Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017582.1 Corchorus olitorius cultivar O-4 contig17615, 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: 15061
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--83 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
43 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
84 TTCCCAAACA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9669 original size:331 final size:331
Alignment explanation
Indices: 8800--10407 Score: 1464
Period size: 333 Copynumber: 4.8 Consensus size: 331
8790 TCCGAAAAAA
* * * * *
8800 TTTTCATCAGTTTTTTGCCACAATACTCGTAAAATAAAATATATATTATTCGACGCCAAAAAAAT
1 TTTTC-TCAATTTTTGGCCACAATACTC--ATAA-AAAATATATA--ATTCAACGCCAAAAAGAT
* * ** * *
8865 TGAAGGGCATTTCACTCTTCTAATATCAATTTT-CC-ATTTTTTTCTTAATCAATTTCTAATTAA
60 TGAAGGGCTTTTCACGCTTCTAATATC-ATTTTCCCTATTTTTTTCCAAATTAATTTATAATTAA
* * ** * * * * *
8928 ATCGAAACAAGATTAAGATGCTTGTAAAAACAAATCCTAAAATTCAATGTGGCTAAAATTTGGTT
124 ATCGAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGAAATTTGGTT
* * * * *
8993 AGACGAATATAGAA-ATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGG-CT
189 AGATGAATATA-AATCTTTCAAGGAGTCTCGGCG-CAAAAATTATGCAAAACTGAGCCGGGGCCT
* * * * * *
9056 CCAGAACACATTTTTAACCAAAAACCGTGATGGTTATT--AC-A---C-G-----ATTTCGCAAA
252 -CGGAACGCGTTTTT-AGCAAAAAACGTGAT-GATATTACACGATTTCGGCTAAAATTTCGCAAA
* * **
9109 AACTGGCCCGAAATTTTT
314 AACTGACCAGAAAAATTT
* * *
9127 TTTTCTTAATTTTTGGCCATAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
1 TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
** * * *
9192 GCTTTTCA-GCTTCTAATATCATTTTTCTTTTTTTCTTTTTCAGAATTAATTTCTAATTAAATCG
66 GCTTTTCACGCTTCTAATATCA-TTTTCCCTATTT-TTTTCCA-AATTAATTTATAATTAAATCG
* * * * * * **
9256 AAACAAGATTCTGATGCTCGAAAAAATAAATTCTTAAATCCAATGTGATTGGGATTTGGTTAGAT
128 AAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGAAATTTGGTTAGAT
* * * * *
9321 GAATATAAATTTTTCAAGGAGTCTTGGCGTCAAAAATCT-TGTAAAACTGGGCCGGGGCCTTGGA
193 GAATATAAATCTTTCAAGGAGTCTCGGCG-CAAAAAT-TATGCAAAACTGAGCCGGGGCCTCGGA
* * **
9385 ACGCGTTTTTAGTC-AAAAAC-TAATGCTCGTACACGATTTCGGCTAAAATTTCGCAAAAACTGA
256 ACGCGTTTTTAG-CAAAAAACGTGATGATATTACACGATTTCGGCTAAAATTTCGCAAAAACTGA
9448 CCAGAAAAATTT
320 CCAGAAAAATTT
* * * * * * * * * *
9460 CTTTCTCAATTTTTGGCAAAAATACCCGTAAAAAATATACAATTCAATGGCAAAAAGATTGGAGA
1 TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
* *
9525 GATTTTCACGCTTCTAATATCGATTTT-CCTA-TTTTTTCCAAATTAATTTATAAATAAATCGAA
66 GCTTTTCACGCTTCTAATATC-ATTTTCCCTATTTTTTTCCAAATTAATTTATAATTAAATCGAA
* * * *
9588 ATC-GGTTTTCTGATGCTTGTAAAAACAAATTCTTAAATCCAATGTGGCTGACATTTGGTTAGAT
130 A-CAGG-TTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGAAATTTGGTTAGAT
* * * * *
9652 GAATATAGATCTTTCAAGGTGTCTCGGTGCAAAAAATTATACAAAACTGAGCCGGGGTCTCGGAA
193 GAATATAAATCTTTCAAGGAGTCTCGGCGC-AAAAATTATGCAAAACTGAGCCGGGGCCTCGGAA
* * * * * * **
9717 TGCGTTTTTAGCGAAAAACTGTGATGTATATTATACGATTTTGGGT-AAATTTTGCAAAATTTGA
257 CGCGTTTTTAGCAAAAAAC-GTGATG-ATATTACACGATTTCGGCTAAAATTTCGCAAAAACTGA
*
9781 CCTG-AAAATTT
320 CCAGAAAAATTT
** * * *
9792 TTTTCTCAATTTTTATCCACAATACTCAT-AAATATATAAAATTCAACGCCAAAAAGATTTAAGG
1 TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
** *
9856 GCTTTTCACTATTCTAATATCATTTTCCCTATTTTTCTTCCAAATTAATTTATAATTAAATTGAA
66 GCTTTTCACGCTTCTAATATCATTTTCCCTATTTTT-TTCCAAATTAATTTATAATTAAATCGAA
* * * *
9921 ATC-GGTTTCTGATGCTTGTAGAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGCTTAGATG
130 A-CAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGAAATTTGGTTAGATG
* * * * * *
9985 AATGTAGA-CATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAAATGAGCCAAGGTCC-GGGA
194 AATATAAATC-TTTCAAGGAGTCTCGGCG-CAAAAATTATGCAAAACTGAGCC-GGGGCCTCGGA
* * * *
10048 ACGCGTTTTTAACAAAAAACTGTGATGGATATTACACGATTTCGACTAAAATTTTGCAAAAATTG
256 ACGCGTTTTTAGCAAAAAAC-GTGAT-GATATTACACGATTTCGGCTAAAATTTCGCAAAAACTG
*
10113 ACCAGAAAGA-TT
319 ACCAGAAAAATTT
* * * *
10125 TTTCCTCAATTTTTGGCCACAATACTCATAAAAAAATATATAATTCAATGCAAAAAATATTGAAG
1 TTTTCTCAATTTTTGGCCACAATACTCAT-AAAAAATATATAATTCAACGCCAAAAAGATTGAAG
* *
10190 GGCTTTTCACGCTTCTAATATCGTTTTCCCTATGTTTTTTTTCCAAATTAATTTCTAATTAAATC
65 GGCTTTTCACGCTTCTAATATCATTTTCCCTA---TTTTTTTCCAAATTAATTTATAATTAAATC
* * *
10255 GAAACTGGTTTCTGATGCTCGTAGAAACAAATCCTT-AATCCAATGTGACTGATATTTGGTTAGG
