Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001477.1 Hibiscus syriacus cultivar Beakdansim tig00002867_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: 95232
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:2458 original size:19 final size:19
Alignment explanation
Indices: 2434--2478 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
2424 AATGTAGGGT
2434 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2453 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
2472 TAATTTT
1 TAATTTT
2479 CTATGTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3229 original size:197 final size:198
Alignment explanation
Indices: 2833--3981 Score: 1354
Period size: 198 Copynumber: 5.8 Consensus size: 198
2823 AACATATGTA
* * *
2833 TCGATACATTTATAAAAGTATCGACCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTA
1 TCGATACATTTATAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTA
** * *
2898 ATTTTGTAATATAACCATATAAATATACCAGTTTTTATGTGAGAATAAGTCTACATAATGTATCG
66 ATTTTGTAATATAACGGTATAAATATACC-GATTTTATGTGAGAATAGGTCTACATAATGTATCG
* *
2963 ACACTTTTTAAATTGGTGTCGATACTTTTTGTCCATAATGAATTTCCAAAATGGTGCACGCAT-A
130 ACACTTTTTAAATTGGTGTCGATACTTTTTGTCCAGAATGAATTGCCAAAATGGTGCACGCATAA
3027 AGTG
195 AGTG
*
3031 TCGATACATTTATAAAAGTATCGATCCCA-AAACATCGAAACCCATAATTATAATGTAATAAGTA
1 TCGATACATTTATAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTA
* * * *
3095 ATTTTGTAATATAATGGTATAAATATACTGATTTTATGTGAGAATAGGTTTACATAATGGATCGA
66 ATTTTGTAATATAACGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGTATCGA
* *
3160 CACTTTTTAAATTGGTGTCGATACTTTTTGTCCAGAATGAATTTCCAAAATGGTGAACGCATAAA
131 CACTTTTTAAATTGGTGTCGATACTTTTTGTCCAGAATGAATTGCCAAAATGGTGCACGCATAAA
3225 GTG
196 GTG
*
3228 TCGATACATTTATAAAAGTATCGATCCTAGAAACATCGAAACCCATAATTATAATGTAATAGGTA
1 TCGATACATTTATAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTA
* ** * * * * * *
3293 AATTTACAATATAACCGTATAACTATA-CTAGTTTTATGAGAGAATATGTCTACATAATGTATCA
66 ATTTTGTAATATAACGGTATAAATATACCGA-TTTTATGTGAGAATAGGTCTACATAATGTATCG
* ** * * * * *
3357 ACACTTATGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAA-TGCCTAAAATCGTGCACCCATA
130 ACACTTTTTAAATTGGTGTCGATACTTTTTGTCCAGAATGAATTGCC-AAAATGGTGCACGCATA
*
3421 AAGTT
194 AAGTG
* * * *
3426 TCAATACATTTTTTAAAAGTGTCGATCCCAGAGACATCGAAACCCATAATTATAATGTAATAGGT
1 TCGATACA-TTTATAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
* * * * *
3491 AATTTTGTAATGTAACATGTATAAATATACCGGTTTTATGTTG-GAATAGATCTACATAATATAT
65 AATTTTGTAATATAAC-GGTATAAATATACCGATTTTATG-TGAGAATAGGTCTACATAATGTAT
* *
3555 CGACACATTTTAAATTGGTGTCGATAC-TTTTGTCCAGAATGAA-TGCCCAAAATGGTGAACGCA
128 CGACACTTTTTAAATTGGTGTCGATACTTTTTGTCCAGAATGAATTG-CCAAAATGGTGCACGCA
3618 T-AAGTG
192 TAAAGTG
* * * * ** * *
3624 TCGATAAATTTTTAAAAAGTGTCAATCTTAGAGACATCG-AACCCATAATTATAATGTAATAGTT
1 TCGATACATTTAT-AAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
* *
3688 AATTTTGTAATGTAACCGGTATAAAATATACCGATTTTATTTGAGAATAGGTCTACATAATGTAT
65 AATTTTGTAATATAA-CGGTAT-AAATATACCGATTTTATGTGAGAATAGGTCTACATAATGTAT
** * * * *
3753 ATACACTTTTT-AATTATGTGTCGATCCATTTTGTCCAGAATGAA-TGCCGAAAAAGTGGTGCAT
128 CGACACTTTTTAAATT-GGTGTCGATACTTTTTGTCCAGAATGAATTGCC--AAAA-TGGTGCAC
3816 GCATAAAGTG
189 GCATAAAGTG
* * * * *
3826 TCGATACATTTATAAAAAATATCAATCTCAGAAACATCAAAACCCATTATTATAATGTAATAGGT
1 TCGATACATTTAT-AAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
* * * * * *
3891 AATTTT-TCAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTC-AGCATAAAGTA
65 AATTTTGT-AATATAA-CGGTATAAATATACCGATTTTATGTGAGAATAGGTCTA-CATAATGTA
* *
3954 TCGACAATTGTTAAATATGGT-TCGATAC
127 TCGACACTTTTTAAAT-TGGTGTCGATAC
3982 CATTTTAAAA
Statistics
Matches: 820, Mismatches: 107, Indels: 44
0.84 0.11 0.05
Matches are distributed among these distances:
196 92 0.11
197 149 0.18
198 259 0.32
199 111 0.14
200 62 0.08
201 13 0.02
202 86 0.10
203 47 0.06
204 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (198 bp):
TCGATACATTTATAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGTA
ATTTTGTAATATAACGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGTATCGA
CACTTTTTAAATTGGTGTCGATACTTTTTGTCCAGAATGAATTGCCAAAATGGTGCACGCATAAA
GTG
Found at i:4648 original size:2 final size:2
Alignment explanation
Indices: 4641--4670 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4631 ATGGGGAAGG
4641 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
4671 CTCCGTATAC
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):
AT
Found at i:6877 original size:24 final size:24
Alignment explanation
Indices: 6832--6878 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
6822 ATGTAATTGA
* *
6832 AGTTTGAATTTAAATTTCAATTTG
1 AGTTTGAATTTAAATATAAATTTG
* *
6856 AGTTTGAGTTTCAATATAAATTT
1 AGTTTGAATTTAAATATAAATTT
6879 CGCCTCCACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (24 bp):
AGTTTGAATTTAAATATAAATTTG
Found at i:9121 original size:199 final size:198
Alignment explanation
Indices: 8216--9582 Score: 1636
Period size: 200 Copynumber: 6.8 Consensus size: 198
8206 AGTTTCCCAT
* * * *
8216 AAAGTGTCGATTCATGTTTAAAAAGTATTGATCCCAAAAACATCGAAACCGAAAATTATAATGTA
1 AAAGTGTCGATACAT-TTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
* * * *
8281 ATAGGTAAATTTACAATGTAACCGATATAAATATACCGATTTGTTTTGAGAAAATAGAT-ATACA
