGAAACCACAAAATTTCAGAAACATTTTTTTAGAATCAAAACATCAAAATTAG
CTTTTGAGTCCTTAACGAAAGTTGTAAATCATGAAATTACCTTTCAATAGACTCTTGAATCACCT
TCATCCGACAAACAAAACAAAAAATAAAAGAATTAAAGCCAAAACATTAAATCGTCCAACCCAGA
AATTGTGAGGGACTAAATAGCAAAAAGCATAAAAGTATGAGGACCACTTAATAAATAAACCAAAA
AAAATATTTGTTTATGGAGACCAAATATAAAAATTCCCTCTCAAACCC
Found at i:66639 original size:107 final size:107
Alignment explanation
Indices: 66453--66668 Score: 407
Period size: 107 Copynumber: 2.0 Consensus size: 107
66443 ATGTTATAGA
66453 TATATGCTATTTCCACGCAATATTTAATGGGTAATTATTTGATACACCGGCGGTGTAAATTTTGG
1 TATATGCTATTTCCACGCAATATTTAATGGGTAATTATTTGATACACCGGCGGTGTAAATTTTGG
66518 ACTCCACAAGCGGGTTGTAGAGTT-ACACATGTCCAATTATAT
66 ACTCCACAAGCGGGTTGTAGAGTTGACACATGTCCAATTA-AT
*
66560 TATATGCTATTTCCACGCAATATTTAATGGGTAATTATTTGATATACCGGCGGTGTAAATTTTGG
1 TATATGCTATTTCCACGCAATATTTAATGGGTAATTATTTGATACACCGGCGGTGTAAATTTTGG
66625 ACTCCACAAGCGGGTTGTAGAGTTGACACATGTCCAATTAAT
66 ACTCCACAAGCGGGTTGTAGAGTTGACACATGTCCAATTAAT
66667 TA
1 TA
66669 AGTTTTAAAT
Statistics
Matches: 107, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 92 0.86
108 15 0.14
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (107 bp):
TATATGCTATTTCCACGCAATATTTAATGGGTAATTATTTGATACACCGGCGGTGTAAATTTTGG
ACTCCACAAGCGGGTTGTAGAGTTGACACATGTCCAATTAAT
Found at i:66891 original size:14 final size:14
Alignment explanation
Indices: 66872--66898 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66862 TATTATACTA
66872 ATTAATATTAATAT
1 ATTAATATTAATAT
66886 ATTAATATTAATA
1 ATTAATATTAATA
66899 GGGTGATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTAATATTAATAT
Found at i:68138 original size:27 final size:29
Alignment explanation
Indices: 68108--68166 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
68098 AAAGACTTTT
68108 TTTTTTTTTGC-A-AGAGAAAAAAGACAC
1 TTTTTTTTTGCAATAGAGAAAAAAGACAC
68135 TTTTTTTTTGCAATAGAGAAAAAAGACAC
1 TTTTTTTTTGCAATAGAGAAAAAAGACAC
68164 TTT
1 TTT
68167 ATTAATCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 11 0.37
28 1 0.03
29 18 0.60
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (29 bp):
TTTTTTTTTGCAATAGAGAAAAAAGACAC
Found at i:68138 original size:29 final size:31
Alignment explanation
Indices: 68097--68166 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 31
68087 AAAATATGAG
**
68097 AAAAGACTTTTTTTTTTTTTGC-A-AGAGAA
1 AAAAGACACTTTTTTTTTTTGCAATAGAGAA
68126 AAAAGACAC--TTTTTTTTTGCAATAGAGAA
1 AAAAGACACTTTTTTTTTTTGCAATAGAGAA
68155 AAAAGACACTTT
1 AAAAGACACTTT
68167 ATTAATCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 11 0.31
28 1 0.03
29 22 0.63
31 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (31 bp):
AAAAGACACTTTTTTTTTTTGCAATAGAGAA
Found at i:72840 original size:16 final size:16
Alignment explanation
Indices: 72819--72853 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
72809 ACAATTCAGA
72819 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
72835 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
72851 AAG
1 AAG
72854 TATTTCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (16 bp):
AAGCAGAAAAGCTCTG
Found at i:73189 original size:44 final size:44
Alignment explanation
Indices: 73133--73279 Score: 127
Period size: 55 Copynumber: 3.1 Consensus size: 44
73123 TTGTGTTCGC
73133 TCAAGATCAAGTCGCCAAGACCCTTGAATCAAATTATCATCAAT
1 TCAAGATCAAGTCGCCAAGACCCTTGAATCAAATTATCATCAAT
* * * *
73177 TCGAGATCAAGTCATCAAAGACCCTCGAATCAAATCAAATTCCCAAGTCATCAAT
1 TCAAGATCAAGTC-GCCAAGACCCT----T-GAATCAAATT----A-TCATCAAT
* *
73232 TCAAGATCAAGTCGTCAAGACCCTTGAATTAAATTATCA--AAT
1 TCAAGATCAAGTCGCCAAGACCCTTGAATCAAATTATCATCAAT
73274 TCAAGA
1 TCAAGA
73280 CCAAATCATT
Statistics
Matches: 82, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
42 9 0.11
44 15 0.18
45 10 0.12
49 9 0.11
50 10 0.12
54 9 0.11
55 20 0.24
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (44 bp):
TCAAGATCAAGTCGCCAAGACCCTTGAATCAAATTATCATCAAT
Found at i:87977 original size:9 final size:9
Alignment explanation
Indices: 87965--87994 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
87955 ATTAATAAGC
*
87965 AAAAAAAAT
1 AAAAGAAAT
87974 AAAAGAAAT
1 AAAAGAAAT
87983 AAAAGAAAT
1 AAAAGAAAT
87992 AAA
1 AAA
87995 CTTAAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (9 bp):
AAAAGAAAT
Found at i:88302 original size:47 final size:47
Alignment explanation
Indices: 88223--88363 Score: 268
Period size: 47 Copynumber: 3.0 Consensus size: 47
88213 GTTAACAAAA
88223 ATTCTTATATGAATA-TTT-TTTGTTGTTGTAAATTATTTGTAGGAG
1 ATTCTTATATGAATAGTTTCTTTGTTGTTGTAAATTATTTGTAGGAG
88268 ATTCTTATATGAATAGTTTCTTTGTTGTTGTAAATTATTTGTAGGAG
1 ATTCTTATATGAATAGTTTCTTTGTTGTTGTAAATTATTTGTAGGAG
88315 ATTCTTATATGAATAGTTTCTTTGTTGTTGTAAATTATTTGTAGGAG
1 ATTCTTATATGAATAGTTTCTTTGTTGTTGTAAATTATTTGTAGGAG
88362 AT
1 AT
88364 GAGTTGCAAA
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
45 15 0.16
46 3 0.03
47 76 0.81
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.52
Consensus pattern (47 bp):
ATTCTTATATGAATAGTTTCTTTGTTGTTGTAAATTATTTGTAGGAG
Done.