Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006141.1 Hibiscus syriacus cultivar Beakdansim tig00014571_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: 46607
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:4064 original size:18 final size:18
Alignment explanation
Indices: 4041--4083 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
4031 AAATGTAGGT
4041 TAATTTGAATAAGATTTA
1 TAATTTGAATAAGATTTA
* *
4059 TAATTTTGTATACGATTTA
1 TAA-TTTGAATAAGATTTA
4078 TAATTT
1 TAATTT
4084 TGTATGTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (18 bp):
TAATTTGAATAAGATTTA
Found at i:4648 original size:199 final size:199
Alignment explanation
Indices: 4179--6512 Score: 3986
Period size: 199 Copynumber: 11.9 Consensus size: 199
4169 ATACACATTA
*
4179 AGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACC-
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
4243 AAA-TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG-A
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT-TACCGGTTTTATGAGAGAA
*
4306 TAT-TCTAAA-ATATG-GATCGATACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
130 TATGTCTAAATA-ATGTG-TCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
4368 GGAAAAC
193 GGAAAAC
* *
4375 AGGGTGCAACCATAAA--GTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCAAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
*
4438 AAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAG-TACCGGTTTTATGAGAGAAT
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTACCGGTTTTATGAGAGAAT
4502 ATGTCTAAAT-ATGTGTCGACACTTTTTTAGTTTGTGTGTCGATATTTTTGGTCCAGAATGAATG
131 ATGTCTAAATAATGTGTCGACACTTTTTTAG-TT-TGTGTCGATATTTTTGGTCCAGAATGAATG
4566 GAAAAC
194 GAAAAC
4572 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
*
4637 AAAGTATAATGTAATATGT-AGTTTTCAATCTAACCGGTACAAGTATA-CGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT-TACCGGTTTTATGAGAGAA
4700 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
130 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
4765 AAAAC
195 AAAAC
4770 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
*
4835 AAAGTATAATGTAATATGTAGTTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT-TACCGGTTTTATGAGAGAA
*
4900 TATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATA-TTTTGGTCCAGAATGAATGG
130 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
4964 AAAAC
195 AAAAC
4969 AGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCG-AAACC-
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
5031 -AA--A-AATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT-TACCGGTTTTATGAGAGAA
5092 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
130 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
5157 AAAAC
195 AAAAC
*
5162 AGGGTGCAACCATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACC-
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
*
5226 AAAGTATAATGTAATATGTAATTTTTC-ATATAACC-GTACAAGTATACCGGTTTTAT--GAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT-TACCGGTTTTATGAGAGAA
5287 TATGTCT-AATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
130 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
5351 AAAAC
195 AAAAC
*
5356 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
* *
5421 AAAGTATAATGTAATATGTAGTTTTTTCAATCTAACCAGTACAAGTTATACCGGTTTTATGAGAG
66 AAAGTATAATGTAATATGTA-ATTTTTCAATCTAACCGGTACAAG-T-TACCGGTTTTATGAGAG
* *
5486 AATATGTCT--A-AATGTATCGACAC-CTTTTAGTTT-TGTCGATATTTTTGGTCCAGAATGAAT
128 AATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
5546 GGAAAAC
193 GGAAAAC
5553 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGAT-CCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
*
5617 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAT
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT-TACCGGTTTTATGAGAGAA
5682 TATGTCTAAATAATGTGTCGACACTTTTTTAG-TT-TGTCGATATTTTTGGTCCAGAATGAATGG
130 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
5745 AAAAC
195 AAAAC
5750 AGGGTGCAACCAT-AAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
5813 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT-TACCGGTTTTATGAGAGAA
5878 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
130 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
5943 AAAAC
195 AAAAC
*
5948 AGGGTGCAACCATAAAGTGTCG-TCCATATATAAAACGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
6012 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT-TACCGGTTTTATGAGAGAA
* *
6077 TATGTCTAAATAATATGTCGACAC-CTTTT--TTTGTGTCGATATTTTTGGTCCAGAATGAATGG
130 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
6139 AAAAC
195 AAAAC