127 GAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGAAATTTGGTTA-G
* * * * * ** *
10319 A-CAATATAAATATTTCAAGGAGTCTTGGCGCAGAAAATCATCCAAAACTGAATC-GGGCCCCGG
191 ATGAATATAAATCTTTCAAGGAGTCTCGGCGCA-AAAATTATGCAAAACTGAGCCGGGGCCTCGG
* *
10382 AACGCGTTTTTAGCCAAAACCGTGAT
255 AACGCGTTTTTAGCAAAAAACGTGAT
10408 TGTTTTTTTT
Statistics
Matches: 1057, Mismatches: 174, Indels: 93
0.80 0.13 0.07
Matches are distributed among these distances:
319 1 0.00
320 15 0.01
321 32 0.03
322 6 0.01
323 24 0.02
324 132 0.12
325 2 0.00
326 18 0.02
327 6 0.01
328 1 0.00
330 31 0.03
331 175 0.17
332 174 0.16
333 193 0.18
334 41 0.04
335 80 0.08
336 63 0.06
337 58 0.05
338 5 0.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (331 bp):
TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
GCTTTTCACGCTTCTAATATCATTTTCCCTATTTTTTTCCAAATTAATTTATAATTAAATCGAAA
CAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGAAATTTGGTTAGATGAA
TATAAATCTTTCAAGGAGTCTCGGCGCAAAAATTATGCAAAACTGAGCCGGGGCCTCGGAACGCG
TTTTTAGCAAAAAACGTGATGATATTACACGATTTCGGCTAAAATTTCGCAAAAACTGACCAGAA
AAATTT
Found at i:10001 original size:332 final size:332
Alignment explanation
Indices: 8800--12275 Score: 1813
Period size: 332 Copynumber: 10.5 Consensus size: 332
8790 TCCGAAAAAA
* * * * *
8800 TTTTCATCAGTTTTTTGCCACAATACTCGTAAAATAAAATATATATTATTCGACGCCAAAAAAAT
1 TTTTC-TCAATTTTTGGCCACAATACTC--ATAA-AAAATATATA--ATTCAACGCCAAAAAGAT
* * ** *
8865 TGAAGGGCATTTCACTCTTCTAATATCAATTTTCC-ATTTTTTTCTTAATCAATTTCTAATTAAA
60 TGAAGGGCTTTTCACGCTTCTAATATC-ATTTTCCTATTTTTTTCCAAATTAATTTCTAATTAAA
* * ** * * *
8929 TCGAAACAAGATTAAGATGCTTGTAAAAACAAATCCTAAAATTCAATGTGGCTAAAATTTGGTTA
124 TCGAAACAGGTTTCTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTA
* * * * *
8994 GACGAATATAGAAATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGG-CTCC
189 GATGAATATAGACATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAACTGAGCCGGGGTCT-C
* * * *
9058 AGAACACATTTTTAACCAAAAACCGTGATGGT-TATT--AC-A---C-G-----ATTTCGCAAAA
253 GGAACGCGTTTTTAA-CAAAAACTGTGAT-GTATATTACACGATTTCGGCTAAAATTTCGCAAAA
* * **
9110 ACTGGCCCGAAATTTTT
316 ACTGACCAGAAAGATTT
* * *
9127 TTTTCTTAATTTTTGGCCATAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
1 TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
* * *
9192 GCTTTTCA-GCTTCTAATATCATTTTTCTTTTTTTCTTTTTCAGAATTAATTTCTAATTAAATCG
66 GCTTTTCACGCTTCTAATATCA-TTTTC-CTATTT-TTTTCCA-AATTAATTTCTAATTAAATCG
* * * * * * ** **
9256 AAACAAGATTCTGATGCTCGAAAAAATAAATTCTTAAATCCAATGTGATTGGGATTTGGTTAGAT
127 AAACAGGTTTCTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGAT
* ** * * * * * *
9321 GAATATAAATTTTTCAAGGAGTCTTGGCGTCAAAAATCT-TGTAAAACTGGGCCGGGGCCTTGGA
192 GAATATAGACATTTCAAGGAGTCTCGGCGCCAAAAAT-TATGCAAAACTGAGCCGGGGTCTCGGA
* * * **
9385 ACGCGTTTTTAGTCAAAAAC--TAATG-CTCGTACACGATTTCGGCTAAAATTTCGCAAAAACTG
256 ACGCGTTTTTA-ACAAAAACTGTGATGTATATTACACGATTTCGGCTAAAATTTCGCAAAAACTG
*
9447 ACCAGAAAAATTT
320 ACCAGAAAGATTT
* * * * * * * * * *
9460 CTTTCTCAATTTTTGGCAAAAATACCCGTAAAAAATATACAATTCAATGGCAAAAAGATTGGAGA
1 TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
* * *
9525 GATTTTCACGCTTCTAATATCGATTTTCCTA-TTTTTTCCAAATTAATTTATAAATAAATCGAAA
66 GCTTTTCACGCTTCTAATATC-ATTTTCCTATTTTTTTCCAAATTAATTTCTAATTAAATCGAAA
* *
9589 TC-GGTTTTCTGATGCTTGTAAAAACAAATTCTTAAATCCAATGTGGCTGACATTTGGTTAGATG
130 -CAGG-TTTCTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGATG
* * * *
9653 AATATAGATC-TTTCAAGGTGTCTCGGTGCAAAAAATTATACAAAACTGAGCCGGGGTCTCGGAA
193 AATATAGA-CATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAACTGAGCCGGGGTCTCGGAA
* * * * * * **
9717 TGCGTTTTTAGCGAAAAACTGTGATGTATATTATACGATTTTGGGT-AAATTTTGCAAAATTTGA
257 CGCGTTTTTAAC-AAAAACTGTGATGTATATTACACGATTTCGGCTAAAATTTCGCAAAAACTGA
*
9781 CCTGAAA-ATTT
321 CCAGAAAGATTT
** * * *
9792 TTTTCTCAATTTTTATCCACAATACTCAT-AAATATATAAAATTCAACGCCAAAAAGATTTAAGG
1 TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
** * *
9856 GCTTTTCACTATTCTAATATCATTTTCCCTATTTTTCTTCCAAATTAATTTATAATTAAATTGAA
66 GCTTTTCACGCTTCTAATATCATTTT-CCTATTTTT-TTCCAAATTAATTTCTAATTAAATCGAA
* *
9921 ATC-GGTTTCTGATGCTTGTAGAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGCTTAGATG
129 A-CAGGTTTCTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGATG
* * **
9985 AATGTAGACATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAAATGAGCCAAGGTC-CGGGAA
