Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008588.1 Hibiscus syriacus cultivar Beakdansim tig00111533_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63769
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Found at i:923 original size:188 final size:196
Alignment explanation
Indices: 507--1987 Score: 1507
Period size: 188 Copynumber: 7.7 Consensus size: 196
497 TTTTAAAATG
** * * * * * *
507 GTATCGACAC-AAATTTTACAATTGTCGATACTTTATGCT-GACCTATTTTCTCATAAAACTGTT
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATG-TAGACCTATTCTC-CATAAAACCGGT
* * * * *
570 ATATTTATACCTGTTACATTGAAATTTACATATTACA-TATAA-TATCGATTTCGATATTTTTGG
64 ATATTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCG--ATGTTTGG
* * *
633 GATCGAAACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGACATTCTTTCTGGA
127 GATCGACACTTTTTAAAAATGTATCGACACTTTAT-GGTGCACCCTTTTGGGCATTCATTCTGGA
698 CAAAAA
191 CAAAAA
*
704 GTATCGACAC-AAATTCC-AAAGTGTCGATACATT-TGTAGACCTATTCT-CAT-AAACTGGTAT
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCCATAAAACCGGTAT
**
764 ATTTATACCGGTTACATTG-AATTTACCTATTACATTAT-ATTATTTGTTTCGAT-TTT-GGATC
66 ATTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTGGGATC
* *
825 GACACTTTTTAAAAATG-ATCGATACTTTATGGTGCACCCTTTTGGGCATTCCTTCTGGACAAAA
131 GACACTTTTTAAAAATGTATCGACACTTTATGGTGCACCCTTTTGGGCATTCATTCTGGACAAAA
889 A
196 A
* * * *
890 GTATCGATACAAAATTCCACAAGTGTCGATACA-TATTTAGA-CTATTTTCTCATAAAACCGGTA
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTC-CATAAAACCGGTA
* ** *
953 TATTT-TACCGATTACATTGAAATTTA-CTATTACATTATAATTATCTGTTTCGAT-TTTTGGAT
65 TATTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTGGGAT
* * *
1015 CGACAC-TTTTAAAAATGTATTGACACTTTATGGGTGCACCTTTTTGGGCATTCCTTCTGGAC-A
130 CGACACTTTTTAAAAATGTATCGACACTTTAT-GGTGCACCCTTTTGGGCATTCATTCTGGACAA
1078 AAA
194 AAA
* * * * *
1081 GTATCGAAATAAAA-T--ACATGTGTCGATACATT-T-TAGA-CTATTCTCGCATAAAACCGATA
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTC-CATAAAACCGGTA
* * *
1140 TATTTATACCGGTTACATTGAAAATTACCTATTACATTATAATCAT-GGTTTCGATGTAGCTGGG
65 TATTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGT--TTGGG
* ** *
1204 ATCGATAC-TTTTCCAAATGTATCGACACTTTATGCGTGCACCATTTTTTTGGGCATTCATTCTG
128 ATCGACACTTTTTAAAAATGTATCGACACTTTATG-GTGCACC---CTTTTGGGCATTCATTCTG
*
1268 GACAAAAT
189 GACAAAAA
* * *
1276 GTATCAACACAAAATT-TAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATC-GTA
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTC-CATAAAACCGGTA
* * * ** *
1339 TA-TTATACCGGTTATATTACAAAATTGTCT-TT-TATTAT-ATTATGGGTTTCGATGTCTTGGG
65 TATTTATACCGGTTACATT-GAAATTTACCTATTACATTATAATTATGGGTTTCGATGT-TTGGG
* * *
1400 ATCGACACTTTTTAAAAATG-CTCGACACTTTATGCTTCA----TTTGGGCATTCATTCTGGACA
128 ATCGACACTTTTTAAAAATGTATCGACACTTTATGGTGCACCCTTTTGGGCATTCATTCTGGACA
1460 AAAA
193 AAAA
* * * * * * ****
1464 TTATCGACAC-CAATTTCAAAAGTGTCAATGCATTATGTAGATCTATTCTCACATAAAACATACA
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTC-CATAAAACCGGTA
* *
1528 TATTTATA-C-GTTACATTTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTCTCTGGG
65 TATTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGT-T-TGGG
* *
1591 ATCGACACTTTTAAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGAC
128 ATCGACACTTTTTAAAAATGTATCGACACTTTAT-GGTGCACCCTTTTGGGCATTCATTCTGGAC
*
1656 AAACA
192 AAAAA
* *
1661 -TATCGACAC-AAATTCCAGAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTC-CATAAAACCGGTA
* * * * *
1724 TAGTTATACCGGTTACATTGTAATTTA-C-ATAACATTATAATTATGGGTTTTGATATTTCAGGG
65 TATTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT--GGG
* * * *
1787 ATCGATACTTTTT-ATAATGTATCG-CACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGAC
128 ATCGACACTTTTTAAAAATGTATCGACACTTTATG-GTGCACCCTTTTGGGCATTCATTCTGGAC
1850 AAAAA
192 AAAAA
* * * *
1855 GTATCAACAC-CAATTTCAAAAGTGTCGATACATTATGTAAACCTATTCTCACATAAAACCGGTA
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTC-CATAAAACCGGTA
* * * * * *
1919 TATTTATACC-GATATATTACAAAATTACCCATTACATTATAATTATGGGGTTCGATGTTTTTGG
65 TATTTATACCGGTTACATT-GAAATTTACCTATTACATTATAATTATGGGTTTCGATG--TTTGG
1983 GATCG
127 GATCG
1988 TTCGATGTTT
Statistics
Matches: 1097, Mismatches: 130, Indels: 114
0.82 0.10 0.09
Matches are distributed among these distances:
186 42 0.04
187 66 0.06
188 160 0.15
189 59 0.05
190 75 0.07
191 114 0.10
192 79 0.07
193 8 0.01
194 67 0.06
195 109 0.10
196 142 0.13
197 110 0.10
198 31 0.03
199 19 0.02
200 16 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (196 bp):
GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCCATAAAACCGGTAT
ATTTATACCGGTTACATTGAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTGGGATC
GACACTTTTTAAAAATGTATCGACACTTTATGGTGCACCCTTTTGGGCATTCATTCTGGACAAAA
A
Found at i:1543 original size:386 final size:383
Alignment explanation
Indices: 507--1976 Score: 1511
Period size: 386 Copynumber: 3.8 Consensus size: 383
497 TTTTAAAATG
** * * * * * *
507 GTATCGACAC-AAATTTTACAATTGTCGATACTTTATGCT-GACCTATTTTCTCATAAAACTGTT
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATG-TAGACCTATTCTCTCATAAAACCGGT
* * *
570 ATATTTATACCTGTTACATTGAAATTTACATATTACA-TATAA-TATCGATTTCGATATTTTTGG
65 ATA-TTATACCGGTTACATTGAAATTTAC-T-TT-CATTATAATTATGGGTTTCG--A-TTTTGG
* * * *
633 GATCGAAACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGACATTCTTTCTGGA
123 GATCGACACTTTTTAAAAATGTATCGACACTTTATGGCTGCA--C-TTTGGGCATTCATTCTGGA
* *
698 CAAAAAGTATCGACA-CAAATTCCAAAGTGTCGATACATTTGTAGACCTATTCT--CAT-AAACT
185 CAAAAAGTATCGACACCAAATTCAAAAGTGTCGATACATTTGTAGACCTATTCTCACATAAAACC
* * ** *
759 GGTATATTTATACCGGTTACATTG-AATTTACCTATTACATTAT-ATTATTTGTTTCGAT-T-TT
250 GATATATTTATACCGGTTACATTGAAAATTACCTATTACATTATAATTATGGGTTTCGATGTCTG
*
820 GGATCGACACTTTTTAAAAATG-ATCGATACTTTATGGTGCACCCTTTTGGGCATTCCTTCTGGA
