Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016481.1 Corchorus olitorius cultivar O-4 contig16514, 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: 23470
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Found at i:8591 original size:2 final size:2
Alignment explanation
Indices: 8584--8639 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
8574 GGAAGTTTGT
8584 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
8626 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
8640 GCTTCTTCCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10519 original size:19 final size:19
Alignment explanation
Indices: 10495--10531 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10485 CTGTTTAGCA
*
10495 ACTGTACATATGAGATTAC
1 ACTGTACACATGAGATTAC
*
10514 ACTGTACACATTAGATTA
1 ACTGTACACATGAGATTA
10532 GATACTATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
ACTGTACACATGAGATTAC
Found at i:10613 original size:76 final size:76
Alignment explanation
Indices: 10508--10656 Score: 280
Period size: 76 Copynumber: 2.0 Consensus size: 76
10498 GTACATATGA
10508 GATTACACTGTACACATTAGATTAGATACTATGCAGATGAGATTACTAGAACAGTACACTTAAAC
1 GATTACACTGTACACATTAGATTAGATACTATGCAGATGAGATTACTAGAACAGTACACTTAAAC
10573 TCAGTTTGGGT
66 TCAGTTTGGGT
* *
10584 GATTACACTGTACACATTAGATTAGATACTGTGCAGATGAGATTACTAGAACAGTACACTTGAAC
1 GATTACACTGTACACATTAGATTAGATACTATGCAGATGAGATTACTAGAACAGTACACTTAAAC
10649 TCAGTTTG
66 TCAGTTTG
10657 AGTCCAAAAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (76 bp):
GATTACACTGTACACATTAGATTAGATACTATGCAGATGAGATTACTAGAACAGTACACTTAAAC
TCAGTTTGGGT
Found at i:10741 original size:68 final size:68
Alignment explanation
Indices: 10632--10769 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 68
10622 GAGATTACTA
* *
10632 GAACAGTACACTTGAACTCAGTTTGAGTCCAAAACGGTTATGAAACGGTTAAACAGTTATAGATA
1 GAACAGTACACTTAAACTCAGTTTGAGTCCAAAACGGTTATGAAACGGTCAAACAGTTATAGATA
10697 CAC
66 CAC
10700 GAACAGTACACTTAAACTCAGTTTGAGTCCAAAACGGTTATGAAACGGTCAAACAGTTATAGATA
1 GAACAGTACACTTAAACTCAGTTTGAGTCCAAAACGGTTATGAAACGGTCAAACAGTTATAGATA
10765 CAC
66 CAC
10768 GA
1 GA
10770 CCTTCGTATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (68 bp):
GAACAGTACACTTAAACTCAGTTTGAGTCCAAAACGGTTATGAAACGGTCAAACAGTTATAGATA
CAC
Found at i:11928 original size:5 final size:5
Alignment explanation
Indices: 11894--11943 Score: 68
Period size: 5 Copynumber: 10.4 Consensus size: 5
11884 TATATATATA
* *
11894 TATCA TATCA TATCT TATCT TATCT TATCT TATCT TA-C- TATCT TATCT
1 TATCT TATCT TATCT TATCT TATCT TATCT TATCT TATCT TATCT TATCT
11942 TA
1 TA
11944 CTATTATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 38 0.90
ACGTcount: A:0.26, C:0.20, G:0.00, T:0.54
Consensus pattern (5 bp):
TATCT
Found at i:11937 original size:13 final size:13
Alignment explanation
Indices: 11904--11947 Score: 70
Period size: 13 Copynumber: 3.2 Consensus size: 13
11894 TATCATATCA
11904 TATCTTATCTTATC
1 TATCTTATCTTA-C
11918 TTATCTTATCTTAC
1 -TATCTTATCTTAC
11932 TATCTTATCTTAC
1 TATCTTATCTTAC
11945 TAT
1 TAT
11948 TATATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 16 0.55
14 1 0.03
15 12 0.41
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (13 bp):
TATCTTATCTTAC
Found at i:13299 original size:381 final size:383
Alignment explanation
Indices: 12674--13410 Score: 928
Period size: 381 Copynumber: 1.9 Consensus size: 383
12664 TATTTAGAAA
* ** * * *
12674 AAAATAAGAAATACGATATTTAAAGCGTGAAAAGCCCTCCAATCTTTTTAGCATTGAATTATATA
1 AAAATAAGAAAAACGATATGAAAAGCGAGAAAAGCCCTCCAACCTTTTTAGCATTAAATTATATA
* * * *
12739 TTTTTATGAGTATTTTAGCCAAAAATTGAAGAAAAATCTTTCGTGTCAATTTTCGCAAAATTTTA
66 TTTTCATGAGTATTTTAGCCAAAAAATGAAGAAAAATCTTTCGGGTCAATTTTCACAAAATTTTA
** * *
12804 GCCAAAAACCATCACGGTTTTTCGCTAAAAATGCATTCCGGGGATTCGCCTGAATTTTGCATGAT
131 GCCAAAAACCATCACGGTTTTTCGCTAAAAATGCATTCCGGGGACCCGCATGAATTTTGAATGAT
* * *
12869 TTTTGACTTCGAGACTACTTGAAATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTT
196 TTTTGACGTCGAGACTACTTGAAATATCAATATTCATCTAATCAAATCTCAACCACATTGCATTT
* * * * *
12934 AAAGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATTAATTC-GGAATAA
261 AAAGATTTATTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAATTCGGGAA-AA
*
12998 -AATAGGAAAACGATATTAGAAACGTCAAAAAGTCCTTCAATCTTAAATTAATTCAGAG
325 GAATAGGAAAACAATATTAGAAACGTCAAAAAGTCCTTCAATCTTAAATTAATTCAGAG
* * * *
13056 AAAATATGAAAAACGATATGAAAAGCGAGAAAAGTCCTTCAACCTTTTTAGCTTTAAATTATATA
1 AAAATAAGAAAAACGATATGAAAAGCGAGAAAAGCCCTCCAACCTTTTTAGCATTAAATTATATA
* * * * * *
13121 TATTTCATGAGTATTTTAGGCAAAAAATGAGGAAAATTTTTTCGGGTCATTTTTTACAAAATTTT
66 T-TTTCATGAGTATTTTAGCCAAAAAATGAAGAAAAATCTTTCGGGTCAATTTTCACAAAATTTT
*** * * * * * * *
13186 AG-TTGAAATCGT-GCGGTTTTTTGCTAAAAACT-CATTTCGGGGCCCCGGAT-AAGTTTTGAAT
130 AGCCAAAAACCATCACGGTTTTTCGCTAAAAA-TGCATTCCGGGGACCCGCATGAA-TTTTGAAT
* * **
13247 GATTTTTGGCGTCGAGACTCCTTGAAATATCAATATTCATCTAATCAAATCTCAGGCACATTGCA
193 GATTTTTGACGTCGAGACTACTTGAAATATCAATATTCATCTAATCAAATCTCAACCACATTGCA
**
13312 TTTATGGATTTATTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAATTCGGGAA
258 TTTAAAGATTTATTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAATTCGGGAA
* * *
13377 AAGAATGGGAAAACAATATTAGAAGCGTGAAAAA
323 AAGAATAGGAAAACAATATTAGAAACGTCAAAAA
13411 CCGCTTCAAC
Statistics
Matches: 298, Mismatches: 52, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
380 2 0.01
381 148 0.50
382 93 0.31
383 55 0.18
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (383 bp):
AAAATAAGAAAAACGATATGAAAAGCGAGAAAAGCCCTCCAACCTTTTTAGCATTAAATTATATA
TTTTCATGAGTATTTTAGCCAAAAAATGAAGAAAAATCTTTCGGGTCAATTTTCACAAAATTTTA
GCCAAAAACCATCACGGTTTTTCGCTAAAAATGCATTCCGGGGACCCGCATGAATTTTGAATGAT
TTTTGACGTCGAGACTACTTGAAATATCAATATTCATCTAATCAAATCTCAACCACATTGCATTT
AAAGATTTATTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAATTCGGGAAAAG
AATAGGAAAACAATATTAGAAACGTCAAAAAGTCCTTCAATCTTAAATTAATTCAGAG
Found at i:14234 original size:324 final size:323
Alignment explanation
Indices: 13042--14448 Score: 1549
Period size: 339 Copynumber: 4.3 Consensus size: 323
13032 CTTCAATCTT
* * * * * * *
13042 AAATTAATTCAGAGAAAATA-TGAAAAACGATATGAAAAGCGAGAAAAGTCCT-TCAACCTTTTT
1 AAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAG-CCTGTCAATCTTTTT
* * * * * **
13105 AGCTTTAAATTATATA-TATTTCATGAGTATTTTAGGCAAAAAA-TGAGGAAAATTTTTTCGGGT
65 GGCGTTAAATTATATATTTTTTC-TGAGTATTGT-GGCAAAAAATTCA-GAAAAAATTTTCGGGT
* * ** *** * * * * * *
13168 CATTTTTTA--CAAAATTTTAGTTGAAATCGT-GCGGTTTTTTG-CTAAAAACTCATTTCGGGGC
127 CAGTTTTTAGCCGAAATCGT-GTACTAACCATCACGGTTTTTGGACTAAAAACGCGTTTCGGGGC
* * * ** *
13229 CCCGGATAAGTTTTGAATGATTTTTGGC-GTCGAGACTCCTTGAAATATCAATATTCATCTAATC
