Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000029.1 Hibiscus syriacus cultivar Beakdansim tig00000049_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: 101145
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Found at i:498 original size:23 final size:23
Alignment explanation
Indices: 470--514 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
460 TTTATTAGTT
470 TAATTAATATA-TAGAATTATTAA
1 TAATTAA-ATAGTAGAATTATTAA
*
493 TAATTAAATAGTAGTATTATTA
1 TAATTAAATAGTAGAATTATTA
515 TATATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (23 bp):
TAATTAAATAGTAGAATTATTAA
Found at i:2428 original size:23 final size:23
Alignment explanation
Indices: 2382--2429 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2372 TCCTTCGGGA
* * *
2382 TTCTATGTGGCACTTCGGTGCAT
1 TTCTACGTGGCACTTAGGTACAT
*
2405 TTCTACGTGGCACTTATGTACAT
1 TTCTACGTGGCACTTAGGTACAT
2428 TT
1 TT
2430 TATACGAGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (23 bp):
TTCTACGTGGCACTTAGGTACAT
Found at i:10292 original size:17 final size:17
Alignment explanation
Indices: 10275--10311 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10265 TATAAAATAT
10275 ATTTTATTTATATTTATA
1 ATTTTA-TTATATTTATA
10293 ATTTTATTATATTTA-A
1 ATTTTATTATATTTATA
10309 ATT
1 ATT
10312 GATATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 9 0.47
18 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATTATATTTATA
Found at i:10300 original size:23 final size:24
Alignment explanation
Indices: 10274--10321 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
10264 TTATAAAATA
* *
10274 TATTTTATTTATATT-TATAATTT
1 TATTATATTTAAATTATATAATTT
10297 TATTATATTTAAATTGATATAATTT
1 TATTATATTTAAATT-ATATAATTT
10322 ATATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
25 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTATATTTAAATTATATAATTT
Found at i:13097 original size:52 final size:52
Alignment explanation
Indices: 13021--13122 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
13011 GAATGTTAAT
13021 TTTTTTGTTTTATAACTAATTTTAAAATTTTTATTTCC-TTTTTTAAAGCTA
1 TTTTTTGTTTTATAACTAATTTTAAAATTTTTATTTCCTTTTTTTAAAGCTA
*
13072 TTTTTTGTTTTTATAATTAATTTTAAAATTTTTATTTCCTTTTTTTAAAGC
1 TTTTTTG-TTTTATAACTAATTTTAAAATTTTTATTTCCTTTTTTTAAAGC
13123 CGTTGGACTT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 7 0.15
52 30 0.62
53 11 0.23
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (52 bp):
TTTTTTGTTTTATAACTAATTTTAAAATTTTTATTTCCTTTTTTTAAAGCTA
Found at i:19628 original size:181 final size:182
Alignment explanation
Indices: 19296--19770 Score: 672
Period size: 181 Copynumber: 2.6 Consensus size: 182
19286 CGATCCAAAT
* * * * * *
19296 TAAAAAAGTATCGATCCATATCAATATAACATGTAAAAATATCGATAAAACCTGTCA-CGAAAAG
1 TAAAAATGTATCGATCCACAACGATATAACATGTAAAAATAT-GATAAAACCGGT-ATCGAAATG
* * **
19360 ATAATACCGATAAA-TCCTTACCGGATATATTGAACA-TGTCGATACTTTAATATAAGGATCGAC
64 ATAAAACCGGTAAAGAGC-TACCGGATATATTGAA-AGTGTCGATACTTTAATATAAGGATCGAC
19423 ACTTTGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATAC-TTA
127 ACTTTGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTTA
*
19478 TAAAAATGTATCGATCCACAACGATAT-ACATGTAAAAATATGACAAAAACCGGTATCGAAATGA
1 TAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGA-TAAAACCGGTATCGAAATGA
* * * *
19542 TAAAACCGGTAAAGAGCTACCGGATATTTTTAAAGTGTCGGTACTTTAATATAAGTATCGACACT
65 TAAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACT
* *
19607 TTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATATAGTGTCGATACTTTA
130 TTGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTTA
* * *
19660 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCGAAATGAT
* *
19725 AAAACCCGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT
66 AAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTT
19771 CATAAGTACG
Statistics
Matches: 261, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
180 4 0.02
