Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_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: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 26
Found at i:7249 original size:182 final size:182
Alignment explanation
Indices: 6501--9006 Score: 4348
Period size: 182 Copynumber: 13.9 Consensus size: 182
6491 GTAAAGCGCT
*
6501 AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG-AGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
* *
6565 CCAATAAAGTTTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* *
6630 ACAAAACCGATCTCGAAATGACAAAACAGGTAAAGCGCTATCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
*
6682 AAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA-TTAATA-AG-AGAAGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
* *
6742 TCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* *
6807 ACAAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTACCAGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* *
6859 AAAGTGTCGATAA-TT-TTATAAGTATCGAAACTTTTGGAATTCAAAAGAGAAGAAGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
* * * *
6922 CCAATAAAGTGTCTATATTTTATAAAAATGTATCGATCCATAATAATAT-ACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* *
6986 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
7038 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
7103 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* *
7168 ACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCAGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
*
7220 AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
*
7285 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
*
7350 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTCCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
*
7402 AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG-AGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
7466 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
*
7531 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTA
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
7583 AAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGC
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGC
*
7645 GCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
65 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
*
7710 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGATACCGGTTATGTTG
130 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* * * *
7763 AAAGTGTCGATAATTTGTCATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
*
7828 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
*
7893 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* *
7945 AAAGTGTCGATAATTTATTATAAGTTTTGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
8010 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
8075 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* * *
8127 AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAATAGAAGAAGTTATAGTG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
*
8192 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
*
8257 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTCCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
*
8309 AAAGTGTCGATAATTTATTATATGTATCGACACTTTTGGAATTTAAAAGAGAAG-AGTTATAGCG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
8373 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* *
8438 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAGGCACTACCGGTTATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
*
8490 AAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA-TTAATAAGAGAAGAAGTTATATC
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGC
* *
8552 GCCAATAACGTGTCGATACTTTATCAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
65 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
8617 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
130 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
* *
8670 AAAGTGTTGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGAG
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
*
8735 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* * *
8800 ACAAAACTGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTG
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
8852 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGC
1 AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGC
*
8916 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAA-TATATAACATGTAAAAATAT
65 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATAT
* **
8980 GATAAAACCGGTCTATAAATGACAAAA
130 GACAAAACCGGTCTCGAAATGACAAAA
9007 GGTGAATGCA
Statistics
Matches: 2208, Mismatches: 97, Indels: 40
0.94 0.04 0.02
Matches are distributed among these distances:
175 12 0.01
176 4 0.00
177 144 0.07
178 17 0.01
179 123 0.06
180 360 0.16
181 467 0.21
182 1074 0.49
183 7 0.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG
CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTG
Found at i:7633 original size:543 final size:545
Alignment explanation
Indices: 6374--9006 Score: 4430
Period size: 543 Copynumber: 4.9 Consensus size: 545
6364 TTTTACCTTT
* **
6374 TTTAAAAGAGAAGAAGTTATATCATCAATAAAGTGTCGATACTTTAT-AAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
6438 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCG----
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
6499 C--------T-AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTGGAATTTAAAAGAGAAG
* *
6555 -AGTTATAGCGCCAATAAAGTTTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAT
195 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
* *
6619 GTAAAAATATGACAAAACCGATCTCGAAATGACAAAACAGGTAAAGCGCTATCGGTTATGTTGAA
260 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
* *
6684 AGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA-TTAATA-AG-AGAAGTTATAGCGTC
325 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCC
*
6744 AATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
390 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
* *
6809 AAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTACCAGTTATGTTGAAAGTGTCGATAA-T
455 AAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATT
*
6873 T-TTATAAGTATCGAAACTTTTGGAA
520 TATTATAAGTATCGACACTTTTGGAA
* * *
6898 TTCAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCTATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
6963 AATAATAT-ACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGTGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
7027 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTGGAATTTAAAAGAGAAG
7092 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
195 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
* *
7157 GTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCAGTTATGTTGAA
260 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
*
7222 AGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCC
325 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCC
*
7287 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC
390 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
*
7352 AAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTCCGGTTATGTTGAAAGTGTCGATAATT
455 AAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATT
*
7417 TATTATACGTATCGACACTTTTGGAA
520 TATTATAAGTATCGACACTTTTGGAA
7443 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
7507 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
7572 CGGTTATGTTAAAAGTGTCGATAATTTATTATAAGTATCG-ACTTTTGGAA-TTAATAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTGGAATTTAA-AAGAGAAG
*
7635 AAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
195 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
*
7700 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGATACCGGTTATGTTGAA
260 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
* * * *
7765 AGTGTCGATAATTTGTCATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCC
325 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCC
*
7830 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC
390 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
*
7895 AAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATT
455 AAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATT
* *
7960 TATTATAAGTTTTGACACTTTTGGAA
520 TATTATAAGTATCGACACTTTTGGAA
7986 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
8051 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
8116 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAATAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTGGAATTTAAAAGAGAAG
* *
8181 AAGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
195 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
*
8246 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTCCGGTTATGTTGAA
260 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
*
8311 AGTGTCGATAATTTATTATATGTATCGACACTTTTGGAATTTAAAAGAGAAG-AGTTATAGCGCC
325 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCC
8375 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
390 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
* *
8440 AAAACCGGTCTCGAAATGACAAAACAGGTAAGGCACTACCGGTTATGTTGAAAGTGTCGATAATT
455 AAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATT
8505 TATTATAAGTATCG--ACTTTTGGAA
520 TATTATAAGTATCGACACTTTTGGAA
* * *
8529 -TTAATAAGAGAAGAAGTTATATCGCCAATAACGTGTCGATACTTTATCAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
8593 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
*
8658 CCGGTTATGTTGAAAGTGTTGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTGGAATTTAAAAGAGAA
*
8723 GAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
194 GAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
* * * *
8788 GGTAAAAATATGACAAAACTGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGA
259 TGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGA
8853 AAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGCG
324 AAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGCG
*
8917 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAA-TATATAACATGTAAAAATATG
388 CCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* **
8981 ATAAAACCGGTCTATAAATGACAAAA
453 ACAAAACCGGTCTCGAAATGACAAAA
9007 GGTGAATGCA
Statistics
Matches: 1995, Mismatches: 83, Indels: 43
0.94 0.04 0.02
Matches are distributed among these distances:
524 91 0.05
525 24 0.01
528 1 0.00
536 1 0.00
537 53 0.03
538 149 0.07
540 10 0.01
541 5 0.00
542 14 0.01
543 913 0.46
544 265 0.13
545 275 0.14
546 190 0.10
547 4 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (545 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTGGAATTTAAAAGAGAAGA
AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAA
GTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCA
ATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACA
AAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTT
ATTATAAGTATCGACACTTTTGGAA
Found at i:8248 original size:907 final size:905
