Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 49
Found at i:455974 original size:86 final size:84
Alignment explanation
Indices: 455808--455974 Score: 271
Period size: 86 Copynumber: 2.0 Consensus size: 84
455798 CAGTAAGTGT
455808 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCAGGCCATCAATAAGTCTTTCGAGCATG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCAGGCCATCAATAAGTCTTTCGAGCATG
*
455873 ATGATGAAGTCCTTCGGGC
66 ATGATGAAATCCTTCGGGC
** *
455892 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTTTTGGGCCATCAGTAAGTCTTTCGAGCA
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCC--TTCAGGCCATCAATAAGTCTTTCGAGCA
*
455957 TGATGATTAAATCCTTCG
64 TGATGATGAAATCCTTCG
455975 AGTAATTTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 35 0.46
86 41 0.54
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (84 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCAGGCCATCAATAAGTCTTTCGAGCATG
ATGATGAAATCCTTCGGGC
Found at i:456456 original size:53 final size:53
Alignment explanation
Indices: 456342--456456 Score: 169
Period size: 53 Copynumber: 2.2 Consensus size: 53
456332 AGAATAGTGA
* * * *
456342 AGCGAACCCGTAGGCAGAAGATTATTCGAGTTTTTCTCCCTGAAGTAAGAGGG
1 AGCGAACCCGTAGCCAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGG
*
456395 AG-GAAACCCGTAGCCAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGG
1 AGCG-AACCCGTAGCCAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGG
456448 AGCGAACCC
1 AGCGAACCC
456457 ACTGGTCGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
52 1 0.02
53 53 0.96
54 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.20
Consensus pattern (53 bp):
AGCGAACCCGTAGCCAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGG
Found at i:456468 original size:53 final size:53
Alignment explanation
Indices: 456346--456474 Score: 145
Period size: 53 Copynumber: 2.4 Consensus size: 53
456336 TAGTGAAGCG
* * * * *
456346 AACCCGTAGGCAGAAGATTATTCGAGTTTTTCTCCCTGAAGTAAGAGGGAGGA
1 AACCCCTAGCCAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGGA
* *
456399 AACCCGTAGCCAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCG-
1 AACCCCTAGCCAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAG-GA
* *
456452 AACCCACTGGTC-GAAGATTATTC
1 AACCC-CTAGCCAGAAGATTATTC
456475 AAAGAAGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 61 0.94
54 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (53 bp):
AACCCCTAGCCAGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGGA
Found at i:456643 original size:14 final size:15
Alignment explanation
Indices: 456624--456657 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
456614 TTTGTCCGGG
456624 TTATAAATATT-ATA
1 TTATAAATATTAATA
*
456638 TTATAATTATTAATA
1 TTATAAATATTAATA
456653 TTATA
1 TTATA
456658 TTATAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAAATATTAATA
Found at i:456679 original size:3 final size:3
Alignment explanation
Indices: 456631--456725 Score: 59
Period size: 3 Copynumber: 32.3 Consensus size: 3
456621 GGGTTATAAA
* * * * *
456631 TAT TA- TAT TAT AAT TAT TAA TAT TA- TAT TAT AAC TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
456677 TAT TAT AAC AAT TAA AAT TAT AAT TAT TAT TAG TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
456725 T
1 T
456726 GCTTATGTTT
Statistics
Matches: 66, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
2 4 0.06
3 62 0.94
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (3 bp):
TAT
Found at i:460751 original size:66 final size:66
Alignment explanation
Indices: 460660--461021 Score: 350
Period size: 66 Copynumber: 5.4 Consensus size: 66
460650 AATTTCCATC
* * *
460660 TCCATCTCCATCTCTATCC-GCACCCACCAGTGTTCCATTACAACATACTTCATCATCTCCATGT
1 TCCATCTCCATCTCTA-CCAACACCCACCACTGTTCCATTACAACATACTTCATCATCTCCACGT
*
460724 TT
65 CT
* * * * * *
460726 TCCATCTCCATCTCTGCCAATACCCA-CATTCGTTCCATTACAACATACTTTATAATCTCTACGT
1 TCCATCTCCATCTCTACCAACACCCACCACT-GTTCCATTACAACATACTTCATCATCTCCACGT
460790 CT
65 CT
* * * * * * * *
460792 TCAATCTCCATCTCTACCAGCAACCACCTCCGTTCCATTACAACATACTCCATCATCTTCAAGTC
1 TCCATCTCCATCTCTACCAACACCCACCACTGTTCCATTACAACATACTTCATCATCTCCACGTC
460857 T
66 T
* * * * *
460858 TCCATCTCTATATCTACCAGCACGCACCCACCTCTATTCCATTACAACATACTTCATCATCTCTA
1 TCCATCTCCATCTCTACCA--A--CACCCACCACTGTTCCATTACAACATACTTCATCATCTCCA
460923 CGTCT
62 CGTCT
* * * * * * * *
460928 TTCATCTCTATCTCTATCAGCACCCACCCCCGTTCCATTACAATATACTTCATCATCTCCATGTC
1 TCCATCTCCATCTCTACCAACACCCACCACTGTTCCATTACAACATACTTCATCATCTCCACGTC
460993 T
66 T
* * *
460994 TCCATCTTCATCTCTACTAGCACCCACC
1 TCCATCTCCATCTCTACCAACACCCACC
461022 TCCATTTCAC
Statistics
Matches: 240, Mismatches: 49, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
65 5 0.02
66 179 0.75
67 1 0.00
70 55 0.23
ACGTcount: A:0.25, C:0.38, G:0.05, T:0.32
Consensus pattern (66 bp):
TCCATCTCCATCTCTACCAACACCCACCACTGTTCCATTACAACATACTTCATCATCTCCACGTC
T
Found at i:460941 original size:136 final size:132
Alignment explanation
Indices: 460663--461020 Score: 407
Period size: 136 Copynumber: 2.7 Consensus size: 132
460653 TTCCATCTCC
* *** *
460663 ATCTCCATCTCTATCC-GCACCCACCAGTGTTCCATTACAACATACTTCATCATCTCCATGTTTT
1 ATCTCCATCTCTA-CCAGCAACCACCCCCGTTCCATTACAACATACTTCATCATCTCCATGTCTT
* * * * *
460727 CCATCTCCATCTCTGCCAATACCCACATTCGTTCCATTACAACATACTTTATAATCTCTACGTCT
65 CCATCTCCATATCTACCAACACCCACATTCATTCCATTACAACATACTTCATAATCTCTACGTCT
460792 TCA
130 TCA
* * * *
460795 ATCTCCATCTCTACCAGCAACCACCTCCGTTCCATTACAACATACTCCATCATCTTCAAGTCTTC
1 ATCTCCATCTCTACCAGCAACCACCCCCGTTCCATTACAACATACTTCATCATCTCCATGTCTTC
* * *
460860 CATCTCTATATCTACCAGCACGCACCCAC-CTCTATTCCATTACAACATACTTCATCATCTCTAC
66 CATCTCCATATCTACCA--A--CACCCACATTC-ATTCCATTACAACATACTTCATAATCTCTAC
460924 GTCTTTC-
126 GTC-TTCA
* * * *
460931 ATCTCTATCTCTATCAGCACCCACCCCCGTTCCATTACAATATACTTCATCATCTCCATGTCTTC
1 ATCTCCATCTCTACCAGCAACCACCCCCGTTCCATTACAACATACTTCATCATCTCCATGTCTTC
* * * *
460996 CATCTTCATCTCTACTAGCACCCAC
66 CATCTCCATATCTACCAACACCCAC
461021 CTCCATTTCA
Statistics
Matches: 190, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
131 2 0.01
132 75 0.39
134 1 0.01
135 2 0.01
136 107 0.56
137 3 0.02
ACGTcount: A:0.25, C:0.38, G:0.05, T:0.32
Consensus pattern (132 bp):
ATCTCCATCTCTACCAGCAACCACCCCCGTTCCATTACAACATACTTCATCATCTCCATGTCTTC
CATCTCCATATCTACCAACACCCACATTCATTCCATTACAACATACTTCATAATCTCTACGTCTT
CA
Found at i:468823 original size:22 final size:23
Alignment explanation
Indices: 468798--468844 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
468788 ATAAAGTACA
*
468798 ATAACATACTAGGTAGCGC-TAT
1 ATAACATAATAGGTAGCGCTTAT
**
468820 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
468843 AT
1 AT
468845 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:469286 original size:23 final size:23
Alignment explanation
Indices: 469260--469322 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
469250 ATATAACCAC
469260 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
469283 TACCAATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
469306 TACCTATTACATCATAT
1 TACCTATTACATTATAT
469323 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:469703 original size:23 final size:23
Alignment explanation
Indices: 469677--469739 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
469667 ATATAACCAC
469677 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
469700 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
469723 TACCTATTACATCATAT
1 TACCTATTACATTATAT
469740 TTTTACCTAT
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:469919 original size:30 final size:29
Alignment explanation
Indices: 469885--469951 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
469875 TAATTTGCAC
* *
469885 AAAATATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
469915 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
469944 AATAATAT
1 AA-AATAT
469952 ATATCATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 8 0.24
30 18 0.55
31 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:470108 original size:430 final size:429
Alignment explanation
Indices: 468911--471219 Score: 4245
Period size: 430 Copynumber: 5.5 Consensus size: 429
468901 TATTACATTA
468911 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
468976 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAA-TTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
469040 ATTTGCAC-AAAAATTATTTTATTA-TTGATATTTTATAAAATATTATTTAGAA-TTTTAA--T-
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
469099 -TAATAATA-ATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTATTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
469161 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATTGACACTTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTT
*
469226 TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCAATT
326 TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
469291 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
469330 TATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATA-TTCTTTTAAAG-TATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
469392 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA-TTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
469455 ATTTGCAC-AAAAATTA-TT--TT-TTTGATA-TTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
469514 ATAAT-ATATATATCGTAACGTAAAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
469577 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTT
469642 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
325 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
469707 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
469747 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
469812 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTA
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
469877 ATTTGCACAAAATATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
469942 ATAATAATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
470007 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTT
470072 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
325 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
470137 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
470177 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
470242 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
470307 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATA-T-TTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
470370 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
470435 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTT
470500 TATAAAAAGGATAGACACTTTACAATAT-ACCACTACCTATTACATTATATAAACGATACCTATT
326 TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
*
470564 ACATTATATAAGCGCTACCTATTACATCAT-TTCTTACC
391 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
470602 TATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATAC-TCTTTTAAAGTTATGTAA-