315 GGATCGACAC-TTTTAAAAATGTATCGACACTTTATGGTGCACCCTTTTGGGCATTCCTTCTGGA
884 CAAAAA
379 C-AAAA
* * * *
890 GTATCGATACAAAATTCCACAAGTGTCGATACA-TATTTAGA-CTATTTTCTCATAAAACCGGTA
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
* * ** *
953 TATTTTACCGATTACATTGAAATTTACTATTACATTATAATTATCTGTTTCGATTTTTGGATCGA
66 TATTATACCGGTTACATTGAAATTTACT-TT-CATTATAATTATGGGTTTCGATTTTGGGATCGA
* * *
1018 CAC-TTTTAAAAATGTATTGACACTTTATGGGTGCACCTTTTTGGGCATTCCTTCTGGAC-AAAA
129 CACTTTTTAAAAATGTATCGACACTTTATGGCTGCA-C--TTTGGGCATTCATTCTGGACAAAAA
** * * * *
1081 GTATCGA-AATAAAAT-ACATGTGTCGATACATTT-TAGA-CTATTCTCGCATAAAACCGATATA
191 GTATCGACACCAAATTCAAAAGTGTCGATACATTTGTAGACCTATTCTCACATAAAACCGATATA
*
1142 TTTATACCGGTTACATTGAAAATTACCTATTACATTATAATCAT-GGTTTCGATGTAGCTGGGAT
256 TTTATACCGGTTACATTGAAAATTACCTATTACATTATAATTATGGGTTTCGATGT--CTGGGAT
* ** * *
1206 CGATACTTTTCCAAATGTATCGACACTTTATGCGTGCACCATTTTTTTGGGCATTCATTCTGGAC
319 CGACACTTTTAAAAATGTATCGACACTTTATG-GTGCACC---CTTTTGGGCATTCCTTCTGGAC
1271 AAAA
380 AAAA
* * * *
1275 TGTATCAACACAAAATT-TAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATC-GT
1 -GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGT
* * *
1338 ATATTATACCGGTTATATTACAAAATTGT-CTTTTATTAT-ATTATGGGTTTCGATGTCTTGGGA
65 ATATTATACCGGTTACATT--GAAATT-TACTTTCATTATAATTATGGGTTTCGAT-T-TTGGGA
* *
1401 TCGACACTTTTTAAAAATG-CTCGACACTTTAT-GCTTCA-TTTGGGCATTCATTCTGGACAAAA
125 TCGACACTTTTTAAAAATGTATCGACACTTTATGGCTGCACTTTGGGCATTCATTCTGGACAAAA
* * * * * ** *
1463 ATTATCGACACCAATTTCAAAAGTGTCAATGCATTATGTAGATCTATTCTCACATAAAACATACA
190 AGTATCGACACCAAATTCAAAAGTGTCGATACATT-TGTAGACCTATTCTCACATAAAACCGATA
*
1528 TATTTATA-C-GTTACATTTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTCTCTGGG
254 TATTTATACCGGTTACATTGAAAATTACCTATTACATTATAATTATGGGTTTCGATG--TCTGGG
1591 ATCGACACTTTTAAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGAC
317 ATCGACACTTTT-AAAAATGTATCGACACTTTAT-GGTGCACCCTTTTGGGCATTCCTTCTGGAC
1656 AAACA
380 AAA-A
* *
1661 -TATCGACAC-AAATTCCAGAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
1 GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
* ** *
1724 TAGTTATACCGGTTACATTGTAATTTACATAACATTATAATTATGGGTTTTGATATTTCAGGGAT
66 TA-TTATACCGGTTACATTGAAATTTAC-TTTCATTATAATTATGGGTTTCGAT-TTT--GGGAT
* * *
1789 CGATACTTTTT-ATAATGTATCG-CACTTTAT-GCGTTCACCATTTTGGGCATTCATTCTGGACA
126 CGACACTTTTTAAAAATGTATCGACACTTTATGGC-TGCA-C--TTTGGGCATTCATTCTGGACA
* * *
1851 AAAAGTATCAACACCAATTTCAAAAGTGTCGATACATTATGTAAACCTATTCTCACATAAAACCG
187 AAAAGTATCGACACCAAATTCAAAAGTGTCGATACATT-TGTAGACCTATTCTCACATAAAACCG
* * * * * *
1916 GTATATTTATACC-GATATATTACAAAATTACCCATTACATTATAATTATGGGGTTCGATGT
251 ATATATTTATACCGGTTACATT-GAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
1977 TTTTGGGATC
Statistics
Matches: 922, Mismatches: 108, Indels: 106
0.81 0.10 0.09
Matches are distributed among these distances:
374 7 0.01
375 4 0.00
376 19 0.02
377 44 0.05
378 76 0.08
379 18 0.02
380 8 0.01
381 36 0.04
382 74 0.08
383 37 0.04
384 74 0.08
385 80 0.09
386 149 0.16
387 93 0.10
388 70 0.08
389 3 0.00
391 88 0.10
392 7 0.01
393 35 0.04
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (383 bp):
GTATCGACACAAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
TATTATACCGGTTACATTGAAATTTACTTTCATTATAATTATGGGTTTCGATTTTGGGATCGACA
CTTTTTAAAAATGTATCGACACTTTATGGCTGCACTTTGGGCATTCATTCTGGACAAAAAGTATC
GACACCAAATTCAAAAGTGTCGATACATTTGTAGACCTATTCTCACATAAAACCGATATATTTAT
ACCGGTTACATTGAAAATTACCTATTACATTATAATTATGGGTTTCGATGTCTGGGATCGACACT
TTTAAAAATGTATCGACACTTTATGGTGCACCCTTTTGGGCATTCCTTCTGGACAAAA
Found at i:1839 original size:579 final size:571
Alignment explanation
Indices: 507--1974 Score: 1745
Period size: 579 Copynumber: 2.5 Consensus size: 571
497 TTTTAAAATG
* * * * *
507 GTATCGACACAAATTTTACAATTGTCGATACTTTATGCT-GACCTATTTTCTCATAAAACTGTTA
1 GTATCGACACAAA--TTACAAGTGTCGATACATTATG-TAGACCTATTCTCTCATAAAACCGATA
* * *
571 TATTTATACCTGTTACATTGAAATTTACATATTACA-TATAA-TATCGATTTCGATATTTTTGGG
63 TATTTATACCGGTTACATTGAAATTTACATA--ACATTATAATTAT-GGTTTCGATATTTCTGGG
* * * * *
634 ATCGAAACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGACATTCTTTCTGGAC
125 ATCGATACTTTTT--AAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGAC
* ** * *
699 AAAAAGTATCGACACAAATTCCAAAGTGTCGATACATT-TGTAGACCTATTCT--CATAAACTGG
188 AAAAAGTATCAACACAAATTTAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCG
* * * **
761 TATATTTATACCGGTTACATT--GAATTTACCTATTACATTATATTATTTGTTTCGATTTTGGAT
253 TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTATGGGTTTCGATTTTGGAT
* * *
824 CGACACTTTTTAAAAATGATCGATACTTTATGGTGCACCCTTTTGGGCATTCCTTCTGGACAAAA
318 CGACACTTTTTAAAAATGATCGACACTTTATGCTGCA--C-TTTGGGCATTCATTCTGGACAAAA
* * * * * * * **
889 AGTATCGATACAAAATTCCACAAGTGTCGATACATATTTAGACTATTTTCTCATAAAACCGGTAT
380 AGTATCGACACAAAATTCCAAAAGTGTCAATACATATGTAGACTATTCTCACATAAAACAGACAT
* * *
954 ATTTTACCGATTACATTGAAATTTACTATTACATTATAATTATCTGTTTCGATTTTTGGATCGAC
445 ATTTTACCGATTACATTGAAAATTACTATTACATTATAATTATCGGTTTCGATTTTGGGATCGAC
* *
1019 ACTTTTAAAAATGTATTGACACTTTATGGGTGCACCTTTTTGGGCATTCCTTCTGGACAAAA
510 ACTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGACAAAA
* * * * *
1081 GTATCGAAATAAAATACATGTGTCGATACATT-T-TAGA-CTATTCTCGCATAAAACCGATATAT
1 GTATCGACACAAATTACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATATAT
* * * * **
1143 TTATACCGGTTACATTGAAAATTACCTATTACATTATAATCATGGTTTCGATGTAGCTGGGATCG
66 TTATACCGGTTACATTGAAATTTA-C-ATAACATTATAATTATGGTTTCGATATTTCTGGGATCG
*
1208 ATACTTTTCCAAATGTATCGACACTTTATGCGTGCACCATTTTTTTGGGCATTCATTCTGGACAA
129 ATACTTTT-TAAATGTATCGACACTTTATGCGTGCACCA---TTTTGGGCATTCATTCTGGACAA
*
1273 AATGTATCAACACAAAATTTAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGT
