Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 110 of 438
Found at i:31883811 original size:11 final size:11
Alignment explanation
Indices: 31883786--31883820 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
31883776 AAATTTTAAC
31883786 ATATAAAAGATAT
1 ATATAAAA-A-AT
31883799 ATATAAAAAAT
1 ATATAAAAAAT
31883810 ATATAAAAAAT
1 ATATAAAAAAT
31883821 TAGTTGATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.59
12 1 0.05
13 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:31884557 original size:22 final size:22
Alignment explanation
Indices: 31884514--31884557 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31884504 TATAAATCAA
31884514 GATTAAACAAATAATAAGAATT
1 GATTAAACAAATAATAAGAATT
31884536 GATTAAACAAATAATAAGAATT
1 GATTAAACAAATAATAAGAATT
31884558 TTATCTCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (22 bp):
GATTAAACAAATAATAAGAATT
Found at i:31885281 original size:23 final size:23
Alignment explanation
Indices: 31885251--31885297 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
31885241 GAATTATTGG
* *
31885251 AATTTATTTTTTATTTCGAGCCT
1 AATTTATTTTTCATTTCGAACCT
31885274 AATTTATTTTTCATTTCGAACCT
1 AATTTATTTTTCATTTCGAACCT
31885297 A
1 A
31885298 TAGGGGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (23 bp):
AATTTATTTTTCATTTCGAACCT
Found at i:31887545 original size:40 final size:39
Alignment explanation
Indices: 31887463--31887683 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 39
31887453 TATTCGGATG
* *
31887463 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTACT
31887502 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATT-ACT
* *
31887542 ATATCCGGGCTAAGTCCTGAAGGC-GTTTGTG-TGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCT-A-TTACT
* * ** *
31887582 ATATCTGGGCTAAGTCCTGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTACT
* * * *
31887622 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTACT
*
31887662 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31887684 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 42 0.27
40 113 0.72
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTACT
Found at i:31887604 original size:80 final size:78
Alignment explanation
Indices: 31887463--31887683 Score: 266
Period size: 80 Copynumber: 2.8 Consensus size: 78
31887453 TATTCGGATG
* *
31887463 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCT-AG-TGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTG-TGAGTTG-CTATAT-CGGGCTAAGTCCCGAAGGC
*
31887526 AGTTGTGCTATTAACT
63 AGTTGTGCTAGTAACT
* * *
31887542 ATATCCGGGCTAAGTCCTGAAGGCGTTTGTGTGAGTTGCTATATCTGGGCTAAGTCCTGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGTGAGTTGCTATATC-GGGCTAAGTCCCGAAGGCA
* *
31887607 TTTGTGCTAGTGACT
64 GTTGTGCTAGTAACT
* * * *
31887622 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGTGAGTTGCTATATCGGGCTAAGTCCCGAAGG
31887684 TACTTGGGTT
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
79 39 0.32
80 82 0.67
81 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (78 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGTGAGTTGCTATATCGGGCTAAGTCCCGAAGGCAGT
TGTGCTAGTAACT
Found at i:31891438 original size:27 final size:27
Alignment explanation
Indices: 31891390--31891548 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
31891380 GCGAGACTGC
* *
31891390 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
31891417 GAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
31891443 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
31891470 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
31891497 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
31891524 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
31891549 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 9 0.08
27 101 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:31891483 original size:54 final size:54
Alignment explanation
Indices: 31891408--31891548 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
31891398 GTGACGAAGT
* *
31891408 CACCAGAT-AGAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATA-ATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
31891462 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
31891516 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
31891549 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 78 0.95
55 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:31893184 original size:26 final size:26
Alignment explanation
Indices: 31893154--31893261 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
31893144 TGAAATGCCC
31893154 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
31893180 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
31893206 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
31893232 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
31893258 ATCA
1 ATCA
31893262 ATTTTTATCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:31901435 original size:22 final size:19
Alignment explanation
Indices: 31901373--31901469 Score: 52
Period size: 22 Copynumber: 4.6 Consensus size: 19
31901363 CTGTTATGTT
31901373 TTATTATTTTACTGTCATTTTA
1 TTATTATTTT--TGT-ATTTTA
* *
31901395 ATATTATATTGTTACTATTTTA
1 TTATTAT-TT-TT-GTATTTTA
*
31901417 TTATTATTGTTTGCATATTGTA
1 TTATTATT-TTTG--TATTTTA
*
31901439 TAATTATTATTT-TATTTTA
1 TTATTATT-TTTGTATTTTA
*
31901458 ATATTATTTTTG
1 TTATTATTTTTG
31901470 AAGCATTTGC
Statistics
Matches: 58, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
18 3 0.05
19 12 0.21
21 3 0.05
22 36 0.62
23 3 0.05
24 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (19 bp):
TTATTATTTTTGTATTTTA
Found at i:31908859 original size:2 final size:2
Alignment explanation
Indices: 31908846--31908877 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
31908836 TTCATATACT
*
31908846 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31908878 AATACCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31909073 original size:17 final size:17
Alignment explanation
Indices: 31909051--31909086 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
31909041 ACACAACAAG
31909051 CATCCAAATTTACTATT
1 CATCCAAATTTACTATT
31909068 CATCCAAATTTACTATT
1 CATCCAAATTTACTATT
31909085 CA
1 CA
31909087 AACAGTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (17 bp):
CATCCAAATTTACTATT
Found at i:31910769 original size:86 final size:86
Alignment explanation
Indices: 31910617--31910776 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 86
31910607 CATATCGTAC
* * * *
31910617 ATGCCAACGTCCTAGACGTGGTATTACATGTAATCACATGTCGATGCCACTGTCCTAGATAGGGT
1 ATGCCAACGTCCCAGACATGGTATTACATGAAATCACATATCGATGCCACTGTCCTAGATAGGGT
31910682 CTTACACGAATCACAATTACG
66 CTTACACGAATCACAATTACG
* * *
31910703 ATGCCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATCGATGCCAAC-GTCCTAGA-CGT
1 ATGCCAACGTCCCAGACATGGTATTACAT-GAAATCACATATCGATGCC-ACTGTCCTAGATAG-
31910765 GGTCTTACACGA
63 GGTCTTACACGA
31910777 GAACACATCA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
85 2 0.03
86 60 0.94
87 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTATTACATGAAATCACATATCGATGCCACTGTCCTAGATAGGGT
CTTACACGAATCACAATTACG
Found at i:31910784 original size:43 final size:42
Alignment explanation
Indices: 31910603--31910784 Score: 163
Period size: 43 Copynumber: 4.2 Consensus size: 42
31910593 CTCAAATTAT
* *
31910603 AACACATATCGTACATGCCAACGTCCTAGACGTGGTATTACATGTA
1 AACACATATCG---ATGCCAACGTCCTAGACGTGGTCTTACACG-A
* * *
31910649 ATCACATGTCGATGCC-ACTGTCCTAGATAG-GGTCTTACACGA
1 AACACATATCGATGCCAAC-GTCCTAGA-CGTGGTCTTACACGA
* * * * *
31910691 ATCACA-ATTACGATGCCAATGTCCCAGACATGGTCTTACTCGA
1 AACACATA-T-CGATGCCAACGTCCTAGACGTGGTCTTACACGA
31910734 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGA
1 AA-CACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGA
31910777 GAACACAT
1 -AACACAT
31910785 CAAAAATCCT
Statistics
Matches: 111, Mismatches: 16, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
42 10 0.09
43 82 0.74
44 9 0.08
45 1 0.01
46 9 0.08
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
AACACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGA
Found at i:31915886 original size:102 final size:102
Alignment explanation
Indices: 31915709--31915913 Score: 374
Period size: 102 Copynumber: 2.0 Consensus size: 102
31915699 AGAATCTGCC
*
31915709 AGAATTAAGATCAATGTAGATTTCAACTTAAAAGATTCGTTAGTTTTATTATCCGCCAAGAGTGA
1 AGAATTAAGATCAATGTAGATTTCAACTTAAAAGATTCATTAGTTTTATTATCCGCCAAGAGTGA
*
31915774 TATTTGTGAGTACCCATCCTAAAGGAAAAAATATTCT
66 TATTTATGAGTACCCATCCTAAAGGAAAAAATATTCT
*
31915811 AGAATTAAGATCAATGTAGATTTCAACTTAAGAGATTCATTAGTTTTATTATCCGCCAAGAGTGA
1 AGAATTAAGATCAATGTAGATTTCAACTTAAAAGATTCATTAGTTTTATTATCCGCCAAGAGTGA
*
31915876 TATTTATGAGTACCCATCCTAAGGGAAAAAATATTCT
66 TATTTATGAGTACCCATCCTAAAGGAAAAAATATTCT
31915913 A
1 A
31915914 TGTCGATTTG
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (102 bp):
AGAATTAAGATCAATGTAGATTTCAACTTAAAAGATTCATTAGTTTTATTATCCGCCAAGAGTGA
