Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016410.1 Corchorus olitorius cultivar O-4 contig16443, 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: 66143
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:1492 original size:26 final size:25
Alignment explanation
Indices: 1430--1492 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
1420 GGAGACAACA
1430 TTGTTCAGAAGAAAAAAAAACAATCT
1 TTGTTCAGAA-AAAAAAAAACAATCT
* * **
1456 TTCTTCCGAAAAAAAAAGCCAATCTT
1 TTGTTCAGAAAAAAAAAAACAATC-T
1482 TTGTTCAGAAA
1 TTGTTCAGAAA
1493 GAGCTCTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (25 bp):
TTGTTCAGAAAAAAAAAAACAATCT
Found at i:20529 original size:22 final size:21
Alignment explanation
Indices: 20484--20529 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
20474 TTTTTAGGAT
* *
20484 TTTTTCCCCCAATTTGTTTTA
1 TTTTTCCCCCAATTTGTCTCA
20505 TTTTTCCCCTCAATTTGTCTCA
1 TTTTTCCCC-CAATTTGTCTCA
20527 TTT
1 TTT
20530 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.13, C:0.26, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTTTCCCCCAATTTGTCTCA
Found at i:24958 original size:322 final size:321
Alignment explanation
Indices: 24374--24996 Score: 1219
Period size: 322 Copynumber: 1.9 Consensus size: 321
24364 AAATAAACCA
24374 ATAAAAATGAATTAGCTGCTAAGTGCTAAGTGCTAATTCTCTCCGGTTCGTGCTATGACCAATAA
1 ATAAAAATGAATTAGCTGCTAAGTGCTAAGTGCTAATTCTCTCCGGTTCGTGCTATGACCAATAA
24439 CAGTACGCCACCTCATAAACCAGCAAATCCTCGTCTGCTAATGTTTATTTTTTTTGGAATGTTTA
66 CAGTACGCCACCTCATAAACCAGCAAATCCTCGTCTGCTAATGTTTATTTTTTTTGGAATGTTTA
24504 ATTTAATTTAATCCATAGTTCATACTTTTTGGTATTTAACTACTATTTATTATGTTTCCCTAAAA
131 ATTTAATTTAATCCATAGTTCATACTTTTTGGTATTTAACTACTATTTATTATGTTTCCCTAAAA
24569 AAATTATTTATTATGTTGTAATTTAATTTTTCTTTTAATATTTATAAGATAATCTTCTTCGACCG
196 AAATTATTTATTATGTTGTAATTTAATTTTTCTTTTAATATTTATAAGATAATCTTCTTCGACCG
*
24634 AGTTGCCCTATTATGGTGATAAATCTCTCCTAACAATGATCCAATAACAGTACGCCACCTC
261 AGTTGCCCTATTATGGTGATAAATCTCTCCCAACAATGATCCAATAACAGTACGCCACCTC
*
24695 ATAAAAATGAATTAGCTGCTACGTGCTAAGTGCTAATTCTCTCCGGTTCGTGCTATGACCAATAA
1 ATAAAAATGAATTAGCTGCTAAGTGCTAAGTGCTAATTCTCTCCGGTTCGTGCTATGACCAATAA
24760 CAGTACGCCACCTCATAAACCAGCAAATCCTCGTCTGCTAATGTTTATTTTTTTTTGGAATGTTT
66 CAGTACGCCACCTCATAAACCAGCAAATCCTCGTCTGCTAATGTTTA-TTTTTTTTGGAATGTTT
24825 AATTTAATTTAATCCATAGTTCATACTTTTTGGTATTTAACTACTATTTATTATGTTTCCCTAAA
130 AATTTAATTTAATCCATAGTTCATACTTTTTGGTATTTAACTACTATTTATTATGTTTCCCTAAA
24890 AAAATTATTTATTATGTTGTAATTTAATTTTTCTTTTAATATTTATAAGATAATCTTCTTCGACC
195 AAAATTATTTATTATGTTGTAATTTAATTTTTCTTTTAATATTTATAAGATAATCTTCTTCGACC
24955 GAGTTGCCCTATTATGGTGATAAATCTCTCCCAACAATGATC
260 GAGTTGCCCTATTATGGTGATAAATCTCTCCCAACAATGATC
24997 GTAATTTAAT
Statistics
Matches: 299, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
321 111 0.37
322 188 0.63
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (321 bp):
ATAAAAATGAATTAGCTGCTAAGTGCTAAGTGCTAATTCTCTCCGGTTCGTGCTATGACCAATAA
CAGTACGCCACCTCATAAACCAGCAAATCCTCGTCTGCTAATGTTTATTTTTTTTGGAATGTTTA
ATTTAATTTAATCCATAGTTCATACTTTTTGGTATTTAACTACTATTTATTATGTTTCCCTAAAA
AAATTATTTATTATGTTGTAATTTAATTTTTCTTTTAATATTTATAAGATAATCTTCTTCGACCG
AGTTGCCCTATTATGGTGATAAATCTCTCCCAACAATGATCCAATAACAGTACGCCACCTC
Found at i:25351 original size:3 final size:3
Alignment explanation
Indices: 25345--25384 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
25335 AAATATAGTT
25345 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25385 GTGGTTCGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27327 original size:2 final size:2
Alignment explanation
Indices: 27318--27357 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
27308 AAAAAATAGT
27318 TA TA -A TA TA TA 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 TA TA TA TA TA TA T
27358 TGTCACCGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28312 original size:26 final size:26
Alignment explanation
Indices: 28283--28359 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 26
28273 TTAAAAGTCA
28283 CCCAGGGGCATTTCAGTCATTTTTGC
1 CCCAGGGGCATTTCAGTCATTTTTGC
28309 CCCAGGGGCATTTCAGTCATTTTTGC
1 CCCAGGGGCATTTCAGTCATTTTTGC
* *
28335 TCCAGGGGTACTTT-AGTCATTTTTG
1 CCCAGGGGCA-TTTCAGTCATTTTTG
28360 ATTAATTGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 45 0.94
27 3 0.06
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CCCAGGGGCATTTCAGTCATTTTTGC
Found at i:28589 original size:41 final size:41
Alignment explanation
Indices: 28532--28609 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
28522 GGTAAGCGTT
28532 TTAATTTAGTTAGGCATTTCGATTGGATTAGTTTTGCGATA
1 TTAATTTAGTTAGGCATTTCGATTGGATTAGTTTTGCGATA
28573 TTAATTTAGTTAGGCATTTCGATTGGATTAGTTTTGC
1 TTAATTTAGTTAGGCATTTCGATTGGATTAGTTTTGC
28610 ATCGCATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.23, C:0.08, G:0.22, T:0.47
Consensus pattern (41 bp):
TTAATTTAGTTAGGCATTTCGATTGGATTAGTTTTGCGATA
Found at i:28611 original size:22 final size:22
Alignment explanation
Indices: 28545--28611 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
28535 ATTTAGTTAG
28545 GCATTTCGATTGGATTAGTTTT
1 GCATTTCGATTGGATTAGTTTT
* **
