Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000350.1 Hibiscus syriacus cultivar Beakdansim tig00000644_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: 137817
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:174 original size:17 final size:17
Alignment explanation
Indices: 129--172 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
119 AATTTCATAT
*
129 ATTTTTGAAAATTTATTG
1 ATTTTT-AAAATTAATTG
147 ATTTTTAAAATTAATTG
1 ATTTTTAAAATTAATTG
164 -TTTTTAAAA
1 ATTTTTAAAA
173 ATATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.36
17 10 0.40
18 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
ATTTTTAAAATTAATTG
Found at i:695 original size:27 final size:27
Alignment explanation
Indices: 664--717 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
654 GTGAGTAAGT
664 GTTTTA-AAATAGAATACTTTTATAAAA
1 GTTTTATAAATAGAATA-TTTTATAAAA
* *
691 GTTTTATAACTAGTATATTTTATAAAA
1 GTTTTATAAATAGAATATTTTATAAAA
718 TGATGATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (27 bp):
GTTTTATAAATAGAATATTTTATAAAA
Found at i:943 original size:322 final size:329
Alignment explanation
Indices: 1--1271 Score: 1319
Period size: 322 Copynumber: 3.9 Consensus size: 329
* * *
1 AAACTTTGAAGGTAA-TATTTTAAAATA--AATAATTTTAT-AAAG-TTTATAATTGGTATTATT
1 AAACTTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTATT
61 TTACAAAATGATGATGTTGATGATGATAATAAAATATTTTATAATTTAAAAAATTATAAATTTCA
66 TTACAAAATGATGA---TGATGATG---ATAAAATATTTTATAATTTAAAAAA-TATAAATTTCA
* *
126 TATATTTTTGAAAATTTATTGATTTTTAAAATTAATTGTTTTTAAAAATATAAAAAATATTAAAA
124 -ATATTTTTGAAAATTTATTAACTTTTAAAATTAATTG--TTTAAAAATATAAAAAATATTAAAA
* * * *
191 TAAACTTTAATTA-AAATGAGGAAT-AAATGAATTATTATTCATTAATTATTATTTTTAACAACA
186 TAAACTTTAATTACAATTGAGGGATCAAATGAATTA-TAATAATTAATTATTATTTTTAACAACA
*
254 GTTGATAAT-TTTATTCATTTAAATAAAATT-ATTTGATTTTTGCATGAAATTACACAATACATA
250 GTTGATAATGTTTATTCATTTTAATAAAATTAATTTGATTTTTGCATGAAATTACACAATACATA
* *
317 TAAT-C--TATTGAA
315 TAATCCAGTATAGGA
* *
329 AAACTTTGAGGGTAAGTACTTTAAAATATGAATAA-TTTATAAAAGTTTTACAACTAGTATTTAT
1 AAACTTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTA-TTAT
* *
393 TTTACAAAATGATGATGATGATAATAATATATTTTATAATTTAAAAAATTATAAATTTCATATAT
65 TTTACAAAATGATGATGATGATGATAAAATATTTTATAATTTAAAAAA-TATAAATTTCA-ATAT
458 TTTTGAAAA--TATTAACTTTTAAAATTAATTG--T-----T-T-AAAAATATTAAAA-AAACTT
128 TTTTGAAAATTTATTAACTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAAC-T
* * * *
511 TTAATTACATTTGAGGGATCAAATGAATTATTATGTATTAATTATTATTTTTAACAACGGTTGAT
192 TTAATTACAATTGAGGGATCAAATGAATTATAAT-AATTAATTATTATTTTTAACAACAGTTGAT
* * * * * * *
576 AATGCTTATTC--TTTAAT-AAGTTATTTTAATTTTTTCATAAAATTACACAATACGTATAATCC
256 AATGTTTATTCATTTTAATAAAATTAATTTGATTTTTGCATGAAATTACACAATACATATAATCC
638 AGTATAGGA
321 AGTATAGGA
* * * *
647 AAACTTTGTGAGTAAGTGTTTTAAAATA-GAATACTTTTATAAAAGTTTTATAACTAGTA-TATT
1 AAACTTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTATT
*
710 TTATAAAATGATGATGATGATGATAAAATATTTTATAATTT-AAAAA-ATAAA-TTC-ATATTTT
66 TTACAAAATGATGATGATGATGATAAAATATTTTATAATTTAAAAAATATAAATTTCAATATTTT
*
771 TGAAAAATTTATTGACTTTTAAAATTAATTGTTTAAAAATATAAAAAATATT-AAATAAACTTTT
131 TG-AAAATTTATTAACTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAAC-TTT
* * * **
835 AATTACATTTGAGGGATCAAATGAA-TACAATAATT-ATTATT-TTTTAAACAACAGTTGATTTT
194 AATTACAATTGAGGGATCAAATGAATTATAATAATTAATTATTATTTTTAACAACAGTTGATAAT
* * *
897 GTTTATTCATTTTTAGTAAAATTAATTTGATTTTTGCATGAAATTACACAATCCATATAATCTAG
259 GTTTATTCA-TTTTAATAAAATTAATTTGATTTTTGCATGAAATTACACAATACATATAATCCAG
*
962 TATAAGA
323 TATAGGA
* * * *
969 AAACTTTAAGGGTAA-TATTTTAAAATATGAATAATTTTATAAAA-ATTTATAACTTGTATTTTT
1 AAACTTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTATT
1032 TTAACAAATGTATTTTTTTACAAATGATGATGATGATGATGAAAAATATTTTATAATTTAAAAAC
66 TT-AC--------------A-AAATGATGATGATGATGAT--AAAATATTTTATAATTTAAAAA-
* * * *
1097 TTATAAATTTTATATATTTTTGAAAAATTTATTAAATTTTTAAATTAATTGTTTAAAAATATAAA
112 ATATAAATTTCA-ATATTTTTG-AAAATTTATTAACTTTTAAAATTAATTGTTTAAAAATATAAA
* * * * * * * *
1162 AAATATTAAAACAAACTTCAATTACAATTAAGGGATCAAATTAATTGTTATTCAGTAATTATTAT
175 AAATATTAAAATAAACTTTAATTACAATTGAGGGATCAAATGAATT-ATAATAATTAATTATTA-
* *
1227 TTTTTAACAACAATT-AGTAATGCTTATTCATTTTTAATAAAATTA
238 TTTTTAACAACAGTTGA-TAATGTTTATTCA-TTTTAATAAAATTA
1272 TAATTAATAT
Statistics
Matches: 793, Mismatches: 84, Indels: 109
0.80 0.09 0.11
Matches are distributed among these distances:
310 9 0.01
311 4 0.01
312 3 0.00
313 30 0.04
314 25 0.03
315 54 0.07
316 85 0.11
317 11 0.01
318 76 0.10
319 6 0.01
320 4 0.01
321 37 0.05
322 119 0.15
323 1 0.00
325 20 0.03
327 50 0.06
328 14 0.02
329 11 0.01
330 12 0.02
331 9 0.01
332 10 0.01
333 19 0.02
337 1 0.00
338 19 0.02
340 17 0.02
341 4 0.01
343 5 0.01
344 2 0.00
346 80 0.10
347 8 0.01
348 4 0.01
349 6 0.01
350 1 0.00
351 37 0.05
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (329 bp):
AAACTTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTATT
TTACAAAATGATGATGATGATGATAAAATATTTTATAATTTAAAAAATATAAATTTCAATATTTT
TGAAAATTTATTAACTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTAA
TTACAATTGAGGGATCAAATGAATTATAATAATTAATTATTATTTTTAACAACAGTTGATAATGT
TTATTCATTTTAATAAAATTAATTTGATTTTTGCATGAAATTACACAATACATATAATCCAGTAT
AGGA
Found at i:1049 original size:16 final size:17
Alignment explanation
Indices: 1023--1057 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1013 ATTTATAACT
1023 TGTATTTTTTTAACAAA
1 TGTATTTTTTTAACAAA
1040 TGTATTTTTTT-ACAAA
1 TGTATTTTTTTAACAAA
1056 TG
1 TG
1058 ATGATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (17 bp):
TGTATTTTTTTAACAAA
Found at i:3342 original size:36 final size:34
Alignment explanation
Indices: 3238--3368 Score: 189
Period size: 34 Copynumber: 3.9 Consensus size: 34
3228 ACGGTACTGG
*
3238 ACATTGATACGAATGTACCAAAGCTGATATAATA
1 ACATTGATACGAATGTACCAAAGCTGATATGATA
*
3272 ACATTGATACATAATGTACC-AAG-TGATATGATA
1 ACATTGATAC-GAATGTACCAAAGCTGATATGATA
3305 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGAT--ACGAATGTACCAAAGCTGATATGATA
3341 ACATTGATAC--ATGTACCAAAGCTGATAT
1 ACATTGATACGAATGTACCAAAGCTGATAT
3369 AAATACTCAA
Statistics
Matches: 89, Mismatches: 3, Indels: 12
0.86 0.03 0.12
Matches are distributed among these distances:
32 18 0.20
33 17 0.19
34 23 0.26
35 13 0.15
36 18 0.20
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (34 bp):
ACATTGATACGAATGTACCAAAGCTGATATGATA
Found at i:5756 original size:2 final size:2
Alignment explanation
Indices: 5749--5815 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
5739 TATTCTTCAA
5749 AT AT AT AT AT AT AT A- 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
5790 AT AT AT AT AT AT AT -T AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5816 AATGTTAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 61 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12581 original size:21 final size:21
Alignment explanation
Indices: 12556--12601 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
12546 CCAGAAATAT
12556 TAAAAA-AATTAATATTTTAAA
1 TAAAAATAA-TAATATTTTAAA
12577 TAAAAATAATAATATTTTAAA
1 TAAAAATAATAATATTTTAAA
12598 TAAA
1 TAAA
12602 TTTTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAA
Found at i:14258 original size:28 final size:27
Alignment explanation
Indices: 14153--14293 Score: 94
Period size: 29 Copynumber: 5.1 Consensus size: 27
14143 TTTAGTACAT
* *
14153 GATTTGTTCCCCGATCTAT-TTATGTATGG
1 GATTTGTT-CCCGAT-T-TGTTCTGTATGA
* *
14182 GATTTATTTCCCGATCTGTTTCTGTATGA
1 GATTT-GTTCCCGATTTG-TTCTGTATGA
* * *
14211 GATTTGCTCATCGATATGTTCTGTATGA
1 GATTTGTTC-CCGATTTGTTCTGTATGA
14239 GATTTGTTCCCTGATTTG-T-T-T-TGA
1 GATTTGTTCCC-GATTTGTTCTGTATGA
* * *
14263 GATTTCTTCCCGATTCGTTCTGTATGT
1 GATTTGTTCCCGATTTGTTCTGTATGA
14290 GATT
1 GATT
14294 ATATCCCTGA
Statistics
Matches: 89, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
23 5 0.06
24 14 0.16
25 2 0.02
26 2 0.02
27 9 0.10
28 25 0.28
29 30 0.34
30 2 0.02
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (27 bp):
GATTTGTTCCCGATTTGTTCTGTATGA
Found at i:26431 original size:33 final size:32
Alignment explanation
Indices: 26392--26457 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 32
26382 ATAGAAAGGT
26392 GTGCAGTATAAGCGTAATAACAGTTAAAAAGAA
