Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 369 of 378
Found at i:110445366 original size:3 final size:3
Alignment explanation
Indices: 110445352--110445434 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
110445342 GAGCTTCGTT
* *
110445352 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
110445396 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
110445435 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:110445412 original size:21 final size:18
Alignment explanation
Indices: 110445352--110445434 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
110445342 GAGCTTCGTT
*
110445352 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
110445372 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
110445390 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
110445411 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
110445429 -TATTAT
1 TTATTAT
110445435 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:110445437 original size:27 final size:26
Alignment explanation
Indices: 110445351--110445438 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
110445341 AGAGCTTCGT
* * *
110445351 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
110445378 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
110445403 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
110445429 TATTATATAT
1 T-TTATATAT
110445439 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:110449970 original size:17 final size:17
Alignment explanation
Indices: 110449948--110450007 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
110449938 TAAGCCCCCC
110449948 AAAAAAAACCTAACCCA
1 AAAAAAAACCTAACCCA
*** ***
110449965 AAAAAAAAAAGAAGAAA
1 AAAAAAAACCTAACCCA
110449982 AAAGAAAAACCTAACCCA
1 AAA-AAAAACCTAACCCA
110450000 AAAAAAAA
1 AAAAAAAA
110450008 AGAAGAAAAA
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.75, C:0.17, G:0.05, T:0.03
Consensus pattern (17 bp):
AAAAAAAACCTAACCCA
Found at i:110449971 original size:18 final size:18
Alignment explanation
Indices: 110449948--110450008 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
110449938 TAAGCCCCCC
110449948 AAAAAAAACCTAACCCAA
1 AAAAAAAACCTAACCCAA
** **
110449966 AAAAAAAA-AGAA-GAAA
1 AAAAAAAACCTAACCCAA
110449982 AAAGAAAAACCTAACCCAA
1 AAA-AAAAACCTAACCCAA
110450001 AAAAAAAA
1 AAAAAAAA
110450009 GAAGAAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 15 0.47
19 5 0.16
ACGTcount: A:0.75, C:0.16, G:0.05, T:0.03
Consensus pattern (18 bp):
AAAAAAAACCTAACCCAA
Found at i:110449995 original size:35 final size:35
Alignment explanation
Indices: 110449951--110450042 Score: 161
Period size: 34 Copynumber: 2.7 Consensus size: 35
110449941 GCCCCCCAAA
110449951 AAAAACCTAACCCAAAAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAGAAGAAAAAAG
110449986 AAAAACCTAACCC-AAAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAGAAGAAAAAAG
*
110450020 AAAAACCTAA-CAAAAAAAAAAAA
1 AAAAACCTAACCCAAAAAAAAAAA
110450043 CTAAAAAACC
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
33 1 0.02
34 41 0.75
35 13 0.24
ACGTcount: A:0.76, C:0.14, G:0.07, T:0.03
Consensus pattern (35 bp):
AAAAACCTAACCCAAAAAAAAAAAGAAGAAAAAAG
Found at i:110450034 original size:18 final size:18
Alignment explanation
Indices: 110449979--110450043 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
110449969 AAAAAAGAAG
110449979 AAAAAAGAAAAACCTAACC
1 AAAAAAGAAAAACCTAA-C
* * *
110449998 CAAAAA-AAAAA--GAAG
1 AAAAAAGAAAAACCTAAC
110450013 AAAAAAGAAAAACCTAAC
1 AAAAAAGAAAAACCTAAC
*
110450031 AAAAAAAAAAAAC
1 AAAAAAGAAAAAC
110450044 TAAAAAACCT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
15 5 0.14
16 7 0.19
18 19 0.53
19 5 0.14
ACGTcount: A:0.77, C:0.14, G:0.06, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAACCTAAC
Found at i:110450097 original size:12 final size:12
Alignment explanation
Indices: 110450080--110450109 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
110450070 TCCCACTTGC
110450080 CCCATTTTTCCT
1 CCCATTTTTCCT
110450092 CCCATTTTTCCT
1 CCCATTTTTCCT
110450104 CCCATT
1 CCCATT
110450110 GTCTACCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.43, G:0.00, T:0.47
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:110452101 original size:12 final size:12
Alignment explanation
Indices: 110452084--110452119 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
110452074 ATTCATTTGA
110452084 CATTCATGCATT
1 CATTCATGCATT
110452096 CATTCATGCATT
1 CATTCATGCATT
*
110452108 CATTCATACATT
1 CATTCATGCATT
110452120 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:110457406 original size:70 final size:69
Alignment explanation
Indices: 110457287--110457996 Score: 514
Period size: 70 Copynumber: 10.1 Consensus size: 69
110457277 GAGTTAAGCC
* *
110457287 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
110457351 TGAGGTA
63 TGAGGTA
* ** ** *
110457358 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
110457423 A-GTA
65 AGGTA
* * *
110457427 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
110457492 GAGGTA
64 GAGGTA
* * * ** * ***
110457498 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-A---T--
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
110457556 --T-
66 GGTA
** * *
110457557 TTTGT---TTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 TTT-TCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
110457615 AGGTA
65 AGGTA
*
110457620 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
110457684 TGAGGTA
63 TGAGGTA
* * * * * * ** *
110457691 ATTTCAATTTCTGTTTCAAAAAATGAACTCATATTGTGAGA-AT-AGTTGAGCCTCAAAGACATG
1 TTTTCAATTTTTGTTT---TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACG
110457754 CTGAGGTA
62 CTGAGGTA
* *
110457762 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTC-AGA
1 TTTTCAATTTTTG-TTTT------AAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGGGA
110457826 CACGCTGAAGGTA
58 CACGCTG-AGGTA
* * * * *
110457839 ATTTCAATTTCTGTTGTCAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGC
1 TTTTCAATTTTTGTT-T--TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
110457904 TGAGGTAA
63 TGAGGT-A
* * * ***
110457912 TTTTCAATTTCTGTTGTCAAAAAAAGTCAACTCGTATTGC-AGAGGTGAGTTGAGCCTCAATCAC
1 TTTTCAATTTTTGTT-T----TAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGAC
*
110457976 ACGCCGAGGTA
59 ACGCTGAGGTA
110457987 TTTTCAATTT
1 TTTTCAATTT
110457997 CCATTTTTCA
Statistics
Matches: 519, Mismatches: 69, Indels: 98
0.76 0.10 0.14
Matches are distributed among these distances:
53 31 0.06
55 1 0.00
57 3 0.01
58 1 0.00
59 3 0.01
60 2 0.00
62 2 0.00
63 3 0.01
64 1 0.00
66 4 0.01
67 1 0.00
68 3 0.01
69 63 0.12
70 86 0.17
71 86 0.17
72 76 0.15
73 36 0.07
75 45 0.09
76 42 0.08
77 19 0.04
78 11 0.02
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
GGTA
Found at i:110457586 original size:262 final size:259
Alignment explanation
Indices: 110457118--110457765 Score: 1054
Period size: 262 Copynumber: 2.5 Consensus size: 259
110457108 TTTTCAAGGA
*
110457118 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
110457183 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTTTA
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTTTA
110457248 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
131 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
110457313 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
*
110457377 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-GTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
110457441 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTT--T
110457506 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
128 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
110457571 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
192 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
110457636 TTT
257 TTT
* * * * * *
110457639 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
* * ** *
110457703 G-TTTCAAAAAATGAACTCATATTGTGAGAA-T-AGTTGAGCCTCAAAGACATGCTGAGGTATTT
64 GTTTTC--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGACACGCTGAGGTATTT
110457765 T
126 T
110457766 CAATTTCTGT
Statistics
Matches: 363, Mismatches: 16, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
258 72 0.20
259 50 0.14
261 4 0.01
262 131 0.36
263 28 0.08
264 57 0.16
265 21 0.06
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (259 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTTTA
GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:110457724 original size:71 final size:72
Alignment explanation
Indices: 110457567--110457997 Score: 491
Period size: 71 Copynumber: 5.9 Consensus size: 72
110457557 TTTGTTTTTC
* * * * *
110457567 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
**
110457632 GTGTT-TT
66 GT-TTCAA
**
110457639 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
110457703 GTTTCAA
66 GTTTCAA
* * * * * *
110457710 AAAATGAACTCATATTGTGAGA-AT-AGTTGAGCCTCAAAGACATGCTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATTTC
110457773 TGTTTTTCAAAA
65 TG--TTTC--AA
110457785 AAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAAGGTAATTTCAATTT
1 AAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG-AGGTAATTTCAATTT
110457849 CTGTTGTCAA
64 CTGTT-TCAA
110457859 AAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAACACGCTGAGGTAATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAA-TTTCAATTT
110457922 CTGTTGTCAAA
64 CTGTT-TC-AA
* ** * *
110457933 AAAAGTCAACTCGTATTGC-AGAGGTGAGTTGAGCCTCAATCACACGCCGAGGTATTTTCAATTT
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATTT
110457997 C
64 C
110457998 CATTTTTCAA
Statistics
Matches: 313, Mismatches: 26, Indels: 37
0.83 0.07 0.10
Matches are distributed among these distances:
69 11 0.04
70 3 0.01
71 69 0.22
72 65 0.21
73 37 0.12
74 12 0.04
75 44 0.14
76 42 0.13
77 19 0.06
78 11 0.04
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTCAA
Found at i:110457873 original size:148 final size:147
Alignment explanation
Indices: 110457567--110457997 Score: 511
Period size: 148 Copynumber: 2.9 Consensus size: 147
110457557 TTTGTTTTTC
* * **** *
110457567 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTTTCAATTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAAACACGCTGAGGTAATTTTCAATTTC
*** ** *
110457631 TG-TGT--TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTAAT
66 TGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTAAT
110457693 TTCAATTTCTGTTTCAA
131 TTCAATTTCTGTTTCAA
* * *
110457710 AAAATGAACTCATATTGTGAGA-AT-AGTTGAGCCTCAAAGACATGCTGAGGT-ATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAA-ACACGCTGAGGTAATTTTCAATTT
*
110457772 CTGTTTTTCAAAAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAAGG
65 CTG-TTGTCAAAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTG-AGG
110457837 TAATTTCAATTTCTGTTGTCAA
127 TAATTTCAATTTCTGTT-TCAA
* **
110457859 AAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAAACACGCTGAGGTAATTTTCAATTTC
* * * *
110457923 TGTTGTCAAAAAAAGTCAACTCGTATTGC-AGAGGTGAGTTGAGCCTCAATCACACGCCGAGGTA
66 TGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-GACACGCTGAGGTA
*
110457987 TTTTCAATTTC
129 ATTTCAATTTC
110457998 CATTTTTCAA
Statistics
Matches: 246, Mismatches: 29, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
141 11 0.04
142 24 0.10
143 19 0.08
144 2 0.01
146 11 0.04
147 51 0.21
148 56 0.23
149 46 0.19
150 26 0.11
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (147 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAAACACGCTGAGGTAATTTTCAATTTC
TGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTAAT
TTCAATTTCTGTTTCAA
Found at i:110458109 original size:72 final size:73
Alignment explanation
Indices: 110458024--110458313 Score: 368
Period size: 72 Copynumber: 4.1 Consensus size: 73
110458014 CCTTTCAAAA
** *
110458024 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC-ATT
110458088 TCTGTTTTC
65 TCTGTTTTC
* * *
110458097 AAAAAAA-GAACTCATATTGTGAGAAATGAGTTGAG-CTCAAGACACGTTGAGGTAATTTCATTT
1 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCATTT
**
110458160 C-AATTTC
66 CTGTTTTC
110458167 AAAAAAAAATTCAACTCATATTGC-AG-AATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
1 --AAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC-
*
110458230 ATTTTTGTTTTC
62 ATTTCTGTTTTC
*
110458242 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TGAGGTAATTTCA-TT
1 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCATTT
110458303 CTG-TTTC
66 CTGTTTTC
110458310 AAAA
1 AAAA
110458314 TGAGTTGAGC
Statistics
Matches: 189, Mismatches: 16, Indels: 27
0.81 0.07 0.12
Matches are distributed among these distances:
68 4 0.02
69 4 0.02
70 21 0.11
71 26 0.14
72 83 0.44
73 32 0.17
74 15 0.08
75 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (73 bp):
AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCATTT
CTGTTTTC
Found at i:110458163 original size:169 final size:167
Alignment explanation
Indices: 110457857--110458281 Score: 465
Period size: 144 Copynumber: 2.7 Consensus size: 167
110457847 TTCTGTTGTC
110457857 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTTCAATTT
1 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTTCAATTT
* **
110457922 CTGTTGTCAAAAAAAGTCAACTCGTATTGCAGAGGTGAGTTGAGCCTCAATCACACGCCGAGGTA
66 CTGTTGTCAAAAAAAG-CAACTCATATTGCAGAAATGAGTTGAGCCTCAATCACACGCCGAGGTA
110457987 TTTTCAATTTCCATTTTTCAATTTTTGCCTTTCAAAAA
130 TTTTCAATTTCCATTTTTCAATTTTTGCCTTTCAAAAA
110458025 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-ACACGCTGAGGTAA-TTTCAATT
1 AAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTTCAATT
* * * **
110458088 TCTGTTTTCAAAAAAAG-AACTCATATTGTGAGAAATGAGTTGAG-CTCAA-GACACGTTGAGG-
65 TCTGTTGTCAAAAAAAGCAACTCATATTG-CAGAAATGAGTTGAGCCTCAATCACACGCCGAGGT
110458149 ----T-AATTT-CA--TTTCAA--------TTTCAAAAA
129 ATTTTCAATTTCCATTTTTCAATTTTTGCCTTTCAAAAA
** * *
110458172 AAAATTCAACTCATATTGC-AGA-ATGAGTTGAGCCTC-AAGACACGCTGAGGTAA-TTTCAATT
1 AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-ACACGCTGAGGTAATTTTCAATT
* * **
110458233 TTTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
65 TCTGTTGTCAAAAAAAGCAACTCATATTGC-AGAAATGAGTTGAGCCTCAA
110458282 GACACGTGAG
Statistics
Matches: 234, Mismatches: 16, Indels: 37
0.82 0.06 0.13
Matches are distributed among these distances:
143 4 0.02
144 38 0.16
145 38 0.16
146 13 0.06
147 13 0.06
155 6 0.03
157 2 0.01
158 5 0.02
159 1 0.00
164 9 0.04
165 15 0.06
166 12 0.05
167 24 0.10
168 20 0.09
169 34 0.15
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (167 bp):
AAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTTTCAATTT
CTGTTGTCAAAAAAAGCAACTCATATTGCAGAAATGAGTTGAGCCTCAATCACACGCCGAGGTAT
TTTCAATTTCCATTTTTCAATTTTTGCCTTTCAAAAA
Found at i:110458333 original size:47 final size:50
Alignment explanation
Indices: 110458264--110458364 Score: 165
Period size: 47 Copynumber: 2.1 Consensus size: 50
110458254 ATATTGCGAG
110458264 AAATGAGTTGAGCCTCAAGACACG-TGAGGTAATTTC-A-TTCTG-TTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTCAATTTCTGTTTTCA
110458311 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTCAATTTCTGTTTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTCAATTTCTGTTTTCA
110458361 AAAT
1 AAAT
110458365 CAACTCATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
47 29 0.58
48 7 0.14
49 5 0.10
50 9 0.18
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (50 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTCAATTTCTGTTTTCA
Found at i:110458465 original size:75 final size:73
Alignment explanation
Indices: 110458312--110459026 Score: 446
Period size: 75 Copynumber: 9.2 Consensus size: 73
110458302 TCTGTTTCAA
*
110458312 AATGAGTTGAGCCTCAAGACACGCTGAGGTA-TTTCAATTTCTGTTTTC---AAAATCAACTCAT
1 AATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCAT
110458373 ATTGCGAG
66 ATTGCGAG
* * *
110458381 AATTAGTTGAGCCTCAAGACATTCTGAGGTA-TTTCAATTTCTTTTTTTCAAAAAAAAATCAACT
1 AATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC-TGTTTTC--AAAAAAATCAACT
*
110458445 CATATTGTGAG
63 CATATTGCGAG
110458456 AATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCA
1 AATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTG-TTTTCAAAAAAATCAACTCA
110458521 TATTGCGAG
65 TATTGCGAG
* * * *
110458530 AGGTGAGTTGAGCCTCAGGACACG-TGAGGTAATTTTCAATTTCTGTTGTCAAAAAAA-CAACTC
1 A-ATGAGTTGAGCCTCAAGACATGCTGAGGT-ATTTTCAATTTCTGTTTTCAAAAAAATCAACTC
* *
110458593 GTATTGTGAG
64 ATATTGCGAG
** * * * *
110458603 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTGTTTTTCATTTCTGCCTTTCA
1 A-ATGAGTTGAGCCTCAAG--ACATGCTGAGGTATTTTC-A----------ATTTCTG-TTTTCA
110458668 AAAAAAATCAACTCATATTGCGAG
51 AAAAAA-TCAACTCATATTGCGAG
* ** ** *
110458692 AGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATTTCTGTCTTTC--AAAAATCAA
1 A-ATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAATTTCTGT-TTTCAAAAAAATCAA
110458754 CTCATATTGCGAG
61 CTCATATTGCGAG
* * * ** * *
110458767 AGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCA
1 A-ATGAGTTGAGCCTCA-A-GACATGCTGAGGTA--TTTTCAATTTCT-GTTTTCAAAAAAATCA
*
110458832 ACTCACATTGCGAG
60 ACTCATATTGCGAG
* ** **
110458846 ATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAATTCTGTTTT
1 A-ATGAGTTGAGCCTCAAG--ACATGCT-GAGGTATTTTCAATTTCTG-TTTTCAA---------
*
110458910 CAAAATCAACTCATATTGCGAG
52 AAAAATCAACTCATATTGCGAG
** * *
110458932 AAGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTCAAAAAAA
1 AA-TGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAATTTCTG-----TTTTCAAAAAAA
110458996 TTCAACTCATATTGCGAG
57 -TCAACTCATATTGCGAG
*
110459014 AGGTGAGTTGAGC
1 A-ATGAGTTGAGC
110459027 TTTTTAATTT
Statistics
Matches: 525, Mismatches: 58, Indels: 113
0.75 0.08 0.16
Matches are distributed among these distances:
69 38 0.07
70 6 0.01
72 1 0.00
73 32 0.06
74 42 0.08
75 135 0.26
76 26 0.05
77 31 0.06
78 13 0.02
79 44 0.08
81 4 0.01
82 28 0.05
86 59 0.11
87 12 0.02
88 1 0.00
89 43 0.08
90 9 0.02
92 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
AATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCAT
ATTGCGAG
Found at i:110458486 original size:192 final size:189
Alignment explanation
Indices: 110458120--110458502 Score: 492
Period size: 192 Copynumber: 2.0 Consensus size: 189
110458110 ATATTGTGAG
*
110458120 AAATGAGTTGAGCTCAAGACACGTTGAGGTAATTTCATTTCAATTTCAAAAAAAAATTCAACTCA
1 AAATGAGTTGAGCTCAAGACACGCTGAGGTAATTTCATTTCAATTTC----AAAAATTCAACTCA
*
110458185 TATTGCAGAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
62 TATTGCAGAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTTGTTTTCAAAAATCA
110458250 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGAGGTAATTTC-A-TTCTGTTTCA
127 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGAGGTAATTTCAATTTCTGTTTCA
**
110458311 AAATGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTCAATTTCTGTTTTC-AAAA-TCAACTCAT
1 AAATGAGTTGAG-CTCAAGACACGCTGAGGTAATTTC-ATTTC-AATTTCAAAAATTCAACTCAT
* ** *
110458373 ATTGCGAGAATTAGTTGAGCCTCAAGACATTCTGAGGT-ATTTCAATTTCTTTTTTTCAAAAAAA
63 ATTGC-AGAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT-TTGTTTTC----AAA
* * *
110458437 AATCAACTCATATTGTGAG-AATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGT
122 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TGAGGTAATTTCAATTTCTGT
110458501 TT
186 TT
110458503 TTCAAAAAAA
Statistics
Matches: 169, Mismatches: 11, Indels: 21
0.84 0.05 0.10
Matches are distributed among these distances:
187 24 0.14
188 40 0.24
191 39 0.23
192 53 0.31
193 5 0.03
194 8 0.05
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (189 bp):
AAATGAGTTGAGCTCAAGACACGCTGAGGTAATTTCATTTCAATTTCAAAAATTCAACTCATATT
GCAGAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTTGTTTTCAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTGAGGTAATTTCAATTTCTGTTTCA
Found at i:110458869 original size:79 final size:77
Alignment explanation
Indices: 110458662--110459026 Score: 270
Period size: 86 Copynumber: 4.5 Consensus size: 77
110458652 TCATTTCTGC
* * * *
110458662 CTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTAT
1 CTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTAT
* *
110458727 TTTCAATTTCTGT
65 TTTCAATTTATAT
* * *
110458740 CTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATT
1 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTA--
110458803 TTTTCAATTTATAT
64 TTTTCAATTTATAT
* * * * ** *
110458817 TTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACA-TGTCGAGGTAT
1 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACT-GAGCTAT
*
110458881 TTTCAAAATCTGTTTTTCAATT
65 TTTC--AA----TTTAT--A-T
*** * * * ***
110458903 CTGTT-TTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTAT
1 CT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTAT
* *
110458967 TTTCAATTTCTGTTTTT
65 TTTCAA--T-T-TATAT
*
110458984 TTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
110459027 TTTTTAATTT
Statistics
Matches: 230, Mismatches: 37, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
75 49 0.21
77 21 0.09
78 6 0.03
79 49 0.21
80 2 0.01
81 6 0.03
82 31 0.13
83 5 0.02
84 5 0.02
85 1 0.00
86 52 0.23
87 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (77 bp):
CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTGAGCTATT
TTCAATTTATAT
Found at i:110459044 original size:30 final size:30
Alignment explanation
Indices: 110459008--110459069 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