28567 GCGA--T--ATT-AATTTAGTTAG
1 GC-ATTTCGATTGGA-TTAGTTTT
28586 GCATTTCGATTGGATTAGTTTT
1 GCATTTCGATTGGATTAGTTTT
28608 GCAT
1 GCAT
28612 CGCATACATG
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 1 0.03
21 1 0.03
22 15 0.47
23 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.46
Consensus pattern (22 bp):
GCATTTCGATTGGATTAGTTTT
Found at i:30002 original size:19 final size:20
Alignment explanation
Indices: 29975--30012 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
29965 AAATTAAAAA
*
29975 AAAAAAAACCAAA-TAGGCC
1 AAAAAAAACAAAAGTAGGCC
*
29994 AAAATAAACAAAAGTAGGC
1 AAAAAAAACAAAAGTAGGC
30013 AGAGAGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.63, C:0.16, G:0.13, T:0.08
Consensus pattern (20 bp):
AAAAAAAACAAAAGTAGGCC
Found at i:31026 original size:19 final size:19
Alignment explanation
Indices: 31002--31075 Score: 53
Period size: 19 Copynumber: 3.9 Consensus size: 19
30992 ATCTTGTAAA
*
31002 TAAAAGTTGGACTTTTAAT
1 TAAAAGTTGAACTTTTAAT
* * ** *
31021 TAAAAG--AAAATGGTAAA
1 TAAAAGTTGAACTTTTAAT
*
31038 TAAAAGTTGGACTTTTAAT
1 TAAAAGTTGAACTTTTAAT
*
31057 TAAATGATTGAACTTTTAA
1 TAAAAG-TTGAACTTTTAA
31076 GAAATTGGTA
Statistics
Matches: 38, Mismatches: 14, Indels: 5
0.67 0.25 0.09
Matches are distributed among these distances:
17 11 0.29
19 16 0.42
20 11 0.29
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (19 bp):
TAAAAGTTGAACTTTTAAT
Found at i:31099 original size:50 final size:50
Alignment explanation
Indices: 31024--31593 Score: 637
Period size: 50 Copynumber: 11.4 Consensus size: 50
31014 TTTTAATTAA
* * * *
31024 AAGAAAATGGTAAATAAAAGTTGGACTTTTAATTAAATGATTGAACTTTT
1 AAGAAATTTGTAAATAAAGGTTGGACTTTTAATTAAAAGATTGAACTTTT
* *
31074 AAGAAATTGGTAAATAAAGGTTGGACTTTTAATTAAAAAATTGAACTTTT
1 AAGAAATTTGTAAATAAAGGTTGGACTTTTAATTAAAAGATTGAACTTTT
* * *
31124 AAGAAATTGGTAAGTATAGGTTGGACTTTTAATTAAAAGATTGAACTTTT
1 AAGAAATTTGTAAATAAAGGTTGGACTTTTAATTAAAAGATTGAACTTTT
* * *
31174 AAGCAATTTGTAAATAAAAGTTGAACTTTTAATTAAAAGATTGAACTTTT
1 AAGAAATTTGTAAATAAAGGTTGGACTTTTAATTAAAAGATTGAACTTTT
* *
31224 AAGAATTTTGTAAATAAAGGTTGAACTTTTAATTAAAAGATTGAACTTTT
1 AAGAAATTTGTAAATAAAGGTTGGACTTTTAATTAAAAGATTGAACTTTT
* * * * *
31274 AAGAAATTTGTAAGTGAAGGTTGAACTTTTAATTAAAAGATGGAACCTTT
1 AAGAAATTTGTAAATAAAGGTTGGACTTTTAATTAAAAGATTGAACTTTT
* *
31324 AAGCAATTTGTAAATAGAA-GTTGAACTTTTAATTAAAAGATTGAACTTTT
1 AAGAAATTTGTAAATA-AAGGTTGGACTTTTAATTAAAAGATTGAACTTTT
* * * *
31374 AAGAAAATGGTAAATAGAGGTTGGAC-TTTAATTAAAGGATTGAAGCTTTT
1 AAGAAATTTGTAAATAAAGGTTGGACTTTTAATTAAAAGATTGAA-CTTTT
* * * * **
31424 AAGTAGTTTGTAAATAAAGATTGGA-TTCTAGATTAAAAGATCAAACTTTT
1 AAGAAATTTGTAAATAAAGGTTGGACTTTTA-ATTAAAAGATTGAACTTTT
* * * * * *
31474 AAGTAATTTGTAAGTAAAGATGGGATTTTTAATGAAAAG-TTGAAACCTTTT
1 AAGAAATTTGTAAATAAAGGTTGGACTTTTAATTAAAAGATTG-AA-CTTTT
* ** * * *
31525 AAGCAATTTGTAAATAAA-AATGAAATCTTTAAGTTAAAATATTGAACTTTT
1 AAGAAATTTGTAAATAAAGGTTGGACT-TTTAA-TTAAAAGATTGAACTTTT
**
31576 AACTAATTTGTAAATAAA
1 AAGAAATTTGTAAATAAA
31594 TATGAAATTT
Statistics
Matches: 450, Mismatches: 59, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
49 19 0.04
50 357 0.79
51 64 0.14
52 7 0.02
53 3 0.01
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.36
Consensus pattern (50 bp):
AAGAAATTTGTAAATAAAGGTTGGACTTTTAATTAAAAGATTGAACTTTT
Found at i:31219 original size:20 final size:20
Alignment explanation
Indices: 31188--31275 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
31178 AATTTGTAAA
31188 TAAAAG-TTGAACTTTTAAT
1 TAAAAGATTGAACTTTTAAT
31207 TAAAAGATTGAACTTTTAAGAATTTT
1 TAAAAGATTGAACTTTT---AA---T
*
31233 GTAAATAAAGGTTGAACTTTTAAT
1 -T--A-AAAGATTGAACTTTTAAT
31257 TAAAAGATTGAACTTTTAA
1 TAAAAGATTGAACTTTTAA
31276 GAAATTTGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
19 6 0.11
20 26 0.46
21 1 0.02
23 3 0.05
24 1 0.02
26 1 0.02
27 3 0.05
29 1 0.02
30 14 0.25
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
TAAAAGATTGAACTTTTAAT
Found at i:32246 original size:68 final size:67
Alignment explanation
Indices: 32183--32313 Score: 226
Period size: 68 Copynumber: 1.9 Consensus size: 67
32173 GTTTTCAGTG
32183 TTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGCGTTCTTTTCAATATTTTATTGCTGTTTTCA
1 TTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGCGTTCTTTTCAATATTTTATT-CTGTTTTCA
32248 ACA
65 ACA
* *
32251 TTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGTGTTGTTTTCAATATTTTATTCTCGTTTT
1 TTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGCGTTCTTTTCAATATTTTATTCT-GTTTT
32314 ACCCTTCCCG
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 2 0.03
68 58 0.97
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.48
Consensus pattern (67 bp):
TTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGCGTTCTTTTCAATATTTTATTCTGTTTTCAA
CA
Found at i:32264 original size:20 final size:20
Alignment explanation
Indices: 32222--32265 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
32212 GAAGGCGTTC
* * * *
32222 TTTTCAATATTTTATTGCTG
1 TTTTCAACATTTCATTCCCG
32242 TTTTCAACATTTCATTCCCG
1 TTTTCAACATTTCATTCCCG
32262 TTTT
1 TTTT