191 CCCGGCTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCTAATC
* * * * *
13293 AAATCTCAGGCACATTGCATTTATGGATTTATTTTTACGAGCATCTAAATCTTGTTTCGATTTAA
255 AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
13358 TTAA-
320 -TAAG
* * * * * * *
13362 AAATAAATTCGGGAAAAGAATGGGAAAACAATATTAGAAGCGTGAAAAACC-GCTTCAA-CTTTA
1 AAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCTG--TCAATCTTT-
* * * *
13425 TTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCGAAAAATTGAGGAAAAACTTTTCGGGT
63 TTGGCGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCA-GAAAAAATTTTCGGGT
13490 CAGTTATTGCAAAATCTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTTTTTGG-CTAAAA
127 CAG---TT------T-TTAGCCGAAATCGTGTACTAACCATCACGG-----TTTTTGGACTAAAA
* ** *
13554 ACGCCTTTCGACGCCCCAGG-TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATGTCT
177 ACGCGTTTCGGGGCCCC-GGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCT
* * * * *
13618 AAATTCATCAAACCAAATCTCAGCCATATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATT
241 ATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATC
13683 TTGTTTCGATTTAATAAG
306 TTGTTTCGATTTAATAAG
* * *
13701 AAATCAATTTGGAAAAAAAATTGAAAAACGATATTAGAAGCGTG-AAAGCCCGTCAATCTTTTTG
1 AAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCTGTCAATCTTTTTG
* * *
13765 GCGTTAAATTAT-T-TTTTTTTTGAGTATTTTGGCAAAAAATTCAGAAAAAAATTTCGGGTCAGT
66 GCGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAATTTTCGGGTCAGT
* *
13828 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGACTAAAAACACGTTTCGGGGCTCCGG
131 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGACTAAAAACGCGTTTCGGGGCCCCGG
*
13893 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCC
196 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCT
** * * *
13958 CAGCCACATTGGATTTTGGGATTT-TTTTTACGAGCATTTGAATTTTGTTTCGATTTAATAAT
261 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATAAG
*
14020 AAATTAATTCGGAAATAAAAAATTGAAAAATGACT-TTAGAAGCGTGAAAAGCCTGTCAATCTTT
1 AAATTAATTCGG-AA-AAAAAATTGAAAAACGA-TATTAGAAGCGTGAAAAGCCTGTCAATCTTT
* * * * *
14084 TTGGCATTAAATTATATATACTTGTCTGACTATTGTCGCAAAAAATTCAGAAAAAATTTTCGGGT
63 TTGGCGTTAAATTATATAT-TTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAATTTTCGGGT
* * * *
14149 CAGTTTTTAGCCGAAATCGTGTA-TTACCATCACGGTTTCTGGACTTAAAACGCGTTTCGGGGCT
127 CAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGACTAAAAACGCGTTTCGGGGCC
* *
14213 CCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTCAGCAA
192 CCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAATCAA
* * *
14278 ATCTCAGTCACATTGGATTTAAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATT
257 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATA
14343 AG
322 AG
* * * * *
14345 AAATTAATTTGGAGAAAAAATTGAAAAACGATATTAGAAGCGTGAATAGGCTGTCAATATTTTTG
1 AAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCTGTCAATCTTTTTG
* *
14410 GCGTTGAATTATATATTTTTTTTGAGTATTGTGGCAAAA
66 GCGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAA
14449 TATTTTCGGG
Statistics
Matches: 926, Mismatches: 120, Indels: 80
0.82 0.11 0.07
Matches are distributed among these distances:
319 55 0.06
320 116 0.13
321 60 0.06
322 98 0.11
323 65 0.07
324 156 0.17
325 110 0.12
331 3 0.00
332 3 0.00
333 6 0.01
334 26 0.03
335 26 0.03
336 1 0.00
337 18 0.02
338 12 0.01
339 168 0.18
340 3 0.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (323 bp):
AAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCTGTCAATCTTTTTG
GCGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAATTTTCGGGTCAGT
TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGACTAAAAACGCGTTTCGGGGCCCCGG
CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAATCAAATCT
CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATAAG
Found at i:14365 original size:644 final size:649
Alignment explanation
Indices: 13199--14448 Score: 1652
Period size: 644 Copynumber: 1.9 Consensus size: 649
13189 TGAAATCGTG
* * **
13199 CGGTTTTTTGCTAAAAACTCATTTCGGGGCCCCGGATAAGTTTTGAATGATTTTTGGCGTCGAGA
1 CGGTTTTTGGCTAAAAACACATTTCGGGGCCCCGGATAAGTTTTGAATGATTTTTGGCGTAAAGA
* *
13264 CTCCTTGAAATATCAATATTCATCTAATCAAATCTCAGGCACATTGCATTTATGGATTTATTTTT
66 CTCCTTGAAATATCAATATTCATCTAATCAAATCCCAGCCACATTGCATTTATGGATTTATTTTT
* * *
13329 ACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAATTCGGGAAAAGAATGGGAAAACAAT
131 ACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAATTCGGAAAAAAAATGGAAAAACAAT
* * * * *
13394 ATTAGAAGCGTGAAAAACCGCTTCAACTTTATTGGCGTTGAATTATATATTTTTTCTGAGTATTG
196 ATTAGAAGCGTGAAAAACCGC-TCAACTTTATTGGCATTAAATTATATATCTTGTCTGACTATTG
* * * *
13459 TGGCGAAAAATTGAGGAAAAACTTTTCGGGTCAGTTATTGCAAAATCTTAGCCGAAATCGTGTAC
260 TCGCAAAAAATTCAGGAAAAAATTTTCGGGTCAG-T-TT-----ATCTTAGCCGAAATCGTGTAC
*
13524 TAACCATCACGGTTTTTTTTTTGGCTAAAAACGCCTTTCGACGCCCCAGGTCAGTTTTGCATGAT
318 TAACCATCACGG----TTTTCTGGCTAAAAACGCCTTTCGACGCCCCAGGTCAGTTTTGCATGAT
* *
13589 TTTTGGCAGAAAGACTCCTTGAAATGTCTAAATTCATCAAACCAAATCTCAGCCATATTGGATTT
379 TTTTGGCAGAAAGACTCCTTGAAATATCTAAATTCATCAAACCAAATCTCAGCCACATTGGATTT
*
13654 AAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAAATCAATTTGGAAAAAA
444 AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATAAGAAATCAATTTGGAAAAAA
*
13719 AATTGAAAAACGATATTAGAAGCGTGAA-AGCCCGTCAATCTTTTTGGCGTTAAATTAT-T-TTT
509 AATTGAAAAACGATATTAGAAGCGTGAATAGCCCGTCAATATTTTTGGCGTTAAATTATATATTT
*
13781 TTTTTGAGTATTTTGGCAAAAAATTCAGAAAAAAATTTCGGGTCAGTTTTTAGCCGAAATCGTGT
574 TTTTTGAGTATTGTGGCAAAAAATTCAGAAAAAAATTTCGGGTCAGTTTTTAGCCGAAATCGTGT
13846 ACTAACCATCA
639 ACTAACCATCA
* * * * *
13857 CGGTTTTTGGACTAAAAACACGTTTCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCAG-AAA
1 CGGTTTTTGG-CTAAAAACACATTTCGGGGCCCCGGATAAGTTTTGAATGATTTTTGGC-GTAAA
* *
13921 GACTCCTTGAAATATCTATATTCATCTAATCAAATCCCAGCCACATTGGATTT-TGGGATTT-TT
64 GACTCCTTGAAATATCAATATTCATCTAATCAAATCCCAGCCACATTGCATTTAT-GGATTTATT
* * * * *
13984 TTTACGAGCATTTGAATTTTGTTTCGATTTAA-TAATAAATTAATTCGGAAATAAAAAATTGAAA
128 TTTACGAGCATCTAAATCTTGTTTCGATTTAATTAA-AAATAAATTCGG-AA-AAAAAATGGAAA
* * *
14048 AATGACT-TTAGAAGCGTGAAAAGCCTG-TCAATCTTT-TTGGCATTAAATTATATATACTTGTC
190 AA-CAATATTAGAAGCGTGAAAAACC-GCTCAA-CTTTATTGGCATTAAATTATATAT-CTTGTC
14110 TGACTATTGTCGCAAAAAATTCA-GAAAAAATTTTCGGGTCAG-TT-T-TTAGCCGAAATCGTGT
251 TGACTATTGTCGCAAAAAATTCAGGAAAAAATTTTCGGGTCAGTTTATCTTAGCCGAAATCGTGT
* * * ** *
14171 A-TTACCATCACGG-TTTCTGGACTTAAAACGCGTTTCGGGGCTCC-GGCTCAGTTTTGCATGAT
316 ACTAACCATCACGGTTTTCTGG-CTAAAAACGCCTTTCGACGCCCCAGG-TCAGTTTTGCATGAT
* ** * *
14233 TTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTCAGCAAATCTCAGTCACATTGGATTT
379 TTTTGGCAGAAAGACTCCTTGAAATATCTAAATTCATCAAACCAAATCTCAGCCACATTGGATTT
* * * *
14298 AAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAGAAAA
444 AAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATAAGAAATCAATTTGGAAAAAA
* * *
14363 AATTGAAAAACGATATTAGAAGCGTGAATAGGCTGTCAATATTTTTGGCGTTGAATTATATATTT
509 AATTGAAAAACGATATTAGAAGCGTGAATAGCCCGTCAATATTTTTGGCGTTAAATTATATATTT
14428 TTTTTGAGTATTGTGGCAAAA
574 TTTTTGAGTATTGTGGCAAAA
14449 TATTTTCGGG
Statistics
Matches: 520, Mismatches: 57, Indels: 41
0.84 0.09 0.07
Matches are distributed among these distances:
643 8 0.02
644 179 0.34
645 26 0.05
646 1 0.00
647 23 0.04
648 11 0.02
649 17 0.03
650 1 0.00
656 2 0.00
657 3 0.01
658 52 0.10
659 138 0.27
660 56 0.11
661 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (649 bp):
CGGTTTTTGGCTAAAAACACATTTCGGGGCCCCGGATAAGTTTTGAATGATTTTTGGCGTAAAGA
CTCCTTGAAATATCAATATTCATCTAATCAAATCCCAGCCACATTGCATTTATGGATTTATTTTT
ACGAGCATCTAAATCTTGTTTCGATTTAATTAAAAATAAATTCGGAAAAAAAATGGAAAAACAAT
ATTAGAAGCGTGAAAAACCGCTCAACTTTATTGGCATTAAATTATATATCTTGTCTGACTATTGT
CGCAAAAAATTCAGGAAAAAATTTTCGGGTCAGTTTATCTTAGCCGAAATCGTGTACTAACCATC
ACGGTTTTCTGGCTAAAAACGCCTTTCGACGCCCCAGGTCAGTTTTGCATGATTTTTGGCAGAAA
GACTCCTTGAAATATCTAAATTCATCAAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTT
TTACGAGCATCTGAATCTTGTTTCGATTTAATAAGAAATCAATTTGGAAAAAAAATTGAAAAACG
ATATTAGAAGCGTGAATAGCCCGTCAATATTTTTGGCGTTAAATTATATATTTTTTTTGAGTATT
GTGGCAAAAAATTCAGAAAAAAATTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCA
Found at i:16400 original size:323 final size:321
Alignment explanation
Indices: 14719--19183 Score: 5378
Period size: 323 Copynumber: 13.9 Consensus size: 321
14709 TTGCAAATGA
* * * ** *
14719 CTCAGGTTTGCATGATTTTTGGC-GCAAAAACTCCTTGAAATATCTATATTCATAGAACAAAATC
1 CTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAGATATCTATATTCATCTAACCAAATC
* * * * * * * *
14783 TCAGCCACATTGGATATAAAGATTTGGTTTTATGAACATCTGAATCTTGTTTCGATTTAATTACA
65 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGA
* * * *
14848 AACTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCTTGAAAAAACCCGTCAATCTTTTTT
130 AATTAATTCGG-AAAAAAATTGAAAAACGATATTAGAAGCGTG-AAAAGCCCGTCAATCTTTTTG
* * * *
14913 GCGTTGAATTATATAATTTTTCTGTGTATTGTGGCAAAAAATTCAAAAAAAAAATTTCGGGTCAG
193 GCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTC-AGAAAAAATTTTCGGGTCAG
* *
14978 TTTTTAGCCGAAATCATGTACTAACATTCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCA
257 TTTTTAGCCGAAATCGTGTACTAACA-TCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCG
15043 G
321 G
*
15044 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATTTATATTCATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
* *
15109 CAGCCACATTGGACTTAAGGATTTGTTTTTACGAGCATCTGAATTTTATTTCGATTTAATTAA-A
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAA-TAAGA
* ** ** *
15173 AATTAATTCGGAAAAAAATTATAAAAACGATATTAGAAGCGTGAAAAAACTATCAATCTTTTTGA
130 AATTAATTCGGAAAAAAATT-GAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGG
* * * * *
15238 CATTGAATTATATAGTTTTTTCTTAGTATTGTAGCGAAAAATTAAGAAAAAA-TTTCGGGTCAG-
194 CGTTGAATTATATA-TTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAATTTTCGGGTCAGT
* * *
15301 TTATAGCCGAAATCGTGTAAAATCAGTTATAGCCGTAAAAACATCACAGTTTTTGG-TTAAAAAC
258 TTTTAGCCGAAATC--G-----T--G---TA--C-T---AACATCACGGTTTTTGGACTAAAAAC
** * * *
15365 GCCATTGGGGGCCCCGG
305 GCGTTTCGGCGCTCCGG
* * *
15382 CTCAGTTTTGCATGATTTTT-GCAGAAAGACTCCTTGAAATTTCTATATTCATCTGACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
* *
15446 CAGCCACATTGGATTAAAGGATTTGTTTTTACGAGCATCTGAATTTGGTTTCGATTTAATAAGAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
* * * * ***
15511 TTTAATTCGGAAAAAAATTGAAGAGCGATATTACAAGCGTGAAAAGCCCGTCAATCTTTTTGAAT
131 ATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCG
* * *
15576 TTGAATTATATATTTTTTCTAAGTATTGTGGCAAAAAGTTCAGAAAAAAAATTTTCGGGTTAGTT
196 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAG--AAAAAATTTTCGGGTCAGTT
* * * * *
15641 TTTAGCTGAAATCGTG---T-ACATCACGGTTTTTGCACTAAAAACACGTTTCAGCGCTCCTG
259 TTTAGCCGAAATCGTGTACTAACATCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCGG
* * *
15700 CTGAGTTTTGCATGATTTTTGGTAGAAAGACTCCTTGAGATATCTATATTTATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
* * * *
15765 CAGCCATATTGGATTTCAGGATTTGTTTTTAGGAGCATCTGAATTTTGTTTCGATTTAATAAGGA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
* * * ** *
15830 ATTTATTCGG-GAAAAATTGAAAAACGATATTAGAAGCGAGAAAAGCCCGTCAATCTTTTTCACT
131 ATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCG
** * *
15894 TTGAATTATATATTTTTTCTGAAAATTGTGGCAAAAAATTAAGAAAAATTTTTCGGGGTCAGTTT
196 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAATTTTC-GGGTCAGTTT
* * * **
15959 TTAGCCGAAATCGTGTAC-ACCATCACGGTTTTTGG-CTAAAAACGCCTTTCGGGGAC-CCAA
260 TTAGCCGAAATCGTGTACTAACATCACGGTTTTTGGACTAAAAACGCGTTTCGGCG-CTCCGG
* *
16019 CTCTGTTTTGCATGATTTTTGGCAGAAAGAATCCTTGAGATATCTATATTCATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
16084 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
* * *
16149 ATTAATTTGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCGCGTCAATCTTTTTGGCT
131 ATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCG
* * *
16214 TTGAATTATATATTTTTTATGAGTATTATGGCAAAAAAATTCAGAAAAAAGTTTTCAGGTCAGTT
196 TTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTCAGAAAAAA-TTTTCGGGTCAGTT
* * * * * **
16279 TTTAGCCGAAATCGTGTACTAACCATCACGATTTTT-AACTAAAAACGCCTTTCGGTGCCCCAA
259 TTTAGCCGAAATCGTGTACTAA-CATCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCGG
* * ** * *
16342 CTCTGTTTTGCATGATTTTTGGCAGAAAGAATAATTGATATATCGATATTCATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
* * *
16407 CAGCCACATTGGATTTTAGGATTTGTTTTTACGAACATCTGAATTTAGTTTC-ATTTTAATAAGA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGA-TTTAATAAGA
* * * * *
16471 AATTAATTTGAAAAAAAATTGAAAAACGATCA-TAGAAGCGTGAAAAGCCCATCAATCATTTTAG
130 AATTAATTCGGAAAAAAATTGAAAAACGAT-ATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGG
* * * * ** * *
16535 CGTTGAATTACATATTTGTTCTGAATATTGAGGCAAAAAACACAGAAAAAAATTTTCGAGTAAGT
194 CGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAG-AAAAAATTTTCGGGTCAGT
* * *
16600 TTTTAGCCAAAATCGTGTA-T---GTTACGGTTTTTGGACTAAAAACGCG-TT------T-CGG
258 TTTTAGCCGAAATCGTGTACTAACATCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCGG
* *
16652 CTCAGTTTTGCATAATTTTTGGCAGAAAGACTCCTTGAGATATGTATATTCATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
* * * ** *
16717 CAGCCACATAGGATTTCAGAATTTGTTTTTACGAGTTTCTGAATTTTGTTTCGCTTTAATAAGAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
** * * * *
16782 ATTAATTAAGAAAAAGAATTTAAAAACTATATTAGAAGCGGGTAAAGCCCGTCAATCTTTTTGGC
131 ATTAATTCGGAAAAA-AATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGC
* * * * *
16847 GTAGAATTATATATTTTTTCTGAGTATTGTGGAAAAAAATTGAGAAAAACTTTTCGGGGTCAATT
