Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004096.1 Hibiscus syriacus cultivar Beakdansim tig00008957_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: 961865
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:827867 original size:34 final size:33
Alignment explanation
Indices: 827762--827867 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
827752 GATAAATGTT
*
827762 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
827796 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
827828 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
827863 TTAAA
1 TTAAA
827868 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:828205 original size:33 final size:32
Alignment explanation
Indices: 828136--828206 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
828126 CACTTCACAT
* *
828136 TTATTCAATTTATCAATAACATTTTATCTAAT
1 TTATTCAAATTATCAATAACATTTTATCTAAG
* *
828168 TTATTCAAATT-TCACATAACGTTTTAATTTAAG
1 TTATTCAAATTATCA-ATAACATTTT-ATCTAAG
828201 TTATTC
1 TTATTC
828207 TTAACTTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.09
32 19 0.58
33 11 0.33
ACGTcount: A:0.35, C:0.13, G:0.03, T:0.49
Consensus pattern (32 bp):
TTATTCAAATTATCAATAACATTTTATCTAAG
Found at i:828723 original size:126 final size:126
Alignment explanation
Indices: 828248--829097 Score: 1633
Period size: 126 Copynumber: 6.8 Consensus size: 126
828238 TTTAAGTTAT
**
828248 TCCCCGAGGGACATGAGGGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828313 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828374 T-CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828438 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTG--ATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828497 T-CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828561 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828622 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828687 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828748 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACG-AATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828812 GCG-CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828872 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828937 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828998 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
829063 GCG-CCCCGGGAACGCGCCTTCACGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
829098 CCGATTATAG
Statistics
Matches: 717, Mismatches: 2, Indels: 11
0.98 0.00 0.02
Matches are distributed among these distances:
123 123 0.17
124 108 0.15
125 185 0.26
126 301 0.42
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (126 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:828930 original size:250 final size:252
Alignment explanation
Indices: 828248--829097 Score: 1633
Period size: 250 Copynumber: 3.4 Consensus size: 252
828238 TTTAAGTTAT
**
828248 TCCCCGAGGGACATGAGGGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828313 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGT-CC
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
828377 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
828442 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTG--ATATCTAGTG
196 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828497 T-CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828561 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
828626 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
828691 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
196 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828748 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACG-AATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828812 GCG-CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
828876 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
828941 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
196 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828998 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
829063 GCG-CCCCGGGAACGCGCCTTCACGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
829098 CCGATTATAG
Statistics
Matches: 594, Mismatches: 2, Indels: 8
0.98 0.00 0.01
Matches are distributed among these distances:
248 123 0.21
249 113 0.19
250 234 0.39
251 75 0.13
252 49 0.08
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (252 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:829011 original size:376 final size:374
Alignment explanation
Indices: 828248--829097 Score: 1625
Period size: 376 Copynumber: 2.3 Consensus size: 374
828238 TTTAAGTTAT
**
828248 TCCCCGAGGGACATGAGGGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828313 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
828378 GAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCC
131 GAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCC
828443 CCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATCTAGTGTCCCGAGGGAC
196 CCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATCTAGTGTCCCGAGGGAC
828508 ATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGA
261 ATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGA
828573 ACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
326 ACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828622 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828687 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGT-CC
828752 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACG-AATAATGGAAGGCGCG-
130 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
828815 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAG
195 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTG--ATATCTAGTGT-CCCGAG
828880 GGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCC
257 GGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCC
828945 GGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
322 GGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828998 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
829063 GCG-CCCCGGGAACGCGCCTTCACGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
829098 CCGATTATAG
Statistics
Matches: 470, Mismatches: 2, Indels: 7
0.98 0.00 0.01
Matches are distributed among these distances:
373 45 0.10
374 141 0.30
375 92 0.20
376 192 0.41
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (374 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
GAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCC
CCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATCTAGTGTCCCGAGGGAC
ATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGA
ACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:829178 original size:8 final size:8
Alignment explanation
Indices: 829165--829205 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
829155 TCACAATCTT
829165 TCAAATTC
1 TCAAATTC
829173 TCAAATTC
1 TCAAATTC
* *
829181 CCAAACTC
1 TCAAATTC
829189 T-AAATTC
1 TCAAATTC
829196 TCAAATTC
1 TCAAATTC
829204 TC
1 TC
829206 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:832218 original size:13 final size:13
Alignment explanation
Indices: 832200--832239 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
832190 TACATAAATA
832200 TATTTAATATAAT
1 TATTTAATATAAT
832213 TATTTAATATAA-
1 TATTTAATATAAT
*
832225 TATTTAATATTAT
1 TATTTAATATAAT
832238 TA
1 TA
832240 GTTATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTAATATAAT
Found at i:833012 original size:2 final size:2
Alignment explanation
Indices: 833005--833075 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
832995 TCATATTAGA
833005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
833047 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
833076 AGGGAGAACA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:840458 original size:2 final size:2
Alignment explanation
Indices: 840451--840479 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
840441 CAACAATTTT
840451 TA 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 TA T
840480 GAAAAACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:841183 original size:21 final size:23
Alignment explanation
Indices: 841157--841211 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
841147 ATGGGATTTT
*
841157 TTCTTCTTCA-ATT-ACCTCATC
1 TTCTTCTTCACATTGACATCATC
*
841178 TTCTTCTTCACGCTTGACATCATC
1 TTCTTCTTCAC-ATTGACATCATC
841202 TTCTTCTTCA
1 TTCTTCTTCA
841212 GGCTTGACGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
23 2 0.07
24 17 0.59
ACGTcount: A:0.16, C:0.33, G:0.04, T:0.47
Consensus pattern (23 bp):
TTCTTCTTCACATTGACATCATC
Found at i:841200 original size:24 final size:24
Alignment explanation
Indices: 841173--841219 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
841163 TTCAATTACC
841173 TCATCTTCTTCTTCACGCTTGACA
1 TCATCTTCTTCTTCACGCTTGACA
*
841197 TCATCTTCTTCTTCAGGCTTGAC
1 TCATCTTCTTCTTCACGCTTGAC
841220 GTCCTCGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.15, C:0.32, G:0.11, T:0.43
Consensus pattern (24 bp):
TCATCTTCTTCTTCACGCTTGACA
Found at i:841230 original size:24 final size:24
Alignment explanation
Indices: 841173--841230 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
841163 TTCAATTACC
*
841173 TCATCTTCTTCTTCACGCTTGACA
1 TCATCGTCTTCTTCACGCTTGACA
* * *
841197 TCATCTTCTTCTTCAGGCTTGACG
1 TCATCGTCTTCTTCACGCTTGACA
*
841221 TCCTCGTCTT
1 TCATCGTCTT
841231 GATGAGATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.12, C:0.33, G:0.12, T:0.43
Consensus pattern (24 bp):
TCATCGTCTTCTTCACGCTTGACA
Found at i:844338 original size:30 final size:29
Alignment explanation
Indices: 844304--844390 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 29
844294 TTTTTATTCC
*
844304 ACCATATTTTATTCAACATCTCATGCCACT
1 ACCAT-TTTTATTCAACATCCCATGCCACT
*
844334 ACCATTTTTTATTCAACAACCCATGCCACT
1 ACCA-TTTTTATTCAACATCCCATGCCACT
*
844364 ACCATTTTATATTCAATATCCCATGCC
1 ACCATTTT-TATTCAACATCCCATGCC
844391 CCCACGTGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.08
30 46 0.90
31 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.03, T:0.36
Consensus pattern (29 bp):