1 GTGCAGTATAAGCGTAATAACAGTT-AAAAGAA
26425 GTGCAGTATAAGCGTAATAACAGTTAAAAGAA
1 GTGCAGTATAAGCGTAATAACAGTTAAAAGAA
26457 G
1 G
26458 GTAGGGGTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.24
33 25 0.76
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (32 bp):
GTGCAGTATAAGCGTAATAACAGTTAAAAGAA
Found at i:31827 original size:29 final size:32
Alignment explanation
Indices: 31795--31881 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 32
31785 TATTATTATT
31795 AAAATATTATATCTA-TA-ATTTTA-T-AAATA
1 AAAATATTATAT-TATTATATTTTATTAAAATA
*
31824 AAAAAATTATGATTATTATATTTTATTAAAATA
1 AAAATATTAT-ATTATTATATTTTATTAAAATA
* *
31857 AAATTATTATA-AATTATA-TTTATTA
1 AAAATATTATATTATTATATTTTATTA
31882 TTTATTATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
29 11 0.22
30 11 0.22
31 12 0.24
32 2 0.04
33 13 0.27
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
AAAATATTATATTATTATATTTTATTAAAATA
Found at i:31847 original size:31 final size:31
Alignment explanation
Indices: 31812--31877 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
31802 TATATCTATA
*
31812 ATTTTATAAATAAAAAAATTATGAT-TATTAT
1 ATTTTATAAA-AAAAAAATTATGATAAATTAT
* * *
31843 ATTTTATTAAAATAAAATTATTATAAATTAT
1 ATTTTATAAAAAAAAAATTATGATAAATTAT
31874 ATTT
1 ATTT
31878 ATTATTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTTTATAAAAAAAAAATTATGATAAATTAT
Found at i:31862 original size:30 final size:32
Alignment explanation
Indices: 31812--31881 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
31802 TATATCTATA
* *
31812 ATTTTATAAATAAAAAAATTATGAT-TATTAT
1 ATTTTATTAATAAAAAAATTATGATAAATTAT
* *
31843 ATTTTATTAA-AATAAAATTATTATAAATTAT
1 ATTTTATTAATAAAAAAATTATGATAAATTAT
31874 A-TTTATTA
1 ATTTTATTA
31882 TTTATTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.56
31 15 0.44
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (32 bp):
ATTTTATTAATAAAAAAATTATGATAAATTAT
Found at i:32344 original size:200 final size:199
Alignment explanation
Indices: 31984--32449 Score: 632
Period size: 200 Copynumber: 2.3 Consensus size: 199
31974 CATATGTTAT
** *
31984 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTTACAATGTAAACGGTATAAATATATCGAT
1 ATCGAAACCGATAATTATAATGTAATAGGTAAA-TTTACAATGTATCCGGTATAAATATATCGGT
* * *
32049 TTTATGATAGAATAGGTCAACATAATGTATTGAAACAAATTTAAAAAGTGTCGATACATTTTGTC
65 TTTATGAGAAAATAGGTCAACATAATGTATCGAAACAAATTTAAAAAGTGTCGATACATTTTGTC
* * *
32114 CATAATGAATGTCAAATGAGGTGTACGCATAAAGTGTCGATACATTTATTAAAAT-TATCGATCC
130 CAGAATGAATGTCAAACGAGGTGCACGCATAAAGTGTCGATACATTTA--AAAATGTATCGATCC
*
32178 GAAAAAC
193 CAAAAAC
* *
32185 ATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTATCCGGTAGAAATATATCGGTT
1 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTATCCGGTATAAATATATCGGTT
* * ** *** ** *
32250 TTATGAGAAAATAGGTCTACATAATGTATCGACAC-GTTTTAAGTTTGTGTCGATATTTTTTTTC
66 TTATGAGAAAATAGGTCAACATAATGTATCGAAACAAATTTAA-AAAGTGTCGATACATTTTGTC
* *
32314 CAGAATGAATGTCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCA
130 CAGAATGAATGTCAAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAAATGTATCGATCCCA
32379 AAAAC
195 AAAAC
* *
32384 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTGCAATGT-TACCGGTATAAATATACCGGT
1 ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAT-CCGGTATAAATATATCGGT
32448 TT
65 TT
32450 AGTTAGAAAA
Statistics
Matches: 234, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
198 5 0.02
199 80 0.34
200 117 0.50
201 32 0.14
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (199 bp):
ATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTATCCGGTATAAATATATCGGTT
TTATGAGAAAATAGGTCAACATAATGTATCGAAACAAATTTAAAAAGTGTCGATACATTTTGTCC
AGAATGAATGTCAAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAAATGTATCGATCCCAA
AAAC
Found at i:32559 original size:87 final size:87
Alignment explanation
Indices: 32467--32628 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
32457 AAATATATCA
* * *
32467 ATATAAGCATTACCTATTACATTATATAAGTACTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCATTACCTATTACATTATATAAGCACTACCTAATATATTATTATACTTGATAATATTT
32532 CCGGTTAAATACATATTTTATT
66 CCGGTTAAATACATATTTTATT
* * *
32554 ATATAAGCGTTATCTATTACATTATATAAGCGCTACCTAATATATTATTATACTTGATAATATTT
1 ATATAAGCATTACCTATTACATTATATAAGCACTACCTAATATATTATTATACTTGATAATATTT
32619 CCGGTTAAAT
66 CCGGTTAAAT
32629 GATATAACAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (87 bp):
ATATAAGCATTACCTATTACATTATATAAGCACTACCTAATATATTATTATACTTGATAATATTT
CCGGTTAAATACATATTTTATT
Found at i:32600 original size:23 final size:23
Alignment explanation
Indices: 32550--32601 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
32540 ATACATATTT
* * *
32550 TATTATATAAGCGTTATCTATTA
1 TATTATATAAGCGCTACCTAATA
*
32573 CATTATATAAGCGCTACCTAATA
1 TATTATATAAGCGCTACCTAATA
32596 TATTAT
1 TATTAT
32602 TATACTTGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (23 bp):
TATTATATAAGCGCTACCTAATA
Found at i:32603 original size:26 final size:25
Alignment explanation
Indices: 32544--32605 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 25
32534 GGTTAAATAC
* * *
32544 ATATTTTATTATATAAGCGTTATCT
1 ATATATTATTATATAAGCGCTACCT
*
32569 AT-TA-CATTATATAAGCGCTACCT
1 ATATATTATTATATAAGCGCTACCT
32592 AATATATTATTATA
1 -ATATATTATTATA
32606 CTTGATAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 16 0.55
24 3 0.10
25 4 0.14
26 6 0.21
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.45
Consensus pattern (25 bp):
ATATATTATTATATAAGCGCTACCT
Found at i:36313 original size:31 final size:29
Alignment explanation
Indices: 36278--36363 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
36268 CGTCCCCAAC
*
36278 AGGTCGCCATGCATTCCCCAAC-ACCCCTACA
1 AGGTCGCCATGCACT-CCCAACGA--CCTACA
* *
36309 AGGTCGCCAAGCACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAACGACCTACA
* *
36338 AGGTCGCCATGCACTCCTAGCGACCT
1 AGGTCGCCATGCACTCCCAACGACCT
36364 TGTAGGTCGC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 30 0.61
30 5 0.10
31 14 0.29
ACGTcount: A:0.24, C:0.42, G:0.19, T:0.15
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAACGACCTACA
Found at i:36340 original size:29 final size:29
Alignment explanation
Indices: 36303--36391 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 29
36293 CCCCAACACC
36303 CCTACAAGGTCGCCAAGCACTCCCAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
* *
36332 CCTACAAGGTCGCCATGCACTCCTAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
*** * *
36361 CCTTGTAGGTCGCCAAGCAATCCCGGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
36390 CC
1 CC
36392 AAGCCTCGAC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.24, C:0.39, G:0.22, T:0.15
Consensus pattern (29 bp):
CCTACAAGGTCGCCAAGCACTCCCAGCGA
Found at i:36472 original size:32 final size:32
Alignment explanation
Indices: 36431--36495 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
36421 ACTTAACCCT
36431 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
36463 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
36495 G
1 G
36496 GAGATTCCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.31, G:0.29, T:0.28
Consensus pattern (32 bp):
GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
Found at i:36515 original size:23 final size:23
Alignment explanation
Indices: 36481--36524 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
36471 GTGCATGGGT
*
36481 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTAGGAGATTCC
*
36504 TGCATCCTTAGCTAGGAGATT
1 TGCATCCATAGCTAGGAGATT
36525 GTAGCCAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (23 bp):
TGCATCCATAGCTAGGAGATTCC
Found at i:36988 original size:28 final size:30
Alignment explanation
Indices: 36948--37009 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
36938 AATTTAGTTA
36948 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
36976 ATTAGTTTGTTAGTTTAAGTTATATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
37006 ATTA
1 ATTA
37010 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (30 bp):
ATTAGTTTGTTAGTTTAAGTTATATATTAT
Found at i:37322 original size:18 final size:17
Alignment explanation
Indices: 37284--37315 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37274 AGATAATTTC
37284 TGTTTAAAAAGATATTG