32266 GCCCTTCCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTCAACATTTCATTCCCG
Found at i:32312 original size:48 final size:48
Alignment explanation
Indices: 32240--32351 Score: 170
Period size: 48 Copynumber: 2.3 Consensus size: 48
32230 ATTTTATTGC
* * * *
32240 TGTTTTCAACATTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGTGT
1 TGTTTTCAATATTTTATTCCCGTTTTACCCTTCCCGGTCGGAAGGTGT
*
32288 TGTTTTCAATATTTTATTCTCGTTTTACCCTTCCCGGTCGGAAGGTGT
1 TGTTTTCAATATTTTATTCCCGTTTTACCCTTCCCGGTCGGAAGGTGT
*
32336 TGTTTTCAATGTTTTA
1 TGTTTTCAATATTTTA
32352 CTCTTGCTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (48 bp):
TGTTTTCAATATTTTATTCCCGTTTTACCCTTCCCGGTCGGAAGGTGT
Found at i:32363 original size:68 final size:68
Alignment explanation
Indices: 32291--32419 Score: 197
Period size: 68 Copynumber: 1.9 Consensus size: 68
32281 AAGGTGTTGT
* *
32291 TTTCAATATTTTATT-CTCGTTTTACCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTACTC
1 TTTCAATATTTTATTCCT-ATTTTACCCTTCCCGGTCGAAAGGTGTTGTTTTCAATGTTTTACTC
32355 TTGC
65 TTGC
* * *
32359 TTTCAATGTTTTATTCCTATTTTGCCCTTCCTGGTCGAAAGGTGTTGTTTTCAATGTTTTA
1 TTTCAATATTTTATTCCTATTTTACCCTTCCCGGTCGAAAGGTGTTGTTTTCAATGTTTTA
32420 TTCCCGTTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 53 0.96
69 2 0.04
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.50
Consensus pattern (68 bp):
TTTCAATATTTTATTCCTATTTTACCCTTCCCGGTCGAAAGGTGTTGTTTTCAATGTTTTACTCT
TGC
Found at i:32375 original size:116 final size:115
Alignment explanation
Indices: 32171--32546 Score: 509
Period size: 116 Copynumber: 3.2 Consensus size: 115
32161 AAAGAATGGT
* * * * * * *
32171 TTGTTTTCAGTGTTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGCGTTCTTTTCAATATTTTA
1 TTGTTTTCAATATTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTA
*
32236 TTGCTGTTTTCAACATTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGTG
66 TT-CTGTTTTCAATATTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGTG
* *
32287 TTGTTTTCAATATTTTATTCTCGTTTTACCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTA
1 TTGTTTTCAATATTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTA
* * * * ** *
32352 CTCTTGCTTTCAATGTTTTATTCCTATTTTGCCCTTCCTGGTCGAAAGGTG
66 TTC-TGTTTTCAATATTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGTG
* * * *
32403 TTGTTTTCAATGTTTTATTCCCGTTTCGTCCTTCCCGGTCGGAGGGTGTTGTTTTCAATGTTTTA
1 TTGTTTTCAATATTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTA
* *
32468 TTCCTGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTG
66 TT-CTGTTTTCAATATTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGTG
*
32519 TTGTTTTCAATATTTTATTCCTGTTTTG
1 TTGTTTTCAATATTTTATTCCCGTTTTG
32547 AATATTTCAT
Statistics
Matches: 223, Mismatches: 35, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
115 1 0.00
116 221 0.99
117 1 0.00
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (115 bp):
TTGTTTTCAATATTTTATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTA
TTCTGTTTTCAATATTTCATTCCCGTTTTGCCCTTCCTGGTCGGAAGGTG
Found at i:32436 original size:48 final size:48
Alignment explanation
Indices: 32359--32476 Score: 173
Period size: 48 Copynumber: 2.5 Consensus size: 48
32349 TTACTCTTGC
* * *
32359 TTTCAATGTTTTATTCCTATTTTGCCCTTCCTGGTCGAAAGGTGTTGT
1 TTTCAATGTTTTATTCCTGTTTCGCCCTTCCCGGTCGAAAGGTGTTGT
* * * *
32407 TTTCAATGTTTTATTCCCGTTTCGTCCTTCCCGGTCGGAGGGTGTTGT
1 TTTCAATGTTTTATTCCTGTTTCGCCCTTCCCGGTCGAAAGGTGTTGT
32455 TTTCAATGTTTTATTCCTGTTT
1 TTTCAATGTTTTATTCCTGTTT
32477 TCAATATTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.49
Consensus pattern (48 bp):
TTTCAATGTTTTATTCCTGTTTCGCCCTTCCCGGTCGAAAGGTGTTGT
Found at i:32476 original size:68 final size:68
Alignment explanation
Indices: 32404--32748 Score: 564
Period size: 68 Copynumber: 5.1 Consensus size: 68
32394 CGAAAGGTGT
* * * *
32404 TGTTTTCAATGTTTTATTCCCGTTTCGTCCTTCCCGGTCGGAGGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
32469 TCC
66 TCC
*
32472 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
32537 TCC
66 TCC
* * * * *
32540 TGTTTTGAATATTTCATTCCCGTTTCGCTCTTTCCGGTCGGAGGGTGTTGTTTTCAATGTTTTGT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
32605 TCC
66 TCC
* *
32608 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
32673 TCC
66 TCC
*
32676 TGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
32741 TCC
66 TCC
*
32744 CGTTT
1 TGTTT
32749 CGCGCTTCCC
Statistics
Matches: 255, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 255 1.00
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.47
Consensus pattern (68 bp):
TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
TCC
Found at i:32477 original size:20 final size:20
Alignment explanation
Indices: 32452--32496 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32442 CGGAGGGTGT
* *
32452 TGTTTTCAATGTTTTATTCC
1 TGTTTTCAATATTTCATTCC
32472 TGTTTTCAATATTTCATTCC
1 TGTTTTCAATATTTCATTCC
*
32492 CGTTT
1 TGTTT
32497 CGCCCTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.58
Consensus pattern (20 bp):
TGTTTTCAATATTTCATTCC
Found at i:32545 original size:20 final size:20
Alignment explanation