TATTTATGAGTACCCATCCTAAAGGAAAAAATATTCT
Found at i:31922036 original size:47 final size:45
Alignment explanation
Indices: 31921963--31922232 Score: 190
Period size: 47 Copynumber: 5.8 Consensus size: 45
31921953 TGATTTGTGC
*
31921963 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCCAGA-GAGA
* * * * *
31922011 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCAT--ATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCATCCA-GA-GAGA
* * *
31922057 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATC--CAGAGAGA
* * * * * *
31922104 GCCAGTGTAAGACGTGTCTGGGACACGCATTGGC-T-AAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCCAGAG-AGA
* * *
31922148 GCAAGTGTAAGACATGTCTGGGACATGCATCAGCA-CGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATC-C--AGA-GAGA
* *
31922196 GCCAGTATAAGACCATGTCTCGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
31922233 ATTTATTCTA
Statistics
Matches: 172, Mismatches: 35, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
43 4 0.02
44 29 0.17
45 4 0.02
46 37 0.22
47 50 0.29
48 25 0.15
49 15 0.09
50 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.21
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCCAGAGAGA
Found at i:31922428 original size:20 final size:20
Alignment explanation
Indices: 31922403--31922464 Score: 124
Period size: 20 Copynumber: 3.1 Consensus size: 20
31922393 AGACTCGAGT
31922403 AGATGATAATGAGTAAGTTA
1 AGATGATAATGAGTAAGTTA
31922423 AGATGATAATGAGTAAGTTA
1 AGATGATAATGAGTAAGTTA
31922443 AGATGATAATGAGTAAGTTA
1 AGATGATAATGAGTAAGTTA
31922463 AG
1 AG
31922465 TTATTCATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (20 bp):
AGATGATAATGAGTAAGTTA
Found at i:31923414 original size:72 final size:72
Alignment explanation
Indices: 31923326--31923469 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
31923316 AAGTTGAAAG
*
31923326 TTAGTTCAAATGTGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGTATTGTTGATGTA
1 TTAGTTCAAATATGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGTATTGTTGATGTA
31923391 TTTGAAC
66 TTTGAAC
*
31923398 TTAGTTCAAATATGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGTGTTGTTGATGTA
1 TTAGTTCAAATATGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGTATTGTTGATGTA
31923463 TTTGAAC
66 TTTGAAC
31923470 ATATAAAATG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.42
Consensus pattern (72 bp):
TTAGTTCAAATATGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGTATTGTTGATGTA
TTTGAAC
Found at i:31924106 original size:49 final size:49
Alignment explanation
Indices: 31924034--31924127 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
31924024 TCAAAAAGGC
*
31924034 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAATTTAGCAAAGT
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAATTTAGCAAAGT
*
31924083 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAATTTAGCA
31924128 TTACATAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAATTTAGCAAAGT
Found at i:31924694 original size:12 final size:12
Alignment explanation
Indices: 31924666--31924707 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
31924656 ACACACACGC
*
31924666 CCGTGTGACTAGC
1 CCGTGTG-CTAGG
31924679 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
31924691 CCGTGTACTAGG
1 CCGTGTGCTAGG
31924703 CCGTG
1 CCGTG
31924708 CCAAACCTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.12, C:0.29, G:0.36, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:31927259 original size:40 final size:40
Alignment explanation
Indices: 31927168--31927388 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
31927158 TATTCGGATG
* * *
31927168 ATATCCGGGCTAAGTCCCGAAGGCA-TGGGGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
*
31927207 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
*
31927247 ATATCCGGGCTAAGTCCCGAAGGC-GTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
** *
31927287 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * *
31927327 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
*
31927367 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31927389 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 42 0.26
40 115 0.71
41 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:31927308 original size:80 final size:79
Alignment explanation
Indices: 31927168--31927388 Score: 302
Period size: 80 Copynumber: 2.8 Consensus size: 79
31927158 TATTCGGATG
* * * *
31927168 ATATCCGGGCTAAGTCCCGAAGGCATGGGGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGCA
*
31927232 GTTGTGCTATTAACT
65 GTTGTGCTAGTAACT
*
31927247 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
* *
31927312 TTTGTGCTAGTGACT
65 GTTGTGCTAGTAACT
* * *
31927327 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
31927389 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 39 0.30
80 87 0.68
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTAACT
Found at i:31930399 original size:2 final size:2
Alignment explanation
Indices: 31930392--31930419 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
31930382 TTTGGAAGTG
31930392 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31930420 CATAAGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31930954 original size:27 final size:28
Alignment explanation
Indices: 31930898--31930967 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
31930888 AAATTTGTAC
31930898 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
31930926 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
31930953 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31930968 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:31937214 original size:30 final size:30
Alignment explanation
Indices: 31937178--31937237 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31937168 TTCCCGAACC
*
31937178 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
31937208 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
31937238 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:31937954 original size:13 final size:13
Alignment explanation
Indices: 31937936--31937966 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31937926 TGAATAAGAA
31937936 GAAGGCCTAAAAC
1 GAAGGCCTAAAAC
*
31937949 GAAGGCCTAAAAT
1 GAAGGCCTAAAAC
31937962 GAAGG
1 GAAGG
31937967 TGACATGTTG
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:0.45, C:0.16, G:0.29, T:0.10
Consensus pattern (13 bp):
GAAGGCCTAAAAC
Found at i:31943041 original size:48 final size:48
Alignment explanation
Indices: 31942864--31943044 Score: 215
Period size: 48 Copynumber: 3.8 Consensus size: 48
31942854 CTCGCACATT
* * * *
31942864 AAGTGCCAATATCATGGCCCGAAGCCAACTTAATA-TATCTCGGACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAA-AGTAACTCGCACCCG
* * *
31942912 AAGTGCTAATATCATGGCCCGTAGCCAAATC--AGTGAAGCTCGCACTCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGT-AA-CTCGCACCCG
** * *
31942960 AAGTGCTGATATCATGGCTCGAAGCCAAATCAAAGTAACTCCCACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCG
31943008 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTA
31943045 TCCCTTAATG
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 1 0.01
48 105 0.93
49 2 0.02
50 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAACTCGCACCCG
Found at i:31951924 original size:15 final size:15
Alignment explanation
Indices: 31951904--31951935 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
31951894 TCTTGATCTA
31951904 AATAATATCAAATTT
1 AATAATATCAAATTT
31951919 AATAATATCAAATTT
1 AATAATATCAAATTT
31951934 AA
1 AA
31951936 CTTTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATATCAAATTT
Found at i:31952015 original size:8 final size:8
Alignment explanation
Indices: 31952002--31952027 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
31951992 ACTTTCGCCC
31952002 TTAACATT
1 TTAACATT
31952010 TTAACATT
1 TTAACATT
31952018 TTAACATT
1 TTAACATT
31952026 TT
1 TT
31952028 TACAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAACATT
Found at i:31952036 original size:16 final size:16
Alignment explanation
Indices: 31952002--31952036 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31951992 ACTTTCGCCC
*
31952002 TTAACATTTTAACATT
1 TTAACATTTTAACAAT
*
31952018 TTAACATTTTTACAAT
1 TTAACATTTTAACAAT
31952034 TTA
1 TTA
31952037 GTCCTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAACATTTTAACAAT
Found at i:31954829 original size:69 final size:69
Alignment explanation
Indices: 31954747--31954884 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
31954737 CTGGGGTGAT
31954747 AGTTTGTATATATAGAGTCATTGTTGCCAGGCAAACTGGGGTGACAAAATGAGTAGATTGTGAAA
1 AGTTTGTATATATAGAGTCATTGTTGCCAGGCAAACTGGGGTGACAAAATGAGTAGATTGTGAAA
31954812 GCCA
66 GCCA
*
31954816 AGTTTGTATATATAGAGTCATTGTTGCCAGGCAAATTGGGGTGACAAAATGAGTAGATTGTGAAA
1 AGTTTGTATATATAGAGTCATTGTTGCCAGGCAAACTGGGGTGACAAAATGAGTAGATTGTGAAA
31954881 GCCA
66 GCCA
31954885 TCATCACCGG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (69 bp):
