Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008359.1 Hibiscus syriacus cultivar Beakdansim tig00111098_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: 1252926
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:485804 original size:23 final size:23
Alignment explanation
Indices: 485778--485840 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
485768 ATATAAGCAC
485778 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
485801 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
485824 TACCTATTACATCATAT
1 TACCTATTACATTATAT
485841 TTTTATCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:486083 original size:491 final size:489
Alignment explanation
Indices: 484876--486514 Score: 3046
Period size: 491 Copynumber: 3.3 Consensus size: 489
484866 TTATAATATG
*
484876 TTGAAAGTGTCCATACTTTTAATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
484941 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTTACA
485006 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
485071 TAACCAAAGATAATAATAAATATATAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
485136 ATCGTAACGTAAAAAATAAATCATTAGACGCCAATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
485201 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
485266 TAGATACTTTACAATATAAG-ACTACCTATTACATTATATAAACGATACCTATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACCTATTACATTATATAA
485330 GCGCTACCTATTACATCATATTTTTACATATTATA
456 GCGCTACCTATTACATCATATTTTTAC-TATTATA
*
485365 TTGAAAGTGCCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
485430 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTTACA
*
485495 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAGTTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
485560 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
485625 ATTGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
485690 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
485755 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACCTATTACATTATATAA
391 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACCTATTACATTATATAA
485820 GCGCTACCTATTACATCATATTTTTATCTATTATA
456 GCGCTACCTATTACATCATATTTTTA-CTATTATA
* *
485855 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTGTGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
485920 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTTAC
485985 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
486050 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
486115 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
486180 TCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
486245 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACCTATTACATTATATA
390 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACCTATTACATTATATA
* *
486310 AGCGCTACATATAACATCATATTTTTACCTATTATA
455 AGCGCTACCTATTACATCATATTTTTA-CTATTATA
* *
486346 TTGAAAGTGTCCATACTTTTTATAAAAAAAGATAGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTAT-AAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
*
486411 TTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAAGAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTTAC
486476 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
486515 TCACAAAACT
Statistics
Matches: 1119, Mismatches: 27, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
489 398 0.36
490 113 0.10
491 595 0.53
492 13 0.01
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAGAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGATACCTATTACATTATATAA
GCGCTACCTATTACATCATATTTTTACTATTATA
Found at i:486326 original size:23 final size:23
Alignment explanation
Indices: 486259--486331 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
486249 ATACTTTACA
*
486259 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
486282 ATATAAACGATACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* * *
486305 ATATAAGCGCTACATATAACATC
1 ATATAAGCGCTACCTATTACATT
486328 ATAT
1 ATAT
486332 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.33
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:487673 original size:183 final size:183
Alignment explanation
Indices: 487365--488315 Score: 1812
Period size: 183 Copynumber: 5.2 Consensus size: 183
487355 ACGTTACTTA
487365 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
* *
487430 TATATTTATACCAGTTATATTACAAAATTATCTATTACGTTATAAATCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
*
487495 ATGTTGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
*
487548 AAAGTACCGACACAATATTAGAAAGTGTCGATATAAGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
487613 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
*
487678 ATGTCGACACTTTTTTAAATGATATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
*
487731 AAAGTACCGACACAATATAAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
487796 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
*
487861 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCTAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
*
487914 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAAACGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
487979 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
*
488044 ATGTCGACACTTTTTTAAATGGTGTCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
488097 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
488162 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCTGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
488227 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
488280 AAAGTACCGACACAATATTAGAAAGTGTCGATATAG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAG
488316 TTTGAAAACT
Statistics
Matches: 752, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 752 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
Found at i:489524 original size:9 final size:9
Alignment explanation
Indices: 489510--489587 Score: 75
Period size: 9 Copynumber: 8.7 Consensus size: 9
489500 ACTTGTTTGG
*
489510 ATCATCATT
1 ATCATCATC
489519 ATCATCATC
1 ATCATCATC
489528 ATCATCATC
1 ATCATCATC
*
489537 GTCATCATC
1 ATCATCATC
* *
489546 TTCATCGTC
1 ATCATCATC
* *
489555 AGCTTCATC
1 ATCATCATC
*
489564 GTCATCATC
1 ATCATCATC
*
489573 ATCGTCATC
1 ATCATCATC
*
489582 TTCATC
1 ATCATC
489588 GTCAGCTTCA
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.37
Consensus pattern (9 bp):
ATCATCATC
Found at i:489528 original size:6 final size:6
Alignment explanation
Indices: 489510--489587 Score: 75
Period size: 6 Copynumber: 13.0 Consensus size: 6
489500 ACTTGTTTGG
* * * * *
489510 ATCATC ATTATC ATCATC ATCATC ATCGTC ATCATC TTCATC GTCAGC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * *
489558 TTCATC GTCATC ATCATC GTCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC
489588 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:489550 original size:24 final size:24
Alignment explanation
Indices: 489514--489591 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 24
489504 GTTTGGATCA
*
489514 TCATTATCATCATCATCATCATCG
1 TCATCATCATCATCATCATCATCG
* *
489538 TCATCATCTTCATCGTCAGCTTCATCG
1 TCATCATCATCATCATCA---TCATCG
* *
489565 TCATCATCATCGTCATCTTCATCG
1 TCATCATCATCATCATCATCATCG
489589 TCA
1 TCA
489592 GCTTCATCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 24 0.55
27 20 0.45
ACGTcount: A:0.23, C:0.32, G:0.08, T:0.37
Consensus pattern (24 bp):
TCATCATCATCATCATCATCATCG
Found at i:489560 original size:12 final size:12
Alignment explanation
Indices: 489545--489599 Score: 83
Period size: 12 Copynumber: 4.6 Consensus size: 12
489535 TCGTCATCAT
489545 CTTCATCGTCAG
1 CTTCATCGTCAG
*
489557 CTTCATCGTCAT
1 CTTCATCGTCAG
* *
489569 CATCATCGTCAT
1 CTTCATCGTCAG
489581 CTTCATCGTCAG
1 CTTCATCGTCAG
489593 CTTCATC
1 CTTCATC
489600 TTTATTGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.18, C:0.35, G:0.11, T:0.36
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:489563 original size:36 final size:36
Alignment explanation
Indices: 489523--489599 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
489513 ATCATTATCA
*
489523 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
489559 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
489595 TCATC
1 TCATC
489600 TTTATTGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:491896 original size:198 final size:200
Alignment explanation
Indices: 491112--492240 Score: 2097
Period size: 200 Copynumber: 5.7 Consensus size: 200
491102 TTATATACCA
*
491112 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
491177 TTGGTTTTCGATGTTTTTGGGATCGACACTTTCTATATATGGATCGACACTTTATGGTTGCACCC
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
491242 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
131 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
491307 GACAT
196 GACAT
*
491312 ATTCTCTCATAAAACCGGTATACTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
491377 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCTACACTTTATGGTTGCACCC
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
491442 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
131 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
491507 GACAT
196 GACAT
491512 ATTCTCTCATAAAACC-GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
* *
491576 TTGGTTTTCGATATTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGTACCC
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
*
491641 TGTTTTCCATTCATTATGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
131 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
491706 GACAT
196 GACAT
*
491711 ATTCTCTCATAAAACCAGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
491776 TTGGTTTTCGATGTTTTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCGCCC
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
491839 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
131 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
491904 GACAT
196 GACAT
* *
491909 ATTCTCTCATAAAACCGATATACTTGTACCTGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
491974 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
**
492039 TGTTGGCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
131 TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
492104 GACAT
196 GACAT
*
492109 ATTCTCTCATAAAACCGGTATACTTGTATCGGTTAGATTGAAAAATT--ATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
492172 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
66 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
492237 TGTT
131 TGTT
492241 GGCCATATTG
Statistics
Matches: 904, Mismatches: 22, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
198 273 0.30
199 202 0.22
200 429 0.47
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (200 bp):
ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
TGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTA
GACAT
Found at i:492370 original size:18 final size:18
Alignment explanation
Indices: 492347--492407 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
492337 TCTCATTCAT
*
492347 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
492365 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
492384 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
492403 AATTA
1 AATTA
492408 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:492383 original size:19 final size:19
Alignment explanation
Indices: 492359--492407 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
492349 TTATATTCAC
492359 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
492378 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
492397 ATACAAAATTA
1 ATACAAAATTA
492408 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:494176 original size:33 final size:33
Alignment explanation
Indices: 494130--494228 Score: 137
Period size: 33 Copynumber: 3.0 Consensus size: 33
494120 CATCTTAATA
* * *
494130 TCACCCCTTAACACCCCCAACTT-TTTCACCACT
1 TCACCCCTCAACA-CCTCTACTTATTTCACCACT
*
494163 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCTACTTATTTCACCACT
*
494196 TCACCCCTCAAAACCTCTACTTATTTCACCACT
1 TCACCCCTCAACACCTCTACTTATTTCACCACT
494229 CCATCTATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 7 0.12
33 53 0.88
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCTCTACTTATTTCACCACT
Found at i:494287 original size:21 final size:21
Alignment explanation
Indices: 494262--494326 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
494252 CCCCTTATGC
* *
494262 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