65 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCG-GTT-TTATGAGAAAATAGGTGA-ACA
* *
8345 TAATGTATCGACACTTGTATA-ATTTGTGTCTATACTTTTTGTCCAAAATGAATGCCAAACGTGG
127 TAATGTATCGACACTT-T-TAGATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGTGG
*
8409 TGCACG-CAT
190 TGCA-GACAA
* * * *
8418 ACAGTGTTGATACATTTTTAAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
1 AAAGTGTCGATACA--TTTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
* ** * ** ** * *
8483 AATAGGTAATTTTGTAATATAACATGTATAAATATACTAGTTTTATGTGAGAATAGGT-ATACAT
64 AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGA-ACAT
* * * *
8547 AATGTGTCGACACTTTT-GAATTTTGTGTCGATACTTTTTGTCTAGAATGAATACCCAAA-ATGG
128 AATGTATCGACACTTTTAG-A-TTTGTGTCGATACTTTTTGTCCAGAATGAAT-GCCAAACGTGG
* * *
8610 TGAACACAT
190 TGCAGACAA
* * * * *
8619 AAAGTGTCGATACATTTATAAAAAATATAGATCCCAGAAACATCGAAACCCATAATTATAATGTA
1 AAAGTGTCGATACATTT-GAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
** * * * * * **
8684 ATAGGTAAATTTACAATGTAACCAATATAACTATACCAGTTTTATAAGAGAATATGTCTACATAA
65 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAA
* * * * * * *
8749 TGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCTAAAATGAATACCAAAAG-GGTTGT
130 TGTATCGACACTTTTAG-ATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGTGG-TGC
*
8813 ACG-CAT
193 A-GACAA
* * * *
8819 AAAGTGTCGATACATTTTTAAAACGTATCGATCCCAAAAATATCGAAACTGATAATTATAATGTA
1 AAAGTGTCGATACA-TTTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
* * * *
8884 ATAGGTAAATTTACAATGTAACCGATATAAATTTACCGGTTTTATAAGAAAATATGTGAACATAA
65 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAA
* * *
8949 TGTATCGACACGTTTTAGATTTTTGTCGATACATTTTGTCCAGAATGAATGCCAAACGTTGTGCA
130 TGTATCGACAC-TTTTAGATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGTGGTGCA
*
9014 GTCAA
194 GACAA
** * *
9019 AAAGTGTCGATACATTTGAAATTGTATCGATTCCAAAAACATCGAAACCAATAATTATAATGTAA
1 AAAGTGTCGATACATTTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
*
9084 TAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTTATGAGAAAATAGGTGAACATAAT
66 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAAT
* *
9149 GTATCAAACACATTTTAGATTTGTGTCGATA-TATTTTGTCCAGAATGAATGCCAAACGTTGTGC
131 GTATC-GACAC-TTTTAGATTTGTGTCGATACT-TTTTGTCCAGAATGAATGCCAAACGTGGTGC
9213 AGACAA
193 AGACAA
**
9219 AAAGTGTCGATACATTTGAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
1 AAAGTGTCGATACATTTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
* * *
9284 TAGGTAAATTTACAATATAACCGGTATACATTTACCGGTTTTATGAGAAAATAGGTGAACATAAT
66 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAAT
* * * *
9349 GTATCGGCACGTTTTAGATTTGTGTCGATACATTTTGTCAAGAATGAATGCCAAACGGGGTGCAG
131 GTATCGACAC-TTTTAGATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGTGGTGCAG
9414 ACAA
195 ACAA
** * *
9418 AAAGTGTCGATACATTTGAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAACGTAA
1 AAAGTGTCGATACATTTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
* * * * *
9483 TAGATAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAGAATATGTCAACATAAT
66 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAAT
*
9548 GTATCGACACTTTTAAATTTGTGTCGATACTTTTT
131 GTATCGACACTTTTAGATTTGTGTCGATACTTTTT
9583 AAATAACGCG
Statistics
Matches: 1026, Mismatches: 119, Indels: 44
0.86 0.10 0.04
Matches are distributed among these distances:
198 23 0.02
199 308 0.30
200 510 0.50
201 92 0.09
202 18 0.02
203 74 0.07
204 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (198 bp):
AAAGTGTCGATACATTTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACATAAT
GTATCGACACTTTTAGATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGTGGTGCAGA
CAA
Found at i:9291 original size:399 final size:396
Alignment explanation
Indices: 8216--9582 Score: 1701
Period size: 399 Copynumber: 3.4 Consensus size: 396
8206 AGTTTCCCAT
* * *
8216 AAAGTGTCGATTCATGTTTAAAAAGTATTGATCCCAAAAACATCGAAACCGAA-AATTATAATGT
1 AAAGTGTCGATACAT-TTGAAAAAGTATCGATCCCAAAAACATCGAAACC-AATAATTATAATGT
* * *
8280 AATAGGTAAATTTACAATGTAACCGATATAAATATACCGATTTGTTTTGAGAAAATAGAT-ATAC
64 AATAGGTAAATTTACAATGTAACCGATATAAATATACCG-GTT-TTATGAGAAAATAGGTCA-AC
* *
8344 ATAATGTATCGACACTTGTATA-ATTTGTGTCTATACTTTTTGTCCAAAATGAATGCCAAACGTG
126 ATAATGTATCGACACTT-T-TAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGTT
* * *
8408 GTGCACGCATACAGTGTTGATACATTTTTAAAAAAGTATCGATCCCAAAAACATCGAAACCCATA
189 GTGCA-GCATAAAGTGTCGATACA-TTTTAAAAAAGTATCGATCCCAAAAACATCGAAACCGATA
* ** * * ** * *
8473 ATTATAATGTAATAGGTAATTTTGTAATATAACATGTATAAATATACTAGTTTTATGTGAGAATA
252 ATTATAATGTAATAGGTAAATTTACAATATAAC-CGTATAAATTTACCGGTTTTATGAGAAAATA
* * *
8538 GGT-ATACATAATGTGTCGACAC-TTTT-GAATTTTGTGTCGATACTTTTTGTCTAGAATGAATA
316 GGTGA-ACATAATGTATCGACACGTTTTAG-ATTTT-TGTCGATACATTTTGTCAAGAATGAAT-
* * * * *
8600 CCCAAA-ATGGTGAACACAT
377 GCCAAACGTGGTGCAGACAA
* * * * *
8619 AAAGTGTCGATACATTTATAAAAAATATAGATCCCAGAAACATCGAAACCCATAATTATAATGTA
1 AAAGTGTCGATACATTT-GAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTA
* * * * * * *
8684 ATAGGTAAATTTACAATGTAACCAATATAACTATACCAGTTTTATAAGAGAATATGTCTACATAA
65 ATAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAA
* * * * * *
8749 TGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCTAAAATGAATACCAAAAGGGTTGTA
130 TGTATCGACACTTTTAG-ATTTGTGTCGATACTTTTTGTCCAAAATGAATGCC-AAA-CGTTGTG