Alignment explanation
Indices: 6374--9006 Score: 4736
Period size: 907 Copynumber: 2.9 Consensus size: 905
6364 TTTTACCTTT
6374 TTTAAAAGAGAAGAAGTTATA-T-CATCAATAAAGTGTCGATACTTTAT-AAAATGTATCGATCC
1 TTTAAAAGAGAAGAAGTTATAGTGC--CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCC
*
6436 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCG--
64 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCT
6499 --C--------T-AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGA
129 TCCGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGA
* *
6553 AGAGTTATAGCGCCAATAAAGTTTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACA
194 AGAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
* *
6618 TGTAAAAATATGACAAAACCGATCTCGAAATGACAAAACAGGTAAAGCGCTATCGGTTATGTTGA
259 TGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGA
*
6683 AAGTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAAT-A-AG-AGAAGTTATAGCGTCA
324 AAGTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCA
6745 ATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACA
389 ATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACA
* *
6810 AAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTACCAGTTATGTTGAAAGTGTCGATAATTT
454 AAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTT
* * * *
6875 TATAAGTATCGAAACTTTTGGAATTCAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCTATAT
519 TATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
*
6940 TTTATAAAAATGTATCGATCCATAATAATAT-ACAGGTAAAAATATGACAAAACCGGTCTCGAAA
584 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAA
*
7004 TGACAAAACAGGTAAAGTGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAC
649 TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAC
7069 ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGT
714 ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGT
7134 ATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGT
779 ATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGT
7199 AAAGCGCTACCAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
844 AAAGCGCTACCAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
*
7261 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
7326 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
7391 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
7456 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
196 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
*
7521 TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTAAAA
261 TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAA
7586 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
7651 AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
391 AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
*
7716 ACCGGTCTCGAAATGACAAAACAGGTAAAGCGATACCGGTTATGTTGAAAGTGTCGATAATTTGT
456 ACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTT-T
7781 CATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
520 -ATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
7846 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAA
584 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAA
* *
7911 TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTTTTGAC
649 TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAC
7976 ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGT
714 ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGT
*
8041 ATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGT
779 ATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGT
*
8106 AAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
844 AAAGCGCTACCAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
*
8168 TTTAAAATAGAAGAAGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
8233 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
*
8298 CGGTTATGTTGAAAGTGTCGATAATTTATTATATGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
8363 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
196 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
* *
8428 TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAGGCACTACCGGTTATGTTGAAA
261 TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAA
*
8493 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATATCGCCAAT
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
*
8558 AACGTGTCGATACTTTATCAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
391 AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
*
8623 ACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTTGATAATTTAT
456 ACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAA-TT-T
*
8688 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
519 TATAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATAC
*
8753 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACTGGTCTCGAAA
584 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAA
*
8818 TGACAAAACAGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAC
649 TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAC
8883 ACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
714 ACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
* *
8947 TATCGATCCATAA-TATATAACATGTAAAAATATGATAAAACCGGTCT-ATAAATGACAAAA
778 TATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCA-AAATGACAAAA
9007 GGTGAATGCA
Statistics
Matches: 1681, Mismatches: 39, Indels: 33
0.96 0.02 0.02
Matches are distributed among these distances:
887 43 0.03
888 77 0.05
889 1 0.00
892 1 0.00
900 1 0.00
901 220 0.13
902 1 0.00
903 2 0.00
904 142 0.08
905 1 0.00
906 137 0.08
907 1051 0.63
908 3 0.00
909 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (905 bp):
TTTAAAAGAGAAGAAGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTTC
CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAA
GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
ACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTTA
TAAGTATCGACACTTTTGGAATTCAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATACTT
TATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATG
ACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACAC
TTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTAT
CGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAA
AGCGCTACCAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
Found at i:9189 original size:23 final size:23
Alignment explanation
Indices: 9133--9189 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
9123 TTACTTATAA
*
9133 AATAGGTTAATATAAGCGCTACCT
1 AATACGTT-ATATAAGCGCTACCT
* *
9157 ATTACATTATATAAGCGCTACCT
1 AATACGTTATATAAGCGCTACCT
*
9180 AATATGTTAT
1 AATACGTTAT
9190 TGTACTTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (23 bp):
AATACGTTATATAAGCGCTACCT
Found at i:12491 original size:15 final size:17
Alignment explanation
Indices: 12473--12509 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
12463 ATATTTCCAT
12473 AAATTATA-TTTAAAA-
1 AAATTATACTTTAAAAC
12488 AAA-TATACTTTAAAAC
1 AAATTATACTTTAAAAC
12504 AAATTA
1 AAATTA
12510 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 10 0.53
16 3 0.16
17 2 0.11
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTATACTTTAAAAC
Found at i:14749 original size:27 final size:27
Alignment explanation
Indices: 14722--14774 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
14712 CTAATATTTA
14722 TCATCATATAATAGTTATATAAAATTAT
1 TCATCATATAATAG-TATATAAAATTAT
*
14750 TTATCATATAATAGTATATAAAATT
1 TCATCATATAATAGTATATAAAATT
14775 TAAGATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (27 bp):
TCATCATATAATAGTATATAAAATTAT
Found at i:15336 original size:20 final size:21
Alignment explanation
Indices: 15311--15444 Score: 130
Period size: 21 Copynumber: 6.5 Consensus size: 21
15301 TTTTCCCAAT
*
15311 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
15331 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
15352 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
15372 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
* *
15393 TCGCAATGTGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
15413 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
15434 TCGCAATGCGA
1 TCGCAATGCGA
15445 TACTTACTAT
Statistics
Matches: 88, Mismatches: 23, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
20 42 0.48
21 46 0.52
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:15458 original size:20 final size:20
Alignment explanation
Indices: 15433--15526 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
15423 AATTGGGAAA
*
15433 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
15453 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
15474 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
15494 TTCACAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
15514 TTCGCAACGCGAT
1 ATCGCAACGCGAT
15527 TTACATAATC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 42 0.70
21 12 0.20
22 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:15459 original size:41 final size:41
Alignment explanation
Indices: 15311--15444 Score: 259
Period size: 41 Copynumber: 3.3 Consensus size: 41
15301 TTTTCCCAAT
15311 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
15352 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
15393 TCGCAATGTGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
15434 TCGCAATGCGA
1 TCGCAATGCGA
15445 TACTTACTAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:15475 original size:41 final size:41
Alignment explanation
Indices: 15430--15507 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
15420 GCGAATTGGG
* * * *
15430 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTTACTATCACAACGCGATAATAC
*
15471 AAAATCGCAACGAGATACTTACTTTCACAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCACAACGCGATA
15508 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCACAACGCGATAATAC
Found at i:15475 original size:82 final size:82
Alignment explanation
Indices: 15311--15480 Score: 236
Period size: 82 Copynumber: 2.1 Consensus size: 82
15301 TTTTCCCAAT
15311 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAATCGC
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAATCGC
* **
15376 AACGCGAATTGGGAAAA
66 AACGCGAAATGACAAAA
* ** *
15393 TCGCAATGTGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACTATCG
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-AATCG
*
15457 CAATGCGATAAT-ACAAAA
65 CAACGCGA-AATGACAAAA
15475 TCGCAA
1 TCGCAA
15481 CGAGATACTT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 5 0.06
82 71 0.91
83 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (82 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAATCGC
AACGCGAAATGACAAAA
Found at i:15742 original size:22 final size:22
Alignment explanation
Indices: 15714--15757 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15704 CACTCTCTCA
15714 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
15736 CCCATCTCTGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