110458998 CAACTCATAT
110459008 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
110459038 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
110459068 TG
1 TG
110459070 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:110459917 original size:29 final size:29
Alignment explanation
Indices: 110459885--110459974 Score: 105
Period size: 31 Copynumber: 3.1 Consensus size: 29
110459875 AAGCCCCCCC
110459885 AAAAAAAACCTAACCCAAAAAAAAGAAGAA
1 AAAAAAAACCTAACCCAAAAAAAAGAA-AA
110459915 AAAAGAAAACCTAACCCAAAAAAAA-AGAAA
1 AAAA-AAAACCTAACCCAAAAAAAAGA-AAA
* **
110459945 AAAGAAAACCTAA--CAAAAAAACTAAAA
1 AAAAAAAACCTAACCCAAAAAAAAGAAAA
110459972 AAA
1 AAA
110459975 CCTAGCCACC
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
27 14 0.25
28 1 0.02
29 9 0.16
30 10 0.18
31 21 0.38
ACGTcount: A:0.74, C:0.16, G:0.06, T:0.04
Consensus pattern (29 bp):
AAAAAAAACCTAACCCAAAAAAAAGAAAA
Found at i:110459927 original size:31 final size:30
Alignment explanation
Indices: 110459885--110459965 Score: 125
Period size: 29 Copynumber: 2.8 Consensus size: 30
110459875 AAGCCCCCCC
110459885 AAAA-AAAACCTAACCCAAAAAAAAGAAGAA
1 AAAAGAAAACCTAACCCAAAAAAAA-AAGAA
110459915 AAAAGAAAACCTAACCC-AAAAAAAAAGAA
1 AAAAGAAAACCTAACCCAAAAAAAAAAGAA
110459944 AAAAGAAAACCTAA--CAAAAAAA
1 AAAAGAAAACCTAACCCAAAAAAA
110459966 CTAAAAAAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
27 1 0.02
28 6 0.12
29 19 0.39
30 11 0.22
31 12 0.24
ACGTcount: A:0.74, C:0.16, G:0.06, T:0.04
Consensus pattern (30 bp):
AAAAGAAAACCTAACCCAAAAAAAAAAGAA
Found at i:110460761 original size:37 final size:37
Alignment explanation
Indices: 110460719--110460818 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 37
110460709 CTAATATTTT
110460719 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
110460756 CTTTTATTATATGCATA-TATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATATTAT-TAT-TATTATTATGTACATA
*
110460797 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
110460819 CCAAATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 16 0.30
38 7 0.13
39 6 0.11
40 11 0.21
41 11 0.21
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:110464864 original size:37 final size:38
Alignment explanation
Indices: 110464792--110464864 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 38
110464782 ACAAAAATAT
* *
110464792 ATATAAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAAATATTTACAATAATCATATAAATAAACAAC
110464830 ATAT-AAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAAATATTT-ACAATAATCATATAAAT-AAACA
110464865 TAAAAAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 7 0.23
37 19 0.61
38 5 0.16
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (38 bp):
ATATAAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:110466611 original size:88 final size:87
Alignment explanation
Indices: 110466383--110466611 Score: 225
Period size: 88 Copynumber: 2.6 Consensus size: 87
110466373 GTGATCTTGA
* * * *
110466383 GCTCAACTCATTTCTCGCAGTATGAATTGATTCTTT-AGAAACAGACATTAAAA-CAGAAATTGA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATT-TTTGA-AAACAGAAATTAAAAGCAGAAATTGA
* * *
110466446 AAATAGCTCAGCACATGAGCTAAG
64 AAATACCTCAGCACATGACCCAAG
* ** * **
110466470 GCTCAACTCACTTCTCGCAATGTGAGTTGATCTTTTG-AAACTTAATTTGAAAAGCAGATTTTGA
1 GCTCAACTCACTTCTCGCAATATGAGTTGAT-TTTTGAAAACAGAAATT-AAAAGCAGAAATTGA
*
110466534 AAATACCTC-G-ACATGTGACCCGAG
64 AAATACCTCAGCACA--TGACCCAAG
*
110466558 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAAAAG
110466612 GTTCAACTCA
Statistics
Matches: 115, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
86 10 0.09
87 40 0.35
88 57 0.50
89 8 0.07
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (87 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAAGCAGAAATTGAAA
ATACCTCAGCACATGACCCAAG
Found at i:110466797 original size:75 final size:76
Alignment explanation
Indices: 110466672--110466812 Score: 221
Period size: 75 Copynumber: 1.9 Consensus size: 76
110466662 TTGAAAAACG
* *
110466672 GAAATTGAAAATACCTCGGCGTGTGACCTGAGACTCAACTCACTTCTCGCAATATGAGTTAATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTT
110466737 TTTTTATGAACA
65 TTTTTATGAACA
* * *
110466749 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTT
110466813 GACGAACAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 37 0.63
77 22 0.37
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (76 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTT
TTTTATGAACA
Found at i:110466834 original size:14 final size:14
Alignment explanation
Indices: 110466817--110466845 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
110466807 GATTTTGACG
110466817 AACAGAAATTGAAA
1 AACAGAAATTGAAA
110466831 AACAGAAATTGAAA
1 AACAGAAATTGAAA
110466845 A
1 A
110466846 TACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:110466852 original size:86 final size:88
Alignment explanation
Indices: 110466745--110466920 Score: 275
Period size: 88 Copynumber: 2.0 Consensus size: 88
110466735 TTTTTTTATG
* * *
110466745 AACAGAAATTGAAATTACCTCAG-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAATACCTCAGACGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
110466809 -TTTTGACGAACAGAAATTGAAA
66 TTTTTGACGAACAGAAATTGAAA
*
110466831 AACAGAAATTGAAAATACCTCAGCACGTGAGCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
1 AACAGAAATTGAAAATACCTCAG-ACGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
*
110466896 ATTTTTTGATGAACAGAAATTGAAA
65 A-TTTTTGACGAACAGAAATTGAAA
110466921 TTACCTCAGC
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
86 22 0.27
88 38 0.47
90 21 0.26
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (88 bp):
AACAGAAATTGAAAATACCTCAGACGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
TTTTTGACGAACAGAAATTGAAA
Found at i:110467127 original size:75 final size:75
Alignment explanation
Indices: 110467021--110468038 Score: 548
Period size: 75 Copynumber: 12.8 Consensus size: 75
110467011 CACCAGAATA
*
110467021 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAG-TGATTTTTTTAAACACAAAAATTGAAAAC
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAA-ACAAAAATTGAAAAT
110467085 ACCTCAGCGTG
65 ACCTCAGCGTG
* * ** * *
110467096 TGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAAGA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAAAAATTGAAAATA
* *
110467161 CCTCAACATG
66 CCTCAGCGTG
* * * * *
110467171 TGAGCTGAGGCTCAACTCACCTCTCGCTATATGAGTTGA-TTTTTGACAAACAAAAATT-AGAAT
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTA-AAACAAAAATTGA-AAA
110467234 TACCTCAGCGTG
64 TACCTCAGCGTG
* * * *
110467246 T--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAGAGTAGAAATAGAAATC
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT------TA-AAACAAAAATT
*
110467309 GACAATACCTCAGC--G
59 GAAAATACCTCAGCGTG
* *
110467324 TG-CCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAGCAGGAATTGAAA
1 TGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAA-CA--AA---AAT
* ** ** *
110467388 AGCAGAAATTGAAAATACCTCAGCG
58 TG-A-AAA-T--ACCT-CAGC-GTG
* *
110467413 T-ACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACATAAATTGAAG
1 TGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--AAAACAAAAATTGAA-
** ***
110467477 AA-A-CAGAAATTG
62 AATACCTCAGCGTG
* * *
110467489 AAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
1 ---TGACC-C-G-A-G-GCT----C-AA-CTCACCTCTCGCAATATGAGTTGATTTTTTT--AAA
* * * *
110467554 ACATAAATTGAAAAGACCTCAACATG
50 ACAAAAATTGAAAATACCTCAGCGTG
* * * * *
110467580 TGAGCCGAGGCTCAACTCACCTCTCGCTATATGAGTT-AATTTTTGACAAACATAAATTGAAGAA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTA-AAACAAAAATT---G--
** * * **
110467644 AACAGAAATTGAAATTACCCCAGCA
60 ---A-AAA-T-ACCTCA-GC--GTG
* * * * *
110467669 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAAG
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TAAAACAAAAATTGAAAAT
* *
110467734 ACCTCAACATG
65 ACCTCAGCGTG
* * * * *
110467745 TGAGCCGACGCTCAACTCACCTCTCGCTATATGAGTTAATTTTTTGACAAAC-AAAATT-AAAAT
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTA-AAACAAAAATTGAAAA-
110467808 TACCTCAGCGTG
64 TACCTCAGCGTG
* *
110467820 T--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATAGAAAT
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--A-A--A-ACA-A-AAAT
* *
110467883 CGACAATACCTCAGC--G
58 TGAAAATACCTCAGCGTG
*
110467899 TG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGACAAACATAAATTGAA
1 TGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT-A-AAACAAAAATTGAA
*
110467963 ATTACCTCAGCGTG
62 AATACCTCAGCGTG
* *
110467977 T--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAA-CAAAAATTGAAA
110468039 GCAGAAATTG
Statistics
Matches: 740, Mismatches: 121, Indels: 164
0.72 0.12 0.16
Matches are distributed among these distances:
73 71 0.10
74 23 0.03
75 164 0.22
76 109 0.15
77 25 0.03
78 10 0.01
79 11 0.01
80 66 0.09
81 55 0.07
82 15 0.02
83 8 0.01
84 9 0.01
85 3 0.00
86 6 0.01
87 4 0.01
88 4 0.01
89 82 0.11
90 69 0.09
91 6 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (75 bp):
TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAAAAATTGAAAATA
CCTCAGCGTG
Found at i:110467387 original size:14 final size:14
Alignment explanation
Indices: 110467368--110467402 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
110467358 GTTGATTTTT
*
110467368 TTGAAAAGCAGGAA
1 TTGAAAAGCAGAAA
110467382 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
110467396 TTGAAAA
1 TTGAAAA
110467403 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:110467486 original size:15 final size:14
Alignment explanation
Indices: 110467457--110467491 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
110467447 GCTGATTTTT
*
110467457 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
110467471 TTGAAGAAACAGAAA
1 TTGAA-AAACAGAAA
110467486 TTGAAA
1 TTGAAA
110467492 TTACCTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:110467516 original size:90 final size:89
Alignment explanation
Indices: 110467296--110467730 Score: 506
Period size: 89 Copynumber: 5.0 Consensus size: 89
110467286 TTTGAAGAGT
* * *
110467296 AGAAATAGAAATCGACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AGAAACAGAAATTGA-AATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* **
110467361 GATTTTTTTGAAAAGCAGGAATTGA
65 GATTTTTTTGAAAAACATAAATTGA
* * *
110467386 A-AAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCT
1 AGAAACAGAAATTG-AAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
110467450 GATTTTTTTGAAAAACATAAATTGA
65 GATTTTTTTGAAAAACATAAATTGA
* *
110467475 AGAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AGAAACAGAAATTGAAA-TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