* * * *
8814 C-GCATAAAGTGTCGATACATTTTTAAAACGTATCGATCCCAAAAATATCGAAACTGATAATTAT
192 CAGCATAAAGTGTCGATACATTTTAAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTAT
* * *
8878 AATGTAATAGGTAAATTTACAATGTAACCGATATAAATTTACCGGTTTTATAAGAAAATATGTGA
257 AATGTAATAGGTAAATTTACAATATAACCG-TATAAATTTACCGGTTTTATGAGAAAATAGGTGA
*
8943 ACATAATGTATCGACACGTTTTAGATTTTTGTCGATACATTTTGTCCAGAATGAATGCCAAACGT
321 ACATAATGTATCGACACGTTTTAGATTTTTGTCGATACATTTTGTCAAGAATGAATGCCAAACGT
* *
9008 TGTGCAGTCAA
386 GGTGCAGACAA
** *
9019 AAAGTGTCGATACATTTGAAATTGTATCGATTCCAAAAACATCGAAACCAATAATTATAATGTAA
1 AAAGTGTCGATACATTTGAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAA
* * *
9084 TAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTTATGAGAAAATAGGTGAACATAAT
66 TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAAT
* *
9149 GTATCAAACACATTTTAGATTTGTGTCGATA-TATTTTGTCCAGAATGAATGCCAAACGTTGTGC
131 GTATC-GACAC-TTTTAGATTTGTGTCGATACT-TTTTGTCCAAAATGAATGCCAAACGTTGTGC
* * **
9213 AGACAAAAAGTGTCGATACA-TTTGAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTAT
193 AG-CATAAAGTGTCGATACATTTTAAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTAT
*
9277 AATGTAATAGGTAAATTTACAATATAACCGGTATACATTTACCGGTTTTATGAGAAAATAGGTGA
257 AATGTAATAGGTAAATTTACAATATAACC-GTATAAATTTACCGGTTTTATGAGAAAATAGGTGA
* * *
9342 ACATAATGTATCGGCACGTTTTAGATTTGTGTCGATACATTTTGTCAAGAATGAATGCCAAACGG
321 ACATAATGTATCGACACGTTTTAGATTTTTGTCGATACATTTTGTCAAGAATGAATGCCAAACGT
9407 GGTGCAGACAA
386 GGTGCAGACAA
** * * *
9418 AAAGTGTCGATACATTTGAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAACGTAA
1 AAAGTGTCGATACATTTGAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAA
* * * * *
9483 TAGATAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAGAATATGTCAACATAAT
66 TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAAT
*
9548 GTATCGACACTTTTAAATTTGTGTCGATACTTTTT
131 GTATCGACACTTTTAGATTTGTGTCGATACTTTTT
9583 AAATAACGCG
Statistics
Matches: 839, Mismatches: 106, Indels: 44
0.85 0.11 0.04
Matches are distributed among these distances:
397 22 0.03
398 11 0.01
399 405 0.48
400 205 0.24
401 92 0.11
402 9 0.01
403 95 0.11
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (396 bp):
AAAGTGTCGATACATTTGAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAA
TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAAT
GTATCGACACTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGTTGTGCAGC
ATAAAGTGTCGATACATTTTAAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
TAATAGGTAAATTTACAATATAACCGTATAAATTTACCGGTTTTATGAGAAAATAGGTGAACATA
ATGTATCGACACGTTTTAGATTTTTGTCGATACATTTTGTCAAGAATGAATGCCAAACGTGGTGC
AGACAA
Found at i:13118 original size:200 final size:199
Alignment explanation
Indices: 12645--13363 Score: 832
Period size: 200 Copynumber: 3.6 Consensus size: 199
12635 ACCTAAATAT
* *
12645 GTGTCGATGCATTT-TCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAA
* * * * * *
12708 TAGGTAAATTAACAATGTAACCGATATAAATATATCGGTTAATTAGAAAACATGTCAACATAATG
65 TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTATGAGAAAATATGTCAGCATAATG
12773 TATCGACACTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCA
130 TATCGACACTTGT-TAAATTTGTGTCGATACTT-TTGTCCAGAATGAATGCCCAAACG-GGTGCA
12837 CGCATAAA
192 CGCATAAA
* * * * *** * *
12845 GTGTCGATACATTTATTATAACTATCGATCACAATAAAAC-T-GATACTTTTAAATT-TGTATAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAA-AAAACATCGAAACCGAT-AATTAT-AATGT
* * * *
12907 ATTATGTAAATTTACAATGTAACCGGTATAAATATACCGACTTTATGAGAAAATATGTCAGCATA
63 AATAGGTAAATTTACAATGTAACCGATATAAATATACCG-GTTTATGAGAAAATATGTCAGCATA
* *
12972 AAGTATCGACACTTGTTAAATTTGTGTCGATACATTTTGTCCATAATGAATG-CCAAACGGGTGC
127 ATGTATCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCCAAACGGGTGC
13036 ACGCATAAA
191 ACGCATAAA
* * * * *
13045 GTGTCAATACATTTATTAAAAGTATCGATCCCTAAAAACATCGAAACCGATCATTACAATGTTAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
13110 AGGTAAATTTACAATGTATCCGATAGAAATATGCCGGTTTCATGAGAAAATATGTCTGAATAATG
66 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTT-ATGAGAAAATATGTCAGCATAATG
* * * * **
13175 TATTGACACTT-TTAAGTTTGTGTCGATACTTTTTTTCAGAATGAATGCCCAATGGGGTGCACGC
130 TATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCCAAACGGGTGCACGC
13239 ATAAA
195 ATAAA
*
13244 GTGTCGATACATTTCA--AATTA-TATCGAT-CCAAAAAACATCGAAACCGATAATTATAATGTA
1 GTGTCGATACATTT-ATTAA-AAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTA
* * * * *
13305 ATAGGTAAATTTGCAATGTTACCGATATAAATATACCTGTTTAGTTAGAAAATAGGTCA
64 ATAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTA-TGAGAAAATATGTCA
13364 ATATAAACGC
Statistics
Matches: 435, Mismatches: 68, Indels: 35
0.81 0.13 0.07
Matches are distributed among these distances:
196 1 0.00
197 77 0.18
198 24 0.06
199 58 0.13
200 143 0.33
201 60 0.14
202 70 0.16
203 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTATGAGAAAATATGTCAGCATAATGT
ATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCCAAACGGGTGCACGCA
TAAA
Found at i:21637 original size:21 final size:19
Alignment explanation
Indices: 21599--21638 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
21589 ACTTGATATA
21599 GATAAATTGTTCAGTGTCC
1 GATAAATTGTTCAGTGTCC
*
21618 GATAAGTTCGTTCATGTGTCC
1 GATAAATT-GTTCA-GTGTCC
