Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 88 of 187
Found at i:26305311 original size:9 final size:9
Alignment explanation
Indices: 26305285--26305318 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
26305275 TAATTAATTT
*
26305285 TTAATTAAT
1 TTAATTAAG
26305294 TTAATTAAG
1 TTAATTAAG
26305303 TTAATTAAG
1 TTAATTAAG
26305312 -TAATTAA
1 TTAATTAA
26305319 AGATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (9 bp):
TTAATTAAG
Found at i:26309938 original size:22 final size:22
Alignment explanation
Indices: 26309904--26309946 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
26309894 CAACACTTCC
*
26309904 CATATATTGTGATAATTTTGTT
1 CATATATTATGATAATTTTGTT
*
26309926 CATATTTTATGATAATTTTGT
1 CATATATTATGATAATTTTGT
26309947 CTTCATCGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.56
Consensus pattern (22 bp):
CATATATTATGATAATTTTGTT
Found at i:26312107 original size:23 final size:25
Alignment explanation
Indices: 26312075--26312136 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 25
26312065 TTTTAGTCAC
26312075 TATTATTAAATATGTTTAT-TAATT-T
1 TATTA-TAAATATGTTT-TGTAATTAT
* *
26312100 T-TTATAAATATCTTTTGTATTTAT
1 TATTATAAATATGTTTTGTAATTAT
26312124 TATTATAAATATG
1 TATTATAAATATG
26312137 GTATGTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 14 0.45
24 5 0.16
25 11 0.35
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (25 bp):
TATTATAAATATGTTTTGTAATTAT
Found at i:26314438 original size:127 final size:127
Alignment explanation
Indices: 26314132--26314703 Score: 891
Period size: 127 Copynumber: 4.5 Consensus size: 127
26314122 ATAAAAATCA
* * * * * * *
26314132 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAGTTGCGCCCACGTGTACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
26314197 AGGTCTTGGAAGAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
26314258 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
**
26314323 AGGTCCTGTTAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* *
26314385 AAGCAAGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
26314450 AGGTCCTAGAAGAAATAATTTCGACTTGACATTTCTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * *
26314512 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCACGCCTTCGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
26314577 AGGTCCTGGGAA-AAATAATTTCGACTTGACGTTTCTGAGAAAATAG--TATAAAAATGCTTC
66 AGGTCCT-GGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* *
26314637 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
26314702 AG
66 AG
26314704 CATGTTTGGG
Statistics
Matches: 411, Mismatches: 33, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
125 74 0.18
126 102 0.25
127 232 0.56
128 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (127 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
Found at i:26315372 original size:6 final size:6
Alignment explanation
Indices: 26315361--26315390 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
26315351 GTACCAGTCA
*
26315361 AGGGTT AGGGTT AGGGTT AGTGTT AGGGTT
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
26315391 TTTAAGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.47, T:0.37
Consensus pattern (6 bp):
AGGGTT
Found at i:26315429 original size:21 final size:21
Alignment explanation
Indices: 26315382--26315505 Score: 90
Period size: 22 Copynumber: 5.5 Consensus size: 21
26315372 TAGGGTTAGT
26315382 GTTAGGGTTTTTAAGTTAAGG
1 GTTAGGGTTTTTAAGTTAAGG
*