193 AATATAGACATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAACTGAGCCGGGGTCTC-GGAA
* * * *
10049 CGCGTTTTTAACAAAAAACTGTGATGGATATTACACGATTTCGACTAAAATTTTGCAAAAATTGA
257 CGCGTTTTTAAC-AAAAACTGTGATGTATATTACACGATTTCGGCTAAAATTTCGCAAAAACTGA
10114 CCAGAAAGA-TT
321 CCAGAAAGATTT
* * * *
10125 TTTCCTCAATTTTTGGCCACAATACTCATAAAAAAATATATAATTCAATGCAAAAAATATTGAAG
1 TTTTCTCAATTTTTGGCCACAATACTCAT-AAAAAATATATAATTCAACGCCAAAAAGATTGAAG
*
10190 GGCTTTTCACGCTTCTAATATCGTTTTCCCTATGTTTTTTTTCCAAATTAATTTCTAATTAAATC
65 GGCTTTTCACGCTTCTAATATCATTTT-CCTA---TTTTTTTCCAAATTAATTTCTAATTAAATC
* * * * *
10255 GAAACTGGTTTCTGATGCTCGTAGAAACAAATCCTT-AATCCAATGTGACTGATATTTGGTTAGG
126 GAAACAGGTTTCTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTA-G
* * * * * * ** * *
10319 A-CAATATAAATATTTCAAGGAGTCTTGGCG-CAGAAAATCATCCAAAACTGAATC-GGGCCCCG
190 ATGAATATAGACATTTCAAGGAGTCTCGGCGCCA-AAAATTATGCAAAACTGAGCCGGGGTCTCG
* * * ***** * * ******
10381 GAACGCGTTTTTAGCCAAAACCGTGATTGT-T-TT-TTTTTTTTTGAGAACAAAACAAGAAAAAA
254 GAACGCGTTTTTAACAAAAACTGTGA-TGTATATTACACGATTTCG-G--CTAAA-ATTTCGCAA
** *
10443 AAACGTGATTGTTAGTAGACGA-TT
314 AAAC-TGA---CCAG-A-AAGATTT
* * * * * * ** * * **** *
10467 TCTGCTAAAGTTTT-GCAAAAACTGAC-CCGAAAATATATTCCTCAATTTTTGGCGAAAATACTC
1 TTTTCTCAATTTTTGGCCACAA-T-ACTCATAAAAAATA-T-AT-AATTCAACGCCAAAA-A---
** **** * ** **
10530 G-TAAAAAATATATAATTCAATGCCAAAAAAATTGAAGACCATATCACGATT-CTAATATCATTT
57 GATTGAAGGGCT-T--TTC-ACG-C-------TT--CTA--ATATCA-TTTTCCT-AT-T--TTT
* ** * * * * * ** *
10593 TTCCAATTTTTTCTTTATTAATTTCTAATTAAATGGGAACAAGATTGAGATGCTCGTAAAAACAA
101 TTCCAA--ATTAATTT-CTAA-------TTAAATCGAAACAGGTTTCTGATGCTTGTAAAAACAA
** * * * *
10658 ATCCTTAAATCCAATGTGATTGAGACTTGGTTAGATGAATATAGAAATTTCAAGGAGTCTTGGCG
156 ATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGATGAATATAGACATTTCAAGGAGTCTCGGCG
* * ** * * *
10723 CCAAAAATCATGCAAAATTGAGAAGGGG-CTCCGGAATGCGTTTTTAACCAAAAACCGTCATG--
221 CCAAAAATTATGCAAAACTGAGCCGGGGTCT-CGGAACGCGTTTTTAA-CAAAAACTGTGATGTA
* * *
10785 -GTTACTAC-A---C-G-----ATTTCGCAAAAACTGA-CAGGAA-TTTT
284 TATTAC-ACGATTTCGGCTAAAATTTCGCAAAAACTGACCAGAAAGATTT
* * * * * * * * *
10822 TTTTTTCGATTTCTGACTAAAATACTCGTAAAAAATATATAATTCAACG-CAAAAAGAATTAAAT
1 TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAG-ATTGAAG
* * *
10886 GGCTTTTCA-GCTTCCAATATCATCTTTTCCT-TTTTTTT-CAGAATTAATTTTTAATAAAATCG
65 GGCTTTTCACGCTTCTAATATCA--TTTTCCTATTTTTTTCCA-AATTAATTTCTAATTAAATCG
* * * ** * *
10948 AAACAAGATTCTGATTCTCT-TAAAAACAAATCCTTAAATCCAATCCGACTGAGATTTGGTTAGA
127 AAACAGGTTTCTGATGCT-TGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGA
* * * * * *
11012 TGAATATA-ACTATTTTAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGGGTCGGGGTCTTGG
191 TGAATATAGAC-ATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAACTGAGCCGGGGTCTCGG
* * * * * * * * *
11076 AATGCATTTTTAGCTAAAACCGTGATGGATAGTACACGATTTCGGCTAAAATTTCCCTAAAACTG
255 AACGCGTTTTTAACAAAAACTGTGATGTATATTACACGATTTCGGCTAAAATTTCGCAAAAACTG
11141 ACCAG--A-ATTT
320 ACCAGAAAGATTT
* * * * ** * * *
11151 TTTTTTGAATTTTTGACAACAATACTTGTAAAAAATATATAATTCAACGACAAAAAGATTGGATG
1 TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
* * ** ** *
11216 ACTTTTCCCGCTTCTAATATCGATTTT-C--TTTTTTTAAAAAAAAATTTCTGAA-TAAATCAAA
66 GCTTTTCACGCTTCTAATATC-ATTTTCCTATTTTTTTCCAAATTAATTTCT-AATTAAATCGAA
* ** * * * * ** *
11277 ACCGGTTTCTGATGCTCATAAAAACAAATTCTTAAATTCAATGTGACAGAGGTTTGGTTAGATGT
129 ACAGGTTTCTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGATGA
* * * * * * * *
11342 ATATAGATATTTTAAGGAGTCTCGGCGCAAAAAATCATGCAAAACTGAGCCGGAGTCCCTGAATG
194 ATATAGACATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAACTGAGCCGGGGTCTCGGAACG
* * * * * * * * *
11407 CATTTTTAGCGAAAAACCGTGATCG----TTACACAATTTTGGCTAAAGTTTTGAAAAAATTGAC
259 CGTTTTTAAC-AAAAACTGTGAT-GTATATTACACGATTTCGGCTAAAATTTCGCAAAAACTGAC
**
11468 TTGAAAGA-TT
322 CAGAAAGATTT
* * * * * *
11478 TTTCCTCAATTTTTGGCCACAATAATCATAAAAAATATAAAATTCAATGCCAAGAAGATTGAATG
1 TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
* * *
11543 GCTTTTTACGCTTC-AA-AT-A---T-C-A---TTTTCC--------CTGT-A-TAAATCGAAAC
66 GCTTTTCACGCTTCTAATATCATTTTCCTATTTTTTTCCAAATTAATTTCTAATTAAATCGAAAC
* ** * ** *
11587 -GAGTTTCAGATGCCCGTAGAAACAAATCCTTAAATCCAATGTGGCTGAAATTTAATTAGGTGAA
131 AG-GTTTCTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGATGAA
* * * * * * * * * * * *