181 129 0.49
182 113 0.43
183 15 0.06
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (182 bp):
TAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCGAAATGAT
AAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
TGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTTA
Found at i:19714 original size:20 final size:20
Alignment explanation
Indices: 19691--19729 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19681 CGATATAACA
19691 GGTA-AAAATATGATAAAACT
1 GGTATAAAA-ATGATAAAACT
*
19711 GGTATCAAAATGATAAAAC
1 GGTATAAAAATGATAAAAC
19730 CCGTAAAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (20 bp):
GGTATAAAAATGATAAAACT
Found at i:21561 original size:19 final size:22
Alignment explanation
Indices: 21513--21572 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
21503 TTTTTTGTGC
21513 TTTTATATAAAATGATAGTATAA
1 TTTTATATAAAAT-ATAGTATAA
21536 TTATTATATAAAAT-TA-TA-AA
1 TT-TTATATAAAATATAGTATAA
21556 TTTTAT-TATAAATATAG
1 TTTTATATA-AAATATAG
21573 GTTGCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 6 0.18
21 2 0.06
22 2 0.06
23 2 0.06
24 11 0.33
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTTATATAAAATATAGTATAA
Found at i:21968 original size:21 final size:21
Alignment explanation
Indices: 21944--21987 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
21934 AAGATAATTA
*
21944 AGAGTTGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
21965 AGAGTCGAAGATATACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
21986 AG
1 AG
21988 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.32, T:0.20
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:22058 original size:33 final size:33
Alignment explanation
Indices: 22021--22086 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
22011 AAATAGATGG
* *
22021 AGTGGTAAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTAAAAGAAGTAGAGGTGTTAAGAGGTGA
* *
22054 AGTGGTGAAAGAAGTTGAGGTGTTAAGAGGTGA
1 AGTGGTAAAAGAAGTAGAGGTGTTAAGAGGTGA
22087 TCTTAAGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (33 bp):
AGTGGTAAAAGAAGTAGAGGTGTTAAGAGGTGA
Found at i:23265 original size:18 final size:17
Alignment explanation
Indices: 23223--23267 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
23213 ATGTAAATTA
23223 TAATGCATAATTTTTTT
1 TAATGCATAATTTTTTT
**
23240 GGAT-CATAACTTTTTTT
1 TAATGCATAA-TTTTTTT
23257 TAATGCATAAT
1 TAATGCATAAT
23268 AAAATATTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
16 5 0.23
17 12 0.55
18 5 0.23
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (17 bp):
TAATGCATAATTTTTTT
Found at i:23805 original size:19 final size:19
Alignment explanation
Indices: 23778--23823 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
23768 GTAGGGTTAT
*
23778 TTTTTTATAAGATTTATAA
1 TTTTGTATAAGATTTATAA
23797 TTTTGTATAAGATTTATAA
1 TTTTGTATAAGATTTATAA
23816 TTTTGTAT
1 TTTTGTAT
23824 GTGAATGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (19 bp):
TTTTGTATAAGATTTATAA
Found at i:24461 original size:200 final size:201
Alignment explanation
Indices: 24111--25206 Score: 1668
Period size: 201 Copynumber: 5.6 Consensus size: 201
24101 CATATGCATT
* * *
24111 CATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGAG
1 CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
* * *
24176 AATAGGTCTACAACATGTATCGACACATTTTTAATTTTGTGTCGATACTTTTGGTCTAGAATGGA
66 AATAAGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGGA
*
24241 TGACAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATC
131 TGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATC
24306 AAAACC
196 AAAACC
24312 CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
1 CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
* * * *
24377 -ATAGGTCAACAACATGTATCGATACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAA
66 AATAAGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGGA
* *