26315403 GTTTAGGGTTTTTAAGTTAATG
1 G-TTAGGGTTTTTAAGTTAAGG
* * *
26315425 GTTAGGG--TTTACGGTTTACG
1 GTTAGGGTTTTTA-AGTTAAGG
26315445 GTTAGGGGTTTTTTTAAGTTAAGTTAAGG
1 GTTA-GGG----TTT---TTAAGTTAAGG
*
26315474 GTTTAGGGTTTTTTAGTTAAGG
1 G-TTAGGGTTTTTAAGTTAAGG
26315496 GTTAGGGTTT
1 GTTAGGGTTT
26315506 AGGGTTTAGG
Statistics
Matches: 82, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
19 4 0.05
20 9 0.11
21 19 0.23
22 31 0.38
25 3 0.04
27 1 0.01
29 9 0.11
30 6 0.07
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (21 bp):
GTTAGGGTTTTTAAGTTAAGG
Found at i:26315502 original size:28 final size:28
Alignment explanation
Indices: 26315454--26315512 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
26315444 GGTTAGGGGT
26315454 TTTTTTAAGTTAAGTTAAGGGTTTAGGG
1 TTTTTTAAGTTAAGTTAAGGGTTTAGGG
26315482 TTTTTT-AGTTAAGGGTT-AGGGTTTAGGG
1 TTTTTTAAGTTAA--GTTAAGGGTTTAGGG
26315510 TTT
1 TTT
26315513 AGGGTTTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 6 0.21
28 20 0.69
29 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (28 bp):
TTTTTTAAGTTAAGTTAAGGGTTTAGGG
Found at i:26316057 original size:18 final size:18
Alignment explanation
Indices: 26316031--26316073 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
26316021 GACTCGGAAA
* *
26316031 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
26316049 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
26316067 AGGAAAC
1 AGGAAAC
26316074 GCACATGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:26316943 original size:20 final size:20
Alignment explanation
Indices: 26316906--26316943 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26316896 ATTATTTTTA
*
26316906 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
26316926 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
26316944 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:26317906 original size:11 final size:12
Alignment explanation
Indices: 26317892--26317928 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
26317882 AAAAATAGGG
26317892 ATTTAAGA-GAA
1 ATTTAAGAGGAA
26317903 ATTTAAGAGGAA
1 ATTTAAGAGGAA
*
26317915 A-TTGAGAGGAA
1 ATTTAAGAGGAA
26317926 ATT
1 ATT
26317929 GAGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGGAA
Found at i:26317929 original size:11 final size:11
Alignment explanation
Indices: 26317908--26317996 Score: 73
Period size: 11 Copynumber: 8.4 Consensus size: 11
26317898 GAGAAATTTA
26317908 AGAGGAAATTG
1 AGAGGAAATTG
26317919 AGAGGAAATTG
1 AGAGGAAATTG
**
26317930 AGATTAAA-T-
1 AGAGGAAATTG
* *
26317939 A-TGG-ATTTG
1 AGAGGAAATTG
26317948 AGA-GAAATTTG
1 AGAGGAAA-TTG
26317959 -GAAGGAAATTG
1 AG-AGGAAATTG
26317970 AGAGGAAATTG
1 AGAGGAAATTG
26317981 AGAGGAAATTTG
1 AGAGGAAA-TTG
26317993 AGAG
1 AGAG
26317997 ATGATTAGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 41 0.67
12 12 0.20
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:26317952 original size:51 final size:51
Alignment explanation
Indices: 26317884--26317983 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
26317874 AATTATTTAA
26317884 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGGAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGGAAATTGAGATT
* * *
26317935 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGGAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGGAAATTGAGA
26317984 GGAAATTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGGAAATTGAGATT
Found at i:26320224 original size:18 final size:18