15758 TATCTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:16046 original size:20 final size:20
Alignment explanation
Indices: 16021--16058 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16011 CGATTCTCTC
16021 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
16041 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
16059 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:17399 original size:18 final size:18
Alignment explanation
Indices: 17378--17422 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
17368 TCCACTTCGG
* *
17378 GAGCCATCACCTCGCCCA
1 GAGCCATCACCCCACCCA
*
17396 GAGCTATCACCCCACCCA
1 GAGCCATCACCCCACCCA
17414 GAGCCATCA
1 GAGCCATCA
17423 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.47, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCCCACCCA
Found at i:17968 original size:14 final size:14
Alignment explanation
Indices: 17949--18006 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
17939 ATGCGAAATG
17949 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
17963 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
17979 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
17995 AAAATCGCAACG
1 AAAATCGCAACG
18007 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:17991 original size:32 final size:33
Alignment explanation
Indices: 17933--18023 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
17923 GGAAATGGCT
*
17933 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
17966 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
17998 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
18024 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:18017 original size:19 final size:19
Alignment explanation
Indices: 17895--18028 Score: 92
Period size: 19 Copynumber: 7.6 Consensus size: 19
17885 TAGTTTACTT
* **
17895 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
17914 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
17934 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
17953 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
17967 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
17985 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
17999 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
18018 TCGCAATGCGA
1 TCGCAACGCGA
18029 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 35 0.38
20 17 0.18
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:18080 original size:19 final size:19
Alignment explanation
Indices: 18065--18120 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
18055 GTTGCGATTT
*
18065 TCATTTCGCATTGCGATAG
1 TCATTTCGTATTGCGATAG
*
18084 CCATTTCCGTATTGCGATAG
1 TCATTT-CGTATTGCGATAG
*
18104 TCATTTCGTGTTGCGAT
1 TCATTTCGTATTGCGAT
18121 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (19 bp):
TCATTTCGTATTGCGATAG
Found at i:20143 original size:19 final size:19
Alignment explanation
Indices: 20113--20266 Score: 211
Period size: 19 Copynumber: 8.6 Consensus size: 19
20103 AAAACAGACT
* *
20113 ATCGCAACGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
*
20132 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
20151 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
20170 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
20189 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
20208 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
20222 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
20241 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
20255 ATCGCAATGCGA
1 ATCGCAATGCGA
20267 TTTTCATTTC
Statistics
Matches: 123, Mismatches: 4, Indels: 18
0.85 0.03 0.12
Matches are distributed among these distances:
14 22 0.18
15 2 0.02
16 4 0.03
17 4 0.03
18 1 0.01
19 90 0.73
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:20254 original size:14 final size:14
Alignment explanation
Indices: 20204--20261 Score: 71
Period size: 14 Copynumber: 3.8 Consensus size: 14
20194 AATGCGAAAT
20204 GAAAATCGCAACGA
1 GAAAATCGCAACGA
20218 GAAAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
20236 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
20251 GAAAATCGCAA
1 GAAAATCGCAA
20262 TGCGATTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 22 0.56
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 11 0.28
ACGTcount: A:0.50, C:0.19, G:0.21, T:0.10
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:20279 original size:33 final size:33
Alignment explanation
Indices: 20147--20266 Score: 195
Period size: 33 Copynumber: 3.5 Consensus size: 33
20137 AATGCGAAAT
20147 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
1 GAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A
20184 TGAAAATCGCAATGCGAAATGAAAATCGCAACGA
1 -GAAAATCGCAATGCGAAATGAAAATCGCAACGA
20218 GAAAATCGCAATGCGAAATGAAAATCGCAACGA
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGA
20251 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
20267 TTTTCATTTC
Statistics
Matches: 82, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
33 49 0.60
34 1 0.01
36 2 0.02
38 30 0.37
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.13
Consensus pattern (33 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAACGA
Found at i:20342 original size:20 final size:20
Alignment explanation
Indices: 20285--20342 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
20275 TCGCATTGCG
* *
20285 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
20305 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
20325 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
20343 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:21345 original size:24 final size:24
Alignment explanation
Indices: 21318--21371 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
21308 GTATTCGAAA
* *
21318 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
21342 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
21366 TTTGAT
1 TTTGAT
21372 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:23864 original size:19 final size:19
Alignment explanation
Indices: 23842--23972 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
23832 GGAAATTACT
23842 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
23861 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
23875 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
23894 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
23908 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
23927 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
23941 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
23960 ATCGCAACGCGAA
1 ATCGCAATGCGAA
23973 TTTAATTTTG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:23884 original size:33 final size:33
Alignment explanation
Indices: 23842--23968 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
23832 GGAAATTACT
23842 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
23875 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
23907 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
23941 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
23969 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:23949 original size:66 final size:66
Alignment explanation
Indices: 23843--23975 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
23833 GAAATTACTA
*
23843 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
23908 T
66 T
*
23909 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
23974 T
66 T
23975 T
1 T
23976 AATTTTGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:23990 original size:19 final size:20
Alignment explanation
Indices: 23968--24010 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
23958 AAATCGCAAC
23968 GCGAATTTAATTTT-GCGTT
1 GCGAATTTAATTTTCGCGTT
* *
23987 GCGATTTTCATTTTCGCGTT
1 GCGAATTTAATTTTCGCGTT
24007 GCGA
1 GCGA
24011 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (20 bp):
GCGAATTTAATTTTCGCGTT
Found at i:24171 original size:14 final size:14
Alignment explanation
Indices: 24152--24188 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
24142 CATCAATTAA
24152 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
24166 ACAAATCACCTTTT
1 ACAAATCAACTTTT
24180 ACAAATCAA
1 ACAAATCAA
24189 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:25611 original size:21 final size:21
Alignment explanation
Indices: 25545--25611 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
25535 GTGAATCGGG
*
25545 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
25565 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
25587 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
25608 CTCT
1 CTCT
25612 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:25630 original size:42 final size:41
Alignment explanation
Indices: 25545--25667 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
25535 GTGAATCGGG
* * * * *
25545 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
25587 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
25629 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
25668 CAAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:27750 original size:33 final size:33
Alignment explanation
Indices: 27693--27791 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
27683 ACGAGATAAT
*
27693 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
27727 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
27760 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
27792 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:27785 original size:19 final size:19
Alignment explanation
Indices: 27668--27833 Score: 127
Period size: 20 Copynumber: 9.1 Consensus size: 19
27658 TCTTTTGGTT
* *
27668 GAAATGAAAATCACAACGA
1 GAAATGAAAATCGCAACGC
*
27687 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
27707 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
27725 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
27741 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
27759 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
27774 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
27794 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
27813 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
27832 GA
1 GA
27834 TTTTGGTTTC
Statistics
Matches: 118, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 2 0.02
17 1 0.01
18 4 0.03
19 43 0.36
20 44 0.37
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:27862 original size:19 final size:19
Alignment explanation
Indices: 27829--27895 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
27819 AAAATCGCAA
**
27829 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
27848 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
27867 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
27887 TGCGATTTT
1 TGCGATTTT
27896 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:28445 original size:20 final size:20
Alignment explanation
Indices: 28417--28509 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 20
