Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006520.1 Hibiscus syriacus cultivar Beakdansim tig00015886_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: 75376
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:2523 original size:15 final size:16
Alignment explanation
Indices: 2503--2534 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2493 ATTATGTCAT
2503 CGACATAA-ACTAACA
1 CGACATAATACTAACA
2518 CGACATAATACTAACA
1 CGACATAATACTAACA
2534 C
1 C
2535 ATACATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (16 bp):
CGACATAATACTAACA
Found at i:15716 original size:34 final size:29
Alignment explanation
Indices: 15682--15740 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 29
15672 TTTACAAAAG
15682 AAAGAAAAGAATGATTGAATTTTTTTTCTC
1 AAAGAAAAGAATGATTG-ATTTTTTTTCTC
15712 AAAGAAAAGAATGATTGATTTTTTTTCTC
1 AAAGAAAAGAATGATTGATTTTTTTTCTC
15741 TTGTGTATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.41
Consensus pattern (29 bp):
AAAGAAAAGAATGATTGATTTTTTTTCTC
Found at i:23737 original size:182 final size:182
Alignment explanation
Indices: 23111--24632 Score: 2612
Period size: 182 Copynumber: 8.4 Consensus size: 182
23101 TTTTACATTT
* * *
23111 TTTAAAAGAAAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
23176 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACATGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
** *
23241 CAATTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
23293 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTTGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
23357 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCAAAATGAC-AAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
23421 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
23471 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
*
23535 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACATGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
23600 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
23653 TTTAAAAAAGAATAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
23718 AACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
23783 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
23835 TTTAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * * *
23900 AACAATATAACAAGTAAAAATATGACAAAATCGGTTTCTAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
23965 CAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
24017 TTTAAAAAAGAAG-AGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
24081 AACAATATAATATGTAAAAATATGACAAAACCGATCTCGAAATGGCAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
24146 CGATTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
24196 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
*
24260 TAACAATATAACATGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
*
24325 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTAGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
24378 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * * *
24443 AACAATATAACAAGTAATAATATGATAAAACCGGTCTCGAAATGACAAAATAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
24508 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTAGCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
24560 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
24625 AACAATAT
66 AACAATAT
24633 TGTTGAAAAC
Statistics
Matches: 1267, Mismatches: 62, Indels: 22
0.94 0.05 0.02
Matches are distributed among these distances:
177 4 0.00
178 22 0.02
179 111 0.09
180 260 0.21
181 237 0.19
182 625 0.49
183 8 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:24257 original size:543 final size:545
Alignment explanation
Indices: 23111--24632 Score: 2630
Period size: 543 Copynumber: 2.8 Consensus size: 545
23101 TTTTACATTT
* * *
23111 TTTAAAAGAAAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
23176 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACATGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
23241 C-AATTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAA
131 CGGA-TATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
*
23305 G-AGTTATAGCGCCAATAAAGTGTTGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
195 GAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
*
23369 TGTAAAAATATGACAAAACCGGTCTCAAAATGAC-AAACAGGTAAAGCGCTACCGGTTATGTTGA
260 AGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGA
23433 AAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGCG
325 AAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAAGAAGTTATAGCG
* *
23495 CCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