Indices: 32520--32564 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32510 CGGAAGGTGT
*
32520 TGTTTTCAATATTTTATTCC
1 TGTTTTCAATATTTCATTCC
*
32540 TGTTTTGAATATTTCATTCC
1 TGTTTTCAATATTTCATTCC
*
32560 CGTTT
1 TGTTT
32565 CGCTCTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.58
Consensus pattern (20 bp):
TGTTTTCAATATTTCATTCC
Found at i:32627 original size:20 final size:20
Alignment explanation
Indices: 32588--32632 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32578 CGGAGGGTGT
* **
32588 TGTTTTCAATGTTTTGTTCC
1 TGTTTTCAATATTTCATTCC
32608 TGTTTTCAATATTTCATTCC
1 TGTTTTCAATATTTCATTCC
*
32628 CGTTT
1 TGTTT
32633 CGCCCTTCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.18, G:0.11, T:0.58
Consensus pattern (20 bp):
TGTTTTCAATATTTCATTCC
Found at i:32673 original size:252 final size:251
Alignment explanation
Indices: 32288--33184 Score: 1165
Period size: 252 Copynumber: 3.6 Consensus size: 251
32278 CGGAAGGTGT
* * ** *
32288 TGTTTTCAATATTTTATTCTCGTTTTACCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAC
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
* * * * ** * * * *
32353 TCTTGCTTTCAATGTTTTATTCCTATTTTGCCCTTCCTGGTCGAAAGGTGTTGTTTTCAATGTTT
66 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
32418 TATTCCCGTTTCGTCCTTCCCGGTCGGAGGGTGTTGTTTTCAATGTTTTATTCCTGTTTTCAATA
131 TATTCCCGTTTCG-CCTTCCCGGTCGGAGGGTGTTGTTTTCAATGTTTTATTCCTGTTTTCAATA
32483 TTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTTTATTCC
195 TTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTTTATTCC
* * * * *
32540 TGTTTTGAATATTTCATTCCCGTTTCGCTCTTTCCGGTCGGAGGGTGTTGTTTTCAATGTTTTGT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
*
32605 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTAAATATTT
66 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
* * * * ** ** ** *** *** * **
32670 TATTCCTGTTTTCAACATT-TCATTC---CCGT-TTCGCCCTTCCCGGTCGGAAGGTGTTGTTTT
131 TATTCCCG-TTTC-GCCTTCCCGGTCGGAGGGTGTT-G-TTTTCAATGT-TTTA-TTCCTGTTTT
* * * * * *
32730 CAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGTTGTTTTCAATGTTTTATTCC
190 CAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTTTATTCC
* * *
32792 TGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
* *
32857 TCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTT
66 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
*
32922 TATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGTTGTTTTCAATGTTTTATTCCTGTTTTCAATA
131 TATTCCCGTTTCGC-CTTCCCGGTCGGAGGGTGTTGTTTTCAATGTTTTATTCCTGTTTTCAATA
*
32987 TTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTCAATATTTTATTCC
195 TTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTTTATTCC
* *
33044 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAGGGTGATGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
*
33109 TCCTGTTTTCAATATTTCATTACCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
66 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
* *
33174 TTTTCCTGTTT
131 TATTCCCGTTT
33185 TCAATATTTT
Statistics
Matches: 539, Mismatches: 94, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
248 2 0.00
249 3 0.01
250 6 0.01
251 7 0.01
252 503 0.93
253 8 0.01
254 5 0.01
255 3 0.01
256 2 0.00
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (251 bp):
TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
TCCTGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
TATTCCCGTTTCGCCTTCCCGGTCGGAGGGTGTTGTTTTCAATGTTTTATTCCTGTTTTCAATAT
TTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTTTATTCC
Found at i:32681 original size:20 final size:20
Alignment explanation
Indices: 32656--32700 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32646 CGGAAGGTGT
* *
32656 TGTTTTAAATATTTTATTCC
1 TGTTTTAAACATTTCATTCC
*
32676 TGTTTTCAACATTTCATTCC
1 TGTTTTAAACATTTCATTCC
*
32696 CGTTT
1 TGTTT
32701 CGCCCTTCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.07, T:0.56
Consensus pattern (20 bp):
TGTTTTAAACATTTCATTCC
Found at i:32746 original size:116 final size:116
Alignment explanation
Indices: 32608--32864 Score: 415
Period size: 116 Copynumber: 2.2 Consensus size: 116
32598 GTTTTGTTCC
*
32608 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTAT
1 TGTTTTCAATATTTTATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTAT
32673 TCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
66 TCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
* * * * * *
32724 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTTATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTAT
* *
32789 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGT
66 TCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
* *
32840 TGTTTTAAATATTTTATTCCTGTTT
1 TGTTTTCAATATTTTATTCCCGTTT
32865 TCAACATTTC
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 129 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (116 bp):
TGTTTTCAATATTTTATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTAT
TCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
Found at i:32747 original size:48 final size:48
Alignment explanation