11651 TATAAAAAAATTTCAACGAGTCTTGGTGCAAAAAATCATGCAAAACTAAGTCGGGGCCTCGCAAT
195 TAT--AGACATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAACTGAGCCGGGGTCTCGGAAC
* * ** * * *
11716 GCCTTTTTAGGCAAAAACCATGATGT-TAGTACACGATTTCGACTAAAATTTCGCAGAAACTGAC
258 GCGTTTTTA-ACAAAAACTGTGATGTATATTACACGATTTCGGCTAAAATTTCGCAAAAACTGAC
** *
11780 CATCAA-TTTT
322 CAGAAAGATTT
* ** * * **
11790 TTTTACTGAATTTTTGGTAACAATACTCGTAAAAAATATATAATTCAATGGGAAAAAAGATT-AG
1 TTTT-CTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAA-CGCCAAAAAGATTGA-
* * * * * *
11854 AGGGCTTTTCATGCTTCTAATATCGATTTTCTTATTTTTTT--GAATAAAATTCTAAATAAATCG
63 AGGGCTTTTCACGCTTCTAATATC-ATTTTCCTATTTTTTTCCAAATTAATTTCTAATTAAATCG
* * * ** * * ** * *
11917 AAACCGGTTTTTGATCCTCATAGAAACAAATTCTTAAATTTAATGTGGCTGAGATTTGGTTTGAT
127 AAACAGGTTTCTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGAT
* * * * * *
11982 GAATATAGATATTTCAAGGAGTCTTGGCGCCATAAATCATGCAAAACTGAG-CGGGGTCCCTGAA
192 GAATATAGACATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAACTGAGCCGGGGTCTCGGAA
** * * * * * * *
12046 CGTATTTTTAGCGAAAAA-TCGTGATG---GTTACACTATTTCGGCTAAAGTTTTGAAAAAATTG
257 CGCGTTTTTAAC-AAAAACT-GTGATGTATATTACACGATTTCGGCTAAAATTTCGCAAAAACTG
*
12107 ACCTGAAAGA-TT
320 ACCAGAAAGATTT
* * *
12119 TTTCCTCAATTTTCTGTG--AC-A-A-T-AT-AAATATATAAAATTCAACGCCAAGAAA-ATTGA
1 TTTTCTCAATTTT-TG-GCCACAATACTCATAAAAAATATATAATTCAACGCCAA-AAAGATTGA
* * * *
12176 AGGGCTTTTAACGCTTCTAATATCGTTTTCCCTATGTTTTTTCGAAATTAATTTCTAATTAAATT
63 AGGGCTTTTCACGCTTCTAATATCATTTT-CCTAT-TTTTTTCCAAATTAATTTCTAATTAAATC
* * *
12241 GAAACTA-GTTTCTAATGCTCGTAGAAACAAATCCT
126 GAAAC-AGGTTTCTGATGCTTGTAAAAACAAATCCT
12276 AGATTCGGTT
Statistics
Matches: 2441, Mismatches: 517, Indels: 384
0.73 0.15 0.11
Matches are distributed among these distances:
307 1 0.00
308 62 0.03
309 1 0.00
310 68 0.03
311 2 0.00
312 34 0.01
313 38 0.02
314 23 0.01
315 2 0.00
316 2 0.00
318 18 0.01
319 124 0.05
320 22 0.01
321 41 0.02
322 38 0.02
323 43 0.02
324 142 0.06
325 78 0.03
326 29 0.01
327 216 0.09
328 30 0.01
329 108 0.04
330 65 0.03
331 205 0.08
332 228 0.09
333 200 0.08
334 107 0.04
335 85 0.03
336 73 0.03
337 61 0.02
338 5 0.00
340 2 0.00
341 13 0.01
342 18 0.01
343 4 0.00
344 11 0.00
345 2 0.00
346 3 0.00
347 5 0.00
348 2 0.00
349 5 0.00
350 4 0.00
351 6 0.00
352 6 0.00
353 1 0.00
354 3 0.00
355 19 0.01
356 5 0.00
357 2 0.00
359 2 0.00
360 1 0.00
361 5 0.00
362 9 0.00
363 15 0.01
364 2 0.00
365 5 0.00
366 3 0.00
370 1 0.00
373 37 0.02
374 68 0.03
375 21 0.01
376 10 0.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (332 bp):
TTTTCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG
GCTTTTCACGCTTCTAATATCATTTTCCTATTTTTTTCCAAATTAATTTCTAATTAAATCGAAAC
AGGTTTCTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGATGAAT
ATAGACATTTCAAGGAGTCTCGGCGCCAAAAATTATGCAAAACTGAGCCGGGGTCTCGGAACGCG
TTTTTAACAAAAACTGTGATGTATATTACACGATTTCGGCTAAAATTTCGCAAAAACTGACCAGA
AAGATTT
Found at i:11009 original size:319 final size:317
Alignment explanation
Indices: 10521--11426 Score: 902
Period size: 319 Copynumber: 2.8 Consensus size: 317
10511 ATTTTTGGCG
* * * * *
10521 AAAATACTCGTAAAAAATATATAATTCAATGCCAAAAA-AATTGAA-GACCATATCACGATTCTA
1 AAAATACTCGTAAAAAATATATAATTCAACGACAAAAAGAATTGAATGA-CTTTTCA-GCTTCTA
* *** * * * ** *
10584 ATATCATTTTTCCAATTTTTTCTTTATTAATTTCTAATTAAATGGGAACAAGATTGAGATGCTCG
64 ATATCATTTTTCC-TTTTTTTCAAAATTAATTTTTAA-TAAATCGAAACAAGATTCTGATGCTCA
* * * *
10649 TAAAAACAAATCCTTAAATCCAATGTGATTGAGACTTGGTTAGATGAATATAGAAATTTCAAGGA
127 TAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTTAAGGA
* *
10714 GTCTTGGCGCCAAAAATCATGCAAAATTGAGAAGGGG-CTCCGGAATGCGTTTTTAACCAAAAAC
192 GTCTTGGCGCCAAAAATCATGCAAAACTGAGAAGGGGTCT-CGGAATGCATTTTT-ACCAAAAAC
*
10778 CGTCATGGTTACTACACGATTTC-GC-A-AAAACTGA-CAGGAATTTTTTTTTTCG-ATTTCTGA
255 CGTCATGGATACTACACGATTTCGGCAATAAAACTGACCA-GAA-TTTTTTTTT-GAATTTCTGA
10838 C
317 C
* * *
10839 TAAAATACTCGTAAAAAATATATAATTCAACG-CAAAAAGAATTAAATGGCTTTTCAGCTTCCAA
1 -AAAATACTCGTAAAAAATATATAATTCAACGACAAAAAGAATTGAATGACTTTTCAGCTTCTAA
* * *
10903 TATCATCTTTTCCTTTTTTTTCAGAATTAATTTTTAATAAAATCGAAACAAGATTCTGATTCTCT
65 TATCAT-TTTTCC-TTTTTTTCAAAATTAATTTTTAAT-AAATCGAAACAAGATTCTGATGCTCA
**
10968 TAAAAACAAATCCTTAAATCCAATCCGACTGAGATTTGGTTAGATGAATATA-ACTATTTTAAGG
127 TAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGA-TATTTTAAGG