494283 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
494304 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
494325 CT
1 CT
494327 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:496370 original size:24 final size:24
Alignment explanation
Indices: 496333--496385 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
496323 CCGTTCTATC
496333 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
496357 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
496381 TATTT
1 TATTT
496386 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:496664 original size:20 final size:20
Alignment explanation
Indices: 496628--496665 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
496618 TACTGAGTTT
*
496628 GTATATAAATAATTTTTTGA
1 GTATATAAATAAATTTTTGA
496648 GTATAT-AATGAAATTTTT
1 GTATATAAAT-AAATTTTT
496666 TACATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
GTATATAAATAAATTTTTGA
Found at i:497788 original size:19 final size:19
Alignment explanation
Indices: 497766--497802 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
497756 AAAGTTTCGA
497766 TACTTTCTAGAGGTTTCAG
1 TACTTTCTAGAGGTTTCAG
*
497785 TACTTTCTAGGGGTTTCA
1 TACTTTCTAGAGGTTTCA
497803 AAATTATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (19 bp):
TACTTTCTAGAGGTTTCAG
Found at i:502631 original size:23 final size:23
Alignment explanation
Indices: 502584--502633 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
502574 AATAACATAT
**
502584 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
*
502607 TAGGTAGTGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
502630 TAGG
1 TAGG
502634 CATTTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:502693 original size:87 final size:87
Alignment explanation
Indices: 502547--502709 Score: 308
Period size: 87 Copynumber: 1.9 Consensus size: 87
502537 TATGTTATAT
502547 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
*
502612 AGTGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
*
502634 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
502699 AGCGCTTATAT
66 AGCGCTTATAT
502710 TGACATATTT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:503404 original size:182 final size:182
Alignment explanation
Indices: 503092--503768 Score: 1031
Period size: 182 Copynumber: 3.7 Consensus size: 182
503082 TGTTGACCTA
* * * * *
503092 TTTTCTCATATTTTTAGCTTTTATATTGTTATCGATCGATACATTTTCATAAAGTGTCGACACTT
1 TTTTGTCATATTTTTAGCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
*
503157 TTTAGGCGCTATAACTTCTTCTCTTTTAAGTTCAGAAAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* *
503222 CACTTTCAACATATCCGGTAGCCTTTTACCGGTTTTGTCATTTTGAGACCGG
131 CACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGG
* * * *
503274 TTTTATCATATTTTTA-CATGTTATATTGTTATGGATCGATACATTTT-TTAAAAATATCGACAC
1 TTTTGTCATATTTTTAGC-TGTAATATTGTTATGGATCGATACATTTTCAT-AAAGTATCGACAC
*
503337 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAATTGTCGATACTTATATTAAATTATC
64 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATC
* * *
503402 GACACTTGCAACATATCTGATAGCGTTTTACCGGTTTTGTCATTTTGAGACCAG
129 GACACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGG
* * *
503456 TTTTGTCATATTTTTACCTATAATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACTT
1 TTTTGTCATATTTTTAGCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
**
503521 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGCATCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
* *
503586 CACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGAGACAGG
131 CACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGG
* * **
503638 TTTTGTCATTTTTTTATCTGTAATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTT
1 TTTTGTCATATTTTTAGCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
* * *
503703 TTTAGGCGCTATAACTTCTTCTCTTTTTATTTC---AAGTGTCGATACTTATATTAAAGTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
503765 CACT
131 CACT
503769 GTTAATTTAC
Statistics
Matches: 453, Mismatches: 38, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
179 30 0.07
181 2 0.00
182 419 0.92
183 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
TTTTGTCATATTTTTAGCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGA
CACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGG
Found at i:507269 original size:21 final size:22
Alignment explanation
Indices: 507235--507276 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
507225 AAACACGCGT
*
507235 AATTTGAAAAAGTGTTGACACG
1 AATTTGAAAAAGTGTCGACACG
*
507257 AATTT-AACAAGTGTCGACAC
1 AATTTGAAAAAGTGTCGACAC
507277 ATTATGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (22 bp):
AATTTGAAAAAGTGTCGACACG
Found at i:507753 original size:201 final size:197
Alignment explanation
Indices: 507265--507807 Score: 644
Period size: 199 Copynumber: 2.7 Consensus size: 197
507255 CGAATTTAAC
* * * * ** *
507265 AAGTGTCGACACATTATGTTGACCTATTTTCT-ATTTACACCTATAAATTTAAACAGGTTACATT
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCA-TAAAACCGGTAAATTTAAACCGGTTACATT
*
507329 GTAAATTAACCTATTACATTATAA-TTTCTGGTCT-TGATGTATTTGGGGTCGATACTTTTTATA
65 GTAAATT-ACCTATTACATTATAATTTTC-GGTATCT-ATGTATTTGGGGTCGATAC-TTTTATA
* * ** * * *
507392 AATGTATCGAAACTTTATGCGTGGACATCGGTTGGCATTAATTATGGACATAAGTATCGACACAA
126 AATGTATCGAAACTTTAAGCGTGCACATAAGTTGGAATTAATTATGGAAAAAAGTATCGACACAA
*
507457 ATGTAAA
191 ATGAAAA
* * * * *
507464 AAGTATCGATATATTATGTAGACCTATTTGCTCGTAAAACCGGTAAATTTAAACCGGGTACATTG
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTG
* *
507529 TAAAGTGACCTATTACATTATAATTTTCGATATCTATGTATTTGGGGTCGATACTTTTAATAAAT
66 TAAA-TTACCTATTACATTATAATTTTCGGTATCTATGTATTTGGGGTCGATACTTTT-ATAAAT
* * *
507594 GTATCGACACTTTAAGCGTGCACATAATTTGGGAATTCATTATGGATAAAAAGTATCGACACAAA
129 GTATCGAAACTTTAAGCGTGCACATAAGTT-GGAATTAATTATGGA-AAAAAGTATCGACACAAA
507659 T-AAATA
192 TGAAA-A
507665 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAACCGGTAAATTTAAACCGGTTACATT
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCAT-AAAACCGGTAAATTTAAACCGGTTACATT
* * * * * * * *
507730 GTAAATTACATATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAAT
65 GTAAATTACCTATTACATTATAATTTTCGGTATCTATGTATTTGGGGTCGATACTT-TTATAAAT
507795 GTATCGAAACTTT
129 GTATCGAAACTTT
507808 GTTGTGCACT
Statistics
Matches: 292, Mismatches: 42, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
198 4 0.01
199 124 0.42
200 21 0.07
201 108 0.37
202 35 0.12
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (197 bp):
AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTG
TAAATTACCTATTACATTATAATTTTCGGTATCTATGTATTTGGGGTCGATACTTTTATAAATGT
ATCGAAACTTTAAGCGTGCACATAAGTTGGAATTAATTATGGAAAAAAGTATCGACACAAATGAA
AA
Found at i:508110 original size:194 final size:193
Alignment explanation
Indices: 507480--508642 Score: 1081
Period size: 194 Copynumber: 5.9 Consensus size: 193
507470 CGATATATTA
* * * * * * * * *
507480 TGTAGACCTATTTGCTCGTAAAACCGGTAAATTTAAACCGGGTACATTGTAAAGTGACCTATTAC
1 TGTACACCTATTTTCTCAT-AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAC
* * * * * *
507545 ATTATAAT-TTTCGATATCTATGTATTTGGGGTCGATACTT-TTAATAAATGTATCGACACTTTA
65 ATTATAATATGT--AT-TCGATGTTTTTGGGATCGACACTTCTT-ATAAATGTATCGACACTTTT
* ** * * * * ** *** ** **
507608 AGCGTGCACATAATTTGGGAATTCATTATGGATAAAAAGTATCGACACAAATAAATAAAGTGTCG
126 A--GTGCACTTGGTTTTGAAATACATTCTGGA-CCAAAGTATCGACACTTGT-TTTATTGTGTCG
*
507673 ATACATTA
187 ATAC-TTT
* * * * *
507681 TGTAGACCTATTTTCTCATAAAAACCGGTAAATTTAAACCGGTTACATTG-TAAATTACATATTA
1 TGTACACCTATTTTCTCAT--AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTA
* *
507745 CATTATAATTATGGGT-TTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAACTTTG
64 CATTATAA-TAT--GTATTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTT-
* * * * **
507809 TTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAACGTATCGACACTTGTTAGATCTGTGTCG
125 TAGTGCACTTGG-TTTTGAAATACATTCTGGACCAAA-GTATCGACACTTGTTTTAT-TGTGTCG
507874 ATACTTT
187 ATACTTT
* * *
507881 ATGTATACATGTTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAC
1 -TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAC
* * *
507946 ATTATATATATGTATTCGATG-TTTTAGTATCAACACTTCTTATAAATGTATCGACACGTTTTAG
65 ATTATA-ATATGTATTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC-TTTTAG
* *
508010 TGCAATTGGTTTTGAAATACATTCTGGACCAAAGTATCGACTCTTGTTTTATTGTGTCGATACTT
128 TGCACTTGGTTTTGAAATACATTCTGGACCAAAGTATCGACACTTGTTTTATTGTGTCGATACTT
508075 T
193 T
* *
508076 TTTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTATA
1 TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACA
* *
508141 TTATAATTTGGGT-TTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACGTTTAGT
66 TTATAATAT--GTATTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTAGT
* *
508205 GCAATTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTT-TTGTGTCGATATTT
129 GCACTTGGTTTTGAAATACATTCTGGACC-AAAGTATCGACACTTGTTTTATTGTGTCGATACTT
508269 T
193 T
* * ** * * * *
508270 TGTACACCT-GTTTCTCAAAAATTGGTATATTTAGAACAGTTAAATTGTTAATTTACTTATTAC-
1 TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACA
* * *
508333 TTCATAATTATGGATTTCGATGTTTTTGGGATCAACCACTTGTTATAAATGTATCGACACTTTGT
66 TT-ATAA-TATGTA-TTCGATGTTTTTGGGATCGA-CACTTCTTATAAATGTATCGACACTTT-T
* * ** * * *
508398 TGTGCACTTGGTTTTTAAAATACACGCTGGACAAAAAGTATCGACACTTATTGTATTTGTGTCGA
126 AGTGCACTTGG-TTTTGAAATACATTCTGGAC-CAAAGTATCGACACTTGTTTTA-TTGTGTCGA
508463 TACTTT
188 TACTTT
* * * * * *
508469 ATGTATACCTA-TTTCTTAAAAACCGATATATTTAGGCCGGTTACATTGTTATTTTACCTA-TAC
1 -TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAC
* * *
508532 ATTATATCTATGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACACTTTTTT
65 ATTATA-ATATGTA-TTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC--TTTT
* * *
508597 CGTGCACTTGGTTTGGAAATACATTATGGA-CAACATGTATCGACAC
126 AGTGCACTTGGTTTTGAAATACATTCTGGACCAA-A-GTATCGACAC
508643 GAATGAATAA
Statistics
Matches: 812, Mismatches: 113, Indels: 77
0.81 0.11 0.08
Matches are distributed among these distances:
192 3 0.00
193 52 0.06
194 150 0.18
195 93 0.11
196 28 0.03
197 57 0.07
198 90 0.11
199 91 0.11
200 89 0.11
201 124 0.15
202 33 0.04
203 1 0.00
205 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (193 bp):
TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACA
TTATAATATGTATTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTAGTGC
ACTTGGTTTTGAAATACATTCTGGACCAAAGTATCGACACTTGTTTTATTGTGTCGATACTTT
Found at i:508157 original size:393 final size:393
Alignment explanation
Indices: 507667--508642 Score: 1206
Period size: 393 Copynumber: 2.5 Consensus size: 393
507657 AATAAATAAA
* * * *
507667 GTGTCGATACATTATGTAGACCTATTTTCTCATAAAAACCGGTAAATTTAAACCGGTTACATTG-
1 GTGTCGATAC-TTTTGTACACCTATTTTCTCAT--AAACCGGTATATTTAGACCGGTTACATTGT
* * *
507731 TAAATTACATATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG
63 TAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATG
* * *
507796 TATCGAAACTTTGTTGTGCACTTGGTTTTTAAAATACACTCTGGACAAAACGTATCGACACTTGT
128 TATCGACACTTT-TTGTGCACTTGG-TTTTGAAATACATTCTGGACAAAA-GTATCGACACTTGT
* * * * *
507861 TAGATCTGTGTCGATACTTTATGTATACATGTTTTCTCATAAACCGGTATATTTAGACCGGTTAC
190 T--ATCTGTGTCGATA-TTTATGTACACATG-TTTCTCAAAAACCGGTATATTTAGAACAGTTAA
* *
507926 ATTGTTAATTTACCTATTACATT-AT-ATATATGTA-TTCGATG-TTTTAGTATCAA-CACTTCT
251 ATTGTTAATTTACCTATTAC-TTCATAAT-TATGGATTTCGATGTTTTTAGGATCAACCACTTCT
* ** *
507986 TATAAATGTATCGACACGTTT-TAGTGCAATTGG-TTTTGAAATACATTCTGGAC-CAAAGTATC
314 TATAAATGTATCGACAC-TTTGTAGTGCAATTGGTTTTTAAAATACACGCTGGACAAAAAGTATC
* * *
508048 GACTCTTGTTTTA-TT
378 GACACTTATTGTATTT
*
508063 GTGTCGATACTTTTTTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAA
1 GTGTCGATACTTTTGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAA
*
508128 TTTACCTATTATATTATAATT-TGGGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTAT
66 TTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTAT
* * * * *
508192 CGACACGTTTAGTGCAATTGGTTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTTT
131 CGACACTTTTTGTGCACTTGGTTTTGAAATACATTCTGGA-CAAAAGTATCGACACTTGTTATCT
* * **
508257 GTGTCGATATTTTTGTACACCTGTTTCTCAAAAATTGGTATATTTAGAACAGTTAAATTGTTAAT
195 GTGTCGATATTTATGTACACATGTTTCTCAAAAACCGGTATATTTAGAACAGTTAAATTGTTAAT
* * *
508322 TTACTTATTACTTCATAATTATGGATTTCGATGTTTTTGGGATCAACCACTTGTTATAAATGTAT
260 TTACCTATTACTTCATAATTATGGATTTCGATGTTTTTAGGATCAACCACTTCTTATAAATGTAT
* *
508387 CGACACTTTGTTGTGCACTTGGTTTTTAAAATACACGCTGGACAAAAAGTATCGACACTTATTGT
325 CGACACTTTGTAGTGCAATTGGTTTTTAAAATACACGCTGGACAAAAAGTATCGACACTTATTGT
508452 ATTT
390 ATTT
* * * * *