6144 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
6209 AAAGTAT-ATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTATACCGGTTTTATGAGAGA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAG-T-TACCGGTTTTATGAGAGA
*
6273 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTG-CGATAATTTTGGTCCAGAATGAATG
129 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
6337 GAAAAC
194 GAAAAC
* *
6343 AGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCAATCCTAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
6407 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT-TACCGGTTTTATGAGAGAA
6472 TATGTCT--A-AATGTGTCGACACTTTTTTAGTTTGTGTCGATA
130 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
6513 CTAATTTAAA
Statistics
Matches: 2055, Mismatches: 38, Indels: 90
0.94 0.02 0.04
Matches are distributed among these distances:
192 100 0.05
193 57 0.03
194 236 0.11
195 112 0.05
196 357 0.17
197 320 0.16
198 341 0.17
199 432 0.21
200 88 0.04
201 12 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (199 bp):
AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTACCGGTTTTATGAGAGAAT
ATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGA
AAAC
Found at i:6008 original size:395 final size:400
Alignment explanation
Indices: 4179--6512 Score: 4078
Period size: 395 Copynumber: 5.9 Consensus size: 400
4169 ATACACATTA
*
4179 AGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACC-
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
4243 AAA-TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG-A
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
*
4306 TAT-TCTAAA-ATATG-GATCGATACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
131 TATGTCTAAATA-ATGTG-TCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
* *
4368 GGAAAACAGGGTGCAACCATAAA--GTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCA
194 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
*
4431 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAG--TACCGGTTTTAT
259 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
4494 GAGAGAATATGTCTAAAT-ATGTGTCGACACTTTTTTAGTTTGTGTGTCGATATTTTTGGTCCAG
324 GAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAG-TT-TGTGTCGATATTTTTGGTCCAG
4558 AATGAATGGAAAAC
387 AATGAATGGAAAAC
4572 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
*
4637 AAAGTATAATGTAATATGT-AGTTTTCAATCTAACCGGTACAAGTATA-CGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
4700 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
4765 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
196 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
*
4830 AACCAAAAGTATAATGTAATATGTAGTTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
261 AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
*
4895 GAGAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATA-TTTTGGTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATG
4959 AATGGAAAAC
391 AATGGAAAAC
4969 AGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCG-AAACC-
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
5031 -AA--A-AATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
5092 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
*
5157 AAAACAGGGTGCAACCATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCCAAAAACATCGAA
196 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
*
5222 AACC-AAAGTATAATGTAATATGTAATTTTTC-ATATAACC-GTACAAGTATACCGGTTTTAT--
261 AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
5282 GAGAATATGTCT-AATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATG
5346 AATGGAAAAC
391 AATGGAAAAC
*
5356 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
* *
5421 AAAGTATAATGTAATATGTAGTTTTTTCAATCTAACCAGTACAAGTTATACCGGTTTTATGAGAG
66 AAAGTATAATGTAATATGTA-ATTTTTCAATCTAACCGGTACAAG-TATACCGGTTTTATGAGAG
* *
5486 AATATGTCT--A-AATGTATCGACAC-CTTTTAGTTT-TGTCGATATTTTTGGTCCAGAATGAAT
129 AATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
5546 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGAT-CCAAAAACATCG
194 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
5610 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
259 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
*
5675 GAGAGATTATGTCTAAATAATGTGTCGACACTTTTTTAG-TT-TGTCGATATTTTTGGTCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAA
5738 TGAATGGAAAAC
389 TGAATGGAAAAC
5750 AGGGTGCAACCAT-AAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
5813 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
5878 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
131 TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