28407 CGCTATGTAA
* *
28417 ATCGTGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
28437 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
* *** * *
28457 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-AAGTAAGT
* *
28478 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
28498 ATCGCATTGCGA
1 ATCGCGTTGCGA
28510 TTTTCCCAAT
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:28528 original size:21 final size:21
Alignment explanation
Indices: 28499--28591 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
28489 ATAGTAAGTA
28499 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
28520 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
28540 TCACATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
28561 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
28581 TCGCATTGCGA
1 TCGCATTGCGA
28592 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:28529 original size:41 final size:41
Alignment explanation
Indices: 28438--28572 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
28428 AAAGTCAGTA
* * * ** *
28438 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* *
28478 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* **
28520 TCGCGTTGCGAT-TTACTTATTCACATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCACATTGCGATTTTCCCAAT
28561 TCGCGTTGCGAT
1 TCGCGTTGCGAT
28573 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
Found at i:28573 original size:41 final size:41
Alignment explanation
Indices: 28502--28591 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
28492 GTAAGTATCG
28502 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
*
28543 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
28584 CATTGCGA
1 CATTGCGA
28592 ATTGGGAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (41 bp):
CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
Found at i:30776 original size:12 final size:10
Alignment explanation
Indices: 30735--30775 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
30725 TTTATCACAC
30735 CAAATTCTCT
1 CAAATTCTCT
30745 CAAATTCTCT
1 CAAATTCTCT
30755 -AAATTTCTCT
1 CAAA-TTCTCT
*
30765 CAAATACTCT
1 CAAATTCTCT
30775 C
1 C
30776 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:30852 original size:17 final size:18
Alignment explanation
Indices: 30815--30855 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
30805 CTATTATGTA
*
30815 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
30833 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
30850 TTTACT
1 TTTACT
30856 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:31111 original size:111 final size:111
Alignment explanation
Indices: 30917--31138 Score: 408
Period size: 111 Copynumber: 2.0 Consensus size: 111
30907 TGGAAATCAT
* * *
30917 ATATCTCTACACTTTGCTGATACGGTAACATTTTATCGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
*
30982 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
31028 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
31093 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
31139 TTTTTGTAAC
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:33048 original size:15 final size:15
Alignment explanation
Indices: 33024--33062 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
33014 ACCTGATCAG
*
33024 GATGACGACGACGAC
1 GATGATGACGACGAC
*
33039 GATGGTGACGACGAC
1 GATGATGACGACGAC
33054 GATGATGAC
1 GATGATGAC
33063 AGCGAGGAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.36, T:0.13
Consensus pattern (15 bp):
GATGATGACGACGAC
Found at i:33049 original size:18 final size:18
Alignment explanation
Indices: 33026--33060 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33016 CTGATCAGGA
33026 TGACGACGACGACGATGG
1 TGACGACGACGACGATGG
*
33044 TGACGACGACGATGATG
1 TGACGACGACGACGATG
33061 ACAGCGAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.20, G:0.37, T:0.14
Consensus pattern (18 bp):
TGACGACGACGACGATGG
Found at i:33315 original size:35 final size:33
Alignment explanation
Indices: 33276--33360 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
33266 ATATTTCAGT
*
33276 TAATTTTGTT-TATTACCATTTAGTATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
33311 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
33346 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
33361 TAAATACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 3 0.07
38 11 0.26
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:35978 original size:29 final size:30
Alignment explanation
Indices: 35936--36010 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
35926 GCTACAGGTG
*
35936 TTAGATCG-GAAAATATAATCTGACCGATA
1 TTAGATCGAGAAAATATAATATGACCGATA
*
35965 TTAGATCGAG-AAATATAATATGACCGATG
1 TTAGATCGAGAAAATATAATATGACCGATA
*
35994 TTAGATC-AGTAAATATA
1 TTAGATCGAGAAAATATA
36011 CCGATCAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 2 0.05
29 39 0.93
30 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (30 bp):
TTAGATCGAGAAAATATAATATGACCGATA
Found at i:38588 original size:50 final size:50
Alignment explanation
Indices: 38513--38612 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
38503 CTTTACATAG
*
38513 TTTCATCCTCATCTTTCCTACATGTAGTACATGAAGTGATTCTGATGAAT
1 TTTCATCCTCATCTTTCCTACATGTAGTACATGAAGAGATTCTGATGAAT
38563 TTTCATCCTCATCTTTCCTACATGTAGTACATGAAGAGATTCTGATGAAT
1 TTTCATCCTCATCTTTCCTACATGTAGTACATGAAGAGATTCTGATGAAT
38613 GATCTACACC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (50 bp):
TTTCATCCTCATCTTTCCTACATGTAGTACATGAAGAGATTCTGATGAAT
Found at i:45251 original size:12 final size:12
Alignment explanation
Indices: 45234--45260 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45224 TATTACCACG
45234 TAATATTTCTGT
1 TAATATTTCTGT
45246 TAATATTTCTGT
1 TAATATTTCTGT
45258 TAA
1 TAA
45261 AGGACTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (12 bp):
TAATATTTCTGT
Found at i:45911 original size:17 final size:17
Alignment explanation
Indices: 45891--45924 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45881 GTTTTTTTAT
45891 AACCAATTTTTTTAAAA
1 AACCAATTTTTTTAAAA
*
45908 AACCGATTTTTTTAAAA
1 AACCAATTTTTTTAAAA
45925 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (17 bp):
AACCAATTTTTTTAAAA
Found at i:53240 original size:20 final size:19
Alignment explanation
Indices: 53212--53265 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 19
53202 ATATTTGATA
*
53212 AATTAAAATTAATAAAATAT
1 AATTAAAA-TAAAAAAATAT
*
53232 AATTTAAATAAAAAAATAT
1 AATTAAAATAAAAAAATAT
53251 --TTAAAATAAAAAAAT
1 AATTAAAATAAAAAAAT
53266 CCAGAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 14 0.45
19 10 0.32
20 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTAAAATAAAAAAATAT
Found at i:55891 original size:21 final size:20
Alignment explanation
Indices: 55854--55924 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
55844 GGTCGTTTCT
55854 AGCCGTTGAGAGTGTTTTAG
1 AGCCGTTGAGAGTGTTTTAG
*
55874 AGCCGTTAAGAGGTGTTTTAG
1 AGCCGTTGAGA-GTGTTTTAG
55895 AGCCGTTGAGAGTGTTTTAG
1 AGCCGTTGAGAGTGTTTTAG
55915 AGCCGTTGAG
1 AGCCGTTGAG
55925 GATCGATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 29 0.60
21 19 0.40
ACGTcount: A:0.21, C:0.11, G:0.35, T:0.32
Consensus pattern (20 bp):
AGCCGTTGAGAGTGTTTTAG
Found at i:57618 original size:19 final size:20
Alignment explanation
Indices: 57576--57620 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
57566 AAATCTTTTT
* * *
57576 TCAAAATTTCATTTTGGTTT
1 TCAAAATTTCATTTTAGCTC
57596 TCAAAA-TTCATTTTAGCTC
1 TCAAAATTTCATTTTAGCTC
57615 TCAAAA
1 TCAAAA
57621 GATAATCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (20 bp):
TCAAAATTTCATTTTAGCTC
Found at i:59177 original size:15 final size:15
Alignment explanation
Indices: 59157--59187 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
59147 TTGAATTATT
59157 TTTGAAAACTTTGAA
1 TTTGAAAACTTTGAA
59172 TTTGAAAACTTTGAA
1 TTTGAAAACTTTGAA
59187 T
1 T
59188 AAATTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (15 bp):
TTTGAAAACTTTGAA
Found at i:60278 original size:15 final size:15
Alignment explanation
Indices: 60260--60302 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
60250 TATATAGGTC
* *
60260 TATTATTATTATTTA
1 TATTATAATTATATA
60275 TATTATAATTATATA
1 TATTATAATTATATA
*
60290 TAAATATAATTAT
1 T-ATTATAATTAT
60303 GTTAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTATAATTATATA
Found at i:60299 original size:16 final size:15
Alignment explanation
Indices: 60278--60319 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
60268 TTATTTATAT
60278 TATAATTATATATAAA
1 TATAATTATAT-TAAA
*
60294 TATAATTATGTTAAA
1 TATAATTATATTAAA
60309 TATTAATTATA
1 TA-TAATTATA
60320 CATATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TATAATTATATTAAA
Found at i:60350 original size:2 final size:2
Alignment explanation
Indices: 60343--60387 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
60333 GTTTACTTTC
60343 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60385 AT A
1 AT A
60388 GTAAATGTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:63291 original size:22 final size:22
Alignment explanation
Indices: 63263--63345 Score: 130
Period size: 22 Copynumber: 3.8 Consensus size: 22
63253 GGGTCAACGT
* *
63263 GGTCCTTCGGGACATATACAGA
1 GGTCCTTCGGGACAAATACATA
63285 GGTCCTTCGGGACAAATACATA
1 GGTCCTTCGGGACAAATACATA
*
63307 GGTCCTTCAGGACAAATACATA
1 GGTCCTTCGGGACAAATACATA
*
63329 GGTCCTTCGGGATAAAT
1 GGTCCTTCGGGACAAAT
63346 TTCATATGCC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACATA
Found at i:68101 original size:22 final size:22
Alignment explanation
Indices: 68049--68109 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
68039 GGGTCTACGT
* *
68049 GGTCCTTCGGGACATATACAGA
1 GGTCCTTCGAGACAAATACAGA
** * *
68071 GGTAATTCGAGATAAATACATA
1 GGTCCTTCGAGACAAATACAGA
*
68093 GGTCCTTCGGGACAAAT
1 GGTCCTTCGAGACAAAT
68110 TTCATATGCC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (22 bp):
GGTCCTTCGAGACAAATACAGA
Found at i:71109 original size:200 final size:199
Alignment explanation
Indices: 70779--71790 Score: 1132
Period size: 200 Copynumber: 5.1 Consensus size: 199
70769 TTATACATGT
* * * * *
70779 GTATCGATACTTGATGTTTAC-CCTTATTATCATTAATATCGGTAGACTTTTACCCTTTTCATTA
1 GTATCGATACTTGGTATTTACGCC-TATTATCATT-ATACCGGTAGACTTTTACCCTTTACATTG
70843 TAAATTT-CCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTTATATATGT
64 TAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTTATATATGT
* * *
70907 GTATCGATATATTTTGCATTCAAATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATACCTAT
129 GTATCGATAT-TTTTGCGTGCAAATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATACATAT
*
70972 ATAGACAA
193 ATA-AAAA
* * * * * *
70980 -TATAGATACTTGGTATTTACGCCTATTATCAATATACCGATAGACTTTTACCATTTATATTATA
1 GTATCGATACTTGGTATTTACGCCTATTATCATTATACCGGTAGACTTTTACCCTTTACATTGTA
* * * * *
71044 AAATTACCTATTACTTTAAAGTAATCA-ATTTTGAAATTATGAGTATCGATACTTTATACATGTG
66 AATTTACCTATTACTTTAAAGTAAT-AGGTTTCGAAATTATAAGTATCGATACTTTATATATGTG
* * *
71108 TATCGATACATTTTGCGTGCAAATTG-TTGAGAAGCATACTGGACTAAAAGTATCGATACATATA