Indices: 32676--32796 Score: 179
Period size: 48 Copynumber: 2.5 Consensus size: 48
32666 ATTTTATTCC
** *
32676 TGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
1 TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
* * *
32724 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGT
1 TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
*
32772 TGTTTTCAATGTTTTATTCCTGTTT
1 TGTTTTCAATGTTTTATTCCCGTTT
32797 TCAATATTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.45
Consensus pattern (48 bp):
TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
Found at i:32796 original size:68 final size:67
Alignment explanation
Indices: 32724--32932 Score: 319
Period size: 68 Copynumber: 3.1 Consensus size: 67
32714 CGGAAGGTGT
* * * *
32724 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGC-CTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
32789 TCC
65 TCC
* *
32792 TGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCC-TTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
32857 TCC
65 TCC
*
32860 TGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCG-CCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
32925 TCC
65 TCC
*
32928 CGTTT
1 TGTTT
32933 CGCGCTTCCC
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
67 1 0.01
68 126 0.98
69 2 0.02
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.47
Consensus pattern (67 bp):
TGTTTTCAATATTTCATTCCCGTTTCGCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTATT
CC
Found at i:32797 original size:20 final size:20
Alignment explanation
Indices: 32772--32816 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32762 TGGAGGGTGT
* *
32772 TGTTTTCAATGTTTTATTCC
1 TGTTTTCAATATTTCATTCC
32792 TGTTTTCAATATTTCATTCC
1 TGTTTTCAATATTTCATTCC
*
32812 CGTTT
1 TGTTT
32817 CGCCTTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.58
Consensus pattern (20 bp):
TGTTTTCAATATTTCATTCC
Found at i:32865 original size:20 final size:20
Alignment explanation
Indices: 32840--32884 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32830 CGGAAGGTGT
* *
32840 TGTTTTAAATATTTTATTCC
1 TGTTTTAAACATTTCATTCC
*
32860 TGTTTTCAACATTTCATTCC
1 TGTTTTAAACATTTCATTCC
*
32880 CGTTT
1 TGTTT
32885 CGCCCTTCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.07, T:0.56
Consensus pattern (20 bp):
TGTTTTAAACATTTCATTCC
Found at i:32912 original size:116 final size:116
Alignment explanation
Indices: 32792--33048 Score: 417
Period size: 116 Copynumber: 2.2 Consensus size: 116
32782 GTTTTATTCC
*
32792 TGTTTTCAATATTTCATTCCCGTTTCGC-CTTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTA
1 TGTTTTCAATATTTTATTCCCGTTTCGCGC-TTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTA
32856 TTCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
65 TTCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
* * * * *
32908 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTTATTCCCGTTTCGCGCTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTAT
* *
32973 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGT
66 TCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
*
33024 TGTTTTCAATATTTTATTCCTGTTT
1 TGTTTTCAATATTTTATTCCCGTTT
33049 TCAATATTTC
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
116 129 0.99
117 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (116 bp):
TGTTTTCAATATTTTATTCCCGTTTCGCGCTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTTAT
TCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
Found at i:32931 original size:48 final size:48
Alignment explanation
Indices: 32860--32980 Score: 179
Period size: 48 Copynumber: 2.5 Consensus size: 48
32850 ATTTTATTCC
** *
32860 TGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
1 TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
* * *
32908 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGT
1 TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
*
32956 TGTTTTCAATGTTTTATTCCTGTTT
1 TGTTTTCAATGTTTTATTCCCGTTT
32981 TCAATATTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.45
Consensus pattern (48 bp):
TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
Found at i:32980 original size:68 final size:68
Alignment explanation
Indices: 32908--33389 Score: 515
Period size: 68 Copynumber: 7.1 Consensus size: 68
32898 CGGAAGGTGT
* * * * *
32908 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
32973 TCC
66 TCC
* *
32976 TGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTCAATATTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
33041 TCC
66 TCC
* *
33044 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAGGGTGATGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
33109 TCC
66 TCC
* * *
33112 TGTTTTCAATATTTCATTACCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATATTTTTT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
33177 TCC
66 TCC
** * ** * * ** ** * ** * *
33180 TGTTTTCAATATTTTTTTCCTGTTTTCAACATT-TCATTC---TCGTTTTGCCCTTC-CTAGTCG
1 TGTTTTCAATATTTCATTCCCG-TTTCGCCCTTCCCGGTCGGAAGGTGTTG-TTTTCAAT-GT-T
** * **
33240 GAAGGTGT
62 TTA-TTCC
* * * * *