AGTTTGTATATATAGAGTCATTGTTGCCAGGCAAACTGGGGTGACAAAATGAGTAGATTGTGAAA
GCCA
Found at i:31955215 original size:49 final size:49
Alignment explanation
Indices: 31955158--31955257 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
31955148 TATGAAATGG
31955158 GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
1 GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
31955207 GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
1 GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
31955256 GA
1 GA
31955258 AATTGGAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.36
Consensus pattern (49 bp):
GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
Found at i:31955424 original size:35 final size:35
Alignment explanation
Indices: 31955378--31955446 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
31955368 GTAATGGTTT
31955378 GTAAATTGAAATTTGAATGGAGTGCATGTATTTAA
1 GTAAATTGAAATTTGAATGGAGTGCATGTATTTAA
31955413 GTAAATTGAAATTTGAATGGAGTGCATGTATTTA
1 GTAAATTGAAATTTGAATGGAGTGCATGTATTTA
31955447 CTTAAGTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (35 bp):
GTAAATTGAAATTTGAATGGAGTGCATGTATTTAA
Found at i:31970212 original size:41 final size:45
Alignment explanation
Indices: 31970142--31970263 Score: 128
Period size: 45 Copynumber: 2.8 Consensus size: 45
31970132 ATGCTATCTC
* * * *
31970142 ATATC-AATGCCACTGTCCCAGACAGGGTCTTACATG-AATCA-A-
1 ATATCGAA-GCCAATGTCCCAGACATGGTCTTACACGTAACCACAT
* *
31970184 ATAT-GAAGCCGATGTCCCAGGCATGGTCTTACACGTAACCACAT
1 ATATCGAAGCCAATGTCCCAGACATGGTCTTACACGTAACCACAT
* *
31970228 ATATCGATGCCAACGTCCCAGACATGGTCTTACACG
1 ATATCGAAGCCAATGTCCCAGACATGGTCTTACACG
31970264 AGAACAGATA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 23 0.35
42 10 0.15
43 1 0.02
44 4 0.06
45 27 0.42
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
ATATCGAAGCCAATGTCCCAGACATGGTCTTACACGTAACCACAT
Found at i:31982761 original size:27 final size:27
Alignment explanation
Indices: 31982720--31982790 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
31982710 ATCTCATATC
* *
31982720 TGTAGGCTAGCATTACCGAAATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCT
*
31982747 TGTAGGGTAGAATTACCGAGATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCT
* *
31982774 TGTGGGGTAAAATTACC
1 TGTAGGGTAGAATTACC
31982791 ATTTTACCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (27 bp):
TGTAGGGTAGAATTACCGAAATACCCT
Found at i:31983144 original size:2 final size:2
Alignment explanation
Indices: 31983137--31983168 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31983127 CCTTCGCCAC
31983137 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
31983169 CTGTTCTGGT
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:31983194 original size:26 final size:27
Alignment explanation
Indices: 31983165--31983224 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
31983155 ATATATATAT
*
31983165 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * * *
31983191 ATATTTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
31983218 ATATCTG
1 ATATCTG
31983225 GCAGCCTCGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:31983378 original size:31 final size:31
Alignment explanation
Indices: 31983343--31983446 Score: 145
Period size: 31 Copynumber: 3.4 Consensus size: 31
31983333 TTGCATTCAC
* * * *
31983343 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
31983374 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
31983405 ATTCTGATTCTAATTCTGTCACTTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
31983436 ATTCTAATTCT
1 ATTCTGATTCT
31983447 CATTTTGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATTCTG
Found at i:31983382 original size:6 final size:6
Alignment explanation
Indices: 31983343--31983467 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
31983333 TTGCATTCAC
* * *
31983343 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
31983392 -TCACCTA ATTCTG ATTCTG ATTCTA ATTCTG -TCACTTG ATTCTG ATTCTA
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG
* *
31983442 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
31983468 AATGTTTCTT
Statistics
Matches: 89, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 72 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:31987334 original size:16 final size:16
Alignment explanation
Indices: 31987313--31987367 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
31987303 ATCTCTGACA
* *
31987313 AGCTTCTACCCGATTG
1 AGCTTCCACCCGATCG
*
31987329 AGCTTCCATCCGATCG
1 AGCTTCCACCCGATCG
31987345 AGCTTCCACCCGATCG
1 AGCTTCCACCCGATCG
31987361 AGCTTCC
1 AGCTTCC
31987368 GATAATCTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.18, C:0.38, G:0.18, T:0.25
Consensus pattern (16 bp):
AGCTTCCACCCGATCG
Found at i:31988982 original size:48 final size:48
Alignment explanation
Indices: 31988928--31989022 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
31988918 GTCATTGAAT
* *
31988928 TTCCATCGCCTTTTTACTCGATAAATTGTATAATAATATAAATATATA
1 TTCCATCGCCTTTTTACTCGATAAATTCTATAATAACATAAATATATA
* *
31988976 TTCCATCGTCTTTTTACTCGATAAATTCTATAATAACATATATATAT
1 TTCCATCGCCTTTTTACTCGATAAATTCTATAATAACATAAATATAT
31989023 TGATTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (48 bp):
TTCCATCGCCTTTTTACTCGATAAATTCTATAATAACATAAATATATA
Found at i:31991043 original size:21 final size:21
Alignment explanation
Indices: 31991025--31991064 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31991015 CCGTCATCAT
*
31991025 TGAGCTACTGTTGACCATCTC
1 TGAGCTACTATTGACCATCTC
*
31991046 TGAGCTATTATTGACCATC
1 TGAGCTACTATTGACCATC
31991065 GCCGCTAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (21 bp):
TGAGCTACTATTGACCATCTC
Found at i:31991062 original size:216 final size:216
Alignment explanation
Indices: 31990684--31991117 Score: 832
Period size: 216 Copynumber: 2.0 Consensus size: 216
31990674 TTCATCCTAG
31990684 AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTTTGCCACCATGAACTTAC
1 AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTTTGCCACCATGAACTTAC
*
31990749 TTTGTGATATCAGTTCACGTCGTCGTCGTTTTTCTATTGTCATCATCGTGCCGTCATCATTGAGC
66 TTTGTGATATCAGTTCACGTCGCCGTCGTTTTTCTATTGTCATCATCGTGCCGTCATCATTGAGC
* *
31990814 TACTGTTGACCATCTCTGAACTATTGTTGACCATCGTCGCTAGCCATCGTCTGACCATTTTCGGC
131 TACTGTTGACCATCTCTGAACTATTATTGACCATCGCCGCTAGCCATCGTCTGACCATTTTCGGC
31990879 TACCGTCGAGCCATCATCGAC
196 TACCGTCGAGCCATCATCGAC
31990900 AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTTTGCCACCATGAACTTAC
1 AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTTTGCCACCATGAACTTAC
31990965 TTTGTGATATCAGTTCACGTCGCCGTCGTTTTTCTATTGTCATCATCGTGCCGTCATCATTGAGC
66 TTTGTGATATCAGTTCACGTCGCCGTCGTTTTTCTATTGTCATCATCGTGCCGTCATCATTGAGC
*
31991030 TACTGTTGACCATCTCTGAGCTATTATTGACCATCGCCGCTAGCCATCGTCTGACCATTTTCGGC
131 TACTGTTGACCATCTCTGAACTATTATTGACCATCGCCGCTAGCCATCGTCTGACCATTTTCGGC
31991095 TACCGTCGAGCCATCATCGAC
196 TACCGTCGAGCCATCATCGAC
31991116 AA
1 AA
31991118 TCGCCGGATC
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
216 214 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.35
Consensus pattern (216 bp):
AAAAAAATTTATGAATTCACCCCAAATCATACTTTGTATCTTCTATTTTGCCACCATGAACTTAC
TTTGTGATATCAGTTCACGTCGCCGTCGTTTTTCTATTGTCATCATCGTGCCGTCATCATTGAGC
TACTGTTGACCATCTCTGAACTATTATTGACCATCGCCGCTAGCCATCGTCTGACCATTTTCGGC
TACCGTCGAGCCATCATCGAC
Found at i:31992324 original size:16 final size:16
Alignment explanation
Indices: 31992303--31992333 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31992293 AATTTAAATA
31992303 AATTAAATAATTTTCC
1 AATTAAATAATTTTCC
31992319 AATTAAATAATTTTC
1 AATTAAATAATTTTC
31992334 TCAACTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:31996926 original size:126 final size:126
Alignment explanation
Indices: 31996697--31997078 Score: 613
Period size: 126 Copynumber: 3.0 Consensus size: 126
31996687 TTTCTGCAAG
* *
31996697 AATAATTCTGAGCAGACATTTCT-AGACAAATAGTGTCGAAAAACGCTTCAAGCAGGATGCACTG
1 AATAATTCTGAGTAGACGTTTCTGA-ACAAATAGTGTC-AAAAACGCTTCAAGCAGGATGCACTG
* * * *
31996761 TTAGTAAAATTTCTAGAAAAAGCTCTCATGGGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
64 TCAGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
*
31996824 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTC
* *
31996889 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
31996950 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTC
* * *
31997015 AGTAAAATTTCTAGAAAAAGCTCCCACGTAGACACTCTTTTGCTACAGTGGTTCGTAGAAA
66 AGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
31997076 AAT
1 AAT
31997079 GAGTCTATAA
Statistics
Matches: 237, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
126 203 0.86
127 33 0.14
128 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTC
AGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:32000538 original size:18 final size:18
Alignment explanation
Indices: 32000512--32000554 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32000502 GACTAGGAAA
* * *