1 TGTTTAAAAAGATATTG
37301 TGTTTAAAAA-ATATT
1 TGTTTAAAAAGATATT
37316 TAGTGTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TGTTTAAAAAGATATTG
Found at i:40238 original size:60 final size:60
Alignment explanation
Indices: 40165--40878 Score: 1061
Period size: 60 Copynumber: 12.2 Consensus size: 60
40155 GTATTTATAA
* *
40165 GATTTAGTAATGATTAGTAATGATAAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
40225 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTTATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
40285 GATTTAGTAATGATTAGAAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * * *
40345 GA-TTAGTAAT-AAT-GAAATTAT--TATTAATTTTTAATGA-TT--TG-----ATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATT-ATTATTAAT-ATTTAATGATTTGATAGTAAT
* *
40394 GA-TTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTGATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* * * *
40453 AATTTAGTAATGATTAGCAAAAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
40513 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
40573 AATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
40633 GA-TTAGTAATGATTAGTAATAATGAAATTATTATTATTATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
40692 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
40752 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
40812 GATTTAGTAATGATTAGTAATAATG-AA--ATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
40869 GA-TTAGTAAT
1 GATTTAGTAAT
40879 AATGAAATTA
Statistics
Matches: 602, Mismatches: 36, Indels: 36
0.89 0.05 0.05
Matches are distributed among these distances:
49 18 0.03
50 2 0.00
51 7 0.01
52 9 0.01
53 3 0.00
54 4 0.01
55 3 0.00
56 18 0.03
57 37 0.06
58 2 0.00
59 76 0.13
60 423 0.70
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
Found at i:40272 original size:22 final size:22
Alignment explanation
Indices: 40245--40332 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 22
40235 TGATTAGTAA
40245 TAATGAAATTATTATTAATATT
1 TAATGAAATTATTATTAATATT
**
40267 TAATGATTTTA-TATTAATGATT
1 TAATGAAATTATTATTAAT-ATT
* * *
40289 T-A-GTAATGATTA-GAA-A--
1 TAATGAAATTATTATTAATATT
*
40305 TAATGAAATTATTATTAATTTT
1 TAATGAAATTATTATTAATATT
40327 TAATGA
1 TAATGA
40333 TTTGATAGTA
Statistics
Matches: 47, Mismatches: 11, Indels: 16
0.64 0.15 0.22
Matches are distributed among these distances:
16 1 0.02
17 1 0.02
18 9 0.19
19 2 0.04
20 5 0.11
21 10 0.21
22 19 0.40
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (22 bp):
TAATGAAATTATTATTAATATT
Found at i:40354 original size:24 final size:24
Alignment explanation
Indices: 40327--40407 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
40317 TATTAATTTT
40327 TAATGATTTGATAGTAATGATTAG
1 TAATGATTTGATAGTAATGATTAG
* *** * * * **
40351 TAATAATGAAATTATTATTAATTTT
1 TAATGATTTGA-TAGTAATGATTAG
40376 TAATGATTTGATAGTAATGATTAG
1 TAATGATTTGATAGTAATGATTAG
40400 TAATGATT
1 TAATGATT
40408 AGTAATAATG
Statistics
Matches: 38, Mismatches: 18, Indels: 2
0.66 0.31 0.03
Matches are distributed among these distances:
24 23 0.61
25 15 0.39
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.46
Consensus pattern (24 bp):
TAATGATTTGATAGTAATGATTAG
Found at i:40400 original size:10 final size:10
Alignment explanation
Indices: 40387--40413 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
40377 AATGATTTGA
40387 TAGTAATGAT
1 TAGTAATGAT
40397 TAGTAATGAT
1 TAGTAATGAT
40407 TAGTAAT
1 TAGTAAT
40414 AATGAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:40523 original size:179 final size:179
Alignment explanation
Indices: 40338--41214 Score: 1321
Period size: 179 Copynumber: 5.1 Consensus size: 179
40328 AATGATTTGA
*
40338 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
* * * *
40402 ATGATTAGTAATAATGAAATTGTTATTAATATTTGATGATTTGATAGTAATAATTTAGTAATGAT
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTAATGAT
* * *
40467 TAGCAAAAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATT
130 TAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
* *
40517 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATAATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
40582 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATGATT
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATGATT
*
40647 AGTAATAATGAAATTATTATTATTATTTAATGATTTGATAGTAATGATT
131 AGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
*
40696 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
* *
40761 ATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGAT
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTAATGAT
*
40826 TAGTAATAATG-AA--ATTATTAAT-TTT--T-A-ATGAT--T--TGA--
130 TAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
* *
40862 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATTATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
40927 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGA-TT--T-G--AT-A--A-TAATGATT
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATGATT
*
40982 AGTAATAATGAAA-TATTA--AAT-TTTATTGATTTGATAGTAATGA-T
131 AGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
*
41026 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
*
41091 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTAATAGTAATGATTAGTAATGATT
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATGATT
* *
41156 AGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATT
131 AGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
41204 TAGTAATGATT
1 TAGTAATGATT
41215 TGATAGTAAT
Statistics
Matches: 642, Mismatches: 28, Indels: 57
0.88 0.04 0.08
Matches are distributed among these distances:
155 24 0.04
156 3 0.00
157 5 0.01
158 1 0.00
159 5 0.01
160 2 0.00
161 1 0.00
162 1 0.00
163 4 0.01
164 101 0.16
165 4 0.01
166 99 0.15
167 1 0.00
168 4 0.01
170 3 0.00
171 1 0.00
172 4 0.01
173 4 0.01
174 23 0.04
176 6 0.01
177 28 0.04
178 12 0.02
179 229 0.36
180 77 0.12
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (179 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATGATT
AGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
Found at i:40637 original size:239 final size:239
Alignment explanation
Indices: 40338--41214 Score: 1348
Period size: 239 Copynumber: 3.8 Consensus size: 239
40328 AATGATTTGA
40338 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
* * *
40403 TGATTAGTAATAATGAAATTGTTATTAATATTTGATGATTTGATAGTAATAATTTAGTAATGATT
66 TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATT
* * *
40468 AGCAAAAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA
131 AGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA
*
40533 TAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATAATT
196 TAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATT
40577 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
*
40642 TGATTAGTAATAATGAAATTATTATTATTATTTAATGATTTGATAGTAATGATTTAGTAATGATT
66 TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATT
*
40707 AGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA
131 AGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA
40772 TAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATT
196 TAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATT
40816 TAGTAATGATTAGTAATAATG-AA--ATTATTAATTTTT-A--A--TGAT--T--TGA-TAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
* *
40868 TGATTAGTAATAATGAAATTATTATTAATTTTTAATTATTTGATAGTAATGATTTAGTAATGATT
66 TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATT
*
40933 AGTAATAATGAAATTATTATTAATTTTTAATGA-TT--T-G--AT-A---A-TAATGATTAGTAA
131 AGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA
* *
40987 TAATGAAA-TATTA--AAT-TTTATTGATTTGATAGTAATGA-T
196 TAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATT
* *
41026 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTA
* *
41091 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTAATAGTAATGA-TTAGTAATGAT
65 ATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGAT
* *
41155 TAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATT
130 TAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATT
41215 TGATAGTAAT
Statistics
Matches: 593, Mismatches: 20, Indels: 56
0.89 0.03 0.08