33248 TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCAGTCAGAGGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
*
33313 TTC
66 TCC
* *
33316 TGTTTTCAATATTTCATTCCTGTTTCGCCCTTCCCGGTCGGAAGGTGTTGCTTTCAATGTTTTAT
1 TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
33381 TCC
66 TCC
33384 TGTTTT
1 TGTTTT
33390 GCCCTTCCCG
Statistics
Matches: 336, Mismatches: 68, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
65 6 0.02
66 4 0.01
67 7 0.02
68 300 0.89
69 8 0.02
70 5 0.01
71 6 0.02
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.48
Consensus pattern (68 bp):
TGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTCAATGTTTTAT
TCC
Found at i:32981 original size:20 final size:20
Alignment explanation
Indices: 32956--33000 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32946 TGGAGGGTGT
* *
32956 TGTTTTCAATGTTTTATTCC
1 TGTTTTCAATATTTCATTCC
32976 TGTTTTCAATATTTCATTCC
1 TGTTTTCAATATTTCATTCC
*
32996 CGTTT
1 TGTTT
33001 CGCCTTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.18, G:0.09, T:0.58
Consensus pattern (20 bp):
TGTTTTCAATATTTCATTCC
Found at i:33049 original size:20 final size:20
Alignment explanation
Indices: 33024--33068 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
33014 CGGAAGGTGT
*
33024 TGTTTTCAATATTTTATTCC
1 TGTTTTCAATATTTCATTCC
33044 TGTTTTCAATATTTCATTCC
1 TGTTTTCAATATTTCATTCC
*
33064 CGTTT
1 TGTTT
33069 CGCCCTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.58
Consensus pattern (20 bp):
TGTTTTCAATATTTCATTCC
Found at i:33136 original size:20 final size:20
Alignment explanation
Indices: 33092--33129 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33082 CGGAGGGTGA
* *
33092 TGTTTTCAATGTTTTATTCC
1 TGTTTTCAATATTTCATTCC
33112 TGTTTTCAATATTTCATT
1 TGTTTTCAATATTTCATT
33130 ACCGTTTCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (20 bp):
TGTTTTCAATATTTCATTCC
Found at i:33173 original size:184 final size:183
Alignment explanation
Indices: 32540--33116 Score: 1010
Period size: 184 Copynumber: 3.1 Consensus size: 183
32530 ATTTTATTCC
* * * * * * *
32540 TGTTTTGAATATTTCATTCCCGTTTCGCTCTTTCCGGTCGGAGGGTGTTGTTTTCAATGTTTTGT
1 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGT-TGAGGGTGTTGTTTTCAATGTTTTAT
*
32605 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGTTGTTTTAAATATTT
65 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTAAATATTT
32670 TATTCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
130 TATTCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
32724 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTT-GAGGGTGTTGTTTTCAATGTTTTAT
32789 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTAAATATTT
65 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTAAATATTT
32854 TATTCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
130 TATTCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
32908 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGGAGGGTGTTGTTTTCAATGTTTTAT
1 TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTT-GAGGGTGTTGTTTTCAATGTTTTAT
*
32973 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTCAATATTT
65 TCCTGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTAAATATTT
* * *
33038 TATTCCTGTTTTCAATATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAGGGTGA
130 TATTCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
*
33092 TGTTTTCAATGTTTTATTCCTGTTT
1 TGTTTTCAATGTTTTATTCCCGTTT
33117 TCAATATTTC
Statistics
Matches: 379, Mismatches: 13, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
184 379 1.00
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (183 bp):
TGTTTTCAATGTTTTATTCCCGTTTCGCGCTTCCCGGTTGAGGGTGTTGTTTTCAATGTTTTATT
CCTGTTTTCAATATTTCATTCCCGTTTCGCCTTTCCCGGTCGGAAGGTGTTGTTTTAAATATTTT
ATTCCTGTTTTCAACATTTCATTCCCGTTTCGCCCTTCCCGGTCGGAAGGTGT
Found at i:33185 original size:20 final size:20
Alignment explanation
Indices: 33160--33213 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
33150 CGGAAGGTGT
33160 TGTTTTCAATATTTTTTTCC
1 TGTTTTCAATATTTTTTTCC
33180 TGTTTTCAATATTTTTTTCC
1 TGTTTTCAATATTTTTTTCC
*
33200 TGTTTTCAACATTT
1 TGTTTTCAATATTT
33214 CATTCTCGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.15, G:0.06, T:0.63
Consensus pattern (20 bp):
TGTTTTCAATATTTTTTTCC
Found at i:33200 original size:88 final size:88
Alignment explanation
Indices: 33092--33272 Score: 265
Period size: 88 Copynumber: 2.1 Consensus size: 88
33082 CGGAGGGTGA
* * *
33092 TGTTTTCAATGTTTTATTCCTGTTTTCAATATTTCATTAC-CGTTTCGCCCTTCCCGGTCGGAAG
1 TGTTTTCAATATTTTATTCCTGTTTTCAACATTTCATT-CTCGTTTCGCCCTTCCCAGTCGGAAG
*
33156 GTGTTGTTTTCAATATTTTTTTCC
65 GTGTTGTTTTCAATATTTTATTCC
* * *
33180 TGTTTTCAATATTTTTTTCCTGTTTTCAACATTTCATTCTCGTTTTGCCCTTCCTAGTCGGAAGG
1 TGTTTTCAATATTTTATTCCTGTTTTCAACATTTCATTCTCGTTTCGCCCTTCCCAGTCGGAAGG
*
33245 TGTTGTTTTCAATGTTTTATTCC
66 TGTTGTTTTCAATATTTTATTCC
*
33268 CGTTT
1 TGTTT
33273 CGCCCTTCCC
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.01
88 82 0.99
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.51
Consensus pattern (88 bp):
TGTTTTCAATATTTTATTCCTGTTTTCAACATTTCATTCTCGTTTCGCCCTTCCCAGTCGGAAGG