32000512 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
32000530 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
32000548 AGGATAC
1 AGGATAC
32000555 GCACCTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:32002244 original size:48 final size:47
Alignment explanation
Indices: 32002157--32002290 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 47
32002147 ATGCAAACAT
* ***
32002157 CATAAATGAAAAAAAAAT-AAGCGGTATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTG
*
32002204 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
* *
32002252 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATCAAATAGTATTG-AAATTTAA
32002291 AATTATCACT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 18 0.24
48 52 0.69
49 5 0.07
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.32
Consensus pattern (47 bp):
CATAAATGAAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:32002445 original size:11 final size:11
Alignment explanation
Indices: 32002427--32002490 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
32002417 TTTTAAACAA
32002427 AGAATTTTGAT
1 AGAATTTTGAT
*
32002438 ATAATTTTGAT
1 AGAATTTTGAT
*
32002449 AGAATTTTGAA
1 AGAATTTTGAT
* **
32002460 AAAATTTCAAT
1 AGAATTTTGAT
*
32002471 -GAAATTTGAT
1 AGAATTTTGAT
*
32002481 AGATTTTTGA
1 AGAATTTTGA
32002491 AGGGAATATT
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
10 6 0.15
11 33 0.85
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.44
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:32002682 original size:23 final size:23
Alignment explanation
Indices: 32002652--32002707 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
32002642 TTGGAAACCA
32002652 ACGGGCAAAAATTTGACCGTTAC
1 ACGGGCAAAAATTTGACCGTTAC
32002675 ACGGGCAAAAATTTGACCGTTAC
1 ACGGGCAAAAATTTGACCGTTAC
32002698 ACGGGCAAAA
1 ACGGGCAAAA
32002708 CGCTCCCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (23 bp):
ACGGGCAAAAATTTGACCGTTAC
Found at i:32016945 original size:26 final size:27
Alignment explanation
Indices: 32016898--32016957 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
32016888 CATTAAGGCG
** *
32016898 TAGCAGGCTTTGTTTTGGTGTATAT-T
1 TAGCAGGCTTTGTGGTGATGTATATCT
32016924 TAGCAGGCTTTGTGGTGATGTATATCT
1 TAGCAGGCTTTGTGGTGATGTATATCT
32016951 T-GCAGGC
1 TAGCAGGC
32016958 ATTAGTTGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.17, C:0.12, G:0.30, T:0.42
Consensus pattern (27 bp):
TAGCAGGCTTTGTGGTGATGTATATCT
Found at i:32021973 original size:26 final size:26
Alignment explanation
Indices: 32021937--32021988 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
32021927 ATGTCATATC
32021937 TTTACTAATCATAAGAGTTTGAAGTA
1 TTTACTAATCATAAGAGTTTGAAGTA
32021963 TTTACTAATCATAAGAGTTTGAAGTA
1 TTTACTAATCATAAGAGTTTGAAGTA
32021989 CATAATGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (26 bp):
TTTACTAATCATAAGAGTTTGAAGTA
Found at i:32022124 original size:8 final size:8
Alignment explanation
Indices: 32022111--32022139 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
32022101 ACAACATAAA
32022111 TCATACAT
1 TCATACAT
32022119 TCATACAT
1 TCATACAT
32022127 TCATACAT
1 TCATACAT
32022135 TCATA
1 TCATA
32022140 ATCAAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (8 bp):
TCATACAT
Found at i:32024234 original size:39 final size:39
Alignment explanation
Indices: 32024191--32024530 Score: 493
Period size: 39 Copynumber: 9.0 Consensus size: 39
32024181 TTATATTACT
* *
32024191 AGCACAAAGCCTGTGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
32024230 AGCACGAAGCCTGCGGGACTTTAGCCCCGATACATTTCT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* * *
32024269 AGCACGAAGCCTGCGGGAATTTAGCCTGGATACATTTCT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
32024308 AGCACGAAGCCTGCAGGACTTTAGCCCGGACACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
32024347 AGCACGAAGCCTGCGGGACTTTAGCCCCGATACATTTCT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
32024386 AGCATGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
32024425 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
32024464 AGCACGAAGCCTGCGGGACTTTAG-CC-----CA-GT--
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
32024494 -GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
32024531 TAGTGTCTTG
Statistics
Matches: 271, Mismatches: 22, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
29 23 0.08
30 2 0.01
32 1 0.00
33 2 0.01
35 2 0.01
36 1 0.00
38 2 0.01
39 238 0.88
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:32030195 original size:40 final size:44
Alignment explanation
Indices: 32030139--32030238 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 44
32030129 CAATTGTATT
* * *
32030139 TGGCACAAAGTGTGCGATTC-AAAATAGCTTCGGCT-A-TATGA
1 TGGCACTAAGTGTGCGATACTAAAATAGCTTCGGCTAATTAAGA
* * *
32030180 -GGCACTAAGTGTGCGATACTGAGATAGCTTCGGTTAATTAAGA
1 TGGCACTAAGTGTGCGATACTAAAATAGCTTCGGCTAATTAAGA
32030223 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
32030239 GAATCATTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 17 0.35
41 12 0.24
42 1 0.02
43 4 0.08
44 15 0.31
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (44 bp):
TGGCACTAAGTGTGCGATACTAAAATAGCTTCGGCTAATTAAGA
Found at i:32038070 original size:2 final size:2
Alignment explanation
Indices: 32038063--32038090 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32038053 ATGTGTTATG
32038063 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
32038091 GTGCATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32038201 original size:39 final size:39
Alignment explanation
Indices: 32038147--32038448 Score: 496
Period size: 39 Copynumber: 7.7 Consensus size: 39
32038137 TGTGTGAGAT
* *
32038147 TTATATCCGGGCTAAGTCCTGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
32038186 TTATATCCGAGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
32038225 TTATGTCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
32038264 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
32038303 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
32038342 GTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
32038381 TTATATCCAGGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
32038420 TTATATCCGAGCTAAGTCTCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
32038449 TGTGTTAGAA
Statistics
Matches: 245, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 245 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:32040827 original size:28 final size:28
Alignment explanation
Indices: 32040758--32040858 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
32040748 GACAAGATTG
* * * *
32040758 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
32040788 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
32040816 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
32040845 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
32040859 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:32048786 original size:28 final size:28
Alignment explanation
Indices: 32048717--32048817 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
32048707 GACAAGATTG
* * * *
32048717 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
32048747 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
32048775 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
32048804 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
32048818 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:32052131 original size:44 final size:41
Alignment explanation
Indices: 32052037--32052136 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 41
32052027 CAATTGTATT
* *
32052037 TGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATATGA
1 TGGCACTAAGTGTGCGATACAAAATAGCTTCGGCTATAAGA
* * *
32052078 -GGCACTAAGTGTGTGATACTAAGATAGCTTCGGTTAATTAAGA
1 TGGCACTAAGTGTGCGATAC-AAAATAGCTTCGGCT-A-TAAGA
32052121 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
32052137 GAATCATTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 17 0.35
41 13 0.27
42 1 0.02
43 4 0.08
44 14 0.29
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGATACAAAATAGCTTCGGCTATAAGA
Found at i:32056317 original size:43 final size:45
Alignment explanation
Indices: 32056202--32056317 Score: 161
Period size: 43 Copynumber: 2.7 Consensus size: 45
32056192 TGTGAATACA
32056202 TGTAAGACCATGTCTGGGACATTGGCA---TTATATTGAGGTTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATTGA-GTTATG
*
32056245 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-ATTGA-TTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATTGAGTTATG
* *
32056288 TGTAAGACCTTGTCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
32056318 ATATGTATTA
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
43 59 0.88
45 5 0.07
46 3 0.04
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATTGAGTTATG
Found at i:32056335 original size:43 final size:43
Alignment explanation
Indices: 32056198--32056341 Score: 134