24441 TGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGCCGACCCCAAAAACATC
131 TGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATC
24506 AAAACC
196 AAAACC
* *
24512 CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATATCAGTTTTATGAGAG
1 CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
* *
24577 AATAAGTCTACAATATGTATCGACACTTTTTTAATTTTGTGTCGATATTTTTGGTCCAGAATGGA
66 AATAAGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGGA
* *
24642 TGCCAAAAAGGGTGAACGCATAAAGTGTCGAT-C----CCAAAAA---T--AT--C-GAAAC-T-
131 TGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATC
24692 ------
196 AAAACC
* * *
24692 CATAATTATAATGTAATATGTAAATTTACAATGTAATCGGTATAAATATACCAGTTTTATGAGAG
1 CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
* *
24757 AATAGGTCTACAACATGTATCAACACTTTTTTAATTTT-TGTCGATACTTTTGGTCCAGAATGGA
66 AATAAGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGGA
24821 TGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATC
131 TGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATC
*
24886 GAAACC
196 AAAACC
24892 CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
1 CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
* *
24957 AATAAGTCTACAACATGTAGCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAA
66 AATAAGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGGA
* * *
25022 TGCCAAAAAGGGTGCAAC-CATAAAGTGTCGATACATTTAT-AAAAAGTATCGATCCTAGAAACA
131 TGCCAAAAAGGGTG-AACGCATAAAGTGTCGATACATTT-TCAAAAAGTGTCGATCCCAAAAACA
** *
25085 T-ATGCATC
194 TCA-AAACC
*
25093 CATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
1 CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
*
25158 AATAAGTCTACAACATGTAGCGACACTTTTTTAATTTTGTGTCGATACT
66 AATAAGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACT
25207 AATTCAAATA
Statistics
Matches: 822, Mismatches: 47, Indels: 52
0.89 0.05 0.06
Matches are distributed among these distances:
179 57 0.07
180 98 0.12
184 6 0.01
187 2 0.00
188 4 0.00
189 3 0.00
191 2 0.00
192 4 0.00
193 1 0.00
196 6 0.01
200 288 0.35
201 347 0.42
202 4 0.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (201 bp):
CATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAG
AATAAGTCTACAACATGTATCGACACTTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGGA
TGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATC
AAAACC
Found at i:24908 original size:180 final size:179
Alignment explanation
Indices: 24483--24852 Score: 562
Period size: 180 Copynumber: 2.1 Consensus size: 179
24473 ACATTTTCAA
* * * * ***
24483 AAAGTGCCGACCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTGTCGATCCCAAAAATATCGAAACCCATAA-TATAATGTAATACCCAAATTTACAATGTAA
* * * *
24548 CCGGTATAAATATATCAGTTTTATGAGAGAATAAGTCTACAATATGTATCGACACTTTTTTAATT
65 TCGGTATAAATATACCAGTTTTATGAGAGAATAAGTCTACAACATGTATCAACACTTTTTTAATT
*
24613 TTGTGTCGATATTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
130 TTGTGTCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
* ***
24663 AAAGTGTCGATCCCAAAAATATCGAAACTCATAATTATAATGTAATATGTAAATTTACAATGTAA
1 AAAGTGTCGATCCCAAAAATATCGAAACCCATAA-TATAATGTAATACCCAAATTTACAATGTAA
*
24728 TCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTTAATT
65 TCGGTATAAATATACCAGTTTTATGAGAGAATAAGTCTACAACATGTATCAACACTTTTTTAATT
24793 TT-TGTCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
130 TTGTGTCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
24842 AAAGTGTCGAT
1 AAAGTGTCGAT
24853 ACATTTTCAA
Statistics
Matches: 178, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
179 57 0.32
180 121 0.68
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (179 bp):
AAAGTGTCGATCCCAAAAATATCGAAACCCATAATATAATGTAATACCCAAATTTACAATGTAAT
CGGTATAAATATACCAGTTTTATGAGAGAATAAGTCTACAACATGTATCAACACTTTTTTAATTT
TGTGTCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCAT
Found at i:24984 original size:380 final size:381
Alignment explanation