110467540 GATTTTTTTGAAAAACATAAATT--
65 GATTTTTTTGAAAAACATAAATTGA
** * * * * *
110467563 -GAAA-AG-ACCT--CA-ACAT--GTGAG-CC-GAGGCTCAACTCACCTCTCGCTATATGAGTT-
1 AGAAACAGAAATTGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
110467617 A-ATTTTTGACAAACATAAATTGA
66 ATTTTTTTGAAAAACATAAATTGA
* * *
110467640 AGAAAACAGAAATTGAAATTACCCCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AG-AAACAGAAATTGAAA-TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
110467705 TGA-TTTTTTGAAAAACATAAATTGA
64 TGATTTTTTTGAAAAACATAAATTGA
110467730 A
1 A
110467731 AAGACCTCAA
Statistics
Matches: 292, Mismatches: 35, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
75 18 0.06
76 1 0.00
77 30 0.10
78 3 0.01
79 5 0.02
80 2 0.01
81 5 0.02
83 2 0.01
85 4 0.01
86 2 0.01
87 6 0.02
88 2 0.01
89 111 0.38
90 101 0.35
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (89 bp):
AGAAACAGAAATTGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGAAAAACATAAATTGA
Found at i:110467768 original size:76 final size:75
Alignment explanation
Indices: 110467642--110468038 Score: 471
Period size: 76 Copynumber: 5.2 Consensus size: 75
110467632 TAAATTGAAG
* * * * *
110467642 AAAACAGAAATTGAAATTACCCCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
110467707 A-TTTTTTGA
66 ATTTTTTTGA
* * * * *
110467716 AAAACATAAATTGAAAAGACCTCAACATGTGAGCC-GACGCTCAACTCACCTCTCGCTATATGAG
1 AAAACATAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
110467780 TT-AATTTTTTGA
63 TTGATTTTTTTGA
* *
110467792 CAAACA-AAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACATAAATTGAAAA-TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
110467855 GATTTTTTTGA
65 GATTTTTTTGA
* * *
110467866 AGAGCAGAAATAGAAATCGACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
1 A-A--A-ACAT--AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
110467931 GAGTTGATTTTTTTTGA
60 GAGTTGA-TTTTTTTGA
* * *
110467948 CAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
110468013 ATTTTTTTGA
66 ATTTTTTTGA
* *
110468023 AAAGCAGAAATTGAAA
1 AAAACATAAATTGAAA
110468039 GCAGAAATTG
Statistics
Matches: 277, Mismatches: 30, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
72 2 0.01
73 32 0.12
74 34 0.12
75 36 0.13
76 99 0.36
77 3 0.01
78 5 0.02
79 1 0.00
81 53 0.19
82 12 0.04
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (75 bp):
AAAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGA
Found at i:110467943 original size:81 final size:81
Alignment explanation
Indices: 110467798--110468196 Score: 456
Period size: 90 Copynumber: 4.8 Consensus size: 81
110467788 TTGACAAACA
*
110467798 AAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
110467863 TGAAGAGCAGAAATAG
66 TGAAAAGCAGAAATAG
* *
110467879 AAATCGACAA-TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
110467943 TTTG---A-CA-AACAT--
64 TTTGAAAAGCAGAA-ATAG
110467955 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
110468020 TGAAAAGCAGAAATTGAAAGCAG
66 TGAAAAGCAGAAA-T------AG
* ** *
110468043 AAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
110468107 TGAAAAACATAAATTGAAGAAAATAG
66 TG------A-AAA--GCAG-AAATAG
* *
110468133 AAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
110468197 GAAACAGAAA
Statistics
Matches: 274, Mismatches: 15, Indels: 48
0.81 0.04 0.14
Matches are distributed among these distances:
75 10 0.04
76 54 0.20
77 2 0.01
78 5 0.02
79 4 0.01
80 3 0.01
81 53 0.19
82 10 0.04
87 7 0.03
88 55 0.20
90 56 0.20
91 4 0.01
93 1 0.00
94 3 0.01
96 4 0.01
97 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (81 bp):
AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAAGCAGAAATAG
Found at i:110467995 original size:157 final size:154
Alignment explanation
Indices: 110467643--110468124 Score: 638
Period size: 157 Copynumber: 3.1 Consensus size: 154
110467633 AAATTGAAGA
* * *
110467643 AAACAGAAATTGAAATTACCCCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * *
110467708 -TTTTTTGAAA--A-ACAT--AAATTGAAAAGACCTCAACATGTGAGCC-GACGCTCAACTCACC
66 TTTTTTTGAAAGCAGAAATAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACC
* *
110467766 TCTCGCTATATGAGTTAATTTTTTGAC
128 TCTCGCAATATGAGTTGATTTTTTGAC
*
110467793 AAACA-AAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
110467857 TTTTTTTGAAGAGCAGAAATAGAAATCGACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
66 TTTTTTTGAA-AGCAGAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
110467922 TCGCAATATGAGTTGATTTTTTTTGAC
130 TCGCAATATGAGTTGA--TTTTTTGAC
110467949 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
110468014 TTTTTTTGAAAAGCAGAAATTGAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAAC
66 TTTTTTTG-AAAGCAGAAA-T------AGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
* *
110468079 TCACCTCTCGCAATATGAGCTGATTTTTTGAA
123 TCACCTCTCGCAATATGAGTTGATTTTTTGAC
110468111 AAACATAAATTGAA
1 AAACATAAATTGAA
110468125 GAAAATAGAA
Statistics
Matches: 295, Mismatches: 18, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
149 56 0.19
150 14 0.05
151 1 0.00
153 3 0.01
154 36 0.12
156 29 0.10
157 74 0.25
158 3 0.01
162 22 0.07
164 57 0.19
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (154 bp):
AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTGAAAGCAGAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTGAC
Found at i:110468038 original size:14 final size:14
Alignment explanation
Indices: 110468019--110468052 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
110468009 GTTGATTTTT
110468019 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
110468033 TTG-AAAGCAGAAA
1 TTGAAAAGCAGAAA
110468046 TTGAAAA
1 TTGAAAA
110468053 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.56, C:0.06, G:0.21, T:0.18
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:110468106 original size:650 final size:641
Alignment explanation
Indices: 110466747--110468207 Score: 1969
Period size: 650 Copynumber: 2.3 Consensus size: 641
110466737 TTTTTATGAA
* ** *
110466747 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
1 CAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
** * * **
110466810 TTTGACGAACAGAAATTGAA-AAACAGAAATTGAAAATACCTCAGCACGTGAGCTGAGGCTCAAC
66 TTTGAAAAACATAAATTGAAGAAACAGAAATTGAAATTACCTCAGCA--TGTCCTGAGGCTCAAC
* ** ** * *
110466874 TCACCTCTCACAATATGAGTTGATTTTTTGATGAACAGAAATTGAAATTACCTCAGCGTGTCCTG
129 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAGACCTCAACGTGGCCTG
*
110466939 AGGCTCAACTCACCTCTCGCAATACGAGCTGATTTATTTGAAACACAGAAATTGAAGAACAGAAA
194 AGGCTCAACTCACCTCTCGCAATACGAGCTGAATTATTTGAAACACAGAAATTGAAGAACAGAAA
* *
110467004 TGGAAAACACCAGAATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTTTTTAAA
259 TGGAAAACACCAG-ACATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTTTTGAAA
* * * * *
110467069 CACAAAAATTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTG
323 AACAAAAATTGAAAACACCTCAACATGTGACCCGACGCTCAACTCACCTCTCGCAATATGAGTTG
* *
110467134 AATTTTGAAAAACAGAAATTGAAAAGACCTCAACATGTGAGCTGAGGCTCAACTCACCTCTCGCT
388 AATTTTGAAAAACAGAAATTGAAAAGACCTCAACA-GTGACCTGAGGCTCAACTCACCTCTCGCA
* *
110467199 ATATGAGTTGATTTTTGACAAACAAAAATTAGAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
452 ATATGAGTTGATTTTTGACAAACAAAAATTAGAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
*
110467264 CTCTCGCAATATGAGTTGATTTTTTGAAGAGTAGAAATAGAAATCGACAATACCTCAGCGTGCCC
517 CTCTCGCAATATGAGTTGATTTTTTGAAGAGCAGAAATA-AAATCGACAATACCTCAGCGTGCCC
* *
110467329 TGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAGCAGGAATTGAAAAG
581 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAG
110467390 CAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TT
110467455 TTTTGAAAAACATAAATTGAAGAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACT
65 TTTTGAAAAACATAAATTGAAGAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACT
*
110467520 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACATAAATTGAAAAGACCTCAACATGTGAGC
130 CACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAGACCTCAAC--GTG-GC
* * * *
110467585 C-GAGGCTCAACTCACCTCTCGCTATATGAG-TTAATT-TTTGACAA-ACATAAATTGAAGAAAA
191 CTGAGGCTCAACTCACCTCTCGCAATACGAGCTGAATTATTTGA-AACACAGAAATTGAAG--AA
* * * *
110467646 CAGAAATTGAAATTACCCCAG-CATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
253 CAGAAATGGAAA--ACACCAGACATGACCCGAGGCTCAACTCACCTCTCGCAATATGAG-TGATT
* * * *
110467710 TTTTGAAAAACATAAATTGAAAAGACCTCAACATGTGAGCCGACGCTCAACTCACCTCTCGCTAT
315 TTTTGAAAAACAAAAATTGAAAACACCTCAACATGTGACCCGACGCTCAACTCACCTCTCGCAAT
* * * *
110467775 ATGAGTT-AATTTTTTGACAAACA-AAATT-AAAATTACCTCAGC-GTGTCCTGAGGCTCAACTC
380 ATGAGTTGAA--TTTTGAAAAACAGAAATTGAAAA-GACCTCAACAGTGACCTGAGGCTCAACTC
*
110467836 ACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAA-ATAGAAA-TCGACAATACCTCAGCG
442 ACCTCTCGCAATATGAGTTGA--TTTTT---GA-CA-AACA-A-AAATTAGA-AATACCTCAGCG
** *
110467899 TGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TTGA-CA-AACAT-AAATT
497 TGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAGAGCAGAA-ATAAAATC
*
110467960 GA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
561 GACAA-TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
110468024 AAGCAGAAATTG-AAAG
625 AAGCAGAAATTGAAAAG
110468040 CAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
*
110468105 TTTGAAAAACATAAATTGAAGAAAATAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACT
66 TTTGAAAAACATAAATTGAAG-AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACT
*
110468170 CACCTCTCGCAATATGAGTTGA-ATTTTG--AAACAGAAAT
130 CACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
110468208 AAAAGCATCA
Statistics
Matches: 731, Mismatches: 57, Indels: 57
0.87 0.07 0.07
Matches are distributed among these distances:
643 58 0.08
645 36 0.05
646 72 0.10
647 68 0.09
648 88 0.12
649 110 0.15
650 149 0.20
651 74 0.10
652 4 0.01
653 6 0.01
654 8 0.01
655 58 0.08
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (641 bp):
CAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTGAAAAACATAAATTGAAGAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAGACCTCAACGTGGCCTGAG
GCTCAACTCACCTCTCGCAATACGAGCTGAATTATTTGAAACACAGAAATTGAAGAACAGAAATG
GAAAACACCAGACATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTTTTGAAAAAC
AAAAATTGAAAACACCTCAACATGTGACCCGACGCTCAACTCACCTCTCGCAATATGAGTTGAAT
TTTGAAAAACAGAAATTGAAAAGACCTCAACAGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGACAAACAAAAATTAGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTGAAGAGCAGAAATAAAATCGACAATACCTCAGCGTGCCCTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAG
Found at i:110472058 original size:15 final size:15
Alignment explanation
Indices: 110472035--110472070 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
110472025 TAATAAATTT
*