190 AAAGTATCAACAC-AAATTTAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGT
** *
1338 ATA-TTATACCGGTTATATTACAAAATTGTCT-TT-TATTATATTATGGGTTTCGATGTCTTGGG
254 ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTATGGGTTTCGAT-T-TT-GG
* *
1400 ATCGACACTTTTTAAAAATGCTCGACACTTTATGCTTCA-TTTGGGCATTCATTCTGGACAAAAA
316 ATCGACACTTTTTAAAAATGATCGACACTTTATGCTGCACTTTGGGCATTCATTCTGGACAAAAA
* * * * *
1464 TTATCGACAC-CAATTTCAAAAGTGTCAATGCATTATGTAGATCTATTCTCACATAAAACATACA
381 GTATCGACACAAAATTCCAAAAGTGTCAATACA-TATGTAGA-CTATTCTCACATAAAACAGACA
* *
1528 TATTTATA-CG-TTACATTTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTCTCTGGG
444 TATTT-TACCGATTACATTGAAAATTA-CTATTACATTATAATTATCGGTTTCGAT-T-T-TGGG
1591 ATCGACACTTTTAAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGAC
504 ATCGACACTTTT-AAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGAC
1656 AAACA
568 AAA-A
* * *
1661 -TATCGACACAAATTCCAGAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT
1 GTATCGACACAAATT--ACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATAT
* * * *
1725 AGTTATACCGGTTACATTGTAATTTACATAACATTATAATTATGGGTTTTGATATTTCAGGGATC
64 ATTTATACCGGTTACATTGAAATTTACATAACATTATAATTAT-GGTTTCGATATTTCTGGGATC
*
1790 GATACTTTTTATAATGTATCG-CACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAA
128 GATACTTTTTA-AATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAA
* * *
1854 AGTATCAACACCAATTTCAAAAGTGTCGATACATTATGTAAACCTATTCTCACATAAAACCGGTA
192 AGTATCAACACAAATTT-AAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATC-GTA
* * *
1919 TATTTATACC-GATATATTACAAAATTACCCATTACATTATAATTATGGGGTTCGAT
255 TATTTATACCGGTTATATTACAAAATTACCTATTACATTAT-ATTATGGGTTTCGAT
1975 GTTTTTGGGA
Statistics
Matches: 759, Mismatches: 95, Indels: 71
0.82 0.10 0.08
Matches are distributed among these distances:
569 74 0.10
570 32 0.04
571 5 0.01
572 47 0.06
573 38 0.05
574 77 0.10
575 82 0.11
576 18 0.02
577 9 0.01
578 57 0.08
579 140 0.18
580 22 0.03
581 23 0.03
582 38 0.05
583 53 0.07
584 44 0.06
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (571 bp):
GTATCGACACAAATTACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATATAT
TTATACCGGTTACATTGAAATTTACATAACATTATAATTATGGTTTCGATATTTCTGGGATCGAT
ACTTTTTAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTA
TCAACACAAATTTAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGTATATTTA
TACCGGTTATATTACAAAATTACCTATTACATTATATTATGGGTTTCGATTTTGGATCGACACTT
TTTAAAAATGATCGACACTTTATGCTGCACTTTGGGCATTCATTCTGGACAAAAAGTATCGACAC
AAAATTCCAAAAGTGTCAATACATATGTAGACTATTCTCACATAAAACAGACATATTTTACCGAT
TACATTGAAAATTACTATTACATTATAATTATCGGTTTCGATTTTGGGATCGACACTTTTAAAAA
TGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGACAAAA
Found at i:2000 original size:18 final size:19
Alignment explanation
Indices: 1968--2005 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
1958 TAATTATGGG
1968 GTTCGATGTTTTTGGGATC
1 GTTCGATGTTTTTGGGATC
1987 GTTCGATG-TTTTGGGATC
1 GTTCGATGTTTTTGGGATC
2005 G
1 G
2006 ATACTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.11, C:0.11, G:0.34, T:0.45
Consensus pattern (19 bp):
GTTCGATGTTTTTGGGATC
Found at i:2395 original size:18 final size:18
Alignment explanation
Indices: 2372--2410 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2362 CATTCACATA
2372 AAATTATAAATCGTATAC
1 AAATTATAAATCGTATAC
*
2390 AAATTATAAATCTTATAC
1 AAATTATAAATCGTATAC
2408 AAA
1 AAA
2411 ATTAACCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (18 bp):
AAATTATAAATCGTATAC
Found at i:4186 original size:32 final size:32
Alignment explanation
Indices: 4143--4232 Score: 144
Period size: 32 Copynumber: 2.8 Consensus size: 32
4133 CCATCTTAAG
*
4143 TTCACCCCTCAACACCTCAATTTCTTTCACCAC
1 TTCA-CCCTCAACACCTCAACTTCTTTCACCAC
*
4176 TTCACCCTCAACACTTCAACTTCTTTCACCAC
1 TTCACCCTCAACACCTCAACTTCTTTCACCAC
*
4208 TTCACCCTCAGCACCTCAACTTCTT
1 TTCACCCTCAACACCTCAACTTCTT
4233 CATCACTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 49 0.92
33 4 0.08
ACGTcount: A:0.23, C:0.44, G:0.01, T:0.31
Consensus pattern (32 bp):
TTCACCCTCAACACCTCAACTTCTTTCACCAC
Found at i:4210 original size:18 final size:18
Alignment explanation
Indices: 4159--4211 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
4149 CCTCAACACC
*
4159 TCAATTTCTTTCACCACT
1 TCAACTTCTTTCACCACT
* *
4177 TC-AC--C-CTCAACACT
1 TCAACTTCTTTCACCACT
4191 TCAACTTCTTTCACCACT
1 TCAACTTCTTTCACCACT
4209 TCA
1 TCA
4212 CCCTCAGCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 8
0.67 0.13 0.21
Matches are distributed among these distances:
14 9 0.35
15 3 0.12
17 2 0.08
18 12 0.46
ACGTcount: A:0.25, C:0.40, G:0.00, T:0.36
Consensus pattern (18 bp):
TCAACTTCTTTCACCACT
Found at i:4297 original size:21 final size:21
Alignment explanation
Indices: 4273--4337 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
4263 CCCCTTATTC
**
4273 CTCTCAAGCGTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4294 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4315 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4336 CT
1 CT
4338 TGATTGTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.14, C:0.35, G:0.11, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:9389 original size:60 final size:60
Alignment explanation
Indices: 9331--9701 Score: 406
Period size: 60 Copynumber: 6.2 Consensus size: 60
9321 CCATAGCCAG
9331 CACCACAGCCGCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACAGCCACCAGC
1 CACCACAGCCGCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCCA-C-CA-CCACCA-C
9395 ACAACCACCA-CAACTGCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCA-CA
1 -C-ACCA-CAGC--C-GCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCACCA
9458 -
60 C
*
9458 -A-C-C-G-C-C-GCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCACAAC
1 CACCACAGCCGCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCACCAC
* * *
9511 CGCCACAACCG-TGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCACAAC
1 CACCACAGCCGCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCACCAC
* * *
9570 CGCCACAGCCGCCGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCACAAC
1 CACCACAGCCGCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCACCAC
* * * * * * ** *
9630 CGCCACTGCCGCTACTCTTCACCATGTTTCCACATCCGGCACCACAACCACCA-CAGCCAC
1 CACCACAGCCGCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCA-CCAC
*
9690 CACCACAACCGC
1 CACCACAGCCGC
9702 CACAGCCGCT
Statistics
Matches: 271, Mismatches: 18, Indels: 39
0.83 0.05 0.12
Matches are distributed among these distances:
51 43 0.16
52 2 0.01
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 60 0.22
60 104 0.38
65 3 0.01
66 8 0.03
67 4 0.01
68 2 0.01
69 40 0.15
ACGTcount: A:0.28, C:0.50, G:0.09, T:0.13
Consensus pattern (60 bp):
CACCACAGCCGCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCCACCACCACCAC
Found at i:9442 original size:51 final size:51
Alignment explanation
Indices: 9398--9633 Score: 301
Period size: 51 Copynumber: 4.3 Consensus size: 51
9388 CACCAGCACA
* *
9398 ACCACCACAACTGCTGCTATTCACCATGCTTCCACAACCTCCACCACAGCC
1 ACCACCACAACCGCCGCTATTCACCATGCTTCCACAACCTCCACCACAGCC
9449 ACCACCACAACCGCCGCTATTCACCATGCTTCCACAACCTCCACCACAGCC
1 ACCACCACAACCGCCGCTATTCACCATGCTTCCACAACCTCCACCACAGCC
9500 ACCACCACAACCGCCACAACCGTGCTATTCACCATGCTTCCACAACCTCCACCACAGCC
1 ACCACCACAACCG------CC--GCTATTCACCATGCTTCCACAACCTCCACCACAGCC
9559 ACCACCACAACCGCCACAGCCGCCGCTATTCACCATGCTTCCACAACCTCCACCACAGCC
1 ACCA-C-C-A----CA-A-CCGCCGCTATTCACCATGCTTCCACAACCTCCACCACAGCC
9619 ACCACCACAACCGCC
1 ACCACCACAACCGCC
9634 ACTGCCGCTA
Statistics
Matches: 166, Mismatches: 2, Indels: 34
0.82 0.01 0.17
Matches are distributed among these distances:
51 67 0.40
52 1 0.01
53 2 0.01
57 3 0.02
58 1 0.01
59 41 0.25
60 41 0.25
61 1 0.01
62 3 0.02
66 2 0.01
67 1 0.01
68 3 0.02
ACGTcount: A:0.28, C:0.50, G:0.08, T:0.13
Consensus pattern (51 bp):
ACCACCACAACCGCCGCTATTCACCATGCTTCCACAACCTCCACCACAGCC
Found at i:9684 original size:21 final size:21
Alignment explanation
Indices: 9669--9708 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9659 CCACATCCGG
9669 CACCACAACCACCACAGCCAC
1 CACCACAACCACCACAGCCAC
*
9690 CACCACAACCGCCACAGCC
1 CACCACAACCACCACAGCC
9709 GCTGCTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.57, G:0.07, T:0.00
Consensus pattern (21 bp):
CACCACAACCACCACAGCCAC
Found at i:9687 original size:69 final size:69
Alignment explanation
Indices: 9608--9752 Score: 254
Period size: 69 Copynumber: 2.1 Consensus size: 69
9598 TCCACAACCT
* *
9608 CCACCACAGCCACCACCACAACCGCCACTGCCGCTACTCTTCACCATGTTTCCACATCCGGCACC
1 CCACCACAGCCACCACCACAACCGCCACAGCCGCTACTCTTCACCACGTTTCCACATCCGGCACC
9673 ACAA
66 ACAA
* *
9677 CCACCACAGCCACCACCACAACCGCCACAGCCGCTGCTCTTCATCACGTTTCCACATCCGGCACC
1 CCACCACAGCCACCACCACAACCGCCACAGCCGCTACTCTTCACCACGTTTCCACATCCGGCACC
9742 ACAA
66 ACAA
9746 CCACCAC
1 CCACCAC
9753 TTTTACAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.26, C:0.50, G:0.10, T:0.13
Consensus pattern (69 bp):
CCACCACAGCCACCACCACAACCGCCACAGCCGCTACTCTTCACCACGTTTCCACATCCGGCACC
ACAA
Found at i:14505 original size:32 final size:33
Alignment explanation
Indices: 14419--14511 Score: 104
Period size: 32 Copynumber: 2.9 Consensus size: 33
14409 AAATTTGAAA
* * *
14419 AGTTATAAAATGGTCATTAAAC-TTATC-ATTT
1 AGTTACAAAATGATCATTAAACTTTATCAAATT
* * *
14450 CGTTAC-AAATAATCATTATACTTTATCAAATT
1 AGTTACAAAATGATCATTAAACTTTATCAAATT
14482 AG-TACAAAATGATCATTAAACTTTATCAAA
1 AGTTACAAAATGATCATTAAACTTTATCAAA
14512 CTACTATATA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
30 12 0.24
31 12 0.24
32 26 0.52
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (33 bp):
AGTTACAAAATGATCATTAAACTTTATCAAATT
Found at i:14525 original size:32 final size:32
Alignment explanation
Indices: 14456--14526 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
14446 ATTTCGTTAC
* * * *
14456 AAATAATCATTATACTTTATCAAATTAGTACA
1 AAATGATCATTAAACTTTATCAAACTACTACA
*
14488 AAATGATCATTAAACTTTATCAAACTACTATA
1 AAATGATCATTAAACTTTATCAAACTACTACA
*
14520 TAATGAT
1 AAATGAT
14527 TCGTAAACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (32 bp):
AAATGATCATTAAACTTTATCAAACTACTACA
Found at i:14577 original size:20 final size:20
Alignment explanation
Indices: 14554--14602 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
14544 TTTACACTAT
* *
14554 TTTATAATGTACGATGATCA
1 TTTATAATATAAGATGATCA
14574 TTTATAATATAAGATGATCA
1 TTTATAATATAAGATGATCA
14594 TTTATAATA
1 TTTATAATA
14603 ATTTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTATAATATAAGATGATCA
Found at i:14644 original size:30 final size:30
Alignment explanation
Indices: 14587--14647 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
14577 ATAATATAAG
*
14587 ATGATCATTTATAATAATTTTATAAATTTA
1 ATGATCATTTATAATAATTTTAAAAATTTA
*
14617 ATGATCATTT-T-ATAATTTATAAAAAATTA
1 ATGATCATTTATAATAATTT-TAAAAATTTA
14646 AT
1 AT
14648 AACTAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 11 0.39
30 10 0.36
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (30 bp):
ATGATCATTTATAATAATTTTAAAAATTTA
Found at i:14915 original size:18 final size:18
Alignment explanation
Indices: 14879--14918 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14869 TTTTAAATTT
** *
14879 TAAAAAATTATTTATATA
1 TAAAAAATTATAAACATA
14897 TAAAAAATTATAAACATA
1 TAAAAAATTATAAACATA
14915 TAAA
1 TAAA
14919 TCCAATCCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAAATTATAAACATA
Found at i:16311 original size:2 final size:2
Alignment explanation