508456 GTGTCGATACTTTATGTATACCTA-TTTCTTAAAAACCGATATATTTAGGCCGGTTACATTGTTA
1 GTGTCGATACTTT-TGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTA
* ** * *
508520 TTTTACCTA-TACATTAT-ATCTATGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGT
65 ATTTACCTATTACATTATAAT-TATGGGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGT
* * *
508583 ATCGACACTTTTTTCGTGCACTTGGTTTGGAAATACATTATGGACAACATGTATCGACAC
129 ATCGACAC-TTTTT-GTGCACTTGGTTTTGAAATACATTCTGGACAA-AAGTATCGACAC
508643 GAATGAATAA
Statistics
Matches: 505, Mismatches: 58, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
386 2 0.00
387 53 0.10
388 20 0.04
389 24 0.05
390 33 0.07
391 51 0.10
392 41 0.08
393 180 0.36
394 35 0.07
395 56 0.11
396 10 0.02
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (393 bp):
GTGTCGATACTTTTGTACACCTATTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAA
TTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTAT
CGACACTTTTTGTGCACTTGGTTTTGAAATACATTCTGGACAAAAGTATCGACACTTGTTATCTG
TGTCGATATTTATGTACACATGTTTCTCAAAAACCGGTATATTTAGAACAGTTAAATTGTTAATT
TACCTATTACTTCATAATTATGGATTTCGATGTTTTTAGGATCAACCACTTCTTATAAATGTATC
GACACTTTGTAGTGCAATTGGTTTTTAAAATACACGCTGGACAAAAAGTATCGACACTTATTGTA
TTT
Found at i:508854 original size:24 final size:24
Alignment explanation
Indices: 508827--508873 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
508817 ATTTACATTT
508827 AAATTTAAACTCAAACTCAAATTG
1 AAATTTAAACTCAAACTCAAATTG
* *
508851 AAATTTAAATTCAAACTCTAATT
1 AAATTTAAACTCAAACTCAAATT
508874 ATAAATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATTTAAACTCAAACTCAAATTG
Found at i:511318 original size:15 final size:15
Alignment explanation
Indices: 511300--511343 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
511290 AGAAGGTTGT
511300 GGTTGAGAAGAGCTG
1 GGTTGAGAAGAGCTG
* *
511315 GGTTGGGAAGAGGTG
1 GGTTGAGAAGAGCTG
511330 GGTTGAGAAGAGCT
1 GGTTGAGAAGAGCT
511344 TTGAGAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.05, G:0.50, T:0.20
Consensus pattern (15 bp):
GGTTGAGAAGAGCTG
Found at i:512079 original size:199 final size:199
Alignment explanation
Indices: 511689--513181 Score: 2160
Period size: 199 Copynumber: 7.5 Consensus size: 199
511679 TTTTCAAATT
* * * *
511689 AAACCGGTATTTTTATACTGG-TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTTGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * * * * *
511753 TGTTTCTGGGATCGACACTTCTTATAAATGTATTGAAACTTTATT-GTGCATTTAGTTTTTAAAA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTT-TTAGTGCACTT-GGTTTTGAAA
* ** * *
511817 TACACTCTGG-CCAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATGTT
129 TACATTCTGGACC-AAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTT
*
511881 TTCTCAT
193 TTCTCAA
** * *
511888 AAACCGGTATATTTAGACTAGCTACATTGTTAATTTACCTATTACATTATAATTATAGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* *
511953 TGTTTTTAGGATCGACACTTCTTATAAATGTATCGAAACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* *
512018 CATTTTGGTCCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
512083 TCAA
196 TCAA
* * *
512087 AAATCGGTATATTTAGACCAGTTAAATTGTTAATTTACCTATTAC-TTCATAATTATGGGTTTCG
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATT-ATAATTATGGGTTTCG
* * * **
512151 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCCCTTGGTTAAG-AAT
65 ATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
* * * * *
512215 ACATTATGGACCAAAAGTATCGACACTTGTTTTAGTTGTTTCGATACTTTTTGTACACCTGATTT
130 ACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTT
*
512280 CTTAA
195 CTCAA
* *
512285 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* *
512350 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGTACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
512415 CATTCTAGACCAAAAGTATCGACAATTGGTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
512480 TCAA
196 TCAA
* *
512484 AAATCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAAATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
512549 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* *
512614 CATTCTGGACCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
512679 TCAA
196 TCAA
* * * *
512683 AAACTGGTATACTTAGACCGGTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * * **
512748 TGTTTCTGGGATCGACACTTGCTT-TAAATGTATC-ACACTTTTTCGTGCCCTTGGTTAAGAAAT
66 TGTTTTTGGGATCGACACTT-CTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
* * * * * * * *
512811 ACATTTTGGACCAAAAGTATCGACACTGGTTTTAGTTATTTCGATACTTTTTGTACCCTTTTTTT
130 ACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTT
*
512876 CTCTCA
195 CTC-AA
* * *
512882 AAATCGGTATATTTAGACTGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
*
512947 TGTTTTTGTGATCGA-AC-TCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
513010 CATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTAAACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
513075 TCAA
196 TCAA
* * *
513079 AAACCAGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATAATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
*
513144 TGTTTTTGTGATCGACACTTC-TATAAATGTATCGACAC
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC
513182 ATAAGTTTAC
Statistics
Matches: 1166, Mismatches: 116, Indels: 25
0.89 0.09 0.02
Matches are distributed among these distances:
196 3 0.00
197 86 0.07
198 370 0.32
199 615 0.53
200 92 0.08
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (199 bp):
AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
TCAA
Found at i:512393 original size:397 final size:398
Alignment explanation
Indices: 511693--513181 Score: 2163
Period size: 397 Copynumber: 3.8 Consensus size: 398
511683 CAAATTAAAC
* * * *
511693 CGGTATTTTTATACTGG-TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTTGATGTT
1 CGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
* * * * * *
511757 TCTGGGATCGACACTTCTTATAAATGTATTGAAACTTTATT-GTGCATTTAGTTTTTA-AAATAC
66 TTTGGGATCGACACTTCTTATAAATGTATCGACACTTT-TTAGTGCACTT-G-GTTAAGAAATAC
* * ** * * *
511820 ACTCTGG-CCAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATACATGTTTTC
128 ATTATGGACC-AAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
* ** * *
511884 TCATAAACCGGTATATTTAGACTAGCTACATTGTTAATTTACCTATTACATTATAATTATAGGTT
192 TCAAAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTT
* * *
511949 TCGATGTTTTTAGGATCGACACTTCTTATAAATGTATCGAAACTTTTTAGTGCACTTGGTTTTGA
257 TCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGA
*
512014 AATACATTTTGGTCCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGT
322 AATACATTTTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGT
512079 TTTCTCAAAAAT
387 TTTCTCAAAAAT
* *
512091 CGGTATATTTAGACCAGTTAAATTGTTAATTTACCTATTAC-TTCATAATTATGGGTTTCGATGT
1 CGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATT-ATAATTATGGGTTTCGATGT
* * *
512155 TTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCCCTTGGTTAAG-AATACAT
65 TTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTAAGAAATACAT
* * * *
512219 TATGGACCAAAAGTATCGACACTTGTTTTAGTTGTTTCGATACTTTTTGTACACCTGATTTCTTA
130 TATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCA
* *
512284 AAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGGTTTCG
195 AAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCG
*
512349 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGTACTTGGTTTTGAAAT
260 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
* * * *
512414 ACATTCTAGACCAAAAGTATCGACAATTGGTTTATTTGTGTCGATACTTTTTGTACACATGTTTT
325 ACATTTTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTT
512479 CTCAAAAAT
390 CTCAAAAAT
*
512488 CGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAAATTATAATTATGGGTTTCGATGTT
1 CGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
**
512553 TTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATT
66 TTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTAAGAAATACATT
* *
512618 CTGGACCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAA
131 ATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAA
* * * *
512683 AAACTGGTATACTTAGACCGGTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTTCGA
196 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * * **
512748 TGTTTCTGGGATCGACACTTGCTT-TAAATGTATC-ACACTTTTTCGTGCCCTTGGTTAAGAAAT
261 TGTTTTTGGGATCGACACTTG-TTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
* * * * * * *
512811 ACATTTTGGACCAAAAGTATCGACACTGGTTTTAGTTATTTCGATACTTTTTGTACCCTTTTTTT
325 ACATTTTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTT
*
512876 CTCTCAAAAT
390 CTC-AAAAAT
* *
512886 CGGTATATTTAGACTGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
1 CGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
* **
512951 TTTGTGATCGA-AC-TCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATT
66 TTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTAAGAAATACATT
*
513014 ATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTAAACCTGTTTTCTCAA
131 ATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAA
* * *
513079 AAACCAGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATAATGGGTTTCGA
196 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* *
513144 TGTTTTTGTGATCGACACTT-CTATAAATGTATCGACAC
261 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
513182 ATAAGTTTAC
Statistics
Matches: 985, Mismatches: 95, Indels: 24
0.89 0.09 0.02
Matches are distributed among these distances:
394 1 0.00
395 10 0.01
396 192 0.19
397 442 0.45
398 256 0.26
399 84 0.09
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (398 bp):
CGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
TTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTAAGAAATACATT
ATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAA
AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTTTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
TCAAAAAT
Found at i:512823 original size:596 final size:596
Alignment explanation
Indices: 511689--513181 Score: 2342
Period size: 596 Copynumber: 2.5 Consensus size: 596
511679 TTTTCAAATT
* * * *
511689 AAACCGGTATTTTTATACTGG-TACATTGTTAATTTACCTATTACATTATAATTATGGGTTTTGA
1 AAACCGGTATATTTAGACTGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * * * * *
511753 TGTTTCTGGGATCGACACTTCTTATAAATGTATTGAAACTTTATT-GTGCATTTAGTTTTTAAAA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTT-TTAGTGCACTT-GGTTTTGAAA
* * * * *
511817 TACACTCTGGCCAAAAAGTATCGACACTT-GTTGGATTTGTGTCGATACTTTATGTATACATGTT
129 TACATTCTGACC-AAAAGTATCGACACTTGGTT-TATTTGTGTCGATACTTTTTGTAAACATGTT
* ** * *
511881 TTCTCATAAACCGGTATATTTAGACTAGCTACATTGTTAATTTACCTATTACATTATAATTATAG
192 TTCTCAAAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGG
* *
511946 GTTTCGATGTTTTTAGGATCGACACTTCTTATAAATGTATCGAAACTTTTTAGTGCACTTGGTTT
257 GTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTT
* * *
512011 TGAAATACATTTTGGTCCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACA
322 TGAAATACATTCTGGACCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACA
* *
512076 TGTTTTCTCAAAAATCGGTATATTTAGACCAGTTAAATTGTTAATTTACCTATTACTTCATAATT
387 TGTTTTCTCAAAAATCGGTATACTTAGACCAGTTAAATTGTTAATTTACCTATTACATCATAATT
*
512141 ATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCCCTTG
452 ATGGGTTTCGATGTTTCTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCCCTTG
* *
512206 GTTAAGAATACATTATGGACCAAAAGTATCGACACTTGTTTTAGTTGTTTCGATACTTTTTGTAC
517 GTTAAGAATACATTATGGACCAAAAGTATCGACACTGGTTTTAGTTATTTCGATACTTTTTGTAC
512271 ACC-TGATTTCT-TAA
582 -CCTTGATTTCTCTAA
* *
512285 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACTGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
* *
512350 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGTACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* *
512415 CATTCTAGACCAAAAGTATCGACAATTGGTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
131 CATTCT-GACCAAAAGTATCGACACTTGGTTTATTTGTGTCGATACTTTTTGTAAACATGTTTTC
* *
512480 TCAAAAATCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTAAATTATAATTATGGGTT
195 TCAAAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTT
512545 TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGA
260 TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGA
*
512610 AATACATTCTGGACCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACCTGT
325 AATACATTCTGGACCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACATGT
*
512675 TTTCTCAAAAA-CTGGTATACTTAGACCGGTTAAATTGTTAATTTACCTATTACATCATAATTAT
390 TTTCTCAAAAATC-GGTATACTTAGACCAGTTAAATTGTTAATTTACCTATTACATCATAATTAT
512739 GGGTTTCGATGTTTCTGGGATCGACACTTGCTT-TAAATGTATC-ACACTTTTTCGTGCCCTTGG