110472035 ATAATAGTGATGAGA
1 ATAACAGTGATGAGA
*
110472050 ATAACAGTGATGATA
1 ATAACAGTGATGAGA
110472065 ATAACA
1 ATAACA
110472071 ATAACAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
ATAACAGTGATGAGA
Found at i:110472210 original size:15 final size:14
Alignment explanation
Indices: 110472174--110472212 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
110472164 TATACGTATG
110472174 AAATAATGATAGTAA
1 AAATAAT-ATAGTAA
110472189 AATATAATATAGTAA
1 AA-ATAATATAGTAA
110472204 ATAATAATA
1 A-AATAATA
110472213 ATGGAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (14 bp):
AAATAATATAGTAA
Found at i:110472309 original size:3 final size:3
Alignment explanation
Indices: 110472301--110472335 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
110472291 ACTACCATAT
110472301 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
110472336 TAGAATACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:110472911 original size:3 final size:3
Alignment explanation
Indices: 110472898--110472958 Score: 106
Period size: 3 Copynumber: 20.3 Consensus size: 3
110472888 ATATAATGAA
110472898 AAT ATAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
110472943 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
110472959 TGAAAATACA
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:110474799 original size:13 final size:13
Alignment explanation
Indices: 110474781--110474805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110474771 TTTGAAACAT
110474781 AGAAATTAAAAGC
1 AGAAATTAAAAGC
110474794 AGAAATTAAAAG
1 AGAAATTAAAAG
110474806 GCTCAACTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:110474960 original size:70 final size:68
Alignment explanation
Indices: 110474871--110475060 Score: 188
Period size: 70 Copynumber: 2.7 Consensus size: 68
110474861 ACGGAAATTA
* * *
110474871 AAGGCTCAACTCAC-CCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAAAATACCT-TGC
1 AAGGCTCAACTC-CTTCTCGCAATATGAGTTGA-TTTTGAAAATAGAATTTG-AAATACCTCAGC
110474934 ATGCCGC
63 ATGCC-C
* * *
110474941 AAGGCTCAACTCCTTCTCGCAATATGAGTTGATTTAGATTTAATAAGAA-TTGAATTACCTCAGC
1 AAGGCTCAACTCCTTCTCGCAATATGAGTTGATTTTGA--AAAT-AGAATTTGAAATACCTCAGC
*
110475005 GTGCCC
63 ATGCCC
* * *
110475011 AAGGTTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAACAGAATT
1 AAGGCTCAACTCCT-TCTCGCAATATGAGTTGA-TTTTGAAAATAGAATT
110475061 AAAAGGCTTA
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
69 10 0.10
70 51 0.51
71 30 0.30
72 9 0.09
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (68 bp):
AAGGCTCAACTCCTTCTCGCAATATGAGTTGATTTTGAAAATAGAATTTGAAATACCTCAGCATG
CCC
Found at i:110475302 original size:71 final size:67
Alignment explanation
Indices: 110475064--110475301 Score: 294
Period size: 64 Copynumber: 3.6 Consensus size: 67
110475054 CAGAATTAAA
* * * * *
110475064 AGGCTTAACTCATCTTTCGCAAGATGAG-T-ATTTTT-AACATAAACT-AAA-TACCTCAGCGTG
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAACATAAATTGAAATTACCTCAACGTG
*
110475124 CCCG
65 -CTG
*
110475128 AGGCTCAACTCATTCTCGCAATATGAGTTGA-TTTTGAACATAAATTGAAATTACCTC-ACGTG-
1 AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAACATAAATTGAAATTACCTCAACGTGC
110475190 TG
66 TG
110475192 AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTG
1 AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTG-AACATAAATTGAAATTACCTCAACGTG
110475257 TCTTG
65 -C-TG
*
110475262 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAA
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAA
110475302 AACAGAATTA
Statistics
Matches: 153, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
63 12 0.08
64 47 0.31
65 15 0.10
66 28 0.18
67 11 0.07
70 16 0.10
71 24 0.16
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (67 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAACATAAATTGAAATTACCTCAACGTGC
TG
Found at i:110475436 original size:71 final size:71
Alignment explanation
Indices: 110475320--110475453 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
110475310 TAAAAAGTAG
* * *
110475320 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
110475385 AAACAT
66 AAACAT
* * *
110475391 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
110475454 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:110475557 original size:156 final size:156
Alignment explanation
Indices: 110475169--110475543 Score: 645
Period size: 156 Copynumber: 2.4 Consensus size: 156
110475159 TTTTGAACAT
*
110475169 AAATTGAAATTACCTCA-CGTG---TGAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
110475229 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
66 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
*
110475294 TTTTTGAAAACAGAATTAAAAAGTAG
131 TTTTTGAAAACAGAATTAAAAAGCAG
110475320 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
110475385 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
66 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
110475450 TTTTCTTGGAAAACATGAATT-AAAAGCAG
131 -TTT-TT-GAAAACA-GAATTAAAAAGCAG
*
110475479 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
110475544 GAAAAAACAA
Statistics
Matches: 212, Mismatches: 3, Indels: 10
0.94 0.01 0.04
Matches are distributed among these distances:
151 16 0.08
152 4 0.02
155 15 0.07
156 89 0.42
157 3 0.01
158 2 0.01
159 78 0.37
160 5 0.02
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (156 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
TTTTTGAAAACAGAATTAAAAAGCAG
Found at i:110488315 original size:3 final size:3
Alignment explanation
Indices: 110488302--110488354 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
110488292 ATATAATGAA
110488302 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
110488348 AAT AAT A
1 AAT AAT A
110488355 TGAAAATACA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:110491915 original size:20 final size:22
Alignment explanation
Indices: 110491886--110491944 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
110491876 TAATTATTTT
110491886 TTATAA-TTTTTTAAATAATT-
1 TTATAATTTTTTTAAATAATTC
* *
110491906 TT-TCATTTTTTAAAATAATTC
1 TTATAATTTTTTTAAATAATTC
110491927 TTATAATTTTTTTGAAAT
1 TTATAATTTTTTT-AAAT
110491945 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 2 0.06
20 15 0.48
21 2 0.06
22 8 0.26
23 4 0.13
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (22 bp):
TTATAATTTTTTTAAATAATTC
Found at i:110493558 original size:103 final size:103
Alignment explanation
Indices: 110493377--110493583 Score: 333
Period size: 103 Copynumber: 2.0 Consensus size: 103
110493367 TGGTCGTTTA
* * *
110493377 ACCCTTAAAAACGTGTGTAATCGAAAACCTCTTGCGTTGTTGTTTTTCAACATTAGTAAATTTCT
1 ACCCTTAAAAACATATGTAATCGAAAACCTCTTGCGTTGTTGTTTTTCAACATTAATAAATTTCT
*
110493442 CTTCCTTTGACCATGATTTTCCTCAATAAAAATTTTCT
66 CTTCCTTTAACCATGATTTTCCTCAATAAAAATTTTCT
* * *
110493480 ACCCTTAAAAATATATGTAATTGAAAACCTCTTGCGTTGTTGTTTTTCAACATTAATGAATTTCT
1 ACCCTTAAAAACATATGTAATCGAAAACCTCTTGCGTTGTTGTTTTTCAACATTAATAAATTTCT
* *
110493545 CTTCCTTTAACCATGATTTTTCTCGATAAAAATTTTCT
66 CTTCCTTTAACCATGATTTTCCTCAATAAAAATTTTCT
110493583 A
1 A
110493584 TGTAAAATTT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 95 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (103 bp):
ACCCTTAAAAACATATGTAATCGAAAACCTCTTGCGTTGTTGTTTTTCAACATTAATAAATTTCT
CTTCCTTTAACCATGATTTTCCTCAATAAAAATTTTCT
Found at i:110493663 original size:3 final size:3
Alignment explanation
Indices: 110493650--110493684 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
110493640 TTTTCAACGT
*
110493650 ATA AT- ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
110493685 TAAACTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:110500488 original size:21 final size:21
Alignment explanation
Indices: 110500463--110500504 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
110500453 ATTAAGTTAA
*
110500463 TTTTGTTCTCATAAATTTGAT
1 TTTTGTTCTAATAAATTTGAT
110500484 TTTTGTTCTAATAAATTTGAT
1 TTTTGTTCTAATAAATTTGAT
110500505 GATTATATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.07, G:0.10, T:0.57
Consensus pattern (21 bp):
TTTTGTTCTAATAAATTTGAT
Found at i:110501368 original size:19 final size:21
Alignment explanation
Indices: 110501343--110501389 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
110501333 AATAAATATT
*
110501343 AAATTTTTATAAA-TATTTTG
1 AAATTTTTAAAAATTATTTTG
110501363 -AA-TTTTAAAAATTATTTTG
1 AAATTTTTAAAAATTATTTTG
110501382 AAATTTTT
1 AAATTTTT
110501390 GCTAAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 9 0.39
20 2 0.09
21 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (21 bp):
AAATTTTTAAAAATTATTTTG
Found at i:110501374 original size:18 final size:20
Alignment explanation
Indices: 110501347--110501388 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
110501337 AATATTAAAT
*
110501347 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGAAA
110501365 TTTTAAAAATTATTTTGAAA
1 TTTTAAAAATTATTTTGAAA
110501385 TTTT
1 TTTT
110501389 TGCTAAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGAAA
Found at i:110501533 original size:23 final size:23
Alignment explanation
Indices: 110501506--110501559 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
110501496 TCGAACTCGA
* *
110501506 AACTCAAATTACT-TATTCGAGTT
1 AACTCAAATAACTCAATTCGA-TT
*
110501529 TACTCAAATAACTCAATTCGATT
1 AACTCAAATAACTCAATTCGATT
110501552 AACTCAAA
1 AACTCAAA
110501560 ATTTGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (23 bp):
AACTCAAATAACTCAATTCGATT
Found at i:110502935 original size:26 final size:24
Alignment explanation
Indices: 110502895--110502954 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
110502885 TTATTTCATT
* * *
110502895 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
110502919 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
110502945 AAATAAATAT
1 AAATAAATAT
110502955 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:110502966 original size:22 final size:22
Alignment explanation
Indices: 110502925--110502983 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
110502915 ATAATAAATC
* *
110502925 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
110502945 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
110502967 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
110502984 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:110503060 original size:15 final size:16
Alignment explanation
Indices: 110503030--110503062 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
110503020 AAATAGTTAT
110503030 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
110503047 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
110503062 A
1 A
110503063 AAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:110509208 original size:58 final size:59