ACCATTTTTATTCAACATCCCATGCCACT
Found at i:846327 original size:12 final size:12
Alignment explanation
Indices: 846309--846344 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
846299 TATATATGTT
846309 CATGTGATATGA
1 CATGTGATATGA
*
846321 TATGTGATATGA
1 CATGTGATATGA
*
846333 CATATGATATGA
1 CATGTGATATGA
846345 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:851433 original size:64 final size:64
Alignment explanation
Indices: 851365--851589 Score: 217
Period size: 64 Copynumber: 3.5 Consensus size: 64
851355 TTGTTTGAAT
* * **
851365 GTGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-T
851428 C-
63 CG
* * *
851429 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* ** * ** **
851493 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCATCAATAATACTACATCGAATACCTTTT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* *
851557 ATGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCAT
851590 ACCTTCATTA
Statistics
Matches: 135, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
63 3 0.02
64 125 0.93
65 7 0.05
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
Found at i:851915 original size:12 final size:12
Alignment explanation
Indices: 851897--851931 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
851887 TATATATGTT
851897 CATGTGATATGG
1 CATGTGATATGG
*
851909 TATGTGATATGG
1 CATGTGATATGG
851921 CATGTGATATG
1 CATGTGATATG
851932 AGAACATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.31, T:0.37
Consensus pattern (12 bp):
CATGTGATATGG
Found at i:851990 original size:29 final size:29
Alignment explanation
Indices: 851948--852021 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
851938 TGATATGATG
851948 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
851977 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
852006 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
852022 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:855416 original size:18 final size:18
Alignment explanation
Indices: 855385--855419 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
855375 TATTTGACGA
855385 TAAAAGTTTAAATATTTT
1 TAAAAGTTTAAATATTTT
* *
855403 TAAAATTTTTAATATTT
1 TAAAAGTTTAAATATTT
855420 GAATCTAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TAAAAGTTTAAATATTTT
Found at i:856161 original size:20 final size:20
Alignment explanation
Indices: 856138--856206 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
856128 AAATATGTAA
856138 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
856158 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
*
856178 AATCGCAACGTGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
856199 GTCGCAAC
1 ATCGCAAC
856207 ACTGAATTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 2 0.05
20 22 0.55
21 14 0.35
22 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:857059 original size:24 final size:24
Alignment explanation
Indices: 857027--857080 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
857017 GTATTTGAAA
857027 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
857051 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
857075 TTTGAT
1 TTTGAT
857081 GATATTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:859346 original size:18 final size:18
Alignment explanation
Indices: 859323--859357 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
859313 AGAAAAAGGC
*
859323 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
859341 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
859358 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:859669 original size:140 final size:140
Alignment explanation
Indices: 859417--859686 Score: 522
Period size: 140 Copynumber: 1.9 Consensus size: 140
859407 AAACGTTGTA
859417 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* *
859482 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGCTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
859547 TATGTGTATT
131 TATGTGTATT
859557 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
859622 TGATATGTTCAGCTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGCTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
859687 CGCAACGCGA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 128 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.42
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGCTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:859682 original size:20 final size:20
Alignment explanation
Indices: 859657--859861 Score: 191
Period size: 20 Copynumber: 10.8 Consensus size: 20
859647 TTACACATTC
*
859657 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
859677 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
859697 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
859716 A----A-AATTGCAACGCGA
1 ATTTGACTATCGCAACGCGA
859731 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
859751 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
859771 ATTTGACTATCGCAA--C-A
1 ATTTGACTATCGCAACGCGA
**
859788 A---GAAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