Alignment explanation
Indices: 26320201--26320239 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
26320191 TAAAAATAAA
26320201 TATATTATTAGGAGATAT
1 TATATTATTAGGAGATAT
*
26320219 TATATTATTATGAGATAT
1 TATATTATTAGGAGATAT
26320237 TAT
1 TAT
26320240 CTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (18 bp):
TATATTATTAGGAGATAT
Found at i:26324006 original size:18 final size:18
Alignment explanation
Indices: 26323983--26324018 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26323973 TGAAGGTGAT
26323983 CATATTAATCATTAAGAA
1 CATATTAATCATTAAGAA
26324001 CATATTAATCATTAAGAA
1 CATATTAATCATTAAGAA
26324019 GACACGGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
CATATTAATCATTAAGAA
Found at i:26325059 original size:39 final size:37
Alignment explanation
Indices: 26324973--26325066 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 37
26324963 TATTTCAAAA
*
26324973 TAAT-ATTATTTTAATATATTTAATATTAAATTTAATT
1 TAATAATTATCTTAATATATTT-ATATTAAATTTAATT
*
26325010 TAATATTTATCTTAATAGTATTT-TATT-AATTTAATAT
1 TAATAATTATCTTAATA-TATTTATATTAAATTTAAT-T
26325047 TAAAGTAATTATCTTAATAT
1 T-AA-TAATTATCTTAATAT
26325067 TAAATTTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
36 8 0.16
37 10 0.20
38 13 0.27
39 18 0.37
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (37 bp):
TAATAATTATCTTAATATATTTATATTAAATTTAATT
Found at i:26325082 original size:68 final size:71
Alignment explanation
Indices: 26324984--26325117 Score: 195
Period size: 68 Copynumber: 1.9 Consensus size: 71
26324974 AATATTATTT
* * *
26324984 TAATATATTTAATATTAAATTTAATTTAATATTTATCTT-A-AT-AGTATTTTATTAATTTAATA
1 TAATATATTTAATATTAAATTTAATATAATATTTATCTTCAGATAAATATTCTATTAATTTAATA
26325046 TTAAAG
66 TTAAAG
26325052 TAAT-TATCTTAATATTAAATTTAATATAATATTTATCTTGCAGATAAATATTCTATTAATTTAA
1 TAATATAT-TTAATATTAAATTTAATATAATATTTATCTT-CAGATAAATATTCTATTAATTTAA
26325116 TA
64 TA
26325118 AATTTAATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
67 3 0.05
68 34 0.59
70 1 0.02
71 2 0.03
72 18 0.31
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (71 bp):
TAATATATTTAATATTAAATTTAATATAATATTTATCTTCAGATAAATATTCTATTAATTTAATA
TTAAAG
Found at i:26334462 original size:21 final size:21
Alignment explanation
Indices: 26334436--26334481 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
26334426 GCATGTAAAA
26334436 AAACCAGATCAATACTAAGCT
1 AAACCAGATCAATACTAAGCT
26334457 AAACCAGATCAATACTAAGCT
1 AAACCAGATCAATACTAAGCT
26334478 AAAC
1 AAAC
26334482 ATATATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.17
Consensus pattern (21 bp):
AAACCAGATCAATACTAAGCT
Found at i:26336690 original size:21 final size:22
Alignment explanation
Indices: 26336661--26336716 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
26336651 ATCCATAATC
*
26336661 CCTAAACCTTAAAATATTAACT
1 CCTAAACCTTAAAATAGTAACT
26336683 CCT-AACCTTAAAATAGTAACT
1 CCTAAACCTTAAAATAGTAACT
*
26336704 CTTAAACCTTAAA
1 CCTAAACCTTAAA
26336717 CCCTAAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (22 bp):
CCTAAACCTTAAAATAGTAACT
Found at i:26337169 original size:40 final size:40
Alignment explanation
Indices: 26337125--26337228 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
26337115 TTTTTCGGCG
* * * *
26337125 TTTTTTAAAAAGCGCCGCTAATGGTCGACCTATAGTGACA
1 TTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGACA
* * *
26337165 TTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGACA
26337205 TTTTTCAAAAAGCGCCGCTAATGC
1 TTTTTCAAAAAGCGCCGCTAATGC