TGTTGTTTTCAATATTTTATTCC
Found at i:33305 original size:48 final size:48
Alignment explanation
Indices: 33200--33313 Score: 156
Period size: 48 Copynumber: 2.4 Consensus size: 48
33190 ATTTTTTTCC
** * * * * *
33200 TGTTTTCAACATTTCATTCTCGTTTTGCCCTTCCTAGTCGGAAGGTGT
1 TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCAGTCAGAAGGTGT
*
33248 TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCAGTCAGAGGGTGT
1 TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCAGTCAGAAGGTGT
33296 TGTTTTCAATGTTTTATT
1 TGTTTTCAATGTTTTATT
33314 TCTGTTTTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (48 bp):
TGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCAGTCAGAAGGTGT
Found at i:33321 original size:20 final size:20
Alignment explanation
Indices: 33296--33340 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33286 CAGAGGGTGT
* * *
33296 TGTTTTCAATGTTTTATTTC
1 TGTTTTCAATATTTCATTCC
33316 TGTTTTCAATATTTCATTCC
1 TGTTTTCAATATTTCATTCC
33336 TGTTT
1 TGTTT
33341 CGCCCTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.13, G:0.09, T:0.62
Consensus pattern (20 bp):
TGTTTTCAATATTTCATTCC
Found at i:33330 original size:116 final size:116
Alignment explanation
Indices: 33180--33476 Score: 361
Period size: 116 Copynumber: 2.6 Consensus size: 116
33170 ATTTTTTTCC
*
33180 TGTTTTCAATATTTT-TTTCCTGTTTTCAACATTTCATTCTCGTTTTGCCCTTCCTAGTCGGAAG
1 TGTTTTCAATATTTTATTT-CTGTTTTCAATATTTCATTCTCGTTTTGCCCTTCCTAGTCGGAAG
* * *
33244 GTGTTGTTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCAGTCAGAGGGTGT
65 GTGTTGCTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCAGTCAGAAGGTGA
* * **
33296 TGTTTTCAATGTTTTATTTCTGTTTTCAATATTTCATTC-CTGTTTCGCCCTTCCCGGTCGGAAG
1 TGTTTTCAATATTTTATTTCTGTTTTCAATATTTCATTCTC-GTTTTGCCCTTCCTAGTCGGAAG
* * * *
33360 GTGTTGCTTTCAATGTTTTATTCCTGTTTTGCCCTTCCCGGTCGGAAGGTGA
65 GTGTTGCTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCAGTCAGAAGGTGA
* * * * *
33412 TGTTCTT-AGTATTTTA-TTCTTGTTTTCAATGTTTTATTCTCTTTTTGCCCTCCCCTA-TCGGA
1 TGTT-TTCAATATTTTATTTC-TGTTTTCAATATTTCATTCTCGTTTTGCCCT-TCCTAGTCGGA
33474 AGG
63 AGG
33477 GGTTATTCCT
Statistics
Matches: 154, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
115 4 0.03
116 142 0.92
117 8 0.05
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (116 bp):
TGTTTTCAATATTTTATTTCTGTTTTCAATATTTCATTCTCGTTTTGCCCTTCCTAGTCGGAAGG
TGTTGCTTTCAATGTTTTATTCCCGTTTCGCCCTTCCCAGTCAGAAGGTGA
Found at i:33427 original size:48 final size:48
Alignment explanation
Indices: 33319--33437 Score: 159
Period size: 48 Copynumber: 2.5 Consensus size: 48
33309 TTATTTCTGT
* * *
33319 TTTCAATATTTCATTCCTGTTTCGCCCTTCCCGGTCGGAAGGTGTTGC
1 TTTCAATATTTTATTCCTGTTTTGCCCTTCCCGGTCGGAAGGTGATGC
*
33367 TTTCAATGTTTTATTCCTGTTTTGCCCTTCCCGGTCGGAAGGTGATG-
1 TTTCAATATTTTATTCCTGTTTTGCCCTTCCCGGTCGGAAGGTGATGC
* * *
33414 TTCTTAGTATTTTATTCTTGTTTT
1 TT-TCAATATTTTATTCCTGTTTT
33438 CAATGTTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.03
48 60 0.97
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (48 bp):
TTTCAATATTTTATTCCTGTTTTGCCCTTCCCGGTCGGAAGGTGATGC
Found at i:35464 original size:3 final size:3
Alignment explanation
Indices: 35458--35517 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
35448 CCTTTTTTTT
35458 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
*
35506 CTC TTC TTC TTC
1 TTC TTC TTC TTC
35518 CGATGGCCGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:40408 original size:27 final size:27
Alignment explanation
Indices: 40373--40434 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
40363 ATTTTTTTTC
40373 AAAT-ATATTTCTAA-ATTGCCATTATT-
1 AAATAATATTT-TAATATT-CCATTATTA
*
40399 AAATAATATTTTAATTATTTCATTATTA
1 AAATAATATTTTAA-TATTCCATTATTA
40427 AAATAATA
1 AAATAATA
40435 AAAATTTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 7 0.23
27 13 0.42
28 11 0.35
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (27 bp):
AAATAATATTTTAATATTCCATTATTA
Found at i:41965 original size:24 final size:23
Alignment explanation
Indices: 41943--42027 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
41933 ATAATAAGAA
41943 AGTTA-CAAAATTTCATAGGAAG
1 AGTTATCAAAATTTCATAGGAAG
* *
41965 ATTTATTAAAATTTCATAGGAATG
1 AGTTATCAAAATTTCATAGGAA-G
* * * **
41989 -TTTATTAAAATTTCTTAGTTAG
1 AGTTATCAAAATTTCATAGGAAG
*
42011 -GTTATCAAAGTTTCATA
1 AGTTATCAAAATTTCATA
42028 TTTCATAGGT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
22 18 0.35
23 33 0.63
24 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (23 bp):
AGTTATCAAAATTTCATAGGAAG
Found at i:41975 original size:23 final size:23
Alignment explanation
Indices: 41949--42002 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 23
41939 AGAAAGTTAC
41949 AAAATTTCATAGGAA-GATTTATT
1 AAAATTTCATAGGAATG-TTTATT
41972 AAAATTTCATAGGAATGTTTATT
1 AAAATTTCATAGGAATGTTTATT
41995 AAAATTTC
1 AAAATTTC
42003 TTAGTTAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.41
Consensus pattern (23 bp):
AAAATTTCATAGGAATGTTTATT
Found at i:42066 original size:22 final size:22
Alignment explanation