*
5943 AAAACAGGGTGCAACCATAAAGTGTCG-TCCATATATAAAACGTGTCGATCCCAAAAACATCGAA
196 AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
6007 AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
261 AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
* *
6072 GAGAATATGTCTAAATAATATGTCGACAC-CTTTT--TTTGTGTCGATATTTTTGGTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATG
6134 AATGGAAAAC
391 AATGGAAAAC
6144 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
1 AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
6209 AAAGTAT-ATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTATACCGGTTTTATGAGAGA
66 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAG-TATACCGGTTTTATGAGAGA
*
6273 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTG-CGATAATTTTGGTCCAGAATGAATG
130 ATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATG
* *
6337 GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCAATCCTAAAAACATCGA
195 GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
6401 AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
260 AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
6466 AGAGAATATGTCT--A-AATGTGTCGACACTTTTTTAGTTTGTGTCGATA
325 AGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
6513 CTAATTTAAA
Statistics
Matches: 1861, Mismatches: 36, Indels: 86
0.94 0.02 0.04
Matches are distributed among these distances:
386 35 0.02
387 69 0.04
388 24 0.01
389 26 0.01
390 65 0.03
391 183 0.10
392 214 0.11
393 165 0.09
394 176 0.09
395 529 0.28
396 170 0.09
397 144 0.08
398 10 0.01
399 32 0.02
400 19 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (400 bp):
AGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAACCA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGG
AAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATG
AATGGAAAAC
Found at i:7967 original size:6 final size:6
Alignment explanation
Indices: 7956--8037 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
7946 CAAGCGGTCA
* * * * *
7956 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * *
8004 CTGACG ATGAAG ATGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
8038 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:7993 original size:3 final size:3
Alignment explanation
Indices: 7973--8041 Score: 75
Period size: 3 Copynumber: 23.0 Consensus size: 3
7963 TGAAGCTGAC
* * * * * * *
7973 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
8021 GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT
8042 CCAAACAAGT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:8008 original size:36 final size:36
Alignment explanation
Indices: 7956--8037 Score: 137
Period size: 36 Copynumber: 2.3 Consensus size: 36
7946 CAAGCGGTCA
7956 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
* *
7992 ATGACGATGAAGCTGACGATGAAGATGATGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
*
8028 ATGATGATGA
1 ATGAAGATGA
8038 TGATCCAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
Found at i:8030 original size:18 final size:18
Alignment explanation
Indices: 7956--8037 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 18
7946 CAAGCGGTCA
*
7956 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
* *
7974 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGACG
* *
7992 ATGACGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
* *
8010 ATGAAGATGATGATGATG
1 ATGAAGATGAAGATGACG
*
8028 ATGATGATGA
1 ATGAAGATGA
8038 TGATCCAAAC
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:8041 original size:12 final size:12
Alignment explanation
Indices: 7956--8037 Score: 101
Period size: 12 Copynumber: 6.8 Consensus size: 12
7946 CAAGCGGTCA
*
7956 ATGAAGATGAAG
1 ATGACGATGAAG
*
7968 CTGACGATGAAG
1 ATGACGATGAAG
*
7980 ATGACGATGATG
1 ATGACGATGAAG
7992 ATGACGATGAAG
1 ATGACGATGAAG
*
8004 CTGACGATGAAG
1 ATGACGATGAAG
* *
8016 ATGATGATGATG
1 ATGACGATGAAG
*
8028 ATGATGATGA
1 ATGACGATGA
8038 TGATCCAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 61 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:10052 original size:183 final size:183
Alignment explanation
Indices: 9244--10550 Score: 2261
Period size: 183 Copynumber: 7.1 Consensus size: 183
9234 CAAAGTTTTC
* * *
9244 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* * * *
9309 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCATAAGTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
9372 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
9428 ACACTTTCTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
9493 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
9556 TATAACCGATATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