Indices: 16298--16330 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16288 AACTCCCATC
*
16298 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16331 GCAAAGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:16971 original size:39 final size:39
Alignment explanation
Indices: 16928--17024 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 39
16918 ATGTTATCAT
** * * *
16928 CAAATCCTCAGGTCATCTTTGGATCCTCAAATTCGTTTC
1 CAAATCCTCAAATCATCTTTAGACCCTCAAATTCATTTC
* *
16967 CAAATGCTCAAATCATCTTTAGACCCTCAAATTCATTTT
1 CAAATCCTCAAATCATCTTTAGACCCTCAAATTCATTTC
**
17006 CAAATCCAAAAATCATCTT
1 CAAATCCTCAAATCATCTT
17025 AAAACCTTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (39 bp):
CAAATCCTCAAATCATCTTTAGACCCTCAAATTCATTTC
Found at i:19792 original size:25 final size:26
Alignment explanation
Indices: 19744--19792 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
19734 GGTGTCTCTA
* *
19744 TTATGCTTAAATTTATAATTTAATTT
1 TTATGCTTAAATATATAATATAATTT
19770 TTATGCTT-AATATATAATATAAT
1 TTATGCTTAAATATATAATATAAT
19793 CTAATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
TTATGCTTAAATATATAATATAATTT
Found at i:25656 original size:15 final size:16
Alignment explanation
Indices: 25614--25650 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
25604 TCCTCTTATA
25614 TTCCCCAAAATGACAT
1 TTCCCCAAAATGACAT
25630 TTCCCCAAAATGACAT
1 TTCCCCAAAATGACAT
25646 TTCCC
1 TTCCC
25651 ACAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.27
Consensus pattern (16 bp):
TTCCCCAAAATGACAT
Found at i:27476 original size:39 final size:38
Alignment explanation
Indices: 27331--27486 Score: 134
Period size: 39 Copynumber: 4.0 Consensus size: 38
27321 ACCTGTACAC
* * * * * *
27331 CAGTAAGGGCTTATCTTGTGCATAAAGCAGACGAGTCTG
1 CAGTAAGGACTTACCTTGAGCACAAAGCCGA-GAGCCTG
* * * * * *
27370 CAGTAAGGTCTTATCTTGTGCACAAAGCAGATGAGCATA
1 CAGTAAGGACTTACCTTGAGCACAAAGCCGA-GAGCCTG
* *
27409 CGGTAAGGACTTACCCTGAGCACAAAGCCGAGAAGCCTG
1 CAGTAAGGACTTACCTTGAGCACAAAGCCGAG-AGCCTG
*
27448 CCGTAAGGACTTACCTTGAGCACAAAGCC-AGGAGCCTG
1 CAGTAAGGACTTACCTTGAGCACAAAGCCGA-GAGCCTG
27486 C
1 C
27487 GATAAACAGT
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
38 9 0.09
39 90 0.91
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (38 bp):
CAGTAAGGACTTACCTTGAGCACAAAGCCGAGAGCCTG
Found at i:32577 original size:8 final size:8
Alignment explanation
Indices: 32564--32604 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
32554 CTCATTTTCA
32564 GAGAATTT
1 GAGAATTT
32572 GAGAATTT
1 GAGAATTT
*
32580 -AGAGTTT
1 GAGAATTT
*
32587 GGGAATTT
1 GAGAATTT
32595 GAGAATTT
1 GAGAATTT
32603 GA
1 GA
32605 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:32903 original size:128 final size:128
Alignment explanation
Indices: 32675--33941 Score: 2229
Period size: 128 Copynumber: 9.9 Consensus size: 128
32665 TAATCAGAGT
*
32675 ACTATTCACATGAAGGCGCGTTCCCAGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
32740 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* * *
32803 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTTCATTATTTCGTCAAAGAATATATTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
32868 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
32931 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
32996 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
33059 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
33124 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
33187 ACTATTCACATGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
33252 CATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* ***
33314 TC-AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
33378 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
33442 ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
33507 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* ***
33570 TC-AGGGGACATGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
33633 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* * * *
33697 ACTATTCACATGAAGGCGCGTTCTCGGGGGTGCGCCTTCTATTATTTCGTCAGCGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
33762 CATTTCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** *
33825 TC-AGGGGACATGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
33889 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
33942 AATCAGGTAA
Statistics
Matches: 1085, Mismatches: 47, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
126 1 0.00
127 241 0.22
128 842 0.78
129 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:33432 original size:255 final size:256
Alignment explanation
Indices: 32675--33941 Score: 2281
Period size: 255 Copynumber: 5.0 Consensus size: 256
32665 TAATCAGAGT
*
32675 ACTATTCACATGAAGGCGCGTTCCCAGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
32740 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
*** * * *
32805 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTTCATTATTTCGTCAAAGAATATATTATC
131 -AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
*
32869 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATATTATTTC
195 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
32931 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
32996 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
*** * *
33061 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTCATCAGAGAATATGTTATC
131 -AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
33125 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
195 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
33187 ACTATTCACATGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
33252 CATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTATTTCTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