21639 AAGGAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (19 bp):
GATAAATTGTTCAGTGTCC
Found at i:22215 original size:33 final size:33
Alignment explanation
Indices: 22176--22238 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
22166 TGTTCAAAGT
*
22176 TTGGCCACCAACTAAGATGAAATGTCCAATAAG
1 TTGGCCACCAACCAAGATGAAATGTCCAATAAG
*
22209 TTGGCCACCAACCAAGATGAAATTTCCAAT
1 TTGGCCACCAACCAAGATGAAATGTCCAAT
22239 TTGTCAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (33 bp):
TTGGCCACCAACCAAGATGAAATGTCCAATAAG
Found at i:24176 original size:21 final size:21
Alignment explanation
Indices: 24150--24189 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24140 TCTGCTGAAA
* *
24150 CTCCACCTGTTTTGGAGTATG
1 CTCCACCTGCTGTGGAGTATG
24171 CTCCACCTGCTGTGGAGTA
1 CTCCACCTGCTGTGGAGTA
24190 CTACTTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.33
Consensus pattern (21 bp):
CTCCACCTGCTGTGGAGTATG
Found at i:28212 original size:19 final size:19
Alignment explanation
Indices: 28163--28222 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
28153 AAGTAGAATG
*
28163 TAACATTATAGGTTGAATGGA
1 TAACATTATAGGTTG--TAGA
*
28184 AAACA-T-TAGGTTGTAGA
1 TAACATTATAGGTTGTAGA
*
28201 TAACATTATAGGTTGTACA
1 TAACATTATAGGTTGTAGA
28220 TAA
1 TAA
28223 TTGGTGACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 7 0.21
18 1 0.03
19 20 0.61
20 1 0.03
21 4 0.12
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (19 bp):
TAACATTATAGGTTGTAGA
Found at i:28786 original size:27 final size:27
Alignment explanation
Indices: 28756--28836 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
28746 AAAAAAGAAT
*
28756 ATATATATGATGGTAATAATAATAAAG
1 ATATATATAATGGTAATAATAATAAAG
* * * *
28783 ATATAAACAATGGGAAAAATAA-AAAG
1 ATATATATAATGGTAATAATAATAAAG
*
28809 ATATATATAATAGTAATAAATAAATAAA
1 ATATATATAATGGTAAT-AAT-AATAAA
28837 AAAACTAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 16 0.39
27 20 0.49
28 2 0.05
29 3 0.07
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.27
Consensus pattern (27 bp):
ATATATATAATGGTAATAATAATAAAG
Found at i:31200 original size:105 final size:105
Alignment explanation
Indices: 30537--31200 Score: 1087
Period size: 105 Copynumber: 6.3 Consensus size: 105
30527 TTCAAGACCG
* * * *
30537 ATATCATTCGGTGTGAAGTTGAAATTGACTTTGAAACTTG-GAAAGTGTTTGTTGACAACCAGCG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TTGAGAAA-TGTTTGTTGACAACCAGCG
* * *
30601 GCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGTCCA
64 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * * *
30643 ACATCCTTCGGTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAATATTTGGTGACAACCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
*
30708 CCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
30748 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
* *
30813 CCCTTCGTCATGAAGTTGAACTTGTGTTGTCTGGAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
30853 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAAAAATGTTTGTTGACAACCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
30918 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
30958 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGACATTGAGAAATGTTCGTTGACAACCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
31023 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
31063 ATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
*
31128 CCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
31168 ATATCCTTCGTTATGAAGTTGAAATTGGCTCTG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
31201 GGTAAAACCT
Statistics
Matches: 525, Mismatches: 32, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
105 491 0.94
106 34 0.06
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
Found at i:32036 original size:46 final size:48
Alignment explanation
Indices: 31974--32064 Score: 150
Period size: 46 Copynumber: 1.9 Consensus size: 48
31964 TTTTTCCTCT
*
31974 TTTTCTTTTTTCAACTTAGGGCGCCCTTTCGGGTTTTCACCCTAAACA
1 TTTTCTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAAACA
*
32022 TTTT-TTTTTT-AACTTAGGACGCCCTTTCGGGTTTTCATCCTAA
1 TTTTCTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAA
32065 GCGAAGTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 31 0.76
47 6 0.15
48 4 0.10
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.45
Consensus pattern (48 bp):
TTTTCTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAAACA
Found at i:41477 original size:10 final size:10
Alignment explanation
Indices: 41452--41485 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
41442 AAGATTAGTA
*
41452 AAATAGAAAT
1 AAATAAAAAT
*
41462 AGATAAAAAT
1 AAATAAAAAT
41472 AAATAAAAAT
1 AAATAAAAAT
41482 AAAT
1 AAAT
41486 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:42515 original size:27 final size:27
Alignment explanation
Indices: 42485--42556 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 27
42475 TATATATATG
42485 ATGGTAATAATAATAAAGATATAAACA
1 ATGGTAATAATAATAAAGATATAAACA
* * * *
42512 ATGGGAAAAATAA-AAAGATATATATA
1 ATGGTAATAATAATAAAGATATAAACA
*
42538 ATAGTAATAAATAAATAAA
1 ATGGTAAT-AAT-AATAAA
42557 AAAACTAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
26 16 0.46
27 14 0.40
28 2 0.06
29 3 0.09
ACGTcount: A:0.62, C:0.01, G:0.11, T:0.25
