Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_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: 2600608
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 13
Found at i:434217 original size:18 final size:18
Alignment explanation
Indices: 434194--434232 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
434184 AAAAAAATAT
*
434194 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGACGGAG
434212 GAAGAAGAAAAGACGGAG
1 GAAGAAGAAAAGACGGAG
434230 GAA
1 GAA
434233 ACGAGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.38, T:0.03
Consensus pattern (18 bp):
GAAGAAGAAAAGACGGAG
Found at i:435811 original size:19 final size:19
Alignment explanation
Indices: 435787--435835 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
435777 AATGTAGAGT
435787 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
435806 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
435825 TAATTTTGTAT
1 TAATTTTGTAT
435836 GTGGATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:436539 original size:200 final size:199
Alignment explanation
Indices: 436185--437947 Score: 1780
Period size: 200 Copynumber: 8.8 Consensus size: 199
436175 GTAAGCATAT
* * * * *
436185 GTGTCGATACGTTTATAAAAAATGTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
436250 GGTAATTTTGT-AATATAACCGATATAAATATACGGGTTTTATGTGAGAATATGTCTACATAATG
66 GGTAATTTT-TCAATGTAACCGGTATAAATATAC-AGTTTTATGAGAGAATAGGTGTACATAATG
* ** *
436314 TATCAACACTTTT-TCATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAAC
129 TATCGACACTTTTAGAATT-TGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAAC
*
436378 GCATAAC
193 GCATAAA
* * * *
436385 GTGTCGATACATTTATTGAAAGTGTCGATCCTAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
436450 GGTAATTTTTCAATGTAACTGGTATAACTAAACATGTTTTATGAGAGAATACGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACA-GTTTTATGAGAGAATAGGTGTACATAATGT
* * * * * * *
436515 ATCGACACTTCTAGAATTTGTGTCGATACTGTTTCTCCAGAATGAATACCCAAAAAGGTGCACGT
130 ATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
*
436580 AAAAA
195 ATAAA
* *
436585 GTGTCGATACATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTATTAA-AAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* * **
436650 AGGTAATTTTTCAATGTAATCGGTATACATATATC-GATTTTATGAGAGAATATATGTACA-ATA
65 AGGTAATTTTTCAATGTAACCGGTATAAATATA-CAG-TTTTATGAGAGAATAGGTGTACATA-A
** * * * * *
436713 TGTATCGACAC-TCGAGTAATTTATGTCGATACTTTTGGTCCAAAAGGAATGCCCAAAACGGGTG
127 TGTATCGACACTTTTAG-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-TGGTG
*
436777 CAC-CACT-AA
190 AACGCA-TAAA
* * * * *
436786 GTGTCAATACATTTA-TAAGAAGTGTCGATCCCAGAAACATCGAAAACCATAATTATAATATAAT
1 GTGTCGATACATTTATTAA-AAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
**
436850 AGGTAATTTTTCAATGTAACCGGTATACCTATACTAGTTTTATGAGAGAATAGGTGTACA-ATAT
65 AGGTAATTTTTCAATGTAACCGGTATAAATATAC-AGTTTTATGAGAGAATAGGTGTACATA-AT
* * * *
436914 GTATCGACACTTGT-GTAATTTGTGTCGATACTTTTGGTCCATAATGAATGCCCAAAAAGG-GTA
128 GTATCGACACTTTTAG-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTG-A
436977 CAC-CACT-AA
191 -ACGCA-TAAA
* * * * *
436986 GTGTCGATACATTTA-TACAAAGTGTCGATCCTAAAAATATCAAAACCCATAATTATAATATAAT
1 GTGTCGATACATTTATTA-AAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* * * * *
437050 AGATAATTTTAT-AATATAACCAGTATAAATATACCAGTTTTAT-ATGAGAATAGATCTACATAA
65 AGGTAATTTT-TCAATGTAACCGGTATAAATATA-CAGTTTTATGA-GAGAATAGGTGTACATAA
* * ** * * * *
437113 TGTATCAATACTTTTTTATTTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAAATGATGAA
127 TGTATCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAA
437178 CGCATAAA
192 CGCATAAA
* * * * *
437186 GTGTCGATATATTTATAAAAAGTATCGATACCAGAAACATCGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * ** * * ** * *
437251 GGTAAATTTACAATGTAACATGTATAACTATACCGATTTTATGTTAAAATAGGTGAACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACAG-TTTTATGAGAGAATAGGTGTACATAATGT
* * *
437316 ATCGACACGTTTTAG-ATTTGTGTCGATACTGTTTGTCCAAAATGAATG-CCAAAATGGTTGCAC
130 ATCGACAC-TTTTAGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGG-TGAAC
*
437379 GCATAAC
193 GCATAAA
* **
437386 CTGTCGATACATGTT-TTAAAACGTATCGATCCCAAAAACATCGAAACATATAATTATAATGTAA
1 GTGTCGATACAT-TTATTAAAA-GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
* * * * *
437450 TAGATAATTTTGT-AATATAATCGGTATAAATATATCAGTTTTATGTGAGAATAGGTCTACATAA
64 TAGGTAATTTT-TCAATGTAACCGGTATAAATATA-CAGTTTTATGAGAGAATAGGTGTACATAA
* * * * * *
437514 TATGTCGACACTTTT-TAATGTTGTGTCGATACTTTTTGTACAGAA-AAATGCCCAAAAGGGTGA
127 TGTATCGACACTTTTAGAAT-TTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGA
*
437577 ACACATAAA
191 ACGCATAAA
* *
437586 GTGTCGATACATTTA-TAAAACGTATCGATCCCAAAAACATCGAAAACGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAA-GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* * * ** * * *
437650 AGGTAAATTTACAATATAACCGGTATAAATATACCAGTTTTATGTTAAAATAGGTGAATATAATG
65 AGGTAATTTTTCAATGTAACCGGTATAAATATA-CAGTTTTATGAGAGAATAGGTGTACATAATG
* * * *
437715 TATCGAAACGTTTTAG-ATTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCAAAATTGTTGCA
129 TATCGACAC-TTTTAGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-TGGTGAA
437778 CGCATAAA
192 CGCATAAA
* * * *
437786 GTGTCGATACATGTT-TTAAAAAGTATCGATCCAAAAAATATCGAAACCGATATTTATAATGTAA
1 GTGTCGATACAT-TTATT-AAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
* * * * * * *
437850 TAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTATGACAAAATAGGTGAACATAAT
64 TAGGTAATTTTTCAATGTAACCGGTATAAATATA-CAGTTTTATGAGAGAATAGGTGTACATAAT
437915 GTATCGACACGTTTTAG-ATTTGTGTCGATACTT
128 GTATCGACAC-TTTTAGAATTTGTGTCGATACTT
437948 ATAAATAACA
Statistics
Matches: 1321, Mismatches: 196, Indels: 91
0.82 0.12 0.06
Matches are distributed among these distances:
198 1 0.00
199 155 0.12
200 725 0.55
201 426 0.32
202 14 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAAATATACAGTTTTATGAGAGAATAGGTGTACATAATGTA
TCGACACTTTTAGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
TAAA
Found at i:437417 original size:601 final size:592
Alignment explanation
Indices: 436186--437947 Score: 2024
Period size: 601 Copynumber: 2.9 Consensus size: 592
436176 TAAGCATATG
* * * * * *
436186 TGTCGATACGTTTATAAAAAATGTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATAG
1 TGTCAATACATTTATAAGAAGTATCGATCCCAAAAACATCGAAAACCATAATTATAATATAATAG
* ** *
436251 GTAATTTTGTAATATAACCGATATAAATATACGGGTTTTATGTGAGAATATGTCTAC-ATAATGT
66 GTAATTTTGTAATATAACCGGTATAAATATACTAGTTTTATGTGAGAATAGGTCTACAAT-ATGT
* * * *
436315 ATCAACACTTTTTCATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGC
130 ATCGACACTTTTTAATT-TGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAAC-C
* * *
436380 A-TAACGTGTCGATACATTTATTGAAAGTGTCGATCCTAGAAACATCGAAACCCATAATTATAAT
193 ACTAA-GTGTCGATACATTTA-TAAAAGTGTCGATCCTAAAAACATCAAAACCCATAATTATAAT
* * * *
436444 GTAATAGGTAATTTT-TCAATGTAACTGGTATAACTA-AACATGTTTTATGA-GAGAATACGTCT
256 GTAATAGGTAATTTTAT-AATATAACCGGTATAAATATACCA-GTTTTAT-ATGAGAATA-GTCT
* * ** * * *
436506 ACATAATGTATCGACACTTCTAGAATTTGTGTCGATACTGTTTCTCCAGAATGAATACCCAAAAA
317 ACATAATGTATC-AAACTTTTTTAATTTGTGTCGATACT-TTTGTCCAGAATGAATGCCCAAAAT
* * *
436571 GGTGCACGTAAAAAGTGTCGATACATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCAT
380 GATGCACGCATAAAGTGTCGATACATTTATAAA-AAGTATCGAT-CCAGAAACATCGAAACCCAT
* * * * *
436636 AATTATAATGTAATAGGTAATTTTTCAATGTAATCGGTAT-ACATATATCGATTTTATGAGAGAA
443 AATTATAATGTAATAGGTAAATTTACAATGTAA-CGGTATAAC-TATACCGATTTTATGACAAAA
** * ** *
436700 TATATGTACA-ATATGTATCGACAC--TCGAGTAATTTATGTCGATACTTTTGGTCCAAAAGGAA
506 TAGGTGAACATA-ATGTATCGACACGTTTTAG--ATTTGTGTCGATACTTTTGGTCCAAAAGGAA
*
436762 TGCCCAAAACGGGTGCACCACTAAG
568 TGCCCAAAACGGGTGCACCACTAAC
* *
436787 TGTCAATACATTTATAAGAAGTGTCGATCCCAGAAACATCGAAAACCATAATTATAATATAATAG
1 TGTCAATACATTTATAAGAAGTATCGATCCCAAAAACATCGAAAACCATAATTATAATATAATAG
* ** * *
436852 GTAATTTT-TCAATGTAACCGGTATACCTATACTAGTTTTATGAGAGAATAGGTGTACAATATGT
66 GTAATTTTGT-AATATAACCGGTATAAATATACTAGTTTTATGTGAGAATAGGTCTACAATATGT
* * *
436916 ATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCATAATGAATGCCCAAAAAGGGT-ACAC
130 ATCGACACTT-TTTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAGGGTGA-AC
*
436980 CACTAAGTGTCGATACATTTATACAAAGTGTCGATCCTAAAAATATCAAAACCCATAATTATAAT
192 CACTAAGTGTCGATACATTTATA-AAAGTGTCGATCCTAAAAACATCAAAACCCATAATTATAAT
* * *
437045 ATAATAGATAATTTTATAATATAACCAGTATAAATATACCAGTTTTATATGAGAATAGATCTACA
256 GTAATAGGTAATTTTATAATATAACCGGTATAAATATACCAGTTTTATATGAGAATAG-TCTACA
* *
437110 TAATGTATCAATACTTTTTTATTTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAAATGAT
320 TAATGTATCAA-ACTTTTTTAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCCAAAATGAT
* * *
437175 GAACGCATAAAGTGTCGATATATTTATAAAAAGTATCGATACCAGAAACATCGAAACCCATAAAT
383 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT-CCAGAAACATCGAAACCCATAATT
* **
437240 ATAATGTAATAGGTAAATTTACAATGTAACATGTATAACTATACCGATTTTATGTTAAAATAGGT
447 ATAATGTAATAGGTAAATTTACAATGTAAC-GGTATAACTATACCGATTTTATGACAAAATAGGT
*
437305 GAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTGTTT-GTCCAAAATGAATG-CCAA
511 GAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACT-TTTGGTCCAAAAGGAATGCCCAA
* *
437368 AATGGTTGCACGCA-TAACC
575 AACGGGTGCAC-CACTAA-C
* * * *
437387 TGTCGATACATGTTTTAA-AACGTATCGATCCCAAAAACATCG-AAACATATAATTATAATGTAA
1 TGTCAATACAT-TTATAAGAA-GTATCGATCCCAAAAACATCGAAAAC-CATAATTATAATATAA
* *
437450 TAGATAATTTTGTAATATAATCGGTATAAATATA-TCAGTTTTATGTGAGAATAGGTCTACATAA
63 TAGGTAATTTTGTAATATAACCGGTATAAATATACT-AGTTTTATGTGAGAATAGGTCTAC--AA
* *
437514 TATG--TCGACACTTTTTAATGTTGTGTCGATACTTTTTGTACAGAA-AAATGCCCAAAAGGGTG
125 TATGTATCGACACTTTTTAAT-TTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTG
* * *
437576 AA-CACATAAAGTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATCGAAAA-CGATAAT
189 AACCAC-T-AAGTGTCGATACATTTATAAAA-GTGTCGATCCTAAAAACATC-AAAACCCATAAT
* * * * *
437639 TATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCAGTTTTATGTTAAAATAGG
250 TATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCAGTTTTATATGAGAATA-G
** * * *
437704 TGAATATAATGTATCGAAAC-GTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATG-CCA
314 TCTACATAATGTATC-AAACTTTTTTA-ATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCCA
* * * *
437767 AAATTGTTGCACGCATAAAGTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAATATCGAAA
376 AAA-TGATGCACGCATAAAGTGTCGATACAT-TTATAAAAAGTATCGATCC-AGAAACATCGAAA
* * * * *
437832 CCGATATTTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTATGAC
438 CCCATAATTATAATGTAATAGGTAAATTTACAATGTAA-CGGTATAACTATACCGATTTTATGAC
437897 AAAATAGGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
502 AAAATAGGTGAACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
437948 ATAAATAACA
Statistics
Matches: 1001, Mismatches: 119, Indels: 83
0.83 0.10 0.07
Matches are distributed among these distances:
598 3 0.00
599 41 0.04
600 331 0.33
601 592 0.59
602 28 0.03
603 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (592 bp):
TGTCAATACATTTATAAGAAGTATCGATCCCAAAAACATCGAAAACCATAATTATAATATAATAG
GTAATTTTGTAATATAACCGGTATAAATATACTAGTTTTATGTGAGAATAGGTCTACAATATGTA
TCGACACTTTTTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACCACT
AAGTGTCGATACATTTATAAAAGTGTCGATCCTAAAAACATCAAAACCCATAATTATAATGTAAT
AGGTAATTTTATAATATAACCGGTATAAATATACCAGTTTTATATGAGAATAGTCTACATAATGT
ATCAAACTTTTTTAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCCAAAATGATGCACGCAT
AAAGTGTCGATACATTTATAAAAAGTATCGATCCAGAAACATCGAAACCCATAATTATAATGTAA
TAGGTAAATTTACAATGTAACGGTATAACTATACCGATTTTATGACAAAATAGGTGAACATAATG
TATCGACACGTTTTAGATTTGTGTCGATACTTTTGGTCCAAAAGGAATGCCCAAAACGGGTGCAC
CACTAAC
Found at i:437817 original size:801 final size:799
Alignment explanation
Indices: 436185--437893 Score: 2188
Period size: 801 Copynumber: 2.1 Consensus size: 799
436175 GTAAGCATAT
* * *
436185 GTGTCGATAC--GTTTATAAAAAATGTCGATCCCAAAAACATCGAAACCCATAATTATAATATAA
1 GTGTCGATACATGTTT-TAAAAAGTGTCGATCCAAAAAATATCGAAACCCATAATTATAATATAA
* * *
436248 TAGGTAATTTTGTAATATAACCGATATAAATATACGGGTTTTATGTGAGAATATGTCTACATAAT
65 TAGGTAATTTTATAATATAACCG-TATAAATATACCGGTTTTATATGAGAATATGTCTACATAAT
