Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006300.1 Hibiscus syriacus cultivar Beakdansim tig00015058_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: 51872
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Found at i:266 original size:14 final size:14
Alignment explanation
Indices: 247--273 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
237 TAAAGTGATG
247 AATAAAACACACAC
1 AATAAAACACACAC
261 AATAAAACACACA
1 AATAAAACACACA
274 ACACACACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.26, G:0.00, T:0.07
Consensus pattern (14 bp):
AATAAAACACACAC
Found at i:293 original size:2 final size:2
Alignment explanation
Indices: 288--350 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
278 ACACACACAC
288 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
330 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
351 ATAAGAGTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1765 original size:23 final size:23
Alignment explanation
Indices: 1715--1781 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
1705 CTTTACAATA
* *
1715 AAGCACTACTTATTACATTATA-
1 AAGCGCTACCTATTACATTATAT
1737 AA-CGCTACCTATTACATTATAT
1 AAGCGCTACCTATTACATTATAT
*
1759 AAGCGCTACCTATTACATCATAT
1 AAGCGCTACCTATTACATTATAT
1782 TTTACCTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 17 0.43
22 4 0.10
23 19 0.47
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.34
Consensus pattern (23 bp):
AAGCGCTACCTATTACATTATAT
Found at i:2165 original size:23 final size:23
Alignment explanation
Indices: 2139--2201 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2129 ATATAACCAC
2139 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2162 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2185 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2202 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2536 original size:20 final size:20
Alignment explanation
Indices: 2511--2549 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2501 TCCACAGTGA
*
2511 AAAAAGTATAGACACTTTAT
1 AAAAAGAATAGACACTTTAT
*
2531 AAAAAGAATAGATACTTTA
1 AAAAAGAATAGACACTTTA
2550 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (20 bp):
AAAAAGAATAGACACTTTAT
Found at i:2593 original size:22 final size:23
Alignment explanation
Indices: 2565--2622 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
2555 TAACCACTAG
*
2565 CTATTACATTATATAA-TGATAC
1 CTATTACATTATATAAGCGATAC
*
2587 CTATTAC-TTATATAAGCGCTAC
1 CTATTACATTATATAAGCGATAC
*
2609 CTATTACATCATAT
1 CTATTACATTATAT
2623 TTTTACCTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.26
22 18 0.58
23 5 0.16
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (23 bp):
CTATTACATTATATAAGCGATAC
Found at i:2868 original size:418 final size:423
Alignment explanation
Indices: 1553--3810 Score: 3575
Period size: 418 Copynumber: 5.4 Consensus size: 423
1543 TGTTTATTGT
*
1553 TTTTAATTTAATAATAATATATTGTAACGTAAAAAAAATCATTAGACG-CTATAATTACTAAATT
1 TTTTAATTTAATAATAATATATCGTAACGTAAAAAAAATCATTAGACGCCTATAATTACTAAATT
1617 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT-G
66 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAG
* * *
1681 AACACTTT-TATAAAAGGATAGATACTTTACAATA-AAGCACTACTTATTACA-T-TATAAACGC
131 -ACACTTTATA-AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGA
1742 TACCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAGTGTC
194 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
1806 CATACTTTTTTATAAAAATGATCGATAC-TCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTT
259 CATAC-TTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
* *
1869 TTAATAGTGTTTCATGTTTTCCACCCACAATATTAATTTAATAATTTCA-TTCCAC-AAAAATTA
323 TTAATAGTGTTTCATGTTTTCCA-CTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA
*
1932 TTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
387 TTTGATTG-TTTGATATTTGATAAAATAATATTTAGAA
1970 TTTTTAATTTAATAATAATATATCGTAACGT--AAAAAATCATTAGACGCCTATAATTACTAAAT
1 -TTTTAATTTAATAATAATATATCGTAACGTAAAAAAAATCATTAGACGCCTATAATTACTAAAT
*
2033 TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATA
65 TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATA
2098 GACACTTT-TATAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGA
130 GACACTTTATA-AAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGA
*
2162 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATC
194 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
2227 CATACTTTTTATAAAAAATGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAATTTTT
259 CATACTTTTTAT-AAAAATGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATTTTT
*
2291 TTTAATAGTGTTTCATGTTTTCC-CTACAATATTAA-TTAATAATTTCATTTGCACAAAAAATTA
322 TTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA
*
2354 TTTGATTGTTTTTGATATTTTATAAAATAATATTTAGAA
387 TTTGATTG--TTTGATATTTGATAAAATAATATTTAGAA
*
2393 TTTTAATTT-A-AATAATATATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAA
1 TTTTAATTTAATAATAATATATCGTAACGT-AAAAA-AAATCATTAGACGCCTATAATTACTAAA
* *
2456 TTAATATCCTAAAACTCACTC-AAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTAT
64 TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
* * *
2520 AGACACTTTATAAAAAGAATAGATACTTTACAATATAACCACTAGCTATTACATTATAT-AATGA
129 AGACACTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGA
*
2584 TACCTATTAC-TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTT
194 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
*
2648 CATACTTTTTAT-AAAAGGATCGATACTTCTTTT-AAGTTATGTAATTTATGTTTCAATTTTTTT
259 CATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
*
2711 TAATAGTGTTTCATGTTTTCCACTACAATATTAATTTAATAATTTCATTTACACAAAAAAATATT
324 TAATAGTGTTTCATGTTTTCCACTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATT
*
2776 TAATTGTTTGATATTTGAT-AAATAATATTTAGAA
389 TGATTGTTTGATATTTGATAAAATAATATTTAGAA
*
2810 TTTTTAATTTAATAAT-ATATATCGTAACGTAAAAAATAATCATTAGACGCTTATAATTACTAAA
1 -TTTTAATTTAATAATAATATATCGTAACGTAAAAAA-AATCATTAGACGCCTATAATTACTAAA
2874 TTAATATC-TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG--T
64 TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
*
2936 AGACA-TTTTTAAAAAAGGATAGATACTTTACAATATAACCACTACCTATTAC-TTATATAAACG
129 AGACACTTTAT-AAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACG
2999 -TACCTA-TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
193 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
*
3062 CCATACTTTTTTAAAAAAATGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAA--TT
258 CCATAC-TTTTTATAAAAATGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATTTT
*
3124 TTTTAATAATG-TT--TGTTTTCCACTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
321 TTTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
*
3186 ATTTGATTGTTTAATA-TTGAT-AAATAATATTTAGAA
386 ATTTGATTGTTTGATATTTGATAAAATAATATTTAGAA
*
3222 TTTTAATTTAAATAAT-ATATATCGTAACGT--AAAAAATCATTAGAAGCCTATAATTACTAAAT
1 TTTTAATTT-AATAATAATATATCGTAACGTAAAAAAAATCATTAGACGCCTATAATTACTAAAT
*
3284 TAATATCTTAAAACTCACTCAAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
65 TAATATCTTAAAACTCACTC-AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
*
3349 AGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAATG
129 AGACAC-TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACG
* *
3414 ATACCTATTACATT-TATAAGCACTACCTATT--ATC--ATTTTTACATATTATATTGAAAGTGT
193 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
*
3474 CCATACTTTTTATAAAAAGGATCGATA--TCTTTTAAAGTTATGTAA-TTATGTTTCAATTTTTT
258 CCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTT
3536 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAATT
322 TTTAATAGTGTTTCATGTTTTCCA-CTACAATATTAATTTAATAATTTCATTTACACAAAAAATT
3600 ATTTGATTGTTTGATATTTGATAAAATAATA-TTA-AA
386 ATTTGATTGTTTGATATTTGATAAAATAATATTTAGAA
3636 TTTT-ATTTAATAATATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
1 TTTTAATTTAATAATA-ATATATCGTAACGT-AAAAA-AAATCATTAGACGCCTATAATTACTAA
*
3700 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAATA
63 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTA
*
3765 TAGACACTTTTATAAAAAGGATAGATATTTTACAATATAACCACTA
128 TAGACAC-TTTATAAAAAGGATAGATACTTTACAATATAACCACTA
3811 TGTTGGGATT
Statistics
Matches: 1730, Mismatches: 51, Indels: 119
0.91 0.03 0.06
Matches are distributed among these distances:
408 11 0.01
409 49 0.03
410 17 0.01
411 80 0.05
412 79 0.05
413 72 0.04
414 98 0.06
415 130 0.08
416 113 0.07
417 252 0.15
418 265 0.15
419 46 0.03
420 121 0.07
421 126 0.07
422 67 0.04
423 155 0.09
424 49 0.03
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (423 bp):
TTTTAATTTAATAATAATATATCGTAACGTAAAAAAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAG
ACACTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATA
CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
TACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTA
ATAGTGTTTCATGTTTTCCACTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG
ATTGTTTGATATTTGATAAAATAATATTTAGAA
Found at i:2919 original size:841 final size:832
Alignment explanation
Indices: 1553--3810 Score: 3668
Period size: 841 Copynumber: 2.7 Consensus size: 832
1543 TGTTTATTGT
*
1553 TTTTAATTTAATAATAATATATTGTAACGTAAAAAAAATCATTAGACGCTATAATTACTAAATTA
1 TTTTAATTT-A-AATAATATATCGTAACGTAAAAAAAATCATTAGACGCTATAATTACTAAATTA
1618 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT-GA
64 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAG-
* * *
1682 ACACTTT-TATAAAAGGATAGATACTTTACAATA-AAGCACTACTTATTACATTATA-AACGCTA
128 ACACTTTATA-AAAAGGATAGATACTTTACAATATAACCACTAC-TATTACATTATATAATGATA
1744 CCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAGTGTCCA
191 CCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCA
*
1808 TACTTTTTTATAAAAATGATCGATACTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTA
256 TAC-TTTTTATAAAAAGGATCGATACTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTA
* *
1872 ATAGTGTTTCATGTTTTCCACCCACAATATTAATTTAATAATTTCA-TTCCACAAAAATTATTTG
320 ATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTATTTG
*
1936 ATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATCGTAACGT
385 ATTG-TTTGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAAT-ATATATCGTAACGT
2001 --AAAA-AATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAAC
448 AAAAAATAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAAC
2063 CTTAAATTAATGTTTTCCACAGTGAAAAAAATATAGACACTTTTATAAAAGGATAGATACTTTAC
513 CTTAAATTAATGTTTTCCACAGTGAAAAAAATATAGACACTTTTATAAAAGGATAGATACTTTAC
2128 AATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
578 AATATAACCACTACCTATTAC-TTATATAAACG-TACCTA-TACATTATATAAGCGCTACCTATT
2193 ACATCATATTTTTACCTATTATATTGAAAGTATCCATAC-TTTTTATAAAAAATGATCGATACTT
640 ACATCATATTTTTACCTATTATATTGAAAGTATCCATACTTTTTTA-AAAAAATGATCGATACTT
*
2257 TGTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCC-CTACAAT
704 TGTTTAAAGTTATGTAATTTATGTTTCAA--TTTTTTAATAATG-TT--TGTTTTCCACTACAAT
* * *
2321 ATTAA-TTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTGATATTTTATAAAATAAT
764 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTG--TTTAATA-TTGAT-AAATAAT
2385 ATTTAGAA
825 ATTTAGAA
2393 TTTTAATTTAAATAATATATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATT
1 TTTTAATTTAAATAATATATCGTAACGT-AAAAA-AAATCATTAGACG-CTATAATTACTAAATT
* *
2458 AATATCCTAAAACTCACTC-AAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATAG
63 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAG
*
2522 ACACTTTATAAAAAGAATAGATACTTTACAATATAACCACTAGCTATTACATTATATAATGATAC
128 ACACTTTATAAAAAGGATAGATACTTTACAATATAACCACTA-CTATTACATTATATAATGATAC
*
2587 CTATTAC-TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTTCAT
192 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCAT
2651 ACTTTTTAT-AAAAGGATCGATACTTCTTTT-AAGTTATGTAATTTATGTTTCAATTTTTTTTAA
257 ACTTTTTATAAAAAGGATCGATAC-TCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAA
* *
2714 TAGTGTTTCATGTTTTCCA-CTACAATATTAATTTAATAATTTCATTTACACAAAAAAATATTTA
321 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAATTATTTG
2778 ATTGTTTGATATTTGAT-AAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAACGTAA
385 ATTGTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAACGTAA
*
2842 AAAATAATCATTAGACGCTTATAATTACTAAATTAATATC-TAAAACTCACTCAAAAGATAACCT
450 AAAATAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
* * *
2906 TAAATTAATGTTTTCCACAGTG-AAAAAA-GTAGACATTTTTAAAAAAGGATAGATACTTTACAA
515 TAAATTAATGTTTTCCACAGTGAAAAAAATATAGACACTTTTATAAAAGGATAGATACTTTACAA
2969 TATAACCACTACCTATTACTTATATAAACGTACCTATACATTATATAAGCGCTACCTATTACATC
580 TATAACCACTACCTATTACTTATATAAACGTACCTATACATTATATAAGCGCTACCTATTACATC
*
3034 ATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTTAAAAAAATGATCGATACTTTGTTTA
645 ATATTTTTACCTATTATATTGAAAGTATCCATACTTTTTTAAAAAAATGATCGATACTTTGTTTA
3099 AAGTTATGTAATTTATGTTTCAATTTTTTAATAATGTTTGTTTTCCACTACAATATTAATTTAAT
710 AAGTTATGTAATTTATGTTTCAATTTTTTAATAATGTTTGTTTTCCACTACAATATTAATTTAAT
3164 AATTTCATTTACACAAAAAATTATTTGATTGTTTAATATTGATAAATAATATTTAGAA
775 AATTTCATTTACACAAAAAATTATTTGATTGTTTAATATTGATAAATAATATTTAGAA
*
3222 TTTTAATTTAAATAATATATATCGTAACGT--AAAAAATCATTAGAAGCCTATAATTACTAAATT
1 TTTTAATTTAAAT-A-ATATATCGTAACGTAAAAAAAATCATTAGACG-CTATAATTACTAAATT
*
3285 AATATCTTAAAACTCACTCAAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATA
63 AATATCTTAAAACTCACTC-AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATA
3350 GACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAATGA
127 GACAC-TTTATAAAAAGGATAGATACTTTACAATATAACCACTA-CTATTACATTATAT-AATGA
* *
3415 TACCTATTACATT-TATAAGCACTACCTATT--ATC--ATTTTTACATATTATATTGAAAGTGTC
189 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
3475 CATACTTTTTATAAAAAGGATCGATA-TCTTTTAAAGTTATGTAA-TTATGTTTCAATTTTTTTT
254 CATACTTTTTATAAAAAGGATCGATACTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTT
3538 TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTATT
318 TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTATT
3603 TGATTGTTTGATATTTGATAAAATAATA-TTA-AA-TTTT-ATTTAATAATATATATATCGTAAC
383 TGATTGTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTTAAT-A-ATATATATCGTAAC
3664 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
446 GTAAAAAAT-AATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
*
3729 AACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATAGACACTTTTATAAAAAGGATAGATATT
510 AACCTTAAATTAATGTTTTCCACAGTGAAAAAAATATAGACACTTTTAT-AAAAGGATAGATACT
3794 TTACAATATAACCACTA
574 TTACAATATAACCACTA
3811 TGTTGGGATT
Statistics
Matches: 1340, Mismatches: 40, Indels: 85
0.91 0.03 0.06
Matches are distributed among these distances:
824 7 0.01
825 5 0.00
826 42 0.03
827 187 0.14
828 102 0.08
829 84 0.06
830 67 0.05
831 90 0.07
832 14 0.01
833 37 0.03
834 12 0.01
836 109 0.08
837 12 0.01
838 28 0.02
839 71 0.05
840 190 0.14
841 192 0.14
842 91 0.07
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (832 bp):
TTTTAATTTAAATAATATATCGTAACGTAAAAAAAATCATTAGACGCTATAATTACTAAATTAAT
ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACA
CTTTATAAAAAGGATAGATACTTTACAATATAACCACTACTATTACATTATATAATGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
TTTATAAAAAGGATCGATACTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTG
TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTATTTGATTGTT
TGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAACGTAAAAAATA
ATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATT
AATGTTTTCCACAGTGAAAAAAATATAGACACTTTTATAAAAGGATAGATACTTTACAATATAAC
CACTACCTATTACTTATATAAACGTACCTATACATTATATAAGCGCTACCTATTACATCATATTT
TTACCTATTATATTGAAAGTATCCATACTTTTTTAAAAAAATGATCGATACTTTGTTTAAAGTTA
TGTAATTTATGTTTCAATTTTTTAATAATGTTTGTTTTCCACTACAATATTAATTTAATAATTTC
ATTTACACAAAAAATTATTTGATTGTTTAATATTGATAAATAATATTTAGAA
Found at i:3031 original size:23 final size:23
Alignment explanation
Indices: 2968--3037 Score: 83
Period size: 21 Copynumber: 3.2 Consensus size: 23
2958 ATACTTTACA
* *
2968 ATATAACCACTACCTATTAC-TT
1 ATATAAACGCTACCTATTACATT
2990 ATATAAACG-TACCTA-TACATT
1 ATATAAACGCTACCTATTACATT
* *
3011 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
3034 ATAT
1 ATAT
3038 TTTTACCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 3 0.07
21 16 0.39
22 13 0.32
23 9 0.22
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:3440 original size:22 final size:22
Alignment explanation
Indices: 3383--3451 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 22
3373 TACTTTACAA
*
3383 TATAACCACTACCTATTACATT
1 TATAAGCACTACCTATTACATT
3405 ATATAAATG-A-TACCTATTACATT
1 -TAT-AA-GCACTACCTATTACATT
3428 TATAAGCACTACCTATTATCATT
1 TATAAGCACTACCTATTA-CATT
3451 T
1 T
3452 TTACATATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 12 0.30
23 21 0.52
24 3 0.08
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (22 bp):
TATAAGCACTACCTATTACATT
Found at i:4094 original size:34 final size:32
Alignment explanation
Indices: 4041--4110 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
4031 ACCTTACAAC
*
4041 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
4073 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
4107 TCCC
1 TCCC
4111 CTTACAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:4343 original size:20 final size:22
Alignment explanation
Indices: 4318--4357 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4308 GTCGTATTAT
4318 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
4338 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
4358 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:4409 original size:21 final size:21
Alignment explanation
Indices: 4385--4427 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4375 CCCAGAATAG
*
4385 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
4406 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
4427 A
1 A
4428 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:4561 original size:19 final size:19
Alignment explanation
Indices: 4537--4611 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
4527 AAAACCTGCA
4537 GGGGGGTATCTGTACCCTG
1 GGGGGGTATCTGTACCCTG
4556 GGGGGGTATCTGTACCC--
1 GGGGGGTATCTGTACCCTG
*
4573 --GGGGTATCTGTCCCCTG
1 GGGGGGTATCTGTACCCTG
* *
4590 GGGGGGAATCTATACCCCTG
1 GGGGGGTATCTGTA-CCCTG
4610 GG
1 GG
4612 CAATCTTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
15 14 0.30
19 26 0.55
20 7 0.15
ACGTcount: A:0.12, C:0.24, G:0.40, T:0.24
Consensus pattern (19 bp):
GGGGGGTATCTGTACCCTG
Found at i:4577 original size:34 final size:34
Alignment explanation
Indices: 4539--4606 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
4529 AACCTGCAGG
* *
4539 GGGGTATCTGTACCCTGGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCTGGGGGGGAATCTATACCC
*
4573 GGGGTATCTGTCCCCTGGGGGGGAATCTATACCC
1 GGGGTATCTGTACCCTGGGGGGGAATCTATACCC
4607 CTGGGCAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.13, C:0.25, G:0.37, T:0.25
Consensus pattern (34 bp):
GGGGTATCTGTACCCTGGGGGGGAATCTATACCC
Found at i:4729 original size:28 final size:30
Alignment explanation
Indices: 4685--4752 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
4675 GAAACCTTTT
*
4685 AAAAAC-TTTGAATAATTCAATT-ACGTCC
1 AAAAACATTTGAATAATTCAATTCAAGTCC
*
4713 AAAAACATTTGTA-AATTCAATTCAAGTCC
1 AAAAACATTTGAATAATTCAATTCAAGTCC
4742 AAAAACTATTT
1 AAAAAC-ATTT
4753 TGCCTTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 15 0.43
29 16 0.46
30 4 0.11
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (30 bp):
AAAAACATTTGAATAATTCAATTCAAGTCC
Found at i:6006 original size:19 final size:20
Alignment explanation
Indices: 5963--6010 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
5953 TTTAAATCCT
*
5963 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
5983 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
6002 TTTTCAAAA
1 TTTTCAAAA
6011 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:6914 original size:34 final size:32
Alignment explanation
Indices: 6861--6930 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
6851 ACCTTACAAC
*
6861 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
6893 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
6927 TCCC
1 TCCC
6931 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:7170 original size:20 final size:22
Alignment explanation