389 TCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
* * *
23560 ACAAAACCGGTCTCGAAATGACAAAACATGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAA
454 ACAAAACCGATCTCGAAATGACAAAACAGGTAAAGCGCTACCGATTATGTTGAAAGTGTCGATAA
23625 TTTATTATAAGTATCGACACTTTTGGAA
519 TTTATTATAAGTATCGA-ACTTTTGGAA
* * *
23653 TTTAAAAAAGAATAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
23718 AACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
23783 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
*
23848 AAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAA
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAA
* * * *
23913 GTAAAAATATGACAAAATCGGTTTCTAAATGACAAAACAGGTAAAGCGCTACCAGTTATGTTGAA
261 GTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
* *
23978 AGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAAAGAAG-AGTTATAGCGTC
326 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGTC
*
24042 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATATGTAAAAATATGAC
391 AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
*
24107 AAAACCGATCTCGAAATGGCAAAACAGGTAAAGCGCTACCGATTATGTTGAAAGTGTCGATAATT
456 AAAACCGATCTCGAAATGACAAAACAGGTAAAGCGCTACCGATTATGTTGAAAGTGTCGATAATT
24172 TATTATAAGTATCG-ACTTTTGGAA
521 TATTATAAGTATCGAACTTTTGGAA
*
24196 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
24260 TAACAATATAACATGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
* *
24325 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTAGAATTTAAAAGAGAA
130 CCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAA
24390 GAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
195 GAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACA
* * * *
24455 AGTAATAATATGATAAAACCGGTCTCGAAATGACAAAATAGGTAAAGCGCTACCGGTTATGTTGA
260 AGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGA
*
24520 AAGTGTCGATAATTTATTATAAGTAGCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGT
325 AAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGT
24585 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAT
390 CAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAT
24633 TGTTGAAAAC
Statistics
Matches: 927, Mismatches: 45, Indels: 14
0.94 0.05 0.01
Matches are distributed among these distances:
542 186 0.20
543 456 0.49
544 115 0.12
545 149 0.16
546 17 0.02
547 4 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (545 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAA
GTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGTC
AATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAC
AAAACCGATCTCGAAATGACAAAACAGGTAAAGCGCTACCGATTATGTTGAAAGTGTCGATAATT
TATTATAAGTATCGAACTTTTGGAA
Found at i:24500 original size:725 final size:724
Alignment explanation
Indices: 23111--24632 Score: 2756
Period size: 725 Copynumber: 2.1 Consensus size: 724
23101 TTTTACATTT
* *
23111 TTTAAAAGAAAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
23176 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACATGTAAAGCGCTAC
66 AACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
23241 CAATTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CAATTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAAAGAAG
*
23306 AGTTATAGCGCCAATAAAGTGTTGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
196 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
* *
23371 TAAAAATATGACAAAACCGGTCTCAAAATGACAAACAGGTAAAGCGCTACCGGTTATGTTGAAAG
261 TAAAAATATGACAAAACCGATCTCAAAATGACAAACAGGTAAAGCGCTACCGATTATGTTGAAAG
23436 TGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAATA
326 TGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAATA
23501 ACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAA
391 ACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAA
*
23566 CCGGTCTCGAAATGACAAAACATGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATT
456 CCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATT
* * *
23631 ATAAGTATCGACACTTTTGGAATTTAAAAAAGAATAAGTTATAGCGCCAATAAAGTGTCGATATT
521 ATAAGTATCGACACTTTTAGAATTTAAAAAAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACT
* *
23696 TTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAAT
586 TTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAAT
*
23761 GACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACA
651 GACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTAGCGACA
23826 CTTTTGGAA
716 CTTTTGGAA
* *
23835 TTTAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
23900 AACAATATAACAAGTAAAAATATGACAAAATCGGTTTCTAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
23965 CAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAAAGAAG
131 CAATTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAAAGAAG
* *
24030 AGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATATG
196 AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
* *
24095 TAAAAATATGACAAAACCGATCTCGAAATGGCAAAACAGGTAAAGCGCTACCGATTATGTTGAAA
261 TAAAAATATGACAAAACCGATCTCAAAATGAC-AAACAGGTAAAGCGCTACCGATTATGTTGAAA
24160 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
325 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAAT
24225 AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
390 AACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAA
*
24290 ATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTAT
455 ACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTAT
*
24355 TATAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATAC
520 TATAAGTATCGACACTTTTAGAATTTAAAAAAGAAGAAGTTATAGCGCCAATAAAGTGTCGATAC
* *
24420 TTTATAAAAATGTATCGATCCATAACAATATAACAAGTAATAATATGATAAAACCGGTCTCGAAA
585 TTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAA
* *
24485 TGACAAAATAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTAGCGAC
650 TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTAGCGAC
24550 ACTTTTGGAA
715 ACTTTTGGAA
24560 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
24625 AACAATAT
66 AACAATAT
24633 TGTTGAAAAC
Statistics
Matches: 764, Mismatches: 33, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
724 275 0.36
725 489 0.64
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (724 bp):
TTTAAAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CAATTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAAAGAAG
AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
TAAAAATATGACAAAACCGATCTCAAAATGACAAACAGGTAAAGCGCTACCGATTATGTTGAAAG
TGTCGATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAATA
ACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAA
CCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATTTATT
ATAAGTATCGACACTTTTAGAATTTAAAAAAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACT
TTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAAT
GACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTAGCGACA
CTTTTGGAA
Found at i:24963 original size:19 final size:19
Alignment explanation
Indices: 24939--24977 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24929 TCGAATGCAT
24939 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
24958 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
24977 T
1 T
24978 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:25077 original size:64 final size:65
Alignment explanation
Indices: 24925--25085 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
24915 GAATTAATTG
* * *** * *
24925 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCGATGCACTCAGAATATTTTCAA
* *
24990 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATACATCGATGCA-TCAGGATATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCGATGCACTCAGAATA-TTTTCA
25053 A
65 A
*
25054 AACATCGAATGTATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
25086 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCGATGCACTCAGAATATTTTCAA
Found at i:25100 original size:64 final size:64
Alignment explanation
Indices: 24877--25105 Score: 214
Period size: 64 Copynumber: 3.5 Consensus size: 64
24867 ATTCAAAGGT
* * * *
24877 ATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCGAATGCAT
1 ATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCAT
*
24939 TCC
62 TTC
* * * *
24942 ATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTG
1 ATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTTC
** * * *
25007 ATGCATCGATGCACAAGCCATACATCGATGCATCAGGATATTTTTC-AAACATCGAATGTATTTC
1 ATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTTC
*** *
25071 ATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 ATGCATCGATGCACACTCCATGCATCGATGCATCA
25106 AGTGTTCCAA
Statistics
Matches: 136, Mismatches: 23, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
63 6 0.04
64 68 0.50
65 62 0.46
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (64 bp):
ATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTTC
Found at i:31930 original size:21 final size:21
Alignment explanation
Indices: 31888--31931 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
31878 ACCCCGGGAG
*
31888 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
31909 CTAGTTCTTCTCGCGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
31930 CT
1 CT
31932 CCTCCTCCAG
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:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:32981 original size:19 final size:19
Alignment explanation