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
470664 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
470729 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
470794 ATAATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
470858 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTT
470923 TATAAAAAGGATAGACACTTTACAATAT-ACCACTACCTATTACATTATATAAACGATACCTATT
326 TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
*
470987 ACATTATATAAGCGCTACCTATTACATCATTTTTTTACC
391 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
471026 TA-T-TATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
471089 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
471154 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
471219 A
196 A
471220 CAACATTAAC
Statistics
Matches: 1844, Mismatches: 17, Indels: 52
0.96 0.01 0.03
Matches are distributed among these distances:
411 21 0.01
412 14 0.01
414 10 0.01
415 62 0.03
416 117 0.06
417 159 0.09
418 40 0.02
419 34 0.02
420 19 0.01
421 41 0.02
422 152 0.08
423 241 0.13
424 82 0.04
425 168 0.09
426 68 0.04
427 53 0.03
428 165 0.09
429 22 0.01
430 376 0.20
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (429 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTT
TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:470133 original size:23 final size:23
Alignment explanation
Indices: 470107--470169 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
470097 ATATAACCAC
470107 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
470130 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
470153 TACCTATTACATCATAT
1 TACCTATTACATTATAT
470170 TTTTACCTAT
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:470563 original size:23 final size:23
Alignment explanation
Indices: 470533--470590 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
470523 AATATACCAC
470533 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
470556 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
470579 TACCTATTACAT
1 TACCTATTACAT
470591 CATTTCTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:470986 original size:23 final size:23
Alignment explanation
Indices: 470956--471013 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
470946 AATATACCAC
470956 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
470979 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
471002 TACCTATTACAT
1 TACCTATTACAT
471014 CATTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:471182 original size:847 final size:856
Alignment explanation
Indices: 468911--471219 Score: 4248
Period size: 847 Copynumber: 2.7 Consensus size: 856
468901 TATTACATTA
468911 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
468976 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAA-TTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
469040 ATTTGCAC-AAAAATTATTTTATTA-TTGATATTTTATAAAATATTATTTAGAA-TTTTAA--T-
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
469099 -TAATAATA-ATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTATTAAATTAATATCT
196 ATAATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
*
469162 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATTGACACTTTT
261 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTT
*
469227 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCAATTA
326 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
469292 CATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATAC-TTT
391 CATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTT
469356 TATAAAAAGGATCGATA-TTCTTTTAAAG-TATGTAATTTATGTTTCAA-TTTTTTTAATAGTGT
456 TATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGT
469418 TTCATGTTTTCCACCTACAATATTAA-TTAATAATTTCATTTGCAC-AAAAATTA-TT--TT-TT
521 TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATT
469477 TGATA-TTTATAAAATATTATTTAGAATTTTTAATTTAATAATATATATATCGTAACGTAAAAAA
586 TGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATATATATATCGTAACGTAAAAAA
469541 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
651 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
469606 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATAT
716 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATAT
469671 AACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATC
781 AACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATC
*
469736 ATATTTTTACC
846 ATATTCTTACC
469747 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
469812 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTA
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
469877 ATTTGCACAAAATATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
469942 ATAATAATATATATCATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
470007 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
260 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTT
470072 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
324 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
470137 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
389 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
*
470202 TTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGT
454 TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGT
470267 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTA
519 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTA
470332 TTTGATATTTTATAAAATA-T-TTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAA
584 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-ATATATATCGTAACGTAAA
*
470395 AAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
648 AAA-AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
470460 TAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACA
712 TAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACA
470524 ATAT-ACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTA
777 ATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTA
470588 CATCAT-TTCTTACC
842 CATCATATTCTTACC
470602 TATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATAC-TCTTTTAAAGTTATGTAA-
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
470664 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
470729 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
470794 ATAATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
196 ATAATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
470859 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTT
261 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTT
470924 ATAAAAAGGATAGACACTTTACAATAT-ACCACTACCTATTACATTATATAAACGATACCTATTA
326 ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
*
470988 CATTATATAAGCGCTACCTATTACATCATTTTTTTACCTA-T-TATTGAAAGTGTCCATACTTTT
391 CATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTT
471051 TATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGT
456 TATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGT
471116 TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATT
521 TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATT
471181 TGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
586 TGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
471220 CAACATTAAC
Statistics
Matches: 1429, Mismatches: 18, Indels: 39
0.96 0.01 0.03
Matches are distributed among these distances:
836 125 0.09
837 10 0.01
838 13 0.01
839 28 0.02
840 6 0.00
842 1 0.00
844 8 0.01
845 11 0.01
846 88 0.06
847 311 0.22
848 21 0.01
849 106 0.07
850 65 0.05
851 130 0.09
852 167 0.12
853 26 0.02
854 16 0.01
855 37 0.03
856 91 0.06
857 76 0.05
858 93 0.07
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (856 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTT
ATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTA
CATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTT
TATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGT
TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATT
TGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATATATATATCGTAACGTAAAAAA
AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATAT
AACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATC
ATATTCTTACC
Found at i:471492 original size:39 final size:39
Alignment explanation
Indices: 471438--471523 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
471428 CAAGTTGTAG
*
471438 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
471477 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
471516 ATTTTGAT
1 ATTTTGAT
471524 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:472270 original size:23 final size:22
Alignment explanation
Indices: 472214--472283 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
472204 ATACTTTACA
*
472214 ATATAACCACTACCTATTACA-T
1 ATATAA-CGCTACCTATTACATT
*
472236 ATA-AACGATACCTATTACATT
1 ATATAACGCTACCTATTACATT
*
472257 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
472280 ATAT
1 ATAT
472284 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 12 0.29
21 6 0.15
22 5 0.12
23 18 0.44
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:472685 original size:25 final size:25
Alignment explanation
Indices: 472628--472693 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
472618 CACTCAAAAG
*
472628 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
472653 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
472678 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
472694 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:475160 original size:23 final size:23
Alignment explanation
Indices: 475134--475196 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
475124 ATATAACCAC
475134 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
475157 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
475180 TACCTATTACATCATAT
1 TACCTATTACATTATAT
475197 TTTACCTATT
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:475374 original size:30 final size:29
Alignment explanation
Indices: 475340--475406 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
475330 TAATTTGCAC
* *
475340 AAAATATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
475370 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
475399 AATAATAT
1 AA-AATAT
475407 ATATCATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 8 0.24
30 18 0.55
31 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:475588 original size:23 final size:23
Alignment explanation
Indices: 475562--475624 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
475552 ATATAACCAC
475562 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
475585 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
475608 TACCTATTACATCATAT
1 TACCTATTACATTATAT
475625 TTTTACCTAT
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:475768 original size:429 final size:429
Alignment explanation
Indices: 474734--477107 Score: 4519
Period size: 429 Copynumber: 5.6 Consensus size: 429