Indices: 7145--7184 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7135 AGTCGTATAT
7145 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
7165 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
7185 ATACTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:7234 original size:21 final size:21
Alignment explanation
Indices: 7210--7252 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
7200 GCCAGAATAG
*
7210 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
7231 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
7252 A
1 A
7253 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:7313 original size:19 final size:19
Alignment explanation
Indices: 7289--7344 Score: 112
Period size: 19 Copynumber: 2.9 Consensus size: 19
7279 TGTTGAACAG
7289 GGGGGGAATCGGTACCCCT
1 GGGGGGAATCGGTACCCCT
7308 GGGGGGAATCGGTACCCCT
1 GGGGGGAATCGGTACCCCT
7327 GGGGGGAATCGGTACCCC
1 GGGGGGAATCGGTACCCC
7345 CTGGACATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.16, C:0.27, G:0.43, T:0.14
Consensus pattern (19 bp):
GGGGGGAATCGGTACCCCT
Found at i:7407 original size:20 final size:20
Alignment explanation
Indices: 7382--7441 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
7372 AAAACCTGCA
7382 GGGGGTATCTGTACCCCCTG
1 GGGGGTATCTGTACCCCCTG
7402 GGGGGTATCTGTA--CCC--
1 GGGGGTATCTGTACCCCCTG
7418 -GGGGTATCTGTACCCCCTG
1 GGGGGTATCTGTACCCCCTG
7437 GGGGG
1 GGGGG
7442 GGAATCTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 12 0.34
17 3 0.09
18 3 0.09
20 17 0.49
ACGTcount: A:0.10, C:0.27, G:0.40, T:0.23
Consensus pattern (20 bp):
GGGGGTATCTGTACCCCCTG
Found at i:7423 original size:15 final size:15
Alignment explanation
Indices: 7403--7432 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7393 TACCCCCTGG
7403 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
7418 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
7433 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:7578 original size:29 final size:31
Alignment explanation
Indices: 7546--7605 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
7536 AAACTTTGAA
*
7546 TAAATTCAATT-ACGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
7575 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
7606 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:7669 original size:23 final size:23
Alignment explanation
Indices: 7639--7698 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
7629 TAGTTTAACA
* *
7639 CTATTACATTATATAAATGATAT
1 CTATTACATTATATAAACGATAC
*
7662 CTATTACATTATATAAACGCTAC
1 CTATTACATTATATAAACGATAC
*
7685 CTATTACATCATAT
1 CTATTACATTATAT
7699 TTTTACCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:8083 original size:23 final size:23
Alignment explanation
Indices: 8057--8119 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
8047 ATATAACCAC
8057 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
8080 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
8103 TACCTATTACATCATAT
1 TACCTATTACATTATAT
8120 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:8499 original size:21 final size:21
Alignment explanation
Indices: 8469--8539 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
8459 GATAGATACT
*
8469 TTACAATATAACCACTACCTA
1 TTACATTATAACCACTACCTA
**
8490 TTACATTATAAATGA-TACCTA
1 TTACATTAT-AACCACTACCTA
*
8511 TTACATTATATAAGCACTACCTA
1 TTACA-T-TATAACCACTACCTA
8534 TTACAT
1 TTACAT
8540 CATATTTTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 19 0.46
22 8 0.20
23 14 0.34
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (21 bp):
TTACATTATAACCACTACCTA
Found at i:8531 original size:23 final size:23
Alignment explanation
Indices: 8474--8544 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
8464 ATACTTTACA
*
8474 ATATAACCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
8497 ATA-AATG-A-TACCTATTACATT
1 ATATAA-GCACTACCTATTACATT
*
8518 ATATAAGCACTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
8541 ATAT
1 ATAT
8545 TTTACCTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 17 0.40
22 6 0.14
23 19 0.45
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:8801 original size:423 final size:426
Alignment explanation
Indices: 7639--9156 Score: 2590
Period size: 425 Copynumber: 3.6 Consensus size: 426
7629 TAGTTTAACA
* * *
7639 CTATTACATTATATAAATGATATCTATTACATTATATAAACGCTACCTATTACATCATATTTTTA
1 CTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
*
7704 CCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTT-TTTAAAGATATGTA
66 CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTA
7767 ATTTATGTTTCAATTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAA-TTAATAATTT
131 ATTTATGTTTCAATTTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
*
7830 CATTTGCACAAAAAATTATTGATTGTTTTGATA-TTGATAAAATAATATTTAGAATTTTAATTTA
195 CATTTACACAAAAAATTATTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTAATTT-
7894 ATAATAATATATATCGTAACGT-AAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATATC
259 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
7957 TTAAAACCCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTT
324 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTT
8022 TTATAAAAAGGATAGATACTTTACAATATAACCACTAC
389 TTATAAAAAGGATAGATACTTTACAATATAACCACTAC
8060 CTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
1 CTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
8125 CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTA
66 CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTA
*
8190 ATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTACACCTACAATATTAATTTAATAATT
131 ATTTATGTTTCAA--TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATT
8255 TCATTTACACAAAAAATTATTGATTGTTTTGATATTTGAT-AAA-AATATTTAGAATTTTTAATT
194 TCATTTACACAAAAAATTATTGATTGTTTTGATATTTGATAAAATAATATTTAGAA-TTTTAATT
*
8318 TATAATAATATATATCGTAACGTAAAAAATAAATCATTAGAAGCCTATAATTACTAAATTAATAT
258 TATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
8383 CTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACT
323 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACT
8448 TTTATAAAAAGGATAGATACTTTACAATATAACCACTAC
388 TTTATAAAAAGGATAGATACTTTACAATATAACCACTAC
* *
8487 CTATTACA-T-TATAAATGATACCTATTACATTATATAAGCACTACCTATTACATCATA-TTTTA
1 CTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
*
8549 CCTATTATATTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGT
66 CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTT-TGTTTAAAGTTATGT
*
8613 AATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATT
130 AATTTATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATT
*
8678 TCATTTACACAAAAAATTATTTGA-TGTTTTGATATTTAATAAAATAATATTTAGAATTTTTAA-
194 TCATTTACACAAAAAATTA-TTGATTGTTTTGATATTTGATAAAATAATATTTAGAA-TTTTAAT
8741 TT-TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
257 TTATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
8805 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATG-TTTCCACAGTGAAAAAAGTATAGACAC
322 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACAC
*
8869 TTTTATAAAAAGGATAGATATTTTACAATATAACCACTAC
387 TTTTATAAAAAGGATAGATACTTTACAATATAACCACTAC
*
8909 CTATTACATTATATAAACGATATCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
1 CTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
8974 CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTA
66 CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTA
9039 ATTTATGTTTCAATTTTTTAATAGTG-TTCATG-TTT-----T-CAATATTAATTTAATAATTTC
131 ATTTATGTTTCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
9096 ATTTACACAAAAAATTATTTGA-TGTTTTGAT-TTT-ATAAAATAATA-TTAGAATTTAAATTTA
196 ATTTACACAAAAAATTA-TTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTAATTTA
9157 ACAACATTAA
Statistics
Matches: 1054, Mismatches: 23, Indels: 47
0.94 0.02 0.04
Matches are distributed among these distances:
412 5 0.00
413 8 0.01
414 11 0.01
415 3 0.00
416 52 0.05
417 1 0.00
421 87 0.08
422 101 0.10
423 213 0.20
424 150 0.14
425 214 0.20
426 60 0.06
427 149 0.14
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.41
Consensus pattern (426 bp):
CTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTA
CCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTA
ATTTATGTTTCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTACACAAAAAATTATTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTAATTTAT
AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
ATAAAAAGGATAGATACTTTACAATATAACCACTAC
Found at i:8922 original size:23 final size:23
Alignment explanation
Indices: 8896--8968 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
8886 ATATTTTACA
8896 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
* *
8919 ATATAAACGA-TATCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * *
8942 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTACCTATTACATT
8965 ATAT
1 ATAT
8969 TTTTACCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 2 0.05
23 35 0.85
24 4 0.10
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:9329 original size:25 final size:25
Alignment explanation
Indices: 9301--9365 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
9291 ACTCAAAAGA
*
9301 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
9326 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
9351 TGTACATACCTAAAT
1 TGTACATACCTAAAT
9366 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:12351 original size:183 final size:183
Alignment explanation
Indices: 11826--12316 Score: 903
Period size: 183 Copynumber: 2.7 Consensus size: 183
11816 TTAAAATTAC
11826 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
11891 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCAGTT
* *
11956 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
12009 CGACACTTTTTTAAATGGTATTGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
12074 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCAGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCAGTT
12139 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
12192 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
12256 TATTAAAAAGTGTCGATATAGGTTGTAGATCTATTCGCTCATAAAACCGGTATATTTATAC