Indices: 24283--25206 Score: 1413
Period size: 380 Copynumber: 2.4 Consensus size: 381
24273 ACATTTTCAA
* * *
24283 AAAGTGTCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTGTCGATCCCAAAAATATCGAAACTCATAATTATAATGTAATAGGTAAATTTACAATGTAA
* *
24348 CCGGTATAAATATACCGGTTTTATGAGAG-ATAGGTCAACAACATGTATCGATACTTTTTTAATT
66 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATT
24412 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACAT
131 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACAT
24477 TTTCAAAAAGTGCCGACCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACA
196 TTTCAAAAAGTGCCGACCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACA
* * *
24542 ATGTAACCGGTATAAATATATCAGTTTTATGAGAGAATAAGTCTACAATATGTATCGACACTTTT
261 ATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAAGTCTACAACATGTAGCGACACTTTT
* *
24607 TTAATTTTGTGTCGATATTTTTGGTCCAGAATGGATGCCAAAAAGGGTG-AACGCAT
326 TTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAAC-CAT
*
24663 AAAGTGTCGATCCCAAAAATATCGAAACTCATAATTATAATGTAATATGTAAATTTACAATGTAA
1 AAAGTGTCGATCCCAAAAATATCGAAACTCATAATTATAATGTAATAGGTAAATTTACAATGTAA
* * *
24728 TCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTTAATT
66 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATT
*
24793 TT-TGTCGATACTTTTGGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACAT
131 TTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACAT
* * *
24857 TTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACA
196 TTTCAAAAAGTGCCGACCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACA
*
24922 ATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAAGTCTACAACATGTAGCGACACTTTT
261 ATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAAGTCTACAACATGTAGCGACACTTTT
24987 TTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCAT
326 TTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCAT
** *
25043 AAAGTGTCGATACATTTATAAAAAGTATCGATCCTAGAAACATATGCATCCATAAGTATAATGTA
1 AAAGTGTCGAT-C-----CCAAAA--AT--AT-C--G--A-A-A--C-T-CATAATTATAATGTA
*
25108 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAAGTCTACAACA
45 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACA
*
25173 TGTAGCGACACTTTTTTAATTTTGTGTCGATACT
110 TGTATCGACACTTTTTTAATTTTGTGTCGATACT
25207 AATTCAAATA
Statistics
Matches: 492, Mismatches: 28, Indels: 26
0.90 0.05 0.05
Matches are distributed among these distances:
380 333 0.68
381 38 0.08
386 4 0.01
388 2 0.00
390 2 0.00
391 1 0.00
393 1 0.00
395 1 0.00
396 1 0.00
397 1 0.00
399 1 0.00
400 1 0.00
401 96 0.20
402 10 0.02
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (381 bp):
AAAGTGTCGATCCCAAAAATATCGAAACTCATAATTATAATGTAATAGGTAAATTTACAATGTAA
CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATT
TTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACAT
TTTCAAAAAGTGCCGACCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACA
ATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAAGTCTACAACATGTAGCGACACTTTT
TTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCAT
Found at i:26697 original size:18 final size:18
Alignment explanation
Indices: 26656--26691 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26646 ACCAAGCGGT
*
26656 CAATAAAGATGACGATGA
1 CAATGAAGATGACGATGA
*
26674 CAATGAAGATTACGATGA
1 CAATGAAGATGACGATGA
26692 TGATGATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.19
Consensus pattern (18 bp):
CAATGAAGATGACGATGA
Found at i:30136 original size:200 final size:199
Alignment explanation
Indices: 29736--30440 Score: 682
Period size: 200 Copynumber: 3.5 Consensus size: 199
29726 ACCTAAATAT
* *
29736 GTGTCGATACATTT-TATACAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAAAC--CGAAACCAATAATTATAATGTAA
* * *
29799 TAGGTAAATTAACAATGTAACCGATATAAATATACCGG-TTAATTAGAAAATAGGTCAACATAAT
63 TAGGTAAATTTACAATGTAA-CGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAAT
* * * * * *