* ** * * *
11032 AGTCTTGGCGCCAAAAATCATGCAAAACTGGGTCGGGGTCTTGGAATGCATTTTTAGCTAAAACC
191 AGTCTTGGCGCCAAAAATCATGCAAAACTGAGAAGGGGTCTCGGAATGCATTTTTACCAAAAACC
* *
11097 GTGATGGATAGTACACGATTTCGGCTAAAATTTCCCTAAAACTGACCAGAATTTTTTTTTGAATT
256 GTCATGGATACTACACGATTTCGGC---AA------TAAAACTGACCAGAATTTTTTTTTGAATT
*
11162 TTTGAC
312 TCTGAC
* * *
11168 AACAATACTTGTAAAAAATATATAATTCAACGACAAAAAG-ATTGGATGACTTTTCCCGCTTCTA
1 AA-AATACTCGTAAAAAATATATAATTCAACGACAAAAAGAATTGAATGACTTTT-CAGCTTCTA
* ** * * ** *
11232 ATATCGA-TTTT-CTTTTTTTAAAAAAAAATTTCTGAATAAATCAAAACCGGTTTCTGATGCTCA
64 ATATC-ATTTTTCCTTTTTTTCAAAATTAATTT-TTAATAAATCGAAACAAGATTCTGATGCTCA
* * * * *
11295 TAAAAACAAATTCTTAAATTCAATGTGACAGAGGTTTGGTTAGATGTATATAGATATTTTAAGGA
127 TAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTTAAGGA
* * ** * * * *
11360 GTCTCGGCGCAAAAAATCATGCAAAACTGAGCCGGAGTCCCTGAATGCATTTTTAGCGAAAAACC
192 GTCTTGGCGCCAAAAATCATGCAAAACTGAGAAGGGGTCTCGGAATGCATTTTTA-CCAAAAACC
11425 GT
256 GT
11427 GATCGTTACA
Statistics
Matches: 488, Mismatches: 72, Indels: 45
0.81 0.12 0.07
Matches are distributed among these distances:
318 47 0.10
319 189 0.39
320 3 0.01
323 1 0.00
327 138 0.28
328 17 0.03
329 60 0.12
330 30 0.06
331 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.33
Consensus pattern (317 bp):
AAAATACTCGTAAAAAATATATAATTCAACGACAAAAAGAATTGAATGACTTTTCAGCTTCTAAT
ATCATTTTTCCTTTTTTTCAAAATTAATTTTTAATAAATCGAAACAAGATTCTGATGCTCATAAA
AACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATATTTTAAGGAGTCT
TGGCGCCAAAAATCATGCAAAACTGAGAAGGGGTCTCGGAATGCATTTTTACCAAAAACCGTCAT
GGATACTACACGATTTCGGCAATAAAACTGACCAGAATTTTTTTTTGAATTTCTGAC
Found at i:11338 original size:327 final size:324
Alignment explanation
Indices: 10641--12091 Score: 1165
Period size: 327 Copynumber: 4.5 Consensus size: 324
10631 ACAAGATTGA
* * * *
10641 GATGCTCGTAAAAACAAATCCTTAAATCCAATGTGATTGAGACTTGGTTAGATGAATATAGAAAT
1 GATGCTCATAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATAT
* ** * *
10706 TTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAATTGAGAAGGGG-CTCCGGAATGCGTTTTTAA
66 TTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGTCT-TGGAATGCATTTTT-A
* * *
10770 CCAAAAACCGTCATGGT-TACTAC-A---C-G-----ATTTCGCAAAAACTGA-CAGGAATTTTT
129 GCAAAAACCGTGATGGTATAC-ACGATTTCGGCTAAAATTTCGC-AAAACTGACCAGGAAGTTTT
*
10823 TTTTTCG-ATTTCTGACTAA-AATACTCGTAAAAAATATATAATTCAACG-CAAAAAGAATTAAA
192 TTTTT-GAATTTTTGAC-AACAATACTCGTAAAAAATATATAATTCAACGACAAAAAG-ATTAAA
* * ** * *
10885 TGGCTTTTCA-GCTTCCAATATCATCTTTTCCTTTTTTTTCAGAATTAATTTTTAATAAAATCGA
254 TGGCTTTTCACGCTTCTAATATCA--TTTT-CTTTTTTTT-AAAAAAAATTCTGAAT-AAATCGA
** *
10949 AACAAGATTCT
314 AACCGGTTTCT
* * **
10960 GATTCTCTTAAAAACAAATCCTTAAATCCAATCCGACTGAGATTTGGTTAGATGAATATA-ACTA
1 GATGCTCATAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGA-TA
* *
11024 TTTTAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGGGTCGGGGTCTTGGAATGCATTTTTAG
65 TTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGTCTTGGAATGCATTTTTAG
* *
11089 CTAAAACCGTGATGGATAGTACACGATTTCGGCTAAAATTTCCCTAAAACTGACCA-GAA-TTTT
130 CAAAAACCGTGATGG-TA-TACACGATTTCGGCTAAAATTTCGC-AAAACTGACCAGGAAGTTTT
* ** *
11152 TTTTTGAATTTTTGACAACAATACTTGTAAAAAATATATAATTCAACGACAAAAAGATTGGATGA
192 TTTTTGAATTTTTGACAACAATACTCGTAAAAAATATATAATTCAACGACAAAAAGATTAAATGG
* * *
11217 CTTTTCCCGCTTCTAATATCGATTTTCTTTTTTTAAAAAAAAATTTCTGAATAAATCAAAACCGG
257 CTTTTCACGCTTCTAATATC-ATTTTCTTTTTTTTAAAAAAAA-TTCTGAATAAATCGAAACCGG
11282 TTTCT
320 TTTCT
* * * * *
11287 GATGCTCATAAAAACAAATTCTTAAATTCAATGTGACAGAGGTTTGGTTAGATGTATATAGATAT
1 GATGCTCATAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATAT
* * * * * *
11352 TTTAAGGAGTCTCGGCGCAAAAAATCATGCAAAACTGAGCCGGAGTCCCT-GAATGCATTTTTAG
66 TTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGT-CTTGGAATGCATTTTTAG
* * * * * * * ** * *
11416 CGAAAAACCGTGATCGT-TACACAATTTTGGCTAAAGTTTTGAAAAAATTGACTTGAAAGATTTT
130 C-AAAAACCGTGATGGTATACACGATTTCGGCTAAAATTTCG-CAAAACTGACCAGGAAGTTTTT
** * * * * * * * * * *
11480 TCCTCAATTTTTGGCCACAATAATCATAAAAAATATAAAATTCAATGCCAAGAAGATTGAATGGC
193 TTTTGAATTTTTGACAACAATACTCGTAAAAAATATATAATTCAACGACAAAAAGATTAAATGGC
* * * *
11545 TTTTTACGCTTCAAATATCATTTTC-----------------CCTGTATAAATCGAAA-CGAGTT
258 TTTTCACGCTTCTAATATCATTTTCTTTTTTTTAAAAAAAATTCTGAATAAATCGAAACCG-GTT
*
11592 TCA
322 TCT
* * * * * ** * * *