9612 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
*
9676 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
65 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
9741 TAA-CGGTATAAATATACCGGTTTTATGAGCGAATAAGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
9794 ATACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
*
9858 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
65 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
9923 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
9977 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
10042 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTATAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
10107 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
10160 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
10225 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
10290 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
10343 ACACTTTCTAATATTGTGTTGGTACTTTATGTCCAGATTGGAAGAAAAATATGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
10408 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
10473 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTC-TACAACCTATATCG
10527 ACACGTTT-TAATATTGTGTCGGTA
1 ACAC-TTTCTAATATTGTGTCGGTA
10551 ATTTTAAGTA
Statistics
Matches: 1093, Mismatches: 23, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
182 178 0.16
183 624 0.57
184 285 0.26
185 3 0.00
186 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:13071 original size:25 final size:25
Alignment explanation
Indices: 13007--13071 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
12997 TTATCATTAA
*
13007 ATTTAGGTATGCACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
13032 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
13057 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
13072 TCTTTTGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:13445 original size:23 final size:23
Alignment explanation
Indices: 13414--13486 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
13404 ATAGGTAAAA
*
13414 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
13437 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
13460 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
13483 ATAT
1 ATAT
13487 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:13823 original size:490 final size:489
Alignment explanation
Indices: 13071--14142 Score: 2015
Period size: 490 Copynumber: 2.2 Consensus size: 489
13061 AGGTATATAC
13071 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
13136 GTTACG--GTATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
13198 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 GTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
13263 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
** *
13328 AAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAACAAAACATCGATCATTTTTATAAAAAGTATGGACA
13393 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
* *
13458 TTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAAGTGTTTAT
391 TTATATAATGTAATAGGTAGTGGTTATATTGTAAACTATCTATCCTTTTTAT-AAAAGTGTCTAT
* *
13523 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
455 ACTTTTTTCACGGTAGAAAACATTAATTTAAGGTT
13558 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
13623 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
13688 GTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 GTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
13753 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
13818 AAATTGAAACATAAATTACATAACTTTAAACAAAACATCGATCATTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAACAAAACATCGATCATTTTTATAAAAAGTATGGACA
13883 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
*
13948 TTATATAATGTAATATGTAGTGGTTATATTGTAAACTATCTATCCTTTTTATAAAAGTGTCTATA
391 TTATATAATGTAATAGGTAGTGGTTATATTGTAAACTATCTATCCTTTTTATAAAAGTGTCTATA
14013 CTTTTTTCACGGTAGAAAACATTAATTTAAGGTT
456 CTTTTTTCACGGTAGAAAACATTAATTTAAGGTT
*
14047 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTCAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
14112 GTTACGATATATATTATTATTAAATTAAAAA
66 GTTACGATATATATTATTATTAAATTAAAAA
14143 TTCTAAATAT
Statistics
Matches: 571, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
487 71 0.12
489 143 0.25
490 357 0.63
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (489 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
GTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAACAAAACATCGATCATTTTTATAAAAAGTATGGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