Matches are distributed among these distances:
210 22 0.04
211 23 0.04
212 3 0.01
213 12 0.02
214 5 0.01
215 21 0.04
216 2 0.00
218 4 0.01
219 1 0.00
220 3 0.01
222 25 0.04
223 24 0.04
224 56 0.09
225 3 0.01
226 99 0.17
227 3 0.01
228 2 0.00
229 2 0.00
231 4 0.01
232 1 0.00
233 9 0.02
235 1 0.00
236 13 0.02
238 2 0.00
239 253 0.43
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (239 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATT
AGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAA
TAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATT
Found at i:40639 original size:10 final size:10
Alignment explanation
Indices: 40626--40652 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
40616 AATGATTTGA
40626 TAGTAATGAT
1 TAGTAATGAT
40636 TAGTAATGAT
1 TAGTAATGAT
40646 TAGTAAT
1 TAGTAAT
40653 AATGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:40870 original size:46 final size:48
Alignment explanation
Indices: 40816--41151 Score: 293
Period size: 60 Copynumber: 6.4 Consensus size: 48
40806 AGTAATGATT
40816 TAGTAATGATTAGTAATAATG-AA-ATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATATTATTAATTTTTAATGATTTGA
40862 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATTATTTGATAGTAATGA
1 TAGTAATGATTAGTAATAATGAAA-TATTATTAATTTTT-A--A--TGAT--T--TGA
40920 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAA-TATTATTAATTTTTAATGATTTGA
* *
40971 TAATAATGATTAGTAATAATGAAATATTA--AATTTTATTGATTTGATAGTAATGA
1 TAGTAATGATTAGTAATAATGAAATATTATTAA-TTT-TT-A-ATGAT--T--TGA
*
41025 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGA
1 -TAGTAATGATTAGTAATAATGAAA-TATTATTAAT-TTT--T-A-ATG--ATT--TGA
*
41084 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTAA
1 --TAGTAATGATTAGTAATAATGAAA-TATTATTAATTTTTAATGATTTGA
41135 TAGTAATGATTAGTAAT
1 TAGTAATGATTAGTAAT
41152 GATTAGTAAT
Statistics
Matches: 253, Mismatches: 5, Indels: 61
0.79 0.02 0.19
Matches are distributed among these distances:
46 23 0.09
47 5 0.02
48 7 0.03
49 54 0.21
50 5 0.02
51 5 0.02
52 2 0.01
53 4 0.02
54 7 0.03
55 29 0.11
56 7 0.03
57 4 0.02
58 7 0.03
59 17 0.07
60 75 0.30
61 2 0.01
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (48 bp):
TAGTAATGATTAGTAATAATGAAATATTATTAATTTTTAATGATTTGA
Found at i:40937 original size:60 final size:59
Alignment explanation
Indices: 40862--41214 Score: 292
Period size: 60 Copynumber: 6.2 Consensus size: 59
40852 AATGATTTGA
*
40862 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATTATTTGATAGTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-T
*
40922 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAATAATGAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGAT
* * * * * * *
40981 TAGTAAT-AAT-GAAAT-ATTAAATT-TTATTGATTTGATAGT-A-ATGATTAGTAATGAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTT-TTAATGATTTGA-TAGTAATGAT
* * * * * ** * * * *
41036 TAGTAAT-AAT-GAAATTAT--TATTAATATTTAATGATT--TGATATTAAT-G-ATTTAG
1 TAGTAATGATTAGTAATAATGAAATTATTA-TTAATTTTTAATGAT-TTGATAGTAATGAT
* * *
41089 TAATGAT---TAGTAATAATGAAATTATTATTAATTTTTAATGATTTAATAGTAATGAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGAT
* * *
41145 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-T
41204 TAGTAATGATT
1 TAGTAATGATT
41215 TGATAGTAAT
Statistics
Matches: 236, Mismatches: 38, Indels: 39
0.75 0.12 0.12
Matches are distributed among these distances:
51 1 0.00
52 6 0.03
53 16 0.07
54 19 0.08
55 43 0.18
56 26 0.11
57 4 0.02
58 35 0.15
59 30 0.13
60 56 0.24
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (59 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGAT
Found at i:40989 original size:13 final size:14
Alignment explanation
Indices: 40960--40992 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
40950 TATTAATTTT
*
40960 TAATGATTTGATAA
1 TAATGATTAGATAA
40974 TAATGATTAG-TAA
1 TAATGATTAGATAA
40987 TAATGA
1 TAATGA
40993 AATATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (14 bp):
TAATGATTAGATAA
Found at i:41031 original size:10 final size:10
Alignment explanation
Indices: 41016--41042 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
41006 ATTGATTTGA
41016 TAGTAATGAT
1 TAGTAATGAT
41026 TAGTAATGAT
1 TAGTAATGAT
41036 TAGTAAT
1 TAGTAAT
41043 AATGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:41143 original size:14 final size:14
Alignment explanation
Indices: 41124--41230 Score: 57
Period size: 14 Copynumber: 7.7 Consensus size: 14
41114 TATTAATTTT
41124 TAATGATTTAATAG
1 TAATGATTTAATAG
41138 TAATGA--T--TAG
1 TAATGATTTAATAG
*
41148 TAATGATTAGTAATAA
1 TAATGATT--TAATAG
* *
41164 TAATTTATTATTAATATT
1 TAA-TGA-T-TTAATA-G
* *
41182 TAATGATTTGATAT
1 TAATGATTTAATAG
41196 TAATGA-TT--TAG
1 TAATGATTTAATAG
*
41207 TAATGATTTGATAG
1 TAATGATTTAATAG
41221 TAATGATTTA
1 TAATGATTTA
41231 CGACTTGAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 26
0.69 0.07 0.25
Matches are distributed among these distances:
10 9 0.12
11 8 0.11
12 3 0.04
13 2 0.03
14 26 0.36
15 5 0.07
16 6 0.08
17 9 0.12
18 4 0.05
19 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAATGATTTAATAG
Found at i:41148 original size:10 final size:10
Alignment explanation
Indices: 41135--41161 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
41125 AATGATTTAA
41135 TAGTAATGAT
1 TAGTAATGAT
41145 TAGTAATGAT
1 TAGTAATGAT
41155 TAGTAAT
1 TAGTAAT
41162 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:41185 original size:21 final size:22
Alignment explanation
Indices: 41161--41230 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
41151 TGATTAGTAA
41161 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
41182 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
41205 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
41229 TA
1 TA
41231 CGACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:42247 original size:23 final size:23
Alignment explanation
Indices: 42221--42265 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
42211 AAAATTACAA
*
42221 AAATAATAAAATTTATTTAAATC
1 AAATAATAAAATTAATTTAAATC
* *
42244 AAATAATATAGTTAATTTAAAT
1 AAATAATAAAATTAATTTAAAT
42266 AATAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATAATAAAATTAATTTAAATC
Found at i:44255 original size:20 final size:21
Alignment explanation
Indices: 44213--44259 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
44203 TCCTACAAAA
44213 AATAA-AATAAAGAAATTATT
1 AATAATAATAAAGAAATTATT
*
44233 AATAATAATAAATAAATTA-T
1 AATAATAATAAAGAAATTATT
44253 AATAATA
1 AATAATA
44260 GAAATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAATAATAAAGAAATTATT
Found at i:44737 original size:36 final size:36
Alignment explanation
Indices: 44690--44795 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
44680 CAAAGATTGG
44690 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
44726 TGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
44762 TGTTTCAAGAGAAACCGTCTCAAGAGAGGCAAAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
44796 CTTAGTTTTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:44771 original size:21 final size:21
Alignment explanation
Indices: 44709--44772 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
44699 GGAAACTGTC
*
44709 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGGGACAAAATTTGTT
* *
44730 TC-A-AGGG---AAA-CTGTC
1 TCAAGAGGGACAAAATTTGTT
44745 TCAAGAGGGACAAAATTTGTT
1 TCAAGAGGGACAAAATTTGTT
44766 TCAAGAG
1 TCAAGAG
44773 AAACCGTCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
15 5 0.16
16 4 0.12
17 4 0.12
19 3 0.09
20 4 0.12
21 12 0.38
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (21 bp):
TCAAGAGGGACAAAATTTGTT
Found at i:45654 original size:105 final size:106
Alignment explanation
Indices: 44924--46184 Score: 2133
Period size: 106 Copynumber: 12.0 Consensus size: 106
44914 CCCTTCGTCG
* * *
44924 TGAAGTTGA-AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * * *
44988 CTTGAGTCCAATATCCTTTGCTATGAAGTTGAAATTGTCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
45029 TGAAATT-AGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTG
1 TGAAATTGA-GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
45093 TCTGGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