195 GTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAATTTTC-GGGTCAGTT
* * *
16912 TTTAGCCGAAATCGTGTACTGTTACTTCACGGTTTTTGGATTAAAAACGCGTTTCGG-GCTTCCG
259 TTTAGCCGAAATCGTGTAC--TAACATCACGGTTTTTGGACTAAAAACGCGTTTCGGCGC-TCCG
16976 G
321 G
* ** * *
16977 CTCAGATTTGCATGATTTTTGGCAGAAAGACTTTTTGAGATATTTATATTCATCTTACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
* * **
17042 TAGCCACATTGGATTTTAGGATTTGAGTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
* * * *
17107 ATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTAAAAATCACGTCAATC-TTTTGACG
131 ATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCG
* ** *
17171 TTGAATTATATATTTTTTCTGAGTATTGTTGCAAAAAAATTCAGAAAAAATAGTCGGGTTAGTTT
196 TTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTCAGAAAAAATTTTCGGGTCAGTTT
*
17236 TTAGCCGAAATCGTGTACTAACATTCACAGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCGG
260 TTAGCCGAAATCGTGTACTAACA-TCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCGG
* * * **
17299 CTCAGTTTTGCATGATTTTTGGCAAAAATACTCCTTGAGATACCTATACGCATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
* * * *
17364 CAGCCACATTGGATTTCAGGATTTGTCTTTACGAACATCTGAATTTTGTTTCGCTTTAATAA-AA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
** ** * * * *
17428 ATTAATTCATAAAAAAATTTCAAAACTATATTCGAAGAGTGACAAGCCCGTCAATCTTTTTGGCG
131 ATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCG
* * * * *
17493 TTGAATTATATATTTTTTCTGAGTATTGTGGTAATAGAA-TAAGAAGAACTTTTCGGGGTCAGTT
196 TTGAATTATATATTTTTTCTGAGTATTGTGGCAA-AAAATTCAGAAAAAATTTTC-GGGTCAGTT
* * * * * * **
17557 TTTAGCTGAAATCTTGTAC---CATCATGGTTTTTGG-CTAAAACCGTC-TTTCGGTGCCCCAA
259 TTTAGCCGAAATCGTGTACTAACATCACGGTTTTTGGACTAAAAACG-CGTTTCGGCGCTCCGG
* * * *
17616 CTCTGTTTTGCATGATTTTTGGCAGAAAGAATCCTTGATATAT-TGATATTCATCGAACCAAATC
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCT-ATATTCATCTAACCAAATC
*
17680 -CCGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGA
65 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGA
* * *
17744 AATTAATTCGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAGAAGCCCGTCAATCTTTTTAGC
130 AATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGC
* * * * *
17809 GTTGAATTATATATTTATTCTAAGTATTGT-GCTAAAAACTCAGAAGAACAATTTTCAGGTCAGT
195 GTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAA-AA-AATTTTCGGGTCAGT
* * * * * *
17873 TTCTAGCCGAAATTGTGTACTAACATTCACGATTTTTGGACTAAAAACGTGTTTCGGCGTTCGGG
258 TTTTAGCCGAAATCGTGTACTAACA-TCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCGG
17938 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
* *
18003 CAGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGCTTTAATAAGAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
* * ** * * *
18068 ATTAATTCAGAAAAAATTTTCAAAACTATATTCGAAGCGTGACAAGCCCGTCAATCTTTTTGGCG
131 ATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCG
* * ** ** *
18133 TTGAATTATATATTTTTTCTGAGAATTGTGGTAAAAAATTTTGAAAAGCTTTTCGGGGTCAGGTT
196 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAATTTTC-GGGTCAGTTT
* * *
18198 TTAGCCGAAATCGTGTACTAACCTTCACGGTTTTTGGAATAAAAACGCGTTTCGGCACTCCGG
260 TTAGCCGAAATCGTGTACTAA-CATCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCGG
* *
18261 CTCAGTTTTGCAAGATTTTTGGCAGAAAGACTCCTTGAGATATTTATATTCATCTAACCAAATCA
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATC-
* * * * *
18326 T-AGCAACATTGGATTTCAGGATTTATTTTTACGAGCATCTGAATTATGTTTCGCTTTAATAAGA
65 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGA
* ** * * *
18390 AATTAATTCAGAAAAAAATTTCAAAACTATATTCGAAGCGTGACAAGCCATCGTCAATCTTTTTG
130 AATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCC--CGTCAATCTTTTTG
* * * *
18455 GCGTTGAATTATATATTTTTTATGAGTATTGT-GCTAAAAAATTGAGAAATACTTTTCGGGTTCA
193 GCGTTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTCAGAAAAAATTTTCGGG-TCA
* * * * *
18519 GTTTTTAGCCGAAATCGTGTACTAACCAACACGGTTTTTGG-CTAAGAACGCCTTTCGGTGCCCC
256 GTTTTTAGCCGAAATCGTGTACTAA-CATCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCC
**
18583 AA
320 GG
* * * *
18585 CTCTA-TTTTGCATTATTTTTTGCAGAAAG-CATCCTTGATATATCGATATTCATCTAACCAAAT
1 CTC-AGTTTTGCATGATTTTTGGCAGAAAGAC-TCCTTGAGATATCTATATTCATCTAACCAAAT
* *
18648 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAACATCTGAATTTTGTTTCAATTTAATAAG
64 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAG
* * *
18713 AAATTAATTTGAAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTA
129 AAATTAATTCG-GAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTG
* * * * *
18778 GCGTTTAATTATATATTTATTCTGAGTATTGTGGTAAAAAACTCAGGAAAAAAATTTTCGGGTTA
193 GCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCA-G-AAAAAATTTTCGGGTCA
* *
18843 GTTTTTAGCCGAAATCGTGTATTAACATTCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCT
256 GTTTTTAGCCGAAATCGTGTACTAACA-TCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCC
18908 GG
320 GG
** * * * * *
18910 CAAAGTTTTGCATGATTTTTGCCAGAAAGAATCCTCGATATATCGATATTCATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
*
18975 CAGCCATATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
* * *
19040 ATTAATTCGG--AAAAATTGAAAAATGATATTAGAAGCGTGAAAAGCCTGTCAATCTTTTTGGTG
131 ATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCG
* * *
19103 TTGAATT-T-T-TTTTTTTTTAGTATTGTGGCAAAAAATTCAGAAAAAATTTTCGGATCAGTTTT
196 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAATTTTCGGGTCAGTTTT
*
19165 TAGCCGAAATCTTGTACTA
261 TAGCCGAAATCGTGTACTA
19184 TGGGTCCAGC
Statistics
Matches: 3560, Mismatches: 477, Indels: 214
0.84 0.11 0.05
Matches are distributed among these distances:
310 137 0.04
311 98 0.03
314 1 0.00
315 3 0.00
316 75 0.02
317 288 0.08
318 152 0.04
319 279 0.08
320 95 0.03
321 118 0.03
322 402 0.11
323 750 0.21
324 292 0.08
325 584 0.16
326 3 0.00
329 1 0.00
330 1 0.00
331 1 0.00
332 1 0.00
334 2 0.00
335 26 0.01
336 52 0.01
337 123 0.03
338 48 0.01
339 24 0.01
340 4 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (321 bp):
CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATATTCATCTAACCAAATCT
CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAA
ATTAATTCGGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCG
TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAATTTTCGGGTCAGTTTT
TAGCCGAAATCGTGTACTAACATCACGGTTTTTGGACTAAAAACGCGTTTCGGCGCTCCGG
Found at i:20268 original size:234 final size:233
Alignment explanation
Indices: 19836--20280 Score: 583
Period size: 234 Copynumber: 1.9 Consensus size: 233
19826 GTTCCGGCTC
* ** ** * *
19836 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGATATATCTGTATTCATTTATCCAAACCTCAG
1 AGTTTTGCATGATTTTTGGCA-AAAGACTCCTTGAAATATCCATATTCATCAAACAAAACCTCAG