Consensus pattern (27 bp):
ATGGTAATAATAATAAAGATATAAACA
Found at i:45832 original size:13 final size:13
Alignment explanation
Indices: 45814--45864 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
45804 GGTCATAACC
**
45814 TGACCCGACTTGT
1 TGACCCGACCCGT
45827 TGACCCGACCCGT
1 TGACCCGACCCGT
*
45840 TGACCCGACCCAT
1 TGACCCGACCCGT
45853 TGACCCGACCCG
1 TGACCCGACCCG
45865 ATCTGTTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.18
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:45863 original size:31 final size:31
Alignment explanation
Indices: 45828--45888 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
45818 CCGACTTGTT
45828 GACCCGACCCGTTGACCCGACCCATTGACCC
1 GACCCGACCCGTTGACCCGACCCATTGACCC
* * * *
45859 GACCCGATCTGTTGACCTGACCCGTTGACC
1 GACCCGACCCGTTGACCCGACCCATTGACC
45889 GGCGTTGACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.18, C:0.43, G:0.21, T:0.18
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCATTGACCC
Found at i:45911 original size:20 final size:20
Alignment explanation
Indices: 45886--45924 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
45876 TGACCCGTTG
45886 ACCGGCGTTGACCACTGTTA
1 ACCGGCGTTGACCACTGTTA
45906 ACCGGCGTTGACCACTGTT
1 ACCGGCGTTGACCACTGTT
45925 GATCAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.18, C:0.31, G:0.26, T:0.26
Consensus pattern (20 bp):
ACCGGCGTTGACCACTGTTA
Found at i:48839 original size:32 final size:31
Alignment explanation
Indices: 48765--48886 Score: 95
Period size: 31 Copynumber: 3.9 Consensus size: 31
48755 CTAATGTGAC
* *
48765 TCTTAGGTAGGCTCTACGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
** * **
48796 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGAT-CAT
* * *
48828 TCTTAGGTAGGCCCCACGGCCCCAAAATC-T
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
* *
48858 ATCTTAAGTAGGCTCT-CAGGCCCTAAGAT
1 -TCTTAGGTAGGCCCTAC-GGCCCTAAGAT
48887 GTTCCCTTAG
Statistics
Matches: 69, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
30 2 0.03
31 44 0.64
32 23 0.33
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.25
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
Found at i:58416 original size:100 final size:101
Alignment explanation
Indices: 58147--58425 Score: 302
Period size: 100 Copynumber: 2.8 Consensus size: 101
58137 TTGTCAACTG
* * * * * * * *
58147 TTTAGATTATATTTTTGAAACCTTTTTTATAATGAAAAAGTTAGACAAAACACA--TT-TATATA
1 TTTACATTATATGTTTGAAACCATTTTTATTATGAAAATGTAACACAAAACA-AGGTTATATGTA
** * *
58209 TAACAATACAAATATCA-CATGTT-TATATTGCCAACCA
65 TAACAATACATGTA-GAGC-TTTTCTATATTGCCAACCA
* *
58246 TTTACATTATATGTTTGAAACCTTTTTTATTATGAAAATGTAAGACAAAACAAGGTTATATGTAT
1 TTTACATTATATGTTTGAAACCATTTTTATTATGAAAATGTAACACAAAACAAGGTTATATGTAT
* *
58311 AACAATACATGTAGAGCTTTTCTATATTGTCAATCA
66 AACAATACATGTAGAGCTTTTCTATATTGCCAACCA
* * *
58347 TTTACGTTATATGTTT-AAACCATTTTTATTATGAAAATGTAACATAAAA-TAGGTTTATATGTA
1 TTTACATTATATGTTTGAAACCATTTTTATTATGAAAATGTAACACAAAACAAGG-TTATATGTA
58410 TAACAATACATGTAGA
65 TAACAATACATGTAGA
58426 ACCTTTTTAA
Statistics
Matches: 157, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
98 1 0.01
99 50 0.32
100 61 0.39
101 45 0.29
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (101 bp):
TTTACATTATATGTTTGAAACCATTTTTATTATGAAAATGTAACACAAAACAAGGTTATATGTAT
AACAATACATGTAGAGCTTTTCTATATTGCCAACCA
Found at i:58474 original size:100 final size:99
Alignment explanation
Indices: 58270--58475 Score: 231
Period size: 100 Copynumber: 2.1 Consensus size: 99
58260 TTGAAACCTT
* *
58270 TTTTATTATGAAAATGTAAGACAAAACAAGGTTATATGTATAACAATACATGTAGAGCTTTTCTA
1 TTTTATTATGAAAATGTAACACAAAACAAGGTTATATGTATAACAATACATGTAGACCTTTTCTA
* * * * * *
58335 TATTGTCAATCATTTACGTTATATGTTTAAACCA
66 AATGGTCAACCATTTACGTTAGAGGATTAAACCA
* *
58369 TTTTTATTATGAAAATGTAACATAAAA-TAGGTTTATATGTATAACAATACATGTAGAACCTTTT
1 -TTTTATTATGAAAATGTAACACAAAACAAGG-TTATATGTATAACAATACATGTAG-ACCTTTT
*
58433 -TAAAATGGTCAACCGA-TTAGGTTAGAGGCATTAAACC-
63 CT-AAATGGTCAACC-ATTTACGTTAGAGG-ATTAAACCA
58470 TTTTAT
1 TTTTAT
58476 ATTAGTAAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
99 3 0.03
100 55 0.61
101 24 0.27
102 8 0.09
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (99 bp):
TTTTATTATGAAAATGTAACACAAAACAAGGTTATATGTATAACAATACATGTAGACCTTTTCTA
AATGGTCAACCATTTACGTTAGAGGATTAAACCA
Found at i:60844 original size:64 final size:62
Alignment explanation
Indices: 60775--60953 Score: 193
Period size: 64 Copynumber: 2.8 Consensus size: 62
60765 TGGGACACTT
*
60775 AGTGCATCGGTGCACTAAGGATGCATCGATGCATAAAATGCATTCGATGTTTGAAAA-ATAGCCT
1 AGTGCATCGATGCA-T-AGGATGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAT-GCC-
60839 G
62 G
* * *
60840 -GTGCATCGATGCATTGCTTG-TGCATCGATGCATCAAATGCATTCGATGTTTGAAAATATTCCG
1 AGTGCATCGATGCATAG---GATGCATCGATGCATAAAATGCATTCGATGTTTGAAAATATGCCG
* * *
60903 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATAG-GA-TGCATCGATGCATAAAATGCATTCGATGTT
60954 CAATTAAATC
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
62 2 0.02
63 2 0.02
64 92 0.93
65 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (62 bp):
AGTGCATCGATGCATAGGATGCATCGATGCATAAAATGCATTCGATGTTTGAAAATATGCCG
Found at i:60972 original size:64 final size:61
Alignment explanation
Indices: 60796--60983 Score: 180
Period size: 64 Copynumber: 2.9 Consensus size: 61