Alignment explanation
Indices: 110509143--110509261 Score: 206
Period size: 59 Copynumber: 2.0 Consensus size: 59
110509133 CTCTCTTTTT
*
110509143 TCTTTCGTAAAATATTAAATATTAGA-TTTTTTAACATTAAT-TCCATTATAAATTATTA
1 TCTTTCGTAAAATATTAAATATTAAATTTTTTTAACATTAATCT-CATTATAAATTATTA
110509201 TCTTTCGTAAAATATTAAATATTAAATTTTTTTAACATTAATCTCATTATAAATTATTA
1 TCTTTCGTAAAATATTAAATATTAAATTTTTTTAACATTAATCTCATTATAAATTATTA
110509260 TC
1 TC
110509262 ATATATATAT
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
58 25 0.43
59 32 0.55
60 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (59 bp):
TCTTTCGTAAAATATTAAATATTAAATTTTTTTAACATTAATCTCATTATAAATTATTA
Found at i:110509269 original size:2 final size:2
Alignment explanation
Indices: 110509262--110509294 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
110509252 AATTATTATC
*
110509262 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110509295 ATGCCTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:110514329 original size:18 final size:18
Alignment explanation
Indices: 110514306--110514348 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
110514296 GAATAGGTTT
110514306 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
110514324 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
110514342 TTAATTA
1 TTAATTA
110514349 CACCTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:110516918 original size:28 final size:29
Alignment explanation
Indices: 110516887--110516944 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
110516877 ATGAAAAAGC
* *
110516887 TCTTCAAAATTAAAAAAAAT-TAAAATTT
1 TCTTAAAAAATAAAAAAAATATAAAATTT
* *
110516915 TCTTAAAAAATAAAATAATTATAAAATTT
1 TCTTAAAAAATAAAAAAAATATAAAATTT
110516944 T
1 T
110516945 TTATAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
TCTTAAAAAATAAAAAAAATATAAAATTT
Found at i:110517495 original size:28 final size:28
Alignment explanation
Indices: 110517456--110517517 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
110517446 TAAAAATATT
110517456 TTTTTTACTTTTTCAAATAATT-TTAATAA
1 TTTTTTACTTTTT--AATAATTGTTAATAA
* *
110517485 TTTTTTA-TTTTTAATATTTGTTTATAA
1 TTTTTTACTTTTTAATAATTGTTAATAA
110517512 TTTTTT
1 TTTTTT
110517518 TTGAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.20
27 12 0.40
28 5 0.17
29 7 0.23
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTTTTACTTTTTAATAATTGTTAATAA
Found at i:110517498 original size:17 final size:17
Alignment explanation
Indices: 110517476--110517509 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
110517466 TTTCAAATAA
110517476 TTTTAATAATTT-TTTAT
1 TTTTAAT-ATTTGTTTAT
110517493 TTTTAATATTTGTTTAT
1 TTTTAATATTTGTTTAT
110517510 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTAATATTTGTTTAT
Found at i:110517518 original size:28 final size:29
Alignment explanation
Indices: 110517450--110517518 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
110517440 AAAAATTAAA
*
110517450 AATATTTTTTTTACTTTTTCAAATAATTTT
1 AATAATTTTTTTACTTTTT-AAATAATTTT
*
110517480 AATAA-TTTTTTA-TTTTT-AATATTTGTT
1 AATAATTTTTTTACTTTTTAAATAATT-TT
*
110517507 TATAATTTTTTT
1 AATAATTTTTTT
110517519 TGAAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 6 0.18
27 6 0.18
28 11 0.32
29 7 0.21
30 4 0.12
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (29 bp):
AATAATTTTTTTACTTTTTAAATAATTTT
Found at i:110521788 original size:14 final size:15
Alignment explanation
Indices: 110521769--110521798 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
110521759 AAACAATAAT
110521769 AATTAATA-TAATTA
1 AATTAATATTAATTA
110521783 AATTAATATTAATTA
1 AATTAATATTAATTA
110521798 A
1 A
110521799 GTGATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTAATATTAATTA
Found at i:110523219 original size:24 final size:23
Alignment explanation
Indices: 110523096--110523220 Score: 54
Period size: 26 Copynumber: 5.0 Consensus size: 23
110523086 TTGTAATAAT
* *
110523096 AATATATACATAATATGGTATTTAAA
1 AATATATA-ATAATAT-ATA-TAAAA
* *
110523122 AATATATATATATATATGTATATAAT
1 AATATATA-ATA-ATATATATA-AAA
* * * *
110523148 AGTATTTAAGAATATATACATAAGA
1 AATATATAATAATATAT--ATAAAA
**
110523173 AATATATAACTAATGGCAT-TAAAA
1 AATATATAA-TAAT-ATATATAAAA
110523197 AATATATACATAATATATATAAAA
1 AATATATA-ATAATATATATAAAA
110523221 TACCTAAAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 18
0.68 0.16 0.17
Matches are distributed among these distances:
23 2 0.03
24 26 0.35
25 12 0.16
26 28 0.38
27 6 0.08
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (23 bp):
AATATATAATAATATATATAAAA
Found at i:110526812 original size:28 final size:28
Alignment explanation
Indices: 110526781--110526835 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
110526771 CATCGCAATA
*
110526781 ACAATTCATT-CACAATTTCAAATTCACC
1 ACAAATCATTACACAA-TTCAAATTCACC
* *
110526809 ACAAATCATTATACAATTCAATTTCAC
1 ACAAATCATTACACAATTCAAATTCAC
110526836 ACATGTATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (28 bp):
ACAAATCATTACACAATTCAAATTCACC
Found at i:110527561 original size:19 final size:18
Alignment explanation
Indices: 110527528--110527575 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
110527518 ATTTTCCCTT
* *
110527528 TTTCTTTTTCTTTTCTTC-
1 TTTCTTTCTCTTTTC-ACG
110527546 TTTCTTTCTCTCTTTCACG
1 TTTCTTTCTCT-TTTCACG
110527565 TTTCTTTCTCT
1 TTTCTTTCTCT
110527576 ATAACTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCACG
Found at i:110527764 original size:3 final size:3
Alignment explanation
Indices: 110527756--110527794 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
110527746 TTGATAAAAT
110527756 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
110527795 TAAATATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:110529718 original size:31 final size:31
Alignment explanation
Indices: 110529674--110529738 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
110529664 TAAAAAACTT
**
110529674 AATAGTTTGGTGACTTAAATAAAAACTTTTG
1 AATAGTTCAGTGACTTAAATAAAAACTTTTG
*
110529705 AATAGTTCAGTGACTTAAATGAAAACTTTTG
1 AATAGTTCAGTGACTTAAATAAAAACTTTTG
110529736 AAT
1 AAT
110529739 TATAATACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (31 bp):
AATAGTTCAGTGACTTAAATAAAAACTTTTG
Found at i:110535345 original size:2 final size:2
Alignment explanation
Indices: 110535338--110535370 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
110535328 ACTATATTTC
110535338 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 A
110535371 CACTCTATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110540024 original size:21 final size:22
Alignment explanation
Indices: 110539987--110540029 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
110539977 AAAATACATT
*
110539987 AATAATATTTTATTAAATAAAA
1 AATAATATTTTAATAAATAAAA
110540009 AATAATA-TTTAATAAATAAAA
1 AATAATATTTTAATAAATAAAA
110540030 TTACAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATAATATTTTAATAAATAAAA
Found at i:110540606 original size:19 final size:19
Alignment explanation
Indices: 110540582--110540618 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
110540572 CAATATTTTC
110540582 TAATAAAATTACTAATAAT
1 TAATAAAATTACTAATAAT
*
110540601 TAATAAATTTACTAATAA
1 TAATAAAATTACTAATAA
110540619 AAAAATATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAAAATTACTAATAAT
Found at i:110545520 original size:20 final size:20
Alignment explanation
Indices: 110545497--110545547 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
110545487 TAAAATTTAC
*
110545497 AAAA-AAAATTCAATAATAA
1 AAAACAAAATTCAAAAATAA
110545516 TAAAATGCAAAATTCAAAAATAA
1 -AAAA--CAAAATTCAAAAATAA
110545539 AAAACAAAA
1 AAAACAAAA
110545548 AACTCATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 9 0.33
22 4 0.15
23 14 0.52
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAACAAAATTCAAAAATAA
Found at i:110548549 original size:22 final size:24
Alignment explanation
Indices: 110548513--110548566 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
110548503 TGATTTAATT
110548513 TAATT-AAAGTAAATATA-A-AAA
1 TAATTAAAAGTAAATATACATAAA
*
110548534 TAATTAAAAGTGAATATACATTAAA
1 TAATTAAAAGTAAATATACA-TAAA
110548559 TAATTAAA
1 TAATTAAA
110548567 TTCATAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 11 0.39
23 1 0.04
25 11 0.39
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (24 bp):
TAATTAAAAGTAAATATACATAAA
Found at i:110549086 original size:16 final size:16
Alignment explanation
Indices: 110549065--110549098 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
110549055 TTCTTTATAA
*
110549065 ATTGATGTCATTTTCT
1 ATTGATGTCATGTTCT
*
110549081 ATTGATGTGATGTTCT
1 ATTGATGTCATGTTCT
110549097 AT
1 AT
110549099 GTGGTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.53
Consensus pattern (16 bp):
ATTGATGTCATGTTCT
Found at i:110550090 original size:133 final size:132
Alignment explanation
Indices: 110549910--110550177 Score: 378
Period size: 133 Copynumber: 2.0 Consensus size: 132
110549900 TGTTTTAGAA
* * * * * *
110549910 TTTTGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATCTTGAACAAACGGGAAATTGCAA
1 TTTTGAAAACATGACTGAAATTCCAAAAGAATATTCGATTATCTTGAACAAACGAGAAATTACAA
*
110549975 CCCAGCACGATAGGGCACAATTCC-CTGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAGA
66 CCCAGCACGATAGGGCACAATTCCTC-GAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGA
110550039 ATT
130 ATT
* * *
110550042 TTTTTAAAGACATGACTGAAATTCCAAAAGAATATTCGATTAAT-TTGAACGAATGAGAAATTAC
1 TTTTGAAA-ACATGACTGAAATTCCAAAAGAATATTCGATT-ATCTTGAACAAACGAGAAATTAC
* * *
110550106 AACCCAGCACGGTAGGGCACGATTCCTCGAATTGTCAAACATCGAACATTGCCTTCGTTTTAAAG
64 AACCCAGCACGATAGGGCACAATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
110550171 AATT
129 AATT
110550175 TTT
1 TTT
110550178 GAATAATTAT
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
132 7 0.06
133 110 0.92
134 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (132 bp):
TTTTGAAAACATGACTGAAATTCCAAAAGAATATTCGATTATCTTGAACAAACGAGAAATTACAA
CCCAGCACGATAGGGCACAATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAA
TT
Found at i:110550874 original size:17 final size:16
Alignment explanation
Indices: 110550852--110550894 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
110550842 ACCCAAACAA
*
110550852 CAATAACCCATTCAGCC
1 CAATAACCCA-ACAGCC
110550869 CAATAACCCCAACAGCC
1 CAATAA-CCCAACAGCC
110550886 CAA-AACCCA
1 CAATAACCCA
110550895 GTAATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 2 0.08
17 14 0.58
18 4 0.17
ACGTcount: A:0.42, C:0.44, G:0.05, T:0.09
Consensus pattern (16 bp):
CAATAACCCAACAGCC
Found at i:110551423 original size:10 final size:10
Alignment explanation
Indices: 110551404--110551433 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