Indices: 32957--32995 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
32947 TCGAATGCAT
32957 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
32976 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
32995 T
1 T
32996 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:33012 original size:65 final size:64
Alignment explanation
Indices: 32895--33103 Score: 219
Period size: 65 Copynumber: 3.2 Consensus size: 64
32885 ATTCAAAGGT
* ** *
32895 ATGCACCGATGCATC-AGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCGAATGCAT
1 ATGCATCGATGCA-CAAG-CCATGCATCGATGCATC-A-GAATATTTTTCAAACATCGAATGCAT
*
32957 TCC
62 TTC
* *** *
32960 ATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAAACATCGAATGCATTT
1 ATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGAATATTTTTC-AAACATCGAATGCATTT
*
33024 G
64 C
**
33025 ATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGAATGCATTTC
1 ATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTTC
33089 ATGCATCGATGCACA
1 ATGCATCGATGCACA
33104 CTTGGTGCAC
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
63 6 0.05
64 53 0.43
65 63 0.52
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTTC
Found at i:33118 original size:64 final size:64
Alignment explanation
Indices: 32895--33123 Score: 223
Period size: 64 Copynumber: 3.5 Consensus size: 64
32885 ATTCAAAGGT
* * * *
32895 ATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCGAATGCAT
1 ATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCAT
*
32957 TCC
62 TTC
* * * *
32960 ATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTG
1 ATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTTC
** **
33025 ATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGAATGCATTTC
1 ATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTTC
*** *
33089 ATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 ATGCATCGATGCACACTCCATGCATCGATGCATCA
33124 AGTGTTCCAA
Statistics
Matches: 138, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
63 6 0.04
64 69 0.50
65 63 0.46
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTTC
Found at i:34108 original size:179 final size:182
Alignment explanation
Indices: 33808--34215 Score: 732
Period size: 179 Copynumber: 2.3 Consensus size: 182
33798 TAACTCAACA
*
33808 AATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
1 AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
33873 ATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAAT-A-AG-AGAAG
66 ATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAGAAG
33935 TTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
131 TTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
33987 AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
1 AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
34052 ATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAGAAG
66 ATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAGAAG
*
34117 TTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAT
131 TTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
* * * **
34169 AATATAACATGTAAAAATATGATAAAACCGGTTTATAAATGACAAAA
1 AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
34216 GGTGAACGCA
Statistics
Matches: 219, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
179 118 0.54
180 1 0.00
181 2 0.01
182 98 0.45
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
ATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTAATAAGAGAAGAAG
TTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAAC
Found at i:34421 original size:23 final size:23
Alignment explanation
Indices: 34351--34412 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
34341 AAATAGGTCA
*
34351 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTATCTATTACATT
*
34374 ATATAAGCGATATCTATTACATT
1 ATATAAGCGCTATCTATTACATT
34397 ATATAAGCGCTATCTA
1 ATATAAGCGCTATCTA
34413 ATATGTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTATCTATTACATT
Found at i:34469 original size:87 final size:87
Alignment explanation
Indices: 34371--34536 Score: 296
Period size: 87 Copynumber: 1.9 Consensus size: 87
34361 TACCTATTAC
*
34371 ATTATATAAGCGATATCTATTACATTATATAAGCGCTATCTAATATGTTATTGTACTTGATAATA
1 ATTATATAAGCGATATCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATA
*
34436 TTTCTGGTTAAATACTTATTTT
66 TTTCCGGTTAAATACTTATTTT
* *
34458 ATTATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATA
1 ATTATATAAGCGATATCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATA
34523 TTTCCGGTTAAATA
66 TTTCCGGTTAAATA
34537 ATATAACATA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (87 bp):
ATTATATAAGCGATATCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATA
TTTCCGGTTAAATACTTATTTT
Found at i:34508 original size:23 final size:23
Alignment explanation
Indices: 34458--34502 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
34448 TACTTATTTT
* *
34458 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
34481 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
34503 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:39142 original size:16 final size:17
Alignment explanation
Indices: 39114--39145 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
39104 CATCTTTAGA
39114 GTAGAGATAGAGATGAT
1 GTAGAGATAGAGATGAT
39131 GTAGAG-TAGAGATGA
1 GTAGAGATAGAGATGA
39146 GGACTGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.22
Consensus pattern (17 bp):
GTAGAGATAGAGATGAT
Found at i:44182 original size:3 final size:3
Alignment explanation
Indices: 44174--44212 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
44164 GATCTTAAAA
44174 TAT TAT TAT TAT TAT TAT TAT TA- TAT TAAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT T
44213 TTTGTAGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:44931 original size:30 final size:28
Alignment explanation
Indices: 44853--44932 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 28
44843 AAAGAGGGAG
* * *
44853 AAAAAAAAAAGAAAAAACGAGGGGAATAC
1 AAAAAAAAAA-AAAAAAGGAGAGAAATAC
* *
44882 AAAAAAAAAAAGAACAGGAGAGAAATAC
1 AAAAAAAAAAAAAAAAGGAGAGAAATAC
44910 AAATAAAAAAAACAAAAAGGAGA
1 AAA-AAAAAAAA-AAAAAGGAGA
44933 TTGAAACCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 16 0.38
29 18 0.43
30 8 0.19
ACGTcount: A:0.72, C:0.06, G:0.17, T:0.04
Consensus pattern (28 bp):
AAAAAAAAAAAAAAAAGGAGAGAAATAC
Found at i:51302 original size:21 final size:21
Alignment explanation
Indices: 51276--51345 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
51266 CATATTCGCA
51276 TTGCGATAGTCGAAGTTTGCG
1 TTGCGATAGTCGAAGTTTGCG
* *
51297 TTGCGATTTATTCCAAG-TT-CG
1 TTGCGA--TAGTCGAAGTTTGCG
*
51318 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTTGCG
51339 TTGCGAT
1 TTGCGAT
51346 TTATTCCAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
19 7 0.17
20 1 0.03
21 23 0.57
22 2 0.05
23 7 0.17
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.36
Consensus pattern (21 bp):
TTGCGATAGTCGAAGTTTGCG
Found at i:51327 original size:42 final size:42
Alignment explanation
Indices: 51276--51444 Score: 239
Period size: 42 Copynumber: 4.0 Consensus size: 42
51266 CATATTCGCA
* *
51276 TTGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
51318 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * * * *
51360 TTGCGATTTATTCTAAGTTCGTGTTGCGATTTATTCTAAATTCA
1 TTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
51404 TTGCGATAGTCGAAGTTCGCGTTGTGATTTATTTCAAATTC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
51445 TTCCAAGTTC
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 75 0.67
44 37 0.33
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:51361 original size:21 final size:21
Alignment explanation
Indices: 51295--51410 Score: 119
Period size: 21 Copynumber: 5.4 Consensus size: 21
51285 TCGAAGTTTG
51295 CGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAGTT
* *
51316 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAGTT
*
51335 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAGTT
*
51358 CGTTGCGATTTATTCTAAGTT
1 CGTTGCGATTTATTCCAAGTT
* *
51379 CGTGTTGCGATTTATTCTAAATT
1 C--GTTGCGATTTATTCCAAGTT
*
51402 CATTGCGAT
1 CGTTGCGAT
51411 AGTCGAAGTT
Statistics
Matches: 80, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
19 9 0.11
21 43 0.54
23 28 0.35
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAGTT
Found at i:52132 original size:12 final size:11
Alignment explanation
Indices: 52100--52135 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
52090 TCTCGTCTCG
52100 GGTCGGGTCG-
1 GGTCGGGTCGT
52110 GGTCGGGTCGT
1 GGTCGGGTCGT
52121 GGTCGTGGTCGT
1 GGTCG-GGTCGT
52133 GGT
1 GGT
52136 AATACGTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.00, C:0.17, G:0.56, T:0.28
Consensus pattern (11 bp):
GGTCGGGTCGT
Found at i:52135 original size:6 final size:5
Alignment explanation
Indices: 52097--52131 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
52087 CCGTCTCGTC
52097 TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG
52132 TGGTAATACG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.00, C:0.20, G:0.54, T:0.26
Consensus pattern (5 bp):
TCGGG
Found at i:52258 original size:20 final size:20
Alignment explanation
Indices: 52233--52326 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 20
52223 TTTTGGACTA
*
52233 TCGCATCGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