Period size: 43 Copynumber: 3.3 Consensus size: 43
32056188 GAGATGTGAA
* *
32056198 TACATGTAAGACCATGTCTGGGACATTGGCAT-TAT-ATTGAGGT
1 TACATGTAAGACCATGTCTGGGACAGTGGCATCGATAATTGA--T
** * *
32056241 TATGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATTGAT
1 TACATGTAAGACCATGTCTGGGACAGTGGCATCGATAATTGAT
*** *
32056284 TTTGTGTAAGACCTTGTCTGGGACAGTGGCATCGAT-A-TGTAT
1 TACATGTAAGACCATGTCTGGGACAGTGGCATCGATAATTG-AT
32056326 TAACATGTAAGACCAT
1 T-ACATGTAAGACCAT
32056342 ATTTGGGATA
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 4 0.05
43 73 0.86
44 1 0.01
45 5 0.06
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TACATGTAAGACCATGTCTGGGACAGTGGCATCGATAATTGAT
Found at i:32056885 original size:27 final size:27
Alignment explanation
Indices: 32056847--32056911 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
32056837 GATTTGGCTT
32056847 GTAAATGTTGATTTGTATGACTATATG
1 GTAAATGTTGATTTGTATGACTATATG
32056874 GTAAATGTTGATTTGTATGACTATATG
1 GTAAATGTTGATTTGTATGACTATATG
32056901 GTAAATGTTGA
1 GTAAATGTTGA
32056912 AGTATAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.43
Consensus pattern (27 bp):
GTAAATGTTGATTTGTATGACTATATG
Found at i:32059286 original size:29 final size:28
Alignment explanation
Indices: 32059252--32059354 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
32059242 TACTCAATCA
*
32059252 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
32059281 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* * *
32059310 CACACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
32059339 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
32059355 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:32061681 original size:40 final size:40
Alignment explanation
Indices: 32061531--32061698 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
32061521 CGGAATACAA
* * *
32061531 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
32061571 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
32061611 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
32061651 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
32061691 CCGGATAT
1 CCGGATAT
32061699 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32063371 original size:40 final size:40
Alignment explanation
Indices: 32063263--32063472 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
32063253 CGGGATTTAA
* * * * *
32063263 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
32063303 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
32063343 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
32063383 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
32063423 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
32063463 CCGGATATAT
1 CCGGATATAT
32063473 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:32066286 original size:18 final size:18
Alignment explanation
Indices: 32066265--32066302 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32066255 ACTTTTCTTC
* *
32066265 CTTTCTTTTTTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
32066283 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
32066301 CT
1 CT
32066303 CTCATGTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:32073052 original size:40 final size:40
Alignment explanation
Indices: 32072902--32073069 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
32072892 CGGAATACAA
* * *
32072902 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
32072942 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
32072982 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
32073022 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
32073062 CCGGATAT
1 CCGGATAT
32073070 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32074329 original size:18 final size:18
Alignment explanation
Indices: 32074308--32074345 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32074298 ACTTTTCTTC
* *
32074308 CTTTCTTTTTTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
32074326 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
32074344 CT
1 CT
32074346 CTCATGTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:32077723 original size:40 final size:40
Alignment explanation
Indices: 32077672--32077779 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
32077662 TTGGTGATTT
* *
32077672 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
*
32077712 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTA
* *
32077752 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
32077780 GTATCATTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 60 0.98
41 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTA
Found at i:32079727 original size:79 final size:82
Alignment explanation
Indices: 32079587--32079771 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
32079577 TCGAATGATG
* * *
32079587 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
32079651 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
32079667 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
32079729 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
32079747 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32079772 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:32079779 original size:40 final size:40
Alignment explanation
Indices: 32079588--32079779 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
32079578 CGAATGATGT
* * * * *
32079588 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
32079628 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
32079668 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
32079707 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
32079747 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
32079780 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:32087765 original size:79 final size:82
Alignment explanation
Indices: 32087625--32087809 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
32087615 TCGAATGATG
* * *
32087625 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
32087689 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
32087705 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
32087767 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
32087785 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32087810 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:32087817 original size:40 final size:40
Alignment explanation
Indices: 32087626--32087817 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
32087616 CGAATGATGT
* * * * *
32087626 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
32087666 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
32087706 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
32087745 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
32087785 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
32087818 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:32087840 original size:79 final size:79
Alignment explanation
Indices: 32087625--32087842 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
32087615 TCGAATGATG
* * * * ** *
32087625 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
32087688 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
32087705 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
32087770 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
32087785 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
32087843 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:32088989 original size:200 final size:200
Alignment explanation
Indices: 32088646--32089046 Score: 784
Period size: 200 Copynumber: 2.0 Consensus size: 200
32088636 TGAATCTACT
32088646 TTCATGTGGAAGAAACGAAACGGTCATATGAGTTATATGTTAAGAGATATTAAAGTTCTCGTGAA
1 TTCATGTGGAAGAAACGAAACGGTCATATGAGTTATATGTTAAGAGATATTAAAGTTCTCGTGAA
32088711 ACAGGGCCAGAACGGTTTCTGGATCCCCTGTTCCGACTTTGGAAATTCATTGTAAATTAACCAGA
66 ACAGGGCCAGAACGGTTTCTGGATCCCCTGTTCCGACTTTGGAAATTCATTGTAAATTAACCAGA
*
32088776 GATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATCGAAACAAA
131 GATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAA
32088841 CGGCA
196 CGGCA
32088846 TTCATGTGGAAGAAACGAAACGGTCATATGAGTTATATGTTAAGAGATATTAAAGTTCTCGTGAA
1 TTCATGTGGAAGAAACGAAACGGTCATATGAGTTATATGTTAAGAGATATTAAAGTTCTCGTGAA
32088911 ACAGGGCCAGAACGGTTTCTGGATCCCCTGTTCCGACTTTGGAAATTCATTGTAAATTAACCAGA
66 ACAGGGCCAGAACGGTTTCTGGATCCCCTGTTCCGACTTTGGAAATTCATTGTAAATTAACCAGA
*
32088976 GATAATTAGGAGTCATGCCTTATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAA
131 GATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAA
32089041 CGGCA
196 CGGCA
32089046 T
1 T
32089047 CAGTATTAAA
Statistics
Matches: 199, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (200 bp):
TTCATGTGGAAGAAACGAAACGGTCATATGAGTTATATGTTAAGAGATATTAAAGTTCTCGTGAA
ACAGGGCCAGAACGGTTTCTGGATCCCCTGTTCCGACTTTGGAAATTCATTGTAAATTAACCAGA
GATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAA
CGGCA
Found at i:32089956 original size:3 final size:3