29863 GTATCGACACTTGTGTAATTTGTGTCGATACTTATTGTCTAGGATGAATGCACAAACGAGGTGCA
127 ATATCGACACTTGTGAAATTTGTGTCGATACTTATTGTCCAGAATGAATCCACAAAAGAGGTGCA
**
29928 TGCATAAA
192 ACCATAAA
*
29936 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAATACCGAAACCAATAATTATAATGTATTA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAA-ACCGAAACCAATAATTATAATGTAATA
* *
30001 GGTAAATTTACAATGTAACTGATATAAATATACCGGTTTTATGATAAAATAGGTCAGCATCAA-A
65 GGTAAATTTACAATGTAAC-GATATAAATATACCGGTTTTATGAGAAAATAGGTCAACAT-AATA
30065 TATCGACACTTGCT-AAATTTGTGTCGATACTT-TTGGTCCAGAATGAATACCA-AAAAG-GGTG
128 TATCGACACTTG-TGAAATTTGTGTCGATACTTATT-GTCCAGAATGAAT-CCACAAAAGAGGTG
30126 CAACCATAAA
190 CAACCATAAA
* * * * * *
30136 GTGTCGATACATTTATAAAAAGTATCGATCCCGGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCC-AAAAAACCGAAACCAATAATTATAATGTAATA
* * * *
30201 GGTAAATTTTCAATGTAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAA-ATAATG
65 GGTAAATTTACAATGTAACGA-TATAAATATACCGGTTTTATGAGAAAATAGGTC-AACATAATA
* * * * * ** * **
30265 TATCGACTCGTTAT-TAGTTTGTGTCGATACTT-TTTTCCAGAATGAAATATGAATGCCCAACCA
128 TATCGACAC-TTGTGAAATTTGTGTCGATACTTATTGTCCAGAATG--A-ATCCA---CAAAAGA
*
30328 GGTGCAAGCATAAA
186 GGTGCAACCATAAA
* * * * *
30342 GTGTCGATACATTTA--AAATTGTATCGAT-CTAAAAAACATCGTAACCGATAATAATAATGTAA
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAAAC--CGAAACCAATAATTATAATGTAA
* * * *
30404 TAGGTAAATTTGCAAAGTTACCGGTATAAATATACCG
63 TAGGTAAATTTACAATG-TAACGATATAAATATACCG
30441 ATTTACTTCA
Statistics
Matches: 425, Mismatches: 54, Indels: 47
0.81 0.10 0.09
Matches are distributed among these distances:
199 13 0.03
200 227 0.53
201 80 0.19
202 9 0.02
203 4 0.01
204 4 0.01
205 57 0.13
206 31 0.07
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAACCGAAACCAATAATTATAATGTAATAG
GTAAATTTACAATGTAACGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATATAT
CGACACTTGTGAAATTTGTGTCGATACTTATTGTCCAGAATGAATCCACAAAAGAGGTGCAACCA
TAAA
Found at i:30619 original size:23 final size:23
Alignment explanation
Indices: 30546--30610 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
30536 TGCCTATTTT
30546 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
30569 ATTATATAAGCACTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
30592 ATTATATAAGCGCTACCTA
1 ATTATATAAGCGCTACCTA
30611 ATATGTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:30825 original size:2 final size:2
Alignment explanation
Indices: 30818--30844 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30808 TAAATATCAC
30818 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
30845 TATTTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36447 original size:20 final size:21
Alignment explanation
Indices: 36407--36451 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
36397 ATTACAACTC
*
36407 TAAATTTTAAGTATCAAATAT
1 TAAATTTTAACTATCAAATAT
*
36428 TAAATTTTGACTAT-AAATAT
1 TAAATTTTAACTATCAAATAT
36448 TAAA
1 TAAA
36452 CGATAAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
TAAATTTTAACTATCAAATAT
Found at i:39538 original size:17 final size:17
Alignment explanation
Indices: 39516--39550 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
39506 AGAAAGACTT
39516 ATAATAATAATGAGATA
1 ATAATAATAATGAGATA
*
39533 ATAATAATTATGAGATA
1 ATAATAATAATGAGATA
39550 A
1 A
39551 CCATAAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (17 bp):
ATAATAATAATGAGATA
Found at i:39556 original size:17 final size:17
Alignment explanation
Indices: 39518--39556 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
39508 AAAGACTTAT
*
39518 AATAATAATGAGATAAT
1 AATAATAATGAGATAAC
*
39535 AATAATTATGAGATAAC
1 AATAATAATGAGATAAC
*
39552 CATAA
1 AATAA
39557 GAGGCTTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.28
Consensus pattern (17 bp):
AATAATAATGAGATAAC
Found at i:43579 original size:13 final size:13
Alignment explanation