45135 TGAAATTGAGAAGTTGTTTGTTGACCACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
45200 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
45241 AGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
45306 CTGGAGTCCAATATCCTTCTTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
45347 AGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
45412 CTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
45453 TGAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
45518 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
45559 AGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
45623 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
45664 AGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
45729 CTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
45770 TGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
45834 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
45875 TGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
45939 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
45980 TGAAATTAAGAAATTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
46044 CTGGAGTCCAATATCCTTCGTGGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
46085 TGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
46149 CTTGGA-TTCAAGATCCTTCGTTGAGAAGTTGAAATT
66 C-TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
46185 TACTCTCGAG
Statistics
Matches: 1108, Mismatches: 41, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
104 3 0.00
105 489 0.44
106 615 0.56
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:51285 original size:20 final size:21
Alignment explanation
Indices: 51243--51289 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
51233 TCCTACAAAA
51243 AATAA-AATAAAGAAATTATT
1 AATAATAATAAAGAAATTATT
*
51263 AATAATAATAAATAAATTA-T
1 AATAATAATAAAGAAATTATT
51283 AATAATA
1 AATAATA
51290 GAAATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAATAATAAAGAAATTATT
Found at i:52633 original size:13 final size:13
Alignment explanation
Indices: 52594--52640 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
52584 CTCACAAGAG
52594 CCTTATCTCCCTTT
1 CCTT-TCTCCCTTT
* *
52608 CTTCTTCTTCCTTT
1 CCT-TTCTCCCTTT
52622 CCTTTCTCCCTTT
1 CCTTTCTCCCTTT
52635 -CTTTCT
1 CCTTTCT
52641 TTCTCGGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 9 0.32
14 12 0.43
15 1 0.04
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (13 bp):
CCTTTCTCCCTTT
Found at i:52784 original size:33 final size:33
Alignment explanation
Indices: 52742--52808 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
52732 ATAATTTAGG
*
52742 TGTCACCGACTGTCTCAATTATTTAACCAATAA
1 TGTCACCGACTGCCTCAATTATTTAACCAATAA
*
52775 TGTCACCGACTGCCTCAATTATTTCACCAATAA
1 TGTCACCGACTGCCTCAATTATTTAACCAATAA
52808 T
1 T
52809 TGTGTAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (33 bp):
TGTCACCGACTGCCTCAATTATTTAACCAATAA
Found at i:53015 original size:29 final size:29
Alignment explanation
Indices: 52983--53043 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
52973 GCGACCTACA
* *
52983 AGGTCGCTGGGAGTGCATGGCGACCTTGT
1 AGGTCGCTGGGAGTGCATCGAGACCTTGT
* * *
53012 AGGTTGTTGGGAGTGCTTCGAGACCTTGT
1 AGGTCGCTGGGAGTGCATCGAGACCTTGT
53041 AGG
1 AGG
53044 GGTGTTGGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.15, C:0.16, G:0.41, T:0.28
Consensus pattern (29 bp):
AGGTCGCTGGGAGTGCATCGAGACCTTGT
Found at i:53052 original size:30 final size:29
Alignment explanation
Indices: 52990--53052 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
52980 ACAAGGTCGC
* * *
52990 TGGGAGTGCATGGCGACCTTGTAGGTTGT
1 TGGGAGTGCATCGAGACCTTGTAGGGTGT
*
53019 TGGGAGTGCTTCGAGACCTTGTAGGGGTGT
1 TGGGAGTGCATCGAGACCTTGTA-GGGTGT
53049 TGGG
1 TGGG
53053 GAATGCATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.30
Consensus pattern (29 bp):
TGGGAGTGCATCGAGACCTTGTAGGGTGT
Found at i:69161 original size:2 final size:2
Alignment explanation
Indices: 69154--69192 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
69144 AATTCTTCAA
69154 AT AT AT AT AT 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 AT AT AT AT AT A
69193 GCTTCCGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70110 original size:32 final size:31
Alignment explanation
Indices: 70068--70147 Score: 99
Period size: 32 Copynumber: 2.6 Consensus size: 31
70058 ATTAATATCA
*
70068 TAATATTTTGATTAATTTGAAAGATTATTTTT
1 TAATATTTTGATAAATTT-AAAGATTATTTTT
* * *
70100 TAATTTTTTGATAAATTTAATGATTATTTTA
1 TAATATTTTGATAAATTTAAAGATTATTTTT
*
70131 CAA-ATTTTGATAAATTT
1 TAATATTTTGATAAATTT
70148 TAATGACCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 13 0.31
31 13 0.31
32 16 0.38
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (31 bp):
TAATATTTTGATAAATTTAAAGATTATTTTT
Found at i:70128 original size:31 final size:31
Alignment explanation
Indices: 70067--70200 Score: 128
Period size: 31 Copynumber: 4.3 Consensus size: 31
70057 AATTAATATC
* * *
70067 ATAATATTTTGATTAATTTGAAAGATTATTTT
1 ATAATATTTTGATAAATTT-AATGACTATTTT
* * *
70099 TTAATTTTTTGATAAATTTAATGATTATTTT
1 ATAATATTTTGATAAATTTAATGACTATTTT
* *
70130 ACAA-ATTTTGATAAATTTTAATGACCATTTT
1 ATAATATTTTGATAAA-TTTAATGACTATTTT
** *
70161 ATAAT-TATTTGGGAAGTTTAATGACTATTTT
1 ATAATAT-TTTGATAAATTTAATGACTATTTT
70192 ATAATATTT
1 ATAATATTT
70201 AAAAGGTTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
30 10 0.12
31 51 0.61
32 23 0.27
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (31 bp):
ATAATATTTTGATAAATTTAATGACTATTTT
Found at i:70139 original size:62 final size:62
Alignment explanation
Indices: 70072--70192 Score: 143
Period size: 62 Copynumber: 2.0 Consensus size: 62
70062 ATATCATAAT
* ** * * * *
70072 ATTTTGATTAATTTGAAAGATTATTTTTTAATTTTTTGATAAATTTAATGATTATTTTACAA
1 ATTTTGATAAATTTGAAAGACCATTTTATAATTATTTGAGAAATTTAATGACTATTTTACAA
* * * *
70134 ATTTTGATAAATTTTAATGACCATTTTATAATTATTTGGGAAGTTTAATGACTATTTTA
1 ATTTTGATAAATTTGAAAGACCATTTTATAATTATTTGAGAAATTTAATGACTATTTTA
70193 TAATATTTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
62 48 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (62 bp):
ATTTTGATAAATTTGAAAGACCATTTTATAATTATTTGAGAAATTTAATGACTATTTTACAA
Found at i:76859 original size:55 final size:54
Alignment explanation
Indices: 76800--77350 Score: 312
Period size: 55 Copynumber: 10.1 Consensus size: 54
76790 GTCAGGATAA
* * *
76800 ATAAGACTTGAAAAATCTTCAAATGATGAGTCTGCTCCCTATTCCTTCAG-GAAGT
1 ATAAGACTTGAACAATCTTCAAA-AATGAGTCTGCTCCCTATTCATTCAGAG-AGT
* * *
76855 ATAAGACTCT-AACAATCTTCATAAAATGTGTCTGCTCTCTATTTATTCAGAGAGT
1 ATAAGACT-TGAACAATCTTCA-AAAATGAGTCTGCTCCCTATTCATTCAGAGAGT
* * * * *
76910 ATAAGACTTGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGT
1 ATAAGACTTGAACAATCTTC-A-AAAATGAGTCTGCTCCCTATTCATTCAGAGAGT
* * * * * *
76966 AT-AGAACTCGGAA-AATCTTTAACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGT
1 ATAAG-ACT-TGAACAATCTTCAA-AAATGAGTCTGCTCCCTATTCATTCAGAGAGT
* * * * *
77021 ATAGGAC-T---CAATCTTTAACAAACGTGTCCGCTCCCTATTTC-TTCAGAGAGT
1 ATAAGACTTGAACAATCTTCAA-AAATGAGTCTGCTCCCTA-TTCATTCAGAGAGT
* * * * * * *
77072 AT-AGAACTCGAGCAATCTTCAACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGT
1 ATAAG-ACTTGAACAATCTTCAA-AAATGAGTCTGCTCCCTATTCATTCAGAGAGT
* * * * * *
77127 AT-AGAACTCGAACAATCTTCAACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGT
1 ATAAG-ACTTGAACAATCTTCAA-AAATGAGTCTGCTCCCTATTCATTCAGAGAGT
* * * * * * *
77182 AT-AGAACTCGAACAATCTTCATGAAACGGGTCCGCTCTCTATTCCTTCAGAGAGT
1 ATAAG-ACTTGAACAATCTTCA-AAAATGAGTCTGCTCCCTATTCATTCAGAGAGT
* * *
77237 AT-AGAACTCGAACAATCTTCAACAAACT-TGTCCGCTCCCTATTCATTCAGAGAGT
1 ATAAG-ACTTGAACAATCTTCAA-AAA-TGAGTCTGCTCCCTATTCATTCAGAGAGT
* * * * *
77292 ATAGGAC-T---CAATCTTCAACGAACT-TGTCCGCTCCCTATTCCTTCAGAGAGT
1 ATAAGACTTGAACAATCTTCAA--AAATGAGTCTGCTCCCTATTCATTCAGAGAGT
*
77343 ATAGGACT
1 ATAAGACT
77351 CAATCTTCAA
Statistics
Matches: 438, Mismatches: 35, Indels: 49
0.84 0.07 0.09
Matches are distributed among these distances:
50 1 0.00
51 86 0.20
52 5 0.01
54 5 0.01
55 291 0.66
56 47 0.11
57 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (54 bp):
ATAAGACTTGAACAATCTTCAAAAATGAGTCTGCTCCCTATTCATTCAGAGAGT
Found at i:77187 original size:110 final size:109
Alignment explanation
Indices: 76833--77366 Score: 648