454 GGGTTTCGATGTTTCTGGGATCGACACTTG-TTATAAATGTATCGACACTTTTTCGTGCCCTTGG
*
512802 TTAAGAAATACATTTTGGACCAAAAGTATCGACACTGGTTTTAGTTATTTCGATACTTTTTGTAC
518 TTAAG-AATACATTATGGACCAAAAGTATCGACACTGGTTTTAGTTATTTCGATACTTTTTGTAC
** *
512867 CCTTTTTTTCTCTCA
582 CCTTGATTTCTCTAA
*
512882 AAATCGGTATATTTAGACTGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACTGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
*
512947 TGTTTTTGTGATCGA-AC-TCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * *
513010 CATTATGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTAAACCTGTTTTC
131 CATTCT-GACCAAAAGTATCGACACTTGGTTTATTTGTGTCGATACTTTTTGTAAACATGTTTTC
* * *
513075 TCAAAAACCAGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATAATGGGTT
195 TCAAAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTT
*
513140 TCGATGTTTTTGTGATCGACACTTC-TATAAATGTATCGACAC
260 TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC
513182 ATAAGTTTAC
Statistics
Matches: 827, Mismatches: 61, Indels: 20
0.91 0.07 0.02
Matches are distributed among these distances:
594 17 0.02
595 215 0.26
596 425 0.51
597 170 0.21
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (596 bp):
AAACCGGTATATTTAGACTGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTCTGACCAAAAGTATCGACACTTGGTTTATTTGTGTCGATACTTTTTGTAAACATGTTTTCT
CAAAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTT
CGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAA
ATACATTCTGGACCAAAAGTATCGACACTTATTTTATTTGTGTCGATACTTTTTGTACACATGTT
TTCTCAAAAATCGGTATACTTAGACCAGTTAAATTGTTAATTTACCTATTACATCATAATTATGG
GTTTCGATGTTTCTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCCCTTGGTTA
AGAATACATTATGGACCAAAAGTATCGACACTGGTTTTAGTTATTTCGATACTTTTTGTACCCTT
GATTTCTCTAA
Found at i:513617 original size:73 final size:73
Alignment explanation
Indices: 513531--513668 Score: 244
Period size: 74 Copynumber: 1.9 Consensus size: 73
513521 TTCCCATCTC
513531 TACATATTACATTCACATACAAAATT-TAAATCGTATACAAAATTAACCCCT-CATTTACATCAT
1 TACATATTACATTCACATACAAAATTATAAATCGTATACAAAATTAA-CCCTACATTTACATCAT
513594 TATTCCTCA
65 TATTCCTCA
513603 TACATAATTACATTCACATACAAAATTATAAATCGTATACAAAATTAACCCTACATTTACATCAT
1 TACAT-ATTACATTCACATACAAAATTATAAATCGTATACAAAATTAACCCTACATTTACATCAT
513668 T
65 T
513669 CCTTCCTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
72 5 0.08
73 25 0.40
74 33 0.52
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.34
Consensus pattern (73 bp):
TACATATTACATTCACATACAAAATTATAAATCGTATACAAAATTAACCCTACATTTACATCATT
ATTCCTCA
Found at i:515143 original size:18 final size:18
Alignment explanation
Indices: 515107--515145 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
515097 TTCTCCCCAT
* *
515107 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTCTATTC
515125 TTCCTCCATCTTCTATTC
1 TTCCTCCATCTTCTATTC
515143 TTC
1 TTC
515146 AAATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.38, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCCATCTTCTATTC
Found at i:515781 original size:22 final size:21
Alignment explanation
Indices: 515753--515808 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
515743 AACCTGCATT
*
515753 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
515775 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
515799 TATAA-AAAAC
1 TATAATAAAAC
515809 AAAAACATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 2 0.07
21 1 0.03
22 8 0.27
23 2 0.07
24 16 0.53
25 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:518130 original size:162 final size:162
Alignment explanation
Indices: 517540--518360 Score: 1002
Period size: 162 Copynumber: 5.1 Consensus size: 162
517530 ATCATTTTAG
* ** * *
517540 ACCGGTTTTGTCATA-TTTTACCTGTTATATTACTATGGATCGATACA-TTTTTAAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
* *
517603 CATTTTGTAGGTGCTATAA---CTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
66 CACTTTATAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
517665 ATCGACACTTTCAACATATCCGGTATC-TTTT
131 ATCGACACTTTCAACATATCCGGTATCGTTTT
* * *
517696 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATTGA
1 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
* *
517761 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCTATACTTATATTAAATT
66 CACTTTATAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
*
517826 ATCGACACTTTCAACATATCTGGTATCGTTTT
131 ATCGACACTTTCAACATATCCGGTATCGTTTT
* ** * * *
517858 ACCGGTTTTGTCAT-TTTTAGACATG-T-T-TTGTCCTACTTAT---TATATTGTTAT-AA--AT
1 ACCGGTTTTGTCATATTTT-TACATGTTATATTGT--TACGGATCGATACATTTTTTTAAAGTAT
* *
517913 CGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTTA
63 CGACACTTTATAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAA
* *
517978 ATTATCGACACTTTCAACATATCCGTTATCTTTTT
128 ATTATCGACACTTTCAACATATCCGGTATCGTTTT
518013 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
*
518078 CACTTTATAAGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
66 CACTTTATAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
518143 ATCGACACTTTCAACATATCCGGTATCGTTTT
131 ATCGACACTTTCAACATATCCGGTATCGTTTT
* * * * *
518175 ACCGGTTTTGTCAT-TTTTAGACATGTTTTGTCATATTTTTAC--CT-GTTATATTGTTATGGAT
1 ACCGGTTTTGTCATATTTT-TACATG---T-T-ATATTGTTACGGATCGATACATT-TT-T---T
* * *
518236 CGATAAAGTATTGACACTTTATAGGAGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGAT
55 ---TAAAGTATCGACACTTTATAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGAT
* *
518301 ACTTATATTAAAGTATCGACACTTTCAACATATCTGGTA--GTTATTT
117 ACTTATATTAAATTATCGACACTTTCAACATATCCGGTATCG-T-TTT
*
518347 ACCTGTTTTGTCAT
1 ACCGGTTTTGTCAT
518361 TTTGAGACTG
Statistics
Matches: 580, Mismatches: 50, Indels: 54
0.85 0.07 0.08
Matches are distributed among these distances:
155 113 0.19
156 24 0.04
157 32 0.06
158 42 0.07
159 12 0.02
160 3 0.01
161 82 0.14
162 137 0.24
164 6 0.01
165 4 0.01
166 2 0.00
167 9 0.02
169 1 0.00
170 1 0.00
171 1 0.00
172 111 0.19
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (162 bp):
ACCGGTTTTGTCATATTTTTACATGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
CACTTTATAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATT
ATCGACACTTTCAACATATCCGGTATCGTTTT
Found at i:518196 original size:317 final size:323
Alignment explanation
Indices: 517593--518929 Score: 1396
Period size: 365 Copynumber: 3.9 Consensus size: 323
517583 TACATTTTTA
*
517593 AAAGTATCGACATTTTGTAGGTGCTATAA---CTTCTCTTTTAAATTCCAAAAGTGTCGATACTT
1 AAAG-ATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTT
*
517655 ATATTAAATTATCGACACTTTCAACATATCCGGTATC-TTTTACCGATTTTGTCATATTTTTACC
65 ATATTAAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGATTTTGTCATATTTTTA-C
*
517719 TGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATTGACACTTTATAGGCGCTATAACTTC
129 TGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTC
* *
517784 TTCTCTTTTAAATTCCAAAAGTGTCTATACTTATATTAAATTATCGACACTTTCAACATATCTGG
194 TTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGG
*
517849 TATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCCTA-CTTA-TTATATTG-T-T-AT
259 TATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCATATCTTACTTATATTGTTGTCAT
517909 -AA-ATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
1 AAAGATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
517972 TATTTAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGGTTTTGTCATATTTTTACAT
66 TATTAAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGATTTTGTCATATTTTTAC-T
* *
518037 GTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAAGTGCTATAACTTCT
130 GTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCT
518102 TCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGT
195 TCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGT
*
518167 ATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCATATTTTTACCTGTTATATTGTTAT
260 ATCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCATA-TCTTA-C--TTATATTG-T-T
518232 GGATCGAT
319 -G-TC-AT
* * * *
518240 AAAGTATTGACACTTTATAGGAGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTT
1 AAAG-ATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTT
* * *
518305 ATATTAAAGTATCGACACTTTCAACATATCTGGTAGTTATTTACCTGTTTTGTCATTTTGAGACT
65 ATATTAAATTATCGACACTTTCAACATATC----CGTTA--T--C-------T--TTTT---ACC
* *** * *
518370 GATTTTGTCATA-TTTTAGGCTGTTATATTGTTATGGATCGATACATTTGCATAAAGTGTCGATA
110 GATTTTGTCATATTTTTA--CTGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACA
518434 CGTTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAATT
173 C-TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAATT
* * * *
518497 ATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTATCATTTTGAGAC-CGATTTTGTC
236 ATCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACATG-TTTTGTC
* *
518561 ATATTTTTAGTTGTTATATTGTTATGGATCAATACATTTTTTTT
300 ATA-TCTTA---CTTATATTG-T-T-G-----T-CA-------T
* * * *
518605 AAAATATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATAAT
1 -AAAGATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACT
*
518669 TATATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCTGTTTTATCATTTTGAGAC
64 TATATTAAATTATCGACACTTTCAACATATCC----GTTA--T--C-------T--TTTT---AC
* * ** *
518734 CGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTTTCGACA
109 CGATTTTGTCATATTTTTA-CTGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACA
*
518799 CTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAATTA
173 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAATTA
* * * *
518863 TTGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGAC-CGATTTTGTCA
237 TCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACATG-TTTTGTCA
518927 TAT
301 TAT
518930 ATTTACTTTT
Statistics
Matches: 902, Mismatches: 50, Indels: 90
0.87 0.05 0.09
Matches are distributed among these distances:
313 23 0.03
315 2 0.00
316 69 0.08
317 192 0.21
319 3 0.00
323 8 0.01
326 1 0.00
329 1 0.00
331 2 0.00
332 2 0.00
334 84 0.09
338 4 0.00
340 1 0.00
342 1 0.00
349 1 0.00
351 4 0.00
353 8 0.01
354 186 0.21
355 4 0.00
358 3 0.00
359 1 0.00
364 5 0.01
365 289 0.32
366 8 0.01
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (323 bp):
AAAGATCGACACTTTGTAGGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
TATTAAATTATCGACACTTTCAACATATCCGTTATCTTTTTACCGATTTTGTCATATTTTTACTG
TTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTT
CTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTA
TCGTTTTACCGGTTTTGTCATTTTTAGACATGTTTTGTCATATCTTACTTATATTGTTGTCAT
Found at i:518221 original size:20 final size:19
Alignment explanation
Indices: 518171--518221 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
518161 TCCGGTATCG
*
518171 TTTTACCGGTTTTGTCATT
1 TTTTACCTGTTTTGTCATT
* *
518190 TTTAGACATGTTTTGTCATAT
1 TTT-TACCTGTTTTGTCAT-T
518211 TTTTACCTGTT
1 TTTTACCTGTT
518222 ATATTGTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.12
20 18 0.72
21 4 0.16
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.57
Consensus pattern (19 bp):
TTTTACCTGTTTTGTCATT
Found at i:518238 original size:182 final size:181
Alignment explanation
Indices: 518013--518966 Score: 1303
Period size: 182 Copynumber: 5.3 Consensus size: 181
518003 TTATCTTTTT
* * * *
518013 ACCGGTTTTGTCATATTTTTACATGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
* *
518078 CACTTTATAAGTGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAAT
*
518142 TATCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAG
130 TATCGACACTTTCAACATATCCGGTA-CGTTTTACCGGTTTTGTCATTTTGAG
* *
518195 ACATG-TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCG----------ATAAAGTATTG
1 AC-CGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
*
518249 ACACTTTATAGGAGCTATAACTTCTTCTCTTTTAAATTCTA-AAAGTGTCGATACTTATATTAAA
65 ACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTC-AGAAAGTGTCGATACTTATATTAAA
* * *
518313 GTATCGACACTTTCAACATATCTGGTA-GTTATTTACCTGTTTTGTCATTTTGAG
129 TTATCGACACTTTCAACATATCCGGTACG-T-TTTACCGGTTTTGTCATTTTGAG
* * ** *
518367 ACTGATTTTGTCATA-TTTTAGGCTGTTATATTGTTATGGATCGATACATTTGCATAAAGTGTCG
1 ACCGATTTTGTCATATTTTTA-CCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
*
518431 ATACGTTT-TAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
65 ACAC-TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAA
* *
518495 TTATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTATCATTTTGAG
129 TTATCGACACTTTCAACATATCCGGTA-CGTTTTACCGGTTTTGTCATTTTGAG
** * * *
518549 ACCGATTTTGTCATATTTTTAGTTGTTATATTGTTATGGATCAATACATTTTTTTTAAAATATCG
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTTATAAAGTATCG
* *