** * * * *
19901 CCACATTGGATTTAGGGATTTGTTTTTACGAGCATCTAAATTTTGTTTCGATTTTAATAATAAAT
65 CCACATTGGATACAAGGATTTGTTTTTACGAGAATCTAAATCTTGTTTCGATTTTAATAAGAAAT
* * * * *
19966 TAATTCGGGAAAAATAGAAAAATGATATTAGAAGCGTGAAAAGCCTGTCAATCTTTTTGGCGTTG
130 TAATTCGGAAAAAATAGAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATCTTTTTGGCATTG
20031 AATTATATAATTTTTCGTGTCAGTTTTTACAAACGACTT
195 AATTATATAATTTTTCGTGTCAGTTTTTACAAACGACTT
* *
20070 AGTTTTGCATGATTTTTGATGC-AAAGACTTCTTGAAATATCCATATTCATCAAACAAAATCTCA
1 AGTTTTGCATGATTTTTG--GCAAAAGACTCCTTGAAATATCCATATTCATCAAACAAAACCTCA
* *
20134 GCCACATTGGATACAAGGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGA-TTTAATTAGAAA
64 GCCACATTGGATACAAGGATTTGTTTTTACGAGAATCTAAATCTTGTTTCGATTTTAATAAGAAA
* *
20198 TTAATTCGGAAAAAA-ATGAAAAACGATATT-GAAAGCTTGAAAAACCCGTCAATCTTTTTTTGC
129 TTAATTCGGAAAAAATA-GAAAAACGATATTAG-AAGCGTGAAAAACCCGTCAATC-TTTTTGGC
*
20261 ATTGAATTATATATTTTTTC
191 ATTGAATTATATAATTTTTC
20281 TGAGTAATGT
Statistics
Matches: 181, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
232 2 0.01
233 55 0.30
234 122 0.67
236 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (233 bp):
AGTTTTGCATGATTTTTGGCAAAAGACTCCTTGAAATATCCATATTCATCAAACAAAACCTCAGC
CACATTGGATACAAGGATTTGTTTTTACGAGAATCTAAATCTTGTTTCGATTTTAATAAGAAATT
AATTCGGAAAAAATAGAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATCTTTTTGGCATTGA
ATTATATAATTTTTCGTGTCAGTTTTTACAAACGACTT
Found at i:22062 original size:322 final size:321
Alignment explanation
Indices: 20070--22910 Score: 3374
Period size: 322 Copynumber: 8.9 Consensus size: 321
20060 CAAACGACTT
* * *
20070 AGTTTTGCATGATTTTT-G-ATGCAAAGACTTCTTGAAATATCCATATTCATCAAACAAAATCTC
1 AGTTTTGCATGATTTTTGGCA-G-AAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTC
** * *
20133 AGCCACATTGGATACAAGGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATTAGAAA
64 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA
* *
20198 TTAATTCGGAAAAAAA-TGAAAAACGATATT-GAAAGCTTGAAAAACCCGTCAATCTTTTTTTGC
129 TTAATTC-GAAAAAAATTGAAAAACGATATTAG-AAGCGTGAAAAACCCATCAATCTTTTTTTGC
* * * *
20261 ATTGAATTATATATTTTTTCTGAGTAATGTGGCAAAAAATTCAAAAGAAAA-TATCGGGTCAGTT
192 GTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTTAAAA-AAAATTTTCGGGTCAGTT
* ** * *
20325 TTTAGACGAAATCGTGTACTAACCATCACGGTTTTTATACTAAAAACGCGTTTTGGGGCTCCGGC
256 TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCATTTCGGGGCTCCGGC
20390 TC
320 TC
* * * *
20392 AATTTTGCATGATTTTTGGCAGAAAGACTCCCTGAATTATTTATATTCATCTAACAAAATCTCAG
1 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
* * * *
20457 CCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTCGCTTTAA-TACGAAAC
66 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTA-GAAAT
* * * *
20521 TAATTCGGAAAAAAATTGAAAAACGATATTTGAAGCGTGAAAAGCCCGTCAATC-TTTTTGGCGT
130 TAATTC-GAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTTTGCGT
* * * *
20585 TGAATTATATATTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAACATTTTGGGGTCAGTTTT
194 TGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTTA-AAAAAAATTTTCGGGTCAGTTTT
* * * * * **
20650 TAGCCGAAATCATGTACT--CCATCACGATTTTTGGCTCAAAACGCCTTTCGGGGCCCCAACTC
258 TAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCTCCGGCTC
* * * * * *
20712 TGTTTTGCATGATTTTTGGCGGAAAGAATCCTTGATATATCTATATTCATCTAACCAAATCTCAA
1 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
* * *
20777 CCACATTGGATTTAAGGATTTG-TTTTATGAGTATCTGAATTTTGTTTCGATTTAATAAGAAATT
66 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATT
* * * *
20841 AATTC-AGAAAAAATTGAAAAACGATATTAAAAGCGTGAAAATCCCGTCAATC-TTTTTGGCGTT
131 AATTCGA-AAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTTTGCGTT
* * * * *
20904 GAATTATATATTTTTTCTAAGTATTGTGGCAAAAAAATTGAGAAAAACTTTTCGGGGTTAGTTTT
195 GAATTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTTAAAAAAAATTTTC-GGGTCAGTTTT
* * * * *
20969 TAG--TAATATCTTGTACGT-----TAACGGTTTTTGGCTAAAAACGCCTTTCGGGGTTCCGGCT
258 TAGCCGAA-ATCGTGTAC-TAACCATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCTCCGGCT
21027 C
321 C
* *
21028 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTGTATTCATCTAACCAAATCTCAG
1 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
* * * * *
21093 CCACATTAGATTTAGGGATTTGTTTTTACGAGCATCTAAATTTTGTTTAGATTTAATAAGAAATT
66 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATT
* * * ** * *
21158 AATTCAGAAAAAAATAGAAAAATGGTATTAGAAGCGTGAAAAGGCCATCAATATTTTTGT-CGTT
131 AATTC-GAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTTTGCGTT
* * *
21222 GAATTATATATTTTTTCTGAGTATTGTGGCCAAAAA-TTAAGAAAAAAGTTTTCGGGTAAATTTT
195 GAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTTAA-AAAAAA-TTTTCGGGTCAGTTTT
** * * * *
21286 TAGCCGAAATCGTGTACTAACCATCACTATTTTTGGTTAAAAACGCATTTCGAGGCCCCGACTC
258 TAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCTCCGGCTC
* * *
21350 AGTTTTGCATGATTTTTTG-ACG-AAGACTTCTTGAAATATCTTTATTCATCTAATC-AAATCTC
1 AGTTTTGCATGATTTTTGGCA-GAAAGACTCCTTGAAATATCTATATTCATCTAA-CAAAATCTC
* * *
21412 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATTTTGTTTCGATTTAATAATAAA
64 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA
* * * * * * * * *
21477 TTAATTCAGAAAAAAATTCAAAAACTATATTAGAATCATCAAAAGCCCATCAAT-ATTTTTGGCA
129 TTAATTC-GAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTTTGCG
* * * * *
21541 TTAAATTATATATTTTTGT-AGAGTATTGTGGCAAAAAATTGAGAAAAACTTTTCGAGGTCAGTT
193 TTGAATTATATATTTTT-TCTGAGTATTGTGGCAAAAAATTTAAAAAAAATTTTCG-GGTCAGTT
* *
21605 TTTAGCCGAAATCGTGTACT-A-CAACACAGTTTTTGGCTAAAAACGCATTTCGGGGCT-CGGCT
256 TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCTCCGGCT
*
21667 T
321 C
* * *
21668 AGTTTTGCATGATTTTTGGC-GCAAAGACTCCTTAAAATATCCATATTCATCGAACAAAATCTCA
1 AGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCA
** *
21732 GCCACATTGGATACAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAT
65 GCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
* * * *
21797 TAATTC-TAAAAAATTGAAAAACGATATTAGAAGCTTGAAAAACCCCTCAATCTTTTTTTGTGTT
130 TAATTCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTTTGCGTT
* * * * *
21861 GAATTATATATTTTTTCTGAATAATGTGGCAAAAAATTTACAAAAAAAATATCGTGTCAGTTTTT
195 GAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTTA-AAAAAAATTTTCGGGTCAGTTTTT
* * ** **
21926 AGCCGAAATCGTGTACAAACCATCACGGTTTTTAGACTAAAAACGGGTTTCGAAGCTCCGGCTC
259 AGCCGAAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCATTTCGGGGCTCCGGCTC
* *
21990 AGTTTTGCATGATTTTTGGCAGAAAGACTCCCTGAAATATCTTTATTCATCTAACAAAATCTCAG
1 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
* ** * *
22055 CCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAAACTTGTTTCGACTTAATTAAAAATT
66 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATT
* **
22120 AATTCGAAAAAAAATTGAAAAATGATATTAGAAGCGTGAAAAGGCCATCAATC--TTTTTGCCGT
131 AATTCG-AAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTTTG-CGT
*
22183 TGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAA-TTAAGAAAAAAGTTTTCGGGTAAGTTT
194 TGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTTAA-AAAAAA-TTTTCGGGTCAGTTT
* * *
22247 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGTTAAAAACGCCTTTCGGGGCCCCGGCTC
257 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCTCCGGCTC
* * *
22312 AGTTTTGCATGATTTTTTGAAGAAAGACTCCTTGAAATATCTATATTCATCTAATC-AAATGTCA
1 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAA-CAAAATCTCA
* *
22376 GCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTGGATTTAATAAGAAAT
65 GCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
* * * * * *
22441 TAATTCATAAAAAAATT-AAAAACTATATATGGAAGCGTCAAAAACCCATCAAT-ATTTTTGGCG
130 TAATTC-GAAAAAAATTGAAAAACGATAT-TAGAAGCGTGAAAAACCCATCAATCTTTTTTTGCG
* * * * *
22504 TTGAATTATTTATTTTTTCAGAGTATTGTGGCAAAAAATTGT-GAAAAACTTATCAGGGTCAGTT
193 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATT-TAAAAAAAATTTTC-GGGTCAGTT
* * * *
22568 TTTAGCCGAAATCGTGTACTAACCATCACAG-TTTTGACTAAAAACACATTTCGGGG-TCTGGCT
256 TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCTCCGGCT
*
22631 T
321 C
* * *
22632 AGTTTTGCATGATTTTTGGCAGAATGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAA
1 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
* *
22697 CCACATTGAATTTAAGGATTTGTTTTT-CTGAGCA--TGAATTTTGTTTCGATTTAACTAGAAAT
66 CCACATTGGATTTAAGGATTTGTTTTTAC-GAGCATCTGAATTTTGTTTCGATTTAATTAGAAAT
** * * *
22759 TAATTTCGGGAAAAATTGAAAAACGATATTAGAAGCTTGAAAAATCCGTCAATCTTTTTTTGCGT
130 TAA-TTCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTTTGCGT
* * * ** ** *
22824 TTAATTATATATTTTTTCTGAGTAATGTGGAAAAAAAAATAAAAAAAAAATAATCAGGTCAGTTT
194 TGAATTATATATTTTTTCTGAGTATTGTGG--CAAAAAATTTAAAAAAAATTTTCGGGTCAGTTT
*
22889 TTAGCAGAAATCGTGTACTAAC
257 TTAGCCGAAATCGTGTACTAAC
22911 ATGTGAGGGA
Statistics
Matches: 2169, Mismatches: 285, Indels: 132
0.84 0.11 0.05
Matches are distributed among these distances:
316 115 0.05
317 108 0.05
318 326 0.15
319 259 0.12
320 245 0.11
321 292 0.13
322 623 0.29
323 158 0.07
324 43 0.02
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (321 bp):
AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATT
AATTCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTTTGCGTTG
AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTTAAAAAAAATTTTCGGGTCAGTTTTTAG
CCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCATTTCGGGGCTCCGGCTC
Found at i:22193 original size:641 final size:639
Alignment explanation
Indices: 20064--22908 Score: 3413
Period size: 641 Copynumber: 4.4 Consensus size: 639
20054 TTTTTACAAA
* * * *
20064 CGACTTAGTTTTGCATGATTTTT-G-ATGCAAAGACTTCTTGAAATATCCATATTCATCAAACAA
1 CGACTCAGTTTTGCATGATTTTTGGCA-G-AAAGACTCCTTGAAATATCTATATTCATCTAACAA
** * *
20127 AATCTCAGCCACATTGGATACAAGGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTAAT
64 AATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAA-
* * *
20192 TAGAAATTAATTCGGAAAAAAA-TGAAAAACGATATT-GAAAGCTTGAAAAACCCGTCAATCTTT
128 TAAAAATTAATTCGAAAAAAAATTGAAAAACGATATTAG-AAGCGTGAAAAACCCGTCAATC--T
* * *
20255 TTTTGCATTGAATTATATATTTTTTCTGAGTAATGTGGCAAAAAATTCAA-AAGAAAA-TATCGG
190 TTTTGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATT-AAGAA-AAAATTTTCGG
* * ** * *
20318 GTCAGTTTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTATACTAAAAACGCGTTTTGGGG
253 GTCAGTTTTTAGCCGAAATCGTGTACT-ACCAACACGGTTTTT-GGCTAAAAACGCCTTTCGGGG
* * * *
20383 CTCCGGCTCAATTTTGCATGATTTTTGGCAGAAAGACTCCCTGAATTATTTATATTCATCTAACA
316 CTCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACA
* *
20448 AAATCTCAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTCGCTTTAA
381 AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
* * * * * *
20513 TACGAAACTAATTCGGAAAAAAATTGAAAAACGATATTTGAAGCGTGAAAAGCCCGTCAATCTTT
446 TAAGAAATTAATTC-GAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATTTTT
* * * *
20578 TTGGCGTTGAATTATATATTTTTTCT-AAGTATTGTGGCAAAAAATTGAGAAAAACATTTTGGGG
510 TTGGCGTTGAATTATATATTTTTTCTGAA-TATTGTGGCAAAAAATTTAGAAAAAAATTATCGGG
* * * * *
20642 TCAGTTTTTAGCCGAAATCATGTACT--CCATCACGATTTTTGGCTCAAAACGCCTTTCGGGGCC
574 TCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACTAAAAACGCATTTCGAGGCC
20705 C
639 C
* * * * * *
20706 CAACTCTGTTTTGCATGATTTTTGGCGGAAAGAATCCTTGATATATCTATATTCATCTAACCAAA
1 CGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAA
* * *
20771 TCTCAACCACATTGGATTTAAGGATTTG-TTTTATGAGTATCTGAATTTTGTTTCGATTTAATAA
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAA
* * *
20835 GAAATTAATTC-AGAAAAAATTGAAAAACGATATTAAAAGCGTGAAAATCCCGTCAATCTTTTTG
131 -AAATTAATTCGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATCTTTTT-
* * * *
20899 GCGTTGAATTATATATTTTTTCTAAGTATTGTGGCAAAAAAATTGAGAAAAACTTTTCGGGGTTA
194 GCGTTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTAAGAAAAAATTTTC-GGGTCA
* * * *
20964 GTTTTTAG--TAATATCTTGTACGT---TA-ACGGTTTTTGGCTAAAAACGCCTTTCGGGGTTCC
257 GTTTTTAGCCGAA-ATCGTGTAC-TACCAACACGGTTTTTGGCTAAAAACGCCTTTCGGGGCTCC
* *
21023 GGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTGTATTCATCTAACCAAAT
320 GGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAAT
* * * * *
21088 CTCAGCCACATTAGATTTAGGGATTTGTTTTTACGAGCATCTAAATTTTGTTTAGATTTAATAAG
385 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATAAG
* * * ** * *
21153 AAATTAATTCAGAAAAAAATAGAAAAATGGTATTAGAAGCGTGAAAAGGCCATCAATATTTTTGT
450 AAATTAATTC-GAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATTTTTTTGG
* * * * * * *
21218 CGTTGAATTATATATTTTTTCTGAGTATTGTGGCCAAAAATTAAGAAAAAAGTTTTCGGGTAAAT
514 CGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTTAGAAAAAAATTATCGGGTCAGT
* **
21283 TTTTAGCCGAAATCGTGTACTAACCATCACTATTTTTGGTTAAAAACGCATTTCGAGGCCC
579 TTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACTAAAAACGCATTTCGAGGCCC
* * *
21344 CGACTCAGTTTTGCATGATTTTTTG-ACG-AAGACTTCTTGAAATATCTTTATTCATCTAATC-A
1 CGACTCAGTTTTGCATGATTTTTGGCA-GAAAGACTCCTTGAAATATCTATATTCATCTAA-CAA
*
21406 AATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATTTTGTTTCGATTTAAT
64 AATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAAT
* * * * * * * *
21471 AATAAATTAATTC-AGAAAAAAATTCAAAAACTATATTAGAATCATCAAAAGCCCATCAATATTT
129 AA-AAATTAATTCGA-AAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATCTTT
* * * * *
21535 TTGGCATTAAATTATATATTTTTGT-AGAGTATTGTGGCAAAAAATTGAGAAAAACTTTTCGAGG
192 TT-GCGTTGAATTATATATTTTT-TCTGAGTATTGTGGCAAAAAATTAAGAAAAAATTTTCG-GG
* *
21599 TCAGTTTTTAGCCGAAATCGTGTACTA-CAACACAGTTTTTGGCTAAAAACGCATTTCGGGGCT-