* *
436313 GTATCAACACTTTTTCATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAAC
129 GTATCAACACTTTTTCATTATGTGTCAATACATTTTGTCCAGAATGAATGCCCAAAATGATGAAC
* ** * *
436378 GCATAACGTGTCGATACATTTATTGAAAGTGTCGATCCTAGAAACATCGAAACCCATAATTATAA
194 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCTAGAAACATCGAAACCCATAAATATAA
* * * * *
436443 TGTAATAGGTAATTTTTCAATGTAACTGGTATAACTAAACATGTTTTATGAGAGAATACGTCTAC
259 TGTAATAGGTAAATTTACAATGTAACTGGTATAACTAAACACGTTTTATGAGAAAATACGTCAAC
*
436508 ATAATGTATCGACACTTCTAGAATTTGTGTCGATACTGTTTCTCCAGAATGAATACCCAAAAAGG
324 ATAATGTATCGACACTTCTAGAATTTGTGTCGATACTGTTTCTCCAAAATGAATACCCAAAAAGG
* * * *
436573 TGCACGTAAAAAGTGTCGATACATTTATAAACAAGTATCGATCCCAGAAACATCGAAACCCATAA
389 TGCACGCAAAAACTGTCGATACATTTATAAACAAGTATCGATCCCAAAAACATCGAAACACATAA
* * * *
436638 TTATAATGTAATAGGTAATTTTTCAATGTAATCGGTATACATATATCGATTTTATGAGAGAATAT
454 TTATAATGTAATAGATAATTTTTCAATATAATCGGTATAAATATATCGATTTTATGAGAGAATAG
* *
436703 ATGTACAATATGTATCGACACTCGAGTAATTTATGTCGATACTTTTGGTCCAAAAGGAATGCCCA
519 ATCTACAATATG-ATCGACACTCGAGTAATTTATGTCGATACTTTTGGTACAAAA-GAATGCCCA
* * *
436768 AAACGGGTGCACCACTAAGTGTCAATACATTTATAAGAAGTGTCGATCCCAGAAACATCGAAAAC
582 AAACGGGTGAACCACTAAGTGTCAATACATTTATAAGAAGTATCGATCCCAAAAACATCGAAAAC
* * * ** * *
436833 CATAATTATAATATAATAGGTAATTTTTCAATGTAACCGGTATACCTATACTAGTTTTATGAGAG
647 CATAATTATAATATAATAGGTAAATTTACAATATAACCGGTATAAATATACCAGTTTTATGAGAA
* *
436898 AATAGGTGTACAATATGTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCATAATGAAT
712 AATAGGTGTACAATATGTATCGAAACTTGTGTAATTTGTGTCGATACTTTTGGTCCAAAATGAAT
436963 GCCCAAAAAGGGTACACCACTAA
777 GCCCAAAAAGGGTACACCACTAA
* * * *
436986 GTGTCGATACAT-TTATACAAAGTGTCGATCCTAAAAATATCAAAACCCATAATTATAATATAAT
1 GTGTCGATACATGTTTTAAAAAGTGTCGATCCAAAAAATATCGAAACCCATAATTATAATATAAT
* *
437050 AGATAATTTTATAATATAACCAGTATAAATATACCAGTTTTATATGAGAATA-GATCTACATAAT
66 AGGTAATTTTATAATATAACC-GTATAAATATACCGGTTTTATATGAGAATATG-TCTACATAAT
* * *
437114 GTATCAATACTTTTTTATTTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAAATGATGAAC
129 GTATCAACACTTTTTCATTATGTGTCAATACATTTTGTCCAGAATGAATGCCCAAAATGATGAAC
*
437179 GCATAAAGTGTCGATATATTTATAAAAAGTATCGATACC-AGAAACATCGAAACCCATAAATATA
194 GCATAAAGTGTCGATACATTTATAAAAAGTATCGAT-CCTAGAAACATCGAAACCCATAAATATA
* ** * *
437243 ATGTAATAGGTAAATTTACAATGTAACAT-GTATAACTATAC-CGATTTTATGTTAAAATAGGTG
258 ATGTAATAGGTAAATTTACAATGTAAC-TGGTATAACTAAACACG-TTTTATGAGAAAATACGTC
* * *
437306 AACATAATGTATCGACACGTTTTAG-ATTTGTGTCGATACTGTTTGTCCAAAATGAAT-GCCAAA
321 AACATAATGTATCGACAC-TTCTAGAATTTGTGTCGATACTGTTTCTCCAAAATGAATACCCAAA
* * * * *
437369 ATGGTTGCACGCATAACCTGTCGATACATGTTTTAAA-ACGTATCGATCCCAAAAACATCGAAAC
385 AAGG-TGCACGCAAAAACTGTCGATACAT-TTATAAACAAGTATCGATCCCAAAAACATCGAAAC
* *
437433 ATATAATTATAATGTAATAGATAATTTTGT-AATATAATCGGTATAAATATATC-AGTTTTATGT
448 ACATAATTATAATGTAATAGATAATTTT-TCAATATAATCGGTATAAATATATCGA-TTTTATGA
* *** * *
437496 GAGAATAGGTCTACATAATATG-TCGACACT-TTTTAATGTTGTGTCGATACTTTTTGTACAGAA
511 GAGAATAGATCTAC--AATATGATCGACACTCGAGTAAT-TTATGTCGATACTTTTGGTACA-AA
*
437559 A-AATGCCCAAAA-GGGTGAA-CACATAAAGTGTCGATACATTTATAA-AACGTATCGATCCCAA
572 AGAATGCCCAAAACGGGTGAACCAC-T-AAGTGTCAATACATTTATAAGAA-GTATCGATCCCAA
* *
437620 AAACATCGAAAACGATAATTATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACC
634 AAACATCGAAAACCATAATTATAATATAATAGGTAAATTTACAATATAACCGGTATAAATATACC
**
437685 AGTTTTATGTTAAAATAGGTG-A-ATATAATGTATCGAAACGTT-T-TAGATTTGTGTCGATACT
699 AGTTTTATGAGAAAATAGGTGTACA-AT-ATGTATCGAAAC-TTGTGTA-ATTTGTGTCGATACT
* ** * *
437746 TTTTGTCCAAAATGAATG-CCAAAATTGTTGCACGCA-TAAA
760 TTTGGTCCAAAATGAATGCCCAAAAAGGGTACAC-CACT-AA
* * * *
437786 GTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAAATATCGAAACCGATATTTATAATGTAAT
1 GTGTCGATACATGTTTTAAAAAGTGTCGATCCAAAAAATATCGAAACCCATAATTATAATATAAT
* * * *
437851 AGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTAT
66 AGGTAATTTTATAATATAACC-GTATAAATATACCGGTTTTAT
437894 GACAAAATAG
Statistics
Matches: 786, Mismatches: 96, Indels: 52
0.84 0.10 0.06
Matches are distributed among these distances:
798 4 0.01
799 26 0.03
800 190 0.24
801 539 0.69
802 21 0.03
803 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (799 bp):
GTGTCGATACATGTTTTAAAAAGTGTCGATCCAAAAAATATCGAAACCCATAATTATAATATAAT
AGGTAATTTTATAATATAACCGTATAAATATACCGGTTTTATATGAGAATATGTCTACATAATGT
ATCAACACTTTTTCATTATGTGTCAATACATTTTGTCCAGAATGAATGCCCAAAATGATGAACGC
ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCTAGAAACATCGAAACCCATAAATATAATG
TAATAGGTAAATTTACAATGTAACTGGTATAACTAAACACGTTTTATGAGAAAATACGTCAACAT
AATGTATCGACACTTCTAGAATTTGTGTCGATACTGTTTCTCCAAAATGAATACCCAAAAAGGTG
CACGCAAAAACTGTCGATACATTTATAAACAAGTATCGATCCCAAAAACATCGAAACACATAATT
ATAATGTAATAGATAATTTTTCAATATAATCGGTATAAATATATCGATTTTATGAGAGAATAGAT
CTACAATATGATCGACACTCGAGTAATTTATGTCGATACTTTTGGTACAAAAGAATGCCCAAAAC
GGGTGAACCACTAAGTGTCAATACATTTATAAGAAGTATCGATCCCAAAAACATCGAAAACCATA
ATTATAATATAATAGGTAAATTTACAATATAACCGGTATAAATATACCAGTTTTATGAGAAAATA
GGTGTACAATATGTATCGAAACTTGTGTAATTTGTGTCGATACTTTTGGTCCAAAATGAATGCCC
AAAAAGGGTACACCACTAA
Found at i:437875 original size:20 final size:20
Alignment explanation
Indices: 437837--437875 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
437827 CGAAACCGAT
* *
437837 ATTTATAATGTAATAGGTAA
1 ATTTACAATGTAACAGGTAA
*
437857 ATTTACAATGTAACCGGTA
1 ATTTACAATGTAACAGGTA
437876 TAAATGTACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (20 bp):
ATTTACAATGTAACAGGTAA
Found at i:442545 original size:201 final size:198
Alignment explanation
Indices: 442230--443048 Score: 813
Period size: 201 Copynumber: 4.1 Consensus size: 198
442220 AGGTTGAGAG
* * * * *
442230 AAAACAGGTCAACATAATGTATCGACACTTGTGTAATTTGTGTCGATACTTATTATCCAGAATGA
1 AAAATAGGTCAACATAATGTATCGACACTTAT-TAATTTATGTCGATATTTTTTATCCAGAATGA
* * * *
442295 CTGCCCAAACGAGATGCACGCATAAAGTGTCGATACAATTATTAAAAGTATCGATCCCAATAAA-
65 ATG-CCAAAAG-GGTGCACGCATAAAGTGTCGATACAATTATTAAAAGTATCGAT-CCAAAAAAC
* * * * **
442359 ATCAAAACTGATAATTATAATGTAATAGGTAAATTTATAATGTAACTGATATAAATACACTAATT
127 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACTGATATAAATATACTGGTT
**
442424 TTATGTT
192 TTATGAA
* * * *
442431 AAAATAGGTGAACATAATGTATCGACACGTT-TTATATTTGTGTCGATATTTTTTGTCCAAAATG
1 AAAATAGGTCAACATAATGTATCGACAC-TTATTA-ATTTATGTCGATATTTTTTATCCAGAATG
*
442495 ATTGCCAAAAGGGTTGCACGCATAAAGTGTCGATACATATT-TTAAAAAGTATCGATCCAAAAAA
64 AATGCCAAAAGGG-TGCACGCATAAAGTGTCGATACA-ATTATT-AAAAGTATCGATCCAAAAAA
* * * *
442559 CATCGAAACCGATAATTATAATGTAATATGTAAATTTACAATATCA-TCGATATAAATATACCGG
126 CATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACT-GATATAAATATACTGG
*
442623 TTTTATGAG
190 TTTTATGAA
* * * * * *
442632 AAAATAGATCATCATAAAGTATCGACACTTATTAAATTTATGTCGATATATTTTATCCATAATAA
1 AAAATAGGTCAACATAATGTATCGACACTTATT-AATTTATGTCGATATTTTTTATCCAGAATGA
* * * * * *
442697 ATGCCAAACA-GGCGCACACATAAAGTATCGATACATTTATTAAAACTATCGATCCCAAAAACAT
65 ATGCCAAA-AGGGTGCACGCATAAAGTGTCGATACAATTATTAAAAGTATCGATCCAAAAAACAT
* ** * * *
442761 CGAAACCGATAATTACAATGTGTTAGGTAAATTTACAATGTACCCGATAGAAATATA-TCGGTTT
129 CGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACTGATATAAATATACT-GGTTT
442825 TATGAAAAA
193 TATG---AA
* *
442834 AAAATAGGTCTAA-ATAATGTATCAACACTCT-TTAAGTTTATGTCGATATTTGTT-TCCAGAAT
1 AAAATAGGTC-AACATAATGTATCGACACT-TATTAA-TTTATGTCGATATTTTTTATCCAGAAT
* *
442896 GAATGCCCAACGAGGTGCACGCATAAAGTGTCGATAC-A-T-TTAAAATTGTATCGATCCAAAAA
63 GAATGCCAAAAG-GGTGCACGCATAAAGTGTCGATACAATTATTAAAA--GTATCGATCCAAAAA
* * *
442958 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTGA-AATGTTACCGGTATAAATATA-TC
125 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTT-ACAATGTAACTGATATAAATATACT-
* *
443021 GG-TTTACTTAT
188 GGTTTTA-TGAA
*
443032 AAAATAGGTCAATATAA
1 AAAATAGGTCAACATAA
443049 ACGCTACATA
Statistics
Matches: 518, Mismatches: 74, Indels: 55
0.80 0.11 0.09
Matches are distributed among these distances:
197 2 0.00
198 15 0.03
199 86 0.17
200 70 0.14
201 275 0.53
202 68 0.13
203 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (198 bp):
AAAATAGGTCAACATAATGTATCGACACTTATTAATTTATGTCGATATTTTTTATCCAGAATGAA
TGCCAAAAGGGTGCACGCATAAAGTGTCGATACAATTATTAAAAGTATCGATCCAAAAAACATCG
AAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACTGATATAAATATACTGGTTTTAT
GAA
Found at i:442969 original size:400 final size:401
Alignment explanation
Indices: 442227--442995 Score: 970
Period size: 400 Copynumber: 1.9 Consensus size: 401
442217 GCCAGGTTGA
* * * *
442227 GAGAAAACAGGTCAACATAATGTATCGACACTTGTGTAATTTGTGTCGATACTTATTATCCAGAA
1 GAGAAAACAGATCAACATAAAGTATCGACACTTATGTAATTTATGTCGATACTTATTATCCAGAA
* * * * * *
442292 TGACTGCCCAAACGAGATGCACGCATAAAGTGTCGATACAATTATTAAAAGTATCGATCCCAATA
66 TAAATGCCCAAACGAGACGCACACATAAAGTATCGATACAATTATTAAAACTATCGATCCCAATA
* * * * *
442357 AAATCAAAACTGATAATTATAATGTAATAGGTAAATTTATAATGTAACTGATATAAATACACTAA
131 AAATCAAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATACACTAA
** * * *
442422 TTTTATGTTAAAATAGGTGAACATAATGTATCGACACGTTTTATATTTGTGTCGATATTTTTTGT
196 TTTTATGAAAAAATAGGTGAACATAATGTATCAACACGTTTTATATTTATGTCGATATTTGTTGT
*
442487 CCAAAATGATTGCCAAAAGGGTTGCACGCATAAAGTGTCGATACATATTTTAAAAAGTATCGATC
261 CCAAAATGAATGCCAAAAGGGTTGCACGCATAAAGTGTCGATACA-ATTTTAAAAAGTATCGATC
*
442552 CAAAAAACATCGAAACCGATAATTATAATGTAATATGTAAATTTACAATATCATCGATATAAATA
325 CAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATATCATCGATATAAATA
442617 TACCGGTTTTAT
390 TACCGGTTTTAT
* * * *
442629 GAGAAAATAGATCATCATAAAGTATCGACACTTAT-TAAATTTATGTCGATA-TATTTTATCCAT
1 GAGAAAACAGATCAACATAAAGTATCGACACTTATGT-AATTTATGTCGATACT-TATTATCCAG
* *
442692 AATAAATG-CCAAAC-AGGCGCACACATAAAGTATCGATACATTTATTAAAACTATCGATCCCAA
64 AATAAATGCCCAAACGAGACGCACACATAAAGTATCGATACAATTATTAAAACTATCGATCCCAA
* ** * *
442755 -AAACATCGAAACCGATAATTACAATGTGTTAGGTAAATTTACAATGTACCCGATAGAAATATA-
129 TAAA-ATCAAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATACAC
** *
442818 TCGGTTTTATGAAAAAAAAATAGGTCTAA-ATAATGTATCAACAC-TCTTTA-AGTTTATGTCGA
193 T-AATTTTATG---AAAAAATAGGT-GAACATAATGTATCAACACGT-TTTATA-TTTATGTCGA
* * *
442880 TATTTGTT-TCCAGAATGAATGCCCAACGAGG-TGCACGCATAAAGTGTCGATAC-A-TTTAAAA
251 TATTTGTTGTCCAAAATGAATGCCAAAAG-GGTTGCACGCATAAAGTGTCGATACAATTTTAAAA
*
442941 TTGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTT
315 -AGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTT
442996 GAAATGTTAC
Statistics
Matches: 315, Mismatches: 40, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
399 11 0.03
400 152 0.48
401 8 0.03
402 97 0.31
403 45 0.14
404 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (401 bp):
GAGAAAACAGATCAACATAAAGTATCGACACTTATGTAATTTATGTCGATACTTATTATCCAGAA
TAAATGCCCAAACGAGACGCACACATAAAGTATCGATACAATTATTAAAACTATCGATCCCAATA
AAATCAAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATACACTAA
TTTTATGAAAAAATAGGTGAACATAATGTATCAACACGTTTTATATTTATGTCGATATTTGTTGT
CCAAAATGAATGCCAAAAGGGTTGCACGCATAAAGTGTCGATACAATTTTAAAAAGTATCGATCC
AAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATATCATCGATATAAATAT
ACCGGTTTTAT
Found at i:443145 original size:23 final size:23
Alignment explanation
Indices: 443126--443199 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
443116 TGTCTATTTT
443126 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGCTACCTATTAC
*
443149 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGCTACCTATTAC
* * *
443172 ATTATATAAACGTTACCTAATAT
1 ATTATATAAACGCTACCTATTAC
443195 ATTAT
1 ATTAT
443200 TGTATTTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (23 bp):
ATTATATAAACGCTACCTATTAC
Found at i:443200 original size:110 final size:109
Alignment explanation
Indices: 443043--443263 Score: 325
Period size: 110 Copynumber: 2.0 Consensus size: 109
443033 AAATAGGTCA
* * * *
443043 ATATAAACGCTACATATTACATATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTT
1 ATATAAACGCTACATATTACATATATAAACGCTACCTAATATATTATTGTACTTAATAATATTTC
*
443108 CGGCTAAATGTCTATTTTATTATATAAACGCTACCTATTACATT
66 CGGCTAAATGTCTATTTTATTATATAAACGCTACCTAATACATT
* * * *
443152 ATATAAGCGCTACCTATTACATTATATAAACGTTACCTAATATATTATTGTATTTAATAATATTT
1 ATATAAACGCTACATATTACA-TATATAAACGCTACCTAATATATTATTGTACTTAATAATATTT
* * *