***
52253 TCGCATTGCGATAGCCGACTA-
1 TCGCATTGCGATTTAC-A-TAT
*
52274 TCGCATTACGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
52294 TCGCATTGCGATAGTACA-AGT
1 TCGCATTGCGAT-TTACATA-T
52315 TCGCATTGCGAT
1 TCGCATTGCGAT
52327 AGTCGAAGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
19 2 0.03
20 25 0.42
21 30 0.51
22 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:52274 original size:41 final size:41
Alignment explanation
Indices: 52228--52307 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
52218 TGCGATTTTG
*
52228 GACTATCGCATCGCGATTTACATATTCGCATTGCGATAGCC
1 GACTATCGCATCACGATTTACATATTCGCATTGCGATAGCC
*
52269 GACTATCGCATTACGATTTACATATTCGCATTGCGATAG
1 GACTATCGCATCACGATTTACATATTCGCATTGCGATAG
52308 TACAAGTTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (41 bp):
GACTATCGCATCACGATTTACATATTCGCATTGCGATAGCC
Found at i:52317 original size:21 final size:21
Alignment explanation
Indices: 52293--52346 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
52283 GATTTACATA
52293 TTCGCATTGCGATAGTAC-AAG
1 TTCGCATTGCGATAGT-CGAAG
52314 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
*
52335 TTCGCGTTGCGA
1 TTCGCATTGCGA
52347 ATCTGGAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCGAAG
Found at i:52319 original size:41 final size:41
Alignment explanation
Indices: 52229--52326 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
52219 GCGATTTTGG
** * *
52229 ACTATCGCATCGCGATTTACATATTCGCATTGCGATAGCCG
1 ACTATCGCATTACGATTTACATATTCGCATTGCGATAGACA
52270 ACTATCGCATTACGATTTACATATTCGCATTGCGATAGTACA
1 ACTATCGCATTACGATTTACATATTCGCATTGCGATAG-ACA
* *
52312 AGT-TCGCATTGCGAT
1 ACTATCGCATTACGAT
52327 AGTCGAAGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 47 0.94
42 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (41 bp):
ACTATCGCATTACGATTTACATATTCGCATTGCGATAGACA
Found at i:52694 original size:22 final size:22
Alignment explanation
Indices: 52644--52705 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
52634 TACTCTTTTT
* *
52644 AAATTTTCATATAAT-TTATTA
1 AAATTTTAATATTATATTATTA
*
52665 ATAA-TTTAATATTATATTGTTA
1 A-AATTTTAATATTATATTATTA
*
52687 AAATTTTAAAATATATATT
1 AAATTTTAATAT-TATATT
52706 TTTTATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 12 0.36
22 15 0.45
23 6 0.18
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATTTTAATATTATATTATTA
Found at i:54681 original size:2 final size:2
Alignment explanation
Indices: 54674--54719 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
54664 TACAAATCAA
54674 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
54716 AT AT
1 AT AT
54720 GATTGGGTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60220 original size:30 final size:31
Alignment explanation
Indices: 60186--60267 Score: 123
Period size: 30 Copynumber: 2.7 Consensus size: 31
60176 TAGAAAATAA
*
60186 TTTACGTAAAATGAATTA-ACTGAAACTTG-T
1 TTTACGTAAAATGAATTATA-TGAAAATTGTT
*
60216 TTTACATAAAATGAATTATATGAAAATTGTT
1 TTTACGTAAAATGAATTATATGAAAATTGTT
60247 TTTACGTAAAATGAATTATAT
1 TTTACGTAAAATGAATTATAT
60268 TTTTTGGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
30 25 0.53
31 22 0.47
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (31 bp):
TTTACGTAAAATGAATTATATGAAAATTGTT
Found at i:63998 original size:27 final size:27
Alignment explanation
Indices: 63968--64021 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
63958 CACATTTACA
63968 TATACAACAAGCAAGCGTTTTATCAGG
1 TATACAACAAGCAAGCGTTTTATCAGG
63995 TATACAACAAGCAAGCGTTTTATCAGG
1 TATACAACAAGCAAGCGTTTTATCAGG
64022 AAAAGAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
TATACAACAAGCAAGCGTTTTATCAGG
Found at i:67787 original size:12 final size:12
Alignment explanation
Indices: 67770--67796 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
67760 TGATATACAT
67770 ATATATTTTTTC
1 ATATATTTTTTC
67782 ATATATTTTTTC
1 ATATATTTTTTC
67794 ATA
1 ATA
67797 CGCAATATAT
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:0.00, T:0.63
Consensus pattern (12 bp):
ATATATTTTTTC
Found at i:68796 original size:2 final size:2
Alignment explanation
Indices: 68789--68819 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
68779 CTATTTCGAC
68789 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
68820 GTCGAGCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:70758 original size:6 final size:6
Alignment explanation
Indices: 70747--70778 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
70737 GCAGCTATTG
70747 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CA
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CA
70779 TGCTATGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (6 bp):
CAGCAA
Done.