518614 ACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATAATTATATTAAAG
65 ACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAT
* *
518679 TATCGACACTTTCAACATATCCGGTA-GTTATTTACCTGTTTTATCATTTTGAG
130 TATCGACACTTTCAACATATCCGGTACG-T-TTTACCGGTTTTGTCATTTTGAG
* * * *
518732 ACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTTTCGA
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
*
518797 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATT
66 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATT
*
518862 ATTGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAG
131 ATCGACACTTTCAACATATCCGGTA-CGTTTTACCGGTTTTGTCATTTTGAG
* * * **
518914 ACCGATTTTGTCATATATTTACTTTTTATATTGTTATATATCGATACATTTTT
1 ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
518967 CATTTGTATC
Statistics
Matches: 690, Mismatches: 55, Indels: 54
0.86 0.07 0.07
Matches are distributed among these distances:
170 1 0.00
171 9 0.01
172 148 0.21
181 2 0.00
182 356 0.52
183 172 0.25
184 2 0.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (181 bp):
ACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATT
ATCGACACTTTCAACATATCCGGTACGTTTTACCGGTTTTGTCATTTTGAG
Found at i:518770 original size:365 final size:361
Alignment explanation
Indices: 518013--518966 Score: 1439
Period size: 365 Copynumber: 2.6 Consensus size: 361
518003 TTATCTTTTT
* **
518013 ACCGGTTTTGTCATATTTTTA-CATGTTATATTGTTACGGATCGATACATTTTTTTAAAGTATCG
1 ACCGGTTTTGTCATATTTTTAGC-TGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCG
* *
518077 ACACTTTATAAGTGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAA
65 ACACTTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAA
* *
518141 TTATCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACATG-TTTTG
128 TTATCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTGAGAC-CGATTTTG
* * * *
518205 TCATATTTTTACCTGTTATATTGTTATGGATC---GA-----TAAAGTATTGACACTTTATAGGA
192 TCATATTTTTACTTGTTATATTGTTATGGATCATACATTTTTTAAAATATCGACACTTTATAGGA
*
518262 GCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTC
257 GCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATAATTATATTAAAGTATCGACACTTTC
* *
518327 AACATATCTGGTAGTTATTTACCTGTTTTGTCATTTTGAG
322 AACATATCCGGTAGTTATTTACCTGTTTTATCATTTTGAG
* * * *
518367 ACTGATTTTGTCATA-TTTTAGGCTGTTATATTGTTATGGATCGATACATTTGCATAAAGTGTCG
1 ACCGGTTTTGTCATATTTTTA-GCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCG
*
518431 ATACGTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAT
65 ACAC-TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAAT
* *
518496 TATCGACACTTTCAACATATCCGATATCGTTTTACCGGTTTTATCATTTTGAGACCGATTTTGTC
129 TATCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTC
*
518561 ATATTTTTAGTTGTTATATTGTTATGGATCAATACATTTTTTTTAAAATATCGACACTTTATAGG
194 ATATTTTTACTTGTTATATTGTTATGGATC-ATACA--TTTTTTAAAATATCGACACTTTATAGG
*
518626 CGCTATAACTTCTTCTCTTTTAAATTC-AGAAAGTGTCGATAATTATATTAAAGTATCGACACTT
256 AGCTATAACTTCTTCTCTTTTAAATTCTA-AAAGTGTCGATAATTATATTAAAGTATCGACACTT
518690 TCAACATATCCGGTAGTTATTTACCTGTTTTATCATTTTGAG
320 TCAACATATCCGGTAGTTATTTACCTGTTTTATCATTTTGAG
*
518732 ACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTTTCGA
1 ACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
518797 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATT
66 CAC-TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATT
* *
518862 ATTGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTCA
130 ATCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTCA
* * **
518927 TATATTTACTTTTTATATTGTTATATATCGATACATTTTT
195 TATTTTTACTTGTTATATTGTTATGGATC-ATACATTTTT
518967 CATTTGTATC
Statistics
Matches: 543, Mismatches: 39, Indels: 27
0.89 0.06 0.04
Matches are distributed among these distances:
353 8 0.01
354 191 0.35
355 4 0.01
358 1 0.00
363 5 0.01
364 1 0.00
365 328 0.60
366 5 0.01
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (361 bp):
ACCGGTTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGA
CACTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTA
TCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGATTTTGTCAT
ATTTTTACTTGTTATATTGTTATGGATCATACATTTTTTAAAATATCGACACTTTATAGGAGCTA
TAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATAATTATATTAAAGTATCGACACTTTCAACA
TATCCGGTAGTTATTTACCTGTTTTATCATTTTGAG
Found at i:529230 original size:21 final size:21
Alignment explanation
Indices: 529180--529241 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
529170 GGTAGAACGT
*
529180 TACCTAAAATATAATTTTTTC
1 TACCTAAAATATAATTTTTAC
*
529201 TACC-GAAATATTAA-TTTTAC
1 TACCTAAAATA-TAATTTTTAC
*
529221 TACCTAAAATAAATATTTTTA
1 TACCTAAAATATA-ATTTTTA
529242 ATATTAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 15 0.45
21 13 0.39
22 5 0.15
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (21 bp):
TACCTAAAATATAATTTTTAC
Found at i:545028 original size:18 final size:19
Alignment explanation
Indices: 544991--545030 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
544981 GTGCGTTTGT
*
544991 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GAGAATAA
545011 AAGATTACCA-GAGAATAA
1 AAGATTACCAGGAGAATAA
545029 AA
1 AA
545031 TTACTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.17
Consensus pattern (19 bp):
AAGATTACCAGGAGAATAA
Found at i:547378 original size:12 final size:12
Alignment explanation
Indices: 547361--547385 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
547351 ATGACCTTTC
547361 TTTTTACAAAAG
1 TTTTTACAAAAG
547373 TTTTTACAAAAG
1 TTTTTACAAAAG
547385 T
1 T
547386 GACAAGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTACAAAAG
Found at i:550747 original size:29 final size:29
Alignment explanation
Indices: 550715--550774 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
550705 CGGGACTGCT
550715 TGGCGACCTACAAGGTCGCTAGGAGTGCA
1 TGGCGACCTACAAGGTCGCTAGGAGTGCA
*** *
550744 TGGCGACCTTGTAGGTCGCTGGGAGTGCA
1 TGGCGACCTACAAGGTCGCTAGGAGTGCA
550773 TG
1 TG
550775 ACGATCTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (29 bp):
TGGCGACCTACAAGGTCGCTAGGAGTGCA
Found at i:550829 original size:42 final size:42
Alignment explanation
Indices: 550765--550850 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
550755 TAGGTCGCTG
* *
550765 GGAGTGCATGACGATCTGTGTTGGGGTGTTAGGGACGTGCAT
1 GGAGTGCATGACGACCTATGTTGGGGTGTTAGGGACGTGCAT
*
550807 GGAGTGCATGACGACCTATGTTGGGGTGTTGGGGACGTGCAT
1 GGAGTGCATGACGACCTATGTTGGGGTGTTAGGGACGTGCAT
550849 GG
1 GG
550851 CACATGCAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.16, C:0.13, G:0.44, T:0.27
Consensus pattern (42 bp):
GGAGTGCATGACGACCTATGTTGGGGTGTTAGGGACGTGCAT
Found at i:553846 original size:12 final size:13
Alignment explanation
Indices: 553829--553858 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
553819 CAGTAAATGG
553829 TAAATAAAG-AAA
1 TAAATAAAGAAAA
553841 TAAATAAAGAAAA
1 TAAATAAAGAAAA
553854 TAAAT
1 TAAAT
553859 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (13 bp):
TAAATAAAGAAAA
Found at i:553882 original size:2 final size:2
Alignment explanation
Indices: 553875--553905 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
553865 TAAAAAGGTA
553875 AT AT AT 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 A
553906 ACACGACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:553961 original size:2 final size:2
Alignment explanation
Indices: 553956--553984 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
553946 ATATATAACA
553956 AT AT 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 A
553985 ATACAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:555456 original size:59 final size:59
Alignment explanation
Indices: 555392--555508 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 59
555382 CATTTTTATT
* * * * *
555392 TTATATATTTTATTAATAT-ATATTTTAGTATCATTTTAATAAAATTATTAATTATTAAA
1 TTATAT-TTTTAATAATATAATATTATACTATCATTTTAATAAAATAATAAATTATTAAA
* * *
555451 TTATATTTTTAATAATATAATATTATACTTTTATTTTAATAATATAATAAATTATTAA
1 TTATATTTTTAATAATATAATATTATACTATCATTTTAATAAAATAATAAATTATTAA
555509 TAAAATTAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 11 0.22
59 38 0.78
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.54
Consensus pattern (59 bp):
TTATATTTTTAATAATATAATATTATACTATCATTTTAATAAAATAATAAATTATTAAA
Found at i:555671 original size:12 final size:11
Alignment explanation
Indices: 555629--555676 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
555619 TTTAATTTTT
*
555629 TAATAATATTA
1 TAATAATATAA
*
555640 TTATAATAATAA
1 TAATAAT-ATAA
555652 TAATTAATATAA
1 TAA-TAATATAA
555664 TCAATAATATAA
1 T-AATAATATAA
555676 T
1 T
555677 TTTATTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 6 0.19
12 19 0.61
13 6 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATATAA
Found at i:555693 original size:39 final size:36
Alignment explanation
Indices: 555631--555727 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 36
555621 TAATTTTTTA
* *
555631 ATAATATTATTATAATAATAATAATTAATATAATCAATAAT
1 ATAATTTTATTTTAAT-A-AATAATTAATATAAT---TAAT
* *
555672 ATAATTTTATTTTAATAAATAATTAATATAGTTTAT
1 ATAATTTTATTTTAATAAATAATTAATATAATTAAT
555708 AGTAATTTTATTTTAATAAA
1 A-TAATTTTATTTTAATAAA
555728 ATATAATCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
36 4 0.08
37 18 0.35
39 14 0.27
40 1 0.02
41 14 0.27
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (36 bp):
ATAATTTTATTTTAATAAATAATTAATATAATTAAT
Found at i:564879 original size:25 final size:25
Alignment explanation
Indices: 564851--564902 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
564841 TGAAGTTTTC
564851 TTGAATCAAGTCGAAAAAATAAATT
1 TTGAATCAAGTCGAAAAAATAAATT
* * * *
564876 TTGAGTCGAGTCGAAAATATTAATT
1 TTGAATCAAGTCGAAAAAATAAATT
564901 TT
1 TT
564903 TCGAGTGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (25 bp):
TTGAATCAAGTCGAAAAAATAAATT
Found at i:566652 original size:35 final size:35
Alignment explanation
Indices: 566579--566664 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 35
566569 AAAACAGTCA
* * * *
566579 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCACAAATTCCAAAATAAT
* * * *
566614 TCAATTTTATTCTAAACCATAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCACAAATTCCAAAATAAT
*
566649 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
566665 ATACTTCAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.42, C:0.20, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCACAAATTCCAAAATAAT
Found at i:566658 original size:21 final size:21
Alignment explanation
Indices: 566633--566675 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
566623 TTCTAAACCA
566633 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
566654 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
566675 T
1 T
566676 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:566831 original size:16 final size:18
Alignment explanation
Indices: 566799--566832 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
566789 TATTAATGTA
566799 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
566817 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
566833 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:567494 original size:130 final size:131
Alignment explanation
Indices: 567291--567539 Score: 410
Period size: 130 Copynumber: 1.9 Consensus size: 131
567281 AATTTTCTTC
* * *
567291 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
* *
567356 CCTGATT-AAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAA
66 CCTAATTAAAATGATTAATTTATTAAATTTTATTTAATTTAGGAACAAATTGATAGCATATATAA
567420 A
131 A
* * * *
567421 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
567486 CCTAATTAAAATGATTAATTTATTAAATTTTATTTAATTTAGGAACAAATTGAT
66 CCTAATTAAAATGATTAATTTATTAAATTTTATTTAATTTAGGAACAAATTGAT
567540 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
130 64 0.59
131 45 0.41
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (131 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAAATGATTAATTTATTAAATTTTATTTAATTTAGGAACAAATTGATAGCATATATAA
A
Found at i:591133 original size:3 final size:3
Alignment explanation
Indices: 591125--591178 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
591115 AATTTTATAC
591125 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
591173 AAT ATT
1 ATT ATT
591179 GTTGTTGTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:595710 original size:128 final size:126
Alignment explanation
Indices: 595483--595730 Score: 424
Period size: 128 Copynumber: 2.0 Consensus size: 126
595473 CCAAAAATCT
595483 ACTATTGGTAATAAAAGATTACCGAGGCTGAGAATGTTGGCCAAATAAAAAAACGGGAGAATGAA