443217 CCGGTTAAATGTCTATTTTATTATATAAGCGCTACCTAATATATT
65 CCGGCTAAATGTCTATTTTATTATATAAACGCTACCTAATACATT
443262 AT
1 AT
443264 TATACCTAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
109 19 0.19
110 80 0.81
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (109 bp):
ATATAAACGCTACATATTACATATATAAACGCTACCTAATATATTATTGTACTTAATAATATTTC
CGGCTAAATGTCTATTTTATTATATAAACGCTACCTAATACATT
Found at i:443520 original size:6 final size:6
Alignment explanation
Indices: 443509--443538 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
443499 CTCACTCCCA
443509 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
443539 CGACACATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTTTC
Found at i:444779 original size:17 final size:17
Alignment explanation
Indices: 444757--444806 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
444747 AAATTCTTCT
444757 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
*
444774 AACA-T--T-GATACTCA
1 AACATTCATAGAAAC-CA
444788 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
444805 AA
1 AA
444807 ACATGAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.15
14 7 0.27
15 1 0.04
16 1 0.04
17 9 0.35
18 4 0.15
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (17 bp):
AACATTCATAGAAACCA
Found at i:445049 original size:20 final size:20
Alignment explanation
Indices: 445024--445061 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
445014 TTATGAACTT
445024 TTCTCTT-ATATATTATTATG
1 TTCTCTTAATA-ATTATTATG
445044 TTCTCTTAATAATTATTA
1 TTCTCTTAATAATTATTA
445062 ATATGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (20 bp):
TTCTCTTAATAATTATTATG
Found at i:446108 original size:2 final size:2
Alignment explanation
Indices: 446096--446144 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
446086 TTATAATGTT
446096 TA TA T- TA TA TA TA TA TA -A TA T- 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
446135 TA TA TA -A TA T
1 TA TA TA TA TA T
446145 TATTAAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:446113 original size:22 final size:24
Alignment explanation
Indices: 446087--446144 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
446077 TTTTCGTCAT
*
446087 TATAATGTT-TATAT-TATATATA
1 TATAATATTATATATATATATATA
446109 TATAATATTATATATATATATATA
1 TATAATATTATATATATATATATA
*
446133 TAT-ATATAATAT
1 TATAATATTATAT
446145 TATTAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 8 0.25
23 13 0.41
24 11 0.34
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TATAATATTATATATATATATATA
Found at i:446116 original size:16 final size:15
Alignment explanation
Indices: 446096--446147 Score: 81
Period size: 16 Copynumber: 3.5 Consensus size: 15
446086 TTATAATGTT
446096 TATATTATATATATA
1 TATATTATATATATA
446111 TAATATTATATATATA
1 T-ATATTATATATATA
446127 TATA-TATATATATA
1 TATATTATATATATA
446141 -ATATTAT
1 TATATTAT
446148 TAAAATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.09
14 13 0.37
15 4 0.11
16 15 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATTATATATATA
Found at i:447215 original size:21 final size:21
Alignment explanation
Indices: 447173--447245 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 21
447163 CACGTGTTTC
* *
447173 ATTTTTTTATTTAAATAT-TAT
1 ATTTTATTA-TTACATATATAT
447194 ATTTTATTATTACATATATAT
1 ATTTTATTATTACATATATAT
* **
447215 A-TATATTATT-CGCATAT-T
1 ATTTTATTATTACATATATAT
*
447233 ATTTTATTTTTAC
1 ATTTTATTATTAC
447246 TTTCTTTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.05
19 12 0.29
20 16 0.38
21 12 0.29
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (21 bp):
ATTTTATTATTACATATATAT
Found at i:447270 original size:14 final size:12
Alignment explanation
Indices: 447229--447304 Score: 68
Period size: 14 Copynumber: 6.2 Consensus size: 12
447219 ATTATTCGCA
447229 TATTA-TTTTAT
1 TATTACTTTTAT
* *
447240 TTTTACTTTCTTTT
1 TATTAC-TT-TTAT
447254 TATTACCTTTGTAT
1 TATTA-CTTT-TAT
447268 TATTACTTTTAT
1 TATTACTTTTAT
*
447280 TATT--TTATAT
1 TATTACTTTTAT
447290 TATTACTTTTAT
1 TATTACTTTTAT
447302 TAT
1 TAT
447305 ATATATACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
10 9 0.17
11 4 0.08
12 15 0.29
13 7 0.13
14 16 0.31
15 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.68
Consensus pattern (12 bp):
TATTACTTTTAT
Found at i:447293 original size:22 final size:22
Alignment explanation
Indices: 447251--447304 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
447241 TTTACTTTCT
* *
447251 TTTTATTACCTTTGTATTATTAC
1 TTTTATTA-TTTTATATTATTAC
447274 TTTTATTATTTTATATTATTAC
1 TTTTATTATTTTATATTATTAC
447296 TTTTATTAT
1 TTTTATTAT
447305 ATATATACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATTATTTTATATTATTAC
Found at i:447301 original size:19 final size:21
Alignment explanation
Indices: 447265--447311 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
447255 ATTACCTTTG
*
447265 TATTATTACTTTTATTATTTTA
1 TATTATTAC-TTTATTATTATA
447287 TATTATTACTTTTATTATATATA
1 TATTATTAC-TTTATTAT-TATA
447310 TA
1 TA
447312 CATATACGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTATTACTTTATTATTATA
Found at i:447482 original size:52 final size:52
Alignment explanation
Indices: 447391--447514 Score: 121
Period size: 52 Copynumber: 2.3 Consensus size: 52
447381 TTTTATTCGG
* *
447391 TTTT-TTAGTATTATATTGTATATTTTTCTATTTATTTTTTATTA-TTTTTTGT
1 TTTTATTACTATTATA-TGTATATTTTTCTATTTATTTTTT-TTACTCTTTTGT
*
447443 TTTTATTACTATTATA-GTATATTATTTTTATTT-TCTTTTTTTACTCTTTTGT
1 TTTTATTACTATTATATGTATATT-TTTCTATTTAT-TTTTTTTACTCTTTTGT
*
447495 CTTTACTATTATTATTATAT
1 -TTT--TATTACTATTATAT
447515 ACATACTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
51 11 0.18
52 24 0.40
53 13 0.22
55 12 0.20
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (52 bp):
TTTTATTACTATTATATGTATATTTTTCTATTTATTTTTTTTACTCTTTTGT
Found at i:450859 original size:30 final size:30
Alignment explanation
Indices: 450791--450875 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 30
450781 ATCCAATCAG
* * *
450791 AACAAAAAAAAAAGAGAAAAAGAGAAGAAA
1 AACAAAGAAAAAATAGAAAAAGAGAACAAA
450821 AAGGCAAAGAAAAAATA-AAAAAGAGAATCAAA
1 AA--CAAAGAAAAAATAGAAAAAGAGAA-CAAA
450853 AACAAAGAAAAAATGAAGAAAAA
1 AACAAAGAAAAAAT--AGAAAAA
450876 AGACAAGACG
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
30 14 0.30
31 10 0.22
32 17 0.37
33 5 0.11
ACGTcount: A:0.76, C:0.05, G:0.15, T:0.04
Consensus pattern (30 bp):
AACAAAGAAAAAATAGAAAAAGAGAACAAA
Found at i:451958 original size:33 final size:34
Alignment explanation
Indices: 451915--451978 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
451905 TGGATGTATA
*
451915 TTTGAAGATTCAACATCAAATGTTGGGGCATTTT
1 TTTGAAGATTCAACATCAAATATTGGGGCATTTT
*
451949 TTTG-AGATTCAACATCGAATATTGGGGCAT
1 TTTGAAGATTCAACATCAAATATTGGGGCAT
451979 CTTTGGGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (34 bp):
TTTGAAGATTCAACATCAAATATTGGGGCATTTT
Found at i:452841 original size:35 final size:35
Alignment explanation
Indices: 452790--452908 Score: 131
Period size: 35 Copynumber: 3.5 Consensus size: 35
452780 ACATTGGATT
* *
452790 TCAACTTCACGACGAATGATATCCAATTCCAAGGC
1 TCAAATTCACAACGAATGATATCCAATTCCAAGGC
* * *
452825 TCAAATTCACAACGAATG---GCC-ATT-CACGGTT
1 TCAAATTCACAACGAATGATATCCAATTCCAAGG-C
* *
452856 TCAACTTCACGACGAATGATATCCAATTCCAAGGC
1 TCAAATTCACAACGAATGATATCCAATTCCAAGGC
452891 TCAAATTCACAACGAATG
1 TCAAATTCACAACGAATG
452909 GCCATCCACG
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
30 4 0.06
31 19 0.29
32 2 0.03
34 2 0.03
35 35 0.53
36 4 0.06
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (35 bp):
TCAAATTCACAACGAATGATATCCAATTCCAAGGC
Found at i:452871 original size:31 final size:31
Alignment explanation
Indices: 452825--452930 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 31
452815 ATTCCAAGGC
452825 TCAAATTCACAACGAATGGCCATTCACGGTT
1 TCAAATTCACAACGAATGGCCATTCACGGTT
* * * * *
452856 TCAACTTCACGACGAATGATATCCAATTCCAAGG-C
1 TCAAATTCACAACGAATG---GCC-ATT-CACGGTT
*
452891 TCAAATTCACAACGAATGGCCATCCACGGTT
1 TCAAATTCACAACGAATGGCCATTCACGGTT
*
452922 TCAACTTCA
1 TCAAATTCA
452931 TGATGAAGGG
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
30 4 0.07
31 26 0.46
32 2 0.04
34 2 0.04
35 19 0.33
36 4 0.07
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (31 bp):
TCAAATTCACAACGAATGGCCATTCACGGTT
Found at i:452894 original size:66 final size:66
Alignment explanation
Indices: 452788--452930 Score: 277
Period size: 66 Copynumber: 2.2 Consensus size: 66
452778 GCACATTGGA
*
452788 TTTCAACTTCACGACGAATGATATCCAATTCCAAGGCTCAAATTCACAACGAATGGCCATTCACG
1 TTTCAACTTCACGACGAATGATATCCAATTCCAAGGCTCAAATTCACAACGAATGGCCATCCACG
452853 G
66 G
452854 TTTCAACTTCACGACGAATGATATCCAATTCCAAGGCTCAAATTCACAACGAATGGCCATCCACG
1 TTTCAACTTCACGACGAATGATATCCAATTCCAAGGCTCAAATTCACAACGAATGGCCATCCACG
452919 G
66 G
452920 TTTCAACTTCA
1 TTTCAACTTCA
452931 TGATGAAGGG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 76 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (66 bp):
TTTCAACTTCACGACGAATGATATCCAATTCCAAGGCTCAAATTCACAACGAATGGCCATCCACG
G
Found at i:453346 original size:37 final size:36
Alignment explanation
Indices: 453304--453410 Score: 124
Period size: 36 Copynumber: 2.9 Consensus size: 36
453294 TTAAAACTAA
* * * ** *
453304 TTGTCTCCCTTGAGGCAGTTTCTGTTGGTACTAAGTT
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATT
* *
453341 TTGTCTCTCTTGAGACAATTTCTCTTTAAACAAATT
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATT
*
453377 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
453411 ATCTTTTTTC
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
36 35 0.59
37 24 0.41
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATT
Found at i:453449 original size:94 final size:93
Alignment explanation
Indices: 453336--453510 Score: 323
Period size: 94 Copynumber: 1.9 Consensus size: 93
453326 TGTTGGTACT
*
453336 AAGTTTTGTCTCTCTTGAGACAATTTCTCTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
1 AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
453401 TTGAAACAAAATCTTTTTTCCTTAAAGAC
66 TTGAAACAAAAT-TTTTTTCCTTAAAGAC
*
453430 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
1 AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
453495 TTGAAACAAAATTTTT
66 TTGAAACAAAATTTTT
453511 GAATCTATTT
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
93 4 0.05
94 75 0.95
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (93 bp):
AAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
TTGAAACAAAATTTTTTTCCTTAAAGAC
Found at i:453450 original size:21 final size:20
Alignment explanation
Indices: 453426--453491 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
453416 TTTTCCTTAA
453426 AGACAAGTTTTGTCTCTCTTG
1 AGAC-AGTTTTGTCTCTCTTG
453447 AGACAG---T-T-TCTCTTG
1 AGACAGTTTTGTCTCTCTTG
* *
453462 AAACAAATTTTGTCTCTCTTG
1 AGAC-AGTTTTGTCTCTCTTG
453483 AGACAGTTT
1 AGACAGTTT
453492 CCCTTGAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
15 10 0.29
16 2 0.06
17 1 0.03
19 1 0.03
20 7 0.20
21 14 0.40
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (20 bp):
AGACAGTTTTGTCTCTCTTG
Found at i:453480 original size:36 final size:36
Alignment explanation
Indices: 453428--453509 Score: 137
Period size: 36 Copynumber: 2.2 Consensus size: 36
453418 TTCCTTAAAG
* *
453428 ACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
1 ACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAA
453464 ACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAA
1 ACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAA
453500 ACAAAATTTT
1 AC-AAATTTT
453510 TGAATCTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
36 36 0.84
37 7 0.16
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (36 bp):
ACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAA
Found at i:453622 original size:36 final size:36
Alignment explanation
Indices: 453519--453674 Score: 190
Period size: 36 Copynumber: 4.4 Consensus size: 36
453509 TTGAATCTAT
* *
453519 TTTC-CTTGAAACTAA-TTTGTCTCCCTTGAGAGAG
1 TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAG
* * * * *
453553 TTTCTTTTGGAACTAAGTTTTATCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCCCTTGAGACAG
*
453590 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAG
* * *
453626 TTTCCCTTGAAACAAAGTTTGTCTCCCTTGAGACAA
1 TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAG
453662 TTTCTCTTGAAAC
1 TTTCTCTTGAAAC
453675 GCCAATCTTT
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
34 4 0.04
35 6 0.06
36 66 0.64
37 27 0.26
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAG
Found at i:453794 original size:36 final size:36
Alignment explanation
Indices: 453729--453817 Score: 130
Period size: 36 Copynumber: 2.5 Consensus size: 36
453719 CCTTGAGACA
*
453729 GTTTCTCTTGAAACAC--AAAAAAACTTTTG-AAAT
1 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAAT
453762 CGTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAAT
1 -GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAAT
*
453799 GTTTCTCTTGAATCACAAA
1 GTTTCTCTTGAAACACAAA
453818 GACCTTCGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
34 16 0.32
36 30 0.60
37 4 0.08
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (36 bp):
GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAAT
Found at i:455487 original size:2 final size:2
Alignment explanation
Indices: 455482--455509 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
455472 TTATTATTAC
455482 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
455510 TATTCGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:455741 original size:27 final size:27
Alignment explanation
Indices: 455695--455772 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 27
455685 TTATATTGTA
455695 TATTTTTATATATATATTTT-TTTTTC
1 TATTTTTATATATATATTTTATTTTTC
*
455721 TATTTGTTAT-TAT-TATTTT-TTATTTT
1 TATTT-TTATATATATATTTTATT-TTTC
**
455747 TATTACTAT-TATAGTATTTTATTTTT
1 TATTTTTATATATA-TATTTTATTTTT
455773 ATTTTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 14 0.32
26 15 0.34
27 13 0.30
28 2 0.05
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (27 bp):
TATTTTTATATATATATTTTATTTTTC
Found at i:455743 original size:13 final size:14
Alignment explanation
Indices: 455688--455744 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 14
455678 TTTAGTATTA
*
455688 TATTGTATA-TTTT
1 TATTATATATTTTT
455701 TATATATATATTTTT
1 TAT-TATATATTTTT
* *
455716 T-TT-TCTATTTGT
1 TATTATATATTTTT
455728 TATTAT-TATTTTT
1 TATTATATATTTTT
455741 TATT
1 TATT
455745 TTTATTACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 8 0.22
13 16 0.44
14 7 0.19
15 5 0.14
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (14 bp):
TATTATATATTTTT
Found at i:455785 original size:19 final size:20
Alignment explanation
Indices: 455709--455792 Score: 64
Period size: 25 Copynumber: 3.9 Consensus size: 20
455699 TTTATATATA
*
455709 TATTTTTTTTTCTATTTGTTAT
1 TATTATTTTTT-TATTT-TTAT
455731 TATTA-TTTTTTATTTTTATT
1 TATTATTTTTTTATTTTTA-T
*
455751 ACTATTATAGTATTTTATTTTTAT
1 --TATTAT--TTTTTTATTTTTAT
455775 T-TTATTTTTTTACTTTTT
1 TATTATTTTTTTA-TTTTT
455793 TGTATTTACT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
19 9 0.17
20 11 0.21
21 9 0.17
22 10 0.19
24 1 0.02
25 12 0.23
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (20 bp):
TATTATTTTTTTATTTTTAT
Found at i:456857 original size:9 final size:10
Alignment explanation
Indices: 456837--456911 Score: 85
Period size: 9 Copynumber: 8.2 Consensus size: 10
456827 GCAAAAAGAA
456837 TATATATATAT
1 TATATAT-TAT
456848 TATAT-TTAT
1 TATATATTAT
456857 TAT-TATTAT
1 TATATATTAT
456866 TAT-TATTAT
1 TATATATTAT
456875 TAT-TATTAT
1 TATATATTAT
456884 TAT-TATTAT
1 TATATATTAT
456893 TAT-TA-TAT
1 TATATATTAT
456901 TA-ATATTAT
1 TATATATTAT
456910 TA
1 TA
456912 ATTTTGTTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.13
9 47 0.77
10 1 0.02
11 5 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATATTAT
Found at i:456861 original size:3 final size:3
Alignment explanation
Indices: 456853--456911 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
456843 TATATTATAT
456853 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
456900 TTA ATA TTA TTA
1 TTA TTA TTA TTA
456912 ATTTTGTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:457823 original size:4 final size:4
Alignment explanation
Indices: 457814--457926 Score: 74
Period size: 4 Copynumber: 28.5 Consensus size: 4
457804 TTTAATTTGT
*
457814 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TT- TTTA TTTA TTTC TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
** * * * *
457859 TTCC TTGA ATTA -TTA TTCTA TTTT TTTAA TTTTA TTTT TTTA TTTGA
1 TTTA TTTA TTTA TTTA TT-TA TTTA TTT-A -TTTA TTTA TTTA TTT-A
* *
457906 TTTA TTTA -ATA TTCA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TT
457927 ATTATTATTA
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
3 11 0.13
4 63 0.73
5 9 0.10
6 3 0.03
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:457928 original size:27 final size:27
Alignment explanation
Indices: 457868--457929 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
457858 TTTCCTTGAA
* *
457868 TTATTATTCTATTTTTTTAATTTTATT
1 TTATTATTCTATTTATTTAATTTCATT
*
457895 TTTTTATT-TGATTTATTTAATATTCA-T
1 TTATTATTCT-ATTTATTTAAT-TTCATT
457922 TTATTATT
1 TTATTATT
457930 ATTATTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.03
27 25 0.86
28 3 0.10
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (27 bp):
TTATTATTCTATTTATTTAATTTCATT
Found at i:461980 original size:39 final size:36
Alignment explanation
Indices: 461917--461993 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
461907 TAGATAAACT
*
461917 TACTTAGAACAAAATTAAGATTAAATTACT-TTATA
1 TACTTAGAACAAAATTAAGATTAAATTAATATTATA
461952 TACTTAGAACAAAATTAAGTAAGTTTAAATTAATATTATA
1 TACTTAGAACAAAATTAAG--A--TTAAATTAATATTATA
461992 TA
1 TA
461994 TATATTAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
35 19 0.53
37 1 0.03
39 9 0.25
40 7 0.19
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (36 bp):
TACTTAGAACAAAATTAAGATTAAATTAATATTATA
Found at i:463254 original size:3 final size:3
Alignment explanation
Indices: 463246--463334 Score: 110
Period size: 3 Copynumber: 30.0 Consensus size: 3
463236 CTGCAATGTA
* *
463246 AAT AAT AAT TAT -TT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * *
463291 -AT AAT ATT AAT GAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
463335 TTTTAAAAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
2 3 0.04
3 68 0.92
4 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:468369 original size:33 final size:33
Alignment explanation
Indices: 468271--468371 Score: 81
Period size: 33 Copynumber: 3.2 Consensus size: 33
468261 TTCAATACAT
*
468271 ATATCATTTTTAAAATCAATTTATGGTTCAAAA
1 ATATCATTTTTAAAATCAATTTGTGGTTCAAAA
* * * * *
468304 TTATCATTATTCAAA-C-ATTTGAT--ATC---T
1 ATATCATTTTTAAAATCAATTTG-TGGTTCAAAA
*
468331 GTATCATTTTTAAAATCAATTTGTGGTTCAAAA
1 ATATCATTTTTAAAATCAATTTGTGGTTCAAAA
468364 ATATCATT
1 ATATCATT
468372 ATTCAAACAT
Statistics
Matches: 48, Mismatches: 12, Indels: 16
0.63 0.16 0.21
Matches are distributed among these distances:
27 12 0.25
28 2 0.04
29 5 0.10
30 4 0.08
31 4 0.08
32 2 0.04
33 19 0.40
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.45
Consensus pattern (33 bp):
ATATCATTTTTAAAATCAATTTGTGGTTCAAAA
Found at i:468369 original size:60 final size:60
Alignment explanation
Indices: 468272--468388 Score: 216
Period size: 60 Copynumber: 1.9 Consensus size: 60
468262 TCAATACATA
*
468272 TATCATTTTTAAAATCAATTTATGGTTCAAAATTATCATTATTCAAACATTTGATATCTG
1 TATCATTTTTAAAATCAATTTATGGTTCAAAAATATCATTATTCAAACATTTGATATCTG
*
468332 TATCATTTTTAAAATCAATTTGTGGTTCAAAAATATCATTATTCAAACATTTGATAT
1 TATCATTTTTAAAATCAATTTATGGTTCAAAAATATCATTATTCAAACATTTGATAT
468389 TTGAAAACCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (60 bp):
TATCATTTTTAAAATCAATTTATGGTTCAAAAATATCATTATTCAAACATTTGATATCTG
Found at i:475664 original size:13 final size:14
Alignment explanation
Indices: 475648--475678 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
475638 TAAAAATGTC
475648 TTTT-AAAAATTAT
1 TTTTAAAAAATTAT
475661 TTTTAAAAAATTAT
1 TTTTAAAAAATTAT
475675 TTTT
1 TTTT
475679 TAAGACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTAAAAAATTAT
Found at i:477428 original size:17 final size:16
Alignment explanation
Indices: 477406--477439 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
477396 CTGTAATGTA
477406 AATAATAATTATTTATT
1 AATAATAATTA-TTATT
477423 AATAATAATTATTATT
1 AATAATAATTATTATT
477439 A
1 A
477440 TTGTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATAATAATTATTATT
Found at i:477451 original size:3 final size:3
Alignment explanation
Indices: 477445--477500 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
477435 TATTATTGTA
* * * * *
477445 AAT AAT AAT AAT -AT AAT ATT AAT TAT AAT GAT GAT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
477492 AAT AAT AAT
1 AAT AAT AAT
477501 TTTAAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:478875 original size:167 final size:167
Alignment explanation
Indices: 478593--479799 Score: 1653
Period size: 167 Copynumber: 7.2 Consensus size: 167
478583 AAAGCACCTT
* *
478593 CAACAAAAGACATTCAAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAACTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTACAGCATAACTC
* * * *
478658 AAGGCGAAAAGAGTTATCTGTCAACCAAGACCTTCGAGTTCTATTACACTCAGCTCAAAGGCGCA
64 AAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACA
*
478723 TCATTTGTAGCATAGCTCAAGGCGAGAAGGGTTATCTGC
129 TCATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGC
* * *
478762 CAATAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
* * *
478827 GGCGATAAGGGTTATCTATCAACCACGACCTTC-ATGTTCGATTACACTCAGCTCAAAGGCACAT
66 GGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGA-GTTCGATTACACTCAGCTCAAAGGCACAT
* *
478891 CATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGC
130 CATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGC
* * *
478929 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
* * * *
478994 GGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATT--A--CA-CT-AAAGGCACAT
66 GGCGAGAAGGGTTATCTGTCAAC-CAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
* * * * *
479053 CATTTGTAGAATAGCTCAAGGCGATAAGGGCTATCTGG
130 CATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGC
* * * *
479091 CAACACAAGACCTTCGAGTTAGATTACACTCAGCTCAAAGGCATATCATTTACAACATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
* *
479156 GGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGTGTTCGATTACACTCAACTCAAAGG-AGCAT
66 GGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CAT
* * * *
479220 CATTTGCGGTATAGCTTAAGGCGAGAAAGGTTATCTGC
130 CATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGC
* * *
479258 CAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATTATTTATAGCATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
* * *
479323 GGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTTGACTACGCTCAGCTCAAAGGCACATC
66 GGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
*
479388 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGC
131 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGC
*
479425 CAACAAAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
*
479490 GGCGAGAAGGGTTATCTGTCAACCAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATC
66 GGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* * *
479555 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGT
131 ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGC
* * * *
479592 CAAC-CAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCAAATTTACAACATAGCTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTACAGCATAACTC
* * *
479656 AAGGCGAGAAGGGCTATCTGTCACCACAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCAC
64 AAGGCGAGAAGGGTTATCTGTCAAC-CAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAC
* * * * *
479721 ATCAAATTTACAGCA-AGGCTCAAGGCAAGAAGAGATATCTGT
128 ATC--ATTTGCAGCATA-GCTCAAGGCGAGAAGGGTTATCTGC
* * * *
479763 CAAC-AAATACCCTCGAGTTCGATTCCATTCAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
479800 GGGGATGTCA
Statistics
Matches: 924, Mismatches: 97, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