474724 TAGGTTATGC
474734 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
474799 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
474864 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA-TTCATTTGCACAAAAAATTATT
131 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
474928 TGATTA-TTGATA-TTTATAAAATA-TATTTAGAATTTTTAATTTAATAAT-A-ATATATCGTAA
196 TGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAA
*
474988 CGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
261 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
475053 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACAC
326 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACAC
475118 TTTACAATATAACCACTACCTATTACATTATATAAACGA
391 TTTACAATATAACCACTACCTATTACATTATATAAACGA
475157 TACCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
475221 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
* *
475286 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTGCACAAAATATTATT
131 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
* *
475351 TGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCATAA
196 TGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAA
475416 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
261 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
475481 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACAC
326 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACAC
475546 TTTACAATATAACCACTACCTATTACATTATATAAACGA
391 TTTACAATATAACCACTACCTATTACATTATATAAACGA
475585 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
*
475650 CATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
475715 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
131 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
*
475780 TGATTATTTGATATTTTCTAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAA
196 TGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAA
475845 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
261 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
* *
475910 TAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACATTTTTATAAAAAGGATAGACAC
326 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACAC
475975 TTTACAATATAACCACTACCTATTACATTATATAAACGA
391 TTTACAATATAACCACTACCTATTACATTATATAAACGA
476014 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
476079 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
*
476144 AATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
131 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
476209 TGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAA
196 TGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAA
476274 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
261 CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
476339 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACAC
326 TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACAC
476404 TTTACAATATAACCACTACCTATTACATTATATAAACGA
391 TTTACAATATAACCACTACCTATTACATTATATAAACGA
476443 TACCTATTACATTATATAAGCGCTACCTATTACATCAT-TTCTTTACCTATTATATTGAAAGTGT
1 TACCTATTACATTATATAAGCGCTACCTATTACATCATATT-TTTACCTATTATATTGAAAGTGT
476507 CCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
65 CCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTT
476572 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTA
129 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTA
476637 TTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATATCGT
194 TTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGT
476700 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
259 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
476765 GATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAGAC
324 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
476829 ACTTTACAATA-AACCACTACCTATTACATTATATAAACGA
389 ACTTTACAATATAACCACTACCTATTACATTATATAAACGA
476869 TACCTATTACA-T-TATAAGCGCTACCTATTACATCAT-TTTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
476931 CATACTTTTTATAAAAAGGATCGATACTTC-TTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTT
476995 TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTAT
130 TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTAT
477060 TTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
195 TTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
477108 CAACATTAAC
Statistics
Matches: 1923, Mismatches: 19, Indels: 19
0.98 0.01 0.01
Matches are distributed among these distances:
422 279 0.15
423 118 0.06
424 32 0.02
425 12 0.01
426 65 0.03
427 46 0.02
428 323 0.17
429 926 0.48
430 122 0.06
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (429 bp):
TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
TGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAA
CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
TAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACAC
TTTACAATATAACCACTACCTATTACATTATATAAACGA
Found at i:476017 original size:23 final size:23
Alignment explanation
Indices: 475991--476053 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
475981 ATATAACCAC
475991 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
476014 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
476037 TACCTATTACATCATAT
1 TACCTATTACATTATAT
476054 TTTTACCTAT
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:476446 original size:23 final size:23
Alignment explanation
Indices: 476420--476477 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
476410 ATATAACCAC
476420 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
476443 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
476466 TACCTATTACAT
1 TACCTATTACAT
476478 CATTTCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:476874 original size:23 final size:22
Alignment explanation
Indices: 476837--476901 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 22
476827 ACACTTTACA
*
476837 ATAAACCACTACCTATTACATTAT
1 ATAAACGA-TACCTATTACATT-T
476861 ATAAACGATACCTATTACA-TT
1 ATAAACGATACCTATTACATTT
* *
476882 ATAAGCGCTACCTATTACAT
1 ATAAACGATACCTATTACAT
476902 CATTTTTTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 18 0.49
22 1 0.03
23 11 0.30
24 7 0.19
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (22 bp):
ATAAACGATACCTATTACATTT
Found at i:476893 original size:21 final size:22
Alignment explanation
Indices: 476845--476901 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
476835 CAATAAACCA
476845 CTACCTATTACATTATATAAACG
1 CTACCTATTACA-TATATAAACG
* *
476868 ATACCTATTACAT-TATAAGCG
1 CTACCTATTACATATATAAACG
476889 CTACCTATTACAT
1 CTACCTATTACAT
476902 CATTTTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.61
22 1 0.03
23 11 0.35
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (22 bp):
CTACCTATTACATATATAAACG
Found at i:477381 original size:39 final size:39
Alignment explanation
Indices: 477327--477412 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
477317 CAAGTTGTAG
*
477327 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
477366 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
477405 ATTTTGAT
1 ATTTTGAT
477413 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:478147 original size:23 final size:23
Alignment explanation
Indices: 478121--478183 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
478111 ATATAACCAC
478121 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
478144 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
478167 TACCTATTACATCATAT
1 TACCTATTACATTATAT
478184 GTTTACCTAT
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:478585 original size:25 final size:25
Alignment explanation
Indices: 478528--478593 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
478518 CACTCAAAAG
*
478528 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
478553 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
478578 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
478594 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:481389 original size:183 final size:183
Alignment explanation
Indices: 481052--481389 Score: 534
Period size: 183 Copynumber: 1.8 Consensus size: 183
481042 AATTACCGAC
* * *
481052 ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAGATTA
* * * *
481117 TAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGATACAT
*
481182 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
131 TACAAAATTACCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
*
481235 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAATTACCGACACAAGATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAGATTA
*
481300 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAATCGGTATATTTATACC-GATAGCA
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGATA-CA
* * **
481364 TTGCAAATTTACCTATTTTATTATAA
130 TTACAAAATTACCTATTACATTATAA
481390 CATGTTGAAA
Statistics
Matches: 140, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
182 3 0.02
183 137 0.98
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (183 bp):
ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAGATTA
AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGATACAT
TACAAAATTACCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
Found at i:482863 original size:3 final size:3
Alignment explanation
Indices: 482855--482941 Score: 57
Period size: 3 Copynumber: 29.0 Consensus size: 3
482845 ACTTGTTTGG
* * * * **
482855 ATC ATC ATC TTC ATC ATC ATG ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
** * * * * *
482903 GGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
482942 TTAATCGTCA
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.22, C:0.33, G:0.09, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:482922 original size:12 final size:12
Alignment explanation
Indices: 482855--482951 Score: 79
Period size: 12 Copynumber: 8.1 Consensus size: 12
482845 ACTTGTTTGG
*
482855 ATCATCATCTTC
1 ATCATCATCGTC
482867 ATCATCAT-GATC
1 ATCATCATCG-TC
* *
482879 ATCATCGTCATC
1 ATCATCATCGTC
* *
482891 ATCTTCATCGCC
1 ATCATCATCGTC
** *
482903 GGCTTCATCGTC
1 ATCATCATCGTC
482915 ATCATCATCGTC
1 ATCATCATCGTC
*
482927 ATCTTCATCGTC
1 ATCATCATCGTC
* *
482939 ATCTTAATCGTC
1 ATCATCATCGTC
482951 A
1 A
482952 GCTTCATCTT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
12 68 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:482948 original size:24 final size:24
Alignment explanation
Indices: 482904--482959 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
482894 TTCATCGCCG
*
482904 GCTTCATCGTCATCATCATCGTCA
1 GCTTCATCGTCATCATAATCGTCA
* *
482928 TCTTCATCGTCATCTTAATCGTCA
1 GCTTCATCGTCATCATAATCGTCA
482952 GCTTCATC
1 GCTTCATC
482960 TTCTGCGACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.32, G:0.11, T:0.38
Consensus pattern (24 bp):
GCTTCATCGTCATCATAATCGTCA
Found at i:484788 original size:199 final size:199
Alignment explanation