254 TCAGTTTTTAGCCGAAATCGTGTACTACCAACACGGTTTTTGGCTAAAAACGCCTTTCGGGGCTC
* * * *
21662 CGGCTTAGTTTTGCATGATTTTTGGC-GCAAAGACTCCTTAAAATATCCATATTCATCGAACAAA
319 CGGCTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCTAACAAA
** *
21726 ATCTCAGCCACATTGGATACAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
383 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATA
* * *
21791 AGAAATTAATTC-TAAAAAATTGAAAAACGATATTAGAAGCTTGAAAAACCCCTCAATCTTTTTT
448 AGAAATTAATTCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAAT-TTTTTT
* * * * * *
21855 TGTGTTGAATTATATATTTTTTCTGAATAATGTGGCAAAAAATTTACAAAAAAAATATCGTGTCA
512 GGCGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTTAGAAAAAAATTATCGGGTCA
* * ** * *
21920 GTTTTTAGCCGAAATCGTGTACAAACCATCACGGTTTTTAGACTAAAAACGGGTTTCGAAGCTC
577 GTTTTTAGCCGAAATCGTGTACTAACCATCACGATTTTT-GACTAAAAACGCATTTCGAGGCCC
* * *
21984 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCCTGAAATATCTTTATTCATCTAACAAAA
1 CGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAA
* ** *
22049 TCTCAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAAACTTGTTTCGACTTAATTA
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAA-TA
* ** *
22114 AAAATTAATTCGAAAAAAAATTGAAAAATGATATTAGAAGCGTGAAAAGGCCATCAATCTTTTTG
130 AAAATTAATTCGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATCTTTTTG
*
22179 CCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGAAAAAAGTTTTCGGGTAAG
195 -CGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGAAAAAA-TTTTCGGGTCAG
* * *
22244 TTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGTTAAAAACGCCTTTCGGGGCCCCGG
258 TTTTTAGCCGAAATCGTGTACT-ACCAACACGGTTTTTGGCTAAAAACGCCTTTCGGGGCTCCGG
* * *
22309 CTCAGTTTTGCATGATTTTTTGAAGAAAGACTCCTTGAAATATCTATATTCATCTAATC-AAATG
322 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAA-CAAAATC
* *
22373 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTGGATTTAATAAGA
386 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATAAGA
* * * * *
22438 AATTAATTCATAAAAAAATT-AAAAACTATATATGGAAGCGTCAAAAACCCATCAATATTTTTGG
451 AATTAATTC-GAAAAAAATTGAAAAACGATAT-TAGAAGCGTGAAAAACCCATCAATTTTTTTGG
* * * *
22502 CGTTGAATTATTTATTTTTTCAGAGTATTGTGGCAAAAAATTGT-G-AAAAACTTATCAGGGTCA
514 CGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATT-TAGAAAAAAATTATC-GGGTCA
* * **
22565 GTTTTTAGCCGAAATCGTGTACTAACCATCAC-AGTTTTGACTAAAAACACATTTCG-GGGTC
577 GTTTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACTAAAAACGCATTTCGAGGCCC
* * * * *
22626 TGGCTTAGTTTTGCATGATTTTTGGCAGAATGACTCCTTGAAATATCTATATTCATCTAACCAAA
1 CGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAA
* *
22691 TCTCAACCACATTGAATTTAAGGATTTGTTTTT-CTGAGCA--TGAATTTTGTTTCGATTTAACT
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTAC-GAGCATCTGAATTTTGTTTCGATTTAA-T
* ** * *
22753 AGAAATTAATTTCG-GGAAAAATTGAAAAACGATATTAGAAGCTTGAAAAATCCGTCAATCTTTT
129 AAAAATTAA-TTCGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATC--TT
* * * * * ** *
22817 TTTGCGTTTAATTATATATTTTTTCTGAGTAATGTGGAAAAAAAAATAAAAAAAAAATAATCAGG
191 TTTGCGTTGAATTATATATTTTTTCTGAGTATTGTGG--CAAAAAATTAAGAAAAAATTTTCGGG
*
22882 TCAGTTTTTAGCAGAAATCGTGTACTA
254 TCAGTTTTTAGCCGAAATCGTGTACTA
22909 ACATGTGAGG
Statistics
Matches: 1898, Mismatches: 252, Indels: 107
0.84 0.11 0.05
Matches are distributed among these distances:
636 266 0.14
637 68 0.04
638 173 0.09
639 177 0.09
640 285 0.15
641 375 0.20
642 233 0.12
643 63 0.03
644 138 0.07
645 91 0.05
646 29 0.02
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (639 bp):
CGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAA
TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAA
AAATTAATTCGAAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATCTTTTTGC
GTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGAAAAAATTTTCGGGTCAGTTT
TTAGCCGAAATCGTGTACTACCAACACGGTTTTTGGCTAAAAACGCCTTTCGGGGCTCCGGCTCA
GTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAGC
CACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATAAGAAATTA
ATTCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAACCCATCAATTTTTTTGGCGTTGAA
TTATATATTTTTTCTGAATATTGTGGCAAAAAATTTAGAAAAAAATTATCGGGTCAGTTTTTAGC
CGAAATCGTGTACTAACCATCACGATTTTTGACTAAAAACGCATTTCGAGGCCC
Found at i:22307 original size:962 final size:955
Alignment explanation
Indices: 20070--22906 Score: 3769
Period size: 962 Copynumber: 3.0 Consensus size: 955
20060 CAAACGACTT
* * *
20070 AGTTTTGCATGATTTTT-G-ATGCAAAGACTTCTTGAAATATCCATATTCATCAAACAAAATCTC
1 AGTTTTGCATGATTTTTGGCA-G-AAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTC
** * * *
20133 AGCCACATTGGATACAAGGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATTAGAAA
64 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAAAAA
* * * ** *
20198 TTAATTCGGAAAAAAA-TGAAAAACGATATT-GAAAGCTTGAAAAACCCGTCAATCTTTTTTTGC
129 TTAATTCGAAAAAAAATTGAAAAATGATATTAG-AAGCGTGAAAAGGCCATCAATC--TTTTTGC
* * * *
20261 ATTGAATTATATATTTTTTCTGAGTAATGTGGCAAAAAATTCAA-AAGAAAA--TATCGGGTCAG
191 GTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATT-AAGAA-AAAAGTTTTCGGGTAAG
* * * * *
20323 TTTTTAGACGAAATCGTGTACTAACCATCACGGTTTTT-ATACTAAAAACGCGTTTTGGGGCTCC
254 TTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGT--TAAAAACGCATTTCGGGGCCCC
* * * *
20387 GGCTCAATTTTGCATGA-TTTTTGGCAGAAAGACTCCCTGAATTAT-TTATATTCATCTAA-CAA
317 GGCTCAGTTTTGCATGATTTTTTGAC-GAAAGACTCCTTGAAATATCTT-TATTCATCTAATC-A
* * *
20449 AATCTCAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTCGCTTTAAT
379 AATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAAT
* * * * * * * *
20514 ACGAAACTAATTCGGAAAAAAATTGAAAAACGATATTTGAAGCGTGAAAAGCCCGTCAATCTTTT
444 AAGAAATTAATTCAGAAAAAAATT-AAAAACTATATTAGAAGCGTCAAAAGCCCATCAATATTTT
*
20579 TGGCGTTGAATTATATATTTTTTCTA-AGTATTGTGGCAAAAAATTGAGAAAAACATTTT-GGGG
508 TGGCGTTGAATTATATA-TTTTT-TAGAGTATTGTGGCAAAAAATTGAGAAAAAC-TTTTCGAGG
* * * * *
20642 TCAGTTTTTAGCCGAAATCATGTACTCCATCAC-GATTTTTGGCTCAAAACGCCTTTCGGGGCCC
570 TCAGTTTTTAGCCGAAATCGTGTACTACATCACAG-TTTTTGGCTAAAAACGCATTTCGGGG-CT
** * *
20706 CAACTCT-GTTTTGCATGATTTTTGGCGGAAAGAATCCTTGATATATCTATATTCATCTAACCAA
633 CGGCT-TAGTTTTGCATGATTTTTGGC-GAAAGACTCCTTGAAATATCTATATTCATCTAACCAA
* * *
20770 ATCTCAACCACATTGGATTTAAGGATTTG-TTTTATGAGTATCTGAATTTTGTTTCGATTTAATA
696 ATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATT
* * *
20834 AGAAATTAATTCAGAAAAAATTGAAAAACGATATTAAAAGCGTGAAAATCCCGTCAATC-TTTTT
761 AGAAATTAATTCAGAAAAAATTGAAAAACGATATTAGAAGCTTGAAAAACCCGTCAATCTTTTTT
* * * * ** * *
20898 GGCGTTGAATTATATATTTTTTCT-AAGTATTGTGGCAAAAAAATTGAGAAAAACTTTTCGGGGT
826 TGCGTTGAATTATATATTTTTTCTGAA-TAATGTGGC-AAAAAATTTAAAAAAAAATATC-AGGT
* * * ** * ** *
20962 TAGTTTTTAG-TAATATCTTGT--ACGTTAACGGTTTTTGGCTAAAAACGCCTTTCGGGGTTCCG