859805 ATTTGACTATCGCAATGCAA
1 ATTTGACTATCGCAACGCGA
* * *
859825 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
859845 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
859862 AGAAAATCAC
Statistics
Matches: 147, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
14 17 0.12
15 3 0.02
16 1 0.01
17 3 0.02
19 3 0.02
20 120 0.82
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:859782 original size:74 final size:74
Alignment explanation
Indices: 859657--859901 Score: 330
Period size: 74 Copynumber: 3.3 Consensus size: 74
859647 TTACACATTC
* * * * * *
859657 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCA-AAAAT
1 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAAC-AAGAAAAT
*
859721 TGCAACGCGA
65 CGCAACGCGA
859731 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACAAGAAAATC
1 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACAAGAAAATC
859796 GCAACGCGA
66 GCAACGCGA
* * *
859805 ATTTGACTATCGCAATGCAAATTTGATTATCGCAACGGGTATTTGACTATCGCAACGAGAAAATC
1 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACAAGAAAATC
* * *
859870 ACAAAGCGT
66 GCAACGCGA
* * *
859879 ATTAGAATATCGCAACGAGAATT
1 ATTTGACTATCGCAACGCGAATT
859902 GACTTTCGCG
Statistics
Matches: 152, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
73 1 0.01
74 151 0.99
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (74 bp):
ATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAACAAGAAAATC
GCAACGCGA
Found at i:859929 original size:20 final size:21
Alignment explanation
Indices: 859900--859957 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
859890 GCAACGAGAA
859900 TTGA-CTTTCGCGTTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
859920 TTG-GCTTTCGCATTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
859940 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
859958 AAGTGTACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:860116 original size:14 final size:14
Alignment explanation
Indices: 860056--860117 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
860046 CACAAATAAG
*
860056 AATTATTTACACATC
1 AATT-TTTACAAATC
**
860071 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
860086 AACTTTTACAAATC
1 AATTTTTACAAATC
*
860100 AATTTTTATAAATC
1 AATTTTTACAAATC
860114 AATT
1 AATT
860118 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:861562 original size:21 final size:21
Alignment explanation
Indices: 861502--861616 Score: 81
Period size: 21 Copynumber: 5.5 Consensus size: 21
861492 ATGAATCGGG
* *
861502 CTCTTGAATGGTGGTAGGGAC
1 CTCTTGAACGGTGGTAGGGGC
* * *
861523 CTCTTCAACGATGATAGGGGC
1 CTCTTGAACGGTGGTAGGGGC
* *
861544 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGTAGGGGC
* * *
861565 CTCTTG-AGGGATGATAAGGGC
1 CTCTTGAACGG-TGGTAGGGGC
* * *
861586 CTCTTGAATGATAGG-AGAGGC
1 CTCTTGAACGGT-GGTAGGGGC
861607 CTCTTGAACG
1 CTCTTGAACG
861617 ATGACAGGTG
Statistics
Matches: 70, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.04
21 64 0.91
22 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGTAGGGGC
Found at i:861569 original size:42 final size:42
Alignment explanation
Indices: 861502--861620 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
861492 ATGAATCGGG
* * *
861502 CTCTTGAATGGTGGTA-GGGACCTCTTCAACGATGATAGGGGC
1 CTCTTGAATGGTGGGAGGGGA-CTCTTGAACGATGATAAGGGC
* **
861544 CTCTTGAACGGTGGGAGGGGACTCTTGAGGGATGATAAGGGC
1 CTCTTGAATGGTGGGAGGGGACTCTTGAACGATGATAAGGGC
* * * *
861586 CTCTTGAATGATAGGAGAGGCCTCTTGAACGATGA
1 CTCTTGAATGGTGGGAGGGGACTCTTGAACGATGA
861621 CAGGTGAGTC
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 59 0.94
43 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (42 bp):
CTCTTGAATGGTGGGAGGGGACTCTTGAACGATGATAAGGGC
Found at i:862136 original size:20 final size:20
Alignment explanation
Indices: 862111--862178 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
862101 CGAAACTTAA
862111 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
** *
862131 ATCGCAACATGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
862151 ATCGCAACGC-AAGTTGACT
1 ATCGCAACGCGAAAATGACT
862170 ATCGCAACG
1 ATCGCAACG
862179 GGATAATCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 15 0.38
20 25 0.62
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:862207 original size:33 final size:33
Alignment explanation
Indices: 862170--862249 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
862160 CAAGTTGACT
* * ** *
862170 ATCGCAACGGGATAATCGCAATGCGAAATAAAA
1 ATCGCAACGAGAAAATCGCAACACGAAACAAAA
*
862203 ATCGCAACGAGAAAATCGCAACACGAAACCAAA
1 ATCGCAACGAGAAAATCGCAACACGAAACAAAA
*
862236 ATCGCAACGTGAAA
1 ATCGCAACGAGAAA
862250 CTAAATTCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAACACGAAACAAAA
Found at i:862343 original size:33 final size:33
Alignment explanation
Indices: 862259--862354 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 33
862249 ACTAAATTCG
* *
862259 CGTTGCGATAGTCATTTTCGCAGTGCGATTTTCA
1 CGTTGCGATAGTCA-TTTCGCATTGCGATTATCA
* ** ** * *
862293 CATTGTAATTTTTATTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCATTTCGCATTGCGATTATCA
*
862326 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATAGTCATTT-CGCATTGCGAT
862355 AGTCATTTTC
Statistics
Matches: 45, Mismatches: 16, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
33 27 0.60
34 18 0.40
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCATTGCGATTATCA
Found at i:862351 original size:20 final size:20
Alignment explanation
Indices: 862326--862374 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
862316 GCGATTATCC
862326 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
862346 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
862366 CGTTGCGAT
1 CGTTGCGAT
862375 TTAAGTTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:864246 original size:20 final size:20
Alignment explanation
Indices: 864223--864325 Score: 120
Period size: 20 Copynumber: 5.2 Consensus size: 20
864213 GAAACTTAAA
*
864223 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
864243 ATCGCAACGC-AAATTTGACT
1 ATCGCAACGCGAAA-ATGACT
**
864263 ATCGCAACGC-AAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
864282 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
864302 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
864322 ATCG
1 ATCG
864326 TTGCGATTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.21
20 55 0.79
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:864286 original size:39 final size:40
Alignment explanation
Indices: 864223--864314 Score: 116
Period size: 39 Copynumber: 2.3 Consensus size: 40
864213 GAAACTTAAA
* ** * *
864223 ATCGCAACACGAAAATGACTATCGCAACGC-AAATTTGACT
1 ATCGCAACGCGAAAATGAAAATCGCAACACGAAA-ATGACT
864263 ATCGCAACGC-AAAATGAAAATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGAAAATCGCAACACGAAAATGACT
864302 ATCGCAACGCGAA
1 ATCGCAACGCGAA
864315 TTTGACTATC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
39 31 0.69
40 14 0.31
ACGTcount: A:0.43, C:0.25, G:0.16, T:0.15
Consensus pattern (40 bp):
ATCGCAACGCGAAAATGAAAATCGCAACACGAAAATGACT
Found at i:864922 original size:20 final size:20
Alignment explanation
Indices: 864894--864987 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
864884 ATTTTGTATT
*
864894 ATCGTGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* **
864914 ATCGCGTTGTGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCAGA
*
864935 ATCGCGTTGCGATAGTTAGA
1 ATCGCGTTGCGATAGTCAGA
*
864955 ATCGCGTTGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCAGA
*
864975 ATCACGTTGCGAT
1 ATCGCGTTGCGAT
864988 TTACATATTC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.03
20 43 0.70
21 14 0.23
22 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:865020 original size:21 final size:21
Alignment explanation
Indices: 864954--865021 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 21
864944 CGATAGTTAG
* **
864954 AATCGCGTTGCGATAGT-CAA
1 AATCGCATTGCGATTTTACAA
* * *
864974 AATCACGTTGCGA-TTTACAT
1 AATCGCATTGCGATTTTACAA
*
864994 ATTCGCATTGCGATTTTACAA
1 AATCGCATTGCGATTTTACAA
865015 AATCGCA
1 AATCGCA
865022 ACACGAATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
19 1 0.03
20 24 0.65
21 12 0.32
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (21 bp):
AATCGCATTGCGATTTTACAA
Found at i:867388 original size:18 final size:18
Alignment explanation
Indices: 867365--867408 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
867355 TTTACAAGTC
867365 AATCCCAAATTCCAAAGA
1 AATCCCAAATTCCAAAGA
867383 AATCCCAAATTCCAAAGA
1 AATCCCAAATTCCAAAGA
867401 AATCCCAA
1 AATCCCAA
867409 TTTAATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.50, C:0.30, G:0.05, T:0.16
Consensus pattern (18 bp):
AATCCCAAATTCCAAAGA
Found at i:877997 original size:29 final size:29
Alignment explanation
Indices: 877935--877998 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
877925 GAATTTTTTT
* *
877935 TAAAT-TTTTTTTTTTACTATTTGAAATA
1 TAAATGTTTGTTTTTTACTATTTGAAAAA
*
877963 TCAAATGTTTGTTTTTTA-TATTTTATAAAA
1 T-AAATGTTTGTTTTTTACTATTTGA-AAAA
877993 TAAATG
1 TAAATG
877999 GAAAAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.03
29 15 0.50
30 14 0.47
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (29 bp):
TAAATGTTTGTTTTTTACTATTTGAAAAA
Found at i:887217 original size:56 final size:55
Alignment explanation
Indices: 887157--887290 Score: 175
Period size: 55 Copynumber: 2.4 Consensus size: 55
887147 ATATATAAAA
*
887157 TAATTTATATGATATAAAATTAA-ATATCTATA-ATAT-AATATTAAAAAATTAATATT
1 TAATTTATATG--A-AAAATTAATATATATATATATATAAATATTAAAAAA-TAATATT
*
887213 TAATTTATTTGAAAAATTAATATATATATATATATAAATATTAAAAAATAATATT
1 TAATTTATATGAAAAATTAATATATATATATATATAAATATTAAAAAATAATATT
* *
887268 TAATTTATTTAAAAAATTAATAT
1 TAATTTATATGAAAAATTAATAT
887291 TAAAATTAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
53 8 0.11
54 9 0.12
55 33 0.46
56 22 0.31
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (55 bp):
TAATTTATATGAAAAATTAATATATATATATATATAAATATTAAAAAATAATATT
Found at i:887270 original size:55 final size:54
Alignment explanation
Indices: 887172--887290 Score: 188
Period size: 55 Copynumber: 2.2 Consensus size: 54
887162 TATATGATAT