65 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
12317 TGATAGCATT
Statistics
Matches: 299, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
183 296 0.99
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCAGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:12723 original size:21 final size:21
Alignment explanation
Indices: 12693--12763 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
12683 GATAGATACT
*
12693 TTACAATATAACCACTACCTA
1 TTACATTATAACCACTACCTA
*
12714 TTACATTATAAACGA-TACCTA
1 TTACATTAT-AACCACTACCTA
* *
12735 TTACATTATATAAGCGCTACCTA
1 TTACA-T-TATAACCACTACCTA
12758 TTACAT
1 TTACAT
12764 CATATTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 19 0.46
22 8 0.20
23 14 0.34
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (21 bp):
TTACATTATAACCACTACCTA
Found at i:12755 original size:23 final size:22
Alignment explanation
Indices: 12698--12768 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
12688 ATACTTTACA
*
12698 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
*
12721 ATA-AACGATACCTATTACATT
1 ATATAACGCTACCTATTACATT
*
12742 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
12765 ATAT
1 ATAT
12769 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.40
22 4 0.10
23 21 0.50
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:13143 original size:15 final size:15
Alignment explanation
Indices: 13125--13157 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13115 ATCTATTACA
*
13125 TTTTTCAATCGACAC
1 TTTTTAAATCGACAC
13140 TTTTTAAATCGACAC
1 TTTTTAAATCGACAC
13155 TTT
1 TTT
13158 GTTGTGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.45
Consensus pattern (15 bp):
TTTTTAAATCGACAC
Found at i:14358 original size:3 final size:3
Alignment explanation
Indices: 14350--14422 Score: 65
Period size: 3 Copynumber: 24.3 Consensus size: 3
14340 ACTTGTTTGG
* * * * * * *
14350 ATC ATC ATC TTC TTC ATC ATC ATC ATC TTC ATC GTC AGC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
14398 ATC ATC ATC GTC ATC TTC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
14423 GCTTCATCTT
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.23, C:0.33, G:0.05, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:14373 original size:18 final size:18
Alignment explanation
Indices: 14350--14435 Score: 100
Period size: 18 Copynumber: 4.8 Consensus size: 18
14340 ACTTGTTTGG
*
14350 ATCATCATCTTCTTCATC
1 ATCATCATCTTCATCATC
*
14368 ATCATCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* * *
14386 AGCTTCATCGTCATCATC
1 ATCATCATCTTCATCATC
*
14404 ATCGTCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
14422 AGCTTCATCTTCAT
1 ATCATCATCTTCAT
14436 TGACCGCTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.40
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:14393 original size:24 final size:24
Alignment explanation
Indices: 14366--14430 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
14356 ATCTTCTTCA
14366 TCATCATCATCTTCATCGTCAGCT
1 TCATCATCATCTTCATCGTCAGCT
* * *
14390 TCATCGTCATCATCATCGTCATCT
1 TCATCATCATCTTCATCGTCAGCT
*
14414 TCATCATCAGCTTCATC
1 TCATCATCATCTTCATC
14431 TTCATTGACC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.37
Consensus pattern (24 bp):
TCATCATCATCTTCATCGTCAGCT
Found at i:14433 original size:6 final size:6
Alignment explanation
Indices: 14354--14435 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
14344 GTTTGGATCA
* * * * * * *
14354 TCATCT TCTTCA TCATCA TCATCT TCATCG TCAGCT TCATCG TCATCA
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * *
14402 TCATCG TCATCT TCATCA TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
14436 TGACCGCTTG
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:16312 original size:200 final size:199
Alignment explanation
Indices: 15898--17069 Score: 2168
Period size: 200 Copynumber: 5.9 Consensus size: 199
15888 TTTAAATTAG
15898 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
15962 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
16027 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTTGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
16092 AAAA
196 AAAA
*
16096 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGAAATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
16161 CTTGTACCGGTTAGATTGAAAATTTACATATTACATTATACTTTTGGTTTTCGATATTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
16226 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
16291 AAAAA
195 AAAAA
16296 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
16361 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
16426 CGACACTTTTTATATATGGATCGAAACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
16491 AAAA
196 AAAA
16495 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
16559 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
16624 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
16689 AAAA
196 AAAA
*
16693 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGATATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
16758 CTTGTACCAGTTACATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGA
* *
16823 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTTATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
16888 AAAAA
195 AAAAA
16893 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
16958 CTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGA
* *
17023 TCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCATCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
17070 GGCCATATTG
Statistics
Matches: 946, Mismatches: 24, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
198 210 0.22
199 287 0.30
200 449 0.47
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
AAAA
Found at i:17234 original size:19 final size:19
Alignment explanation
Indices: 17188--17236 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
17178 TTATATTCAC
*
17188 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
17207 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
17226 ATACAAAATTA
1 ATACAAAATTA
17237 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:19062 original size:33 final size:33
Alignment explanation
Indices: 19025--19090 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
19015 CATCTTAATA
*
19025 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
19058 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
19091 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:19149 original size:21 final size:21
Alignment explanation
Indices: 19124--19167 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19114 CCCCTTATGC
19124 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
19145 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
19166 CT
1 CT
19168 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:21228 original size:24 final size:24
Alignment explanation
Indices: 21191--21243 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
21181 CCGTTCTATC
21191 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
21215 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
21239 TATTT
1 TATTT
21244 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:21574 original size:20 final size:20
Alignment explanation
Indices: 21547--21593 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
21537 TCCGGTAACG
21547 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
21566 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
21587 TTTTACC
1 TTTTACC
21594 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:21820 original size:182 final size:180
Alignment explanation
Indices: 21334--21805 Score: 730
Period size: 180 Copynumber: 2.6 Consensus size: 180
21324 CGTACTTACG
* * *
21334 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
21399 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTAAAGTATCGACACATTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
*
21464 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGCCGATCCTTATAT
131 GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGCCGATCCTTATAT
*
21514 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
*
21579 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTAT
** * *
21644 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGCCGATCCTTATA-T
* * * * *
21696 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
21760 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
21806 AATTTGGATC
Statistics
Matches: 267, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
180 104 0.39
181 63 0.24
182 99 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGCCGATCCTTATAT
Found at i:49057 original size:33 final size:33
Alignment explanation
Indices: 49009--49071 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
48999 ATCCTCGCTC
49009 CCCTCGGATTCCCTCGCATAGCTCGCTCGGTTG
1 CCCTCGGATTCCCTCGCATAGCTCGCTCGGTTG
*
49042 CCCTCGGATGT-CCTCGCATAGCTCGTTCGG
1 CCCTCGGAT-TCCCTCGCATAGCTCGCTCGG
49072 ATGGCCTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.10, C:0.38, G:0.25, T:0.27
Consensus pattern (33 bp):
CCCTCGGATTCCCTCGCATAGCTCGCTCGGTTG
Found at i:49097 original size:10 final size:10
Alignment explanation
Indices: 49082--49132 Score: 65
Period size: 10 Copynumber: 5.4 Consensus size: 10
49072 ATGGCCTTGG
49082 TCGGATGGCC
1 TCGGATGGCC
49092 TCGGAT-G-C
1 TCGGATGGCC
49100 TCGGATGG-C
1 TCGGATGGCC
49109 TCGGAT-GCTC
1 TCGGATGGC-C
49119 TCGGATGGCC
1 TCGGATGGCC
49129 TCGG
1 TCGG
49133 TCGATGGCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.22
9 9 0.24
10 18 0.49
11 2 0.05
ACGTcount: A:0.10, C:0.27, G:0.39, T:0.24
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:49225 original size:29 final size:29
Alignment explanation
Indices: 49188--49245 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
49178 GCAATCTCTT
* *
49188 GTAGTTCGCCGGGAAGACATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
*
49217 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
49246 CGATCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.26, G:0.36, T:0.16
Consensus pattern (29 bp):
GTAGGTCGCCCGGAAGACATGGCGACCTA
Done.