Indices: 484423--485791 Score: 2530
Period size: 199 Copynumber: 6.9 Consensus size: 199
484413 TTTAAATTAG
* *
484423 TATCGACACAAACTAAA--ACGTGTCAACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
*
484486 ACTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* *
484551 TCGACACTTTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAGC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
484616 AAAAA
195 AAAAA
484621 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
484686 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
484751 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
484816 AAAA
196 AAAA
484820 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
484885 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
484950 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
485015 AAAA
196 AAAA
*
485019 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCCCAT-AAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
485083 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
485148 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
485212 AAAA
196 AAAA
*
485216 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGATATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
485281 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
485346 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
485411 AAAAA
195 AAAAA
485416 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
485481 CTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
485546 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
485611 AAAA
196 AAAA
*
485615 TATCGACACAAACTAAATTAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* * *
485680 CTTGTACCGGCTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
485745 TTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
485792 GGCCATATTG
Statistics
Matches: 1143, Mismatches: 22, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
197 55 0.05
198 215 0.19
199 698 0.61
200 175 0.15
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:485555 original size:596 final size:597
Alignment explanation
Indices: 484423--485791 Score: 2530
Period size: 596 Copynumber: 2.3 Consensus size: 597
484413 TTTAAATTAG
* *
484423 TATCGACACAAACTAAA--ACGTGTCAACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
*
484486 ACTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* *
484551 TCGACACTTTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAGC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
484616 AAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
484681 GTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
260 GTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
484746 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
484811 GAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
390 GAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
484876 ACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
455 ACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
*
484941 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAT
520 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
485006 TCTGGAACAAAAA
585 TCTGGAACAAAAA
*
485019 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCCCAT-AAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
485083 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
485148 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
*
485212 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGATATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
* *
485277 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
261 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTT
485342 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
485407 GAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
390 GAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
*
485472 ACCGGTAAACTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
455 ACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
485537 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
520 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
485602 TCTGGAACAAAAA
585 TCTGGAACAAAAA
*
485615 TATCGACACAAACTAAATTAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* * *
485680 CTTGTACCGGCTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
485745 TTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
485792 GGCCATATTG
Statistics
Matches: 750, Mismatches: 18, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
595 115 0.15
596 485 0.65
597 88 0.12
598 62 0.08
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (597 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
AACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
CCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATT
CTGGAACAAAAA
Found at i:485956 original size:19 final size:19
Alignment explanation
Indices: 485910--485958 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
485900 TTATATTCAC
*
485910 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
485929 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
485948 ATACAAAATTA
1 ATACAAAATTA
485959 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:487785 original size:33 final size:33
Alignment explanation
Indices: 487748--487813 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
487738 CATCTTAATA
*
487748 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
487781 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
487814 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:487876 original size:21 final size:21
Alignment explanation
Indices: 487850--487890 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
487840 CTTATGCCTT
487850 TCAAGTGTATCTTCGACTCTC
1 TCAAGTGTATCTTCGACTCTC
* * *
487871 TCAAGTTTCTCTTTGACTCT
1 TCAAGTGTATCTTCGACTCT
487891 TGATTGTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.27, G:0.12, T:0.44
Consensus pattern (21 bp):
TCAAGTGTATCTTCGACTCTC
Found at i:490129 original size:17 final size:18
Alignment explanation
Indices: 490107--490149 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
490097 ATATATCCGG
490107 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
490124 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
490144 TATCAT
1 TATCAT
490150 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:490167 original size:20 final size:19
Alignment explanation
Indices: 490112--490158 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
490102 TCCGGTATCA
490112 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
490131 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
490152 TTTTACC
1 TTTTACC
490159 TGTTATATCG
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:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:490320 original size:20 final size:20
Alignment explanation
Indices: 490293--490339 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
490283 TCCGGTAACG
490293 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
490312 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
490333 TTTTACC
1 TTTTACC
490340 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:491071 original size:226 final size:228
Alignment explanation
Indices: 490388--491100 Score: 1339
Period size: 226 Copynumber: 3.1 Consensus size: 228
490378 ACTTTTATAC
490388 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
490453 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
65 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
490518 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
130 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
490583 GATAATAATAAATATGTTTTCCACAGTGAAATAA
195 GATAATAATAAATATGTTTTCCACAGTGAAATAA
490617 GTATGGACACTTTTAT-AAAATGATATATAC--TTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
490679 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
490744 TATTTGATTA-TTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
490808 ATAATAATAAATATGTTTTCCACAGTGAAATAA
196 ATAATAATAAATATGTTTTCCACAGTGAAATAA
490841 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
490905 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
490970 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
*
491035 ATAATAATAAATATATTTT-CACAGTGAAATAA
196 ATAATAATAAATATGTTTTCCACAGTGAAATAA
* *
491067 GTATGGACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
491101 ACAATATAAC
Statistics
Matches: 476, Mismatches: 4, Indels: 11
0.97 0.01 0.02
Matches are distributed among these distances:
224 103 0.22
225 92 0.19
226 150 0.32
227 101 0.21
228 14 0.03
229 16 0.03
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (228 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
ATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:496140 original size:54 final size:54
Alignment explanation
Indices: 496058--496178 Score: 233
Period size: 54 Copynumber: 2.2 Consensus size: 54
496048 AACTGGTGTT
*
496058 GACCTGAACCCGAGTTGGACTTGGAAATTGTAGATCTGAACCCAACCTGATAAC
1 GACCTGAACCCGAGTTGGACTTGGAAATTGTAGATCTGAACCCAAACTGATAAC
496112 GACCTGAACCCGAGTTGGACTTGGAAATTGTAGATCTGAACCCAAACTGATAAC
1 GACCTGAACCCGAGTTGGACTTGGAAATTGTAGATCTGAACCCAAACTGATAAC
496166 GACCTGAACCCGA
1 GACCTGAACCCGA
496179 ATTGAACCGA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (54 bp):
GACCTGAACCCGAGTTGGACTTGGAAATTGTAGATCTGAACCCAAACTGATAAC
Found at i:496293 original size:16 final size:16
Alignment explanation
Indices: 496272--496310 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
496262 GGTATTACCC
*
496272 GACCTGTTTTCAACCT
1 GACCTGTTATCAACCT
*
496288 GACCTGTTATGAACCT
1 GACCTGTTATCAACCT
*
496304 TACCTGT
1 GACCTGT
496311 AAATGATCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (16 bp):
GACCTGTTATCAACCT
Found at i:496497 original size:13 final size:13
Alignment explanation
Indices: 496481--496538 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
496471 ATAATAAAAT
496481 ATTAATTATGATA
1 ATTAATTATGATA
496494 ATTAAATTA--ATA
1 ATT-AATTATGATA
* *
496506 AATATATT-TAATA
1 ATTA-ATTATGATA
496519 TATTAATTATGATA
1 -ATTAATTATGATA
496533 ATTAAT
1 ATTAAT
496539 ATACTTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
11 1 0.03
12 8 0.22
13 15 0.42
14 12 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTAATTATGATA
Found at i:496537 original size:21 final size:21
Alignment explanation
Indices: 496471--496541 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
496461 TTTAAATGTT
*
496471 ATAA-TAAAATATTAATTATG
1 ATAATTAATATATTAATTATG
*
496491 ATAATT-A-A-ATTAATAAAT-
1 ATAATTAATATATTAAT-TATG
*
496509 ATATTTAATATATTAATTATG
1 ATAATTAATATATTAATTATG
496530 ATAATTAATATA
1 ATAATTAATATA
496542 CTTTATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
18 11 0.27
19 4 0.10
20 8 0.20
21 18 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
ATAATTAATATATTAATTATG
Found at i:496551 original size:16 final size:15