161 17 0.02
162 122 0.13
163 3 0.00
164 2 0.00
165 2 0.00
166 44 0.05
167 534 0.58
168 54 0.06
169 83 0.09
170 1 0.00
171 62 0.07
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (167 bp):
CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAA
GGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
ATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGC
Found at i:478895 original size:83 final size:83
Alignment explanation
Indices: 478599--479799 Score: 1547
Period size: 83 Copynumber: 14.4 Consensus size: 83
478589 CCTTCAACAA
* * *
478599 AAGACATTCAAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAACTCAAGGCG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTACAGCATAGCTCAAGGCG
* *
478664 AAAAGAGTTATCTGTCAACC
64 AGAAGGGTTATCTGTCAACC
* * **
478684 AAGACCTTCGAGTTCTATTACACTCAGCTCAAAGGCGCATCATTTGTAGCATAGCTCAAGGCGAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
* **
478749 AAGGGTTATCTGCCAATAA
66 AAGGGTTATCTGTCAA-CC
* *
478768 AAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAT
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
*
478833 AAGGGTTATCTATCAACC
66 AAGGGTTATCTGTCAACC
*
478851 ACGACCTTC-ATGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGA
1 AAGACCTTCGA-GTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGA
* * *
478915 GAAGGGCTATCTGCCAACAA
65 GAAGGGTTATCTGTCAAC-C
* *
478935 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTGCAGCATAGCTCAAGGCGAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
* * *
479000 AAGGGCTATCTGCCAACAA
66 AAGGGTTATCTGTCAAC-C
* ** * *
479019 AAGACCTTCGAGTTTGATT--A--CA-CT-AAAGGCACATCATTTGTAGAATAGCTCAAGGCGAT
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
* *
479078 AAGGGCTATCTGGCAACAC
66 AAGGGTTATCTGTCAAC-C
* * * *
479097 AAGACCTTCGAGTTAGATTACACTCAGCTCAAAGGCATATCATTTACAACATAACTCAAGGCGAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
479162 AAGGGTTATCTGTCAACC
66 AAGGGTTATCTGTCAACC
* * * * * *
479180 AAGACCTTCGTGTTCGATTACACTCAACTCAAAGG-AGCATCATTTGCGGTATAGCTTAAGGCGA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTACAGCATAGCTCAAGGCGA
* * *
479244 GAAAGGTTATCTGCCAACAA
65 GAAGGGTTATCTGTCAAC-C
* * * *
479264 AAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATTATTTATAGCATAACTCAAGGCGAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
479329 AAGGGTTATCTGTCAACC
66 AAGGGTTATCTGTCAACC
* * * * *
479347 AAGACCTTCGAGTTTGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
* *
479412 AAGGGTTATCTGCCAACAA
66 AAGGGTTATCTGTCAAC-C
* *
479431 AAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCGAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
479496 AAGGGTTATCTGTCAACC
66 AAGGGTTATCTGTCAACC
* *
479514 AAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAGGCGAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
479579 AAGGGTTATCTGTCAACC
66 AAGGGTTATCTGTCAACC
* *
479597 AAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCAAATTTACAACATAGCTCAAGGCG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTACAGCATAGCTCAAGGCG
* *
479662 AGAAGGGCTATCTGTCACCAC
64 AGAAGGGTTATCTGTCAAC-C
*
479683 AAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCA-AGGCTCAAGGC
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTACAGCATA-GCTCAAGGC
* * * *
479747 AAGAAGAGATATCTGTCAACA
63 GAGAAGGGTTATCTGTCAACC
* * * *
479768 AATACCCTCGAGTTCGATTCCATTCAGCTCAA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAA
479800 GGGGATGTCA
Statistics
Matches: 989, Mismatches: 109, Indels: 36
0.87 0.10 0.03
Matches are distributed among these distances:
78 66 0.07
79 2 0.00
80 3 0.00
82 5 0.01
83 375 0.38
84 357 0.36
85 103 0.10
86 78 0.08
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (83 bp):
AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCGAG
AAGGGTTATCTGTCAACC
Found at i:480427 original size:2 final size:2
Alignment explanation
Indices: 480420--480460 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
480410 GGCAAAAAGA
480420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
480461 TAATATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:481530 original size:23 final size:23
Alignment explanation
Indices: 481504--481548 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
481494 TATTGCTACT
481504 TTTAA-AATTTAACACTTTTTTTC
1 TTTAATAATTTAACA-TTTTTTTC
*
481527 TTTAATTTATTTAACATTTTTT
1 TTTAA-TAATTTAACATTTTTT
481549 AATTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 6 0.32
25 8 0.42
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTAATAATTTAACATTTTTTTC
Found at i:481583 original size:30 final size:30
Alignment explanation
Indices: 481547--481603 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
481537 TTAACATTTT
*
481547 TTAATTTGTTTT-ATTTAATTTGTTTTTTAA
1 TTAATTTGTTTTGATTT-ATTTATTTTTTAA
*
481577 TTAATTTTTTTTGATTTATTTATTTTT
1 TTAATTTGTTTTGATTTATTTATTTTT
481604 ATTTCTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (30 bp):
TTAATTTGTTTTGATTTATTTATTTTTTAA
Found at i:481584 original size:26 final size:26
Alignment explanation
Indices: 481543--481593 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
481533 TTATTTAACA
**
481543 TTTTTTAATTTGTTTTATTTAATTTG
1 TTTTTTAATTAATTTTATTTAATTTG
* *
481569 TTTTTTAATTAATTTTTTTTGATTT
1 TTTTTTAATTAATTTTATTTAATTT
481594 ATTTATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.75
Consensus pattern (26 bp):
TTTTTTAATTAATTTTATTTAATTTG
Found at i:481607 original size:14 final size:14
Alignment explanation
Indices: 481543--481617 Score: 57
Period size: 14 Copynumber: 5.4 Consensus size: 14
481533 TTATTTAACA
*
481543 TTTTTTAATTTGTT
1 TTTTTTAATTTATT
* *
481557 TTATTTAA-TT-TG
1 TTTTTTAATTTATT
*
481569 TTTTTTAATTAATT
1 TTTTTTAATTTATT
*
481583 TTTTTTGATTTATT
1 TTTTTTAATTTATT
*
481597 TATTTTT-ATTTCTT
1 T-TTTTTAATTTATT
481611 TCTTTTT
1 T-TTTTT
481618 CCTTGAATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
12 8 0.16
13 3 0.06
14 33 0.67
15 5 0.10
ACGTcount: A:0.17, C:0.03, G:0.04, T:0.76
Consensus pattern (14 bp):
TTTTTTAATTTATT
Found at i:481682 original size:3 final size:3
Alignment explanation
Indices: 481669--481724 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
481659 GTTTATGTAA
481669 TAT TCAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
481715 TAT TAT TAT T
1 TAT TAT TAT T
481725 TCCTCTAACA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:485199 original size:97 final size:97
Alignment explanation
Indices: 485033--485225 Score: 323
Period size: 97 Copynumber: 2.0 Consensus size: 97
485023 TACCTAATGT
** *
485033 TTAGTTTTTGTTTCATTTTAATACTTATCATTAAAAACTTAATGCGTTTAATATATAAACTATCA
1 TTAGTTTTTGTTTCATTTTAATACACATCATTAAAAACTTAATGCATTTAATATATAAACTATCA
*
485098 GTTTTAGTCTGTTTTACTACATAAATTTTTGC
66 GTTTTAGTCTGTTTTACTACATAAACTTTTGC
** *
485130 TTAGTTTTTGTTTCATTTTAATACACATTGTTAAAAACTTAATGCATTTAGTATATAAACTATCA
1 TTAGTTTTTGTTTCATTTTAATACACATCATTAAAAACTTAATGCATTTAATATATAAACTATCA
485195 GTTTTAGTCTGTTTTACTACATAAACTTTTG
66 GTTTTAGTCTGTTTTACTACATAAACTTTTG
485226 TTTTTAAGTA
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (97 bp):
TTAGTTTTTGTTTCATTTTAATACACATCATTAAAAACTTAATGCATTTAATATATAAACTATCA
GTTTTAGTCTGTTTTACTACATAAACTTTTGC
Found at i:486393 original size:29 final size:29
Alignment explanation
Indices: 486360--486421 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
486350 CCCATTAGGC
486360 GCTCTTCGTCTTCTACTGAATCTCAAAAT
1 GCTCTTCGTCTTCTACTGAATCTCAAAAT
486389 GCTCTTCGTCTTCTACTGAATCTCAAAAT
1 GCTCTTCGTCTTCTACTGAATCTCAAAAT
486418 GCTC
1 GCTC
486422 AAATACTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.37
Consensus pattern (29 bp):
GCTCTTCGTCTTCTACTGAATCTCAAAAT
Found at i:486693 original size:4 final size:4
Alignment explanation
Indices: 486684--486712 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
486674 CTAAATCAAT
486684 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
486713 AGAAAATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:492041 original size:35 final size:35
Alignment explanation
Indices: 491995--492074 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
491985 AACACAATCA
* *
491995 TCAATTACATTCTAGACCCCAAAATCCAAAATGCT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
* *
492030 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
1 TCAATTACATTCTAAACCCCAAAATCCAAAATACT
492065 TCAATTACAT
1 TCAATTACAT
492075 GCCCAACCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.30
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAAATCCAAAATACT
Found at i:494488 original size:74 final size:73
Alignment explanation
Indices: 494360--494501 Score: 266
Period size: 74 Copynumber: 1.9 Consensus size: 73
494350 ATGTTGGTAA
494360 TATCGATACTACCTAGTGAGTATCGATATTTCCCTTACCTTTGGTATCGATACCATATGAACAAT
1 TATCGATACTACCTAGTGAGTATCGATATTTCCCTTACCTTTGGTATCGATACCATATGAACAAT
494425 ATCGATAG
66 ATCGATAG
*
494433 TATCGAATACTACCTAGTGAGTATCGATATTTCCCTTACCTTTGGTATCGGTACCATATGAACAA
1 TATCG-ATACTACCTAGTGAGTATCGATATTTCCCTTACCTTTGGTATCGATACCATATGAACAA
494498 TATC
65 TATC
494502 AGTATTGTTC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 5 0.07
74 62 0.93
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (73 bp):
TATCGATACTACCTAGTGAGTATCGATATTTCCCTTACCTTTGGTATCGATACCATATGAACAAT
ATCGATAG
Found at i:494884 original size:148 final size:148
Alignment explanation
Indices: 494691--494983 Score: 514
Period size: 148 Copynumber: 2.0 Consensus size: 148
494681 CAATACTCAA
494691 TTCAGTTTATAAAATAGTTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTATAAAATAGTTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
** * * *
494756 GAATTGAATTGAATTTTCGAGTTTCTGTTTAAATTTATTTATAAATATTTATCATATTATAATAT
66 GAATTGAATTGAATTTTCGAGTTTCTACTTAAATTTAATTATAAATATTTATAATACTATAATAT
*
494821 TATTTGATTTTAATTCAG
131 TATTTGATTCTAATTCAG
*
494839 TTCAGTTTATAAAATAGTTGGCTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTATAAAATAGTTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
*
494904 GAATTGAATTGAATTTTTGAGTTTCTACTTAAATTTAATTATAAATATTTATAATACTATAATAT
66 GAATTGAATTGAATTTTCGAGTTTCTACTTAAATTTAATTATAAATATTTATAATACTATAATAT
494969 TATTTGATTCTAATT
131 TATTTGATTCTAATT
494984 TAAATAGATT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
148 137 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (148 bp):
TTCAGTTTATAAAATAGTTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTC
GAATTGAATTGAATTTTCGAGTTTCTACTTAAATTTAATTATAAATATTTATAATACTATAATAT
TATTTGATTCTAATTCAG
Found at i:495507 original size:35 final size:35
Alignment explanation
Indices: 495468--495563 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
495458 AATGTATTAT
* * *
495468 GAATTTGGGGTTGGGCATATAATTGAAGTATTTTG
1 GAATTTGGGGTTGAGAATATAATTGAAGCATTTTG
* * *
495503 GAATTTGAGGTTTAGAATGTAATTGAAGCATTTTG
1 GAATTTGGGGTTGAGAATATAATTGAAGCATTTTG
* * *
495538 GAATTTGGGATTTAGAATGTAATTGA
1 GAATTTGGGGTTGAGAATATAATTGA
495564 TGACTGTGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.40
Consensus pattern (35 bp):
GAATTTGGGGTTGAGAATATAATTGAAGCATTTTG
Found at i:496372 original size:32 final size:32
Alignment explanation
Indices: 496336--496396 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
496326 ATAGTGTAGA
* *
496336 ATATATCATGT-TTCTCAAAATAATGATGTGTC
1 ATATATCATGTCAT-TCAAAATAATAATGTGTC
496368 ATATATCATGTCATTCAAAATAATAATGT
1 ATATATCATGTCATTCAAAATAATAATGT
496397 CTACATCGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (32 bp):
ATATATCATGTCATTCAAAATAATAATGTGTC
Found at i:499760 original size:2 final size:2
Alignment explanation
Indices: 499753--499782 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
499743 TTTTAATAAT
499753 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
499783 ACCATTAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:519531 original size:2 final size:2
Alignment explanation
Indices: 519442--519516 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
519432 TTCTATAATC
519442 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
519484 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
519517 GTGATACACA