Indices: 43561--43588 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43551 AACTTTATTC
43561 AATCATAACATGT
1 AATCATAACATGT
43574 AATCATAACATGT
1 AATCATAACATGT
43587 AA
1 AA
43589 ATATGCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AATCATAACATGT
Found at i:43645 original size:18 final size:18
Alignment explanation
Indices: 43622--43666 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
43612 TAGTTTGCTT
43622 AATGAACTAACATTATTC
1 AATGAACTAACATTATTC
*
43640 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
43658 AATGAACTA
1 AATGAACTA
43667 GATGTATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:47709 original size:18 final size:18
Alignment explanation
Indices: 47686--47730 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
47676 TAGTTTGATT
47686 AATGAACTAACATTATTC
1 AATGAACTAACATTATTC
*
47704 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
47722 AATGAACTA
1 AATGAACTA
47731 GATGCATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:50390 original size:21 final size:22
Alignment explanation
Indices: 50348--50390 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
50338 ATTAATGAAG
* *
50348 AAAATTTTGAGTTTTAAAAAAT
1 AAAATTTTGAATTCTAAAAAAT
*
50370 AAAA-TTTGAATTCTAAGAAAT
1 AAAATTTTGAATTCTAAAAAAT
50391 TTAGAGTGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.37
Consensus pattern (22 bp):
AAAATTTTGAATTCTAAAAAAT
Found at i:59915 original size:23 final size:21
Alignment explanation
Indices: 59864--59904 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59854 TTTGCATTTT
*
59864 TTTAATTTAGTCTTTTTTAAG
1 TTTAATTTAGTCTCTTTTAAG
*
59885 TTTAATTTATTCTCTTTTAA
1 TTTAATTTAGTCTCTTTTAA
59905 TTTGATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTAATTTAGTCTCTTTTAAG
Found at i:59976 original size:14 final size:13
Alignment explanation
Indices: 59952--59986 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
59942 CATGTTTATT
59952 TTATTTTATTTTA
1 TTATTTTATTTTA
59965 TTATTGTTATTTTA
1 TTATT-TTATTTTA
59979 TTATTTTA
1 TTATTTTA
59987 ATTATGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:71605 original size:66 final size:66
Alignment explanation
Indices: 71436--71746 Score: 340
Period size: 67 Copynumber: 4.6 Consensus size: 66
71426 TTCCTTTTTG
* * * *
71436 AACAAAGTTTGTCTCTTTTGAGACAGTTTCTCTTAAAACCAAAATATTTGCATATGTTTCCCTTG
1 AACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACCAAAATATTTGAATATGTTTCCCTTG
71501 A
66 A
* * *
71502 AACAAAATTTTGTCTATCTTGAGACAGTTTCTCTTGAAACCAAAATCTTTGAATCTGTTTCCCTT
1 AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACCAAAATATTTGAATATGTTTCCCTT
71567 GA
65 GA
* * *
71569 AACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACGTAAAATATTTGAATTTGTTTCCCTT
1 AACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-CAAAATATTTGAATATGTTTCCCTT
71634 GA
65 GA
* * * * *
71636 AACAAATTTTGTCT-TCCTTGAGATAGTTTCCCTTGAAA-CAAATTTTGTCTTCATTGAGACA-G
1 AACAAATTTTGTCTCT-CTTGAGACAGTTTCTCTTGAAACCAAA----AT-AT--TTGA-ATATG
71698 TTTCCCTTGA
57 TTTCCCTTGA
* * *
71708 AACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAAC
1 AACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
71747 AAATTTTGTC
Statistics
Matches: 211, Mismatches: 21, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
65 3 0.01
66 38 0.18
67 116 0.55
69 1 0.00
70 1 0.00
72 51 0.24
73 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (66 bp):
AACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACCAAAATATTTGAATATGTTTCCCTTG
A
Found at i:71664 original size:133 final size:134
Alignment explanation
Indices: 71436--71746 Score: 373
Period size: 133 Copynumber: 2.3 Consensus size: 134
71426 TTCCTTTTTG
* * *
71436 AACAAAGTTTGTCTCTTTTGAGACAGTTTCTCTTAAAACCAAAATATTTGCATATGTTTCCCTTG
1 AACAAA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACCAAAATATTTGAATATGTTTCCCTTG
* *
71501 AAACAAAATTTTGTCTATCTTGAGACAGTTTCTCTTGAAACCAAA-ATC-T-TTGA-ATCTGTTT