Period size: 110 Copynumber: 5.0 Consensus size: 109
76823 TGATGAGTCT
* * *
76833 GCTCCCTATTCCTTCAG-GAAGTATA-AGACTCTAACAATCTTCATA-AAATGTGTCTGCTCTCT
1 GCTCCCTATTCCTTCAGAG-AGTATAGA-ACTCGAACAATCTTCA-ACAAACGTGTCCGCTCTCT
** * *
76895 ATTTATTCAGAGAGTATA-AGACTTGAACAATCTTCAATAAAACGGGTCC
63 ATTCCTTCAGAGAGTATAGA-AC-TGAACAATCTTCAA-CAAACGTGTCC
* * *
76944 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGGAA-AATCTTTAACAAACGTGTCCGCTCCCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTC-GAACAATCTTCAACAAACGTGTCCGCTCTCTAT
* * *
77008 TCTTTCAGAGAGTATAGGACT---CAATCTTTAACAAACGTGTCC
65 TCCTTCAGAGAGTATAGAACTGAACAATCTTCAACAAACGTGTCC
* *
77050 GCTCCCTATTTCTTCAGAGAGTATAGAACTCGAGCAATCTTCAACAAACGTGTCCGCTCTCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCGCTCTCTATT
77115 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCC
66 CCTTCAGAGAGTATAGAACT-GAACAATCTTCAACAAACGTGTCC
* ** *
77160 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGAAACGGGTCCGCTCTCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCGCTCTCTATT
*
77225 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACTTGTCC
66 CCTTCAGAGAGTATAGAACT-GAACAATCTTCAACAAACGTGTCC
* * * * *
77270 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCGCTCTCTATT
*
77331 CCTTCAGAGAGTATAGGACT---CAATCTTCAACAAACG
66 CCTTCAGAGAGTATAGAACTGAACAATCTTCAACAAACG
77367 AATTTGCTTC
Statistics
Matches: 375, Mismatches: 38, Indels: 29
0.85 0.09 0.07
Matches are distributed among these distances:
102 15 0.04
105 2 0.01
106 128 0.34
107 9 0.02
110 152 0.41
111 65 0.17
112 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (109 bp):
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCGCTCTCTATT
CCTTCAGAGAGTATAGAACTGAACAATCTTCAACAAACGTGTCC
Found at i:77297 original size:271 final size:268
Alignment explanation
Indices: 76833--77366 Score: 801
Period size: 271 Copynumber: 2.0 Consensus size: 268
76823 TGATGAGTCT
* * *
76833 GCTCCCTATTCCTTCAGGAAGTATAAGACTCTAACAATCTTCATAAAATGTGTCTGCTCTCTATT
1 GCTCCCTATTCCTTCAGGAAGTATAAGACTCGAACAATCTTCATAAAACGTGTCCGCTCTCTATT
* *
76898 TATTCAGAGAGTATAAGACTTGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAGAG
66 CATTCAGAGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAGAG
* *
76963 AGTATAGAACTCGGAAAATCTTTAACAAACGTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGAC
131 AGTATAGAACTCGGAAAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGAC
* *
77028 TCAATCTTTAACAAACGTGTCCGCTCCCTATTTCTTCAGAGAGTATAGAACTCGAGCAATCTTCA
196 TCAATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACT----CAATCTTCA
77093 ACAAACGTGTCC
257 ACAAACGTGTCC
*
77105 GCTCTCTATTCCTTCA-GAGAGTAT-AGAACTCGAACAATCTTCA-ACAAACGTGTCCGCTCTCT
1 GCTCCCTATTCCTTCAGGA-AGTATAAG-ACTCGAACAATCTTCATA-AAACGTGTCCGCTCTCT
* *
77167 ATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTC-ATGAAACGGGTCCGCTCTCTATTCCTTC
63 ATTCATTCAGAGAGTATAAG-ACTCGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTC
*
77230 AGAGAGTATAGAACTC-GAACAATCTTCAACAAACTTGTCCGCTCCCTATTCATTCAGAGAGTAT
127 AGAGAGTATAGAACTCGGAA-AATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTAT
* * *
77294 AGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTC
191 AGGACTCAATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCAATCTTC
77359 AACAAACG
256 AACAAACG
77367 AATTTGCTTC
Statistics
Matches: 241, Mismatches: 16, Indels: 15
0.89 0.06 0.06
Matches are distributed among these distances:
267 16 0.07
270 3 0.01
271 143 0.59
272 79 0.33
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (268 bp):
GCTCCCTATTCCTTCAGGAAGTATAAGACTCGAACAATCTTCATAAAACGTGTCCGCTCTCTATT
CATTCAGAGAGTATAAGACTCGAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCCTTCAGAG
AGTATAGAACTCGGAAAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAGGAC
TCAATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCAATCTTCAACAA
ACGTGTCC
Found at i:78718 original size:8 final size:8
Alignment explanation
Indices: 78691--78807 Score: 71
Period size: 8 Copynumber: 13.9 Consensus size: 8
78681 TATTTCTCTT
78691 TTTTTTCA
1 TTTTTTCA
* *
78699 TTTTTCCC
1 TTTTTTCA
78707 TTTTTTCA
1 TTTTTTCA
78715 -TTTTTCA
1 TTTTTTCA
78722 TTTTTTC-
1 TTTTTTCA
78729 TTCCCTTTTCCA
1 TT---TTTT-CA
78741 TTTTTTC-
1 TTTTTTCA
*
78748 TTCTTTT-T
1 TT-TTTTCA
*
78756 TTCTTTTCG
1 TT-TTTTCA
78765 TTTTTTCCA
1 TTTTTT-CA
*
78774 TCATTTTTCT
1 T--TTTTTCA
78784 TTTTTCTCA
1 TTTTT-TCA
78793 TTTTTTCA
1 TTTTTTCA
78801 TTTTTTC
1 TTTTTTC
78808 TCTTTTATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
7 11 0.12
8 48 0.55
9 15 0.17
10 6 0.07
11 6 0.07
12 2 0.02
ACGTcount: A:0.07, C:0.21, G:0.01, T:0.72
Consensus pattern (8 bp):
TTTTTTCA
Found at i:78761 original size:25 final size:25
Alignment explanation
Indices: 78715--78813 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 25
78705 CCTTTTTTCA
78715 TTTTTCAT-TTTTTCTTCCCTTTTCCAT
1 TTTTTCATCTTTTT-TT--CTTTTCCAT
* *
78742 TTTTTCTTCTTTTTTTCTTTT-CGT
1 TTTTTCATCTTTTTTTCTTTTCCAT
78766 TTTTTCCATCATTTTTCTT-TTTTCTCAT
1 TTTTT-CATC-TTTTT-TTCTTTTC-CAT
*
78794 TTTTTCAT-TTTTTCTCTTTT
1 TTTTTCATCTTTTTTTCTTTT
78814 ATTTCTTCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
24 8 0.13
25 17 0.28
26 9 0.15
27 14 0.23
28 12 0.20
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.73
Consensus pattern (25 bp):
TTTTTCATCTTTTTTTCTTTTCCAT
Found at i:78762 original size:18 final size:19
Alignment explanation
Indices: 78715--78818 Score: 70
Period size: 19 Copynumber: 5.3 Consensus size: 19
78705 CCTTTTTTCA
**
78715 TTTTTCATTTTTTCTTCCC
1 TTTTTCATTTTTTCTTCTT
*
78734 TTTTCCATTTTTTCTTCTT
1 TTTTTCATTTTTTCTTCTT
* * *
78753 TTTTTCTTTTCGTTTTTTCCATCA
1 TTTTTCATTT--TTTCTT-C-T-T
*
78777 TTTTTC-TTTTTTC-TCAT
1 TTTTTCATTTTTTCTTCTT
78794 TTTTTCATTTTTTC-TCTT
1 TTTTTCATTTTTTCTTCTT
78812 TTATTTC
1 TT-TTTC
78819 TTCTTCAAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
17 6 0.09
18 12 0.18
19 29 0.43
20 1 0.01
21 8 0.12
22 1 0.01
23 4 0.06
24 6 0.09
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.72
Consensus pattern (19 bp):
TTTTTCATTTTTTCTTCTT
Found at i:78820 original size:9 final size:8
Alignment explanation
Indices: 78690--78820 Score: 50
Period size: 8 Copynumber: 15.2 Consensus size: 8
78680 TTATTTCTCT
78690 TTTTTTTC
1 TTTTTTTC
* *
78698 ATTTTTCC
1 TTTTTTTC
*
78706 CTTTTTTC
1 TTTTTTTC
*
78714 -ATTTTTC
1 TTTTTTTC
*
78721 ATTTTTTC
1 TTTTTTTC
*
78729 TTCCCTTTTCC
1 TT---TTTTTC
*
78740 ATTTTTTC
1 TTTTTTTC
78748 TTCTTTTT-
1 TT-TTTTTC
*
78756 TTCTTTTC
1 TTTTTTTC
*
78764 GTTTTTTCC
1 -TTTTTTTC
*
78773 ATCATTTTTC
1 -T-TTTTTTC
78783 TTTTTTCTC
1 TTTTTT-TC
*
78792 ATTTTTTC
1 TTTTTTTC
78800 ATTTTTTCTC
1 -TTTTTT-TC
78810 TTTTATTTC
1 TTTT-TTTC
78819 TT
1 TT
78821 CTTCAAACAA
Statistics
Matches: 91, Mismatches: 20, Indels: 23
0.68 0.15 0.17
Matches are distributed among these distances:
7 10 0.11
8 33 0.36
9 33 0.36
10 9 0.10
11 6 0.07
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.73
Consensus pattern (8 bp):
TTTTTTTC
Found at i:88454 original size:47 final size:47
Alignment explanation
Indices: 88355--88460 Score: 115
Period size: 47 Copynumber: 2.2 Consensus size: 47
88345 TGTTATCCAC
* *
88355 AAAAAGAAATCCTAACCGCGTGATATCTAATTCGCATGCTTGTTCAA
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTATTCAA
* * *
88402 AAAAA-ATAAACCTAACTGCATGATATCTAGTTCGCATGCATTTATTCGAA
1 AAAAAGA-AATCCTAACCGCATGATATCTAATTCGCATGC--TTATTC-AA
*
88452 AAAACGAAA
1 AAAAAGAAA
88461 ATAAATGACT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
46 1 0.02
47 33 0.69
49 5 0.10
50 8 0.17
51 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCTTATTCAA
Found at i:97671 original size:12 final size:12
Alignment explanation
Indices: 97654--97678 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97644 AATTTTATGT
97654 TAGAAAAATAAA
1 TAGAAAAATAAA
97666 TAGAAAAATAAA
1 TAGAAAAATAAA
97678 T
1 T
97679 TATCAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (12 bp):
TAGAAAAATAAA
Found at i:98466 original size:13 final size:13
Alignment explanation
Indices: 98448--98478 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
98438 TTTAAATAAT
98448 TATATCTACAGTG
1 TATATCTACAGTG
*
98461 TATATCTACAGTT
1 TATATCTACAGTG
98474 TATAT
1 TATAT