33316 AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
131 AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
33381 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
196 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
33442 ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
33507 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
33572 AGGGGACATGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
131 AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
33636 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
196 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* * * *
33697 ACTATTCACATGAAGGCGCGTTCTCGGGGGTGCGCCTTCTATTATTTCGTCAGCGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
33762 CATTTCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
*
33827 AGGGGACATGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
131 AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
33892 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
196 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
33942 AATCAGGTAA
Statistics
Matches: 985, Mismatches: 23, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
254 1 0.00
255 493 0.50
256 491 0.50
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (256 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:33484 original size:383 final size:384
Alignment explanation
Indices: 32675--33941 Score: 2229
Period size: 383 Copynumber: 3.3 Consensus size: 384
32665 TAATCAGAGT
*
32675 ACTATTCACATGAAGGCGCGTTCCCAGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
32740 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
* * *
32805 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTTCATTATTTCGTCAAAGAATATATTATCA
131 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
32870 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATATTATTTCACTA
196 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA
32935 TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATT
261 TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATT
33000 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
326 GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
33059 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
33124 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
33189 TATTCACATGAAGACGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
131 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
*
33254 TTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTATTTCTC-A
196 TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA
***
33317 GGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCAT
261 -TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCAT
33382 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
325 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
33442 ACTATTCACATGAAGGCGCGTTCCCGGGGGCACGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
33507 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
***
33572 -AGGGGACATGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
131 TA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
33635 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACT
195 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACT
* * * *
33700 ATTCACATGAAGGCGCGTTCTCGGGGGTGCGCCTTCTATTATTTCGTCAGCGAATATGTTATCAT
260 ATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCAT
*
33765 TTCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
325 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** *
33825 TC-AGGGGACATGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
33889 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
33942 AATCAGGTAA
Statistics
Matches: 843, Mismatches: 35, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
382 67 0.08
383 559 0.66
384 217 0.26
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (384 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCA
TTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA
TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATT
GCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:34385 original size:28 final size:28
Alignment explanation
Indices: 34362--34431 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
34352 CTATAATTTA
*
34362 TATTTTAAATTTAAATTT-GAATAATAT
1 TATTTTTAATTTAAATTTCGAATAATAT
*
34389 TATTTTTATTTTAAATTTCGAATAATAT
1 TATTTTTAATTTAAATTTCGAATAATAT
* * *
34417 AATTTGTATTTTAAA
1 TATTTTTAATTTAAA
34432 AACATTTATC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 16 0.42
28 22 0.58
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (28 bp):
TATTTTTAATTTAAATTTCGAATAATAT
Found at i:34392 original size:27 final size:28
Alignment explanation
Indices: 34362--34421 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
34352 CTATAATTTA
34362 TATTTTAAATTTAAATTT-GAATAATAT
1 TATTTTAAATTTAAATTTCGAATAATAT
* *
34389 TATTTTTATTTTAAATTTCGAATAATAT
1 TATTTTAAATTTAAATTTCGAATAATAT
*
34417 AATTT
1 TATTT
34422 GTATTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (28 bp):
TATTTTAAATTTAAATTTCGAATAATAT
Found at i:34429 original size:33 final size:32
Alignment explanation
Indices: 34332--34430 Score: 100
Period size: 33 Copynumber: 3.2 Consensus size: 32
34322 TAAGTTGAAA
* *
34332 TTTAATGTTAATTTTGAATACTATAATTTATAT
1 TTTAAT-TTAAATTTGAATAATATAATTTATAT
34365 TTTAAATTTAAATTTGAAT-A-AT-A-TTAT-T
1 TTT-AATTTAAATTTGAATAATATAATTTATAT
* *
34393 TTTATTTTAAATTTCGAATAATATAATTTGTAT
1 TTTAATTTAAATTT-GAATAATATAATTTATAT
34426 TTTAA
1 TTTAA
34431 AAACATTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
27 10 0.19
28 8 0.15
29 5 0.09
30 3 0.06
31 3 0.06
32 3 0.06
33 19 0.35
34 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (32 bp):