Alignment explanation
Indices: 496530--496649 Score: 76
Period size: 14 Copynumber: 8.2 Consensus size: 15
496520 ATTAATTATG
496530 ATAATTAATATACTTT
1 ATAATT-ATATACTTT
496546 ATAATTA-ATAC-TT
1 ATAATTATATACTTT
*
496559 ATATTTATATACTTT
1 ATAATTATATACTTT
*
496574 AATACTT-TATA-TTT
1 -ATAATTATATACTTT
* *
496588 AATACTTATAT--TAT
1 -ATAATTATATACTTT
*
496602 ATAGTT-TAATACTTT
1 ATAATTAT-ATACTTT
496617 AT-ATTATATACTTT
1 ATAATTATATACTTT
* *
496631 AATACTTATATACCTT
1 -ATAATTATATACTTT
496647 ATA
1 ATA
496650 GAGAAAATAA
Statistics
Matches: 86, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
12 1 0.01
13 15 0.17
14 29 0.34
15 20 0.23
16 21 0.24
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (15 bp):
ATAATTATATACTTT
Found at i:496575 original size:22 final size:20
Alignment explanation
Indices: 496553--496649 Score: 88
Period size: 22 Copynumber: 4.5 Consensus size: 20
496543 TTTATAATTA
496553 ATACTTATATTTATATACTTT
1 ATACTTATATTTA-ATACTTT
496574 AATACTTTATATTTAATAC-TT
1 -ATAC-TTATATTTAATACTTT
*
496595 ATATTATATAGTTTAATACTTT
1 ATACT-TATA-TTTAATACTTT
*
496617 ATATTATATACTTTAATACTTAT
1 ATACT-TATA-TTTAATACTT-T
496640 ATACCTTATA
1 ATA-CTTATA
496650 GAGAAAATAA
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.02
20 7 0.11
21 10 0.15
22 30 0.45
23 17 0.26
24 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (20 bp):
ATACTTATATTTAATACTTT
Found at i:496580 original size:36 final size:35
Alignment explanation
Indices: 496539--496643 Score: 140
Period size: 35 Copynumber: 2.9 Consensus size: 35
496529 GATAATTAAT
496539 ATACTTTATAATTAATACTTATATTTATATACTTTA
1 ATACTTTATAATTAATACTTATA-TTATATACTTTA
* *
496575 ATACTTTATATTTAATACTTATATTATATAGTTTA
1 ATACTTTATAATTAATACTTATATTATATACTTTA
496610 ATACTTTAT-ATTATATACTTTAATACTTATATAC
1 ATACTTTATAATTA-ATAC-TT-ATA-TTATATAC
496644 CTTATAGAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
34 3 0.05
35 24 0.39
36 24 0.39
37 3 0.05
38 7 0.11
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (35 bp):
ATACTTTATAATTAATACTTATATTATATACTTTA
Found at i:496601 original size:73 final size:73
Alignment explanation
Indices: 496508--496643 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 73
496498 AATTAATAAA
*
496508 TATATTTAATATATTAATTATGATAATTAATATACTTTATAATTA-ATAC-TT-ATATTTATATA
1 TATATTTAATATATTAATTAT-ATAATTAA-ATACTTTAT-ATTATATACTTTAATACTTATATA
496570 CTTTAATACTT
63 CTTTAATACTT
* * *
496581 TATATTTAATA-CTTATATTATATAGTTTAATACTTTATATTATATACTTTAATACTTATATAC
1 TATATTTAATATATTA-ATTATATAATTAAATACTTTATATTATATACTTTAATACTTATATAC
496644 CTTATAGAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
70 4 0.07
71 13 0.24
72 11 0.20
73 27 0.49
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (73 bp):
TATATTTAATATATTAATTATATAATTAAATACTTTATATTATATACTTTAATACTTATATACTT
TAATACTT
Found at i:496610 original size:35 final size:35
Alignment explanation
Indices: 496508--496629 Score: 140
Period size: 35 Copynumber: 3.4 Consensus size: 35
496498 AATTAATAAA
* *
496508 TATATTTAATATATTA-ATTATGATAATTAATATACTT
1 TATATTTAATA-CTTATATTAT-ATAATTTA-ATACTT
* *
496545 TATAATTAATACTTATATTTATATACTTTAATACTT
1 TATATTTAATACTTATA-TTATATAATTTAATACTT
*
496581 TATATTTAATACTTATATTATATAGTTTAATACTT
1 TATATTTAATACTTATATTATATAATTTAATACTT
496616 TATA-TTATATACTT
1 TATATTTA-ATACTT
496630 TAATACTTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
34 3 0.04
35 27 0.36
36 25 0.33
37 17 0.22
38 4 0.05
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (35 bp):
TATATTTAATACTTATATTATATAATTTAATACTT
Found at i:496611 original size:21 final size:20
Alignment explanation
Indices: 496558--496641 Score: 98
Period size: 22 Copynumber: 3.9 Consensus size: 20
496548 AATTAATACT
496558 TATATTTATATACTTTAATACTT-
1 TATATTTA-ATAC-TT-ATA-TTA
496581 TATATTTAATACTTATATTA
1 TATATTTAATACTTATATTA
496601 TATAGTTTAATACTTTATATTA
1 TATA-TTTAATAC-TTATATTA
496623 TATACTTTAATACTTATAT
1 TATA-TTTAATACTTATAT
496642 ACCTTATAGA
Statistics
Matches: 57, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
19 2 0.04
20 7 0.12
21 16 0.28
22 24 0.42
23 8 0.14
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (20 bp):
TATATTTAATACTTATATTA
Found at i:496616 original size:43 final size:43
Alignment explanation
Indices: 496537--496641 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
496527 ATGATAATTA
* *
496537 ATATACTTT-ATAATTAATACT-TATATTTATATACTTTAATACTT
1 ATATACTTTAATACTT-ATATTATATATTTATATACTTT-ATA-TT
496581 -TATA-TTTAATACTTATATTATATAGTTTA-ATACTTTATATT
1 ATATACTTTAATACTTATATTATATA-TTTATATACTTTATATT
496622 ATATACTTTAATACTTATAT
1 ATATACTTTAATACTTATAT
496642 ACCTTATAGA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
41 2 0.04
42 14 0.26
43 34 0.63
44 4 0.07
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (43 bp):
ATATACTTTAATACTTATATTATATATTTATATACTTTATATT
Found at i:496884 original size:20 final size:20
Alignment explanation
Indices: 496859--496973 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
496849 TTTTCCCAAT
*
496859 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
496879 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
*
496900 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
496920 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
*
496941 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
496961 TCGCAACGCGAAT
1 TCGCAACGCGAAT
496974 TGGGAAAATC
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 44 0.58
21 32 0.42
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:496902 original size:21 final size:21
Alignment explanation
Indices: 496876--496987 Score: 138
Period size: 21 Copynumber: 5.4 Consensus size: 21
496866 GCGAATAAGT
496876 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
496897 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
496917 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
496938 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
496958 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
496979 AAATCGCAA
1 AAATCGCAA
496988 TACGATACTT
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
20 32 0.44
21 41 0.56
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:497007 original size:41 final size:41
Alignment explanation
Indices: 496859--496988 Score: 260
Period size: 41 Copynumber: 3.2 Consensus size: 41
496849 TTTTCCCAAT
496859 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
496900 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
496941 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
496982 TCGCAAT
1 TCGCAAT
496989 ACGATACTTA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:497023 original size:41 final size:41
Alignment explanation
Indices: 496978--497055 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
496968 GCGAATTGGG
* *
496978 AAAATCGCAA-TACGATACTTACTATCGCAATGCGATAATAA
1 AAAATCGCAACGA-GATACTTACTATCGCAACGCGATAATAA
* *
497019 AAAATTGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
497056 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 31 0.97
42 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
Found at i:497050 original size:20 final size:20
Alignment explanation
Indices: 497025--497075 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
497015 ATAAAAAATT
* *
497025 GCAACGAGATACTTACTTTC
1 GCAACGCGATACTGACTTTC
497045 GCAACGCGATACTGACTTTC
1 GCAACGCGATACTGACTTTC
497065 GCAACGCGATA
1 GCAACGCGATA
497076 ATACATAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (20 bp):
GCAACGCGATACTGACTTTC
Found at i:497291 original size:22 final size:22
Alignment explanation
Indices: 497263--497306 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
497253 TACTCTCTCA
497263 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
497285 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
497307 TATCTAAATC
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:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:497595 original size:20 final size:20
Alignment explanation
Indices: 497570--497607 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
497560 CGATTCTCTC
497570 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
497590 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
497608 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:499552 original size:94 final size:93
Alignment explanation
Indices: 499426--499727 Score: 541
Period size: 94 Copynumber: 3.2 Consensus size: 93
499416 GAAGTTAGTA
*
499426 TTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
1 TTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
499491 ACACTGTGAAGTTAGTATTTGTCTTTGT
66 ACACTGTGAAGTTAGTATTTGTCTTTGT
499519 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTG-AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
499584 AACACTGTGAAGTTAGTATTTGTCTTTGT
65 AACACTGTGAAGTTAGTATTTGTCTTTGT
*
499613 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTG-AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
* *
499678 AATACTCTGAAGTTAGTATTTGTCTTTGT
65 AACACTGTGAAGTTAGTATTTGTCTTTGT
*
499707 TTTATCTTTTGGTTGAAGTAA
1 TTTGTCTTTTGGTTGAAGTAA
499728 TGCAATCCAT
Statistics
Matches: 203, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
93 21 0.10
94 182 0.90
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (93 bp):
TTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
ACACTGTGAAGTTAGTATTTGTCTTTGT
Found at i:499864 original size:39 final size:38
Alignment explanation
Indices: 499816--499891 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
499806 TCTTTTAGTT
*
499816 GAAATGAAAATCGCAACG-AGAGAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGCA-A-AATGAAAATCGCAACGC
*
499855 GAAACGAAAATCGCAACGCAAAATGAAAATCGTAACG
1 GAAACGAAAATCGCAACGCAAAATGAAAATCGCAACG
499892 ACAAAATCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 15 0.44
39 18 0.53
40 1 0.03
ACGTcount: A:0.50, C:0.18, G:0.21, T:0.11
Consensus pattern (38 bp):
GAAACGAAAATCGCAACGCAAAATGAAAATCGCAACGC
Found at i:499865 original size:19 final size:19
Alignment explanation
Indices: 499816--499891 Score: 107
Period size: 19 Copynumber: 3.9 Consensus size: 19
499806 TCTTTTAGTT
*
499816 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
499835 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
499855 GAAACGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
499874 AAAATGAAAATCGTAACG
1 GAAATGAAAATCGCAACG
499892 ACAAAATCGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
19 33 0.65
20 18 0.35
ACGTcount: A:0.50, C:0.18, G:0.21, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:499972 original size:33 final size:33
Alignment explanation
Indices: 499920--500014 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
499910 ACTATAATCG
** * * *
499920 CGTTGCGATTTTTGGTTTCGTGTTGCGATTTTGT
1 CGTTGCG-TTTTTCATTTCGCGTTGCGATTCTCT
499954 CGTTGCGTTTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGTTTTTCATTTCGCGTTGCGATTCTCT
* *