60786 GCACTAAGGA
* * * ***
60796 TGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATTGCTTG
1 TGCATCGATGCATAAAATGCATTCGATG-TTCAAAAAT--CATGGTGCATCGATGCATGGAGAG
* * *
60860 TGCATCGATGCATCAAATGCATTCGATGTTTGAAAATATTC-CGAGTGCATCGATGCATGGAGAG
1 TGCATCGATGCATAAAATGCATTCGATG-TTCAAAA-A-TCATG-GTGCATCGATGCATGGAGAG
* *
60924 TGCATCGGTGCATGAAATGCATTCGATGTTCAATTAAATCATAGGTGCATCGATGCATGG
1 TGCATCGATGCATAAAATGCATTCGATGTTCAA--AAATCAT-GGTGCATCGATGCATGG
60984 TTTGATGCAT
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
63 7 0.07
64 95 0.89
65 4 0.04
66 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (61 bp):
TGCATCGATGCATAAAATGCATTCGATGTTCAAAAATCATGGTGCATCGATGCATGGAGAG
Found at i:66480 original size:22 final size:21
Alignment explanation
Indices: 66454--66500 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
66444 AAGGTCAAAA
*
66454 ATCAAATTGTTTGAAAATTG-AT
1 ATCAAATGGTTT-AAAA-TGAAT
66476 ATC-AATGGTTTAAAATGAAT
1 ATCAAATGGTTTAAAATGAAT
66496 ATCAA
1 ATCAA
66501 TTACATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 2 0.09
20 9 0.41
21 8 0.36
22 3 0.14
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (21 bp):
ATCAAATGGTTTAAAATGAAT
Found at i:68585 original size:17 final size:19
Alignment explanation
Indices: 68547--68585 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
68537 ACACTTAGTA
*
68547 CATCGATGCACTAAGGATG
1 CATCGATGCACTAAGAATG
68566 CATCGATGCA-TAA-AATG
1 CATCGATGCACTAAGAATG
68583 CAT
1 CAT
68586 TTGATGTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (19 bp):
CATCGATGCACTAAGAATG
Found at i:68680 original size:64 final size:64
Alignment explanation
Indices: 68564--68721 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 64
68554 GCACTAAGGA
* * ***
68564 TGCATCGATGCATAAAATGCATTTGATGTTTGAAAAATAGCCTGGTGTATCGATGCATGGCTTG
1 TGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGGAGAG
* * * *
68628 TGTATCGATGCATCAAATGCATTCGATGTTTG-AAAATATTCC-GAGTGCATCGATGGATGGAGA
1 TGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATA-GCCTG-GTGCATCGATGCATGGAGA
68691 G
64 G
* *
68692 TGCATCGGTGCATGAAATGCATTCGATGTT
1 TGCATCGATGCATAAAATGCATTCGATGTT
68722 CAATTAAATC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
63 7 0.09
64 73 0.91
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (64 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGGAGAG
Found at i:71748 original size:56 final size:56
Alignment explanation
Indices: 71695--71813 Score: 143
Period size: 57 Copynumber: 2.1 Consensus size: 56
71685 TTCATGCATC
* *
71695 GATGCA-CATACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTT
1 GATGCACCA-ACCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTT
* * * *
71752 GATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTT
1 GATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTT
71808 GATGCA
1 GATGCA
71814 TCGATACACT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
56 22 0.41
57 27 0.50
58 5 0.09
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (56 bp):
GATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTT
Found at i:71767 original size:57 final size:56
Alignment explanation
Indices: 71705--71813 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
71695 GATGCACATA
* *
71705 CCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTGATGCACCAG
1 CCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTTGATGCACCAG
* * *
71762 CCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCA
1 CCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCA
71814 TCGATACACT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 22 0.48
57 21 0.46
58 3 0.07
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (56 bp):
CCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCACCAG
Found at i:74232 original size:116 final size:116
Alignment explanation
Indices: 74022--74237 Score: 285
Period size: 116 Copynumber: 1.9 Consensus size: 116
74012 ACCAAGGTTA
* * * *
74022 AACAAATTCTTCTTATTATGAATTTCTTCTCCCTTATCGGATGAGTTCTTCTCATTATGAACTCT
1 AACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACCCT
*
74087 CTACTGGAAATATTGATCTACCTTCTTCTATGATGACATCGAAAAAAGTTG
66 CTACTGGAAATATTGATCCACCTTCTTCTATGATGACATCGAAAAAAGTTG
* * *
74138 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATTG-GTTCTTCTCATTATGAACCC
1 AACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATCGGA-TGAGTTCTTCTCATTATGAACCC
* * *
74202 T-TTCATTGAAATATTGGTCCACC-TCATTCTATGATG
65 TCTAC-TGGAAATATTGATCCACCTTC-TTCTATGATG
74238 GTTGACTCAA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
115 4 0.05
116 80 0.93
117 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.40
Consensus pattern (116 bp):
AACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACCCT
CTACTGGAAATATTGATCCACCTTCTTCTATGATGACATCGAAAAAAGTTG
Found at i:75284 original size:18 final size:18
Alignment explanation
Indices: 75258--75295 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
75248 TTAGAATTGG
75258 TTGCAAGAGCAGTCTTCA
1 TTGCAAGAGCAGTCTTCA
*
75276 TTGCTAGAGCAGTCTTCA
1 TTGCAAGAGCAGTCTTCA
75294 TT
1 TT
75296 CTTTTCTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (18 bp):
TTGCAAGAGCAGTCTTCA
Found at i:75613 original size:20 final size:21
Alignment explanation