TTATATAATGTAATAGGTAGTGGTTATATTGTAAACTATCTATCCTTTTTATAAAAGTGTCTATA
CTTTTTTCACGGTAGAAAACATTAATTTAAGGTT
Found at i:13935 original size:23 final size:23
Alignment explanation
Indices: 13904--13976 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
13894 ATAGGTAAAA
*
13904 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
13927 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
13950 ATATAATGTAATATGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
13973 ATAT
1 ATAT
13977 TGTAAACTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:14366 original size:23 final size:23
Alignment explanation
Indices: 14335--14407 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
14325 ATAGGTAAAA
*
14335 ATATGATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
14358 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
* *
14381 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGTTT
14404 ATAT
1 ATAT
14408 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:14801 original size:23 final size:23
Alignment explanation
Indices: 14775--14839 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
14765 AAATATGATA
14775 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
*
14798 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
*
14821 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
14840 TGTAAAGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:14899 original size:432 final size:431
Alignment explanation
Indices: 13697--15005 Score: 2390
Period size: 431 Copynumber: 3.0 Consensus size: 431
13687 CGTTGGTTAA
* * *
13697 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTA
* *
13761 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAA
** *
13825 AACATAAATTACATAACTTTAAACA-AAACATCGATCATTTTTATAAAAAGTATGGACACTTTCA
131 AACATAAATTACATAACTTTAAA-AGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
*
13889 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
195 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATAT
* * * * *
13954 AATGTAATATGTAGTGGTTATATTGTAAACTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
260 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTT
* *
14019 TCACGGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
*
14084 TATAGGCGTCTAATGATTTATTTTTCACGTTACGATATATAT
390 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
*
14126 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTT
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTA
14191 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAA
14256 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
*
14321 TATAATAGGTAAAAATATGATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
14386 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTT
14451 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
14516 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
*
14557 TATTATTAAATTAAAAATTTTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTA
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTA
14622 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAATTA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAAATTA
14687 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
130 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
*
14752 ATATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATAT
195 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATAT
14817 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTT
260 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTT
14882 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
14947 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
390 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
14989 TATTATTAAATTAAAAA
1 TATTATTAAATTAAAAA
15006 CAATAAACAT
Statistics
Matches: 854, Mismatches: 22, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
429 11 0.01
430 103 0.12
431 412 0.48
432 328 0.38
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (431 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTA
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTAA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
Found at i:18296 original size:29 final size:26
Alignment explanation
Indices: 18243--18316 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 26
18233 AGAAGGGATT
* * *
18243 AGGTTTTTTTAGAAAATAGTCATTTA
1 AGGTTTTTTGAGAAATTAGACATTTA
* *
18269 AGGGGGTTTTTTGAGAAATTAGAGATTTT
1 A---GGTTTTTTGAGAAATTAGACATTTA
18298 AGGTTTTTTGAGAAATTAG
1 AGGTTTTTTGAGAAATTAG
18317 GAATTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 19 0.47
29 21 0.52
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.43