TTTAATTTAAATTTGAATAATATAATTTATAT
Found at i:35039 original size:21 final size:22
Alignment explanation
Indices: 34951--35040 Score: 125
Period size: 21 Copynumber: 4.3 Consensus size: 22
34941 TATGGTATAA
*
34951 AACCCT-GCGGGCTAGGCATGT
1 AACCCTGGCGGGCTAGGAATGT
*
34972 AA-CCTGGCGGGCTAGGCATGT
1 AACCCTGGCGGGCTAGGAATGT
34993 AA-CCTGGCGGGCTAGGAATGT
1 AACCCTGGCGGGCTAGGAATGT
*
35014 AACCCT-GCGGGCTCGGAATGT
1 AACCCTGGCGGGCTAGGAATGT
35035 AACCCT
1 AACCCT
35041 TTCGGAGATG
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
20 3 0.05
21 59 0.91
22 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (22 bp):
AACCCTGGCGGGCTAGGAATGT
Found at i:35075 original size:21 final size:21
Alignment explanation
Indices: 35049--35096 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
35039 CTTTCGGAGA
*
35049 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
35070 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
35091 GGGCAT
1 TGGCAT
35097 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:36825 original size:16 final size:16
Alignment explanation
Indices: 36804--36834 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36794 CAAAAAAAAT
*
36804 TAATAATTCTAAATAA
1 TAATAATTATAAATAA
36820 TAATAATTATAAATA
1 TAATAATTATAAATA
36835 TTATTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATTATAAATAA
Found at i:36856 original size:32 final size:31
Alignment explanation
Indices: 36813--36889 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 31
36803 TTAATAATTC
*
36813 TAAATAATAATAATT-ATAAATATTATTTTAATA
1 TAAAAAATAATAATTAATAAATA-TA--TTAATA
*
36846 -AAAAAATAATATTTACATAAATATATTAATA
1 TAAAAAATAATAATTA-ATAAATATATTAATA
36877 TAAAAAATAATAA
1 TAAAAAATAATAA
36890 CTATTTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
31 6 0.16
32 23 0.61
33 2 0.05
34 7 0.18
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAATAATAATTAATAAATATATTAATA
Found at i:43947 original size:2 final size:2
Alignment explanation
Indices: 43942--43990 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
43932 TTTTTAAATA
43942 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43983 AT AT AT AT
1 AT AT AT AT
43991 TGAAGATTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53766 original size:23 final size:23
Alignment explanation
Indices: 53735--53796 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
53725 ATAGGTAAAA
* *
53735 ATATGATGTAATATGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
53758 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
**
53781 ATATAATAAAATAGGT
1 ATATAATGTAATAGGT
53797 TAATTACTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:53850 original size:23 final size:23
Alignment explanation
Indices: 53833--53998 Score: 287
Period size: 23 Copynumber: 7.2 Consensus size: 23
53823 AATAACATAT
*
53833 TAGGTAGTGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
53856 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
53879 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
53902 TAAGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
53925 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
53948 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
**
53971 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATGTAA
53994 TAGGT
1 TAGGT
53999 TAATTACTTT
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 136 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:54051 original size:23 final size:23
Alignment explanation
Indices: 54025--54083 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
54015 ATCAAGCACA
*
54025 ATAACATATTAGGTACCGCTTAT
1 ATAACATAATAGGTACCGCTTAT
** * *
54048 ATAATGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTACCGCTTAT
*
54071 ATAATA-AATAGGT
1 ATAACATAATAGGT
54084 TAATTACTAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (23 bp):
ATAACATAATAGGTACCGCTTAT
Found at i:54099 original size:86 final size:86
Alignment explanation
Indices: 53948--54176 Score: 379
Period size: 86 Copynumber: 2.7 Consensus size: 86
53938 TATAATGTAA
**
53948 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTTAACA
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAACA
*
54013 TTATCAAGCACAATAACATAT
66 TTATCAAACACAATAACATAT
* *
54034 TAGGTACCGCTTATATAATGTAATATGTAGCGCTTATATAAT-AAATAGGTTAATTACTAGAAAC
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACT-GAAAC
54098 ATTATCAAACACAATAACATAT
65 ATTATCAAACACAATAACATAT
* *
54120 TAGGTAGCGCTTATATAACGTAATAGGTAGCTCTTATATAATAAAATAGGTTAATTA
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTA
54177 TTTAATTTGT
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
85 16 0.12
86 102 0.77
87 14 0.11
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (86 bp):
TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAACA
TTATCAAACACAATAACATAT
Found at i:54137 original size:23 final size:23
Alignment explanation
Indices: 54111--54170 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
54101 ATCAAACACA
*
54111 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
54134 ATAACGTAATAGGTAGCTCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
54157 ATAATAAAATAGGT
1 ATAACATAATAGGT
54171 TAATTATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:54443 original size:24 final size:24
Alignment explanation
Indices: 54416--54467 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
54406 AACATCAAAT
54416 ACAATAA-AACAATATTATTTATTA
1 ACAATAATAACAATATTATTT-TTA
*
54440 ACAA-AATAATAATATTATTTTTA
1 ACAATAATAACAATATTATTTTTA
54463 A-AATA
1 ACAATA
54468 TTAGAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (24 bp):
ACAATAATAACAATATTATTTTTA
Found at i:54537 original size:25 final size:26
Alignment explanation