* *
887172 AAAATTAA-ATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTGA
1 AAAATTAATATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
887225 AAAATTAATATATATATATATATAAATATTAAAAAA-TAATATTTAATTTATTTAA
1 AAAATTAATATATATATA-ATAT-AATATTAAAAAATTAATATTTAATTTATTTAA
887280 AAAATTAATAT
1 AAAATTAATAT
887291 TAAAATTAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
53 8 0.13
54 8 0.13
55 33 0.54
56 12 0.20
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (54 bp):
AAAATTAATATATATATAATATAATATTAAAAAATTAATATTTAATTTATTTAA
Found at i:887308 original size:16 final size:17
Alignment explanation
Indices: 887287--887319 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
887277 TAAAAAATTA
887287 ATATTAAAAT-TAAAAT
1 ATATTAAAATATAAAAT
*
887303 ATATTATAATATAAAAT
1 ATATTAAAATATAAAAT
887320 TAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATTAAAATATAAAAT
Found at i:887327 original size:12 final size:12
Alignment explanation
Indices: 887280--887330 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
887270 ATTTATTTAA
887280 AAAATT-AATATT
1 AAAATTAAATA-T
887292 AAAATTAAA-AT
1 AAAATTAAATAT
*
887303 -ATATTATAATAT
1 AAAATTA-AATAT
887315 AAAATTAAATAT
1 AAAATTAAATAT
887327 AAAA
1 AAAA
887331 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 5 0.15
11 3 0.09
12 18 0.55
13 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:897287 original size:21 final size:22
Alignment explanation
Indices: 897263--897315 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
897253 CCTGAAATAT
* *
897263 TAAAAATATTATTTTATT-CAA
1 TAAAAATATGATTTAATTACAA
897284 TAAAAATAGTGATTTAATTACAA
1 TAAAAATA-TGATTTAATTACAA
*
897307 TAATAATAT
1 TAAAAATAT
897316 ATTAAGGAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.30
22 9 0.33
23 10 0.37
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (22 bp):
TAAAAATATGATTTAATTACAA
Found at i:897632 original size:29 final size:29
Alignment explanation
Indices: 897558--897635 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 29
897548 TTTTGATTAG
*
897558 ATTTAAATGTTAAATTGATATTTTATATAA
1 ATTTAAA-GTTAAATTAATATTTTATATAA
* *
897588 AGTTTAAGGATGAAATTAATATTTTATA-AA
1 A-TTTAAAG-TTAAATTAATATTTTATATAA
897618 ATTTACAAGTTAAATTAA
1 ATTTA-AAGTTAAATTAA
897636 AAATGAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
29 12 0.30
30 7 0.17
31 21 0.52
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (29 bp):
ATTTAAAGTTAAATTAATATTTTATATAA
Found at i:914904 original size:21 final size:21
Alignment explanation
Indices: 914879--914927 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
914869 CGACGACATC
914879 GGAATCTGAAACCAAAGGCTG
1 GGAATCTGAAACCAAAGGCTG
*
914900 GGAATCTGAAACCAAAGGTTG
1 GGAATCTGAAACCAAAGGCTG
914921 GGAATCT
1 GGAATCT
914928 TCACCATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (21 bp):
GGAATCTGAAACCAAAGGCTG
Found at i:915205 original size:3 final size:3
Alignment explanation
Indices: 915197--915256 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
915187 TTGGGGCTCT
915197 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
915245 CTC TTC CTC TTC
1 TTC TTC TTC TTC
915257 AGGTTTTTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:915636 original size:13 final size:13
Alignment explanation
Indices: 915618--915642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
915608 TTATAAAAAA
915618 ATAAAAAATTAGT
1 ATAAAAAATTAGT
915631 ATAAAAAATTAG
1 ATAAAAAATTAG
915643 AAATTACCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (13 bp):
ATAAAAAATTAGT
Found at i:923108 original size:15 final size:15
Alignment explanation
Indices: 923088--923116 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
923078 TTGGTTCAAG
923088 TGTGAACTTGATGCA
1 TGTGAACTTGATGCA
923103 TGTGAACTTGATGC
1 TGTGAACTTGATGC
923117 CTAAGTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (15 bp):
TGTGAACTTGATGCA
Found at i:932650 original size:23 final size:23
Alignment explanation
Indices: 932624--932688 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
932614 CAGCTCGTAT
932624 AATTGCACCGAAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
* **
932647 AATTGCACC-AGAGTGTCGCGTAG
1 AATTGCACCGA-AGTGCCATGTAG
* *
932670 AATTACACCGTAGTGCCAT
1 AATTGCACCGAAGTGCCAT
932689 ATAATAATGT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:933744 original size:20 final size:20
Alignment explanation
Indices: 933719--933764 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
933709 CTCTTTATAA
933719 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
*
933739 ATATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
933759 ACATCT
1 ACATCT
933765 CTCGACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (20 bp):
ACATCTATTTCTATTTCCCT
Found at i:934337 original size:21 final size:21
Alignment explanation
Indices: 934278--934337 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
934268 CGTTTGAGGG
*
934278 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
*
934300 GGTTACCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
934320 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