26337229 CACTAAAGCG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGACA
Found at i:26337312 original size:40 final size:40
Alignment explanation
Indices: 26337268--26337343 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
26337258 TGGCGCTTTC
26337268 TAATGGTCGACCTATAGTGCCATTTTTCAAAAAGCGTCGT
1 TAATGGTCGACCTATAGTGCCATTTTTCAAAAAGCGTCGT
* * *
26337308 TAATGGTCGACTTATAGTGGCGTTTTTCAAAAAGCG
1 TAATGGTCGACCTATAGTGCCATTTTTCAAAAAGCG
26337344 CTGCTAATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (40 bp):
TAATGGTCGACCTATAGTGCCATTTTTCAAAAAGCGTCGT
Found at i:26337352 original size:40 final size:40
Alignment explanation
Indices: 26337267--26337363 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
26337257 GTGGCGCTTT
* * *
26337267 CTAATGGTCGACCTATAGTGCCATTTTTCAAAAAGCGTCG
1 CTAATGGTCGACCTATAGTGGCGTTTTTCAAAAAGCGCCG
* * *
26337307 TTAATGGTCGACTTATAGTGGCGTTTTTCAAAAAGCGCTG
1 CTAATGGTCGACCTATAGTGGCGTTTTTCAAAAAGCGCCG
* *
26337347 CTAATGCTCGATCTATA
1 CTAATGGTCGACCTATA
26337364 AACGCCGCTA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (40 bp):
CTAATGGTCGACCTATAGTGGCGTTTTTCAAAAAGCGCCG
Found at i:26339835 original size:68 final size:68
Alignment explanation
Indices: 26339726--26339992 Score: 327
Period size: 68 Copynumber: 3.9 Consensus size: 68
26339716 GGGCTTCCTA
* * * * *
26339726 GTTTACTGTCCTAGCAGACTTTGTATGTTCCCATAACCCAACTATGGTCTTACACATTATAATCC
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
26339791 CAT
66 CAT
* * * * *
26339794 GTTTACTATCCTGGTAGACTTCGTATGTTGCCATAGCCCAACTATTGTCTTACACATTATGATAT
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
26339859 CAT
66 CAT
* * ** *
26339862 GTTTACTGTCCTAACGGACTTCGTATGTTTTCATAGCCCAACTATGGTTTTACACATTATGATCT
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
*
26339927 TAT
66 CAT
* * * * * * *
26339930 GTTTAATGTCCTGGCGGACTTCGTATGTTGCCATAGTCTAGCTATGGTCTTAAACATTATGAT
1 GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGAT
26339993 GACATGCACC
Statistics
Matches: 168, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 168 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (68 bp):
GTTTACTGTCCTAGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTACACATTATGATCT
CAT
Found at i:26339980 original size:136 final size:136
Alignment explanation
Indices: 26339726--26339992 Score: 363
Period size: 136 Copynumber: 2.0 Consensus size: 136
26339716 GGGCTTCCTA
* *
26339726 GTTTACTGTCCTAGCAGACTTTGTATGTTCCCATAACCCAACTATGGTCTTACACATTATAATCC
1 GTTTACTGTCCTAACAGACTTCGTATGTTCCCATAACCCAACTATGGTCTTACACATTATAATCC
* * * *
26339791 CATGTTTACTATCCTGGTAGACTTCGTATGTTGCCATAGCCCAACTATTGTCTTACACATTATGA
66 CATGTTTAATATCCTGGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTAAACATTATGA
26339856 TATCAT
131 TATCAT
* ** * * * *
26339862 GTTTACTGTCCTAACGGACTTCGTATGTTTTCATAGCCCAACTATGGTTTTACACATTATGATCT
1 GTTTACTGTCCTAACAGACTTCGTATGTTCCCATAACCCAACTATGGTCTTACACATTATAATCC
* * * * * *
26339927 TATGTTTAATGTCCTGGCGGACTTCGTATGTTGCCATAGTCTAGCTATGGTCTTAAACATTATGA
66 CATGTTTAATATCCTGGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTAAACATTATGA
26339992 T
131 T
26339993 GACATGCACC
Statistics
Matches: 112, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
136 112 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (136 bp):
GTTTACTGTCCTAACAGACTTCGTATGTTCCCATAACCCAACTATGGTCTTACACATTATAATCC
CATGTTTAATATCCTGGCAGACTTCGTATGTTGCCATAGCCCAACTATGGTCTTAAACATTATGA
TATCAT
Found at i:26346749 original size:25 final size:25