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 71 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:530764 original size:24 final size:27
Alignment explanation
Indices: 530730--530781 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
530720 GGATGTTACA
530730 TATAAGATCGTTTA-TCGA-T-TCATT
1 TATAAGATCGTTTACTCGACTCTCATT
*
530754 TATAAGCTCGTTTACTCGACTCTCATT
1 TATAAGATCGTTTACTCGACTCTCATT
530781 T
1 T
530782 TCCTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 13 0.54
25 4 0.17
26 1 0.04
27 6 0.25
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (27 bp):
TATAAGATCGTTTACTCGACTCTCATT
Found at i:531471 original size:26 final size:25
Alignment explanation
Indices: 531433--531521 Score: 90
Period size: 26 Copynumber: 3.5 Consensus size: 25
531423 TAATGAGGCA
*
531433 AACTTTTAAAATTTTAGAAGATAACG
1 AACTTATAAAATTTTA-AAGATAACG
* *
531459 AATTTATAAAATTCT-AAGATGAACG
1 AACTTATAAAATTTTAAAGAT-AACG
* *
531484 AACTTATAAACTTTTAAGAGATAATG
1 AACTTATAAAATTTTAA-AGATAACG
*
531510 AACTTGTAAAAT
1 AACTTATAAAAT
531522 ATTGGGGCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 5 0.10
25 16 0.31
26 26 0.51
27 4 0.08
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (25 bp):
AACTTATAAAATTTTAAAGATAACG
Found at i:531490 original size:25 final size:24
Alignment explanation
Indices: 531450--531521 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
531440 AAAATTTTAG
*
531450 AAGATAACGAATTTATAAAATTCT
1 AAGATAACGAACTTATAAAATTCT
* *
531474 AAGATGAACGAACTTATAAACTTTT
1 AAGAT-AACGAACTTATAAAATTCT
* *
531499 AAGAGATAATGAACTTGTAAAAT
1 -A-AGATAACGAACTTATAAAAT
531522 ATTGGGGCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 5 0.13
25 16 0.41
26 14 0.36
27 4 0.10
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (24 bp):
AAGATAACGAACTTATAAAATTCT
Found at i:536811 original size:20 final size:20
Alignment explanation
Indices: 536766--536811 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
536756 TTCAATTCGA
**
536766 GTCAACCTTTAGATTTTTGG
1 GTCAACCTTTAGATTTTCAG
*
536786 GCCAACCTTTAGATTTTCAG
1 GTCAACCTTTAGATTTTCAG
536806 GTCAAC
1 GTCAAC
536812 TGTTGTTGCT
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:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (20 bp):
GTCAACCTTTAGATTTTCAG
Found at i:537010 original size:80 final size:80
Alignment explanation
Indices: 536921--537080 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
536911 ACTATAAGTT
* *
536921 TTAGTTTTAATAAATCGAATCAATAAATCTTTAAAATCAAGAATTTTATGTGAATATTTTGTCAC
1 TTAGTTTTAATAAATCAAATCAATAAATCTTTAAAATCAAGAATTTTATGTGAATATATTGTCAC
536986 AATCCATATTCAGAG
66 AATCCATATTCAGAG
537001 TTAGTTTTAATAAATCAAATCAATAAATCTTTAAAATCAAGAATTTTATGTGAATATATTGTCAC
1 TTAGTTTTAATAAATCAAATCAATAAATCTTTAAAATCAAGAATTTTATGTGAATATATTGTCAC
*
537066 ATTCCATATTCAGAG
66 AATCCATATTCAGAG
537081 CTGGAAGTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (80 bp):
TTAGTTTTAATAAATCAAATCAATAAATCTTTAAAATCAAGAATTTTATGTGAATATATTGTCAC
AATCCATATTCAGAG
Found at i:539439 original size:31 final size:31
Alignment explanation
Indices: 539392--539483 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
539382 GAATCAAGGG
*
539392 TTACCTATGTCTTTCGAGACATATGGATAGT
1 TTACCTATGTCCTTCGAGACATATGGATAGT
* *
539423 TTACATATGTCCTTCGAGACATATGGACAG-
1 TTACCTATGTCCTTCGAGACATATGGATAGT
*
539453 TTACCTATGTTCTTCG-GAACATATGGATAGT
1 TTACCTATGTCCTTCGAG-ACATATGGATAGT
539484 GGTCATTTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.02
30 25 0.47
31 27 0.51
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCCTTCGAGACATATGGATAGT
Found at i:545113 original size:31 final size:31
Alignment explanation
Indices: 545075--545166 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 31
545065 GAGTCGAGGG
545075 TTACCTATGTCTTTCGAGACATATGGATAGT
1 TTACCTATGTCTTTCGAGACATATGGATAGT
* *
545106 TTACCTATGTCCTTCGAGACATATGGACAG-
1 TTACCTATGTCTTTCGAGACATATGGATAGT
545136 TTACCTATGT-TCTTCG-GAACATATGGATAGT
1 TTACCTATGTCT-TTCGAG-ACATATGGATAGT
545167 GATCATTCGG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
29 1 0.02
30 25 0.46
31 28 0.52
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCTTTCGAGACATATGGATAGT
Found at i:548037 original size:19 final size:19
Alignment explanation
Indices: 548013--548065 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
548003 TGGAAACCTG
548013 ATTTAA-GAGATTCCAGGTC
1 ATTTAAGGAG-TTCCAGGTC
548032 ATTTAAGGATGTTCCAGGTC
1 ATTTAAGGA-GTTCCAGGTC
548052 ATTTAAGGATGTTC
1 ATTTAAGGA-GTTC
548066 TGAGCAGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.19
20 25 0.78
21 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (19 bp):
ATTTAAGGAGTTCCAGGTC
Found at i:548048 original size:20 final size:20
Alignment explanation
Indices: 548023--548065 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
548013 ATTTAAGAGA
548023 TTCCAGGTCATTTAAGGATG
1 TTCCAGGTCATTTAAGGATG
548043 TTCCAGGTCATTTAAGGATG
1 TTCCAGGTCATTTAAGGATG
548063 TTC
1 TTC
548066 TGAGCAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (20 bp):
TTCCAGGTCATTTAAGGATG
Found at i:559815 original size:55 final size:56
Alignment explanation
Indices: 559731--559847 Score: 220
Period size: 55 Copynumber: 2.1 Consensus size: 56
559721 GCATGAGTGA
559731 ATAGAACCATCAACTATGCTCTAGATTTCTATGGAATGAATTGACATTTCTGC-AC
1 ATAGAACCATCAACTATGCTCTAGATTTCTATGGAATGAATTGACATTTCTGCAAC
559786 ATAGAACCATCAACTATGCTCTAGATTTCTATGGAATGAATTGACATTTCTGCAAC
1 ATAGAACCATCAACTATGCTCTAGATTTCTATGGAATGAATTGACATTTCTGCAAC
559842 AT-GAAC
1 ATAGAAC
559848 TAAAGTGAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
55 57 0.93
56 4 0.07
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (56 bp):
ATAGAACCATCAACTATGCTCTAGATTTCTATGGAATGAATTGACATTTCTGCAAC
Found at i:561112 original size:226 final size:223
Alignment explanation
Indices: 560715--561171 Score: 612
Period size: 226 Copynumber: 2.0 Consensus size: 223
560705 AACATAACCG
* * * * *
560715 GTTAATTATTGGAAATATTATCAATCATAATAAAAAAATATGTAGCGCTTATGTAACATAATAGG
1 GTTAATTACTGGAAACATTATCAACCATAATAAAAAAACAAGTAGCGCTTATGTAACATAATAGG
* * ** * ** *
560780 TAGCTCCTTTTTAAAGCTGATGGGACTTTAGAAATTCGACGATAACAAAATAGGTTAATTGTTTG
66 TAACGCCTTTTTAAAGCTGATGGGACCATAGAAATCCGACGATAACAAAATAGGTTAATTACTTA
* *
560845 ATTTGTTATCAATATTATCAACATATTAGGTAGAGCCTAAAATGTTACCAAAGTGTAAGCTGATG
131 ATTTGTTATCAATATTATCAACATATTAGGTAGAACCTAAAATATTACCAAAGTGTAAGCTGATG
*
560910 A-AGCCTTAGAAATTTGACGATAAAAAAATAT
196 AGA-CCTTAGAAA-TT--CGATAAAAAAATAA
* * * * **
560941 GTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTATCGCTTATTTAATGTAATAGG
1 GTTAATTACTGGAAACATTATCAACCATAATAAAAAAACAAGTAGCGCTTATGTAACATAATAGG
* *
561006 TAACGCCTTTTTAAAGCTGATGGGGCCATCGAAATCCGACGATAACAAAATAGGTTAATTACTTA
66 TAACGCCTTTTTAAAGCTGATGGGACCATAGAAATCCGACGATAACAAAATAGGTTAATTACTTA
* *
561071 ATTTGTTATCAATATTATCAACATATTAGGTA-ACACCTAAAATATTATCAAAGTTTAAGCTGAT
131 ATTTGTTATCAATATTATCAACATATTAGGTAGA-ACCTAAAATATTACCAAAGTGTAAGCTGAT
*
561135 GAGACCTTAGAAATTCGATAACAAAATAA
195 GAGACCTTAGAAATTCGATAAAAAAATAA
561164 GTTAATTA
1 GTTAATTA
561172 TTTATTTTGT
Statistics
Matches: 202, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
223 20 0.10
225 3 0.01
226 178 0.88
227 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (223 bp):
GTTAATTACTGGAAACATTATCAACCATAATAAAAAAACAAGTAGCGCTTATGTAACATAATAGG
TAACGCCTTTTTAAAGCTGATGGGACCATAGAAATCCGACGATAACAAAATAGGTTAATTACTTA
ATTTGTTATCAATATTATCAACATATTAGGTAGAACCTAAAATATTACCAAAGTGTAAGCTGATG
AGACCTTAGAAATTCGATAAAAAAATAA
Found at i:561204 original size:105 final size:105
Alignment explanation
Indices: 561045--561240 Score: 295
Period size: 105 Copynumber: 1.9 Consensus size: 105
561035 CGAAATCCGA
* * *
561045 CGATAACAAAATAGGTTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAACACCTA
1 CGATAACAAAATAAGTTAATTACTTAATTTGTTATCAATAATAGCAACATATTAGGTAACACCTA
*
561110 AAATATTA-TCAAAGTTTAAGCTGATGAGACCTTAGAAATT
66 AAATATTACT-AAAATTTAAGCTGATGAGACCTTAGAAATT
* * *
561150 CGATAACAAAATAAGTTAATTATTTATTTTGTTATTAATAATAGCAACATATTAGGTAACACCTA
1 CGATAACAAAATAAGTTAATTACTTAATTTGTTATCAATAATAGCAACATATTAGGTAACACCTA
* *
561215 AAATGTTACTAAAATTTAAGTTGATG
66 AAATATTACTAAAATTTAAGCTGATG
561241 GGGCATTCAA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 80 0.99
106 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (105 bp):
CGATAACAAAATAAGTTAATTACTTAATTTGTTATCAATAATAGCAACATATTAGGTAACACCTA
AAATATTACTAAAATTTAAGCTGATGAGACCTTAGAAATT
Found at i:561524 original size:17 final size:17
Alignment explanation
Indices: 561502--561537 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
561492 TTAGAGTAAG
561502 TATGGATACATTATTAT
1 TATGGATACATTATTAT
561519 TATGGATACATTATTAT
1 TATGGATACATTATTAT
561536 TA
1 TA
561538 ACCTTTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (17 bp):
TATGGATACATTATTAT
Found at i:570231 original size:510 final size:510
Alignment explanation
Indices: 569272--570292 Score: 2042
Period size: 510 Copynumber: 2.0 Consensus size: 510
569262 TTTTTTTCTG
569272 TCGAAGTTGCATTTCTATTTGCTAGCGTGGGCCGTTCATCTCTCTTTAACCTGTTGGTTTTTGCA
1 TCGAAGTTGCATTTCTATTTGCTAGCGTGGGCCGTTCATCTCTCTTTAACCTGTTGGTTTTTGCA
569337 AGTACAACTGTTTGAACCGAATTGAATTGCGATGAGATGGAGCACCTGAATCCATTGTATATTCA
66 AGTACAACTGTTTGAACCGAATTGAATTGCGATGAGATGGAGCACCTGAATCCATTGTATATTCA
569402 AGGACAAAAATTGCCATTGACAGCACAAAGAGGTGTGGGAGGAGGAAAGAACCTCCATTATAAAA
131 AGGACAAAAATTGCCATTGACAGCACAAAGAGGTGTGGGAGGAGGAAAGAACCTCCATTATAAAA
569467 GTACAAACGGCTATTCCTAGAATATTTGACAGACAGGAATAACATGAAGTTGCTCCTCTAAGTTT
196 GTACAAACGGCTATTCCTAGAATATTTGACAGACAGGAATAACATGAAGTTGCTCCTCTAAGTTT
569532 AGTATTCTTAAGAGGTAAATTTGAGTTATTATTTATTATTGGTGAAGCATCATCGCCGTTAAGAT
261 AGTATTCTTAAGAGGTAAATTTGAGTTATTATTTATTATTGGTGAAGCATCATCGCCGTTAAGAT
569597 ATTATTTTTGTTGGATCATTGAAAAACTAATGTTGAACATGTGGATGGCTTCATGCACATGATAG
326 ATTATTTTTGTTGGATCATTGAAAAACTAATGTTGAACATGTGGATGGCTTCATGCACATGATAG
569662 TTTCATGGGTTAGGTGGTTGGACTTATACAAGTTAATCTTGAAATTTGGGGAAACCATGTTGATT
391 TTTCATGGGTTAGGTGGTTGGACTTATACAAGTTAATCTTGAAATTTGGGGAAACCATGTTGATT
569727 TGATCAAAGAAGAAAAATTAGCATTCAAGCAAATTGTATCGTATGCATTAATTGT
456 TGATCAAAGAAGAAAAATTAGCATTCAAGCAAATTGTATCGTATGCATTAATTGT
569782 TCGAAGTTGCATTTCTATTTGCTAGCGTGGGCCGTTCATCTCTCTTTAACCTGTTGGTTTTTGCA
1 TCGAAGTTGCATTTCTATTTGCTAGCGTGGGCCGTTCATCTCTCTTTAACCTGTTGGTTTTTGCA
569847 AGTACAACTGTTTGAACCGAATTGAATTGCGATGAGATGGAGCACCTGAATCCATTGTATATTCA
66 AGTACAACTGTTTGAACCGAATTGAATTGCGATGAGATGGAGCACCTGAATCCATTGTATATTCA
569912 AGGACAAAAATTGCCATTGACAGCACAAAGAGGTGTGGGAGGAGGAAAGAACCTCCATTATAAAA
131 AGGACAAAAATTGCCATTGACAGCACAAAGAGGTGTGGGAGGAGGAAAGAACCTCCATTATAAAA
569977 GTACAAACGGCTATTCCTAGAATATTTGACAGACAGGAATAACATGAAGTTGCTCCTCTAAGTTT
196 GTACAAACGGCTATTCCTAGAATATTTGACAGACAGGAATAACATGAAGTTGCTCCTCTAAGTTT
570042 AGTATTCTTAAGAGGTAAATTTGAGTTATTATTTATTATTGGTGAAGCATCATCGCCGTTAAGAT
261 AGTATTCTTAAGAGGTAAATTTGAGTTATTATTTATTATTGGTGAAGCATCATCGCCGTTAAGAT
570107 ATTATTTTTGTTGGATCATTGAAAAACTAATGTTGAACATGTGGATGGCTTCATGCACATGATAG
326 ATTATTTTTGTTGGATCATTGAAAAACTAATGTTGAACATGTGGATGGCTTCATGCACATGATAG
570172 TTTCATGGGTTAGGTGGTTGGACTTATACAAGTTAATCTTGAAATTTGGGGAAACCATGTTGATT
391 TTTCATGGGTTAGGTGGTTGGACTTATACAAGTTAATCTTGAAATTTGGGGAAACCATGTTGATT
570237 TGATCAAAGAAGAAAAATTAGCATTCAAGCAAATTGTATCGTATGCATTAATTGT
456 TGATCAAAGAAGAAAAATTAGCATTCAAGCAAATTGTATCGTATGCATTAATTGT
570292 T
1 T
570293 ACAGCTTCCT
Statistics
Matches: 511, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
510 511 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (510 bp):
TCGAAGTTGCATTTCTATTTGCTAGCGTGGGCCGTTCATCTCTCTTTAACCTGTTGGTTTTTGCA
AGTACAACTGTTTGAACCGAATTGAATTGCGATGAGATGGAGCACCTGAATCCATTGTATATTCA
AGGACAAAAATTGCCATTGACAGCACAAAGAGGTGTGGGAGGAGGAAAGAACCTCCATTATAAAA
GTACAAACGGCTATTCCTAGAATATTTGACAGACAGGAATAACATGAAGTTGCTCCTCTAAGTTT
AGTATTCTTAAGAGGTAAATTTGAGTTATTATTTATTATTGGTGAAGCATCATCGCCGTTAAGAT
ATTATTTTTGTTGGATCATTGAAAAACTAATGTTGAACATGTGGATGGCTTCATGCACATGATAG
TTTCATGGGTTAGGTGGTTGGACTTATACAAGTTAATCTTGAAATTTGGGGAAACCATGTTGATT
TGATCAAAGAAGAAAAATTAGCATTCAAGCAAATTGTATCGTATGCATTAATTGT
Found at i:574833 original size:21 final size:22
Alignment explanation
Indices: 574806--574854 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