11595 GATGCCCGTAGAAACAAATCCTTAAATCCAATGTGGCTGAAATTTAATTAGGTGAATATAAAAAA
1 GATGCTCATAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATAT--AGAT
* * * * * * * *
11660 ATTTCAACGAGTCTTGGTGCAAAAAATCATGCAAAACTAAGTCGGGGCCTCGCAATGCCTTTTTA
64 ATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGTCTTGGAATGCATTTTTA
* * * **
11725 GGCAAAAACCATGATGTTAGTACACGATTTCGACTAAAATTTCGCAGAAACTGACCATCAA-TTT
129 -GCAAAAACCGTGATGGTA-TACACGATTTCGGCTAAAATTTCGCA-AAACTGACCAGGAAGTTT
** *
11789 TTTTTACTGAATTTTTGGTAACAATACTCGTAAAAAATATATAATTCAATGGGA-AAAAAGATTA
191 TTTTT--TGAATTTTTGACAACAATACTCGTAAAAAATATATAATTCAA--CGACAAAAAGATTA
* * * * * *
11853 GAGGGCTTTTCATGCTTCTAATATCGATTTTCTTATTTTTTTGAATAAAATTCTAAATAAATCGA
252 AATGGCTTTTCACGCTTCTAATATC-ATTTTC-T-TTTTTTTAAAAAAAATTCTGAATAAATCGA
*
11918 AACCGGTTTTT
314 AACCGGTTTCT
* * * ** * *
11929 GATCCTCATAGAAACAAATTCTTAAATTTAATGTGGCTGAGATTTGGTTTGATGAATATAGATAT
1 GATGCTCATAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATAT
* * * *
11994 TTCAAGGAGTCTTGGCGCCATAAATCATGCAAAACTGAG-CGGGGTCCCT-GAACGTATTTTTAG
66 TTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGT-CTTGGAATGCATTTTTAG
* *
12057 CGAAAAATCGTGATGGT-TACACTATTTCGGCTAAA
130 C-AAAAACCGTGATGGTATACACGATTTCGGCTAAA
12092 GTTTTGAAAA
Statistics
Matches: 890, Mismatches: 179, Indels: 116
0.75 0.15 0.10
Matches are distributed among these distances:
307 2 0.00
308 64 0.07
309 1 0.00
310 65 0.07
311 8 0.01
312 28 0.03
313 36 0.04
314 28 0.03
315 7 0.01
318 15 0.02
319 109 0.12
320 4 0.00
321 4 0.00
324 1 0.00
325 28 0.03
326 8 0.01
327 201 0.23
328 32 0.04
329 77 0.09
330 37 0.04
331 29 0.03
332 39 0.04
334 65 0.07
335 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (324 bp):
GATGCTCATAAAAACAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATATAGATAT
TTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGTCTTGGAATGCATTTTTAGC
AAAAACCGTGATGGTATACACGATTTCGGCTAAAATTTCGCAAAACTGACCAGGAAGTTTTTTTT
TGAATTTTTGACAACAATACTCGTAAAAAATATATAATTCAACGACAAAAAGATTAAATGGCTTT
TCACGCTTCTAATATCATTTTCTTTTTTTTAAAAAAAATTCTGAATAAATCGAAACCGGTTTCT
Found at i:13227 original size:321 final size:319
Alignment explanation
Indices: 12411--13594 Score: 1216
Period size: 321 Copynumber: 3.7 Consensus size: 319
12401 CAGACGACAG
* *
12411 TACTCGTAAAAAATATATAATTCAACGCCAAAAAAAATTGAAGGGCATTTCACGA-TTCTAATAG
1 TACTCGTAAAAAATATATAATACAACGCC-AAAAAAATTGAAGGGCATTTCAC-ACTTCTAATAT
* * * *
12475 AAATTTTCCA-TTTTTCTTAATTAATTTCTAATTAAATAGAAACAAGATTGAGATGCTTGTA-AA
64 CAATTTTCCATTTTTTCATAATTAATTTCTAATTAAATAGAAAC-AGATTCAGATGCTCGTACAA
* * * * *
12538 AACAAATCCTTAAATCCAATATGGTTA-AGATTTTGTTAGATGAATATAGATATTTCAAGGAGTC
128 AGCAAATCCTTAAATCCAATGTGG-CAGAGATTTGGGTAGATGAATATAGATATTTCAAGGAGTC
* * * * *
12602 TTGGTGCCA-AAAATCATGCAAAACTGA-CACAGGGCTCTGGAACGCGTTTTTAACGA-AAAACC
192 TTGGCG-CAGAAAATCATGCAAAACTGAGC-CGGGGCCCCGGAACGCGTTTTTAGC-ATAAAACC
**** * * *
12664 GTGATTGT-TACTTTTTTTCAGCTAAAGTTTTGAAAATTGTCCCGAAAGATTTT-TCCTCAATTT
254 GTGATTGTATACACGATCTCAGCTAAA-ATTT---CA----CCCGAAA-ATTTTATCCTCAATTT
*
12727 TTGGCCACAA
310 TTGACCACAA
** * * * * * * * **
12737 TACTTATAAAAAATAAAAAAATTCAACGCCAAGAATATTGAAGAGCTTTTCACGTTTCTAATATC
1 TACTCGTAAAAAAT-ATATAATACAACGCCAAAAAAATTGAAGGGCATTTCACACTTCTAATATC
* * * * * *
12802 -GTTTTCCCTATTTTTTTTCCA-AATTAGTTTCTAATTAAATCGAAACCGGTTTCTGATGCTCGT
65 AATTTT-CC-A--TTTTTT-CATAATTAATTTCTAATTAAATAGAAA-CAGATTCAGATGCTCGT
* * *
12865 AGAAA-CAAATCCTTAAATCCAATGTGGCTGAAATTTGGGTAGATGAATATAGATATTTCAAGGA
124 ACAAAGCAAATCCTTAAATCCAATGTGGCAGAGATTTGGGTAGATGAATATAGATATTTCAAGGA
* * * *
12929 GTCTTGGCGTAGAAAATCATGCAAAATTGAGCCGGGGCCCCGGAACGTGTTTTTAGCATAAAACT
189 GTCTTGGCGCAGAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCATAAAACC
*
12994 GTGATTGTAATACACGATCTCGGCTAAAATTTCACCCGAAAATTTTATCCTCAATTTTTGACCAC
254 GTGATTGT-ATACACGATCTCAGCTAAAATTTCACCCGAAAATTTTATCCTCAATTTTTGACCAC
13059 AA
318 AA
* *
13061 TACTCGTAAAAAATATATAATACAATGACAAAAAAATTGAAGGGCATTTCACACTTCTAATATCA
1 TACTCGTAAAAAATATATAATACAACGCCAAAAAAATTGAAGGGCATTTCACACTTCTAATATCA
* * * * *
13126 ATTTTCTTATTTTTTCAGAATTAATTCCTAA-TAACATCGAAACATGATTCTGATGCTCGTA-AA
66 ATTTTC-CATTTTTTCATAATTAATTTCTAATTAA-ATAGAAACA-GATTCAGATGCTCGTACAA
* *
13189 AGCAAATCCTTAAATACAATGTGGCAGAGATTTGGGTAGATGAATATAGATATTTCAATGAGTCT
128 AGCAAATCCTTAAATCCAATGTGGCAGAGATTTGGGTAGATGAATATAGATATTTCAAGGAGTCT