1 ACTATTGGTAATAAAAGATTACCGAGGCTGAGAATGTTGGCCAAATAAAAAAACGGGAGAATGAA
* * *
595548 GATTACATTTCTCCGGTAATAAGATATACCTTGAACCAAATAACCCCTTAAACATTAAATTC
66 GATTACATTCCTCCGATAATAAGATATACCTTGAACCAAACAA-CCCTTAAACATTAAATTC
*
595610 ACTATTGGTAATAAAAGATTACCGGGGGCTGAGAATGTTGGCCAAATAAAAAAACGGGAGAATGA
1 ACTATTGGTAATAAAAGATTACC-GAGGCTGAGAATGTTGGCCAAATAAAAAAACGGGAGAATGA
* *
595675 AGATTACATTCCTTCGATAATAAGATATACCTTGAACCAAACAACCCTTAGACATT
65 AGATTACATTCCTCCGATAATAAGATATACCTTGAACCAAACAACCCTTAAACATT
595731 GTATCCACGG
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
127 34 0.30
128 80 0.70
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (126 bp):
ACTATTGGTAATAAAAGATTACCGAGGCTGAGAATGTTGGCCAAATAAAAAAACGGGAGAATGAA
GATTACATTCCTCCGATAATAAGATATACCTTGAACCAAACAACCCTTAAACATTAAATTC
Found at i:603534 original size:14 final size:14
Alignment explanation
Indices: 603515--603550 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
603505 TCATATAATT
603515 TATTTTTTGGAAAA
1 TATTTTTTGGAAAA
**
603529 TATTTTCCGGAAAA
1 TATTTTTTGGAAAA
603543 TATTTTTT
1 TATTTTTT
603551 CGTGTTTGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (14 bp):
TATTTTTTGGAAAA
Found at i:603814 original size:24 final size:23
Alignment explanation
Indices: 603782--603826 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
603772 TAATATCATT
603782 TAATCAAAATATTAATTATTAAAA
1 TAATCAAAATA-TAATTATTAAAA
* *
603806 TAATTAAAATATATTTATTAA
1 TAATCAAAATATAATTATTAA
603827 TATTTCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATCAAAATATAATTATTAAAA
Found at i:603863 original size:19 final size:20
Alignment explanation
Indices: 603815--603865 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
603805 ATAATTAAAA
*
603815 TATATT-TATTAATATTTCT
1 TATATTATAATAATATTTCT
* *
603834 AATAATATAATAATATTT-T
1 TATATTATAATAATATTTCT
603853 TATATTATAATAA
1 TATATTATAATAA
603866 AATAACCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATTATAATAATATTTCT
Found at i:613535 original size:40 final size:42
Alignment explanation
Indices: 613488--613583 Score: 108
Period size: 40 Copynumber: 2.3 Consensus size: 42
613478 CACGAAATCC
** * *
613488 AATTTCGCAACACAG-TTTCTGAATTTGCAACTCGAATTTG-G
1 AATTTCGCAACACAGAAGTC-GAATTCGCAACTCGAATTTGAA
* *
613529 AA-TTCGCCACACAGAAGTCGAATTCGCAATTCGAATTTGAA
1 AATTTCGCAACACAGAAGTCGAATTCGCAACTCGAATTTGAA
613570 AATTTCGCAACACA
1 AATTTCGCAACACA
613584 AATTTCTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
40 29 0.64
41 6 0.13
42 10 0.22
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (42 bp):
AATTTCGCAACACAGAAGTCGAATTCGCAACTCGAATTTGAA
Found at i:613811 original size:14 final size:15
Alignment explanation
Indices: 613792--613829 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
613782 ACTCCATCTC
613792 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
613806 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
613822 TAATTTTT
1 TAATTTTT
613830 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:614585 original size:24 final size:24
Alignment explanation
Indices: 614566--614613 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
614556 TAGTCAGTAT
614566 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* *
614590 TCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
614614 CCGGATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:614618 original size:24 final size:24
Alignment explanation
Indices: 614572--614625 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
614562 GTATTCGAAA
*
614572 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
*
614596 TTTGATCTTGGTCAATACCCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
614620 TTTGAT
1 TTTGAT
614626 GATGTTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:616952 original size:12 final size:12
Alignment explanation
Indices: 616935--616970 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
616925 AGTAAAGGGA
616935 AATCAAAATCGC
1 AATCAAAATCGC
*
616947 AATCAAAATCTC
1 AATCAAAATCGC
*
616959 AATCACAATCGC
1 AATCAAAATCGC
616971 CTTCACCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.28, G:0.06, T:0.19
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:617954 original size:20 final size:20
Alignment explanation
Indices: 617929--618006 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
617919 AATTTGTAAC
617929 TCAAATTCGCAACTCGATAT
1 TCAAATTCGCAACTCGATAT
* * *
617949 TCAAATTCGTAACTCGAAAA
1 TCAAATTCGCAACTCGATAT
*
617969 TCGAATTCGCAACTCGA-ATT
1 TCAAATTCGCAACTCGATA-T
**
617989 TTGAATTCGCAACTCGAT
1 TCAAATTCGCAACTCGAT
618007 TTCGAGTTGC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.02
20 48 0.98
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (20 bp):
TCAAATTCGCAACTCGATAT
Found at i:618031 original size:20 final size:20
Alignment explanation
Indices: 618006--618103 Score: 66
Period size: 20 Copynumber: 5.2 Consensus size: 20
617996 CGCAACTCGA
618006 TTTCGAGTTGCGAATTTCAT
1 TTTCGAGTTGCGAATTTCAT
*
618026 TTTCGAGTT--G----TGAT
1 TTTCGAGTTGCGAATTTCAT
* * * *
618040 TTTCGTGTTGCAAATTTAAA
1 TTTCGAGTTGCGAATTTCAT
*
618060 TTTCGAATTGCGAA-TTCGAT
1 TTTCGAGTTGCGAATTTC-AT
* *
618080 TTTTGAGTTGCGAATTTGAT
1 TTTCGAGTTGCGAATTTCAT
618100 TTTC
1 TTTC
618104 TTAAAGCATT
Statistics
Matches: 56, Mismatches: 14, Indels: 16
0.65 0.16 0.19
Matches are distributed among these distances:
14 11 0.20
18 1 0.02
19 2 0.04
20 40 0.71
21 2 0.04
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.47
Consensus pattern (20 bp):
TTTCGAGTTGCGAATTTCAT
Found at i:621359 original size:21 final size:21
Alignment explanation
Indices: 621311--621397 Score: 97
Period size: 21 Copynumber: 4.1 Consensus size: 21
621301 AGTATGGAAT
*
621311 GTGGATTTTGAACGATGCGG-G
1 GTGGATCTTGAACGATG-GGAG
621332 GTGGATCTTGAACGATGGGAG
1 GTGGATCTTGAACGATGGGAG
* *
621353 GTAGATCCTGAACGATGGGAG
1 GTGGATCTTGAACGATGGGAG
* *
621374 G-GGTCTCTTGAACGATGAGAG
1 GTGG-ATCTTGAACGATGGGAG
621395 GTG
1 GTG
621398 AATCCTAAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
20 3 0.05
21 52 0.93
22 1 0.02
ACGTcount: A:0.23, C:0.11, G:0.41, T:0.24
Consensus pattern (21 bp):
GTGGATCTTGAACGATGGGAG
Found at i:621792 original size:21 final size:21
Alignment explanation
Indices: 621768--621946 Score: 150
Period size: 21 Copynumber: 8.5 Consensus size: 21
621758 TGAAACAATC
621768 TCACGTAGAA-CACCTACCTCA
1 TCACGTA-AAGCACCTACCTCA
** *
621789 TCACGTAAAGCACC-ATTGTTA
1 TCACGTAAAGCACCTA-CCTCA
*
621810 TCACGTAAAGCACATACCTCA
1 TCACGTAAAGCACCTACCTCA
* * * **
621831 TCACATAAATCGCC-ATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
*
621852 TCACGTGAAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* **
621873 TAACGTAAAGCACC-ATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
*
621894 TCACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCTACCTCA
*
621915 TCACGTAAAGCACCTATCTCA
1 TCACGTAAAGCACCTACCTCA
*
621936 TCACGTTAAGC
1 TCACGTAAAGC
621947 GTCTAACTCA
Statistics
Matches: 122, Mismatches: 29, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
20 5 0.04
21 114 0.93
22 3 0.02
ACGTcount: A:0.34, C:0.32, G:0.12, T:0.22
Consensus pattern (21 bp):
TCACGTAAAGCACCTACCTCA
Found at i:621814 original size:42 final size:42
Alignment explanation
Indices: 621768--621946 Score: 236
Period size: 42 Copynumber: 4.3 Consensus size: 42
621758 TGAAACAATC
*
621768 TCACGTAGAA-CACCTACCTCATCACGTAAAGCACCATTGTTA
1 TCACGTA-AAGCACCTACCTCATCACGTAAAGCACCATTGTCA
* * * *
621810 TCACGTAAAGCACATACCTCATCACATAAATCGCCATTGTCA
1 TCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTGTCA
* *
621852 TCACGTGAAGCACCTACCTCATAACGTAAAGCACCATTGTCA
1 TCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTGTCA
* *
621894 TCACGTAAAGCACCGACCTCATCACGTAAAGCACC-TATCTCA
1 TCACGTAAAGCACCTACCTCATCACGTAAAGCACCAT-TGTCA
*
621936 TCACGTTAAGC
1 TCACGTAAAGC
621947 GTCTAACTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
41 3 0.03
42 116 0.97
ACGTcount: A:0.34, C:0.32, G:0.12, T:0.22
Consensus pattern (42 bp):
TCACGTAAAGCACCTACCTCATCACGTAAAGCACCATTGTCA
Found at i:622153 original size:42 final size:42
Alignment explanation
Indices: 622058--622265 Score: 280
Period size: 42 Copynumber: 5.0 Consensus size: 42
622048 GTGATGGAAT
* * *
622058 AGGTGATGGATCTCGGTGTCGAGGTGTAGAGTCGGCT--A-G
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATG
* *
622097 AGGTGATGGATCTCGATGTC-AAGGTGTAGAATCGGCTCGATG
1 AGGTGATGGATCTCGGTGTCGAA-GTGGAGAATCGGCTCGATG
* *
622139 AGGTAATGGATCTCGGTGTCGAAGTGGAGAATCGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATG
* *
622181 AAGTGATGGATCTCGGTGTCGAAGTGGAGAATCAGCTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATG
* *
622223 AGGTGATGGATCTTGGTGTCGAAGTGGAGAATCGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATG
622265 A
1 A
622266 AAAAGTTGGG
Statistics
Matches: 149, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.21
41 1 0.01
42 113 0.76
43 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.38, T:0.25
Consensus pattern (42 bp):
AGGTGATGGATCTCGGTGTCGAAGTGGAGAATCGGCTCGATG
Found at i:622629 original size:93 final size:92
Alignment explanation
Indices: 622462--622638 Score: 300
Period size: 93 Copynumber: 1.9 Consensus size: 92
622452 TGTGTGTACA
* * *
622462 CCCAAAACCACCATTTTAAATAAGTATTTGTGTTTACTTACATCATCGATCGTCACATATGGTAG
1 CCCAAAACCACCAATTTAAATAAGTATTTGTATTTACTTACATCATCGATCGTCACATATGATAG
622527 TATCCCATCCCAATCCAACTGTCAGAT
66 TATCCCATCCCAATCCAACTGTCAGAT
*
622554 CCCAATAACCACCAATTTAAATAAGTATTTGTATTTACTTACATCATCGATCGTCATATATGATA
1 CCCAA-AACCACCAATTTAAATAAGTATTTGTATTTACTTACATCATCGATCGTCACATATGATA
*
622619 GTATCTCATCCCAATCCAAC
65 GTATCCCATCCCAATCCAAC
622639 CGTCGTATCC
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 5 0.06
93 74 0.94
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.32
Consensus pattern (92 bp):
CCCAAAACCACCAATTTAAATAAGTATTTGTATTTACTTACATCATCGATCGTCACATATGATAG
TATCCCATCCCAATCCAACTGTCAGAT
Found at i:624675 original size:20 final size:20
Alignment explanation
Indices: 624652--624739 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 20
624642 AAACATTTGT
*
624652 GTTGCGAAAACGAAATTTGA
1 GTTGCGAAAACGAAATTCGA
** *
624672 GTTGC-AAAATTTAAATTCGT
1 GTTGCGAAAA-CGAAATTCGA
** *
624692 GTTGCGAATTCGAAAATCGA
1 GTTGCGAAAACGAAATTCGA
* * *
624712 GTTGCGAAAACAAAACTCGT
1 GTTGCGAAAACGAAATTCGA
624732 GTTGCGAA
1 GTTGCGAA
624740 TTTAAAAATC
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
19 4 0.08
20 45 0.88
21 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (20 bp):
GTTGCGAAAACGAAATTCGA
Found at i:624694 original size:40 final size:40
Alignment explanation
Indices: 624650--624781 Score: 106
Period size: 40 Copynumber: 3.3 Consensus size: 40
624640 CAAAACATTT
* * ** *
624650 GTGTTGCGAAAACGAAATTTGAGTTGC-AAAATTTAAATTC
1 GTGTTGCGAAAACGAAAATCGAGTTGCGAAAA-CAAAACTC
**
624690 GTGTTGCGAATTCGAAAATCGAGTTGCGAAAACAAAACTC
1 GTGTTGCGAAAACGAAAATCGAGTTGCGAAAACAAAACTC
**** * *
624730 GTGTTGCGAATTTAAAAATCGAGTTGCG-TAACAGAAATTC
1 GTGTTGCGAAAACGAAAATCGAGTTGCGAAAACA-AAACTC
*
624770 GTGTTACGAAAA
1 GTGTTGCGAAAA
624782 TGTCAAATTT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.05
40 68 0.89
41 4 0.05
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (40 bp):
GTGTTGCGAAAACGAAAATCGAGTTGCGAAAACAAAACTC
Found at i:624746 original size:20 final size:19
Alignment explanation
Indices: 624679--624757 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 19
624669 TGAGTTGCAA
* *
624679 AATTTAAATTCGTGTTGCG
1 AATTTAAAATCGAGTTGCG
*
624698 AATTCGAAAATCGAGTTGCG
1 AATT-TAAAATCGAGTTGCG
*** *
624718 AAAACAAAACTCGTGTTGCG
1 AATTTAAAA-TCGAGTTGCG
624738 AATTTAAAAATCGAGTTGCG
1 AATTT-AAAATCGAGTTGCG
624758 TAACAGAAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
19 8 0.17
20 34 0.74
21 4 0.09
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (19 bp):
AATTTAAAATCGAGTTGCG
Found at i:624841 original size:40 final size:36
Alignment explanation
Indices: 624791--624883 Score: 96
Period size: 40 Copynumber: 2.4 Consensus size: 36
624781 ATGTCAAATT
624791 TGAGTTGCGAATTCTACTTCTGTGTTGCGAATTCAGAAAC
1 TGAGTTGCGAATTCT--TTC-GTGTTGCGAATTC-GAAAC
* *
624831 TGTGTTGCGAAATTGGCTTTCGTGTTGCGAATTCGAAAT
1 TGAGTTGCG-AATT--CTTTCGTGTTGCGAATTCGAAAC
*
624870 TGAGTTGCAAATTC
1 TGAGTTGCGAATTC
624884 GTTGGTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
36 1 0.02
38 4 0.09
39 11 0.24
40 21 0.46
41 7 0.15
43 2 0.04
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.37
Consensus pattern (36 bp):
TGAGTTGCGAATTCTTTCGTGTTGCGAATTCGAAAC
Found at i:626112 original size:3 final size:3
Alignment explanation