65 AAACAAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAA-CAAATATCTTATTGAGA-CAGTTT
71562 CCCTTGA
128 CCCTTGA
* *
71569 AACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACGTAAAATATTTGAATTTGTTTCCCTT
1 AACAAATTT-GTCTCTCTTGAGACAGTTTCTCTTGAAAC-CAAAATATTTGAATATGTTTCCCTT
* *
71634 GAAAC-AAATTTTGTCT-TCCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTTCATTGAGACA
64 GAAACAAAATTTTGTCTAT-CTTGAGACAGTTTCCCTTGAAACAAA---TATCTT-ATTGAGACA
71697 GTTTCCCTTGA
124 GTTTCCCTTGA
* * *
71708 AACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAAC
1 AACAAA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
71747 AAATTTTGTC
Statistics
Matches: 154, Mismatches: 12, Indels: 18
0.84 0.07 0.10
Matches are distributed among these distances:
132 8 0.05
133 64 0.42
134 27 0.18
136 2 0.01
137 1 0.01
139 48 0.31
140 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (134 bp):
AACAAATTTGTCTCTCTTGAGACAGTTTCTCTTGAAACCAAAATATTTGAATATGTTTCCCTTGA
AACAAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATATCTTATTGAGACAGTTTCCC
TTGA
Found at i:71672 original size:36 final size:36
Alignment explanation
Indices: 71625--71820 Score: 320
Period size: 36 Copynumber: 5.4 Consensus size: 36
71615 ATTTGAATTT
* *
71625 GTTTCCCTTGAAACAAATTTTGTCTTCCTTGAGATA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
71661 GTTTCCCTTGAAACAAATTTTGTCTTCATTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
*
71697 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
*
71733 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
71769 GTTTCTCTTTAAACAAATTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
71805 GTTTCCCTTGAAACAA
1 GTTTCCCTTGAAACAA
71821 CCTTAACTTG
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 149 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:71726 original size:21 final size:21
Alignment explanation
Indices: 71700--71800 Score: 64
Period size: 21 Copynumber: 5.4 Consensus size: 21
71690 TGAGACAGTT
71700 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* * *
71721 TCCCTTG----AGA--TAGTT
1 TCCCTTGAAACAAATTTTGTC
71736 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* *
71757 TCCCTTG--AGAAA-GTT-TC
1 TCCCTTGAAACAAATTTTGTC
*
71774 T--CTTTAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
71793 TCCCTTGA
1 TCCCTTGA
71801 GACAGTTTCC
Statistics
Matches: 56, Mismatches: 12, Indels: 24
0.61 0.13 0.26
Matches are distributed among these distances:
15 13 0.23
17 9 0.16
18 4 0.07
19 9 0.16
21 21 0.38
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.40
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:73448 original size:21 final size:21
Alignment explanation
Indices: 73410--73449 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
73400 GTTTGCATTT
*
73410 TTTAATTTAGCCTTTTTTATG
1 TTTAATTTAGCCTCTTTTATG
**
73431 TTTAATTTATTCTCTTTTA
1 TTTAATTTAGCCTCTTTTA
73450 ACTTAGTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTAATTTAGCCTCTTTTATG
Found at i:73516 original size:18 final size:18
Alignment explanation
Indices: 73493--73531 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
73483 CAATGCATGT
*
73493 TTATTTTATTTTAT-TTTA
1 TTATTTTA-ATTATGTTTA
73511 TTATTTTAATTATGTTTA
1 TTATTTTAATTATGTTTA
73529 TTA
1 TTA
73532 ATTGTTTCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTATTTTAATTATGTTTA
Found at i:77463 original size:105 final size:105
Alignment explanation
Indices: 77281--77493 Score: 426
Period size: 105 Copynumber: 2.0 Consensus size: 105
77271 ACGTGATTCT
77281 TATAGTATCCCTTAACAAGAAGAATGGTGAAGAAATCATCATCAGATGTGAGGTATTGACCTTGA
1 TATAGTATCCCTTAACAAGAAGAATGGTGAAGAAATCATCATCAGATGTGAGGTATTGACCTTGA
77346 CTTCTTGCCCAGTTTACATATTGTTTCTTTCCTCCAAAGC
66 CTTCTTGCCCAGTTTACATATTGTTTCTTTCCTCCAAAGC
77386 TATAGTATCCCTTAACAAGAAGAATGGTGAAGAAATCATCATCAGATGTGAGGTATTGACCTTGA
1 TATAGTATCCCTTAACAAGAAGAATGGTGAAGAAATCATCATCAGATGTGAGGTATTGACCTTGA