499987 CATTGCGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGTTTTTCATTTCGCGTTGCGAT
500015 AGTATTTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 47 0.87
34 7 0.13
ACGTcount: A:0.08, C:0.19, G:0.24, T:0.48
Consensus pattern (33 bp):
CGTTGCGTTTTTCATTTCGCGTTGCGATTCTCT
Found at i:500013 original size:19 final size:19
Alignment explanation
Indices: 499954--500014 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
499944 GCGATTTTGT
*
499954 CGTTGCGTTTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
499973 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
499987 CATTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
500006 CGTTGCGAT
1 CGTTGCGAT
500015 AGTATTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
14 9 0.28
16 3 0.09
17 3 0.09
19 17 0.53
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:500508 original size:42 final size:42
Alignment explanation
Indices: 500462--500550 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
500452 CCTATCGTTG
*
500462 AAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCACCATTC
1 AAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCACCATTC
* * * *
500504 AAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCACTATTC
1 AAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTC
500546 AAGAG
1 AAGAG
500551 CCCGATTCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.10
42 34 0.85
43 2 0.05
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (42 bp):
AAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTC
Found at i:501915 original size:14 final size:14
Alignment explanation
Indices: 501896--501931 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
501886 ATTGTTTAAT
*
501896 TGATTTGTAAATGA
1 TGATTTGTAAAAGA
*
501910 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
501924 TGATTTGT
1 TGATTTGT
501932 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:502054 original size:19 final size:19
Alignment explanation
Indices: 502038--502103 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
502028 AAAAATGACT
502038 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
502057 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
502071 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
502090 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
502104 CTAAATTCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:502157 original size:33 final size:33
Alignment explanation
Indices: 502113--502235 Score: 201
Period size: 33 Copynumber: 3.7 Consensus size: 33
502103 ACTAAATTCG
* *
502113 CGTTGCGATTTTCATTTCGCTTTGTGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
*
502146 CATTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
* *
502179 CGTTGCAATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
502212 CGTTGCGATTTTCATTTCGCATTG
1 CGTTGCGATTTTCATTTCGCATTG
502236 CGATAGTCAT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
Found at i:502174 original size:19 final size:19
Alignment explanation
Indices: 502146--502259 Score: 95
Period size: 19 Copynumber: 6.5 Consensus size: 19
502136 GTGATTCCCT
502146 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
* *
502165 CATTGTGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
*
502181 --TTGCAATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
502198 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
502214 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
**
502231 CATTGCGATAGTCATTTTCG
1 CATTGCGATTTTCA-TTTCG
502251 CATTGCGAT
1 CATTGCGAT
502260 AGACATTAAG
Statistics
Matches: 74, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
14 10 0.14
16 14 0.19
17 14 0.19
19 22 0.30
20 14 0.19
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:502251 original size:20 final size:20
Alignment explanation
Indices: 502226--502266 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
502216 GCGATTTTCA
*
502226 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGACAT
502246 TTTCGCATTGCGATAGACAT
1 TTTCGCATTGCGATAGACAT
502266 T
1 T
502267 AAGATGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
TTTCGCATTGCGATAGACAT
Found at i:502305 original size:20 final size:20
Alignment explanation
Indices: 502233--502305 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
502223 TCATTTCGCA
* **
502233 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTACGTG
* *
502253 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTACG-TG
*
502273 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTACGTG
502294 TTGCGATAGTCA
1 TTGCGATAGTCA
502306 AATGAATGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.55
21 12 0.30
22 3 0.08
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTACGTG
Found at i:504799 original size:24 final size:24
Alignment explanation
Indices: 504765--504818 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
504755 CTGAAAAATC
504765 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
504789 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
504813 ATCAAA
1 ATCAAA
504819 TTTCGAATAC
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:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:504832 original size:24 final size:24
Alignment explanation
Indices: 504765--504832 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
504755 CTGAAAAATC
* * *
504765 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
504789 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
504813 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
504833 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:505744 original size:61 final size:60
Alignment explanation
Indices: 505669--505939 Score: 298
Period size: 61 Copynumber: 4.5 Consensus size: 60
505659 AGAATCTCGT
*
505669 TGCGATTTAC-TAAATCGCAATGCGATTACGTAAATCG-AAGTGCAAATTAGGAAAATCGCAA
1 TGCGA-TTACGTAAATCGCAATGCGATTACGTAAATCGCAA-TGC-AATTAGGAAAATCACAA
* * * *
505730 TGCGATTACGTAAATCGCAATGCGAATTA-GTAAAATCGCAATGCGATTATGTAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCG-ATTACGT-AAATCGCAATGCAATTAGGAAAATCACAA
* * * * * *
505791 TGCGGTTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAATCACAA
1 TGCGATTACGTAAATCGCAATGCG-ATTACGTAAATCGCAATGCAATTAGGAAAATCACAA
* * *
505852 TGCGAATTAGGAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCACAT
1 TGCG-ATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGC-AATTAGGAAAATCACAA
* *
505914 TGCGATTACGT-ATTCGCATTGCGATT
1 TGCGATTACGTAAATCGCAATGCGATT
505940 TTTCTAATTC
Statistics
Matches: 183, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
60 17 0.09
61 116 0.63
62 48 0.26
63 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (60 bp):
TGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCAATTAGGAAAATCACAA
Found at i:505800 original size:102 final size:102
Alignment explanation
Indices: 505669--505897 Score: 381
Period size: 102 Copynumber: 2.2 Consensus size: 102
505659 AGAATCTCGT
505669 TGCGATTTAC-TAAATCGCAATGCGATTACGTAAATCG-AAGTGCAAATTAGGAAAATCGCAATG
1 TGCGA-TTACGTAAATCGCAATGCGATTACGTAAATCGCAA-TGCAAATTAGGAAAATCGCAATG
* *
505732 CGATTACGTAAATCGCAATGCGAATTAGTAAAATCGCAA
64 CGATTACGTAAATCACAATGCGAATTAGGAAAATCGCAA
* * *
505771 TGCGATTATGTAAATCGCAATGCGGTTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCG
1 TGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCAAATTAGGAAAATCGCAATGCG
505836 ATTACGTAAATCACAATGCGAATTAGGAAAATCGCAA
66 ATTACGTAAATCACAATGCGAATTAGGAAAATCGCAA
505873 TGCGATTACGTAAATCGCAATGCGA
1 TGCGATTACGTAAATCGCAATGCGA
505898 ATTAGGAAAA
Statistics
Matches: 118, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
101 3 0.03
102 113 0.96
103 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (102 bp):
TGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCAAATTAGGAAAATCGCAATGCG
ATTACGTAAATCACAATGCGAATTAGGAAAATCGCAA
Found at i:505898 original size:41 final size:41
Alignment explanation
Indices: 505669--505978 Score: 321
Period size: 41 Copynumber: 7.6 Consensus size: 41
505659 AGAATCTCGT
*
505669 TGCGATTTAC-TAAATCGCAATGCG-ATTACGTAAATCG-AA
1 TGCGA-TTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
* * * *
505708 GTGCAAATTAGGAAAATCGCAATGCG-ATTACGTAAATCGCAA
1 -TGC-GATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
*
505750 TGCGAATTA-GTAAAATCGCAATGCG-ATTATGTAAATCGCAA
1 TGCG-ATTACGT-AAATCGCAATGCGAATTAGGTAAATCGCAA
* *
505791 TGCGGTTACGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
* *
505832 TGCGATTACGTAAATCACAATGCGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
* * *
505873 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCACAT
1 TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
* * * *** * *
505914 TGCGATTACGT-ATTCGCATTGCGATTTTTCTAATTCGCAT
1 TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
505954 TGCGATTTACGT-AATCGCAATGCGA
1 TGCGA-TTACGTAAATCGCAATGCGA
505979 TAGTCAGAAT
Statistics
Matches: 237, Mismatches: 25, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
40 48 0.20
41 187 0.79
42 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (41 bp):
TGCGATTACGTAAATCGCAATGCGAATTAGGTAAATCGCAA
Found at i:506194 original size:22 final size:22
Alignment explanation
Indices: 506149--506208 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
506139 TTCTCTTATA
* * * *
506149 TTTAATACTCATATTTATATAC
1 TTTAATACTTATATTCAAACAC
506171 TTTAATACTTATATTCAAACAC
1 TTTAATACTTATATTCAAACAC
*
506193 TTTATTACTTTATATT
1 TTTAATAC-TTATATT
506209 ATATATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAATACTTATATTCAAACAC
Found at i:507444 original size:8 final size:8
Alignment explanation
Indices: 507428--507470 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
507418 ATACATGCAT
*
507428 CATACATA
1 CATATATA
507436 CATATATA
1 CATATATA
507444 CATATATA
1 CATATATA
*
507452 -ATATATG
1 CATATATA
507459 CATATA-A
1 CATATATA
507466 CATAT
1 CATAT
507471 GTATCATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 11 0.35
8 20 0.65
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (8 bp):
CATATATA
Found at i:507470 original size:15 final size:16
Alignment explanation
Indices: 507428--507470 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
507418 ATACATGCAT
*
507428 CATACATACATATATA
1 CATATATACATATATA
*
507444 CATATATA-ATATATG
1 CATATATACATATATA
507459 CATATA-ACATAT
1 CATATATACATAT
507471 GTATCATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 16 0.67
16 7 0.29
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (16 bp):
CATATATACATATATA
Found at i:507730 original size:14 final size:14
Alignment explanation
Indices: 507713--507778 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
507703 AATATATATA
507713 TTAGGGTTTATAGT
1 TTAGGGTTTATAGT
507727 TTAGGGTTTAGT-GT
1 TTAGGGTTTA-TAGT
** * *
507741 TTATAGTTTAAATT
1 TTAGGGTTTATAGT
*
507755 TTAGGGTTTAGAGT
1 TTAGGGTTTATAGT
* *
507769 GTATGGTTTA
1 TTAGGGTTTA
507779 GGGTTTCTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
14 39 0.98