130 TATCGATA-TTTTTGCGTGCAAATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATACATATA
* *
71172 TATAAT
194 TAAAAA
* * * *
71178 GTATCGATACTCGGTATATACGCCTATTATCATTATACCGGTAAACTTTTACCCTTTACATTGTT
1 GTATCGATACTTGGTATTTACGCCTATTATCATTATACCGGTAGACTTTTACCCTTTACATTGTA
* * * * *
71243 AATTTACCTATTACTTTATAGTAACAGGTTTCGATATT-TCAAGTATCGATACTTTGTACATGTG
66 AATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTAT-AAGTATCGATACTTTATATATGTG
* * * * * * * *
71307 TATCTATACGTTTTGCGTGTAAATTGTTTGAGAAACATATTGGAATAAAAATATCGATATATATA
130 TATCGATA-TTTTTGCGTGCAAATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATACATATA
71372 TAAAAA
194 TAAAAA
* * * *
71378 GTATCGATACTT--TACGCTTACGCCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTG
1 GTATCGATACTTGGTA--TTTACGCCTATTATCATTATACCGGTAGACTTTTACCCTTTACATTG
* * *
71441 TAAATTTACCTATTACTTTAAAGTAGTAGGTTTCGAAATTCTAAGTATCGATACTTTATATATGA
64 TAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTTATATATGT
** * *
71506 GTATCGATACTTTTTAG-GTGCAAATTGTTTGAGATTCATACTAGAATTAATGTATCGATACCGA
129 GTATCGATA-TTTTT-GCGTGCAAATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATA-C-A
71570 TATA-AAAAA
190 TATATAAAAA
* * * * * * * * *
71579 GTATCGATACGAT-GTGTTTAC-ACAATTATCATTATATCGATCGACTTTTATCGTTTACATTGT
1 GTATCGATAC-TTGGTATTTACGCCTATTATCATTATACCGGTAGACTTTTACCCTTTACATTGT
* * * *
71642 AAATTTAACTATTACTTTAAAGTAATAGGTTTCAAAATTACAAGTATCGATACTTTATATATGGG
65 AAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTTATATATGTG
* * * *
71707 TATCGATACTTTGTTGAGGGCAAATTGTTTGAGAACCATACTAGAATAAAAGTATCGATATGA-A
130 TATCGATA-TTT-TTGCGTGCAAATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATA-CATA
71771 TATAAAAA
192 TATAAAAA
*
71779 GTATCCATACTT
1 GTATCGATACTT
71791 AGACATTTTC
Statistics
Matches: 689, Mismatches: 103, Indels: 40
0.83 0.12 0.05
Matches are distributed among these distances:
198 5 0.01
199 200 0.29
200 413 0.60
201 64 0.09
202 6 0.01
203 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (199 bp):
GTATCGATACTTGGTATTTACGCCTATTATCATTATACCGGTAGACTTTTACCCTTTACATTGTA
AATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTTATATATGTGT
ATCGATATTTTTGCGTGCAAATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATACATATATA
AAAA
Found at i:71497 original size:399 final size:399
Alignment explanation
Indices: 70803--71790 Score: 1170
Period size: 399 Copynumber: 2.5 Consensus size: 399
70793 TGTTTACCCT
* *
70803 TATTATCATTAATATCGGTAGACTTTTACCCTTTTCATTATAAATTT-CCTATTACTTTAAAGTA
1 TATTATCATT-ATATCGGTAGACTTTTACCCTTTACATTGTAAATTTACCTATTACTTTAAAGTA
* *
70867 ATAGGTTTCGAAATTAT-AAGTATCGATACTTTATATATGTGTATCGATATATTTTGCAT-TCAA
65 ATAGGTTTCGAAATT-TCAAGTATCGATACTTTATATATGTGTATCGATACATTTTGCGTGT-AA
* ** * *
70930 ATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATACCTATATAGACAA-TATAGATACTTGGT
128 ATTGTTTGAGAAACATACTAGAATAAAAGTATCGATATATATATA-AAAAGTATCGATACTT-GT
* * *
70994 ATTTACGCCTATTATCAATATACCGATAGACTTTTACCATTTATATTATAAAATTACCTATTACT
191 ACTTACGCCTATTATCAATAAACCGATAGACTTTTACCATTTACATTATAAAATTACCTATTACT
* * *
71059 TTAAAGTAATCAATTTTGAAATTATGAGTATCGATACTTTATACATGTGTATCGATACATTTT-G
256 TTAAAGTAATCAATTTCGAAATTATAAGTATCGATACTTTATACATGAGTATCGATACATTTTAG
* * * *
71123 CGTGCAAATTG-TTGAGAAGCATACTGGACTAAAAGTATCGATA-C-ATATATATAATGTATCGA
321 -GTGCAAATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATACCGATATA-AAAAAGTATCGA
** *
71185 TACTCGGTATATACGCC
384 TACGAGGTATATAC-AC
* * * *
71202 TATTATCATTATACCGGTAAACTTTTACCCTTTACATTGTTAATTTACCTATTACTTTATAGTAA
1 TATTATCATTATATCGGTAGACTTTTACCCTTTACATTGTAAATTTACCTATTACTTTAAAGTAA
* * * * * *
71267 CAGGTTTCGATATTTCAAGTATCGATACTTTGTACATGTGTATCTATACGTTTTGCGTGTAAATT
66 TAGGTTTCGAAATTTCAAGTATCGATACTTTATATATGTGTATCGATACATTTTGCGTGTAAATT
* * *
71332 GTTTGAGAAACATATTGGAATAAAAATATCGATATATATATAAAAAGTATCGATACTT-TACGCT
131 GTTTGAGAAACATACTAGAATAAAAGTATCGATATATATATAAAAAGTATCGATACTTGTA--CT
* * * * * *
71396 TACGCCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTA
194 TACGCCTATTATCAATAAACCGATAGACTTTTACCATTTACATTATAAAATTACCTATTACTTTA
* * * * *
71461 AAGTAGT-AGGTTTCGAAATTCTAAGTATCGATACTTTATATATGAGTATCGATACTTTTTAGGT
259 AAGTAATCA-ATTTCGAAATTATAAGTATCGATACTTTATACATGAGTATCGATACATTTTAGGT
** * *
71525 GCAAATTGTTTGAGATTCATACTAGAATTAATGTATCGATACCGATATAAAAAAGTATCGATACG
323 GCAAATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATACCGATATAAAAAAGTATCGATACG
* * *
71590 ATGTGTTTACAC
388 AGGTATATACAC
* * * * * *
71602 AATTATCATTATATCGATCGACTTTTATCGTTTACATTGTAAATTTAACTATTACTTTAAAGTAA
1 TATTATCATTATATCGGTAGACTTTTACCCTTTACATTGTAAATTTACCTATTACTTTAAAGTAA
* * * * * * *
71667 TAGGTTTCAAAATTACAAGTATCGATACTTTATATATGGGTATCGATACTTTGTTGAGGGCAAAT
66 TAGGTTTCGAAATTTCAAGTATCGATACTTTATATATGTGTATCGATACATT-TTGCGTGTAAAT
* *
71732 TGTTTGAGAACCATACTAGAATAAAAGTATCGATATGA-ATATAAAAAGTATCCATACTT
130 TGTTTGAGAAACATACTAGAATAAAAGTATCGATAT-ATATATAAAAAGTATCGATACTT
71791 AGACATTTTC
Statistics
Matches: 496, Mismatches: 80, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
397 2 0.00
398 36 0.07
399 244 0.49
400 127 0.26
401 81 0.16
402 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (399 bp):
TATTATCATTATATCGGTAGACTTTTACCCTTTACATTGTAAATTTACCTATTACTTTAAAGTAA
TAGGTTTCGAAATTTCAAGTATCGATACTTTATATATGTGTATCGATACATTTTGCGTGTAAATT
GTTTGAGAAACATACTAGAATAAAAGTATCGATATATATATAAAAAGTATCGATACTTGTACTTA
CGCCTATTATCAATAAACCGATAGACTTTTACCATTTACATTATAAAATTACCTATTACTTTAAA
GTAATCAATTTCGAAATTATAAGTATCGATACTTTATACATGAGTATCGATACATTTTAGGTGCA
AATTGTTTGAGAAGCATACTAGAATAAAAGTATCGATACCGATATAAAAAAGTATCGATACGAGG
TATATACAC
Found at i:78887 original size:194 final size:187
Alignment explanation
Indices: 78510--78924 Score: 462
Period size: 194 Copynumber: 2.2 Consensus size: 187
78500 GTAGCGCTTT
** * * *
78510 ACTGGTTTTGTCAAATTTCAAAATATTATATTATCATGTATCGATACGTGTGTCTAAGGTATCGA
1 ACTGGTTTTGTCAAATTTCAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGA
* *
78575 TACTTTATAGGAGTTATTATTCATTTAATTCCTACAGTACCTATACTTTGGTACACATACTTATA
66 TACTTTATAGGAGTTATTATTCATTTAATTCCTACAGTACCGACACTTTGGTACACATACTTATA
* ** * * * *
78640 AAAGTAGCAATATTGTCAACAATTTTGGTATCTCTTTACCCATTTTGTCAAATTGAA
131 AAAGTAGCAATACTGTCAACAATTCCGATAGCTCTTTACCCATTTTATCAAATTAAA
* *
78697 ACTGGTTTTGTTAAATTTCAACCTGTTATATTGTCATGTATCGATACATGTGTGTAAGGTATCGA
1 ACTGGTTTTGTCAAATTTCAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGA
* *
78762 TACTATT-TAGCCTCTA-TTATTACAATTCTTTTAAATTCCTACAGTACCGACACTTTGGTACAC
66 TACT-TTATAG----GAGTTATT---ATTCATTT-AATTCCTACAGTACCGACACTTTGGTACAC
*** * ***
78825 ATACTTATAAAAGTATTGATACTGTTAACAATTCCGATAGCTCTTTACTGGTTTTATCAAATTAA
122 ATACTTATAAAAGTAGCAATACTGTCAACAATTCCGATAGCTCTTTACCCATTTTATCAAATTAA
78890 A
187 A
* * *
78891 ACCGATTTTGTCAAATTTCGACC-GTT-T-TTGTCAT
1 ACTGGTTTTGTCAAATTTCAACCTGTTATATTGTCAT
78925 TACCAACCAA
Statistics
Matches: 190, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
187 65 0.34
188 2 0.01
190 5 0.03
191 8 0.04
192 1 0.01
193 10 0.05
194 99 0.52
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (187 bp):
ACTGGTTTTGTCAAATTTCAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGA
TACTTTATAGGAGTTATTATTCATTTAATTCCTACAGTACCGACACTTTGGTACACATACTTATA
AAAGTAGCAATACTGTCAACAATTCCGATAGCTCTTTACCCATTTTATCAAATTAAA
Found at i:78904 original size:20 final size:20
Alignment explanation
Indices: 78876--78946 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
78866 TCTTTACTGG
* *
78876 TTTTATCAAATTAAAACCGA
1 TTTTGTCAAATTACAACCGA
* * *
78896 TTTTGTCAAATTTCGACCGT
1 TTTTGTCAAATTACAACCGA
*
78916 TTTTGTC--ATTACCAACCAA
1 TTTTGTCAAATTA-CAACCGA
78935 TTTTGTCAAATT
1 TTTTGTCAAATT
78947 CGTTACCTCT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.08
19 11 0.28
20 22 0.56
21 3 0.08
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTTGTCAAATTACAACCGA
Found at i:80166 original size:59 final size:59
Alignment explanation
Indices: 79592--80140 Score: 927
Period size: 59 Copynumber: 9.3 Consensus size: 59
79582 CAAGGATCTT
* * * * *
79592 TTATCATTTTTAGCACACAAGGTGCCCAATACGGAAATTCATACACTTAGTATGAATTTC
1 TTATCA-TGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
* * * * * *
79652 TTATCATGTTAGCACAAAAAGTACCTTATACGAAAATTCATACACTTAGTATGAATTTC
1 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
*
79711 TTATCATGTTAGCACAAAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
1 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
79770 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
1 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
*
79829 TTATCATGTTAGCACACAAGGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
1 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
79888 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
1 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
* * *
79947 TTATCATGTTAGCATACAAAGTGCCCTATATAGAAATCCATACACTTAGTATGGATTTC
1 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
*
80006 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATGCACTTAGTATGAATTTC
1 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
80065 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
1 TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
*
80124 TTATCATGTTAACACAC
1 TTATCATGTTAGCACAC
80141 TTAGTGCCAT
Statistics
Matches: 465, Mismatches: 24, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
59 459 0.99
60 6 0.01
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (59 bp):
TTATCATGTTAGCACACAAAGTGCCCTATATGGAAATCCATACACTTAGTATGAATTTC
Found at i:82570 original size:13 final size:13
Alignment explanation
Indices: 82552--82576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82542 CCACGTGTTT
82552 TTTATTTTATTTA
1 TTTATTTTATTTA
82565 TTTATTTTATTT
1 TTTATTTTATTT
82577 TAGTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:82586 original size:14 final size:14
Alignment explanation
Indices: 82552--82588 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
82542 CCACGTGTTT
82552 TTTATTTTA-TTTA
1 TTTATTTTATTTTA
82565 TTTATTTTATTTTA
1 TTTATTTTATTTTA
82579 GTTT-TTTTAT
1 -TTTATTTTAT
82589 CTGTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.41
14 10 0.45
15 3 0.14
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:87649 original size:19 final size:19
Alignment explanation
Indices: 87625--87697 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 19
87615 TTCAAAGACC
87625 TTTGTAAAAATGAACTATT
1 TTTGTAAAAATGAACTATT
87644 TTTGTAAAAATGAAGACT-TT
1 TTTGTAAAAATG-A-ACTATT
* *
87664 TGTATGTCAAAATGGACTA-T
1 T-T-TGTAAAAATGAACTATT
87684 TTTGTAAAAATGAA
1 TTTGTAAAAATGAA
87698 GACTTTTGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 10 0.22
19 13 0.29
20 9 0.20
21 4 0.09
22 9 0.20
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTAAAAATGAACTATT
Found at i:87664 original size:18 final size:18
Alignment explanation
Indices: 87619--87706 Score: 72
Period size: 18 Copynumber: 4.6 Consensus size: 18
87609 ATACTTTTCA
*
87619 AAGACCTTTGTAAAAATG
1 AAGACTTTTGTAAAAATG
* *
87637 AACTATTTTTGTAAAAATG
1 AA-GACTTTTGTAAAAATG