* * * * *
13254 TTGCGCGGAAAATCATGCAAAACTGAGTCGGGGCCCCGGAATGCGTTTTTAGCATAAGACCGTGA
193 TGGCGCAGAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCATAAAACCGTGA
* * *
13319 TTGTTAGTACACGATCTCAGCTAAAATTTCACCCAAAAAATTTATTCTCAATTTTTGACCACAA
258 TTG-TA-TACACGATCTCAGCTAAAATTTCACCCGAAAATTTTATCCTCAATTTTTGACCACAA
* *
13383 TACTCGTAAAAAATATATAATACAATGCCAAAAAATTTGAAGGGCATTTCACACTTCTAATATCA
1 TACTCGTAAAAAATATATAATACAACGCCAAAAAAATTGAAGGGCATTTCACACTTCTAATATCA
* * * * *
13448 TTTTTCCATTTTTTCTTAATTAATTTCT-A--AAATAGAAACCAGATTGAGATGATTGTACAAAG
66 ATTTTCCATTTTTTCATAATTAATTTCTAATTAAATAGAAA-CAGATTCAGATGCTCGTACAAAG
* * ** * * * *
13510 -AAATCCTTAAATCCAATGTGGCTGAGATTCGATTAGATGAATATAGAAATTTCGAGGACTATTG
130 CAAATCCTTAAATCCAATGTGGCAGAGATTTGGGTAGATGAATATAGATATTTCAAGGAGTCTTG
* * *
13574 ACGCAAAAAATTATGCAAAAC
195 GCGCAGAAAATCATGCAAAAC
13595 AAATCCTACA
Statistics
Matches: 724, Mismatches: 107, Indels: 62
0.81 0.12 0.07
Matches are distributed among these distances:
318 88 0.12
319 8 0.01
320 10 0.01
321 176 0.24
322 122 0.17
323 46 0.06
324 42 0.06
325 4 0.01
326 41 0.06
327 14 0.02
328 1 0.00
329 2 0.00
330 149 0.21
331 9 0.01
332 12 0.02
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (319 bp):
TACTCGTAAAAAATATATAATACAACGCCAAAAAAATTGAAGGGCATTTCACACTTCTAATATCA
ATTTTCCATTTTTTCATAATTAATTTCTAATTAAATAGAAACAGATTCAGATGCTCGTACAAAGC
AAATCCTTAAATCCAATGTGGCAGAGATTTGGGTAGATGAATATAGATATTTCAAGGAGTCTTGG
CGCAGAAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCATAAAACCGTGATTG
TATACACGATCTCAGCTAAAATTTCACCCGAAAATTTTATCCTCAATTTTTGACCACAA
Found at i:14483 original size:326 final size:330
Alignment explanation
Indices: 13657--15043 Score: 954
Period size: 333 Copynumber: 4.2 Consensus size: 330
13647 TTTTTGTCAA
* * * * * * *
13657 AATACTCGTAAAAAATATATAATTCAATGCCA--AAAAATATTGAAGGGCTTTTTA-GCTTGTAA
1 AATACTCATAAAAACTATATAATTCAA---CATTAAAAAGATTAAAGGACTTTTCACGCTTCTAA
* * * ** * * *
13719 TATCATTTTTCTTA-TTTTTT-CAGAATTAATTCCTAATAACATCGAAACATGATTCTGATGCTC
63 TATCGTTTCTCCTATTTTTTTCCA-AATTAATTTTTATTAA-ATCGAAACAAGATTCAGATGCTC
* * * * * * * *
13782 GTAAAAGCAAATCCTTAAGTCCAATTTGACTGAGATTTGCTTAGATGAATATAAATATTTCTAGG
126 GTAAAAACATATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGG
* * * * * ** * *
13847 AGTCTTGACGCCGAAAATCATGGAAAACTG-GATCGGGGCCCCGGAAAGCGTTTTTAGCCAAAAA
191 AGTCTCGGCGCCAAAAATCATGCAAAACTGAG-CCGGGAACCCGGAACGCGTTTTTAGCGAAAAA
* * * * * * * * * * * * ** *
13911 CCAT-GATGTATCGTAGACTATTTC-AGCCAAAATTTCGCAAAAGCTGA--CTAAAATTTTTTTT
255 ACGTAAACGTAT-G-ACACGATTTCGA-TC-AGATTTAGCAAAAACAGACCCGAAAA--AATGTT
* * **
13972 TCTCAACTTTTGGTGAC
314 CCTCAATTTTTGGCCAC
* ** * * ** *
13989 AATACTCGTAAAAA-TATATAATTCAACAACAAAAAGGTTAGAGGGTTTTTCACGCTTTTAATAT
1 AATACTCATAAAAACTATATAATTCAACATTAAAAAGATTAAAGGACTTTTCACGCTTCTAATAT
* * * * * * * ** *
14053 CAATTT-TCCTAATTTTTTT--GAATAAATTTCTAAATAAA--GAAACTAGTTTTTGATGCTCAT
66 C-GTTTCTCCT-ATTTTTTTCCAAATTAATTT-TTATTAAATCGAAACAAGATTCAGATGCTCGT
* * * *
14113 AAAAACAAATCCTTAAATTCAATGTGGTTGAGATTTTG-TTAGATGAATATAGAAATTTCAAGGA
128 AAAAACATATCCTTAAATCCAATGTGGCTGAGA-TTTGATTAGATGAATATAGATATTTCAAGGA
* * * * *
14177 GTCTCGGCGCCAAAAATTC-TGTAAAATTGAACCGGGAACCCGGAACGTGTTTTAAGCGGAAAAA
192 GTCTCGGCGCCAAAAA-TCATGCAAAACTGAGCCGGGAACCCGGAACGCGTTTTTAGC-GAAAAA
* * ** * *
14241 A-G-AAACGTAATG-GA-TATTTC-A-C-GATTTCAGCTAAAATTA-ACCTG-AAAGA-GTTCCT
255 ACGTAAACGT-ATGACACGATTTCGATCAGATTT-AGC-AAAAACAGACCCGAAAAAATGTTCCT
14296 CAATTTTTGGCCAC
317 CAATTTTTGGCCAC
* * * * *
14310 AATATTGATAAAAAGTATATAATTCAACATTAAAAAGATTGAAGGGCTTTTCACGCTTC-AACTA
1 AATACTCATAAAAACTATATAATTCAACATTAAAAAGATTAAAGGACTTTTCACGCTTCTAA-TA
* * * ** *
14374 TTGTTTCTCTCTTTTTTTTTCCAAATTAATTTTTGATTAAATCGAAATAAGATTTGGATTCTCGT
65 TCGTTTCTC-CTATTTTTTTCCAAATTAATTTTT-ATTAAATCGAAACAAGATTCAGATGCTCGT
*
14439 AAAAACATATCCTTAAATCCAGTGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAG
128 AAAAACATATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAG
* * * * *
14504 TCTTGGCTCCGAAAATCATGCAAAACTGAGCCAGGGCA-CCGGAACGCGTTTTTTGC-AAAAAAC
193 TCTCGGCGCCAAAAATCATGCAAAACTGAGCC-GGGAACCCGGAACGCGTTTTTAGCGAAAAAAC
* ** * * * *
14567 TGTGATGGTTTGTACACGATTTCGATTCAGATTTTGCAAAAACAGACCCGAAAAAATTTTTCGTC
257 -GTAAACGTATG-ACACGATTTCGA-TCAGATTTAGCAAAAACAGACCCGAAAAAA-TGTTCCTC
* *
14632 AATTTTTGGTCAT
318 AATTTTTGGCCAC
*