110551394 AATACAATAA
110551404 AATAACAAAAG
1 AATAA-AAAAG
110551415 AATAAAAAAG
1 AATAAAAAAG
110551425 AATAAAAAA
1 AATAAAAAA
110551434 ATAAGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (10 bp):
AATAAAAAAG
Found at i:110551558 original size:20 final size:20
Alignment explanation
Indices: 110551533--110551581 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
110551523 GACCGGAGCT
110551533 TCTCCCCCTCCCCTCTTTTC
1 TCTCCCCCTCCCCTCTTTTC
* * *
110551553 TTTCCCCGTTCCCTCTTTTC
1 TCTCCCCCTCCCCTCTTTTC
110551573 TCTCCCCCT
1 TCTCCCCCT
110551582 TTTCTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.00, C:0.55, G:0.02, T:0.43
Consensus pattern (20 bp):
TCTCCCCCTCCCCTCTTTTC
Found at i:110552267 original size:2 final size:2
Alignment explanation
Indices: 110552260--110552288 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
110552250 GTATGCTTAA
110552260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110552289 CTCTTGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110553933 original size:29 final size:30
Alignment explanation
Indices: 110553884--110553940 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
110553874 ATAAGTTTTT
*
110553884 TTTAAAAATAATATATATATATA-AATAGA
1 TTTAAAAAGAATATATATATATAGAATAGA
*
110553913 TTTAAAAAGAATTTACT-TATATAGAATA
1 TTTAAAAAGAATATA-TATATATAGAATA
110553941 ATATGAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (30 bp):
TTTAAAAAGAATATATATATATAGAATAGA
Found at i:110553997 original size:2 final size:2
Alignment explanation
Indices: 110553990--110554030 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
110553980 TTAAATAGAC
110553990 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
110554031 TAATGTAAGG
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:110563977 original size:2 final size:2
Alignment explanation
Indices: 110563970--110564013 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
110563960 ATTTATACTG
110563970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110564011 AT A
1 AT A
110564014 AACAGCCAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110574397 original size:15 final size:14
Alignment explanation
Indices: 110574376--110574427 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
110574366 TTTGTTTTAA
110574376 ATTATATTTTAATT
1 ATTATATTTTAATT
* *
110574390 ATTTATATTTAAAAT
1 A-TTATATTTTAATT
* *
110574405 ATTAAATTTTAGTT
1 ATTATATTTTAATT
110574419 ACTTATATT
1 A-TTATATT
110574428 ATTATTTTGT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTATATTTTAATT
Found at i:110577706 original size:22 final size:23
Alignment explanation
Indices: 110577679--110577721 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
110577669 TTCTATATAT
110577679 TTTTTCT-AATTTTTTAAAAAGA
1 TTTTTCTAAATTTTTTAAAAAGA
*
110577701 TTTTTCTAAATTTTTTGAAAA
1 TTTTTCTAAATTTTTTAAAAA
110577722 CTTTTTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (23 bp):
TTTTTCTAAATTTTTTAAAAAGA
Found at i:110577727 original size:23 final size:22
Alignment explanation
Indices: 110577678--110577727 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
110577668 TTTCTATATA
*
110577678 TTTTTTCTAATTTTTTAAAAAG
1 TTTTTTCTAATTTTTTAAAAAC
* *
110577700 ATTTTTCTAAATTTTTTGAAAAC
1 TTTTTTCT-AATTTTTTAAAAAC
110577723 TTTTT
1 TTTTT
110577728 GTATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTTCTAATTTTTTAAAAAC
Found at i:110580221 original size:13 final size:13
Alignment explanation
Indices: 110580203--110580227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110580193 CGTAAAATTA
110580203 AAAATATCTTTTC
1 AAAATATCTTTTC
110580216 AAAATATCTTTT
1 AAAATATCTTTT
110580228 TGTTATAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATATCTTTTC
Found at i:110581924 original size:15 final size:16
Alignment explanation
Indices: 110581892--110581924 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
110581882 GAAAGAAAAA
*
110581892 TTATACATTTTCATAT
1 TTATACATTTCCATAT
110581908 TTATACATTTCCA-AT
1 TTATACATTTCCATAT
110581923 TT
1 TT
110581925 TTCATTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATACATTTCCATAT
Found at i:110584015 original size:25 final size:25
Alignment explanation
Indices: 110583987--110584037 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
110583977 TCCTGAGAGA
110583987 GAAAGAGAGATAAACTAAAGTCATG
1 GAAAGAGAGATAAACTAAAGTCATG
110584012 GAAAGAGAGATAAACTAAAGTCATG
1 GAAAGAGAGATAAACTAAAGTCATG
110584037 G
1 G
110584038 TCTTTAGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.25, T:0.16
Consensus pattern (25 bp):
GAAAGAGAGATAAACTAAAGTCATG
Found at i:110585606 original size:8 final size:8
Alignment explanation
Indices: 110585593--110585617 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
110585583 AATATTTGAA
110585593 AAAAAAAG
1 AAAAAAAG
110585601 AAAAAAAG
1 AAAAAAAG
110585609 AAAAAAAG
1 AAAAAAAG
110585617 A
1 A
110585618 TTCTAGCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:110588024 original size:3 final size:3
Alignment explanation
Indices: 110588016--110588040 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
110588006 AGTATGAATC
110588016 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
110588041 CATAGTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:110589053 original size:31 final size:31
Alignment explanation
Indices: 110588994--110589086 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
110588984 GAGTATGTTC
* * **
110588994 AAGCTCCAATGTGGAAACAATTGCCAAGTTT
1 AAGCTCCAATATGGGAACAATTATCAAGTTT
* *
110589025 AAG-TCCCAATATGGGAATAATTATCAAGTTC
1 AAGCT-CCAATATGGGAACAATTATCAAGTTT
* *
110589056 AAGCTCTAATATGGGAACAATTGTCAAGTTT
1 AAGCTCCAATATGGGAACAATTATCAAGTTT
110589087 GAGGACTAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
30 1 0.02
31 48 0.96
32 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (31 bp):
AAGCTCCAATATGGGAACAATTATCAAGTTT
Found at i:110590665 original size:10 final size:10
Alignment explanation
Indices: 110590636--110590729 Score: 70
Period size: 10 Copynumber: 9.6 Consensus size: 10
110590626 TTAGAATTTT
*
110590636 TAAAAAATAA
1 TAAAAAATTA
*
110590646 TAAAAGAATTG
1 TAAAA-AATTA
110590657 TAAAAAATTA
1 TAAAAAATTA
110590667 T-AAAAATTA
1 TAAAAAATTA
110590676 TAAAAAA-TA
1 TAAAAAATTA
*
110590685 T-TAAAATTGA
1 TAAAAAATT-A
* *
110590695 TATAAACTTA
1 TAAAAAATTA
*
110590705 T-AAAATTTA
1 TAAAAAATTA
* *
110590714 TAATAAATCA
1 TAAAAAATTA
110590724 TAAAAA
1 TAAAAA
110590730 CTTGAATCAG
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
8 4 0.06
9 20 0.30
10 29 0.43
11 14 0.21
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:110590673 original size:9 final size:9
Alignment explanation
Indices: 110590659--110590729 Score: 70
Period size: 9 Copynumber: 7.6 Consensus size: 9
110590649 AAGAATTGTA
110590659 AAAAATTAT
1 AAAAATTAT
110590668 AAAAATTAT
1 AAAAATTAT
*
110590677 AAAAAATAT
1 AAAAATTAT
*
110590686 TAAAATTGAT
1 AAAAATT-AT
*
110590696 ATAAACTTAT
1 A-AAAATTAT
*
110590706 AAAATTTAT
1 AAAAATTAT
*
110590715 AATAAATCAT
1 AA-AAATTAT
110590725 AAAAA
1 AAAAA
110590730 CTTGAATCAG
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
9 34 0.67
10 12 0.24
11 5 0.10
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:110590674 original size:19 final size:19
Alignment explanation
Indices: 110590636--110590729 Score: 82
Period size: 19 Copynumber: 4.8 Consensus size: 19
110590626 TTAGAATTTT
* *
110590636 TAAAAAATAATAAAAGAATTG
1 TAAAAAATTAT-AAA-AATTA
110590657 TAAAAAATTATAAAAATTA
1 TAAAAAATTATAAAAATTA
*
110590676 TAAAAAA-TATTAAAATTGA
1 TAAAAAATTATAAAAATT-A
* * *
110590695 TATAAACTTATAAAATTTA
1 TAAAAAATTATAAAAATTA
* *
110590714 TAATAAATCATAAAAA
1 TAAAAAATTATAAAAA
110590730 CTTGAATCAG
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
18 9 0.15
19 29 0.49
20 11 0.19
21 10 0.17
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (19 bp):
TAAAAAATTATAAAAATTA
Found at i:110590715 original size:38 final size:37
Alignment explanation
Indices: 110590524--110590721 Score: 101
Period size: 38 Copynumber: 5.1 Consensus size: 37
110590514 TAAATATTAT
* *
110590524 AAATATTAAAATTTATATAAACTTATTAAAA-TGATAAG
1 AAATATTAAAA-TTATATAAACTTA-TAAAATTTATAAA
* * **** *
110590562 AATTATAATAAATTATATTTTTTTATAAAATTCATTTAAA
1 AAATATTA-AAATTATATAAACTTATAAAATT--TATAAA
* * * * * * *
110590602 ATATTTTAAAATTAAAAAAACGTATTAGAATTTTTAAA
1 AAATATTAAAATTATATAAACTTA-TAAAATTTATAAA
* * * * *
110590640 AAATAATAAAAGAATTGTAAAAAATTATAAAAATTATAAA
1 AAAT-AT-TAA-AATTATATAAACTTATAAAATTTATAAA
*
110590680 AAATATTAAAATTGATATAAACTTATAAAATTTATAAT
1 AAATATTAAAATT-ATATAAACTTATAAAATTTATAAA
110590718 AAAT
1 AAAT
110590722 CATAAAAACT
Statistics
Matches: 114, Mismatches: 37, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
37 9 0.08
38 50 0.44
39 15 0.13
40 29 0.25
41 11 0.10
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (37 bp):
AAATATTAAAATTATATAAACTTATAAAATTTATAAA
Found at i:110591275 original size:11 final size:10
Alignment explanation
Indices: 110591200--110591396 Score: 80
Period size: 10 Copynumber: 20.4 Consensus size: 10
110591190 TTTTTATTAA
110591200 TTTTATAATT
1 TTTTATAATT
110591210 TTCTTAATAATT
1 TT-TT-ATAATT
* *
110591222 TATTAGAATT
1 TTTTATAATT
* * *
110591232 TATTA-GATG
1 TTTTATAATT
110591241 TTTTATAA-T
1 TTTTATAATT
*
110591250 ATTTATAATT
1 TTTTATAATT
*
110591260 CTTTATAAATT
1 TTTTAT-AATT
110591271 TTTTATAA-T
1 TTTTATAATT
110591280 TTTTATAA--
1 TTTTATAATT
* *
110591288 GTTGAT-ATT
1 TTTTATAATT
* *
110591297 AGTTT-TCATT
1 -TTTTATAATT
*
110591307 TTTT-TAATA
1 TTTTATAATT
*
110591316 TTTTCTAA-T
1 TTTTATAATT
*
110591325 ATTTAGTAA-T
1 TTTTA-TAATT
110591335 TTTTAT-ATT
1 TTTTATAATT
*
110591344 TTTTATCATT
1 TTTTATAATT
110591354 TTTT-T-A-T
1 TTTTATAATT
110591361 TTTTATATATT
1 TTTTATA-ATT
*
110591372 TTTAATAATT
1 TTTTATAATT
*
110591382 TTTTCTATATT
1 TTTTATA-ATT
110591393 TTTT
1 TTTT
110591397 TATTTATAAT
Statistics
Matches: 146, Mismatches: 23, Indels: 35
0.72 0.11 0.17
Matches are distributed among these distances:
7 6 0.04
8 7 0.05
9 45 0.31
10 54 0.37
11 27 0.18
12 7 0.05
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:110591354 original size:26 final size:25
Alignment explanation
Indices: 110591307--110591375 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
110591297 AGTTTTCATT
*
110591307 TTTTTAATATTTTCTAATATTTAGTAA
1 TTTTT-ATATTTT-TTATATTTAGTAA
** *
110591334 TTTTTATATTTTTTATCATTTTTTTA
1 TTTTTATATTTTTTAT-ATTTAGTAA
110591360 TTTTTATATATTTTTA
1 TTTTTATAT-TTTTTA
110591376 ATAATTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.08
26 22 0.61
27 11 0.31
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (25 bp):
TTTTTATATTTTTTATATTTAGTAA