Consensus pattern (26 bp):
AGGTTTTTTGAGAAATTAGACATTTA
Found at i:23183 original size:44 final size:43
Alignment explanation
Indices: 23080--23204 Score: 146
Period size: 44 Copynumber: 2.9 Consensus size: 43
23070 ATAAAGGTTG
* *
23080 AAAATGAAATTAAAAAAATTAG-GCGTTTCAATTATAAAAATAA
1 AAAATGAAATTAAAAAAATTAGAG-ATTTAAATTATAAAAATAA
* * *
23123 AAATTGAGATTGAAAAAAATTAGAGAATTT-AATTATAAATATAA
1 AAAATGAAATT-AAAAAAATTAGAG-ATTTAAATTATAAAAATAA
* *
23167 AAAATAAAATTAAAAAATTTAGAGATTTAAATTATAAA
1 AAAATGAAATTAAAAAAATTAGAGATTTAAATTATAAA
23205 GGTAAAAAGT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 4 0.06
43 30 0.43
44 32 0.46
45 4 0.06
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (43 bp):
AAAATGAAATTAAAAAAATTAGAGATTTAAATTATAAAAATAA
Found at i:23211 original size:43 final size:43
Alignment explanation
Indices: 22986--23212 Score: 167
Period size: 43 Copynumber: 5.3 Consensus size: 43
22976 CTAAATGTTA
* * *
22986 AAAG-TAAAAAATGAGATTAAAATAAATTAGTGACA-TTAGTTAT
1 AAAGATAAAAAATGAAATTAAAA-AAATTAGAGA-ATTTAATTAT
* * * * * * *
23029 AAAGGTAAGAAATGATATTAAAAAAACTATA-AACCTCAATTAT
1 AAAGATAAAAAATGAAATTAAAAAAATTAGAGAA-TTTAATTAT
* ** **
23072 AAAGGTTGAAAATGAAATTAAAAAAATTAG-GCGTTTCAATTAT
1 AAAGATAAAAAATGAAATTAAAAAAATTAGAGAATTT-AATTAT
* * *
23115 AAAAATAAAAATTGAGATTGAAAAAAATTAGAGAATTTAATTAT
1 AAAGATAAAAAATGAAATT-AAAAAAATTAGAGAATTTAATTAT
* * *
23159 AAATATAAAAAATAAAATTAAAAAATTTAGAG-ATTTAAATTAT
1 AAAGATAAAAAATGAAATTAAAAAAATTAGAGAATTT-AATTAT
*
23202 AAAGGTAAAAA
1 AAAGATAAAAA
23213 GTGGGTATCA
Statistics
Matches: 144, Mismatches: 32, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 6 0.04
43 85 0.59
44 48 0.33
45 4 0.03
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (43 bp):
AAAGATAAAAAATGAAATTAAAAAAATTAGAGAATTTAATTAT
Found at i:25617 original size:64 final size:64
Alignment explanation
Indices: 25549--25707 Score: 232
Period size: 64 Copynumber: 2.5 Consensus size: 64
25539 GAATAAATTG
* *
25549 AACATCGAATGCATTTTATGCATCGATGCACATACCATGTATCGATACACTC-AGGTT-TTATGA
1 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGTATCGATACACTCGAGCTTGTT-TG-
25612 A
64 A
*
25613 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGTATCGATGCACTCGAGCTTGTTTGA
1 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGTATCGATACACTCGAGCTTGTTTGA
* * *
25677 AACATCGAATGCACTTCATGCACCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
25708 TCTTAGTGCA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
64 79 0.91
65 6 0.07
66 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACAGACCATGTATCGATACACTCGAGCTTGTTTGA
Found at i:25707 original size:17 final size:19
Alignment explanation
Indices: 25685--25727 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
25675 GAAACATCGA
25685 ATGCACT-TCA-TGCACCG
1 ATGCACTCTCAGTGCACCG
*
25702 ATGCACTCTTAGTGCACCG
1 ATGCACTCTCAGTGCACCG
25721 ATGCACT
1 ATGCACT
25728 AAGGGTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 2 0.09
19 14 0.61
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (19 bp):
ATGCACTCTCAGTGCACCG
Found at i:26225 original size:33 final size:33
Alignment explanation
Indices: 26188--26255 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
26178 GTTATCAAGA
* *
26188 ATTGGGATATATTCTTGAGGGAGTTGTAAGGTT
1 ATTGGGATATATTCTTGAAGGAGTTGTAAGATT
*
26221 ATTGGGGTATATTCTTGAAGGAGTTGTAAGATT
1 ATTGGGATATATTCTTGAAGGAGTTGTAAGATT
26254 AT
1 AT
26256 CTCTTTGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.03, G:0.31, T:0.40
Consensus pattern (33 bp):
ATTGGGATATATTCTTGAAGGAGTTGTAAGATT
Found at i:27354 original size:3 final size:3
Alignment explanation
Indices: 27340--27368 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
27330 TTTTACTTTG
27340 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27369 TATTTAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:36212 original size:30 final size:30
Alignment explanation
Indices: 36167--36224 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
36157 GGACTGGCAA
* * *
36167 TGAATCGGCTGAAAACCGGTAAAACCGGGG
1 TGAACCGGCTAAAAACCGGCAAAACCGGGG
36197 TGAACCGGCTAAAAACCGGCAAAACCGG
1 TGAACCGGCTAAAAACCGGCAAAACCGG
36225 TTTGAAACGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.29, T:0.10
Consensus pattern (30 bp):
TGAACCGGCTAAAAACCGGCAAAACCGGGG
Found at i:37122 original size:21 final size:21
Alignment explanation
Indices: 37096--37149 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
37086 GCGTTGCATT
37096 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
37117 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
37138 TCGCGTTGCGAT
1 TCGCGTTGCGAT