Indices: 54509--54576 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
54499 ATATTATTAT
54509 TAAAATATATCTATAATTTTA-T-AAA
1 TAAAATATAT-TATAATTTTATTAAAA
*
54534 TAAAAATTATGATTATTATTTTATTAAAA
1 T-AAAA-TAT-ATTATAATTTTATTAAAA
54563 TAAAAT-TATTATAA
1 TAAAATATATTATAA
54577 ATTATATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
25 7 0.19
26 5 0.14
27 13 0.36
28 7 0.19
29 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (26 bp):
TAAAATATATTATAATTTTATTAAAA
Found at i:54580 original size:29 final size:27
Alignment explanation
Indices: 54524--54581 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
54514 TATATCTATA
*
54524 ATTTTATAAATAAAAATTATGATTATT
1 ATTTTATAAATAAAAATTATGATAATT
*
54551 ATTTTATTAAA-ATAAAATTATTATAAATT
1 ATTTTA-TAAATA-AAAATTATGAT-AATT
54580 AT
1 AT
54582 ATTTTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 7 0.27
28 14 0.54
29 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTTTATAAATAAAAATTATGATAATT
Found at i:55297 original size:28 final size:28
Alignment explanation
Indices: 55262--55358 Score: 81
Period size: 28 Copynumber: 3.4 Consensus size: 28
55252 TATTTATGTC
55262 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
55290 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
* ** *
55318 TATATT-TTATTAAAATAAAATTATTAT
1 AATATTATTATTAAAATATTATGATTAT
55345 AAATATTTATTATT
1 -AATA-TTATTATT
55359 TATTATAATA
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
27 15 0.29
28 28 0.54
29 4 0.08
30 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:56049 original size:197 final size:196
Alignment explanation
Indices: 55457--56127 Score: 948
Period size: 197 Copynumber: 3.4 Consensus size: 196
55447 CACATATGTT
* * *
55457 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACC-G
1 ACATTGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGT-ACCAGTAGAAATATACCGG
* *** *
55521 TTTTATGAGAGAATATGTCTACATAATGTATCGACACAAATTTAA-AAAGTGTCGATACATTTTG
65 TTTTATGAGAAAATATGTCTACATAATGTATCGACAC--ATTTAAGTTTGTGTCGATAC-TTTTT
* * *
55585 TCCAGAATGAATGCCAAATGA-G-GCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATC
127 TCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTA-TAAAAGTATCGATC
55648 CCAAAA
191 CCAAAA
* * *
55654 ACATAGAAACCGATAATTACAATGTAATAGGTAGATTTACAATGTACTCGGTAGAAATAT--CGG
1 ACATTGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAC-CAGTAGAAATATACCGG
55717 TTTTATGAGAAAATATGTCTACATAATGTATCGACACATTTAAGTTTGTGTCGATACTTTTTTCC
65 TTTTATGAGAAAATATGTCTACATAATGTATCGACACATTTAAGTTTGTGTCGATACTTTTTTCC
*
55782 AGAATGAATGTCCAACGAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCC-
130 AGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCA
55846 AAA
194 AAA
* *
55849 ACATTCAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCGGTAGAAATATACCGGT
1 ACATTGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCAGTAGAAATATACCGGT
* *
55914 TTTATGAGAAAATAGGTCTACATAATGTATCGACACGTTTTAAGTTTGTGTCGATACTTTTTTCC
66 TTTATGAGAAAATATGTCTACATAATGTATCGACAC-ATTTAAGTTTGTGTCGATACTTTTTTCC
* *
55979 AGAATGAATGCCCAACGAGGTGCACACATAAAATGTCGATACATTTA-AAATTGTATCGATCCCA
130 AGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTATAAA-AGTATCGATCCCA
56043 AAA
194 AAA
* * *
56046 ACATTGAAACCGATAATTATAATGTAATAGGTAAATTTGCAATGTTACCAGTA-TAA-ATACCGG
1 ACATTGAAACCGATAATTACAATGTAATAGGTAAATTTACAATG-TACCAGTAGAAATATACCGG
* *
56109 TTTTATGATAGAATATGTC
65 TTTTATGAGAAAATATGTC
56128 AATATAAGCG
Statistics
Matches: 433, Mismatches: 30, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
194 40 0.09
195 62 0.14
196 154 0.36
197 170 0.39
198 7 0.02
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (196 bp):
ACATTGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCAGTAGAAATATACCGGT
TTTATGAGAAAATATGTCTACATAATGTATCGACACATTTAAGTTTGTGTCGATACTTTTTTCCA
GAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGATACATTTATAAAAGTATCGATCCCAAA
A
Found at i:56176 original size:23 final size:23
Alignment explanation
Indices: 56120--56176 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
56110 TTTATGATAG
* *
56120 AATATGTCAATATAAGCGCTACCT
1 AATATGT-TATATAAACGCTACCT
* **
56144 ATTACATTATATAAACGCTACCT
1 AATATGTTATATAAACGCTACCT
56167 AATATGTTAT
1 AATATGTTAT
56177 TGTGATTGAT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.35
Consensus pattern (23 bp):
AATATGTTATATAAACGCTACCT
Found at i:56231 original size:21 final size:22
Alignment explanation
Indices: 56207--56252 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
56197 GTAATTAACT
*
56207 TATT-ATTATATAAGCGCTACC
1 TATTAATTACATAAGCGCTACC
56228 TATTACATTACATAAGCGCTACC
1 TATTA-ATTACATAAGCGCTACC
56251 TA
1 TA
56253 ATTTGTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
23 18 0.82
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (22 bp):
TATTAATTACATAAGCGCTACC
Found at i:57569 original size:29 final size:29
Alignment explanation
Indices: 57526--57608 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
57516 CTCACCTAAC
57526 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
57556 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
57585 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
57609 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:62301 original size:28 final size:29
Alignment explanation
Indices: 62236--62317 Score: 139
Period size: 28 Copynumber: 2.8 Consensus size: 29
62226 CTCACCTAAC
62236 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
62266 TAAATGATGTAAGCAATGACATC-TTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
62294 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
62318 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
28 27 0.54
29 19 0.38
30 4 0.08
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Done.