Alignment explanation
Indices: 32089950--32089997 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
32089940 CATCATGAGA
32089950 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32089998 AATAGTTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32091761 original size:42 final size:42
Alignment explanation
Indices: 32091694--32091836 Score: 164
Period size: 42 Copynumber: 3.4 Consensus size: 42
32091684 GATATGGCAT
* *
32091694 TGGCATC-AGTATGAG-TTATCATGTAAGACCATATCTGGGATA
1 TGGCATCGA-TATGAGATT-TCGTGTAAGACCATATTTGGGATA
* * ** *
32091736 TGGCATTGATATGAGATTTTGTGTAAGACCACGTTTGGGACA
1 TGGCATCGATATGAGATTTCGTGTAAGACCATATTTGGGATA
* * *
32091778 TGGCATCGAAATGAGAATTCGTATAAGACCATATTTGGGATA
1 TGGCATCGATATGAGATTTCGTGTAAGACCATATTTGGGATA
32091820 TGGCATCGATATGAGAT
1 TGGCATCGATATGAGAT
32091837 CCCATGTAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
42 79 0.96
43 3 0.04
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATGAGATTTCGTGTAAGACCATATTTGGGATA
Found at i:32093168 original size:42 final size:42
Alignment explanation
Indices: 32093121--32093205 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
32093111 CCCAAGTCAC
* *
32093121 ATGGGTGTGTTTGACCACACGGCCTGCCCACACAGGAATGTG
1 ATGGGTGTGTTTGACCACACAGCCTACCCACACAGGAATGTG
32093163 ATGGGTGTGTTTGACCACACAGCCTACCCACACAGGAATGTG
1 ATGGGTGTGTTTGACCACACAGCCTACCCACACAGGAATGTG
32093205 A
1 A
32093206 CTTTCCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (42 bp):
ATGGGTGTGTTTGACCACACAGCCTACCCACACAGGAATGTG
Found at i:32102605 original size:5 final size:5
Alignment explanation
Indices: 32102595--32102624 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
32102585 TAGGAAGATA
32102595 TTATT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT
32102625 AAATTAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:32114514 original size:19 final size:19
Alignment explanation
Indices: 32114490--32114528 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
32114480 AAGCCACTGT
*
32114490 TTTTTATTAAAAATTAGAA
1 TTTTTATAAAAAATTAGAA
32114509 TTTTTATAAAAAATTAGAA
1 TTTTTATAAAAAATTAGAA
32114528 T
1 T
32114529 CAATAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTTTATAAAAAATTAGAA
Found at i:32116192 original size:10 final size:10
Alignment explanation
Indices: 32116179--32116214 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
32116169 AAAATAACTC
32116179 AAAATATATAA
1 AAAAT-TATAA
32116190 AAAATTATAA
1 AAAATTATAA
32116200 AAAATTAATAA
1 AAAATT-ATAA
32116211 AAAA
1 AAAA
32116215 ATTAGTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 11 0.46
11 13 0.54
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAATTATAA
Found at i:32116218 original size:12 final size:11
Alignment explanation
Indices: 32116186--32116214 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
32116176 CTCAAAATAT
32116186 ATAAAAAATT-
1 ATAAAAAATTA
32116196 ATAAAAAATTA
1 ATAAAAAATTA
32116207 ATAAAAAA
1 ATAAAAAA
32116215 ATTAGTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
ATAAAAAATTA
Found at i:32119166 original size:38 final size:38
Alignment explanation
Indices: 32119124--32119201 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
32119114 TAATCGAGAT
32119124 TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
1 TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
32119162 TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
1 TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
32119200 TA
1 TA
32119202 CAAGCATTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (38 bp):
TATTCATATTGTCCCCTAAATGGACCCTCAAGGCCCAA
Found at i:32130849 original size:35 final size:35
Alignment explanation
Indices: 32130764--32130862 Score: 108
Period size: 35 Copynumber: 2.8 Consensus size: 35
32130754 ATTTATTGAT
* * * *
32130764 ATTCTAATTTGCATGTTGAGCATGCTATCATTTTG
1 ATTCTAATTCGCATGTTAAGCATGCCATTATTTTG
** * *
32130799 GCTATGATTCGCATGTTAAGCATGCCATTATTTTG
1 ATTCTAATTCGCATGTTAAGCATGCCATTATTTTG
* *
32130834 ATTCTAATTCACATGTTAAACATGCCATT
1 ATTCTAATTCGCATGTTAAGCATGCCATT
32130863 GAGATAAACT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (35 bp):
ATTCTAATTCGCATGTTAAGCATGCCATTATTTTG
Found at i:32134033 original size:27 final size:26
Alignment explanation
Indices: 32133994--32134137 Score: 164
Period size: 27 Copynumber: 5.4 Consensus size: 26
32133984 GGATAAGTTA
32133994 TAGAATTACCGAAATACTCCTGTAGGG
1 TAGAATTACCGAAATAC-CCTGTAGGG
* *
32134021 TAGAATTATCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATA-CCCTGTAGGG
*
32134048 TAGAATTATCGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCC-TGTAGGG
* *
32134075 TATAAATACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATA-CCCTGTAGGG
* *
32134102 -AGAATTACCGAGATACCCTTGTGGGG
1 TAGAATTACCGAAATACCC-TGTAGGG
*
32134128 TAAAATTACC
1 TAGAATTACC
32134138 ATTTTGCCCC
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
25 3 0.03
26 21 0.21
27 73 0.72
28 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (26 bp):
TAGAATTACCGAAATACCCTGTAGGG
Found at i:32134075 original size:54 final size:54
Alignment explanation
Indices: 32133993--32134137 Score: 197
Period size: 54 Copynumber: 2.7 Consensus size: 54
32133983 TGGATAAGTT
* *
32133993 ATAGAATTACCGAAATACTCC-TGTAGGGTAGAATTATCGAAATACCCCTGTAGG
1 ATAGAATTACCGAAATAC-CCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGG
*
32134047 ATAGAATTATCGAAATACCCTTGTAGGGTATAAA-TACCGAAATACCCCTGTAGG
1 ATAGAATTACCGAAATACCCTTGTAGGGTA-AAATTACCGAAATACCCCTGTAGG
* * *
32134101 -GAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 ATAGAATTACCGAAATACCCTTGTAGGGTAAAATTACC
32134138 ATTTTGCCCC
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
52 3 0.04
53 31 0.38
54 45 0.56
55 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
ATAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCGAAATACCCCTGTAGG
Found at i:32135079 original size:11 final size:11
Alignment explanation
Indices: 32135063--32135089 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32135053 TTGATCTGTT
32135063 TTGGGCTATGG
1 TTGGGCTATGG
32135074 TTGGGCTATGG
1 TTGGGCTATGG
32135085 TTGGG
1 TTGGG
32135090 TTATTTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.48, T:0.37
Consensus pattern (11 bp):
TTGGGCTATGG
Found at i:32138538 original size:30 final size:30
Alignment explanation
Indices: 32138502--32138563 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
32138492 CGAACCAATA
32138502 TTCAAATTTCACTATACAAAAACACATTTC
1 TTCAAATTTCACTATACAAAAACACATTTC
32138532 TTCAAATTTCACTATACAAAAACACATTTC
1 TTCAAATTTCACTATACAAAAACACATTTC
32138562 TT
1 TT
32138564 TACTTGTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (30 bp):
TTCAAATTTCACTATACAAAAACACATTTC
Found at i:32140485 original size:15 final size:15
Alignment explanation
Indices: 32140465--32140534 Score: 69
Period size: 15 Copynumber: 5.0 Consensus size: 15
32140455 TAATATTTAA
*
32140465 ATTGTGAAACTGTAG
1 ATTGTGAAACTATAG
32140480 ATTGTGAAACTATAG
1 ATTGTGAAACTATAG
32140495 A-T-T---ACTATAG
1 ATTGTGAAACTATAG
* *
32140505 ACTGTGAAACTCTAG
1 ATTGTGAAACTATAG
*
32140520 ATTCTGAAACTATAG
1 ATTGTGAAACTATAG
32140535 TGACAAACCT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 8 0.18
11 1 0.02
12 1 0.02
13 1 0.02
14 1 0.02
15 33 0.73
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (15 bp):
ATTGTGAAACTATAG
Found at i:32141480 original size:11 final size:11
Alignment explanation
Indices: 32141464--32141489 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32141454 ACCAAGAGTC
32141464 AAAACGAGCCA
1 AAAACGAGCCA
32141475 AAAACGAGCCA
1 AAAACGAGCCA
32141486 AAAA
1 AAAA
32141490 GGGACAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.23, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAACGAGCCA
Found at i:32142548 original size:13 final size:13
Alignment explanation
Indices: 32142530--32142556 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32142520 TTGTTTAATC
32142530 AGTTAATTAGTTT
1 AGTTAATTAGTTT
32142543 AGTTAATTAGTTT
1 AGTTAATTAGTTT
32142556 A
1 A
32142557 ATAAATAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTAATTAGTTT
Found at i:32144030 original size:22 final size:22
Alignment explanation
Indices: 32143985--32144030 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
32143975 ATAATTCATA
**
32143985 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
32144007 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
32144029 AT
1 AT
32144031 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:32149585 original size:40 final size:40
Alignment explanation
Indices: 32149503--32149723 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
32149493 TATTCGGATG
* *
32149503 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
32149542 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
32149582 ATATCCGGGCTAAGTCCCGAAGGC-GTTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCT-A-TTGACT
** *
32149622 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * *
32149662 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
*
32149702 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
32149724 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
39 43 0.26
40 115 0.70
41 6 0.04
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:32149643 original size:80 final size:79
Alignment explanation
Indices: 32149503--32149723 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 79
32149493 TATTCGGATG
* *
32149503 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCT-AG-TGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTG-TGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGC
*
32149566 AGTTGTGCTATTGACT
64 AGTTGTGCTAGTGACT
*
32149582 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGTGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGTGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
32149647 TTTGTGCTAGTGACT
65 GTTGTGCTAGTGACT
* * *
32149662 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGTGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
32149724 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
79 40 0.31
80 88 0.68
81 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGTGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Found at i:32150689 original size:134 final size:134
Alignment explanation
Indices: 32150449--32150718 Score: 540
Period size: 134 Copynumber: 2.0 Consensus size: 134
32150439 GGTAAAATTT
32150449 ACCTTAAAATAGATGCTGACAGCAGCAGTGACGTAAGTTGGAAAAATCACTAAAAATAGTAGGAA
1 ACCTTAAAATAGATGCTGACAGCAGCAGTGACGTAAGTTGGAAAAATCACTAAAAATAGTAGGAA
32150514 TGGAATTAAATAGTGAATAAATTATGTAATCGAATCTTGATGAGTCTATTTTCATATGAAAGAAA
66 TGGAATTAAATAGTGAATAAATTATGTAATCGAATCTTGATGAGTCTATTTTCATATGAAAGAAA
32150579 TGAA
131 TGAA
32150583 ACCTTAAAATAGATGCTGACAGCAGCAGTGACGTAAGTTGGAAAAATCACTAAAAATAGTAGGAA
1 ACCTTAAAATAGATGCTGACAGCAGCAGTGACGTAAGTTGGAAAAATCACTAAAAATAGTAGGAA
32150648 TGGAATTAAATAGTGAATAAATTATGTAATCGAATCTTGATGAGTCTATTTTCATATGAAAGAAA
66 TGGAATTAAATAGTGAATAAATTATGTAATCGAATCTTGATGAGTCTATTTTCATATGAAAGAAA
32150713 TGAA
131 TGAA
32150717 AC
1 AC
32150719 GACCATATGA
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 136 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.27
Consensus pattern (134 bp):
ACCTTAAAATAGATGCTGACAGCAGCAGTGACGTAAGTTGGAAAAATCACTAAAAATAGTAGGAA
TGGAATTAAATAGTGAATAAATTATGTAATCGAATCTTGATGAGTCTATTTTCATATGAAAGAAA
TGAA
Found at i:32152150 original size:43 final size:42
Alignment explanation
Indices: 32152025--32152178 Score: 150
Period size: 42 Copynumber: 3.6 Consensus size: 42
32152015 CGAGACTATG
* * * * ***
32152025 TGTAAGACCATATCTGGGATATGGAATC-ATTATGAGATTTTG
1 TGTAAGACCATATCTGGGATAGGGCATCGA-AACGAGATTCCA
* *
32152067 TGTAAGACCATATCTGGGATAGGGCATCGATATGAGATTCCA
1 TGTAAGACCATATCTGGGATAGGGCATCGAAACGAGATTCCA
* *
32152109 TGTAAGACCATAGCTGGGCT-GTTGGCATCGAAACGAGATTCCA
1 TGTAAGACCATATCTGGGATAG--GGCATCGAAACGAGATTCCA
* *
32152152 TATAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATAGGGCAT
32152179 TGGTGTGGTA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 58 0.61
43 36 0.38
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATAGGGCATCGAAACGAGATTCCA
Found at i:32155022 original size:19 final size:19
Alignment explanation
Indices: 32154998--32155044 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
32154988 AATTTGATTA
32154998 AAAATTGAAATATTCATAT
1 AAAATTGAAATATTCATAT
32155017 AAAATTGAAATATTCATAT
1 AAAATTGAAATATTCATAT
32155036 AAAATTGAA
1 AAAATTGAA
32155045 TTGTTTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (19 bp):
AAAATTGAAATATTCATAT
Found at i:32155483 original size:37 final size:39
Alignment explanation
Indices: 32155392--32155486 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 39
32155382 AACTTCGAGT
* **
32155392 CGATGAGACACTGGGTGTCAATTTACTATTTCAGATTAATT
1 CGATGAGACACTGGGTGCCAATTTAC--TTTCAGATTAAGC
* * *
32155433 CGATGAGGCACTGGGTGCCAATTTAC-TTC-GGTTTAGC
1 CGATGAGACACTGGGTGCCAATTTACTTTCAGATTAAGC
32155470 CGATGAGACACTGGGTG
1 CGATGAGACACTGGGTG
32155487 TCAAATTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 20 0.43
38 3 0.06
41 24 0.51
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGGTGCCAATTTACTTTCAGATTAAGC
Found at i:32157811 original size:55 final size:53
Alignment explanation
Indices: 32157685--32157919 Score: 223
Period size: 55 Copynumber: 4.4 Consensus size: 53
32157675 CATTAGGGTT
* * * *
32157685 TAAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGG
1 TAAGGATACCACGTAAGACCATGTCAAGACATGGC-ATTGGTAA-G-TTCATAAGG
* * * *
32157740 CAAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAA-G
1 TAAGGATACCACGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGG
* * *
32157794 TCAAAGG-TCCCACGTAAGATCATGTCAAGACATGGCATTGGTGAGTTCATAAGG
1 T--AAGGATACCACGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGG
* * *
32157848 TAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT--TAA--
1 TAAGGATACCACGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGG
*
32157897 AAAGGATACCACGTAAGACCATG
1 TAAGGATACCACGTAAGACCATG
32157920 ACAGGTAATG
Statistics
Matches: 152, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
49 21 0.14
51 3 0.02
52 6 0.04
53 40 0.26
54 11 0.07
55 67 0.44
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
TAAGGATACCACGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGG
Found at i:32165450 original size:55 final size:54
Alignment explanation
Indices: 32165363--32165617 Score: 237
Period size: 55 Copynumber: 4.8 Consensus size: 54
32165353 ATTAGGGTTT
* * *
32165363 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAA-GTTTCTAAGGA
* * *
32165418 AAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGTTAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGG-A
* * * * *
32165474 AAGG-TCCCATATAAGATCATGTTAA-ATCATGGC-ATTGGTGAG-TTCATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGA-CATGGCAATTGGTAAGTTTC-TAAGGA
*
32165526 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAG-TT-TAA--A
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGA
* *
32165575 AAGGATACCACGTAAGACCATGACAAGTA-ATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCAATTGGTAAG
32165618 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 39 0.23
50 1 0.01
51 3 0.02
52 6 0.04
53 38 0.23
54 11 0.07
55 66 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGA
Found at i:32165686 original size:5 final size:5
Alignment explanation
Indices: 32165676--32165703 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32165666 AGAGAATATC
32165676 AAGGT AAGGT AAGGT AAGGT AAGGT AAG
1 AAGGT AAGGT AAGGT AAGGT AAGGT AAG
32165704 ACGAGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.18
Consensus pattern (5 bp):
AAGGT
Found at i:32170780 original size:35 final size:35
Alignment explanation
Indices: 32170741--32170808 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
32170731 TTCGCATGCT
* *
32170741 ATTATTCTGACTATGATTCGCATGTTAAGCATGTC
1 ATTATTCTAACTATGATTCGCATGTTAAACATGTC
*
32170776 ATTATTCTAATTATGATTCGCATGTTAAACATG
1 ATTATTCTAACTATGATTCGCATGTTAAACATG
32170809 CAACTATGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (35 bp):
ATTATTCTAACTATGATTCGCATGTTAAACATGTC
Found at i:32176620 original size:40 final size:40
Alignment explanation
Indices: 32176575--32176666 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
32176565 CGGTTATTTG
*
32176575 TGGCACTTAGTGCGTGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGCGCGATACGACATAGCTTCGGCTATATA
* * *
32176615 TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATATA
1 TGGCACTTAGTGCGCGATACGACATAGCTTCGGCTATATA
* *
32176655 TGACACTAAGTG
1 TGGCACTTAGTG
32176667 TATGATTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGCGCGATACGACATAGCTTCGGCTATATA
Found at i:32176690 original size:40 final size:40
Alignment explanation
Indices: 32176596--32176691 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
32176586 GCGTGATACG
* * * *
32176596 ACATAGCTTCGGCTATATATGGCACTTAGTGTGCGATTCG
1 ACATAGCTTCGGCTATATATGACACTAAGTGTACGATTCA
* * *
32176636 ACATAGCTTTGGCTATATATGACACTAAGTGTATGATTTA
1 ACATAGCTTCGGCTATATATGACACTAAGTGTACGATTCA
* *
32176676 AGATATCTTCGGCTAT
1 ACATAGCTTCGGCTAT
32176692 GTACAACACT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (40 bp):
ACATAGCTTCGGCTATATATGACACTAAGTGTACGATTCA
Found at i:32181952 original size:27 final size:27
Alignment explanation
Indices: 32181922--32181983 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
32181912 GGGCAAAATG
32181922 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
32181949 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
32181976 GTAATTTT
1 GTAATTTT
32181984 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:32181996 original size:27 final size:27
Alignment explanation
Indices: 32181963--32182042 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
32181953 TTTTACCCTA
* *