574796 TTAATTTTTA
*
574806 ATTTTTAAAT-TAAATTTAA-T
1 ATTTTTTAATCTAAATTTAAGT
574826 ATTTTTTAATCTAAATTTAAGT
1 ATTTTTTAATCTAAATTTAAGT
*
574848 TTTTTTT
1 ATTTTTT
574855 CTTATTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.36
21 9 0.36
22 7 0.28
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTTTTAATCTAAATTTAAGT
Found at i:576495 original size:2 final size:2
Alignment explanation
Indices: 576488--576524 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
576478 ATTTATTACA
576488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
576525 AAATAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:577236 original size:39 final size:39
Alignment explanation
Indices: 577184--577303 Score: 152
Period size: 39 Copynumber: 3.1 Consensus size: 39
577174 CGCCTTTAGA
*
577184 CCAAACGTAAAGACTCTAGGAGCGCACGGTGTCTTCAGG
1 CCAAACGTAAAGACTCTAGGAGTGCACGGTGTCTTCAGG
* * **
577223 CC-AATGGATAAGACTCTAGGAGTGCACGACGTCTTCAGG
1 CCAAACGTA-AAGACTCTAGGAGTGCACGGTGTCTTCAGG
* * *
577262 CCAAACGTAAAGACTCCATGAGTTCACGGTGTCTTCAGG
1 CCAAACGTAAAGACTCTAGGAGTGCACGGTGTCTTCAGG
577301 CCA
1 CCA
577304 TGCAGAAACA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 4 0.06
39 59 0.88
40 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (39 bp):
CCAAACGTAAAGACTCTAGGAGTGCACGGTGTCTTCAGG
Found at i:582504 original size:27 final size:27
Alignment explanation
Indices: 582472--582523 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
582462 GTTGCTTGCC
582472 TTATTGATTTAGGGTATACTGATATAG
1 TTATTGATTTAGGGTATACTGATATAG
*
582499 TTATTGATTTAGGGTGTACTGATAT
1 TTATTGATTTAGGGTATACTGATAT
582524 GGTAGGGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (27 bp):
TTATTGATTTAGGGTATACTGATATAG
Found at i:583326 original size:134 final size:134
Alignment explanation
Indices: 583091--583653 Score: 717
Period size: 134 Copynumber: 4.2 Consensus size: 134
583081 TCTGTCCCGT
* *
583091 TTCTTCTTGAGGGAAAATCAAATCT---GGATTGTTGATTCATTCCACTGTCACTCAGGGAAGAT
1 TTCTTCTTGAGGGAAAATCAGATCTGAGGGA-CGTTGATTCATTCCACTGTCACTCAGGGAAGAT
* * * * * *
583153 TGAATCGAGGCATACTTGTTTCACTGTTACTCAGAGAATATCAAATCTTGAAAGAGGGGGATCTA
65 TGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATTTG
*
583218 TTACGC
130 TT-CAC
* *
583224 TTCTTCTTGAGGGAAAATCAGATCTGAGGGA-GTTGATTCATTCCACTATCACTTAGGGAAGATT
1 TTCTTCTTGAGGGAAAATCAGATCTGAGGGACGTTGATTCATTCCACTGTCACTCAGGGAAGATT
* * * * **
583288 GAATCGACGCAGACTTGTTCCACTGTCATTCAGGGAATATCAAATCTTGAAAGAAAATGATTTGT
66 GAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATTTGT
583353 TCCAC
131 T-CAC
* * ** *
583358 TTCTTTTTGAGGGAAAATCAGATATGA-GGATATTGATTTATTCCACTGTCACTCAGGGAAGATT
1 TTCTTCTTGAGGGAAAATCAGATCTGAGGGACGTTGATTCATTCCACTGTCACTCAGGGAAGATT
* * *
583422 GAATCGAGGCAGACTTGTTCCACTTTTACTCAAGGAATATCAACTCTTGAAAGAGAGGG-TTATG
66 GAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATT-TG
583486 TTTCAC
130 -TTCAC
*
583492 TTCTTCTTGAGGGAAAATCAGATCT-AGGGACGTTGATTCATTCCACTGTCACTCAAGGAAGATT
1 TTCTTCTTGAGGGAAAATCAGATCTGAGGGACGTTGATTCATTCCACTGTCACTCAGGGAAGATT
* * * * * * *
583556 GAATCAAGGCATACTTGCTCCATTGTTACTTAGGGAATATCAAATTTTGAAAAAGAGGGATTTGT
66 GAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATTTGT
*
583621 TCTGC
131 TC-AC
583626 TTCTTCTTGAGGGAAAATCAGATCTGAG
1 TTCTTCTTGAGGGAAAATCAGATCTGAG
583654 AACGTTAATT
Statistics
Matches: 371, Mismatches: 49, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
133 33 0.09
134 329 0.89
135 6 0.02
136 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (134 bp):
TTCTTCTTGAGGGAAAATCAGATCTGAGGGACGTTGATTCATTCCACTGTCACTCAGGGAAGATT
GAATCGAGGCAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAGAGGGATTTGT
TCAC
Found at i:585666 original size:134 final size:134
Alignment explanation
Indices: 585418--585722 Score: 450
Period size: 134 Copynumber: 2.3 Consensus size: 134
585408 GCGGACATTA
* * *
585418 ATTCATTCCACTATCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTCAGGGA
1 ATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGCTCCACTATTACTAAGGGA
* * * * * * *
585483 ATATCAAATCTTGAAATAGAGGGATCTGTTTCGCTTCTTCTTGATGGAAAAACATATCTAGGGAC
66 ATATCAAATCTTGAAAGAGAGGGATATGTTTCACTTCTTATTGAGGGAAAAACAGATATAGGGAC
585548 GTTG
131 GTTG
* * *
585552 ATTCATTCCACTGTCACTCGGGGAAGATTGAATCGAGGCAGACTTGCTCTACTGTTACTAAGGGA
1 ATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGCTCCACTATTACTAAGGGA
*
585617 ATATCAAATCTTGAAAGAGAGGGATATG-TTCTACTTCTTATTGAGGGAAAATCAGATATAGGGA
66 ATATCAAATCTTGAAAGAGAGGGATATGTTTC-ACTTCTTATTGAGGGAAAAACAGATATAGGGA
585681 CGTTG
130 CGTTG
* *
585686 ATTCATTCCACTGTAACTCAGAGAAGATTGAATCGAG
1 ATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAG
585723 TTCGATTCGC
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
133 3 0.02
134 150 0.98
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (134 bp):
ATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGCTCCACTATTACTAAGGGA
ATATCAAATCTTGAAAGAGAGGGATATGTTTCACTTCTTATTGAGGGAAAAACAGATATAGGGAC
GTTG
Found at i:587938 original size:24 final size:24
Alignment explanation
Indices: 587906--587958 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
587896 TCACTTTGTC
*
587906 AAAGATTTATAACTCTAATCATTT
1 AAAGATTTATAACTCTAAACATTT
587930 AAAGATTTATAACTCTAAACATTT
1 AAAGATTTATAACTCTAAACATTT
587954 AAAGA
1 AAAGA
587959 GTTTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (24 bp):
AAAGATTTATAACTCTAAACATTT
Found at i:588996 original size:4 final size:4
Alignment explanation
Indices: 588975--589007 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
588965 TACCATATTA
*
588975 AAAT AAAC AAAT -AAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
589008 GAAAAAGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:590191 original size:13 final size:13
Alignment explanation
Indices: 590173--590267 Score: 56
Period size: 13 Copynumber: 7.6 Consensus size: 13
590163 TAATGCATAT
590173 TTATTTTATTTTA
1 TTATTTTATTTTA
*
590186 TTA-TTTA-TGT-
1 TTATTTTATTTTA
590196 TTATTTTATTTT-
1 TTATTTTATTTTA
**
590208 TTATAGT-TTTTA
1 TTATTTTATTTTA
* *
590220 TTGTTTTTTTTTA
1 TTATTTTATTTTA
*
590233 TTATTTTTATTATA
1 TTA-TTTTATTTTA
* * *
590247 TTTTTTTGTTTCA
1 TTATTTTATTTTA
*
590260 TTGTTTTA
1 TTATTTTA
590268 ATTCTTAGAT
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
10 3 0.05
11 10 0.16
12 15 0.25
13 23 0.38
14 10 0.16
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.76
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:590200 original size:18 final size:18
Alignment explanation
Indices: 590170--590216 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
590160 TCTTAATGCA
590170 TATTTAT-TTTATTTTAT
1 TATTTATGTTTATTTTAT
590187 TATTTATGTTTATTTTAT
1 TATTTATGTTTATTTTAT
*
590205 TTTTTATAGTTT
1 TATTTAT-GTTT
590217 TTATTGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
TATTTATGTTTATTTTAT
Found at i:590220 original size:34 final size:34
Alignment explanation
Indices: 590181--590252 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
590171 ATTTATTTTA
*
590181 TTTTATTATTTATGTTTATT-TTATTTTTTATAGT
1 TTTTATTATTTATGTTTATTATT-TTTATTATAGT
* * * *
590215 TTTTATTGTTTTTTTTTATTATTTTTATTATATT
1 TTTTATTATTTATGTTTATTATTTTTATTATAGT
590249 TTTT
1 TTTT
590253 TGTTTCATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 30 0.94
35 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (34 bp):
TTTTATTATTTATGTTTATTATTTTTATTATAGT
Found at i:590229 original size:22 final size:21
Alignment explanation
Indices: 590172--590253 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 21
590162 TTAATGCATA
* *
590172 TTTATTTTATTTTATTATTTATG
1 TTTATTTT-TTTTTTTA-TTATT
*
590195 TTTATTTTATTTTTTA-TAGTT
1 TTTATTTTTTTTTTTATTA-TT
590216 TTTATTGTTTTTTTTTATTATT
1 TTTATT-TTTTTTTTTATTATT
*
590238 TTTATTATATTTTTTT
1 TTTATT-TTTTTTTTT
590254 GTTTCATTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 2 0.04
21 7 0.14
22 31 0.62
23 10 0.20
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTATTTTTTTTTTTATTATT
Found at i:596206 original size:40 final size:39
Alignment explanation
Indices: 596098--596215 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 39
596088 AGGGATCAAC
* *
596098 ATCTCACTTGAGATAGTTTCACTCGAAAAAATAGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCG-AAACATAGATTTTT
* *
596138 GTCTCGCTTGAGATAATTTCACTCGAAACAGTAGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACA-TAGATTTTT
* *
596178 ATCTTGCTTGAAATAGTTTCACTCGAAACATATGATTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACATA-GATTT
596216 ATCTCACTTG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
39 6 0.09
40 62 0.91
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACATAGATTTTT
Found at i:598025 original size:22 final size:22
Alignment explanation
Indices: 597993--598050 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
597983 CTAATGCATG
597993 TTTA-TTTTATTTTTTTTACTGT
1 TTTATTTTTATTTTTTTTA-TGT
*
598015 TTT-TTTTTATTTTTTTTTATTT
1 TTTATTTTTA-TTTTTTTTATGT
598037 TTTATTTTTATTTT
1 TTTATTTTTATTTT
598051 ATTATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 17 0.53
23 15 0.47
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTATTTTTATTTTTTTTATGT
Found at i:598032 original size:23 final size:23
Alignment explanation
Indices: 597993--598050 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
597983 CTAATGCATG
597993 TTTA-TTTTA-TTTTTTTTACTGT
1 TTTATTTTTATTTTTTTTTA-TGT
*
598015 TTT-TTTTTATTTTTTTTTATTT
1 TTTATTTTTATTTTTTTTTATGT
598037 TTTATTTTTATTTT
1 TTTATTTTTATTTT
598051 ATTATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (23 bp):
TTTATTTTTATTTTTTTTTATGT
Found at i:598055 original size:21 final size:20
Alignment explanation
Indices: 597997--598058 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
597987 TGCATGTTTA
* *
597997 TTTTA-TTTTTTTTACTGTT
1 TTTTATTTTTTTTTATTATT
*
598016 TTTT-TTTATTTTTTTTTATT
1 TTTTATTT-TTTTTTATTATT
598036 TTTTATTTTTATTTTATTATT
1 TTTTATTTTT-TTTTATTATT
598057 TT
1 TT
598059 AATTATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 6 0.17
20 15 0.43
21 14 0.40
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTTATTTTTTTTTATTATT
Found at i:598059 original size:13 final size:11
Alignment explanation
Indices: 598002--598050 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 11
597992 GTTTATTTTA
598002 TTTTTTTTACTGT
1 TTTTTTTTA-T-T
598015 TTTTTTTTA-T
1 TTTTTTTTATT
598025 TTTTTTTTATTT
1 TTTTTTTTA-TT
598037 TTTATTTTTATT
1 TTT-TTTTTATT
598049 TT
1 TT
598051 ATTATTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
10 10 0.30
12 8 0.24
13 15 0.45
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.86
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:598072 original size:9 final size:8
Alignment explanation
Indices: 597994--598072 Score: 57
Period size: 7 Copynumber: 10.4 Consensus size: 8
597984 TAATGCATGT
597994 TTATTTTA
1 TTATTTTA
598002 TT-TTTT-
1 TTATTTTA
598008 TTACTGTTT-
1 TTA-T-TTTA
598017 TT-TTTTA
1 TTATTTTA
*
598024 TT-TTTTT
1 TTATTTTA
598031 TTATTTT-
1 TTATTTTA
598038 TTA-TTT-
1 TTATTTTA
598044 TTATTTTA
1 TTATTTTA
598052 TTATTTTAA
1 TTATTTT-A
598061 TTATGTTTA
1 TTAT-TTTA
598070 TTA
1 TTA
598073 ATTGTTTTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
6 11 0.18
7 19 0.31
8 14 0.23
9 14 0.23
10 3 0.05
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (8 bp):
TTATTTTA
Found at i:598559 original size:13 final size:13
Alignment explanation
Indices: 598543--598573 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
598533 AGGGACCATC
598543 TCGATTATTCGAT
1 TCGATTATTCGAT
598556 TCGATTATTCGAT
1 TCGATTATTCGAT
598569 TCGAT
1 TCGAT
598574 AATTGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (13 bp):
TCGATTATTCGAT
Found at i:600682 original size:6 final size:6
Alignment explanation
Indices: 600671--600699 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
600661 GCAAAATGCA
600671 AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAAT
600700 AGAAATAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:604929 original size:39 final size:39
Alignment explanation
Indices: 604886--604969 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