15 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTATAGT
Found at i:507757 original size:21 final size:21
Alignment explanation
Indices: 507713--507784 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
507703 AATATATATA
**
507713 TTAGGGTTTATAGTTTAGGGT
1 TTAGGGTTTATAGTTTAAAGT
* *
507734 TTAGTGTTTATAGTTTAAATT
1 TTAGGGTTTATAGTTTAAAGT
* * **
507755 TTAGGGTTTAGAGTGTATGGT
1 TTAGGGTTTATAGTTTAAAGT
507776 TTAGGGTTT
1 TTAGGGTTT
507785 CTATAAACTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (21 bp):
TTAGGGTTTATAGTTTAAAGT
Found at i:507886 original size:23 final size:24
Alignment explanation
Indices: 507858--507902 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
507848 TAATTTACTT
* *
507858 TATATAGTTTTTATATA-TATATA
1 TATATAGGTTATATATACTATATA
507881 TATATAGGTTATATATACTATA
1 TATATAGGTTATATATACTATA
507903 CATGGTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (24 bp):
TATATAGGTTATATATACTATATA
Found at i:507936 original size:13 final size:13
Alignment explanation
Indices: 507929--507963 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 13
507919 ATATTATATG
507929 AAATTATTTAATA
1 AAATTATTTAATA
507942 AAATTATTTAAATA
1 AAATTATTT-AATA
507956 TAAATTAT
1 -AAATTAT
507964 ATAGAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 4 0.20
15 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTTAATA
Found at i:507962 original size:15 final size:14
Alignment explanation
Indices: 507924--507963 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
507914 CATACATATT
507924 ATATGAAATTATTTA
1 ATAT-AAATTATTTA
507939 ATA-AAATTATTTAA
1 ATATAAATTATTT-A
507953 ATATAAATTAT
1 ATATAAATTAT
507964 ATAGAACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATATAAATTATTTA
Found at i:508481 original size:14 final size:14
Alignment explanation
Indices: 508430--508481 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
508420 GGGTTAGGGG
*
508430 TTAAGGTTAAGGAT
1 TTAAGGTTTAGGAT
* *
508444 TAAAGGTTTAGGGT
1 TTAAGGTTTAGGAT
* * *
508458 TTATGATTTAGAAT
1 TTAAGGTTTAGGAT
508472 TTAAGGTTTA
1 TTAAGGTTTA
508482 AGGTTTTTAT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (14 bp):
TTAAGGTTTAGGAT
Found at i:508811 original size:20 final size:20
Alignment explanation
Indices: 508756--508824 Score: 88
Period size: 19 Copynumber: 3.5 Consensus size: 20
508746 AAAATCTCAA
*
508756 TTCTCAATTTCCCTCCAAAT
1 TTCTCAATTTCCCTCTAAAT
* *
508776 TTTTCTA-TTCCCTCTAAAT
1 TTCTCAATTTCCCTCTAAAT
*
508795 TTCTCAATTTTCCTCTAAA-
1 TTCTCAATTTCCCTCTAAAT
508814 TTCTCAATTTC
1 TTCTCAATTTC
508825 TCTATATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 26 0.63
20 15 0.37
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (20 bp):
TTCTCAATTTCCCTCTAAAT
Found at i:508823 original size:46 final size:46
Alignment explanation
Indices: 508773--508862 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
508763 TTTCCCTCCA
* * *
508773 AATTTTTCTAT-TCCCTCTAAATTTCTCAATTTTCC-TCTAAATTCTC
1 AATTTCTCTATAT-CCTCGAAATTTCCCAA-TTTCCATCTAAATTCTC
*
508819 AATTTCTCTATATTCTCGAAATTTCCCAATTTCCATCTAAATTC
1 AATTTCTCTATATCCTCGAAATTTCCCAATTTCCATCTAAATTC
508863 CCAAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 5 0.13
46 32 0.84
47 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.01, T:0.47
Consensus pattern (46 bp):
AATTTCTCTATATCCTCGAAATTTCCCAATTTCCATCTAAATTCTC
Found at i:508833 original size:17 final size:19
Alignment explanation
Indices: 508754--508835 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 19
508744 ATAAAATCTC
* *
508754 AATTCTCAATTTCCCTCCA
1 AATTCTCAATTTTCCTCTA
* * *
508773 AATTTTTCTA-TTCCCTCTA
1 AA-TTCTCAATTTTCCTCTA
508792 AATTTCTCAATTTTCCTCTA
1 AA-TTCTCAATTTTCCTCTA
508812 AATTCTCAA-TTT-CTCTA
1 AATTCTCAATTTTCCTCTA
*
508829 TATTCTC
1 AATTCTC
508836 GAAATTTCCC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
17 11 0.20
18 3 0.06
19 25 0.46
20 15 0.28
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (19 bp):
AATTCTCAATTTTCCTCTA
Found at i:508843 original size:19 final size:17
Alignment explanation
Indices: 508787--508835 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
508777 TTTCTATTCC
508787 CTCTAAATTTCTCAATTTT
1 CTCTAAA-TTCTCAA-TTT
508806 CCTCTAAATTCTCAATTT
1 -CTCTAAATTCTCAATTT
*
508824 CTCTATATTCTC
1 CTCTAAATTCTC
508836 GAAATTTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 11 0.39
18 3 0.11
19 7 0.25
20 7 0.25
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (17 bp):
CTCTAAATTCTCAATTT
Found at i:508848 original size:27 final size:27
Alignment explanation
Indices: 508792--508851 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
508782 ATTCCCTCTA
* * *
508792 AATTTCTCAATTTTCCTCTAAATTCTC
1 AATTTCTCAATATTCCTCGAAATTCCC
*
508819 AATTTCTCTATATT-CTCGAAATTTCCC
1 AATTTCTCAATATTCCTCGAAA-TTCCC
508846 AATTTC
1 AATTTC
508852 CATCTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.47
Consensus pattern (27 bp):
AATTTCTCAATATTCCTCGAAATTCCC
Found at i:508877 original size:15 final size:15
Alignment explanation
Indices: 508857--508890 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
508847 ATTTCCATCT
*
508857 AAATTCCCAAAAAAA
1 AAATTCACAAAAAAA
*
508872 AAATTCACACAAAAA
1 AAATTCACAAAAAAA
508887 AAAT
1 AAAT
508891 CTTTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.18, G:0.00, T:0.15
Consensus pattern (15 bp):
AAATTCACAAAAAAA
Found at i:508939 original size:2 final size:2
Alignment explanation
Indices: 508932--509168 Score: 92
Period size: 2 Copynumber: 120.0 Consensus size: 2
508922 ACTTTAAATA
* *
508932 AT AT AT AT AT AT AT AT AT AC A- AT AT AT -T A- AT AT AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
508970 AT AGT TT AT AA ACT AT AT ACT -T TT AT AGT TT AT AC AT AT AT AGT
1 AT A-T AT AT AT A-T AT AT A-T AT AT AT A-T AT AT AT AT AT AT A-T
* * * * *
509014 TT AC AT AT AT AGT TT AT AT AT AT AGT -T CAT AT AA AC AT A- AT
1 AT AT AT AT AT A-T AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT
*
509055 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AGT -T AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* *
509095 A- AT -T AT AT AGT TT AT A- AT AT A- AT AT AGT TT AT AT AT AGT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T
* *
509134 TT AT AT AA ACT -T AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
509169 TTTTTCAATT
Statistics
Matches: 176, Mismatches: 30, Indels: 58
0.67 0.11 0.22
Matches are distributed among these distances:
1 16 0.09
2 149 0.85
3 11 0.06
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:508979 original size:29 final size:29
Alignment explanation
Indices: 508930--508987 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
508920 TCACTTTAAA
*
508930 TAATATATATATATATATATACAA-TATAT
1 TAATATAAATATATATATATA-AACTATAT
*
508959 TAATATAAAT-TATAGTTTATAAACTATAT
1 TAATATAAATATATA-TATATAAACTATAT
508988 ACTTTTATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (29 bp):
TAATATAAATATATATATATAAACTATAT
Found at i:509045 original size:13 final size:13
Alignment explanation
Indices: 508993--509140 Score: 83
Period size: 13 Copynumber: 11.0 Consensus size: 13
508983 TATATACTTT
508993 TATAGTTTATACATA
1 TATAGTTTAT--ATA
*
509008 TATAGTTTACATA
1 TATAGTTTATATA
509021 TATAGTTTATATA
1 TATAGTTTATATA
*
509034 TATAGTTCATATA
1 TATAGTTTATATA
** *
509047 -A-ACATAATATA
1 TATAGTTTATATA
*
509058 TATA-TATATATA
1 TATAGTTTATATA
*
509070 TATA-TATATATA
1 TATAGTTTATATA
*
509082 TAAAAGTTATAATAATTA
1 T-ATAGTT-T-AT-A-TA
509100 TATAGTTTATAATA
1 TATAGTTTAT-ATA
509114 TAATA-TAGTT-TATA
1 T-ATAGT--TTATATA
509128 TATAGTTTATATA
1 TATAGTTTATATA
509141 AACTTATATA
Statistics
Matches: 108, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
11 7 0.06
12 22 0.20
13 37 0.34
14 10 0.09
15 18 0.17
16 5 0.05
17 6 0.06
18 3 0.03
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:509124 original size:17 final size:17
Alignment explanation
Indices: 509088--509131 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
509078 TATATAAAAG
*
509088 TTATAATAATTATATAGT
1 TTATAAT-ATAATATAGT
509106 TTATAATATAATATAGT
1 TTATAATATAATATAGT
509123 TTAT-ATATA
1 TTATAATATA
509132 GTTTATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.20
17 13 0.52
18 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TTATAATATAATATAGT
Found at i:509148 original size:28 final size:27
Alignment explanation
Indices: 508929--509160 Score: 105
Period size: 28 Copynumber: 8.7 Consensus size: 27
508919 CTCACTTTAA
* *
508929 ATAATATATATATATATA-TATACAAT
1 ATAATATATATATATATAGTTTATAAT
* *
508955 ATATTA-ATATAAATTATAGTTTATAA-
1 ATAATATATATATA-TATAGTTTATAAT
508981 ACT-ATATACT-T-T-TATAGTTTATACAT
1 A-TAATATA-TATATATATAGTTTATA-AT
* *
509007 AT-ATAGTTTACATATATAGTTTATATAT
1 ATAATA-TATATATATATAGTTTATA-AT
* * * * *
509035 ATAGT-TCATATAAACATAATATAT-AT
1 ATAATAT-ATATATATATAGTTTATAAT
* *
509061 AT-ATATATATATATATA-TATATAAA
1 ATAATATATATATATATAGTTTATAAT
*
509086 AGTTATA-ATA-ATTATATAGTTTATAAT
1 A-TAATATATATA-TATATAGTTTATAAT
* *
509113 ATAATATAGTTTATATATAGTTTATATAA
1 ATAATATA-TATATATATAGTTTATA-AT
*
509142 ACTTATATATATATATATA
1 A-TAATATATATATATATA
509161 TATTATATTT
Statistics
Matches: 155, Mismatches: 27, Indels: 45
0.68 0.12 0.20
Matches are distributed among these distances:
24 16 0.10
25 25 0.16
26 33 0.21
27 21 0.14
28 41 0.26
29 13 0.08
30 6 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (27 bp):
ATAATATATATATATATAGTTTATAAT
Found at i:511524 original size:20 final size:20
Alignment explanation
Indices: 511501--511539 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
511491 AATTAATAAT
* *
511501 ATATCCCATTCTAAAATATC
1 ATATCACATACTAAAATATC
*
511521 ATATCATATACTAAAATAT
1 ATATCACATACTAAAATAT
511540 TAAAAACTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATCACATACTAAAATATC
Found at i:511572 original size:53 final size:54
Alignment explanation
Indices: 511459--511572 Score: 124
Period size: 53 Copynumber: 2.1 Consensus size: 54
511449 ATTTTAATAC
* * * * *
511459 TAATATCTAATATCATATACTACAACATTAAAAATTAATAATATATCCCATTCTA
1 TAATATC-AATATCATATACTAAAACATTAAAAACTAATAATAAAGCCCATCCTA
* * *
511514 AAATATC-ATATCATATACTAAAATATTAAAAACTAATATTAAAGCCCA-CCATA
1 TAATATCAATATCATATACTAAAACATTAAAAACTAATAATAAAGCCCATCC-TA
511567 TAATAT
1 TAATAT
511573 GTACATTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
52 1 0.02
53 42 0.86
55 6 0.12
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (54 bp):
TAATATCAATATCATATACTAAAACATTAAAAACTAATAATAAAGCCCATCCTA
Found at i:511607 original size:38 final size:40
Alignment explanation
Indices: 511565--511646 Score: 107
Period size: 38 Copynumber: 2.1 Consensus size: 40
511555 AAGCCCACCA
* * *
511565 TATAATATGTACAT-TAAACTATTTATTAAAAATG-TTT-T
1 TATAATATATACATCAAAACT-TATATTAAAAATGATTTAT
511603 TATAATATATACATCAAAACTTATATTAAAAATGATTTAT
1 TATAATATATACATCAAAACTTATATTAAAAATGATTTAT
511643 TATA
1 TATA
511647 TAATGTCACC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 25 0.66
39 8 0.21
40 5 0.13