Indices: 75546--75615 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 21
75536 ATCCTACCCG
*
75546 AAGGTCTTATAGATGGC-CTG-
1 AAGGACTTATAGATGGCTC-GA
** *
75566 AAGGACTTATCATCTTGCTCGA
1 AAGGACTTAT-AGATGGCTCGA
75588 AA-GACTTATAGATGGCTC-A
1 AAGGACTTATAGATGGCTCGA
75607 AAGGACTTA
1 AAGGACTTA
75616 CTCATCAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.08
20 21 0.54
21 12 0.31
22 3 0.08
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (21 bp):
AAGGACTTATAGATGGCTCGA
Found at i:75789 original size:54 final size:54
Alignment explanation
Indices: 75661--76014 Score: 354
Period size: 54 Copynumber: 6.5 Consensus size: 54
75651 TAGAAAGATC
* * ** * * * *
75661 AAATAATCAAGAAACTTC-CAAATATTGGACTTAGTTTCTTTCAAATTCATTTGA
1 AAATCATCAAGAAACTTCTGAAA-ATCAGACTTAATTTCTTTAAAACTCATTTAA
** * * * *
75715 AAA-CATCAAGAAACCCCTGAAAATCAGGCTTAACTTCTTTGAAATTCATTTAA
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAACTCATTTAA
* * * *
75768 AAATCATCAAGAAACTTCTGAAAATCATACTTAGTTTTTTTAAAACTCATTTGA
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAACTCATTTAA
* * * * *
75822 AAATCGTCAAGAAACTTCTGAAAACCAGATTTAGTTTCTTTAAAAGCTCGTTTAA
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAA-CTCATTTAA
* * * * *
75877 AAATAATCAAGAAACTTC-CAAATATCGGACTTAATTTCTTTAAAATTCAATTAA
1 AAATCATCAAGAAACTTCTGAAA-ATCAGACTTAATTTCTTTAAAACTCATTTAA
* * *
75931 AAATCATCAAGAAACTTCTAAAAATCAGACTTAATTTCCTTGAAAGCTCATTTAA
1 AAATCATCAAGAAACTTCTGAAAATCAGACTTAATTT-CTTTAAAACTCATTTAA
* *
75986 AAATTATCAAGAAACTTTTGAAAATCAGA
1 AAATCATCAAGAAACTTCTGAAAATCAGA
76015 TTTTGTTCCT
Statistics
Matches: 246, Mismatches: 48, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
53 38 0.15
54 125 0.51
55 83 0.34
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (54 bp):
AAATCATCAAGAAACTTCTGAAAATCAGACTTAATTTCTTTAAAACTCATTTAA
Found at i:75894 original size:109 final size:109
Alignment explanation
Indices: 75661--76002 Score: 420
Period size: 109 Copynumber: 3.2 Consensus size: 109
75651 TAGAAAGATC
** *
75661 AAATAATCAAGAAACTTCCAAATATTGGACTTAGTTTCTTTCAAATTCATTTGAAAA-CATCAAG
1 AAATAATCAAGAAACTTCCAAATATCAGACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
** * * *
75725 AAACCCCTGAAAATCAGGCTTAACTTCTTTGAAA-TTCATTTAA
66 AAACTTCTGAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
* * * * * *
75768 AAATCATCAAGAAACTTCTGAAA-ATCATACTTAGTTTTTTTAAAACTCATTTGAAAATCGTCAA
1 AAATAATCAAGAAACTTC-CAAATATCAGACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAA
* * * * *
75832 GAAACTTCTGAAAACCAGATTTAGTTTCTTTAAAAGCTCGTTTAA
65 GAAACTTCTGAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
* * * *
75877 AAATAATCAAGAAACTTCCAAATATCGGACTTAATTTCTTTAAAATTCAATTAAAAATCATCAAG
1 AAATAATCAAGAAACTTCCAAATATCAGACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
* *
75942 AAACTTCTAAAAATCAGACTTAATTTCCTTGAAAGCTCATTTAA
66 AAACTTCTGAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
*
75986 AAATTATCAAGAAACTT
1 AAATAATCAAGAAACTT
76003 TTGAAAATCA
Statistics
Matches: 194, Mismatches: 37, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
107 45 0.23
108 38 0.20
109 111 0.57
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.33
Consensus pattern (109 bp):
AAATAATCAAGAAACTTCCAAATATCAGACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
AAACTTCTGAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
Found at i:78970 original size:122 final size:119
Alignment explanation
Indices: 78816--79096 Score: 384
Period size: 122 Copynumber: 2.3 Consensus size: 119
78806 ACACTGCTTC
* **
78816 TTCTCATTGACGAAATTGGGTCAATCTGGAAATAATTTGGTGTTGAAGATGACTCTACTCATCCG
1 TTCTCATTGAGGAAATCAGGTCAATCTGGAAATAATTTGGTGTTGAAGATGACTCTACTCATCCG
*
78881 TGTTGAAGAGATATGATCA-CTTTCACATGAATTGTTTGTTGAAGATGATGTTGTTCA
66 TGTTAAAGAGATATGAT-ATCTTTCACATGAATTGTTTGTT---GATGATGTTGTTCA
* * * * *
78938 TTCTCGTTGAGGAAATCATGTCAATCTAGAAATAATTTAGTGTTGAAGATGACTCTGCTCATCCG
1 TTCTCATTGAGGAAATCAGGTCAATCTGGAAATAATTTGGTGTTGAAGATGACTCTACTCATCCG
* * * *
79003 TTTTAAAGAGATCTGGTATCTTTCAGATGAATTGTTTGTTGATGATGTTGTTCA
66 TGTTAAAGAGATATGATATCTTTCACATGAATTGTTTGTTGATGATGTTGTTCA
* *
79057 TTCTCATTGAGGAAATTAGGTCATTCTGGAAATAATTTGG
1 TTCTCATTGAGGAAATCAGGTCAATCTGGAAATAATTTGG
79097 AGACAAAACA
Statistics
Matches: 139, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
119 48 0.35
121 1 0.01
122 90 0.65
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (119 bp):
TTCTCATTGAGGAAATCAGGTCAATCTGGAAATAATTTGGTGTTGAAGATGACTCTACTCATCCG
TGTTAAAGAGATATGATATCTTTCACATGAATTGTTTGTTGATGATGTTGTTCA
Found at i:79323 original size:61 final size:61
Alignment explanation
Indices: 79159--79298 Score: 167
Period size: 61 Copynumber: 2.3 Consensus size: 61
79149 TGCTCCTTCG
* * * * *
79159 TGTTGAGGAGATC-GAGTCAAT-TTGGAAATAATTTAGTGTTGAATATGACACTGCTCATCTA
1 TGTTGAAGAGATCAG-GTCAATCTT-GAAATAAATTGGTATTGAATATAACACTGCTCATCTA
* * *
79220 TGTTGAAGAGATCAGGTTAATCTTGAAATAATTTGGTGTTGAATATAACACTGCTCATCTA
1 TGTTGAAGAGATCAGGTCAATCTTGAAATAAATTGGTATTGAATATAACACTGCTCATCTA
*
79281 TGTTGAAGAGATCTGGTC
1 TGTTGAAGAGATCAGGTC
79299 GCTTTGAGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
61 68 0.96
62 3 0.04
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (61 bp):
TGTTGAAGAGATCAGGTCAATCTTGAAATAAATTGGTATTGAATATAACACTGCTCATCTA
Found at i:80638 original size:12 final size:12