32181963 CAGGGGTATTTTAGTAATTTTTCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
32181990 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
32182017 TAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
32182043 TTGAGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:32181997 original size:54 final size:54
Alignment explanation
Indices: 32181938--32182064 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
32181928 TTACCCCACA
** *
32181938 AGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAATCC
** * **
32181991 ATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
*
32182046 AGGGTATTTCTGTAATTTT
1 AGGGTATTTCAGTAATTTT
32182065 GTAAATCGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 4 0.07
54 56 0.92
55 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
Found at i:32182050 original size:27 final size:26
Alignment explanation
Indices: 32181964--32182064 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
32181954 TTTACCCTAC
* * *
32181964 AGGGGTATTTTAGTAATTTTTCAAACC
1 AGGGGTATTTTGGTAATTTTACAAA-T
*
32181991 ATGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAA-T
32182018 AGGGGTATTTTGGTAATTTTACAAAT
1 AGGGGTATTTTGGTAATTTTACAAAT
*
32182044 TGAGGGTATTTCT-GTAATTTT
1 AG-GGGTATTT-TGGTAATTTT
32182065 GTAAATCGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.03
27 63 0.95
28 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (26 bp):
AGGGGTATTTTGGTAATTTTACAAAT
Found at i:32182386 original size:27 final size:27
Alignment explanation
Indices: 32182057--32182375 Score: 377
Period size: 27 Copynumber: 11.8 Consensus size: 27
32182047 GGGTATTTCT
* * **
32182057 GTAATTTTGTAAATCGAGGTTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * **
32182084 GTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
32182111 GTAATTCTATAAATCGACGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
32182138 ATAATTTTGTAAATTGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
32182165 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
32182192 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
32182219 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * **
32182246 ATAATTTTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
32182273 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
32182300 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
32182327 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
32182354 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
32182376 CTTTGGTAAT
Statistics
Matches: 247, Mismatches: 45, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 247 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:32182386 original size:54 final size:54
Alignment explanation
Indices: 32182057--32182375 Score: 424
Period size: 54 Copynumber: 5.9 Consensus size: 54
32182047 GGGTATTTCT
* * * * * * * *
32182057 GTAATTTTGTAAATCGAGGTTAAAA-TAGTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAACA
* * *
32182111 GTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATTGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* * *
32182165 GTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* *
32182219 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* *
32182273 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* * * *
32182327 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
32182376 CTTTGGTAAT
Statistics
Matches: 235, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 234 1.00
55 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
Found at i:32182402 original size:27 final size:27
Alignment explanation
Indices: 32182381--32182470 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
32182371 GGGTACTTTG
*
32182381 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
32182408 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
32182435 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
32182462 GTAATTTTA
1 GTAATTTTA
32182471 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:32182422 original size:54 final size:54
Alignment explanation
Indices: 32182364--32182470 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
32182354 ATAATTCTGT
* * *
32182364 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
32182418 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
32182471 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:32182484 original size:27 final size:27
Alignment explanation
Indices: 32182381--32182485 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
32182371 GGGTACTTTG
* *
32182381 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
32182408 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
32182435 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
32182462 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
32182486 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:32184435 original size:2 final size:2
Alignment explanation
Indices: 32184428--32184460 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32184418 AATTGAATGG
32184428 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32184461 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:32184465 original size:2 final size:2
Alignment explanation
Indices: 32184460--32184500 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
32184450 TCTCTCTCTC
32184460 TA TA TA 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
32184501 TAAATTGAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32184956 original size:25 final size:25
Alignment explanation
Indices: 32184894--32185009 Score: 189
Period size: 25 Copynumber: 4.7 Consensus size: 25
32184884 TTCTGACCCT
* *
32184894 CAGCTTGTGAGAGCATACCAA-TTA
1 CAGCTCGTGTGAGCATACCAATTTA
*
32184918 CAGCTCGTGAGAGCATACCAATTTA
1 CAGCTCGTGTGAGCATACCAATTTA
*
32184943 TAGCTCGTGTGAGCATACCAATTTA
1 CAGCTCGTGTGAGCATACCAATTTA
32184968 CAGCTCGTGTGAGCATACCAATTTA
1 CAGCTCGTGTGAGCATACCAATTTA
32184993 CAGCTCGTGTGAGCATA
1 CAGCTCGTGTGAGCATA
32185010 TATGTACAAG
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
24 20 0.23
25 67 0.77
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
CAGCTCGTGTGAGCATACCAATTTA
Found at i:32185611 original size:25 final size:25
Alignment explanation
Indices: 32185570--32185628 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
32185560 TTGGTTAACA
* * *
32185570 TTGGCCATATATTTTGG-TTGTTGTT
1 TTGGCCATTTATCTTGGCTTG-TGAT
32185595 TTGGCCATTTATCTTGGCTTGTGAT
1 TTGGCCATTTATCTTGGCTTGTGAT
32185620 TTGG-CATTT
1 TTGGCCATTT
32185629 TGTTTCTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.17
25 22 0.73
26 3 0.10
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (25 bp):
TTGGCCATTTATCTTGGCTTGTGAT
Found at i:32194105 original size:22 final size:22
Alignment explanation
Indices: 32194080--32194132 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
32194070 ACGGCCCTTG
32194080 TAATTAAAATTTCATTATTTTA
1 TAATTAAAATTTCATTATTTTA
*
32194102 TAATTAAAATTTCATTATTTTG
1 TAATTAAAATTTCATTATTTTA
32194124 TAATTAAAA
1 TAATTAAAA
32194133 ATAAAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTAAAATTTCATTATTTTA
Found at i:32194141 original size:23 final size:22
Alignment explanation
Indices: 32194093--32194143 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
32194083 TTAAAATTTC
***
32194093 ATTATTTTATAATTAAAATTTC
1 ATTATTTTATAATTAAAATAAA
*
32194115 ATTATTTTGTAATTAAAAATAAA
1 ATTATTTTATAATT-AAAATAAA
32194138 ATTATT
1 ATTATT
32194144 AGAATATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTATTTTATAATTAAAATAAA
Found at i:32194824 original size:10 final size:9
Alignment explanation
Indices: 32194794--32194933 Score: 90
Period size: 10 Copynumber: 14.8 Consensus size: 9
32194784 TTATTTTTTC
32194794 ATAAAAATT
1 ATAAAAATT
*
32194803 ATAAAATTTT
1 ATAAAA-ATT
32194813 ATATAAAATT
1 ATA-AAAATT
32194823 ATAAAAA-T
1 ATAAAAATT
*
32194831 ATGAAAACTT
1 AT-AAAAATT
*
32194841 ATAAATATT
1 ATAAAAATT
32194850 ATAAAAATT
1 ATAAAAATT
*
32194859 ATTATAAATT
1 A-TAAAAATT
*
32194869 ATTAAAAACAT
1 A-TAAAAA-TT
*
32194880 ATTAAAATT
1 ATAAAAATT
32194889 CA-AAAAAGCTT
1 -ATAAAAA--TT
32194900 ATAAATAA-T
1 ATAAA-AATT
32194909 A-AAAAATT
1 ATAAAAATT
*
32194917 AAAATAAATT
1 ATAA-AAATT
32194927 ATAAAAA
1 ATAAAAA
32194934 AATTTACTTG
Statistics
Matches: 104, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
7 2 0.02
8 8 0.08
9 40 0.38
10 42 0.40
11 10 0.10
12 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:32194828 original size:28 final size:28
Alignment explanation
Indices: 32194794--32194860 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
32194784 TTATTTTTTC
*
32194794 ATAAAAATTAT-AAAATTTTATATAAAATT
1 ATAAAAATTATGAAAA-CTTATA-AAAATT
*
32194823 ATAAAAA-TATGAAAACTTATAAATATT
1 ATAAAAATTATGAAAACTTATAAAAATT
32194850 ATAAAAATTAT
1 ATAAAAATTAT
32194861 TATAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 12 0.35
28 11 0.32
29 11 0.32
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (28 bp):
ATAAAAATTATGAAAACTTATAAAAATT
Done.