604876 TCACGAAGAC
604886 CACCAGATTCTCGATAGGCTTTAAAAATGGCATATAGGG
1 CACCAGATTCTCGATAGGCTTTAAAAATGGCATATAGGG
*
604925 CACCAGATTCTCGATAGGCTTTACAAATGGCATATAGGG
1 CACCAGATTCTCGATAGGCTTTAAAAATGGCATATAGGG
*
604964 CGCCAG
1 CACCAG
604970 GCATGCAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (39 bp):
CACCAGATTCTCGATAGGCTTTAAAAATGGCATATAGGG
Found at i:607897 original size:34 final size:34
Alignment explanation
Indices: 607848--607922 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
607838 GCGGAAGATA
* * * *
607848 ACACCAGCTAGGAAGTATCAGAAAAAACACAAAT
1 ACACAAGCTAAGAAGTATAAAAAAAAACACAAAT
607882 ACACAAGCTAAGAAGTATAAAAAAAAACACAAAT
1 ACACAAGCTAAGAAGTATAAAAAAAAACACAAAT
607916 ACACAAG
1 ACACAAG
607923 AACCAACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.59, C:0.19, G:0.12, T:0.11
Consensus pattern (34 bp):
ACACAAGCTAAGAAGTATAAAAAAAAACACAAAT
Found at i:609112 original size:10 final size:10
Alignment explanation
Indices: 609097--609137 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
609087 TTTATCACAC
609097 CAAATTCTCT
1 CAAATTCTCT
*
609107 CAAATTTTCT
1 CAAATTCTCT
*
609117 CAATTTCTCT
1 CAAATTCTCT
*
609127 CAAATACTCT
1 CAAATTCTCT
609137 C
1 C
609138 TCTGTTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:609216 original size:17 final size:18
Alignment explanation
Indices: 609179--609219 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
609169 ATATTATGTA
*
609179 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
609197 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
609214 TTTACT
1 TTTACT
609220 AATATAATTT
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:611495 original size:26 final size:24
Alignment explanation
Indices: 611424--611495 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
611414 TTATATTTGT
611424 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
611449 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
611471 ATGCTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
611496 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.25, C:0.07, G:0.06, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:615690 original size:3 final size:3
Alignment explanation
Indices: 615684--615714 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
615674 TGGTAGTAGT
615684 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
615715 AAAGTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:615759 original size:62 final size:62
Alignment explanation
Indices: 615690--615815 Score: 211
Period size: 62 Copynumber: 2.0 Consensus size: 62
615680 TAGTAGAAGA
615690 AGAAGAAGAAGAAGAAGAAGAAGAAAAAG-TTTCATTTCTCCG-TCTGATAGAGCCACCATTGG
1 AGAAGAAGAAGAAGAAGAAGAAGAAAAAGTTTTC-TTTCTCCGCT-TGATAGAGCCACCATTGG
*
615752 AGAAGAAGAAGAAGAAGAAGAAGAAGAAGTTTTCTTTCTCCGCTTGATAGAGCCACCATTGG
1 AGAAGAAGAAGAAGAAGAAGAAGAAAAAGTTTTCTTTCTCCGCTTGATAGAGCCACCATTGG
615814 AG
1 AG
615816 GAACCGAAGA
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
62 56 0.92
63 5 0.08
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.20
Consensus pattern (62 bp):
AGAAGAAGAAGAAGAAGAAGAAGAAAAAGTTTTCTTTCTCCGCTTGATAGAGCCACCATTGG
Found at i:615760 original size:3 final size:3
Alignment explanation
Indices: 615752--615780 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
615742 CCACCATTGG
615752 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
615781 TTTTCTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:615861 original size:3 final size:3
Alignment explanation
Indices: 615853--616209 Score: 542
Period size: 3 Copynumber: 117.7 Consensus size: 3
615843 AAGTTAAAGC
615853 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA CA-A AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA
*
615898 AGA AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA AGA AGA GGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA
* * *
615944 AGA AGA AGA CGA AGA AGA AGA CGA AGA AGGA AGA AGA AGGC A-A AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA A-GA AGA AGA
615990 AGA AGA AGA AGA AGA AGA AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
616037 AGA AGA AGA AGA AGA AGA AGA CGA AGA AGA AGA CGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
616085 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGAA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A
*
616134 AGA AGA AGA AGA AGA AG- AGA AGA CGA AGA AGAA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA
*
616179 AGA AGA CGA AGAA AGA AGAA AGA AGA AGA AG
1 AGA AGA AGA AG-A AGA AG-A AGA AGA AGA AG
616210 TTGTTGTTTT
Statistics
Matches: 326, Mismatches: 16, Indels: 24
0.89 0.04 0.07
Matches are distributed among these distances:
2 6 0.02
3 299 0.92
4 21 0.06
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:619022 original size:28 final size:28
Alignment explanation
Indices: 618982--619040 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
618972 TGTATCTTTC
*
618982 CTTGCTAATATATATATTTTATTGTTTA
1 CTTGCTAATATATATATTTTATTGATTA
* *
619010 CTTGCTACTATATTTATTTTATTGATTA
1 CTTGCTAATATATATATTTTATTGATTA
619038 CTT
1 CTT
619041 TTAAATATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.58
Consensus pattern (28 bp):
CTTGCTAATATATATATTTTATTGATTA
Found at i:619848 original size:2 final size:2
Alignment explanation
Indices: 619841--619895 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
619831 TTTGTCCATG
619841 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
619883 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
619896 GCAGGATGAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:620046 original size:2 final size:2
Alignment explanation
Indices: 620039--620072 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
620029 CTTCTTTAAA
620039 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
620073 GTATGCATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:620077 original size:4 final size:4
Alignment explanation
Indices: 620070--620126 Score: 73
Period size: 4 Copynumber: 14.8 Consensus size: 4
620060 TATATATATA
* * *
620070 TATG TATG CATG TA-- TATG TATA TATG TATG TATG TATG TATG TCTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
620116 TATG TATG TAT
1 TATG TATG TAT
620127 ATTATTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
4 43 0.96
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:620085 original size:18 final size:18
Alignment explanation
Indices: 620046--620102 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
620036 AAAATATATA
** *
620046 TATATATATATATATATA
1 TATATATATATATGCATG
*
620064 TATATATATGTATGCATG
1 TATATATATATATGCATG
* *
620082 TATATGTATATATGTATG
1 TATATATATATATGCATG
620100 TAT
1 TAT
620103 GTATGTATGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.49
Consensus pattern (18 bp):
TATATATATATATGCATG
Found at i:620101 original size:12 final size:12
Alignment explanation
Indices: 620042--620128 Score: 79
Period size: 12 Copynumber: 7.4 Consensus size: 12
620032 CTTTAAAATA
* *
620042 TATATATATATA
1 TATATATGTATG
* *
620054 TATATATATATA
1 TATATATGTATG
620066 TATATATGTATG
1 TATATATGTATG
* *
620078 CATGTA--TATG
1 TATATATGTATG
620088 TATATATGTATG
1 TATATATGTATG
*
620100 TATGTATGTATG
1 TATATATGTATG
* *
620112 TCTGTATGTATG
1 TATATATGTATG
620124 TATAT
1 TATAT
620129 TATTTATAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
10 8 0.13
12 55 0.87
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.49
Consensus pattern (12 bp):
TATATATGTATG
Found at i:622053 original size:204 final size:203
Alignment explanation
Indices: 621701--622321 Score: 791
Period size: 204 Copynumber: 3.0 Consensus size: 203
621691 TTTCCTTCCT
* * * * *
621701 CTTTGGTTTCAACAGTTGGAGGAAGAGATGTGTTTTCTTGGACAAG-ATCTTCATTGCTACTCTC
1 CTTTGGTTTCAACAGTTGGAGGAAGAGAGGTGTTTTCTTGGAC-AGTAACTCCAATGCCACTCTC
* * * ** *** *
621765 TTTGGTTTCAGCAGCTGGAGGATCAGCATTCGAAAGAGGGATTGATGTATTCTCTTGGGAGATAC
65 TTTGGTTTCAGCAGCTGGAGGATCAGCATTCGATACAGAGACCGATGTATTCTCTCCAGAGAGAC
* * * * * *
621830 CATCCATGTCTCTGGTGTCGAGGACTGAATTATCATCGATCGAAGGAGAAGGAGAAGTAAGGCTA
130 TATCCATATCTCCGGTGTCGAGGACCGAATTATCAAC-ATCGAAGGAGAAGGAGAAGTAGGGCTA
621895 TTGTTATCAC
194 TTGTTATCAC
* * *
621905 CGTTGGTTTCAACAGTTGGAGGAAGAGAGGTGTTTTCTTGGACGGTAACTCCAATGCCCCTCTCT
1 CTTTGGTTTCAACAGTTGGAGGAAGAGAGGTGTTTTCTTGGACAGTAACTCCAATGCCACTCTCT
* *
621970 TTGGTTTCAGCGGCTGGAGGATCGGCATTCGATACAGAGACCGATGTATTCTCTCCAGAGAGACT
66 TTGGTTTCAGCAGCTGGAGGATCAGCATTCGATACAGAGACCGATGTATTCTCTCCAGAGAGACT
* * *
622035 ATCCATATCTCCGGTGTCGACGACCGAATTATCAACAACAGAAGAAGAAGGAGAAGTAGGGCTAT
131 ATCCATATCTCCGGTGTCGAGGACCGAATTATCAACATC-GAAGGAGAAGGAGAAGTAGGGCTAT
622100 TGTTATCAC
195 TGTTATCAC
** * * * * *
622109 CTTTGGTTTCAACAGTTGGAATAAGAGAGGGGTTTTCTTGGGCAATAACTCCAACGCCACTCCCT
1 CTTTGGTTTCAACAGTTGGAGGAAGAGAGGTGTTTTCTTGGACAGTAACTCCAATGCCACTCTCT
* *
622174 TTGGCTTCAGCAGCTGGAGGATTAGCATTCGAT-CGAGAGACCGATGTATTCTCTCTCA-AGAGA
66 TTGGTTTCAGCAGCTGGAGGATCAGCATTCGATAC-AGAGACCGATGTATTCTCTC-CAGAGAGA
* **
622237 CTATCCATATCTCCGGTGTCGAGGACCGAATTATCAACAATAGAAGGAGAAGGAGAAGCGGGGAC
129 CTATCCATATCTCCGGTGTCGAGGACCGAATTATCAAC-ATCGAAGGAGAAGGAGAAGTAGGG-C
622302 -ATTGTTATCAC
192 TATTGTTATCAC
622313 CTTTGGTTT
1 CTTTGGTTT
622322 GAATAGTAGG
Statistics
Matches: 363, Mismatches: 48, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
203 4 0.01
204 355 0.98
205 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (203 bp):
CTTTGGTTTCAACAGTTGGAGGAAGAGAGGTGTTTTCTTGGACAGTAACTCCAATGCCACTCTCT
TTGGTTTCAGCAGCTGGAGGATCAGCATTCGATACAGAGACCGATGTATTCTCTCCAGAGAGACT
ATCCATATCTCCGGTGTCGAGGACCGAATTATCAACATCGAAGGAGAAGGAGAAGTAGGGCTATT
GTTATCAC
Found at i:624800 original size:18 final size:19
Alignment explanation
Indices: 624774--624811 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
624764 ATAATTTAGT
* *
624774 ACACCAATACAAAA-GAAA
1 ACACAAATAAAAAAGGAAA
624792 ACACAAATAAAAAAGGAAA
1 ACACAAATAAAAAAGGAAA
624811 A
1 A
624812 AACATTCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.71, C:0.16, G:0.08, T:0.05
Consensus pattern (19 bp):
ACACAAATAAAAAAGGAAA
Found at i:628365 original size:32 final size:32
Alignment explanation
Indices: 628329--628412 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
628319 GAGTACCTTA
* * *
628329 GGGCCTAAGAGCCTACCCAAGGAAGTATATTG
1 GGGCCTCAGAGCCTACCCAAGGAAATACATTG
* * *
628361 GGGCCTCATAGCCTACCCAAGGAAATGCCTTG
1 GGGCCTCAGAGCCTACCCAAGGAAATACATTG
*
628393 GGGCCTCAGTGCCTACCCAA
1 GGGCCTCAGAGCCTACCCAA
628413 TGTCACCTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (32 bp):
GGGCCTCAGAGCCTACCCAAGGAAATACATTG
Found at i:629191 original size:69 final size:69
Alignment explanation
Indices: 629080--629217 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
629070 TCCAAATTTC
* *
629080 AAGCATCTTAACATGTTTTCAATTCCAATCGCACTATACAATTCCCAGCAAAGGCAACGCTTGTC
1 AAGCATCTTAACATGTTTTCAATTCCAATCGCACTATACAATTCCCAACAAAGGCAACACTTGTC
629145 AATT
66 AATT
629149 AAGCATCTTAACATGTTTTCAATTCCAATCGCACTATACAATTCCCAACAAAGGCAACACTTGTC
1 AAGCATCTTAACATGTTTTCAATTCCAATCGCACTATACAATTCCCAACAAAGGCAACACTTGTC
629214 AATT
66 AATT
629218 TTGTAGGTAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (69 bp):
AAGCATCTTAACATGTTTTCAATTCCAATCGCACTATACAATTCCCAACAAAGGCAACACTTGTC
AATT
Found at i:638246 original size:23 final size:23
Alignment explanation
Indices: 638178--638246 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
638168 TGACTAATGA
638178 AACATACAGTTACATACTTTCAT
1 AACATACAGTTACATACTTTCAT
* * * *
638201 AAAACACATTTACATACTCTCAT
1 AACATACAGTTACATACTTTCAT
* *
638224 ATCATACAGTTACATATTTTCAT
1 AACATACAGTTACATACTTTCAT
638247 CTCTTACCTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (23 bp):
AACATACAGTTACATACTTTCAT
Found at i:638493 original size:23 final size:23
Alignment explanation
Indices: 638463--638520 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
638453 CCATATAAAA
638463 TGTCCCGAATGACCTCGTAGAAT
1 TGTCCCGAATGACCTCGTAGAAT
638486 TGTCCCGAATGACCTCGTAGAAT
1 TGTCCCGAATGACCTCGTAGAAT
638509 TGTCCCGAATGA
1 TGTCCCGAATGA
638521 TTGTCCAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (23 bp):
TGTCCCGAATGACCTCGTAGAAT
Done.