98479 ATAAAATCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (13 bp):
TATATCTACAGTG
Found at i:109607 original size:9 final size:10
Alignment explanation
Indices: 109582--109606 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
109572 GAATTGATAG
109582 AAAAAATTAT
1 AAAAAATTAT
109592 AAAAAATTAT
1 AAAAAATTAT
109602 AAAAA
1 AAAAA
109607 TAATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:112412 original size:2 final size:2
Alignment explanation
Indices: 112405--112438 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
112395 TTTCTAAGTG
112405 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
112439 TCACTTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113239 original size:33 final size:37
Alignment explanation
Indices: 113170--113241 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 37
113160 GTTAGAAAAT
* *
113170 ATTTATATATTCTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTCTCTTTAAAAAATTAAAAATCATAAA
*
113207 ATTTATAT-TT-T-TTTACAAAATTAAAAAT-ATAAA
1 ATTTATATATTCTCTTTAAAAAATTAAAAATCATAAA
113240 AT
1 AT
113242 GGTTTAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 7 0.22
34 14 0.44
35 1 0.03
36 2 0.06
37 8 0.25
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (37 bp):
ATTTATATATTCTCTTTAAAAAATTAAAAATCATAAA
Found at i:115291 original size:19 final size:19
Alignment explanation
Indices: 115267--115360 Score: 116
Period size: 19 Copynumber: 4.8 Consensus size: 19
115257 GAATAGTTTA
**
115267 TTGCGATTTTGGTTTCGCG
1 TTGCGATTTTCATTTCGCG
115286 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
**
115305 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
* *
115325 TTGCGATTTTCATTCTCTCA
1 TTGCGATTTTCATT-TCGCG
115345 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
115361 AACCAAAAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
19 32 0.49
20 32 0.49
21 1 0.02
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:117248 original size:93 final size:93
Alignment explanation
Indices: 117044--117418 Score: 591
Period size: 94 Copynumber: 4.1 Consensus size: 93
117034 TAGATTGCTT
* *
117044 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGCT-TA----TTAATACTGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTG-TGTATTCTTTAACACTGTGAAGTTAG
117104 TATTTGTCTTTTGTTTTGTCTTTTGGTTGA
65 TATTTGTC-TTTGTTTTGTCTTTTGGTTGA
*
117134 AGTAAATTTATTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
117199 ATTT-TCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
117227 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
117292 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * *
117321 AGTAAATTTGTTCGTTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
117386 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
117414 AGTAA
1 AGTAA
117419 TGCAGTCCAT
Statistics
Matches: 269, Mismatches: 9, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
89 1 0.00
90 38 0.14
92 20 0.07
93 76 0.28
94 134 0.50
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:117355 original size:187 final size:183
Alignment explanation
Indices: 117044--117418 Score: 603
Period size: 187 Copynumber: 2.0 Consensus size: 183
117034 TAGATTGCTT
*
117044 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGCTTATTAATACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGCTTATTAACACTGTGAAGTTAGTATTT
*
117109 GTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGTTTGCTGCCAATTCTGCTAAACTGTG
66 GTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGTTTGCTGCCAATTATGCTAAACTGTG
*
117174 TATTCTTTAACACTGTGAAGTTAGTATTT-TCTTTGTTTTGTCTTTTGGTTGAA
131 TATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* *
117227 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG-TGTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGCT-TA----TTAACACTGTGAAGTTAG
*
117291 TATTTGTC-TTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGTTTGCTGCCAATTATGCTAA
61 TATTTGTCTTTTGTTTTGTCTTTTGGTTG-AAGTAAATTTATTCGTTTGCTGCCAATTATGCTAA
*
117355 ACTGTGTATTCTTTAATACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
125 ACTGTGTATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
117414 AGTAA
1 AGTAA
117419 TGCAGTCCAT
Statistics
Matches: 178, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
182 1 0.01
183 38 0.21
186 20 0.11
187 97 0.54
188 22 0.12
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (183 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGCTTATTAACACTGTGAAGTTAGTATTT
GTCTTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGTTTGCTGCCAATTATGCTAAACTGTG
TATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:117536 original size:20 final size:20
Alignment explanation
Indices: 117511--117585 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
117501 TTTTGGTTGA
117511 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
117531 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
**
117550 AACAAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
117570 AATGAAAATCGCAACG
1 AATGAAAATCGCAACG
117586 CGAAACTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 16 0.33
20 32 0.67
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:117558 original size:39 final size:39
Alignment explanation
Indices: 117515--117600 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
117505 GGTTGAAATG
117515 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACA
1 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACA
*
117554 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACT
1 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACA
*
117593 ATAATCGC
1 AAAATCGC
117601 GTTGCGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.49, C:0.21, G:0.20, T:0.10
Consensus pattern (39 bp):
AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACA
Found at i:117600 original size:19 final size:19
Alignment explanation
Indices: 117515--117600 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 19
117505 GGTTGAAATG
*
117515 AAAATCGCAACGAGAGAA-T
1 AAAATCGCAACGCGA-AACT
*
117534 GAAAATCGCAACGCGAAACA
1 -AAAATCGCAACGCGAAACT
*
117554 AAAATCGCAACGAGAGAA-T
1 AAAATCGCAACGCGA-AACT
117573 GAAAATCGCAACGCGAAACT
1 -AAAATCGCAACGCGAAACT
*
117593 ATAATCGC
1 AAAATCGC
117601 GTTGCGATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
19 25 0.45
20 31 0.55
ACGTcount: A:0.49, C:0.21, G:0.20, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:117619 original size:19 final size:19
Alignment explanation
Indices: 117597--117741 Score: 140
Period size: 19 Copynumber: 7.8 Consensus size: 19
117587 GAAACTATAA
*
117597 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
*
117616 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
117630 TCTCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
117649 TCGCGTTGCGATTTTCGTT
1 TCGCGTTGCGATTTTCATT
117668 TCGCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
117686 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
**
117706 TCGCGTTGCGATAGTCATTTT
1 TCGCGTTGCGATTTTCA--TT
*
117727 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
117742 AAGTTCCAGA
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
14 9 0.09
16 2 0.02
17 2 0.02
18 6 0.06
19 61 0.60
20 7 0.07
21 14 0.14
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:118218 original size:21 final size:21
Alignment explanation
Indices: 118194--118263 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
118184 TCATTCCTCG
118194 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
118215 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
118236 AGAAGT-CCCTCCCACCATTCA
1 AG-AGTCCCCTCCCACCGTTCA
118257 AGAGTCC
1 AGAGTCC
118264 GATTCACATG
Statistics
Matches: 34, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 3 0.09
21 29 0.85
22 2 0.06
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.20
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:118218 original size:42 final size:42
Alignment explanation
Indices: 118142--118260 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
118132 GACTCGCCTG
* * * * * * *
118142 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
118184 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
118226 TCA-TCGTTGAAGAAGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AG-AGTCCCCTCCCACCGTTCAAGAG