Alignment explanation
Indices: 80617--80649 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
80607 GTCATTCTTA
80617 TTTTTC-TTTAT
1 TTTTTCTTTTAT
80628 TTTTTCTTTTAT
1 TTTTTCTTTTAT
*
80640 CTTTTCTTTT
1 TTTTTCTTTT
80650 TTCATCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTAT
Found at i:86869 original size:95 final size:95
Alignment explanation
Indices: 86743--86942 Score: 246
Period size: 95 Copynumber: 2.1 Consensus size: 95
86733 TACTGATGGG
* *
86743 GTATCGATACTAAAAGAGAAAGTATCGATACCATGGATTGCAAAATGCCA-AAATGGTATCGATA
1 GTATCGATACT-AAAGAGAAAGTATCGATACCATGCATTACAAAATG-CAGAAATGGTATCGATA
* *
86807 CTGAAAG-GGAGTATCGGTACCATAGTATA-ATA
64 CTGAAAGAGG-CTATCGGTACCATAATATAGA-A
* * *
86839 GTATCGATACT-GAGAGAAAGGTATCGATACCATGCATTACAGAATGTAGAAATGGTATCGATAC
1 GTATCGATACTAAAGAGAAA-GTATCGATACCATGCATTACAAAATGCAGAAATGGTATCGATAC
* *
86903 TGAGAGAGGCTATCGGTACCATAATGTAGAA
65 TGAAAGAGGCTATCGGTACCATAATATAGAA
86934 GTATCGATA
1 GTATCGATA
86943 ACATGGTAGT
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
94 8 0.09
95 69 0.76
96 14 0.15
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (95 bp):
GTATCGATACTAAAGAGAAAGTATCGATACCATGCATTACAAAATGCAGAAATGGTATCGATACT
GAAAGAGGCTATCGGTACCATAATATAGAA
Found at i:87421 original size:44 final size:43
Alignment explanation
Indices: 87364--87544 Score: 205
Period size: 44 Copynumber: 4.3 Consensus size: 43
87354 TAAAATGAAT
*
87364 CCATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGGTG
1 CCATAAATGAAATGCATAACGGTGCATTAAAGGCATG-AAGGTG
* *
87408 CCATAAATGAAATGCATAACAGTGCATTAAAGGTATGAAGGATG
1 CCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAGG-TG
* * *
87452 CCATAAATGAAATGTATAACGATGCATGAAAGG-AT----GT-
1 CCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAGGTG
*
87489 -CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAATGATG
1 CCATAAATGAAATGCATAACGGTGCATTAAAGGCATG-AA-GGTG
*
87533 CCTTAAATGAAA
1 CCATAAATGAAA
87545 ATAATTAATA
Statistics
Matches: 115, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
36 29 0.25
37 2 0.02
38 1 0.01
39 1 0.01
43 7 0.06
44 65 0.57
45 10 0.09
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.23
Consensus pattern (43 bp):
CCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAGGTG
Found at i:87485 original size:36 final size:36
Alignment explanation
Indices: 87445--87520 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
87435 TAAAGGTATG
*
87445 AAGGATGCCATAAATGAAATGTATAACGATGCATGA
1 AAGGATGCCATAAATGAAATGCATAACGATGCATGA
* * *
87481 AAGGATGTCATAAATGAAATGCATAACGGTGCATTA
1 AAGGATGCCATAAATGAAATGCATAACGATGCATGA
87517 AAGG
1 AAGG
87521 CATGAAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (36 bp):
AAGGATGCCATAAATGAAATGCATAACGATGCATGA
Found at i:87498 original size:80 final size:80
Alignment explanation
Indices: 87396--87544 Score: 237
Period size: 80 Copynumber: 1.9 Consensus size: 80
87386 TGCATTAAAG
*
87396 GCATGAAAGGTGCCATAAATGAAATGCATAACAGTGCATTAAAGGTATG-AAGGATGCCATAAAT
1 GCATGAAAGGTGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGCCATAAAT
87460 GAAATGTATAACGAT
66 GAAATGTATAACGAT
* * * *
87475 GCATGAAAGGATGTCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAATGATGCCTTAAA
1 GCATGAAAGG-TGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGCCATAAA
87540 TGAAA
65 TGAAA
87545 ATAATTAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 10 0.16
80 36 0.57
81 17 0.27
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (80 bp):
GCATGAAAGGTGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGCCATAAAT
GAAATGTATAACGAT
Found at i:93992 original size:16 final size:17
Alignment explanation
Indices: 93971--94008 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
93961 AATACCATCC
*
93971 AAATAAGGGGGAAA-AT
1 AAATAAGGCGGAAACAT
*
93987 AAATAAGGCTGAAACAT
1 AAATAAGGCGGAAACAT
94004 AAATA
1 AAATA
94009 TTAAAAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.58, C:0.05, G:0.21, T:0.16
Consensus pattern (17 bp):
AAATAAGGCGGAAACAT
Found at i:94350 original size:32 final size:32
Alignment explanation
Indices: 94299--94385 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 32
94289 AATAACAATA
* *
94299 AAAATAAAAATTAGTATGTTAGTATGAACAAAT
1 AAAATAAAAGTTAGAATGTTAGTATGAA-AAAT
* **
94332 -AAATAAAAGTTAGAATGTTAGTTTGAATGAT
1 AAAATAAAAGTTAGAATGTTAGTATGAAAAAT
*
94363 AAAATAAATGTTAGAATGTTAGT
1 AAAATAAAAGTTAGAATGTTAGT
94386 GACTAAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 2 0.04
32 45 0.96
ACGTcount: A:0.49, C:0.01, G:0.16, T:0.33
Consensus pattern (32 bp):
AAAATAAAAGTTAGAATGTTAGTATGAAAAAT
Found at i:94397 original size:32 final size:31
Alignment explanation
Indices: 94299--94403 Score: 97
Period size: 32 Copynumber: 3.3 Consensus size: 31
94289 AATAACAATA
* *
94299 AAAATAAAAATTAGTATGTTAGTATGAACAAAT
1 AAAATAAAAGTTAGAATGTTAGT-TGAA-AAAT
**
94332 -AAATAAAAGTTAGAATGTTAGTTTGAATGAT
1 AAAATAAAAGTTAGAATGTTAG-TTGAAAAAT
*
94363 AAAATAAATGTTAGAATGTTAG-TGACTAAAAT
1 AAAATAAAAGTTAGAATGTTAGTTGA--AAAAT
*
94395 AAAAGAAAA
1 AAAATAAAA
94404 TAAAATAAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
30 3 0.05
31 2 0.03
32 53 0.90
33 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.15, T:0.30
Consensus pattern (31 bp):
AAAATAAAAGTTAGAATGTTAGTTGAAAAAT
Done.