Alignment explanation
Indices: 26346704--26346751 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
26346694 TAAGTTTATT
*
26346704 TAAAATAAAAATATTAAATTAAAAA
1 TAAAATAAAAATATCAAATTAAAAA
*
26346729 TAAAA-AAAAATTATCATATTAAA
1 TAAAATAAAAA-TATCAAATTAAA
26346752 TATTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAAATAAAAATATCAAATTAAAAA
Found at i:26347029 original size:22 final size:21
Alignment explanation
Indices: 26346996--26347042 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
26346986 TAAATTTTTT
**
26346996 AAAAAATATATAAAAATTGAA
1 AAAAAATATATAAAAAACGAA
*
26347017 AAAAAATGTTATAAAAAACGAA
1 AAAAAAT-ATATAAAAAACGAA
26347039 AAAA
1 AAAA
26347043 GTATTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (21 bp):
AAAAAATATATAAAAAACGAA
Found at i:26347124 original size:15 final size:16
Alignment explanation
Indices: 26347087--26347125 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26347077 AATTTAATTT
26347087 TTTTATAATTTTAGAA
1 TTTTATAATTTTAGAA
* *
26347103 TTATATAA-TTTGGAA
1 TTTTATAATTTTAGAA
26347118 TTTTATAA
1 TTTTATAA
26347126 AAAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (16 bp):
TTTTATAATTTTAGAA
Found at i:26347282 original size:19 final size:19
Alignment explanation
Indices: 26347230--26347303 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
26347220 TGTTAATTTT
*
26347230 ATTTT-TATATTTTTTTAT
1 ATTTTATATATTTTTTTAG
* *
26347248 ATTTTTATGTGTTTTTTTTAG
1 A-TTTTATAT-ATTTTTTTAG
*
26347269 ATTTTATATATTTTTTCAG
1 ATTTTATATATTTTTTTAG
*
26347288 AATTTATAATATTTTT
1 ATTTTAT-ATATTTTT
26347304 ATGTTTATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.02
19 18 0.40
20 17 0.38
21 9 0.20
ACGTcount: A:0.24, C:0.01, G:0.05, T:0.69
Consensus pattern (19 bp):
ATTTTATATATTTTTTTAG
Found at i:26347283 original size:21 final size:20
Alignment explanation
Indices: 26347207--26347284 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 20
26347197 TTCATTTCAA
*
26347207 TTATCATATTTTTTGTTAATT
1 TTAT-ATATTTTTTTTTAATT
* *
26347228 TTATTTTTATATTTTTTTATATT
1 TTA--TATATTTTTTTTTA-ATT
*
26347251 TT-TATGTGTTTTTTTTAGATT
1 TTATATAT-TTTTTTTTA-ATT
26347272 TTATATATTTTTT
1 TTATATATTTTTT
26347285 CAGAATTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 3 0.07
21 21 0.48
22 14 0.32
23 6 0.14
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.73
Consensus pattern (20 bp):
TTATATATTTTTTTTTAATT
Found at i:26348304 original size:14 final size:14
Alignment explanation
Indices: 26348275--26348327 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
26348265 TCAAAATGAA
26348275 TAATTAATTTAA-TT
1 TAATT-ATTTAATTT
26348289 TAATT-TTTGAATTT
1 TAATTATTT-AATTT
*
26348303 TAATTATTTAATTG
1 TAATTATTTAATTT
*
26348317 TAATTAATTAA
1 TAATTATTTAA
26348328 ATAAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 3 0.09
13 2 0.06
14 26 0.76
15 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (14 bp):
TAATTATTTAATTT
Found at i:26350170 original size:5 final size:5
Alignment explanation
Indices: 26350076--26350155 Score: 133
Period size: 5 Copynumber: 16.0 Consensus size: 5
26350066 ATTCAATTGC
* * *
26350076 TAATA TAATA TAAAA TAAAA TAAAA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
26350126 TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA
26350156 ATGAACAATA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 73 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
TAATA
Found at i:26355679 original size:18 final size:18