118261 TCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 57 0.89
43 3 0.05
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:119821 original size:19 final size:19
Alignment explanation
Indices: 119771--119814 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
119761 GCAACAAGAG
119771 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
119790 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
119809 ATTCGC
1 AATCGC
119815 GTTGCGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:119856 original size:33 final size:33
Alignment explanation
Indices: 119814--119907 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
119804 ACTAAATTCG
*
119814 CGTTGCGATTTTCAGTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCAGTTCGCATTGCGATTCCCT
* *
119847 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCAGTTCGCATTGCGATTCCCT
119880 CGTTGCGATTTTC-GTTTCGCATTGCGAT
1 CGTTGCGATTTTCAG-TTCGCATTGCGAT
119908 AGTCATTTCC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCAGTTCGCATTGCGATTCCCT
Found at i:119873 original size:19 final size:19
Alignment explanation
Indices: 119849--119927 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 19
119839 GATTCCCTCG
119849 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
119868 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
119882 TTGCGATTTTCGTTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
119901 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
119921 TTGCGAT
1 TTGCGAT
119928 AGACATTAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.15
17 7 0.15
19 18 0.38
20 10 0.21
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:119926 original size:20 final size:20
Alignment explanation
Indices: 119901--119973 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
119891 TCGTTTCGCA
*
119901 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* **
119921 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
119941 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
119962 TTGCGATAGTCA
1 TTGCGATAGTCA
119974 AATGAATACC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:122480 original size:24 final size:24
Alignment explanation
Indices: 122446--122499 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
122436 CTGAAAAATC
122446 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
122470 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
122494 ATCAAA
1 ATCAAA
122500 TTTTCAAATA
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:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:123378 original size:20 final size:20
Alignment explanation
Indices: 123362--123427 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
123352 CAGAATCTCG
123362 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
123382 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
*
123402 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
123422 TTGCGA
1 TTGCGA
123428 ATTAGGAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATTTACGTAATCGCA
Found at i:123448 original size:21 final size:21
Alignment explanation
Indices: 123424--123469 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
123414 TATTCGCATT
123424 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
123445 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
123466 GCGA
1 GCGA
123470 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:124117 original size:22 final size:22
Alignment explanation
Indices: 124054--124222 Score: 207
Period size: 22 Copynumber: 7.5 Consensus size: 22
124044 ATTTTAAAAT
124054 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
**
124076 TTTATTATTATAGTTGTATGGATTGA
1 TTTATT-TTA-A--AATATGGATTGA
***
124102 TTTATTTTAAAATAT-GAAAAA
1 TTTATTTTAAAATATGGATTGA
124123 TTTTATTTT-AAATATGGATTGA
1 -TTTATTTTAAAATATGGATTGA
*
124145 TTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATGGATTGA
* *
124167 TTTCTTTTAAAATATGGATTTA
1 TTTATTTTAAAATATGGATTGA
124189 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGGATTGA
124211 TTTATTTTAAAA
1 TTTATTTTAAAA
124223 AAATTATTAT
Statistics
Matches: 124, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
21 17 0.14
22 83 0.67
23 3 0.02
24 2 0.02
25 3 0.02
26 16 0.13
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (22 bp):
TTTATTTTAAAATATGGATTGA
Found at i:124303 original size:31 final size:31
Alignment explanation
Indices: 124246--124304 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
124236 CATTGTATGG
*
124246 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTACAAAACTAAA
*
124277 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTACAAAACT
124305 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTACAAAACTAAA
Found at i:124524 original size:2 final size:2
Alignment explanation
Indices: 124517--124555 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
124507 TTCACAACAA
124517 AT AT AT AT AT 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 AT AT AT AT AT A
124556 AGAAGCAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:126370 original size:17 final size:18
Alignment explanation
Indices: 126337--126376 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
126327 ATAGAATTAG
*
126337 AATCTGTGAAGGAATTGA
1 AATCTGTCAAGGAATTGA
*
126355 AATCTGTCAA-GAATTGG
1 AATCTGTCAAGGAATTGA
126372 AATCT
1 AATCT
126377 AATTCTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (18 bp):
AATCTGTCAAGGAATTGA
Found at i:126825 original size:2 final size:2
Alignment explanation
Indices: 126818--126849 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
126808 TAATTGAAGA
126818 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
126850 GGGTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127033 original size:25 final size:21
Alignment explanation
Indices: 126972--127021 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
126962 AACTAACACG
*
126972 ACCCGACCAAAATAAAGTTTC
1 ACCCAACCAAAATAAAGTTTC
126993 ACCCAACCAAAATAAAGTTTC
1 ACCCAACCAAAATAAAGTTTC
127014 ACCCAACC
1 ACCCAACC
127022 CTGCAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.34, G:0.06, T:0.16
Consensus pattern (21 bp):
ACCCAACCAAAATAAAGTTTC
Found at i:127788 original size:18 final size:19
Alignment explanation
Indices: 127745--127791 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
127735 ATTATCTTTC
*
127745 TTCTTTACTTTTATTTCAT
1 TTCTTTAATTTTATTTCAT
* *
127764 ATC-TTAATTTTA-TTGAT
1 TTCTTTAATTTTATTTCAT
127781 TTCTTTAATTT
1 TTCTTTAATTT
127792 AGGGTCTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 6 0.26
18 15 0.65
19 2 0.09
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (19 bp):
TTCTTTAATTTTATTTCAT
Found at i:129636 original size:82 final size:80
Alignment explanation
Indices: 129415--129643 Score: 250
Period size: 82 Copynumber: 2.8 Consensus size: 80
129405 TTGAAACCAC
*
129415 TTAAATAGTTATATAATCATATTGCCAAATTTAAAGCATAATGATCAAATCGATGCCAACTCCAT
1 TTAAGTAGTTATATAATCATATTGCCAAATTTAAAGCATAATGATCAAATCGATGCCAACTCCAT
** ***
129480 AGTTAATCGATTAAT
66 AGAAAAAAAATTAAT
* * *
129495 TTAAGTAGTTGATCA-AAT-TTATATG--ATCATTAAAAGCATAATGATCAAATCGATGCCAACT
1 TTAAGTAGTT-AT-ATAATCATAT-TGCCA-AATTTAAAGCATAATGATCAAATCGATGCCAACT
**
129556 CCATAGCAAAAAAAATATCGT
62 CCATAG-AAAAAAAAT-TAAT
* * *
129577 TTAAGTAGTTATATGATCATATTGCCAAATTTAAAGCATTATGATCAAATCGATCCCAACTCCAT
1 TTAAGTAGTTATATAATCATATTGCCAAATTTAAAGCATAATGATCAAATCGATGCCAACTCCAT
129642 AG
66 AG
129644 TTAAGCGATT
Statistics
Matches: 122, Mismatches: 17, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
79 1 0.01
80 51 0.42
81 17 0.14
82 52 0.43
83 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (80 bp):
TTAAGTAGTTATATAATCATATTGCCAAATTTAAAGCATAATGATCAAATCGATGCCAACTCCAT
AGAAAAAAAATTAAT
Found at i:137576 original size:30 final size:30
Alignment explanation
Indices: 137540--137600 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
137530 ACTTTGCTAC
137540 CTTTTTAGATGCAATTTTGACATTTTGGTA
1 CTTTTTAGATGCAATTTTGACATTTTGGTA
137570 CTTTTTAGATGCAATTTTGACATTTTGGTA
1 CTTTTTAGATGCAATTTTGACATTTTGGTA
137600 C
1 C
137601 CAAATTGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.49
Consensus pattern (30 bp):
CTTTTTAGATGCAATTTTGACATTTTGGTA
Done.