77451 CTTCTTGCCCAGTTTACATATTGTTTCTTTCCTCCAAAGC
66 CTTCTTGCCCAGTTTACATATTGTTTCTTTCCTCCAAAGC
77491 TAT
1 TAT
77494 CATAGTTATT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 108 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (105 bp):
TATAGTATCCCTTAACAAGAAGAATGGTGAAGAAATCATCATCAGATGTGAGGTATTGACCTTGA
CTTCTTGCCCAGTTTACATATTGTTTCTTTCCTCCAAAGC
Found at i:79414 original size:23 final size:23
Alignment explanation
Indices: 79388--79435 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
79378 TGTTACATTC
*
79388 CATGAACCAACCAAACACTCCCT
1 CATGAACCAACCAAACACCCCCT
79411 CATGAACCAACCAAACACCCCCT
1 CATGAACCAACCAAACACCCCCT
79434 CA
1 CA
79436 AGTACATCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.46, G:0.04, T:0.10
Consensus pattern (23 bp):
CATGAACCAACCAAACACCCCCT
Found at i:83468 original size:7 final size:7
Alignment explanation
Indices: 83456--83503 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
83446 TTAGAATTAT
83456 AATTTTA
1 AATTTTA
83463 AATTTTA
1 AATTTTA
83470 AATTTTA
1 AATTTTA
*
83477 AATTATA
1 AATTTTA
*
83484 AATTATAA
1 AATT-TTA
83492 AATTTTA
1 AATTTTA
83499 AATTT
1 AATTT
83504 ATATAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATTTTA
Found at i:83485 original size:14 final size:14
Alignment explanation
Indices: 83445--83503 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
83435 GATATTAAGA
83445 TTTAGAATTAT-AAT
1 TTTA-AATTATAAAT
*
83459 TTTAAATTTTAAAT
1 TTTAAATTATAAAT
83473 TTTAAATTATAAAT
1 TTTAAATTATAAAT
* *
83487 TATAAAATTTTAAAT
1 T-TTAAATTATAAAT
83502 TT
1 TT
83504 ATATAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 5 0.13
14 22 0.56
15 12 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TTTAAATTATAAAT
Found at i:83512 original size:21 final size:22
Alignment explanation
Indices: 83469--83520 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
83459 TTTAAATTTT
*
83469 AAATTTTAAATTATAAATTATA
1 AAATTTTAAATTATAAATAATA
*
83491 AAATTTTAAATT-TATATAATA
1 AAATTTTAAATTATAAATAATA
83512 AATATTTTA
1 AA-ATTTTA
83521 TCATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATTTTAAATTATAAATAATA
Found at i:95337 original size:23 final size:23
Alignment explanation
Indices: 95311--95396 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
95301 ATTATTATAT
* *
95311 GGCACTTCGGTGCATTTCTATTC
1 GGCACTACGGTGCATTTCTACTC
*
95334 GGCACTACGGTGCATTTCTACAC
1 GGCACTACGGTGCATTTCTACTC
*
95357 GGCACTACGGTGCAATTCTACGT-
1 GGCACTACGGTGCATTTCTAC-TC
**
95380 GGCACTTTGGTGCATTT
1 GGCACTACGGTGCATTT
95397 ATACGAGCTG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACTC
Found at i:98085 original size:16 final size:16
Alignment explanation
Indices: 98064--98106 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
98054 GAAAATTAAA
98064 GATTGATAAGGAATTT
1 GATTGATAAGGAATTT
* *
98080 GATTGATTAATGATTTT
1 GATTGA-TAAGGAATTT
*
98097 GAGTGATAAG
1 GATTGATAAG
98107 AACTGATGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (16 bp):
GATTGATAAGGAATTT
Found at i:98986 original size:22 final size:22
Alignment explanation
Indices: 98960--99002 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
98950 TTTTGGGCTA
*
98960 GGGGAATCGGTACCCATTCAAG
1 GGGGAATCGATACCCATTCAAG
*
98982 GGGGAATCGATACCCCTTCAA
1 GGGGAATCGATACCCATTCAA
99003 ACGAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.19
Consensus pattern (22 bp):
GGGGAATCGATACCCATTCAAG
Found at i:100409 original size:23 final size:23
Alignment explanation
Indices: 100383--100466 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
100373 TATTATATGA
* *
100383 CACTTCGGTGCATTTCTATTCGG
1 CACTACGGTGCATTTCTACTCGG
* *
100406 CACTACGGTGTATTTCTACACGG
1 CACTACGGTGCATTTCTACTCGG
*
100429 CACTACGGTGCAATTCTACGT-GG
1 CACTACGGTGCATTTCTAC-TCGG
**
100452 CACTTTGGTGCATTT
1 CACTACGGTGCATTT
100467 ATACGAGCTG
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (23 bp):
CACTACGGTGCATTTCTACTCGG
Done.