Indices: 42041--42102 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
42031 CATAGGTAAA
* *
42041 TTATCAAAATTCCATAAAGTGG
1 TTATCAAAATTTCATAAAGTAG
*
42063 TTATCAAAATTTAATAAAGTAG
1 TTATCAAAATTTCATAAAGTAG
*
42085 TTATTAAAATTTCATAAA
1 TTATCAAAATTTCATAAA
42103 AATATTCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (22 bp):
TTATCAAAATTTCATAAAGTAG
Found at i:43335 original size:162 final size:162
Alignment explanation
Indices: 43068--43393 Score: 652
Period size: 162 Copynumber: 2.0 Consensus size: 162
43058 TATTGGCCCA
43068 TAGGCTTCCATGATCAAGTCTACATCTAGTCATCTAGATTGATGCAAGAAGATCTTTATAAAAGT
1 TAGGCTTCCATGATCAAGTCTACATCTAGTCATCTAGATTGATGCAAGAAGATCTTTATAAAAGT
43133 GACAAGCCTATACCTTAATTAAAGCATACTTTCACGGCTTAACAAGATCAAAAAATAAAATGTGA
66 GACAAGCCTATACCTTAATTAAAGCATACTTTCACGGCTTAACAAGATCAAAAAATAAAATGTGA
43198 ACAGCCTACTCGCTTTAACAAGATAAGGCCAC
131 ACAGCCTACTCGCTTTAACAAGATAAGGCCAC
43230 TAGGCTTCCATGATCAAGTCTACATCTAGTCATCTAGATTGATGCAAGAAGATCTTTATAAAAGT
1 TAGGCTTCCATGATCAAGTCTACATCTAGTCATCTAGATTGATGCAAGAAGATCTTTATAAAAGT
43295 GACAAGCCTATACCTTAATTAAAGCATACTTTCACGGCTTAACAAGATCAAAAAATAAAATGTGA
66 GACAAGCCTATACCTTAATTAAAGCATACTTTCACGGCTTAACAAGATCAAAAAATAAAATGTGA
43360 ACAGCCTACTCGCTTTAACAAGATAAGGCCAC
131 ACAGCCTACTCGCTTTAACAAGATAAGGCCAC
43392 TA
1 TA
43394 TTGTTGGACA
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 164 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (162 bp):
TAGGCTTCCATGATCAAGTCTACATCTAGTCATCTAGATTGATGCAAGAAGATCTTTATAAAAGT
GACAAGCCTATACCTTAATTAAAGCATACTTTCACGGCTTAACAAGATCAAAAAATAAAATGTGA
ACAGCCTACTCGCTTTAACAAGATAAGGCCAC
Found at i:46402 original size:25 final size:25
Alignment explanation
Indices: 46374--46424 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
46364 AACAGTGAGA
46374 TCTTGTGGTGAGCGATATATATGTT
1 TCTTGTGGTGAGCGATATATATGTT
46399 TCTTGTGGTGAGCGATATATATGTT
1 TCTTGTGGTGAGCGATATATATGTT
46424 T
1 T
46425 TACTACCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.27, T:0.45
Consensus pattern (25 bp):
TCTTGTGGTGAGCGATATATATGTT
Found at i:50465 original size:13 final size:13
Alignment explanation
Indices: 50443--50487 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
50433 AAACAATGTC
*
50443 TTTTCCTCTTTTT
1 TTTTCATCTTTTT
*
50456 TTTTCATCTTTTC
1 TTTTCATCTTTTT
*
50469 TTTTCCT-TTTTT
1 TTTTCATCTTTTT
50481 TTTTCAT
1 TTTTCAT
50488 TCAACCGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCATCTTTTT
Found at i:51462 original size:132 final size:131
Alignment explanation
Indices: 51204--51458 Score: 386
Period size: 132 Copynumber: 1.9 Consensus size: 131
51194 GTTTAAACTG
* *
51204 TTATAATTTTACTCAACTAAAAACTTTATTTTTATTTAATTAATTCTAATATCCTTACAACTATT
1 TTATAATTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTACAACTATT
* ** *
51269 TAATTTTTACCATTTTACTATTTTAATTAAAAAACTTTTATATATTAGAATTTTTTAAATATACT
66 TAATTTTTACCATTTTACTAATTTAATTAAAAAACTTAGATATATTAGAATTTTTAAAATATACT
51334 T
131 T
* * * * *
51335 TTATAGTTTTATTCAATTAAAAACTCTATTTTTTATTTAATTAAATCTAATATCCTTATACCTAT
1 TTATAATTTTACTCAACTAAAAACTCTA-TTTTTATTTAATTAAATCTAATATCCTTACAACTAT
*
51400 TTTATTTTTACCATTTTACTAATTTAATTAAAAAACTTAGATATATT-GAATTTTTAAAA
65 TTAATTTTTACCATTTTACTAATTTAATTAAAAAACTTAGATATATTAGAATTTTTAAAA
51459 ATATTCCTTA
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
131 35 0.32
132 76 0.68
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.51
Consensus pattern (131 bp):
TTATAATTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTACAACTATT
TAATTTTTACCATTTTACTAATTTAATTAAAAAACTTAGATATATTAGAATTTTTAAAATATACT
T
Found at i:51501 original size:132 final size:132
Alignment explanation
Indices: 51221--51486 Score: 340
Period size: 132 Copynumber: 2.0 Consensus size: 132
51211 TTTACTCAAC
* *
51221 TAAAAACTTTA-TTTTTATTTAATTAATTCTAATATCCTTACAACTATTTAATTTTTACCATTTT
1 TAAAAACTCTATTTTTTATTTAATTAAATCTAATATCCTTACAACTATTTAATTTTTACCATTTT
* ** * ** * * *
51285 ACTATTTTAATTAAAAAACTTTTATATATTAGAATTTTTTAAATATACTTTTATAGTTTTATTCA
66 ACTAATTTAATTAAAAAACTTAGATATATTAGAATTTTTAAAATATACTTAAATAATTGTATTAA
51350 AT
131 AT
* * *
51352 TAAAAACTCTATTTTTTATTTAATTAAATCTAATATCCTTATACCTATTTTATTTTTACCATTTT
1 TAAAAACTCTATTTTTTATTTAATTAAATCTAATATCCTTACAACTATTTAATTTTTACCATTTT
*
51417 ACTAATTTAATTAAAAAACTTAGATATATT-GAATTTTTAAAAATATTCCTTAAATGAAATTGT-
66 ACTAATTTAATTAAAAAACTTAGATATATTAGAATTTTT-AAAATA-TACTTAAAT--AATTGTA
51480 TTAAAT
127 TTAAAT
51486 T
1 T
51487 TTACAGTTTT
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
131 18 0.16
132 81 0.70
133 6 0.05
134 6 0.05
135 4 0.03
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.50
Consensus pattern (132 bp):
TAAAAACTCTATTTTTTATTTAATTAAATCTAATATCCTTACAACTATTTAATTTTTACCATTTT
ACTAATTTAATTAAAAAACTTAGATATATTAGAATTTTTAAAATATACTTAAATAATTGTATTAA
AT
Found at i:57829 original size:20 final size:20
Alignment explanation
Indices: 57801--57838 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57791 AGCTGTGGTA
*
57801 AAATTGATCTGTGGCAAAAC
1 AAATAGATCTGTGGCAAAAC
57821 AAATAGATCTGTGGCAAA
1 AAATAGATCTGTGGCAAA
57839 TCATTAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (20 bp):
AAATAGATCTGTGGCAAAAC
Done.