Indices: 626104--626145 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
626094 GTTTTTGAGC
626104 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
626146 GACTATTTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:631761 original size:20 final size:20
Alignment explanation
Indices: 631736--631809 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
631726 TTTTCCCAAT
*
631736 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
631756 TCGCAACGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
631776 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
631797 TCGCAACGCGAAT
1 TCGCAACGCGAAT
631810 TGGGAAAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 32 0.65
21 17 0.35
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:631799 original size:21 final size:21
Alignment explanation
Indices: 631753--631828 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
631743 GCGAATAAGT
** *
631753 AAATCGCAACGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
631773 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
631794 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
631815 AAATCGCAATGCGA
1 AAATCGCAACGCGA
631829 TACTTACTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 15 0.29
21 36 0.71
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:632446 original size:19 final size:19
Alignment explanation
Indices: 632408--632474 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
632398 TTCGAGAATG
632408 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
632428 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
632447 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
632466 AAAATCGCA
1 AAAATCGCA
632475 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:632516 original size:20 final size:19
Alignment explanation
Indices: 632470--632635 Score: 136
Period size: 20 Copynumber: 9.1 Consensus size: 19
632460 GAAACCAAAA
*
632470 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
632489 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
632508 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
632528 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
632544 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
632561 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
632575 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
632594 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
632614 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
632634 TC
1 TC
632636 AACCAAAAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 41 0.34
20 49 0.41
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:632551 original size:39 final size:39
Alignment explanation
Indices: 632475--632551 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
632465 CAAAATCGCA
* **
632475 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
632514 TTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
632552 ATAGTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:632560 original size:33 final size:33
Alignment explanation
Indices: 632523--632610 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
632513 GTTGCGATTT
* *
632523 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
632556 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
632589 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
632611 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:634701 original size:42 final size:42
Alignment explanation
Indices: 634641--634763 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
634631 GCCCGACTCA
* * *
634641 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
634683 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
634725 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
634764 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:634721 original size:21 final size:21
Alignment explanation
Indices: 634697--634763 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
634687 TCATTCCTCG
634697 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
634718 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
634739 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
634760 AGAG
1 AGAG
634764 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:636140 original size:14 final size:14
Alignment explanation
Indices: 636121--636156 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
636111 ATTGTTTAAT
636121 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
636135 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
636149 TGATTTGT
1 TGATTTGT
636157 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:636339 original size:19 final size:20
Alignment explanation
Indices: 636295--636334 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
636285 GCAACGAGAG
636295 AATCGCAACGCGAAAATAAA
1 AATCGCAACGCGAAAATAAA
*
636315 AATCGCAACGCGAAATTAAA
1 AATCGCAACGCGAAAATAAA
636335 TTCGCGTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.20, G:0.15, T:0.12
Consensus pattern (20 bp):
AATCGCAACGCGAAAATAAA
Found at i:636357 original size:19 final size:19
Alignment explanation
Indices: 636335--636485 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
636325 CGAAATTAAA
636335 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
636354 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
636369 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
636387 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
636401 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
636420 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
636435 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
636453 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
636472 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
636486 AGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:636381 original size:33 final size:32
Alignment explanation
Indices: 636339--636465 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
636329 ATTAAATTCG
636339 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
636372 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
636405 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
636438 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
636466 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:636428 original size:66 final size:66
Alignment explanation
Indices: 636332--636464 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
636322 ACGCGAAATT
*
636332 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
636397 G
66 G
*
636398 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
636463 G
66 G
636464 A
1 A
636465 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:637563 original size:12 final size:12
Alignment explanation
Indices: 637546--637570 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
637536 TCTTCGGGGA
637546 CTTTTTCTTCTT
1 CTTTTTCTTCTT
637558 CTTTTTCTTCTT
1 CTTTTTCTTCTT
637570 C
1 C
637571 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:638880 original size:20 final size:20
Alignment explanation
Indices: 638855--638915 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
638845 GACATTCATT
* *
638855 TGACTATCGTAATGCGAAAA
1 TGACTATCGCAACGCGAAAA
638875 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAAAA
** *
638895 TGGTTATCGCAACGAGAAAA
1 TGACTATCGCAACGCGAAAA
638915 T
1 T
638916 CGCAATGCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGAAAA
Found at i:638958 original size:14 final size:16
Alignment explanation
Indices: 638938--639011 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
638928 TGAAAATCGC
638938 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
638953 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
638970 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
638989 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
639005 -TTGCGAT
1 ATTGCGAT
639012 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:638975 original size:19 final size:19
Alignment explanation
Indices: 638934--639001 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
638924 AAAATGAAAA
638934 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
638950 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
638967 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
638986 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
639002 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:641046 original size:19 final size:19
Alignment explanation
Indices: 641022--641096 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
641012 GAAACTTAAA
641022 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
641041 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
641061 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
641080 ATCGCAACGCGAAATGA
1 ATCGCAACGCGAAATGA
641097 AATCGAAACG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 32 0.65
20 17 0.35
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:641065 original size:39 final size:38
Alignment explanation
Indices: 641022--641095 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
641012 GAAACTTAAA
**
641022 ATCGCAACGCGAAATGACTATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGAAATGAAAATCGCAACGC-GAAATGGCT
*
641061 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATG
1 ATCGCAACGCGAAATGAAAATCGCAACGCGAAATG
641096 AAATCGAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 6 0.19
39 26 0.81
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (38 bp):
ATCGCAACGCGAAATGAAAATCGCAACGCGAAATGGCT
Found at i:641097 original size:19 final size:19
Alignment explanation
Indices: 641003--641098 Score: 102
Period size: 19 Copynumber: 4.9 Consensus size: 19
640993 TAGTTTACTT
* *
641003 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
641023 TCGCAACGCGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
641042 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
641062 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
641081 TCGCAACGCGAAATGAAA
1 TCGCAACGCGAAATGAAA
641099 TCGAAACGAC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 36 0.55
20 29 0.45
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:641113 original size:19 final size:19
Alignment explanation
Indices: 641072--641113 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
641062 TCGCAATGCG
* *
641072 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGAAACGCA
641091 AAATG-AAATCGAAACGACA
1 AAATGAAAATCGAAACG-CA
641110 AAAT
1 AAAT
641114 CGCAACGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGAAACGCA
Found at i:641173 original size:14 final size:14
Alignment explanation
Indices: 641154--641211 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
641144 TTTCATTTCG
641154 CGTTGCGATTTTTT
1 CGTTGCGATTTTTT
641168 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TTT
*
641184 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTTT
641200 CGTTGCGATTTT
1 CGTTGCGATTTT
641212 CATTTCGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 21 0.54
16 9 0.23
18 9 0.23
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTTT
Found at i:641218 original size:33 final size:33
Alignment explanation
Indices: 641137--641224 Score: 151
Period size: 32 Copynumber: 2.7 Consensus size: 33
641127 ACAAATCGCA
* *
641137 TTGCGATTTTCATTTCGCGTTGCGATTTTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
641170 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
641202 TTGCGATTTTCATTTCGCATTGC
1 TTGCGATTTTCATTTCGCATTGC
641225 AATAGCCATT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
32 30 0.58
33 22 0.42
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:641249 original size:20 final size:19
Alignment explanation
Indices: 641212--641266 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
641202 TTGCGATTTT
* *
641212 CATTTCGCATTGCAATAGC
1 CATTTCGCGTTGCGATAGC
*
641231 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
641251 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
641267 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:641774 original size:18 final size:18
Alignment explanation
Indices: 641748--641792 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
641738 GTCGATCAGA
*
641748 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
641766 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
641784 TGATGGCTC
1 TGATGGCTC
641793 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:643155 original size:20 final size:20
Alignment explanation
Indices: 643112--643149 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