87656 AAGACTTTTGTATGTCAAAATG
1 AAGACTTTTGTA----AAAATG
87678 --GACTATTTTGTAAAAATG
1 AAGAC--TTTTGTAAAAATG
87696 AAGACTTTTGT
1 AAGACTTTTGT
87707 CCATAATGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
18 22 0.39
19 15 0.27
20 6 0.11
22 13 0.23
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.38
Consensus pattern (18 bp):
AAGACTTTTGTAAAAATG
Found at i:87677 original size:22 final size:21
Alignment explanation
Indices: 87626--87706 Score: 84
Period size: 20 Copynumber: 4.0 Consensus size: 21
87616 TCAAAGACCT
87626 TTGTAAAAATG-A-ACTATTT-
1 TTGTAAAAATGAAGACT-TTTG
87645 TTGTAAAAATGAAGACTTTTG
1 TTGTAAAAATGAAGACTTTTG
* *
87666 TATGTCAAAATG--GACTATT-
1 T-TGTAAAAATGAAGACTTTTG
87685 TTGTAAAAATGAAGACTTTTG
1 TTGTAAAAATGAAGACTTTTG
87706 T
1 T
87707 CCATAATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
18 9 0.18
19 12 0.24
20 16 0.31
21 5 0.10
22 9 0.18
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (21 bp):
TTGTAAAAATGAAGACTTTTG
Found at i:93167 original size:44 final size:44
Alignment explanation
Indices: 93113--93363 Score: 215
Period size: 44 Copynumber: 5.7 Consensus size: 44
93103 TCGTAGATTT
* * *
93113 GATTCTATCACAAAACGAGGTGGATCAACATTCCCTTTTTGTTC
1 GATTCCATCACATAAGGAGGTGGATCAACATTCCCTTTTTGTTC
* * *
93157 GATTCCATCACATGAGGAGGTAGATCAACATTCTCTTTTTGCTT-
1 GATTCCATCACATAAGGAGGTGGATCAACATTCCCTTTTTG-TTC
* * * * * *
93201 GATTCCATCACATAAGAAGTTAGATCAGCA-TCACCCTTTTGCTC
1 GATTCCATCACATAAGGAGGTGGATCAACATTC-CCTTTTTGTTC
* * * * *
93245 GATTCCATCCCATAAGGAGTTGGATCAATA-TCACTCTTTTGTTT
1 GATTCCATCACATAAGGAGGTGGATCAACATTCCCT-TTTTGTTC
** * * *
93289 GATTCCATCACAGGAGGAAGTGGATCAA-AGTTCTCTTTTTGCTC
1 GATTCCATCACATAAGGAGGTGGATCAACA-TTCCCTTTTTGTTC
*
93333 GATTCCATCATATAAGGA-GTAGGATCAACAT
1 GATTCCATCACATAAGGAGGT-GGATCAACAT
93364 CAAACTTTTT
Statistics
Matches: 166, Mismatches: 33, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
43 7 0.04
44 152 0.92
45 7 0.04
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (44 bp):
GATTCCATCACATAAGGAGGTGGATCAACATTCCCTTTTTGTTC
Found at i:93315 original size:88 final size:87
Alignment explanation
Indices: 93111--93365 Score: 246
Period size: 88 Copynumber: 2.9 Consensus size: 87
93101 TTTCGTAGAT
* * * * * *
93111 TTGATTCTATCACAAAACGAGGTGGATCAACATTCCCTTTTTGTTCGATTCCATCACATGAGGAG
1 TTGATTCCATCACAGAA-GAAGTGGATCAGCA-TCCCTTTTTGCTCGATTCCATCACATAAGGAG
* * *
93176 GTAGATCAACAT-TCTCTTTTTGC
64 TTGGATCAACATCACTCTTTTTGC
* * * *
93199 TTGATTCCATCACATAAGAAGTTAGATCAGCATCACCCTTTTGCTCGATTCCATCCCATAAGGAG
1 TTGATTCCATCACAGAAGAAG-TGGATCAGCATC-CCTTTTTGCTCGATTCCATCACATAAGGAG
* *
93264 TTGGATCAATATCACTC-TTTTGT
64 TTGGATCAACATCACTCTTTTTGC
* * * *
93287 TTGATTCCATCACAGGAGGAAGTGGATCAAAG-TTCTCTTTTTGCTCGATTCCATCATATAAGGA
1 TTGATTCCATCACA-GAAGAAGTGGATC--AGCATCCCTTTTTGCTCGATTCCATCACATAAGGA
*
93351 GTAGGATCAACATCA
63 GTTGGATCAACATCA
93366 AACTTTTTCT
Statistics
Matches: 137, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
87 5 0.04
88 120 0.88
89 10 0.07
90 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (87 bp):
TTGATTCCATCACAGAAGAAGTGGATCAGCATCCCTTTTTGCTCGATTCCATCACATAAGGAGTT
GGATCAACATCACTCTTTTTGC
Found at i:93394 original size:132 final size:132
Alignment explanation
Indices: 93149--93404 Score: 318
Period size: 132 Copynumber: 1.9 Consensus size: 132
93139 AACATTCCCT
* * *
93149 TTTTGTTCGATTCCATCACATGAGGAGGTAGATCAACATTCTCTTTTTGCTTGATTCCATCACAT
1 TTTTGTTCGATTCCATCACAGGAGGAAGTAGATCAACATTCTCTTTTTGCTCGATTCCATCACAT
* ** * * * * * *
93214 AAGAAGTTAGATCAGCATCACCCTTTTGCTCGATTCCATCCCATAAGGAGTTGGATCAATATCAC
66 AAGAAGTTAGATCAACATCAAACTTTTGCTAGACTCAATCACAGAAGGAGATGGATCAATATCAC
93279 TC
131 TC
* * *
93281 TTTTGTTTGATTCCATCACAGGAGGAAGTGGATCAA-AGTTCTCTTTTTGCTCGATTCCATCATA
1 TTTTGTTCGATTCCATCACAGGAGGAAGTAGATCAACA-TTCTCTTTTTGCTCGATTCCATCACA
* * *
93345 TAAGGAG-TAGGATCAACATCAAACTTTTTCTAGACTCAATCATAGAAGGAGATGGATCAA
65 TAAGAAGTTA-GATCAACATCAAACTTTTGCTAGACTCAATCACAGAAGGAGATGGATCAA
93405 CACAATCGTA
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
131 3 0.03
132 101 0.97
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (132 bp):
TTTTGTTCGATTCCATCACAGGAGGAAGTAGATCAACATTCTCTTTTTGCTCGATTCCATCACAT
AAGAAGTTAGATCAACATCAAACTTTTGCTAGACTCAATCACAGAAGGAGATGGATCAATATCAC
TC
Found at i:93401 original size:88 final size:88
Alignment explanation
Indices: 93237--93404 Score: 205
Period size: 88 Copynumber: 1.9 Consensus size: 88
93227 AGCATCACCC
* * * ** * * *
93237 TTTTGCTCGATTCCATCCCATAAGGAGTTGGATCAATATCACTCTTTTGTTTGATTCCATCACAG
1 TTTTGCTCGATTCCATCACATAAGGAGTAGGATCAACATCAAACTTTTGTTAGACTCAATCACAG
*
93302 GAGGAAGTGGATCAAAGTTCTCT
66 AAGGAAGTGGATCAAAGTTCTCT
* *
93325 TTTTGCTCGATTCCATCATATAAGGAGTAGGATCAACATCAAACTTTT-TCTAGACTCAATCATA
1 TTTTGCTCGATTCCATCACATAAGGAGTAGGATCAACATCAAACTTTTGT-TAGACTCAATCACA
93389 GAAGG-AGATGGATCAA
65 GAAGGAAG-TGGATCAA
93405 CACAATCGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 3 0.04
88 64 0.96
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (88 bp):
TTTTGCTCGATTCCATCACATAAGGAGTAGGATCAACATCAAACTTTTGTTAGACTCAATCACAG
AAGGAAGTGGATCAAAGTTCTCT
Found at i:97057 original size:37 final size:36
Alignment explanation
Indices: 96982--97057 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
96972 TTTTTATATT
*
96982 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
97018 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
97055 TTT
1 TTT
97058 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:97239 original size:20 final size:20
Alignment explanation
Indices: 97203--97240 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
97193 ATCCTATTCC
**
97203 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
97223 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
97241 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:97470 original size:23 final size:23
Alignment explanation
Indices: 97439--97488 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
97429 TACCATTTAA
*
97439 ATTTATTACATTTTGACTTTTTT
1 ATTTTTTACATTTTGACTTTTTT
97462 ATTTTTTACATTTTGACTTTTTT
1 ATTTTTTACATTTTGACTTTTTT
97485 -TTTT
1 ATTTT
97489 ATCTCATCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.70
Consensus pattern (23 bp):
ATTTTTTACATTTTGACTTTTTT
Found at i:97615 original size:3 final size:3
Alignment explanation
Indices: 97607--97655 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
97597 TGATTATTTA
* * *
97607 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
97655 T
1 T
97656 CTAAATTGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:97616 original size:12 final size:11
Alignment explanation
Indices: 97599--97651 Score: 56
Period size: 12 Copynumber: 4.7 Consensus size: 11
97589 TTGTGTTGTG
97599 ATTA-TTTA-T
1 ATTATTTTATT
*
97608 ATTATTATTATC
1 ATTATT-TTATT
97620 ATTATTATTATT
1 ATTATT-TTATT
97632 ATTATTGTTATT
1 ATTATT-TTATT
97644 ATTATTTT
1 ATTATTTT
97652 TATTCTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 4 0.11
10 1 0.03
11 5 0.13
12 28 0.74
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:97964 original size:13 final size:13
Alignment explanation
Indices: 97946--97973 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
97936 TATTCATTGA
97946 AGACCCAAGTTCG
1 AGACCCAAGTTCG
97959 AGACCCAAGTTCG
1 AGACCCAAGTTCG
97972 AG
1 AG
97974 CACCATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.29, G:0.25, T:0.14
Consensus pattern (13 bp):
AGACCCAAGTTCG
Found at i:98360 original size:20 final size:20
Alignment explanation
Indices: 98335--98380 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
98325 GGAACAGTAA
* *
98335 TGAACAATATCGATACTGTG
1 TGAACAATACCAATACTGTG
* *
98355 TGAACAGTACCAATATTGTG
1 TGAACAATACCAATACTGTG
98375 TGAACA
1 TGAACA
98381 GTAATGAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (20 bp):
TGAACAATACCAATACTGTG
Found at i:98596 original size:21 final size:21
Alignment explanation
Indices: 98567--98606 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
98557 TTTTTGTAGA
98567 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCC-AACGGCTCC
*
98589 AAAA-CATCCTCAACGGCT
1 AAAATCATCCCCAACGGCT
98607 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:98853 original size:34 final size:34
Alignment explanation
Indices: 98814--98926 Score: 217
Period size: 34 Copynumber: 3.3 Consensus size: 34
98804 CTTTTGTAAA
98814 GGGGAAAGGTTTTAGCTAAGCCCGTGTAAAAGCT
1 GGGGAAAGGTTTTAGCTAAGCCCGTGTAAAAGCT
98848 GGGGAAAGGTTTTAGCTAAGCCCGTGTAAAAGCT
1 GGGGAAAGGTTTTAGCTAAGCCCGTGTAAAAGCT
98882 GGGGAAAGGTTTTAGCTAAGCCCGTGTAAAAGCT
1 GGGGAAAGGTTTTAGCTAAGCCCGTGTAAAAGCT
*
98916 AGGGAAAGGTT
1 GGGGAAAGGTT
98927 CTAGTTTATC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 78 1.00
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (34 bp):
GGGGAAAGGTTTTAGCTAAGCCCGTGTAAAAGCT
Found at i:99368 original size:10 final size:11
Alignment explanation
Indices: 99353--99385 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
99343 GGCATGTTTC
99353 ATTTTTTATT-
1 ATTTTTTATTG
99363 ATTTTTTATTTG
1 ATTTTTTA-TTG
99375 ATTTTTTATTG
1 ATTTTTTATTG
99386 CATTCTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.38
11 5 0.24
12 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (11 bp):
ATTTTTTATTG
Found at i:99740 original size:15 final size:15
Alignment explanation
Indices: 99703--99740 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
99693 CAAACCAATT
99703 TTGTTTTTCTTAAAA
1 TTGTTTTTCTTAAAA
*
99718 ATGATTTTTCTTAAAA
1 TTG-TTTTTCTTAAAA
99734 TTGTTTT
1 TTGTTTT
99741 AAAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (15 bp):
TTGTTTTTCTTAAAA
Found at i:100759 original size:2 final size:2
Alignment explanation
Indices: 100741--100791 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
100731 TTTTATTATT
100741 TA TA T- TA TA -A T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100780 TA TA TA TA TA TA
1 TA TA TA TA TA TA
100792 ATTATGTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100871 original size:19 final size:22
Alignment explanation
Indices: 100847--100897 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
100837 ACATTATAAG
100847 TTAAATATA-AT-T-GTAAATA
1 TTAAATATATATATAGTAAATA
100866 TTAAATATATATATAGTAAATA
1 TTAAATATATATATAGTAAATA
*
100888 -TATATATATA
1 TTAAATATATA
100898 GTAAATGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
21 10 0.36
22 7 0.25
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TTAAATATATATATAGTAAATA
Found at i:100887 original size:15 final size:15
Alignment explanation
Indices: 100867--100895 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
100857 TTGTAAATAT
100867 TAAATATATATATAG
1 TAAATATATATATAG
100882 TAAATATATATATA
1 TAAATATATATATA
100896 TAGTAAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TAAATATATATATAG
Found at i:100892 original size:17 final size:17
Alignment explanation
Indices: 100870--100903 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
100860 TAAATATTAA
100870 ATATATATATAGTAAAT
1 ATATATATATAGTAAAT
100887 ATATATATATAGTAAAT
1 ATATATATATAGTAAAT