37150 TTTCCAGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:37163 original size:20 final size:20
Alignment explanation
Indices: 37138--37345 Score: 125
Period size: 20 Copynumber: 10.6 Consensus size: 20
37128 TAGTTGAAAA
*
37138 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAAT
37158 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCC-AAT
* * *
37179 T--CGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAAT
37199 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AAT
*
37220 T--CGTTGCGA------AAA
1 TCGCGTTGCGATTTTCCAAT
*
37232 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAAT
*
37252 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAAT
* ** *
37272 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCAAT
***
37293 TCGCGTTGCGATAGTTGAAAAT
1 TCGCGTTGCGAT--TTTCCAAT
*
37315 T-GCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAAT
37334 TCGCGTTGCGAT
1 TCGCGTTGCGAT
37346 AGTCTACAGT
Statistics
Matches: 146, Mismatches: 25, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
12 3 0.02
14 8 0.05
19 22 0.15
20 65 0.45
21 34 0.23
22 14 0.10
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAAT
Found at i:37169 original size:41 final size:40
Alignment explanation
Indices: 37117--37385 Score: 157
Period size: 41 Copynumber: 6.8 Consensus size: 40
37107 TAATTGAAAA
* **
37117 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGAT-TTTCCAAATCGCGTTGCGATTTTCCAGT
* * *
37158 TCGCGTTGCGATTTTCCAAAT-TCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGATTTTCCAAATCGCGTTGCGAT--TTTCCAGT
* **
37199 T-GTCGTTGCGATTTTCCAAAT-TCGTTGCGA------AAA
1 TCG-CGTTGCGATTTTCCAAATCGCGTTGCGATTTTCCAGT
**
37232 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAAATCGCGTTGCGATTTTCCAGT
* ** *** *
37272 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTTGAAAAT
1 TCGCGTTGCGAT-TTTCCAAATCGCGTTGCGAT--TTTCCAGT
** * *
37315 T-GCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGATTTTCCAAATCGCGTTGCGAT--TTTCCAGT
*
37356 T-GTCGTTGCGATTTTCCAAAT-TCGTTGCGA
1 TCG-CGTTGCGATTTTCCAAATCGCGTTGCGA
37386 AAATTCGTTG
Statistics
Matches: 179, Mismatches: 34, Indels: 30
0.74 0.14 0.12
Matches are distributed among these distances:
33 18 0.10
34 9 0.05
39 9 0.05
40 20 0.11
41 92 0.51
42 26 0.15
43 5 0.03
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (40 bp):
TCGCGTTGCGATTTTCCAAATCGCGTTGCGATTTTCCAGT
Found at i:37298 original size:21 final size:21
Alignment explanation
Indices: 37272--37325 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
37262 ATTTTCCAGT
37272 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
37293 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
37314 TTGCGTTGCGAT
1 TCGCGTTGCGAT
37326 TTTCCAGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:37300 original size:94 final size:94
Alignment explanation
Indices: 37133--37304 Score: 251
Period size: 94 Copynumber: 1.8 Consensus size: 94
37123 TGCGATAGTT
* *
37133 GAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAG
1 GAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTAAAA
*
37198 TTGTCGTTGCGATTTTCCAAATTCGTTGC
66 TCGTCGTTGCGATTTTCCAAATTCGTTGC
* *
37227 GAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCC-AGTTCGCGTTGCGATAGT-TGA
1 GAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAAATT--CGTTGCGATAGTCT-A
37290 AAATCG-CGTTGCGAT
63 AAATCGTCGTTGCGAT
37305 AGTTGAAAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
93 3 0.04
94 51 0.73
95 16 0.23
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (94 bp):
GAAAATCGCGTTGCGATTTTCCAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCTAAAA
TCGTCGTTGCGATTTTCCAAATTCGTTGC
Found at i:37377 original size:62 final size:61
Alignment explanation
Indices: 37227--37385 Score: 198
Period size: 62 Copynumber: 2.6 Consensus size: 61
37217 AATTCGTTGC
*
37227 GAAAATCGCGTTGCGATTTTCC-ATTTCGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTT
1 GAAAATCGCGTTGCGATTTTCCAAATT-GCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTT
* **
37288 GAAAATCGCGTTGCGATAGTTGAAAATTGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTCT
1 GAAAATCGCGTTGCGAT-TTTCCAAATTGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGT-T
* * *
37351 -ACAGTTGTCGTTGCGATTTTCCAAATT-CGTTGCGA
1 GAAAATCG-CGTTGCGATTTTCCAAATTGCGTTGCGA
37386 AAATTCGTTG
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
61 25 0.30
62 46 0.55
63 13 0.15
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (61 bp):
GAAAATCGCGTTGCGATTTTCCAAATTGCGTTGCGATTTTCCAGTTCGCGTTGCGATAGTT
Found at i:37492 original size:6 final size:6
Alignment explanation
Indices: 37481--37519 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