934338 CCCAGAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.47
21 9 0.26
22 9 0.26
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:937523 original size:16 final size:17
Alignment explanation
Indices: 937478--937527 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
937468 CATAACCCTT
* *
937478 ATCACACATATCATATC
1 ATCATACATATCACATC
*
937495 ATGCATTCATATCACATC
1 AT-CATACATATCACATC
937513 AT-ATACATATCACAT
1 ATCATACATATCACAT
937528 ACATTGTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 12 0.43
17 2 0.07
18 14 0.50
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (17 bp):
ATCATACATATCACATC
Found at i:937874 original size:23 final size:23
Alignment explanation
Indices: 937848--937938 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 23
937838 CACCACAGCT
* * * *
937848 CGTATAATTGCACCGAAGTGTCA
1 CGTAGAATTGCACCGGAGTGCCG
*
937871 CGTAGAATTGTACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCG
937894 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCG
*
937917 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGGAGTGCC
937939 ATATAATAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCG
Found at i:938076 original size:103 final size:103
Alignment explanation
Indices: 937955--938167 Score: 354
Period size: 103 Copynumber: 2.1 Consensus size: 103
937945 TAATGTCCAT
* *
937955 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
938020 GACTTCACACATGTTCCAAAGAATATACATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACACATATGTCCCG
*
938058 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* * *
938123 GACTTCATACATGTTTCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACACATATGTCCCG
*
938161 AAAGACC
1 AAGGACC
938168 GCGTAGACCC
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACACATATGTCCCG
Found at i:941484 original size:27 final size:27
Alignment explanation
Indices: 941453--941508 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
941443 TTTTGAAGCT
941453 TCATTGTTTTGTTTGTTGTTTTTTGTA
1 TCATTGTTTTGTTTGTTGTTTTTTGTA
941480 TCATTGTTTTGTTTGTTGTTTTTTGTA
1 TCATTGTTTTGTTTGTTGTTTTTTGTA
941507 TC
1 TC
941509 TCTTGGCCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.07, C:0.05, G:0.18, T:0.70
Consensus pattern (27 bp):
TCATTGTTTTGTTTGTTGTTTTTTGTA
Found at i:941522 original size:28 final size:27
Alignment explanation
Indices: 941464--941522 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
941454 CATTGTTTTG
*** *
941464 TTTGTTGTTTTTTGTATCATTGTTTTG
1 TTTGTTGTTTTTTGTATCATTGGCCTC
*
941491 TTTGTTGTTTTTTGTATCTCTTGGCCTC
1 TTTGTTGTTTTTTGTATC-ATTGGCCTC
941519 TTTG
1 TTTG
941523 ATTAAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.05, C:0.10, G:0.19, T:0.66
Consensus pattern (27 bp):
TTTGTTGTTTTTTGTATCATTGGCCTC
Found at i:942504 original size:18 final size:19
Alignment explanation
Indices: 942481--942519 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
942471 AAGACAATTT
942481 TTAA-GGTGCATCGATGCA
1 TTAAGGGTGCATCGATGCA
942499 TTAAGGGGTGCATCGATGCA
1 TTAA-GGGTGCATCGATGCA
942519 T
1 T
942520 AGATATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
20 15 0.79
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (19 bp):
TTAAGGGTGCATCGATGCA
Found at i:944658 original size:31 final size:31
Alignment explanation
Indices: 944617--944686 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
944607 ATGATGGTAG
*
944617 AGTGACCATTTTGTTATAAATCGATAATGTT
1 AGTGACCATTTTGTTATAAATCGATAACGTT
*
944648 AGTGAGCATTTTGTTATAAATCGATAACGTT
1 AGTGACCATTTTGTTATAAATCGATAACGTT
944679 AGTGACCA
1 AGTGACCA
944687 ATTTATCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (31 bp):
AGTGACCATTTTGTTATAAATCGATAACGTT
Found at i:953001 original size:30 final size:30
Alignment explanation
Indices: 952961--953023 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
952951 CGTTAATAAA
* *
952961 ATTGGCATAATTATATATTTAGTCCTTAAT
1 ATTGGAATAATTATACATTTAGTCCTTAAT
*
952991 ATTGGAATAATTATACATTTGGTCCTTAAT
1 ATTGGAATAATTATACATTTAGTCCTTAAT
953021 ATT
1 ATT
953024 TACATATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (30 bp):
ATTGGAATAATTATACATTTAGTCCTTAAT
Found at i:953364 original size:28 final size:27
Alignment explanation
Indices: 953327--953405 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 27
953317 AAATGAAAAA
*
953327 AATTATTTGTTTAAATAAATTTCGGTTT
1 AATTAATTGTTTAAATAAATTTCGG-TT
* * *
953355 AATTAATTGTTAAAGAAAAAATTCGGTT
1 AATTAATTGTTTAA-ATAAATTTCGGTT
953383 AA-TAATT-TTTAAATAAATTTCGG
1 AATTAATTGTTTAAATAAATTTCGG
953406 ATCGATTAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 9 0.21
26 4 0.09
27 5 0.12
28 16 0.37
29 9 0.21
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (27 bp):
AATTAATTGTTTAAATAAATTTCGGTT
Found at i:953724 original size:70 final size:69
Alignment explanation
Indices: 953484--953785 Score: 330
Period size: 74 Copynumber: 4.4 Consensus size: 69
953474 CGATTAACGG
** *
953484 TCAAAT-AATTTTGGTTCGATTAATAGTTAAAG-AAAAAAATCGGTTGATTTGGTTC-GTCAAAT
1 TCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCGGT-TAAT