14645 AATACTCATAAAAACTATATAATTCAACATTAAAAATATTAAAGGACTTTTCACGCTTCTAATAT
1 AATACTCATAAAAACTATATAATTCAACATTAAAAAGATTAAAGGACTTTTCACGCTTCTAATAT
* * * *
14710 CGTTTTTCCTATTTTTTTCCATATTAATTTTTATTTAATCGAAACAAGGTTCAGATGCTCGTAAA
66 CGTTTCTCCTATTTTTTTCCAAATTAATTTTTATTAAATCGAAACAAGATTCAGATGCTCGTAAA
* * * *
14775 AACATATTCTGAAATCCAAAGTGGCTGATATTTGATTAGATGAATATAGATATTTCAAGGAGTC-
131 AACATATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCT
* *
14839 CAGGCGCCAAAAATCATGCAAAACTGAGCCGGGATCCCGGAACGCGTTTTTAGC-AGAAAACTGT
196 C-GGCGCCAAAAATCATGCAAAACTGAGCCGGGAACCCGGAACGCGTTTTTAGCGAAAAAAC-GT
* * * * * * * **
14903 GATA-GT-TAGTACACGATTTCGGTTCAAATTTTGCAAAAACTGATCCGAAAAAATTCTTGATCA
259 -AAACGTAT-G-ACACGATTTC-GATCAGATTTAGCAAAAACAGACCCGAAAAAA-TGTTCCTCA
14966 ATTTTTGGCCAC
319 ATTTTTGGCCAC
* * ** * * * * *
14978 AATACTCATAAAAAATATATAATTCAGCACCAAAAACATTGAACGATTTTTCACGCTTCGAATAT
1 AATACTCATAAAAACTATATAATTCAACATTAAAAAGATTAAAGGACTTTTCACGCTTCTAATAT
15043 C
66 C
15044 ATTTTCATGT
Statistics
Matches: 846, Mismatches: 160, Indels: 97
0.77 0.15 0.09
Matches are distributed among these distances:
321 31 0.04
322 53 0.06
323 6 0.01
324 27 0.03
325 6 0.01
326 119 0.14
327 9 0.01
328 3 0.00
329 117 0.14
330 30 0.04
331 39 0.05
332 35 0.04
333 268 0.32
334 23 0.03
335 78 0.09
336 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (330 bp):
AATACTCATAAAAACTATATAATTCAACATTAAAAAGATTAAAGGACTTTTCACGCTTCTAATAT
CGTTTCTCCTATTTTTTTCCAAATTAATTTTTATTAAATCGAAACAAGATTCAGATGCTCGTAAA
AACATATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCT
CGGCGCCAAAAATCATGCAAAACTGAGCCGGGAACCCGGAACGCGTTTTTAGCGAAAAAACGTAA
ACGTATGACACGATTTCGATCAGATTTAGCAAAAACAGACCCGAAAAAATGTTCCTCAATTTTTG
GCCAC
Found at i:14824 original size:333 final size:333
Alignment explanation
Indices: 14295--15048 Score: 1021
Period size: 333 Copynumber: 2.3 Consensus size: 333
14285 AAAGAGTTCC
* * * * *
14295 TCAATTTTTGGCCACAATATTGATAAAAAGTATATAATTCAACATTAAAAAGATTGAAGGGCTTT
1 TCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACATTAAAAACATTGAAGGACTTT
* * * *
14360 TCACGCTTCAACTATTGTTTCTCTCTTTTTTTTTCCAAATTAATTTTTGATTAAATCGAAATAAG
66 TCACGCTTCAA-TATCGTTTTTCTCTATTTTTTTCCAAATTAATTTTTGATTAAATCGAAACAAG
** * * **
14425 ATTTGGATTCTCGTAAAAACATATCCTTAAATCCAGTGTGGCTGAGATTTGATTAGATGAATATA
130 ATTCAGATGCTCGTAAAAACATATCCTGAAATCCAAAGTGGCTGAGATTTGATTAGATGAATATA
** * *
14490 GATATTTCAAGGAGTCTTGGCTCCGAAAATCATGCAAAACTGAGCCAGGG-CACCGGAACGCGTT
195 GATATTTCAAGGAGTCCAGGCGCCAAAAATCATGCAAAACTGAGCC-GGGAC-CCGGAACGCGTT
* * * *
14554 TTTTGCAAAAAACTGTGATGGTTTGTACACGATTTCGATTCAGATTTTGCAAAAACAGACCCGAA
258 TTTAGCAAAAAACTGTGATAGTTAGTACACGATTTCGATTCAAATTTTGCAAAAACAGACCCGAA
*
14619 AAAATTTTTCG-
323 AAAATTCTT-GA
* * * * *
14630 TCAATTTTTGGTCATAATACTCATAAAAACTATATAATTCAACATTAAAAATATTAAAGGACTTT
1 TCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACATTAAAAACATTGAAGGACTTT
* *
14695 TCACGCTTCTAATATCGTTTTTC-CTATTTTTTTCCATATTAATTTTT-ATTTAATCGAAACAAG
66 TCACGCTTC-AATATCGTTTTTCTCTATTTTTTTCCAAATTAATTTTTGATTAAATCGAAACAAG
* * *
14758 GTTCAGATGCTCGTAAAAACATATTCTGAAATCCAAAGTGGCTGATATTTGATTAGATGAATATA
130 ATTCAGATGCTCGTAAAAACATATCCTGAAATCCAAAGTGGCTGAGATTTGATTAGATGAATATA
14823 GATATTTCAAGGAGTCCAGGCGCCAAAAATCATGCAAAACTGAGCCGGGATCCCGGAACGCGTTT
195 GATATTTCAAGGAGTCCAGGCGCCAAAAATCATGCAAAACTGAGCCGGGA-CCCGGAACGCGTTT
* * * *
14888 TTAGCAGAAAACTGTGATAGTTAGTACACGATTTCGGTTCAAATTTTGCAAAAACTGATCCGAAA
259 TTAGCAAAAAACTGTGATAGTTAGTACACGATTTCGATTCAAATTTTGCAAAAACAGACCCGAAA
14953 AAATTCTTGA
324 AAATTCTTGA
* ** * *
14963 TCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAGCACCAAAAACATTGAACGATTTT
1 TCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACATTAAAAACATTGAAGGACTTT
*
15028 TCACGCTTCGAATATCATTTT
66 TCACGCTTC-AATATCGTTTT
15049 CATGTTTTTT
Statistics
Matches: 367, Mismatches: 48, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
332 4 0.01
333 263 0.72
334 23 0.06
335 75 0.20
336 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (333 bp):
TCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAACATTAAAAACATTGAAGGACTTT
TCACGCTTCAATATCGTTTTTCTCTATTTTTTTCCAAATTAATTTTTGATTAAATCGAAACAAGA
TTCAGATGCTCGTAAAAACATATCCTGAAATCCAAAGTGGCTGAGATTTGATTAGATGAATATAG
ATATTTCAAGGAGTCCAGGCGCCAAAAATCATGCAAAACTGAGCCGGGACCCGGAACGCGTTTTT
AGCAAAAAACTGTGATAGTTAGTACACGATTTCGATTCAAATTTTGCAAAAACAGACCCGAAAAA
ATTCTTGA
Done.