37471 GACACGTATT
37481 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
37520 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:38028 original size:6 final size:6
Alignment explanation
Indices: 38017--38055 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
38007 TCTCGTCTCG
38017 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
38056 AATACGTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:38183 original size:22 final size:22
Alignment explanation
Indices: 38154--38204 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
38144 AATTTGGAAA
*
38154 ATCGCAACGACAACTGTAGACT
1 ATCGCAACAACAACTGTAGACT
*
38176 TTCGCAACAACAACTGTAGACT
1 ATCGCAACAACAACTGTAGACT
38198 ATCGCAA
1 ATCGCAA
38205 TGAATTTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.20
Consensus pattern (22 bp):
ATCGCAACAACAACTGTAGACT
Found at i:38256 original size:41 final size:40
Alignment explanation
Indices: 38190--38266 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
38180 CAACAACAAC
* *
38190 TGTAGACTATCGCAATGAATTTGGAAAATCGCAACGACAT
1 TGTAGACTATCGCAACGAATATGGAAAATCGCAACGACAT
38230 TGTAGACTATCGCAACGCGAA-ATGGAAAATCGCAACG
1 TGTAGACTATCGCAA--CGAATATGGAAAATCGCAACG
38267 CGAAATGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 15 0.45
41 15 0.45
42 3 0.09
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (40 bp):
TGTAGACTATCGCAACGAATATGGAAAATCGCAACGACAT
Found at i:38263 original size:20 final size:20
Alignment explanation
Indices: 38238--38289 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
38228 ATTGTAGACT
38238 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
38258 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
38278 ATCGCAATGCGA
1 ATCGCAACGCGA
38290 TTTTCAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:44943 original size:15 final size:15
Alignment explanation
Indices: 44923--44962 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
44913 ATATTCCTAA
44923 AAAAATAATTTAAAT
1 AAAAATAATTTAAAT
44938 AAAAATAA-TTAAAT
1 AAAAATAATTTAAAT
* *
44952 ATATATAATTT
1 AAAAATAATTT
44963 TATAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAATAATTTAAAT
Found at i:45071 original size:24 final size:23
Alignment explanation
Indices: 45027--45073 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
45017 CATTTCTTAA
45027 TATTTAAAAATAAATAAATATAT
1 TATTTAAAAATAAATAAATATAT
* *
45050 TATTTAAACAATATATATATATAT
1 TATTTAAA-AATAAATAAATATAT
45074 GACTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTTAAAAATAAATAAATATAT
Found at i:45080 original size:24 final size:23
Alignment explanation
Indices: 45030--45080 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
45020 TTCTTAATAT
* *
45030 TTAAAAATAAATAAATATATTAT
1 TTAAAAATAAATAAATATATGAC
* *
45053 TTAAACAATATATATATATATGAC
1 TTAAA-AATAAATAAATATATGAC
45077 TTAA
1 TTAA
45081 TATGAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
TTAAAAATAAATAAATATATGAC
Found at i:45147 original size:23 final size:22
Alignment explanation
Indices: 45080--45144 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 22
45070 ATATGACTTA
*
45080 ATAT-GAAAATAATAATAAAAC
1 ATATCGAAAGTAATAATAAAAC
* * * *
45101 ATAACTAAAGTAACAATTTAAAC
1 ATATCGAAAGTAATAA-TAAAAC
45124 ATATCGAAAGTAATAATAAAA
1 ATATCGAAAGTAATAATAAAA
45145 ACAAATAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
21 3 0.09
22 12 0.36
23 18 0.55
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (22 bp):
ATATCGAAAGTAATAATAAAAC
Found at i:45196 original size:14 final size:14
Alignment explanation
Indices: 45177--45211 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
45167 AATGATCAAA
45177 ATAAAATTAAAATT
1 ATAAAATTAAAATT
*
45191 ATAAAATTAAATTT
1 ATAAAATTAAAATT
*
45205 GTAAAAT
1 ATAAAAT
45212 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
ATAAAATTAAAATT
Found at i:46463 original size:14 final size:14
Alignment explanation
Indices: 46444--46481 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46434 CTGGCCTGTA
*
46444 ATATATTTAATAAT
1 ATATATATAATAAT
46458 ATATATATAATAAT
1 ATATATATAATAAT
46472 A-ATA-ATAATA
1 ATATATATAATA
46482 TAATAAACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 6 0.26
13 3 0.13
14 14 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATAATAAT
Found at i:46484 original size:14 final size:17
Alignment explanation
Indices: 46451--46487 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
46441 GTAATATATT
46451 TAATAATATATATATAA
1 TAATAATATATATATAA
46468 TAATAATA-ATAATATAA
1 TAATAATATAT-ATATAA
46485 TAA
1 TAA
46488 ACGTAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATATATATATAA
Done.