Found at i:110591370 original size:28 final size:29
Alignment explanation
Indices: 110591333--110591406 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
110591323 ATATTTAGTA
* *
110591333 ATTTTTATATTTTTTATCATTTTTT-TAT
1 ATTTTTATATTTTTAATAATTTTTTCTAT
110591361 -TTTTATATATTTTTAATAATTTTTTCTAT
1 ATTTT-TATATTTTTAATAATTTTTTCTAT
* *
110591390 ATTTTTTTATTTATAAT
1 ATTTTTATATTTTTAAT
110591407 CGTTTTCATG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
27 4 0.10
28 18 0.46
29 13 0.33
30 4 0.10
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (29 bp):
ATTTTTATATTTTTAATAATTTTTTCTAT
Found at i:110591383 original size:26 final size:26
Alignment explanation
Indices: 110591307--110591384 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
110591297 AGTTTTCATT
*
110591307 TTTTTA-ATATTTTCTAAT-ATTTAGTAA
1 TTTTTATATATTTT-TAATAATTT--TTA
*
110591334 TTTTTATAT-TTTTT-ATCATTTTTTTA
1 TTTTTATATATTTTTAAT-A-ATTTTTA
110591360 TTTTTATATATTTTTAATAATTTTT
1 TTTTTATATATTTTTAATAATTTTT
110591385 TCTATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
25 2 0.05
26 17 0.40
27 16 0.38
28 7 0.17
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (26 bp):
TTTTTATATATTTTTAATAATTTTTA
Found at i:110591395 original size:37 final size:36
Alignment explanation
Indices: 110591324--110591404 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 36
110591314 TATTTTCTAA
110591324 TATTTAGTA-ATTTTTATATTTTTTATCAT-TTTTTT
1 TATTTA-TATATTTTTATATTTTTTATCATATTTTTT
* *
110591359 ATTTTTATATATTTTTAATAATTTTT-TCTATATTTTTT
1 -TATTTATATATTTTT-ATATTTTTTATC-ATATTTTTT
110591397 TATTTATA
1 TATTTATA
110591405 ATCGTTTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
35 2 0.05
36 13 0.34
37 17 0.45
38 6 0.16
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (36 bp):
TATTTATATATTTTTATATTTTTTATCATATTTTTT
Found at i:110592315 original size:12 final size:11
Alignment explanation
Indices: 110592295--110592333 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
110592285 TTTAAATTTC
110592295 AAAAAAATATT
1 AAAAAAATATT
110592306 AAATAAAATA-T
1 AAA-AAAATATT
110592317 AAAAAAATAATT
1 AAAAAAAT-ATT
110592329 AAAAA
1 AAAAA
110592334 GTATAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.20
11 8 0.32
12 12 0.48
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAAATATT
Found at i:110592320 original size:22 final size:20
Alignment explanation
Indices: 110592295--110592349 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 20
110592285 TTTAAATTTC
110592295 AAAAAAATATTAAATAAAATAT
1 AAAAAAATATT-AA-AAAATAT
*
110592317 AAAAAAATAATTAAAAAGTAT
1 AAAAAAAT-ATTAAAAAATAT
110592338 AAAAATAATATT
1 AAAAA-AATATT
110592350 TTAAGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.47
22 13 0.43
23 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAAAATATTAAAAAATAT
Found at i:110593537 original size:15 final size:15
Alignment explanation
Indices: 110593501--110593550 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
110593491 GGCGTAACTG
* *
110593501 AAAATAAAAATTTTA
1 AAAATAAATATTGTA
110593516 TAAAATAAATATTGTA
1 -AAAATAAATATTGTA
110593532 AAAATAAATATTGTA
1 AAAATAAATATTGTA
110593547 AAAA
1 AAAA
110593551 ATCTTGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (15 bp):
AAAATAAATATTGTA
Found at i:110593552 original size:16 final size:16
Alignment explanation
Indices: 110593501--110593552 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
110593491 GGCGTAACTG
* * *
110593501 AAAATAAAAATTTTAT
1 AAAATAAATATTGTAA
110593517 AAAATAAATATTGT-A
1 AAAATAAATATTGTAA
110593532 AAAATAAATATTGTAA
1 AAAATAAATATTGTAA
110593548 AAAAT
1 AAAAT
110593553 CTTGGTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 14 0.44
16 18 0.56
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
AAAATAAATATTGTAA
Found at i:110596640 original size:2 final size:2
Alignment explanation
Indices: 110596629--110596660 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
110596619 TCCTAATTAT
110596629 TA TA -A 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 T
110596661 TTTAAACTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110598992 original size:24 final size:25
Alignment explanation
Indices: 110598956--110599002 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
110598946 TTAGTAAATA
110598956 GGGAAAATAATCTTAGAAGATTAAG
1 GGGAAAATAATCTTAGAAGATTAAG
* *
110598981 GGGATAAT-ATCTTATAAGATTA
1 GGGAAAATAATCTTAGAAGATTA
110599003 TATTTGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.30
Consensus pattern (25 bp):
GGGAAAATAATCTTAGAAGATTAAG
Found at i:110599367 original size:14 final size:14
Alignment explanation
Indices: 110599348--110599377 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
110599338 ACCGTATGGA
110599348 TTGTGAAACTAAAG
1 TTGTGAAACTAAAG
110599362 TTGTGAAACTAAAG
1 TTGTGAAACTAAAG
110599376 TT
1 TT
110599378 CTTACCCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (14 bp):
TTGTGAAACTAAAG
Found at i:110601417 original size:6 final size:6
Alignment explanation
Indices: 110601406--110601431 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
110601396 CTACAAACGA
110601406 GCAAAG GCAAAG GCAAAG GCAAAG GC
1 GCAAAG GCAAAG GCAAAG GCAAAG GC
110601432 GAAATCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.35, T:0.00
Consensus pattern (6 bp):
GCAAAG
Found at i:110602946 original size:19 final size:20
Alignment explanation
Indices: 110602924--110602973 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
110602914 TTTTTCAATC
110602924 TTTTTAAGTCA-ATTTAATT
1 TTTTTAAGTCATATTTAATT
* *
110602943 TTTTCT-ATTCATCTTTAATT
1 TTTT-TAAGTCATATTTAATT
110602963 TTTTTAA-TCAT
1 TTTTTAAGTCAT
110602974 GTGAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTAAGTCATATTTAATT
Found at i:110604589 original size:52 final size:53
Alignment explanation
Indices: 110604494--110604619 Score: 200
Period size: 52 Copynumber: 2.4 Consensus size: 53
110604484 GATAAAAAAT
110604494 TCAAGTATAAAATTTAAAAAACTTACATACTAAAAAAAACATTAATGTCTAAC
1 TCAAGTATAAAATTTAAAAAACTTACATACTAAAAAAAACATTAATGTCTAAC
*
110604547 TCAAGTATAAAATTTAAAAAACTTACATACT-AAAAAATCATTAATGTCTAAC
1 TCAAGTATAAAATTTAAAAAACTTACATACTAAAAAAAACATTAATGTCTAAC
** * *
110604599 TCTGGTATCAAATTGAAAAAA
1 TCAAGTATAAAATTTAAAAAA
110604620 ATATTAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
52 37 0.54
53 31 0.46
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (53 bp):
TCAAGTATAAAATTTAAAAAACTTACATACTAAAAAAAACATTAATGTCTAAC
Found at i:110604620 original size:53 final size:53
Alignment explanation
Indices: 110604494--110604620 Score: 184
Period size: 53 Copynumber: 2.4 Consensus size: 53
110604484 GATAAAAAAT
*
110604494 TCAAGTATAAAATTTAAAAAACTTACATACTAAAAAAAACATTAATGTCTAAC
1 TCAAGTATAAAATTAAAAAAACTTACATACTAAAAAAAACATTAATGTCTAAC
* *
110604547 TCAAGTATAAAATTTAAAAAACTTACATACT-AAAAAATCATTAATGTCTAAC
1 TCAAGTATAAAATTAAAAAAACTTACATACTAAAAAAAACATTAATGTCTAAC
** *
110604599 TCTGGTATCAAATTGAAAAAAA
1 TCAAGTATAAAATT-AAAAAAA
110604621 TATTAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
52 31 0.46
53 37 0.54
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.29
Consensus pattern (53 bp):
TCAAGTATAAAATTAAAAAAACTTACATACTAAAAAAAACATTAATGTCTAAC
Found at i:110605057 original size:14 final size:14
Alignment explanation
Indices: 110605022--110605059 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
110605012 ATACAAATTT
*
110605022 TATTTATATTTTTC
1 TATTTAAATTTTTC
110605036 TA-TT-AATTTTTC
1 TATTTAAATTTTTC
110605048 TATTTAAATTTT
1 TATTTAAATTTT
110605060 ATTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 9 0.43
13 4 0.19
14 8 0.38
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTTAAATTTTTC
Found at i:110605068 original size:12 final size:12
Alignment explanation
Indices: 110605016--110605076 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
110605006 CCTTATATAC
110605016 AAATTTTATTTA
1 AAATTTTATTTA
* * *
110605028 TATTTTTCTATTA
1 AAATTTTAT-TTA
**
110605041 ATTTTTCTATTT-
1 AAATTT-TATTTA
110605053 AAATTTTATTTA
1 AAATTTTATTTA
110605065 AAATTTTATTTA
1 AAATTTTATTTA
110605077 TTTTCCAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 5 0.13
12 22 0.58
13 9 0.24
14 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (12 bp):
AAATTTTATTTA
Found at i:110607340 original size:20 final size:19
Alignment explanation
Indices: 110607315--110607367 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
110607305 AAATAGTTGT
*
110607315 TAATTTTCATATATTTTTAA
1 TAATTTTCATA-AATTTTAA
*
110607335 TAATTTTTATAAATTTTAA
1 TAATTTTCATAAATTTTAA
*
110607354 TGATTTT-ATAAATT
1 TAATTTTCATAAATT
110607368 CTCTTTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 7 0.23
19 13 0.43
20 10 0.33
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TAATTTTCATAAATTTTAA
Found at i:110607360 original size:18 final size:19
Alignment explanation
Indices: 110607315--110607367 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
110607305 AAATAGTTGT
* *
110607315 TAATTTTCATATATTTTTAA
1 TAATTTTTATA-AATTTTAA
110607335 TAATTTTTATAAATTTTAA
1 TAATTTTTATAAATTTTAA
*
110607354 TGA-TTTTATAAATT
1 TAATTTTTATAAATT
110607368 CTCTTTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TAATTTTTATAAATTTTAA
Found at i:110608064 original size:11 final size:12
Alignment explanation
Indices: 110608048--110608080 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
110608038 TTAAGAAAAT
110608048 GTATCAAATTC-
1 GTATCAAATTCA
110608059 GTATCAAATTCA
1 GTATCAAATTCA
110608071 GGTATCAAAT
1 -GTATCAAAT
110608081 ATTATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
13 9 0.45
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (12 bp):
GTATCAAATTCA
Found at i:110611426 original size:21 final size:21
Alignment explanation
Indices: 110611384--110611426 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
110611374 GTAGTTTCTT
*
110611384 AATTCATGCATATTTAATTAA
1 AATTCATGCATATTTAAGTAA
* * *
110611405 AATTTATGTATATTTGAGTAA
1 AATTCATGCATATTTAAGTAA
110611426 A
1 A
110611427 GTAATTTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (21 bp):
AATTCATGCATATTTAAGTAA
Found at i:110615300 original size:54 final size:54
Alignment explanation
Indices: 110615218--110615330 Score: 226
Period size: 54 Copynumber: 2.1 Consensus size: 54
110615208 AACCAGAAAA
110615218 TTCTGGTGAAGCTGATGTTGTAGAAGACTACAGCGATGGTGAACTTCTAGTTGC
1 TTCTGGTGAAGCTGATGTTGTAGAAGACTACAGCGATGGTGAACTTCTAGTTGC
110615272 TTCTGGTGAAGCTGATGTTGTAGAAGACTACAGCGATGGTGAACTTCTAGTTGC
1 TTCTGGTGAAGCTGATGTTGTAGAAGACTACAGCGATGGTGAACTTCTAGTTGC
110615326 TTCTG
1 TTCTG
110615331 TCAACAATTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (54 bp):
TTCTGGTGAAGCTGATGTTGTAGAAGACTACAGCGATGGTGAACTTCTAGTTGC
Done.