100904 GCTATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATATATATAGTAAAT
Found at i:102825 original size:21 final size:21
Alignment explanation
Indices: 102795--102846 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
102785 TTCGTTGGTT
*
102795 CGAGATGACACAACAACACGA
1 CGAGACGACACAACAACACGA
*
102816 CGAGACGACACCACAACACGA
1 CGAGACGACACAACAACACGA
102837 CGAGACGACA
1 CGAGACGACA
102847 TGTTCCGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.44, C:0.33, G:0.21, T:0.02
Consensus pattern (21 bp):
CGAGACGACACAACAACACGA
Found at i:103417 original size:29 final size:29
Alignment explanation
Indices: 103370--103425 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
103360 AGGATGCCAA
*
103370 GAAAGTAAGCATCGATAGGAGGTTGCTAT
1 GAAAGTAAGCATCGATAGGAGGCTGCTAT
*
103399 GAAAGTAAGCAT-TACTAGGAGGCTGCT
1 GAAAGTAAGCATCGA-TAGGAGGCTGCT
103426 CTCATGTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.23
Consensus pattern (29 bp):
GAAAGTAAGCATCGATAGGAGGCTGCTAT
Found at i:106430 original size:27 final size:27
Alignment explanation
Indices: 106399--106462 Score: 119
Period size: 27 Copynumber: 2.3 Consensus size: 27
106389 TGATAGATTT
106399 TCCAAGTATGGAACCTTTATTCCAACA
1 TCCAAGTATGGAACCTTTATTCCAACA
106426 TCCAAGTATGGAACCTTTATTCCAACA
1 TCCAAGTATGGAACCTTTATTCCAACA
106453 TCCAAAGTAT
1 TCC-AAGTAT
106463 ATCCAGCCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 30 0.83
28 6 0.17
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (27 bp):
TCCAAGTATGGAACCTTTATTCCAACA
Found at i:130441 original size:24 final size:23
Alignment explanation
Indices: 130414--130508 Score: 86
Period size: 23 Copynumber: 4.1 Consensus size: 23
130404 TGTAACGTAG
*
130414 AATTTGTCCTGAAGGACCGCATA
1 AATTTGTCCTGAAGGACCACATA
*
130437 TAATTTGTCCCGAAGGACCACATA
1 -AATTTGTCCTGAAGGACCACATA
* *
130461 GAA-ATGT-CTCCAAGGACCACATA
1 -AATTTGTCCT-GAAGGACCACATA
* * *
130484 GATTTGTCCTGAAGGATCATATA
1 AATTTGTCCTGAAGGACCACATA
130507 AA
1 AA
130509 ACCCTCGACT
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.04
23 29 0.52
24 25 0.45
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (23 bp):
AATTTGTCCTGAAGGACCACATA
Found at i:130491 original size:23 final size:23
Alignment explanation
Indices: 130415--130499 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
130405 GTAACGTAGA
* * *
130415 ATTTGTCCTGAAGGACCGCATATA
1 ATTTGTCCCGAAGGACCACATA-G
130439 ATTTGTCCCGAAGGACCACATAG
1 ATTTGTCCCGAAGGACCACATAG
**
130462 AAATGTCTCC-AAGGACCACATAG
1 ATTTGTC-CCGAAGGACCACATAG
*
130485 ATTTGTCCTGAAGGA
1 ATTTGTCCCGAAGGA
130500 TCATATAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 1 0.02
23 28 0.55
24 22 0.43
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (23 bp):
ATTTGTCCCGAAGGACCACATAG
Found at i:136228 original size:12 final size:12
Alignment explanation
Indices: 136211--136249 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
136201 CTCAGACCAA
136211 TCCCCTCTACAG
1 TCCCCTCTACAG
136223 TCCCCTCTACAG
1 TCCCCTCTACAG
136235 TCCCCTCTACAG
1 TCCCCTCTACAG
136247 TCC
1 TCC
136250 TTAAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.15, C:0.51, G:0.08, T:0.26
Consensus pattern (12 bp):
TCCCCTCTACAG
Found at i:138469 original size:64 final size:65
Alignment explanation
Indices: 138353--138495 Score: 164
Period size: 64 Copynumber: 2.2 Consensus size: 65
138343 TTTCAGAGTA
* * ***
138353 ATGCACCGATGCACCAATCCATGCATCGATGCACCATGAAATAAATTGAACATCGAATGTTTTTG
1 ATGCATCGATGCACCAAGCCATGCATCGATGCACCATGAAATAAATTGAACATCGAATGCACTTG
** * **
138418 ATGCATCGATGCACC-AGCCATGCATCGATGCACTTTG-ACTATTTTGAAACATCGAATGCACTT
1 ATGCATCGATGCACCAAGCCATGCATCGATGCACCATGAAATAAATTG-AACATCGAATGCACTT
138481 G
65 G
*
138482 ATGCATTGATGCAC
1 ATGCATCGATGCAC
138496 TCTTAGTGCA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 6 0.09
64 46 0.70
65 14 0.21
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (65 bp):
ATGCATCGATGCACCAAGCCATGCATCGATGCACCATGAAATAAATTGAACATCGAATGCACTTG
Found at i:144214 original size:42 final size:44
Alignment explanation
Indices: 144167--144261 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
144157 TTGTGCTTCA
* *
144167 TGCATCGATACACC-T-AACAGTGCATCGATGCA-TCCTTGAATG
1 TGCATCGATACACCATGAA-AGTGCACCGATGCACGCCTTGAATG
*
144209 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
144253 TGCATCGAT
1 TGCATCGAT
144262 GCACAGGGTC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 20 0.43
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
Found at i:144232 original size:21 final size:21
Alignment explanation
Indices: 144167--144261 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 21
144157 TTGTGCTTCA
*
144167 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
*
144187 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
144209 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
* *
144230 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAATG
144253 TGCATCGAT
1 TGCATCGAT
144262 GCACAGGGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 17 0.28
22 13 0.22
23 19 0.32
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:144255 original size:23 final size:23
Alignment explanation
Indices: 144186--144266 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 23
144176 ACACCTAACA
*
144186 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
144208 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
144229 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
144252 GTGCATCGATGCACA
1 GTGCATCGATGCACA
144267 GGGTCATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 10 0.21
23 21 0.45
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:145836 original size:21 final size:21
Alignment explanation
Indices: 145794--145837 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
145784 ACCCCGGGAG
*
145794 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
145815 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
145836 CT
1 CT
145838 CCTCCGGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:146215 original size:29 final size:28
Alignment explanation
Indices: 146183--146237 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
146173 GGATGTTTAA
146183 ATTTGATGGTTGT-TGGATGTTTTGAACTT
1 ATTTG-TGGTTGTATGGAT-TTTTGAACTT
* *
146212 ATTTGTTGTTTTATGGATTTTTGAAC
1 ATTTGTGGTTGTATGGATTTTTGAAC
146238 ATAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.55
Consensus pattern (28 bp):
ATTTGTGGTTGTATGGATTTTTGAACTT
Found at i:164457 original size:21 final size:19
Alignment explanation
Indices: 164420--164463 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 19
164410 TACCAAAATG
164420 GTATCGATACTGAAGAG-A
1 GTATCGATACTGAAGAGAA
164438 GTATCGATACCATAGAAGAGAA
1 GTATCGATA-C-T-GAAGAGAA
164460 GTAT
1 GTAT
164464 TGCTACTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.41
19 1 0.05
20 1 0.05
21 6 0.27
22 5 0.23
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (19 bp):
GTATCGATACTGAAGAGAA
Found at i:165178 original size:21 final size:23
Alignment explanation
Indices: 165128--165179 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
165118 TGTTGTAGTG
165128 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
*
165151 CTATGTGGTCCTTTGGGAC-AAA
1 CTATGTGGTCCTTCGGGACAAAA
165173 -TATGTGG
1 CTATGTGG
165180 CACTTCGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 7 0.25
22 3 0.11
23 18 0.64
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:184429 original size:23 final size:23
Alignment explanation
Indices: 184396--184440 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
184386 GCCGAGGGTT
* *
184396 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTAGTCCTACGGGACAAAA
184419 CTATGTAGTCCTACGGGACAAA
1 CTATGTAGTCCTACGGGACAAA
184441 TATGTGGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (23 bp):
CTATGTAGTCCTACGGGACAAAA
Found at i:189140 original size:30 final size:30
Alignment explanation
Indices: 189106--189173 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
189096 CTCTTAATCA
*
189106 TCTGAGCTTTTTGTTCTCCATACTTCTCAT
1 TCTGAGCTTTTTGTTCTCCATACCTCTCAT
* *
189136 TCTGAGCTTTTTGTTCTTCATACCTCTTAT
1 TCTGAGCTTTTTGTTCTCCATACCTCTCAT
189166 TCTGAGCT
1 TCTGAGCT
189174 CTCTCTAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.13, C:0.25, G:0.12, T:0.50
Consensus pattern (30 bp):
TCTGAGCTTTTTGTTCTCCATACCTCTCAT
Found at i:190772 original size:23 final size:23
Alignment explanation
Indices: 190753--190818 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
190743 AAGGACCGTG
* *
190753 TAGAAATGTCTCGAAAGACCACA
1 TAGAATTGTCTCGAAGGACCACA
190776 TAGAATTGTCTCGAAGGACCACA
1 TAGAATTGTCTCGAAGGACCACA
190799 TAGAATTGTCTCGAAGGACC
1 TAGAATTGTCTCGAAGGACC
190819 GCGTAAAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (23 bp):
TAGAATTGTCTCGAAGGACCACA
Found at i:190998 original size:16 final size:18
Alignment explanation
Indices: 190977--191015 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
190967 CTCATATATC
190977 CACATA-GAT-CATGTAA
1 CACATAGGATACATGTAA
190993 CACATAGGATGACATGTAA
1 CACATAGGAT-ACATGTAA
191012 CACA
1 CACA
191016 GAGCTCATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 3 0.15
19 11 0.55
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (18 bp):
CACATAGGATACATGTAA
Found at i:191597 original size:18 final size:19
Alignment explanation
Indices: 191574--191611 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
191564 TACCGATACC
191574 CATTT-CCCAAAACTTACT
1 CATTTACCCAAAACTTACT
191592 CATTTCAACCCAAAACTTAC
1 CATTT--ACCCAAAACTTAC
191612 CAAAACTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
21 12 0.71
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (19 bp):
CATTTACCCAAAACTTACT
Found at i:195767 original size:16 final size:16
Alignment explanation
Indices: 195746--195800 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
195736 CGTATTACCC
*
195746 GACCTGTTTTCAACCT
1 GACCTGTTTTTAACCT
*
195762 GACCTGTTTTTAAACT
1 GACCTGTTTTTAACCT
195778 GACCTGTTTTTAACCT
1 GACCTGTTTTTAACCT
195794 GACCTGT
1 GACCTGT
195801 AAATGATCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (16 bp):
GACCTGTTTTTAACCT
Found at i:196080 original size:14 final size:14
Alignment explanation
Indices: 196058--196104 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
196048 TGAAAAGGAA
*
196058 AATTAATATAGTTT
1 AATTTATATAGTTT
196072 AATTTATATA----
1 AATTTATATAGTTT
196082 AA-TTATATAGTTT
1 AATTTATATAGTTT
196095 AATTTATATA
1 AATTTATATA
196105 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:196091 original size:23 final size:24
Alignment explanation
Indices: 196057--196107 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
196047 ATGAAAAGGA
196057 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
196081 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
196104 AAAT
1 AAAT
196108 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:196444 original size:13 final size:14
Alignment explanation
Indices: 196428--196475 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
196418 TATACATACA