888 CAGTTTTTAGCGAA-ATCGTGTACACCATAACGGTTTTTGACTAAAAACGCCTTTCGAAGCTCCG
21024 GCTC
952 GCTC
* *
21028 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTGTATTCATCTAACCAAATCTCAG
1 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
* * * *
21093 CCACATTAGATTTAGGGATTTGTTTTTACGAGCATCT-AAATTTTGTTTAGATTTAA-TAAGAAA
66 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAA-CTTGTTTCGATTTAATTAA-AAA
* * *
21156 TTAATTC-AGAAAAAAATAGAAAAATGGTATTAGAAGCGTGAAAAGGCCATCAATATTTTTGTCG
129 TTAATTCGA-AAAAAAATTGAAAAATGATATTAGAAGCGTGAAAAGGCCATCAATCTTTTTG-CG
* *
21220 TTGAATTATATATTTTTTCTGAGTATTGTGGCCAAAAATTAAGAAAAAAGTTTTCGGGTAAATTT
192 TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGAAAAAAGTTTTCGGGTAAGTTT
** * *
21285 TTAGCCGAAATCGTGTACTAACCATCACTATTTTTGGTTAAAAACGCATTTCGAGGCCCCGACTC
257 TTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGTTAAAAACGCATTTCGGGGCCCCGGCTC
*
21350 AGTTTTGCATGATTTTTTGACG-AAGACTTCTTGAAATATCTTTATTCATCTAATCAAATCTCAG
322 AGTTTTGCATGATTTTTTGACGAAAGACTCCTTGAAATATCTTTATTCATCTAATCAAATCTCAG
* *
21414 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATTTTGTTTCGATTTAATAATAAATT
387 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAAATT
* * * *
21479 AATTCAGAAAAAAATTCAAAAACTATATTAGAATCATCAAAAGCCCATCAATATTTTTGGCATTA
452 AATTCAGAAAAAAATT-AAAAACTATATTAGAAGCGTCAAAAGCCCATCAATATTTTTGGCGTTG
21544 AATTATATATTTTTGTAGAGTATTGTGGCAAAAAATTGAGAAAAACTTTTCGAGGTCAGTTTTTA
516 AATTATATATTTTT-TAGAGTATTGTGGCAAAAAATTGAGAAAAACTTTTCGAGGTCAGTTTTTA
*
21609 GCCGAAATCGTGTACTACAACACAGTTTTTGGCTAAAAACGCATTTCGGGGCTCGGCTTAGTTTT
580 GCCGAAATCGTGTACTACATCACAGTTTTTGGCTAAAAACGCATTTCGGGGCTCGGCTTAGTTTT
* * * * *
21674 GCATGATTTTTGGCGCAAAGACTCCTTAAAATATCCATATTCATCGAACAAAATCTCAGCCACAT
645 GCATGATTTTTGGCG-AAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAACCACAT
** *
21739 TGGATACAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-
709 TGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATTAATTCA
* * *
21803 TAAAAAATTGAAAAACGATATTAGAAGCTTGAAAAACCCCTCAATCTTTTTTTGTGTTGAATTAT
774 GAAAAAATTGAAAAACGATATTAGAAGCTTGAAAAACCCGTCAATCTTTTTTTGCGTTGAATTAT
21868 ATATTTTTTCTGAATAATGTGGCAAAAAATTTACAAAAAAAATATC-GTGTCAGTTTTTAGCCGA
839 ATATTTTTTCTGAATAATGTGGCAAAAAATTTA-AAAAAAAATATCAG-GTCAGTTTTTAG-CGA
* **
21932 AATCGTGTACAAACCATCACGGTTTTTAGACTAAAAACGGGTTTCGAAGCTCCGGCTC
901 AATCGTGTAC--ACCATAACGGTTTTT-GACTAAAAACGCCTTTCGAAGCTCCGGCTC
* *
21990 AGTTTTGCATGATTTTTGGCAGAAAGACTCCCTGAAATATCTTTATTCATCTAACAAAATCTCAG
1 AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
* *
22055 CCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAAACTTGTTTCGACTTAATTAAAAATT
66 CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAAAAATT
22120 AATTCGAAAAAAAATTGAAAAATGATATTAGAAGCGTGAAAAGGCCATCAATCTTTTTGCCGTTG
131 AATTCGAAAAAAAATTGAAAAATGATATTAGAAGCGTGAAAAGGCCATCAATCTTTTTG-CGTTG
22185 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGAAAAAAGTTTTCGGGTAAGTTTTTA
195 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGAAAAAAGTTTTCGGGTAAGTTTTTA
*
22250 GCCGAAATCGTGTACTAACCATCACGGTTTTTGGTTAAAAACGCCTTTCGGGGCCCCGGCTCAGT
260 GCCGAAATCGTGTACTAACCATCACGGTTTTTGGTTAAAAACGCATTTCGGGGCCCCGGCTCAGT
* * *
22315 TTTGCATGATTTTTTGAAGAAAGACTCCTTGAAATATCTATATTCATCTAATCAAATGTCAGCCA
325 TTTGCATGATTTTTTGACGAAAGACTCCTTGAAATATCTTTATTCATCTAATCAAATCTCAGCCA
*
22380 CATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTGGATTTAATAAGAAATTAAT
390 CATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAAATTAAT
* * *
22445 TCATAAAAAAATTAAAAACTATATATGGAAGCGTCAAAAACCCATCAATATTTTTGGCGTTGAAT
455 TCAGAAAAAAATTAAAAACTATAT-TAGAAGCGTCAAAAGCCCATCAATATTTTTGGCGTTGAAT
* * *
22510 TATTTATTTTTTCAGAGTATTGTGGCAAAAAATTGTGAAAAACTTATC-AGGGTCAGTTTTTAGC
519 TATATATTTTTT-AGAGTATTGTGGCAAAAAATTGAGAAAAACTTTTCGA-GGTCAGTTTTTAGC
* *
22574 CGAAATCGTGTACTAACCATCACAG-TTTTGACTAAAAACACATTTCGGGG-TCTGGCTTAGTTT
582 CGAAATCGTGTACT-A-CATCACAGTTTTTGGCTAAAAACGCATTTCGGGGCTC-GGCTTAGTTT
*
22637 TGCATGATTTTTGGCAGAATGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAACCACA
644 TGCATGATTTTTGGC-GAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAACCACA
* *
22702 TTGAATTTAAGGATTTGTTTTT-CTGAGCA--TGAATTTTGTTTCGATTTAACTAGAAATTAATT
708 TTGGATTTAAGGATTTGTTTTTAC-GAGCATCTGAATTTTGTTTCGATTTAATTAGAAATTAA-T
* * * *
22764 TCGGGAAAAATTGAAAAACGATATTAGAAGCTTGAAAAATCCGTCAATCTTTTTTTGCGTTTAAT
771 TCAGAAAAAATTGAAAAACGATATTAGAAGCTTGAAAAACCCGTCAATCTTTTTTTGCGTTGAAT
* * * *
22829 TATATATTTTTTCTGAGTAATGTGGAAAAAAAAATAAAAAAAAAATAATCAGGTCAGTTTTTAGC
836 TATATATTTTTTCTGAATAATGTGG-CAAAAAATTTAAAAAAAAAT-ATCAGGTCAGTTTTTAGC
22894 AGAAATCGTGTAC
899 -GAAATCGTGTAC
22907 TAACATGTGA
Statistics
Matches: 1659, Mismatches: 170, Indels: 93
0.86 0.09 0.05
Matches are distributed among these distances:
955 3 0.00
956 151 0.09
957 348 0.21
958 200 0.12
959 80 0.05
960 3 0.00
961 12 0.01
962 379 0.23
963 234 0.14
964 205 0.12
965 43 0.03
966 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (955 bp):
AGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACAAAATCTCAG
CCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAAAAATT
AATTCGAAAAAAAATTGAAAAATGATATTAGAAGCGTGAAAAGGCCATCAATCTTTTTGCGTTGA
ATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGAAAAAAGTTTTCGGGTAAGTTTTTAG
CCGAAATCGTGTACTAACCATCACGGTTTTTGGTTAAAAACGCATTTCGGGGCCCCGGCTCAGTT
TTGCATGATTTTTTGACGAAAGACTCCTTGAAATATCTTTATTCATCTAATCAAATCTCAGCCAC
ATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATAAGAAATTAATT
CAGAAAAAAATTAAAAACTATATTAGAAGCGTCAAAAGCCCATCAATATTTTTGGCGTTGAATTA
TATATTTTTTAGAGTATTGTGGCAAAAAATTGAGAAAAACTTTTCGAGGTCAGTTTTTAGCCGAA
ATCGTGTACTACATCACAGTTTTTGGCTAAAAACGCATTTCGGGGCTCGGCTTAGTTTTGCATGA
TTTTTGGCGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTT
AAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAA
TTGAAAAACGATATTAGAAGCTTGAAAAACCCGTCAATCTTTTTTTGCGTTGAATTATATATTTT
TTCTGAATAATGTGGCAAAAAATTTAAAAAAAAATATCAGGTCAGTTTTTAGCGAAATCGTGTAC
ACCATAACGGTTTTTGACTAAAAACGCCTTTCGAAGCTCCGGCTC
Found at i:23141 original size:68 final size:68
Alignment explanation
Indices: 23030--23164 Score: 252
Period size: 68 Copynumber: 2.0 Consensus size: 68
23020 CATTATTATG
23030 GGCTGCTCGGTGGGCCTTGCTAAAGCAGACAGGGCACGAGTTCCTCTCCCAACAAGTTCATGATG
1 GGCTGCTCGGTGGGCCTTGCTAAAGCAGACAGGGCACGAGTTCCTCTCCCAACAAGTTCATGATG
23095 TGA
66 TGA
* *
23098 GGCTGCTCGGTGGGCCTTGCTAAAGCAGACAGGGCCCGGGTTCCTCTCCCAACAAGTTCATGATG
1 GGCTGCTCGGTGGGCCTTGCTAAAGCAGACAGGGCACGAGTTCCTCTCCCAACAAGTTCATGATG
23163 TG
66 TG
23165 GGATGTTCCC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.22
Consensus pattern (68 bp):
GGCTGCTCGGTGGGCCTTGCTAAAGCAGACAGGGCACGAGTTCCTCTCCCAACAAGTTCATGATG
TGA
Done.