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (40 bp):
TATAATATATACATCAAAACTTATATTAAAAATGATTTAT
Found at i:514255 original size:123 final size:123
Alignment explanation
Indices: 514112--514341 Score: 338
Period size: 123 Copynumber: 1.9 Consensus size: 123
514102 TATTTATATA
* * * **
514112 ATCAATTTGGTCTTAAATTAAATATAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACTAGGATCTGAC-TGAA
* *
514177 TTAGCACATGATCA-GACACGTGTCATTGGTGACACATGTCACCTATTATTATATATGCT
65 TTAACACA-GATCATGACACATGTCATTGGTGACACATGTCACCTATTATTATATATGCT
514236 ATCAA-TTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACTAGGATCTGACTGAAT
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACTAGGATCTGACTGAAT
* * *
514300 TAACACAGATCATGATATATGTTATTGGTGACACATGTCACC
66 TAACACAGATCATGACACATGTCATTGGTGACACATGTCACC
514342 ACCTAATTAG
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
121 5 0.05
122 34 0.36
123 51 0.54
124 5 0.05
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (123 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACTAGGATCTGACTGAAT
TAACACAGATCATGACACATGTCATTGGTGACACATGTCACCTATTATTATATATGCT
Found at i:514836 original size:16 final size:18
Alignment explanation
Indices: 514815--514848 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
514805 ATTTCGTATT
514815 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
514831 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
514849 TAAATTAATA
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:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:515182 original size:19 final size:19
Alignment explanation
Indices: 515158--515197 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
515148 TTACCCTAAT
515158 TTTCTAACAGTGATTTAAG
1 TTTCTAACAGTGATTTAAG
*
515177 TTTCTAACCGTGATTTAAG
1 TTTCTAACAGTGATTTAAG
515196 TT
1 TT
515198 GGGGACCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TTTCTAACAGTGATTTAAG
Found at i:516518 original size:35 final size:35
Alignment explanation
Indices: 516472--516542 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
516462 CTCTGATCAG
*
516472 TTCGAGAAGATATGCTCAGGTGTATACATGACCTC
1 TTCGAGAAGATATGCTCAGGTGCATACATGACCTC
* *
516507 TTCGAGAAGATATGCTCGGGTGCATACATGATCTC
1 TTCGAGAAGATATGCTCAGGTGCATACATGACCTC
516542 T
1 T
516543 CCAATCCGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (35 bp):
TTCGAGAAGATATGCTCAGGTGCATACATGACCTC
Found at i:520088 original size:34 final size:36
Alignment explanation
Indices: 520031--520108 Score: 133
Period size: 34 Copynumber: 2.2 Consensus size: 36
520021 CTTTTGAAAG
520031 TCACTTTTAATTTTTTTTCTACAACACCTTTAAAAT
1 TCACTTTTAATTTTTTTTCTACAACACCTTTAAAAT
*
520067 TTACTTTTAA-TTTTTTT-TACAACACCTTTAAAAT
1 TCACTTTTAATTTTTTTTCTACAACACCTTTAAAAT
520101 TCACTTTT
1 TCACTTTT
520109 TAAAACTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 24 0.60
35 7 0.17
36 9 0.22
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (36 bp):
TCACTTTTAATTTTTTTTCTACAACACCTTTAAAAT
Found at i:520381 original size:16 final size:16
Alignment explanation
Indices: 520311--520459 Score: 65
Period size: 16 Copynumber: 9.4 Consensus size: 16
520301 TTTCAGTTGG
* *
520311 ACCGAAAGCAACCCGA
1 ACCGAAAGTAACTCGA
* *
520327 ACCAAAAGCAAC-CTGA
1 ACCGAAAGTAACTC-GA
*
520343 ACCGAAAATAA-TCCGA
1 ACCGAAAGTAACT-CGA
*
520359 ATCGAAAGTAACTCGA
1 ACCGAAAGTAACTCGA
* * *
520375 ACTGAAA--AACCCAA
1 ACCGAAAGTAACTCGA
*** * *
520389 ATAAAAAATAACCCGA
1 ACCGAAAGTAACTCGA
* *
520405 ACCGAAAGCAACTTGA
1 ACCGAAAGTAACTCGA
*
520421 ACCGAAAATAA-TCCGA
1 ACCGAAAGTAACT-CGA
*
520437 ACCAAAAGTAACTCGA
1 ACCGAAAGTAACTCGA
*
520453 ACTGAAA
1 ACCGAAA
520460 AACCCAAATC
Statistics
Matches: 97, Mismatches: 28, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
14 9 0.09
15 2 0.02
16 83 0.86
17 3 0.03
ACGTcount: A:0.50, C:0.26, G:0.13, T:0.11
Consensus pattern (16 bp):
ACCGAAAGTAACTCGA
Found at i:520414 original size:78 final size:78
Alignment explanation
Indices: 520320--520495 Score: 280
Period size: 78 Copynumber: 2.3 Consensus size: 78
520310 GACCGAAAGC
* *
520320 AACCCGAACCAAAAGCAACCTGAACCGAAAATAATCCGAATCGAAAGTAACTCGAACTGAAAAAC
1 AACCCGAACCAAAAGCAACCTGAACCGAAAATAATCCGAACCAAAAGTAACTCGAACTGAAAAAC
520385 CCAAATAAAAAAT
66 CCAAATAAAAAAT
* *
520398 AACCCGAACCGAAAGCAACTTGAACCGAAAATAATCCGAACCAAAAGTAACTCGAACTGAAAAAC
1 AACCCGAACCAAAAGCAACCTGAACCGAAAATAATCCGAACCAAAAGTAACTCGAACTGAAAAAC
* *
520463 CCAAATCAAAATT
66 CCAAATAAAAAAT
* *
520476 AACCCGAATCTAAAGCAACC
1 AACCCGAACCAAAAGCAACC
520496 CGAATTTAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 89 1.00
ACGTcount: A:0.51, C:0.26, G:0.11, T:0.12
Consensus pattern (78 bp):
AACCCGAACCAAAAGCAACCTGAACCGAAAATAATCCGAACCAAAAGTAACTCGAACTGAAAAAC
CCAAATAAAAAAT
Found at i:520429 original size:32 final size:32
Alignment explanation
Indices: 520393--520460 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
520383 ACCCAAATAA
* *
520393 AAAATAACCCGAACCGAAAGCAACTTGAACCG
1 AAAATAACCCGAACCAAAAGCAACTCGAACCG
* * *
520425 AAAATAATCCGAACCAAAAGTAACTCGAACTG
1 AAAATAACCCGAACCAAAAGCAACTCGAACCG
520457 AAAA
1 AAAA
520461 ACCCAAATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.51, C:0.24, G:0.13, T:0.12
Consensus pattern (32 bp):
AAAATAACCCGAACCAAAAGCAACTCGAACCG
Found at i:521024 original size:20 final size:20
Alignment explanation
Indices: 520963--521013 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
520953 GATTGACCTA
520963 AAAATCTAAAGGCTAACCCG
1 AAAATCTAAAGGCTAACCCG
520983 AAAATCTAAAGGCTAACCCG
1 AAAATCTAAAGGCTAACCCG
521003 AAAATCTAAAG
1 AAAATCTAAAG
521014 ACTGACTCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.49, C:0.22, G:0.14, T:0.16
Consensus pattern (20 bp):
AAAATCTAAAGGCTAACCCG
Found at i:521111 original size:31 final size:31
Alignment explanation
Indices: 521073--521133 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
521063 TACTCGAACC
*
521073 GAAGCCAACCAATCCAATATTGACCCGACCT
1 GAAGCCAACCAATCCAATATTAACCCGACCT
*
521104 GAAGCCAACTAATCCAATATTAACCCGACC
1 GAAGCCAACCAATCCAATATTAACCCGACC
521134 CGAAATCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.34, G:0.11, T:0.16
Consensus pattern (31 bp):
GAAGCCAACCAATCCAATATTAACCCGACCT
Found at i:521521 original size:20 final size:21
Alignment explanation
Indices: 521421--521521 Score: 77
Period size: 20 Copynumber: 5.0 Consensus size: 21
521411 ACACAGGTTC
*
521421 CAAATTTGCAACGCGAATTTG
1 CAAATTCGCAACGCGAATTTG
* * *
521442 TAAA-TCACAACGCGAGTTTG
1 CAAATTCGCAACGCGAATTTG
* *
521462 TAAA-TCGCAACGCAGAA-GT-
1 CAAATTCGCAACGC-GAATTTG
* *
521481 CAAATTTGCAACACGGAATTT-
1 CAAATTCGCAACGC-GAATTTG
521502 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
521522 ATTTTTCATA
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.05
20 42 0.67
21 18 0.29
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (21 bp):
CAAATTCGCAACGCGAATTTG
Found at i:521631 original size:20 final size:18
Alignment explanation
Indices: 521606--521652 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
521596 GATTTTCGAA
521606 TTCGCAACATGAATTTTAAT
1 TTCGCAACA-G-ATTTTAAT
* *
521626 TTCGCAACAGCTTTTATT
1 TTCGCAACAGATTTTAAT
521644 TTCGCAACA
1 TTCGCAACA
521653 CAAATGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.60
19 1 0.04
20 9 0.36
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (18 bp):
TTCGCAACAGATTTTAAT
Found at i:522610 original size:24 final size:24
Alignment explanation
Indices: 522578--522631 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
522568 GTATTCAAAA
522578 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
522602 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
522626 TTTGAT
1 TTTGAT
522632 GATGTTTCAG
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:524934 original size:18 final size:18
Alignment explanation
Indices: 524911--524946 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
524901 AAGCAAAAGG
*
524911 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
*
524929 AAATCAAAGTCCCAATCA
1 AAATCAAAATCCCAATCA
524947 CTATCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.25, G:0.06, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:525227 original size:16 final size:16
Alignment explanation
Indices: 525206--525236 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
525196 TGCAGATTGA
*
525206 AATTAAACAACAAATC
1 AATTAAACAAAAAATC
525222 AATTAAACAAAAAAT
1 AATTAAACAAAAAAT
525237 AATAATTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (16 bp):
AATTAAACAAAAAATC
Found at i:525502 original size:30 final size:31
Alignment explanation
Indices: 525454--525512 Score: 111
Period size: 30 Copynumber: 1.9 Consensus size: 31
525444 TTAACCAAAC
525454 ATTTTCAAACCAACAAGTATATATGTTAAAT
1 ATTTTCAAACCAACAAGTATATATGTTAAAT
525485 ATTTTCAAACC-ACAAGTATATATGTTAA
1 ATTTTCAAACCAACAAGTATATATGTTAA
525513 CAACACTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 17 0.61
31 11 0.39
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (31 bp):
ATTTTCAAACCAACAAGTATATATGTTAAAT
Found at i:526690 original size:21 final size:21
Alignment explanation
Indices: 526666--526718 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
526656 TGAATCGGGA
* * *
526666 TCTTGAACGGTGGGAGGGACT
1 TCTTGAACGATAGGAGGGACC
*
526687 TCTTGAACGATAGGAGGGGCC
1 TCTTGAACGATAGGAGGGACC
526708 TCTTGAACGAT
1 TCTTGAACGAT
526719 GACAAGTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.25
Consensus pattern (21 bp):
TCTTGAACGATAGGAGGGACC
Found at i:527102 original size:21 final size:22
Alignment explanation
Indices: 527015--527197 Score: 89
Period size: 21 Copynumber: 8.7 Consensus size: 22
527005 GTAGAGCGGC
*
527015 TACCTCATCACGTAAAGTA--G
1 TACCTCATCACGTAAAGCACCG
* *
527035 ATACCTCACCACGTAAAGCACCA
1 -TACCTCATCACGTAAAGCACCG
** * * *
527058 T-TGTCATCGCGTAAAACATC-
1 TACCTCATCACGTAAAGCACCG
527078 TACCTCATCACGTAAAG-ACCG
1 TACCTCATCACGTAAAGCACCG
* * *
527099 TACCTCATCACGTCATGCACCA
1 TACCTCATCACGTAAAGCACCG
** * * *
527121 T-TTTCGTCACGGAAAGTA-C-
1 TACCTCATCACGTAAAGCACCG
* *
527140 TAACCTCATCACGCAAAGCACTG
1 T-ACCTCATCACGTAAAGCACCG
* **
527163 -ACCTCATCACGCAAAGCATTG
1 TACCTCATCACGTAAAGCACCG
527184 -ACCTCATCACGTAA
1 TACCTCATCACGTAA
527198 CTCCCTTAAC
Statistics
Matches: 121, Mismatches: 32, Indels: 18
0.71 0.19 0.11
Matches are distributed among these distances:
19 1 0.01
20 4 0.03
21 111 0.92
22 5 0.04
ACGTcount: A:0.33, C:0.32, G:0.13, T:0.22
Consensus pattern (22 bp):
TACCTCATCACGTAAAGCACCG
Found at i:527373 original size:42 final size:42
Alignment explanation
Indices: 527314--527412 Score: 162
Period size: 42 Copynumber: 2.4 Consensus size: 42
527304 GTGATGGAAT
* * *
527314 AGGTGATGGCTCTCGGTGTGGAGGTGTATAATCAGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCAGCTCGATC
*
527356 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCAGCTCGATC
527398 AGGTGATGGCTCTCG
1 AGGTGATGGCTCTCG
527413 AAGTGGGAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.27
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCAGCTCGATC
Done.