196428 TATTAT-ATAAAAT
1 TATTATAATAAAAT
196441 TATT-TAATAAAAT
1 TATTATAATAAAAT
*
196454 TATTAAAATATAAAT
1 TATTATAATA-AAAT
196469 TA-TATAA
1 TATTATAA
196476 AACATGATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 1 0.03
13 15 0.50
14 8 0.27
15 6 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTATAATAAAAT
Found at i:196466 original size:16 final size:16
Alignment explanation
Indices: 196446--196477 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
196436 AAAATTATTT
196446 AATA-AAATTAT-TAA
1 AATATAAATTATATAA
196460 AATATAAATTATATAA
1 AATATAAATTATATAA
196476 AA
1 AA
196478 CATGATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 7 0.44
16 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATATAAATTATATAA
Found at i:196793 original size:14 final size:14
Alignment explanation
Indices: 196770--196813 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
196760 TCCATTTATA
*
196770 TTAGGGTTTAGTGT
1 TTAGGGTTTAGAGT
* *
196784 TTATGGTTTAAAGT
1 TTAGGGTTTAGAGT
196798 TTAGGGTTTAGAGT
1 TTAGGGTTTAGAGT
196812 TT
1 TT
196814 CTATAAAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTAGAGT
Found at i:196903 original size:2 final size:2
Alignment explanation
Indices: 196896--196969 Score: 123
Period size: 2 Copynumber: 37.0 Consensus size: 2
196886 CTTTATAAAC
196896 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
196938 TA TA TA TA TA TA TA TA GTT TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
196970 CTTGGTTTAT
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 1 0.01
2 66 0.97
3 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:197356 original size:14 final size:14
Alignment explanation
Indices: 197337--197415 Score: 79
Period size: 14 Copynumber: 5.6 Consensus size: 14
197327 TTCATTTATA
197337 TTAGGGTTTAAGGT
1 TTAGGGTTTAAGGT
197351 TTAGGGTTT-AGTGT
1 TTAGGGTTTAAG-GT
* *
197365 TTATGGTTTAAAGT
1 TTAGGGTTTAAGGT
* *
197379 TTAGGATTTAGGGT
1 TTAGGGTTTAAGGT
***
197393 TTATATTTTAAGGT
1 TTAGGGTTTAAGGT
197407 TTAGGGTTT
1 TTAGGGTTT
197416 TTATAAAATT
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
13 2 0.04
14 47 0.94
15 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTAAGGT
Found at i:197361 original size:21 final size:21
Alignment explanation
Indices: 197338--197415 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
197328 TCATTTATAT
* **
197338 TAGGGTTTAAGGTTTAGGGTT
1 TAGGGTTTAGGGTTTAAAGTT
* *
197359 TAGTGTTTATGGTTTAAAGTT
1 TAGGGTTTAGGGTTTAAAGTT
* * *
197380 TAGGATTTAGGGTTTATATTT
1 TAGGGTTTAGGGTTTAAAGTT
*
197401 TAAGGTTTAGGGTTT
1 TAGGGTTTAGGGTTT
197416 TTATAAAATT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (21 bp):
TAGGGTTTAGGGTTTAAAGTT
Found at i:197505 original size:2 final size:2
Alignment explanation
Indices: 197500--197541 Score: 57
Period size: 2 Copynumber: 20.0 Consensus size: 2
197490 TTATATAAAC
*
197500 TA TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
197542 CTTGGTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 33 0.92
3 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:197521 original size:27 final size:28
Alignment explanation
Indices: 197466--197541 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 28
197456 ATAGTATTTC
* *
197466 TATAAACTATATA-AGTA-ATTTACTTTA
1 TATAAACTATATATA-TATATATACTATA
197493 TATAAACTATATATATATATATA-TATA
1 TATAAACTATATATATATATATACTATA
* * *
197520 TATATAGTTTATATATACTATA
1 TATAAACTATATATATA-TATA
197542 CTTGGTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 32 0.78
28 9 0.22
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (28 bp):
TATAAACTATATATATATATATACTATA
Found at i:197688 original size:572 final size:572
Alignment explanation
Indices: 196381--198088 Score: 2569
Period size: 572 Copynumber: 3.0 Consensus size: 572
196371 TAATTTACTT
* * * *
196381 TATATACTTTATATA-TATATATATACTATTCATGGTTTATACATACATATTATATAAAATTATT
1 TATATA-TATATATAGTTTATATATACTATACTTGGTTTATACATACATATTATATAAAATTATT
*
196445 TAATAAAA-T--T---ATTA---AAATATAAATTATATAAAACATGATTAATTAGGTGTTAAATA
65 TAATAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATA
*
196501 ATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATT
130 ATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTCCATT
* *
196566 TGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGACCATTTATTTTGTTGT
195 TGCATAATTAGTATTTTAGTTGCATATTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGT
* * * *
196631 TATGAATAAGTAATAATAAAA-CCAAAAATTAAGTCCATTTGCAATAGTGTTAGTCCATTTACAT
260 TATGAATAAGTAATAATAAAACCCAAAAA-TAAGTCAATTTACATTAGTGCTAGTCCATTTACAT
* * * *
196695 TAATTTACATAGGCTCAATACATAAGCCAACTCTTTTATTACAAATATATATGCATTAGTGCTAG
324 TAGTTTACATAGGCCCAATAC-TAAGCCCACTATTTTATTACAAATATATATGCATTAGTGCTAG
* * ** * * ** * **
196760 TCCATTTATATTAGGGTTT-AGTGTTTATGGTTTAAAGTTTAGGGTTTAGAGTTT-CTA-TAAAA
388 TCCATTTACATTAGGGTTTAAG-GTTTAGGGTTTAGTGTTTATGGTTTAAAGTTTAGGATTTAGG
* * * ** * * * * * * ***
196822 CTATATACTTT-A---TTA--CATTGTAT--AGTT-TATGC-ATAGTA-TTTCTATAAACTAT--
452 GTTTATAGTTTAAGGTTTAGGGTTTCTATAAAATTATATACTTTATTACTTTATATAGTTTATGC
196874 ATAAGTAATTTACTTTATAAACTATATATA-TATATATATA-TATATATATATATA-TATATATA
517 AT-AGT-ATTT-C--TATAAACTATATA-AGTA-AT-T-TACT-T-TATATA-A-ACTATATATA
196936 TATA
569 TATA
*
196940 TATATATATATATAGTTTATATATATTATACTTGGTTTATACATACATATTATATAAAATTATTT
1 TATATATATATATAGTTTATATATACTATACTTGGTTTATACATACATATTATATAAAATTATTT
197005 AATAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAA
66 AATAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAA
*
197070 TTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATA-TAATTTCATTT
131 TTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTCCATTT
*
197134 GCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTT
196 GCATAATTAGTATTTTAGTTGCATATTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTT
197199 ATGAATAAGTAATAATAAAACCCAAAAATAAGTCAATTTACATTAGTGCTAGTCCATTTACATTA
261 ATGAATAAGTAATAATAAAACCCAAAAATAAGTCAATTTACATTAGTGCTAGTCCATTTACATTA
*
197264 GTTTACATAGGCCCAATACATAAGCCCACTATTTTATTACAAATATATATGCATTAGTGCTAGTT
326 GTTTACATAGGCCCAATAC-TAAGCCCACTATTTTATTACAAATATATATGCATTAGTGCTAGTC
*
197329 CATTTATATTAGGGTTTAAGGTTTAGGGTTTAGTGTTTATGGTTTAAAGTTTAGGATTTAGGGTT
390 CATTTACATTAGGGTTTAAGGTTTAGGGTTTAGTGTTTATGGTTTAAAGTTTAGGATTTAGGGTT
* *
197394 TATATTTTAAGGTTTAGGGTTTTTATAAAATTATATACTTTATTACTTTATATAGTTTATGCATA
455 TATAGTTTAAGGTTTAGGGTTTCTATAAAATTATATACTTTATTACTTTATATAGTTTATGCATA
197459 GTATTTCTATAAACTATATAAGTAATTTACTTTATATAAACTATATATATATA
520 GTATTTCTATAAACTATATAAGTAATTTACTTTATATAAACTATATATATATA
197512 TATATATATATATAGTTTATATATACTATACTTGGTTTATACATACATATTATATAAAATTATTT
1 TATATATATATATAGTTTATATATACTATACTTGGTTTATACATACATATTATATAAAATTATTT
197577 AATAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAA
66 AATAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAA
197642 TTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTCCATTT
131 TTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTCCATTT
197707 GCATAATTAGTATTTTAGTTGCATATTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTT
196 GCATAATTAGTATTTTAGTTGCATATTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTT
*
197772 ATGAATAAGTAATAATAGAACCCAAAAATAAGTCAATTTACATTAGTGCTAGTCCATTTACATTA
261 ATGAATAAGTAATAATAAAACCCAAAAATAAGTCAATTTACATTAGTGCTAGTCCATTTACATTA
197837 GTTTACATAGGCCCAATACTAAGCCCACTATTTTATTACAAATATATATGCATTAGTGCTAGTCC
326 GTTTACATAGGCCCAATACTAAGCCCACTATTTTATTACAAATATATATGCATTAGTGCTAGTCC
*
197902 ATTTACATTAGGTTTTAAGGTTTAGGGTTTAGTGTTTATGGTTTAAAGTTTAGGATTTAGGGTTT
391 ATTTACATTAGGGTTTAAGGTTTAGGGTTTAGTGTTTATGGTTTAAAGTTTAGGATTTAGGGTTT
*
197967 ATGGTTTAAGGTTTAGGGTTTCTATAAAATTATATACTTTATTACTTTATATAGTTTATGCATAG
456 ATAGTTTAAGGTTTAGGGTTTCTATAAAATTATATACTTTATTACTTTATATAGTTTATGCATAG
198032 TATTTCTATAAACTATATAAGTAATTTACTTTATATAAACTATATATATATA
521 TATTTCTATAAACTATATAAGTAATTTACTTTATATAAACTATATATATATA
198084 CTATA
1 -TATA
198089 CATGGTTTAT
Statistics
Matches: 1067, Mismatches: 50, Indels: 50
0.91 0.04 0.04
Matches are distributed among these distances:
558 7 0.01
559 59 0.06
560 1 0.00
562 1 0.00
565 4 0.00
567 232 0.22
568 105 0.10
569 10 0.01
570 1 0.00
571 1 0.00
572 417 0.39
573 170 0.16
574 3 0.00
575 7 0.01
576 3 0.00
577 18 0.02
578 4 0.00
579 5 0.00
580 14 0.01
581 3 0.00
582 2 0.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (572 bp):
TATATATATATATAGTTTATATATACTATACTTGGTTTATACATACATATTATATAAAATTATTT
AATAAAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAA
TTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTCCATTT
GCATAATTAGTATTTTAGTTGCATATTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTT
ATGAATAAGTAATAATAAAACCCAAAAATAAGTCAATTTACATTAGTGCTAGTCCATTTACATTA
GTTTACATAGGCCCAATACTAAGCCCACTATTTTATTACAAATATATATGCATTAGTGCTAGTCC
ATTTACATTAGGGTTTAAGGTTTAGGGTTTAGTGTTTATGGTTTAAAGTTTAGGATTTAGGGTTT
ATAGTTTAAGGTTTAGGGTTTCTATAAAATTATATACTTTATTACTTTATATAGTTTATGCATAG
TATTTCTATAAACTATATAAGTAATTTACTTTATATAAACTATATATATATA
Found at i:197930 original size:7 final size:7
Alignment explanation
Indices: 197909--197987 Score: 77
Period size: 7 Copynumber: 11.3 Consensus size: 7
197899 TCCATTTACA
*
197909 TTAGGTT
1 TTAGGGT
*
197916 TTAAGGT
1 TTAGGGT
197923 TTAGGGT
1 TTAGGGT
*
197930 TTAGTGT
1 TTAGGGT
*
197937 TTATGGT
1 TTAGGGT
**
197944 TTAAAGT
1 TTAGGGT
*
197951 TTAGGAT
1 TTAGGGT
197958 TTAGGGT
1 TTAGGGT
*
197965 TTATGGT
1 TTAGGGT
*
197972 TTAAGGT
1 TTAGGGT
197979 TTAGGGT
1 TTAGGGT
197986 TT
1 TT
197988 CTATAAAATT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.49
Consensus pattern (7 bp):
TTAGGGT
Found at i:197932 original size:14 final size:14
Alignment explanation
Indices: 197909--197987 Score: 88
Period size: 14 Copynumber: 5.6 Consensus size: 14
197899 TCCATTTACA
*
197909 TTAGGTTTTAAGGT
1 TTAGGGTTTAAGGT
197923 TTAGGGTTT-AGTGT
1 TTAGGGTTTAAG-GT
* *
197937 TTATGGTTTAAAGT
1 TTAGGGTTTAAGGT
* *
197951 TTAGGATTTAGGGT
1 TTAGGGTTTAAGGT
*
197965 TTATGGTTTAAGGT
1 TTAGGGTTTAAGGT
197979 TTAGGGTTT
1 TTAGGGTTT
197988 CTATAAAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
13 2 0.04
14 49 0.94
15 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TTAGGGTTTAAGGT
Found at i:197947 original size:28 final size:28
Alignment explanation
Indices: 197915--197987 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
197905 TACATTAGGT
*
197915 TTTAAGGTTTAGGGTTTAGTGTTTATGG
1 TTTAAGGTTTAGGGTTTAGGGTTTATGG
* *
197943 TTTAAAGTTTAGGATTTAGGGTTTATGG
1 TTTAAGGTTTAGGGTTTAGGGTTTATGG
197971 TTTAAGGTTTAGGGTTT
1 TTTAAGGTTTAGGGTTT
197988 CTATAAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (28 bp):
TTTAAGGTTTAGGGTTTAGGGTTTATGG
Found at i:198339 original size:20 final size:20
Alignment explanation
Indices: 198296--198342 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
198286 TTTATAGATT
* *
198296 ACTATATTAGTATACTATAT
1 ACTATATTAATATACTATAA
*
198316 ACTATATTAATATATTATAA
1 ACTATATTAATATACTATAA
198336 ACTATAT
1 ACTATAT
198343 AGTTTTATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (20 bp):
ACTATATTAATATACTATAA
Done.