643102 AATAGTTTCT
643112 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
643132 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
643150 GAGAAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:643424 original size:22 final size:22
Alignment explanation
Indices: 643399--643442 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
643389 GATTTAGATA
643399 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
643421 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
643443 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:643679 original size:20 final size:20
Alignment explanation
Indices: 643630--643723 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
643620 GATTATGTAT
*
643630 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
*
643650 TATCGAGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
* ** *
643670 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTAAG
* *
643691 TATCGCATTGCGATAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
643711 TATCGCATTGCGA
1 TATCGCGTTGCGA
643724 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.72
21 12 0.20
22 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:643724 original size:20 final size:19
Alignment explanation
Indices: 643610--643724 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 19
643600 CGCTTTGAAA
*
643610 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* *
643631 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
*
643651 ATCG-AGTTGCGAAAGTAAGT
1 ATCGCA-TTGCGATAGT-AGT
* * * *
643671 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
643692 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGT-AGT
643712 ATCGCATTGCGAT
1 ATCGCATTGCGAT
643725 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
19 5 0.07
20 44 0.59
21 23 0.31
22 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:643742 original size:21 final size:21
Alignment explanation
Indices: 643713--643805 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
643703 ATAGTAAGTA
643713 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
643734 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
643754 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
643775 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
643795 TCGCATTGCGA
1 TCGCATTGCGA
643806 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:643743 original size:41 final size:41
Alignment explanation
Indices: 643656--643786 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
643646 TCAGTATCGA
* * * ** *
643656 GTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATTATCGC
1 GTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT-TCGC
*
643697 ATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAATTCGC
1 GTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAATTCGC
* **
643738 GTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAATTCGC
1 GTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAATTCGC
643779 GTTGCGAT
1 GTTGCGAT
643787 TTACTTATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 71 0.92
42 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (41 bp):
GTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAATTCGC
Found at i:643787 original size:41 final size:41
Alignment explanation
Indices: 643713--643805 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
643703 ATAGTAAGTA
643713 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
643754 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
643795 TCGCATTGCGA
1 TCGCATTGCGA
643806 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:644522 original size:20 final size:19
Alignment explanation
Indices: 644499--644545 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
644489 CGATATACCA
644499 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
644519 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
644539 GGTAAAA
1 GGTAAAA
644546 CGTTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:644633 original size:182 final size:182
Alignment explanation
Indices: 644286--644758 Score: 693
Period size: 180 Copynumber: 2.6 Consensus size: 182
644276 GATCCAAATT
* * * * *
644286 AAAAATGTGTCGATCCAAAACAATATAACAGGTAAAACTATGACAAAACCGGTAAT-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGT-ATCAAAATGAT
* * * *
644350 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTC-AGTACTTTAATATAAGGATCGACACT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGA-TACTTTAATATAAGGATCGACACT
* *
644414 TCATGAATTTAAAAGAGAATCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAA
129 TCATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATAC-TTTAA
*
644469 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
644534 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* ** *
644598 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * * *
644650 AAAAA-ATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAATCGATATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
644714 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
644759 CGTAAGTACG
Statistics
Matches: 265, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
180 98 0.37
181 10 0.04
182 61 0.23
183 95 0.36
184 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:646658 original size:87 final size:86
Alignment explanation
Indices: 646566--646732 Score: 289
Period size: 87 Copynumber: 1.9 Consensus size: 86
646556 AAATAGGTCA
*
646566 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTTATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
646631 CCCGTTAAATACATATTTTATT
66 CCCGTTAAATA-ATATTTTATT
* *
646653 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
646718 CCGGTTAAATAATAT
66 CCCGTTAAATAATAT
646733 AACATAACCG
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 4 0.05
87 72 0.95
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (86 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATAATATTTTATT
Found at i:646700 original size:23 final size:23
Alignment explanation
Indices: 646650--646694 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
646640 TACATATTTT
* *
646650 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
646673 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
646695 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:647421 original size:221 final size:220
Alignment explanation
Indices: 647007--647441 Score: 705
Period size: 220 Copynumber: 2.0 Consensus size: 220
646997 TTTAACCAAT
* *
647007 TTTTTATATTTATAATTAGGACCCTAATTTTTATAATTTCATAAAATGTATAGTTTTTGACAATC
1 TTTTTATATTTATAATTAGGACCCTAATTTTTATAATTTCATAAAAAGTATAGGTTTTGACAATC
647072 TGTTTTCATTTATCTTATTTATTCATTCAATTTTAAATTTAATTTAATCATGTTTTTGTCTTTTT
66 TGTTTTCATTTATCTTATTTATTCATTCAATTTTAAATTTAATTTAATCATGTTTTTGTCTTTTT
* * *
647137 TTCAGAACTTACTCTTCAGTTTATCAAATATTCTTTAGTTTCTAGTCTTTTTCATTCTCAATCTA
131 TTCAGAACTTACTCTTCAGTTTATAAAATATTCTTTAATTTCTAGTATTTTTCATTCTCAATCTA
647202 ACAATAAAATAATATACAAAACTAA
196 ACAATAAAATAATATACAAAACTAA
* * **
647227 TTTTTATATTTATAATTAGGGCCCTAATTTTTATAATTTCATAAAAAGTTTAGGTTTTGACCCTC
1 TTTTTATATTTATAATTAGGACCCTAATTTTTATAATTTCATAAAAAGTATAGGTTTTGACAATC
*
647292 T-TTTTCCATTTCTCTTATTTATTCATTCAATTTTAAATTTAATTTAATCATG-TTTTGTCTTTT
66 TGTTTT-CATTTATCTTATTTATTCATTCAATTTTAAATTTAATTTAATCATGTTTTTGTC--TT
*
647355 TTTTTCA-AATCTTACTCTTCAGTTTATAAAATATTCTTTAATTTCTAGTATTTTTCATTTTCAA
128 TTTTTCAGAA-CTTACTCTTCAGTTTATAAAATATTCTTTAATTTCTAGTATTTTTCATTCTCAA
*
647419 TCTAACAATTAAATAATATACAA
192 TCTAACAATAAAATAATATACAA
647442 TTCTTTTTAT
Statistics
Matches: 199, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
219 11 0.06
220 107 0.54
221 81 0.41
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (220 bp):
TTTTTATATTTATAATTAGGACCCTAATTTTTATAATTTCATAAAAAGTATAGGTTTTGACAATC
TGTTTTCATTTATCTTATTTATTCATTCAATTTTAAATTTAATTTAATCATGTTTTTGTCTTTTT
TTCAGAACTTACTCTTCAGTTTATAAAATATTCTTTAATTTCTAGTATTTTTCATTCTCAATCTA
ACAATAAAATAATATACAAAACTAA
Found at i:649196 original size:31 final size:31
Alignment explanation
Indices: 649146--649231 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 31
649136 GAGCCGAGTT
* * *
649146 GAGCTCGACTCAACTCGAAAACTCTGAAATG
1 GAGCTCAACTCGACTCGAAAACTCTGAAACG
*
649177 GTA-CTCAACTCGACTCGAAAACTCTTAAACG
1 G-AGCTCAACTCGACTCGAAAACTCTGAAACG
*
649208 GAGCTCGACTCGACTCGAAAACTC
1 GAGCTCAACTCGACTCGAAAACTC
649232 ACGAGCTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 1 0.02
31 46 0.96
32 1 0.02
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (31 bp):
GAGCTCAACTCGACTCGAAAACTCTGAAACG
Found at i:650444 original size:28 final size:28
Alignment explanation
Indices: 650413--650479 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
650403 TATGTAAAAT
650413 GTTTCGATTATAATGTAAGAATTATCAA
1 GTTTCGATTATAATGTAAGAATTATCAA
650441 GTTTCGATTATAATGTAAGAATTATCAA
1 GTTTCGATTATAATGTAAGAATTATCAA
650469 GTTTCGATTAT
1 GTTTCGATTAT
650480 TTTTTATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (28 bp):
GTTTCGATTATAATGTAAGAATTATCAA
Found at i:653064 original size:21 final size:21
Alignment explanation
Indices: 652992--653106 Score: 153
Period size: 21 Copynumber: 5.5 Consensus size: 21
652982 TATGGTATAA
*
652992 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
* *
653013 AA-CCTGGCAGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
653034 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
653055 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
653076 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
653097 AACCCTGCGG
1 AACCCTGCGG
653107 AGATGGCATA
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
20 3 0.03
21 82 0.93
22 3 0.03
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:653130 original size:42 final size:42
Alignment explanation
Indices: 652998--653130 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 42
652988 ATAAAACCCT
* * * *
652998 GCGGGCTAGGCATGTAA-CCTGGCAGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCCT-GCGGGATCGGCATGTAACCTG
* *
653040 GCGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGTAACCCT-
1 GCGGGCTAGGAATGTAACCCTGCGGGATCGGCATGTAA-CCTG
* * *
653082 GCGGGCTCGGAATGTAACCCTGCGGAGAT-GGCATATAAACTG
1 GCGGGCTAGGAATGTAACCCTGCGG-GATCGGCATGTAACCTG
*
653124 GTGGGCT
1 GCGGGCT
653131 TGGCATATGA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.03
42 67 0.87
43 8 0.10
ACGTcount: A:0.22, C:0.23, G:0.35, T:0.20
Consensus pattern (42 bp):
GCGGGCTAGGAATGTAACCCTGCGGGATCGGCATGTAACCTG
Found at i:653136 original size:21 final size:21
Alignment explanation
Indices: 653110--653157 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
653100 CCTGCGGAGA
*
653110 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
653131 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
653152 GGGCAT
1 TGGCAT
653158 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:655449 original size:15 final size:14
Alignment explanation
Indices: 655420--655456 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
655410 TATTAATAAT
*
655420 ATAAAATTTTAAAA
1 ATAAAATTATAAAA
655434 ATAAAATATATAAAA
1 ATAAAAT-TATAAAA
655449 ATAAAATT
1 ATAAAATT
655457 TTAGATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAAATTATAAAA
Found at i:657310 original size:15 final size:16
Alignment explanation
Indices: 657285--657314 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
657275 TCATTTTCTT
657285 TTATATTTATTTTATC
1 TTATATTTATTTTATC
657301 TTAT-TTTATTTTAT
1 TTATATTTATTTTAT
657315 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATATTTATTTTATC
Found at i:657516 original size:37 final size:36
Alignment explanation
Indices: 657388--657595 Score: 215
Period size: 38 Copynumber: 5.6 Consensus size: 36
657378 TTTGTTTAAA
** *
657388 AAAATATTTTGAAAATGTATATAATATTTAGTTTTTT
1 AAAATATTTTGAAAACATATATAATATATAG-TTTTT
* *
657425 AAAAAATACCTTTGAAAAC-TATATAATATATAATTTTT
1 --AAAATA-TTTTGAAAACATATATAATATATAGTTTTT
*
657463 AAAACAATTTTAGAAAACATATATAATATATAGTTTTT
1 AAAA-TATTTT-GAAAACATATATAATATATAGTTTTT
*
657501 AAAATCATTTTGAAAACTTATATAATATATAG-TTTT
1 AAAAT-ATTTTGAAAACATATATAATATATAGTTTTT
** *
657537 AAAATCATTTTG-AAATTTATATAATATATAGTTTTAA
1 AAAAT-ATTTTGAAAACATATATAATATATAGTTTT-T
657574 AAAATATTTTTGAAAACATATA
1 AAAATA-TTTTGAAAACATATA
657596 ATATAGGTTT
Statistics
Matches: 147, Mismatches: 13, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
35 18 0.12
36 27 0.18
37 37 0.25
38 39 0.27
39 18 0.12
40 8 0.05
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.43
Consensus pattern (36 bp):
AAAATATTTTGAAAACATATATAATATATAGTTTTT
Done.