*
953546 AAATT
65 AATTT
* * *** * * *
953551 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATTTGGT
1 TCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAA-AAATCGGTTGATTTGG----TTCGGT
953616 TAATAATTT
61 TAATAATTT
* *
953625 TCAAATAAATTTTGGTTCAATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCGGTTAATA
1 TCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCGGTTAATA
953690 ATTT
66 ATTT
* * **
953694 TCAAATTAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAAT---TT-ATTTTATTCGGTTAAT
1 TCAAA-TAAATTTTGGTTCGATTAACGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCGGTTAAT
953755 AATTT
65 AATTT
953760 TCAAATAAATTTTGGTTCGATTAACG
1 TCAAATAAATTTTGGTTCGATTAACG
953786 TTCAAATAAT
Statistics
Matches: 197, Mismatches: 29, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
65 20 0.10
66 24 0.12
67 8 0.04
68 23 0.12
69 23 0.12
70 43 0.22
73 10 0.05
74 44 0.22
75 2 0.01
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.40
Consensus pattern (69 bp):
TCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCGGTTAATA
ATTT
Found at i:953729 original size:144 final size:141
Alignment explanation
Indices: 953484--953754 Score: 463
Period size: 144 Copynumber: 1.9 Consensus size: 141
953474 CGATTAACGG
*
953484 TCAAATAATTTTGGTTCGATTAATAGTTAAAGAAAAAAATCGGTTGATTTGGTTCGTCAAATAAA
1 TCAAATAATTTTGGTTCAATTAATAGTTAAAGAAAAAAATCGGTTGATTTGGTTCGTCAAATAAA
953549 TTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATTTG
66 TTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATTTG
953614 GTTAATAATTT
131 GTTAATAATTT
* *
953625 TCAAATAAATTTTGGTTCAATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCGGT-TAAT
1 TCAAAT-AATTTTGGTTCAATTAATAGTTAAAG-AAAAAAATCGGTTGATTTGGTTC-GTCAAAT
*
953689 AATTTTCAAATTAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAA
63 AAATTTCAAA-TAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAA
953754 T
127 T
953755 AATTTTCAAA
Statistics
Matches: 122, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
141 6 0.05
142 24 0.20
143 35 0.29
144 57 0.47
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (141 bp):
TCAAATAATTTTGGTTCAATTAATAGTTAAAGAAAAAAATCGGTTGATTTGGTTCGTCAAATAAA
TTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATTTG
GTTAATAATTT
Found at i:953801 original size:26 final size:26
Alignment explanation
Indices: 953759--953890 Score: 115
Period size: 26 Copynumber: 4.9 Consensus size: 26
953749 GTTAATAATT
953759 TTCAAATAAATTTTGGTTCGATTAACG
1 TTCAAAT-AATTTTGGTTCGATTAACG
*
953786 TTCAAATAATTTTGGTTCGATTAATGG
1 TTCAAATAATTTTGGTTCGATTAA-CG
* * * * **
953813 TTAAAGAAAAATATTCGGTT--AATAATT
1 TT-CA-AATAAT-TTTGGTTCGATTAACG
953840 TTCAAATAAATTTTGGTTCGATTAACG
1 TTCAAAT-AATTTTGGTTCGATTAACG
* *
953867 GTCAAATAATTTCGGTTCGATTAA
1 TTCAAATAATTTTGGTTCGATTAA
953891 TGTTAAAGAA
Statistics
Matches: 83, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
25 8 0.10
26 37 0.45
27 22 0.27
28 5 0.06
29 5 0.06
30 6 0.07
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (26 bp):
TTCAAATAATTTTGGTTCGATTAACG
Found at i:953830 original size:81 final size:80
Alignment explanation
Indices: 953743--953915 Score: 310
Period size: 81 Copynumber: 2.1 Consensus size: 80
953733 TAATTTATTT
* *
953743 TATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGTTCAAATAATTTTGGTTCGATT
1 TATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATT
953808 AATGGTTAAAGAAAAA
66 AAT-GTTAAAGAAAAA
953824 TATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATT
1 TATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATT
953889 AATGTTAAAGAAAAA
66 AATGTTAAAGAAAAA
*
953904 AATTCGGTTAAT
1 TATTCGGTTAAT
953916 TTGGTTCGTT
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
80 23 0.26
81 66 0.74
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (80 bp):
TATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATT
AATGTTAAAGAAAAA
Found at i:954673 original size:25 final size:25
Alignment explanation
Indices: 954624--954682 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
954614 AAAAACAATT
**
954624 AAAA-TCAAACATTAATCTTTCAAA
1 AAAATTCAAACATTAATAATTCAAA
954648 AAAATTCAAACATTAAATAATT-AAA
1 AAAATTCAAACATT-AATAATTCAAA
* *
954673 ATAATACAAA
1 AAAATTCAAA
954683 AAAAAATAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.14
25 20 0.69
26 5 0.17
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAATTCAAACATTAATAATTCAAA
Found at i:958934 original size:56 final size:57
Alignment explanation
Indices: 958872--958987 Score: 198
Period size: 56 Copynumber: 2.1 Consensus size: 57
958862 GTCAATTACA
* *
958872 CAAGTTTAGTAATAAACAATAATATTTCAACACAAGAAGGTTCAAAA-AAATTAGAT
1 CAAGTTTAGTAATAAACAATAATACTTCAACAAAAGAAGGTTCAAAATAAATTAGAT
*
958928 CAAGTTTAGTAATAAACAATCATACTTCAACAAAAGAAGGTTCAAAATAAATTAGAT
1 CAAGTTTAGTAATAAACAATAATACTTCAACAAAAGAAGGTTCAAAATAAATTAGAT
958985 CAA
1 CAA
958988 TGATAGGTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 44 0.79
57 12 0.21
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (57 bp):
CAAGTTTAGTAATAAACAATAATACTTCAACAAAAGAAGGTTCAAAATAAATTAGAT
Done.