Alignment explanation
Indices: 26355656--26355693 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26355646 ATACTTAATC
*
26355656 ATGCAAATTAACATGAAT
1 ATGCAAATAAACATGAAT
*
26355674 ATGCAAATAAACATGTAT
1 ATGCAAATAAACATGAAT
26355692 AT
1 AT
26355694 TGATCTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
ATGCAAATAAACATGAAT
Found at i:26357587 original size:30 final size:31
Alignment explanation
Indices: 26357551--26357635 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
26357541 GAGTGAATAA
* *
26357551 GTTGCTCACACAAGCTAACATTATAT-CAGG
1 GTTGCTCACACAAGCTGACATTATATAAAGG
* * *
26357581 GTTGCTCACATAAGTTGACATTATGTAAAGG
1 GTTGCTCACACAAGCTGACATTATATAAAGG
*
26357612 TTTG-TCACACAAGCTGAC-TTATAT
1 GTTGCTCACACAAGCTGACATTATAT
26357636 TAGGTTACCC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 5 0.11
30 34 0.76
31 6 0.13
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (31 bp):
GTTGCTCACACAAGCTGACATTATATAAAGG
Found at i:26361201 original size:19 final size:19
Alignment explanation
Indices: 26361154--26361201 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
26361144 ATTTTGGGCA
26361154 TTTGGTTTTGGATCATGTT
1 TTTGGTTTTGGATCATGTT
** *
26361173 TTTGAATTTGGTTC-TGTT
1 TTTGGTTTTGGATCATGTT
26361191 TTTGGGTTTTG
1 TTT-GGTTTTG
26361202 ATTTGTTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.08, C:0.04, G:0.27, T:0.60
Consensus pattern (19 bp):
TTTGGTTTTGGATCATGTT
Found at i:26363867 original size:28 final size:28
Alignment explanation
Indices: 26363728--26363879 Score: 99
Period size: 28 Copynumber: 5.4 Consensus size: 28
26363718 TCAAAGGTTG
* * **
26363728 TCTTATGTGGAAGGTCTATTAAGGACTA
1 TCTTATGTGGAAAGTCCACCAAGGACTA
* * * * * *
26363756 TCTTATGCGAAAAGTCCATCAATGATTG
1 TCTTATGTGGAAAGTCCACCAAGGACTA
* * *
26363784 TCTTATGTGGAAAGTCCGCTAAGGATTA
1 TCTTATGTGGAAAGTCCACCAAGGACTA
* * * * * *
26363812 TCATATGCGGGAACTCCGCCAAGAACTA
1 TCTTATGTGGAAAGTCCACCAAGGACTA
26363840 TCTTATGTGGAAAGTCCACCGAA-GACTA
1 TCTTATGTGGAAAGTCCACC-AAGGACTA
* *
26363868 TCTCATATGGAA
1 TCTTATGTGGAA
26363880 TGCTTGCCAA
Statistics
Matches: 93, Mismatches: 30, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
28 91 0.98
29 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (28 bp):
TCTTATGTGGAAAGTCCACCAAGGACTA
Found at i:26367859 original size:27 final size:26
Alignment explanation
Indices: 26367828--26367896 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
26367818 CCCACAATTT
* * *
26367828 GTAAAATAACTGTAATGCCCTTGTAGG
1 GTAAAATGACTGTAATGCCCCTATA-G
* *
26367855 GTAAAATGACCGTGATGCCCCTATAG
1 GTAAAATGACTGTAATGCCCCTATAG
*
26367881 GTAAAATGATTGTAAT
1 GTAAAATGACTGTAAT
26367897 ACCTCTGTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (26 bp):
GTAAAATGACTGTAATGCCCCTATAG
Found at i:26367996 original size:24 final size:24
Alignment explanation
Indices: 26367968--26368022 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
26367958 AGTTTAAATG
26367968 ACTGATTTGTCTGTG-ATTGGTATA
1 ACTGATTTGTCTGTGAATT-GTATA
* *
26367992 ACTGATTTTTCTGTGAATTGTATG
1 ACTGATTTGTCTGTGAATTGTATA
26368016 ACTGATT
1 ACTGATT
26368023 CTGAGCATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.47
Consensus pattern (24 bp):
ACTGATTTGTCTGTGAATTGTATA
Found at i:26368124 original size:27 final size:27
Alignment explanation
Indices: 26368087--26368155 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
26368077 TGGATGAAGT
26368087 ACTG-TATTGGTGGCTCCGCCACAATC
1 ACTGTTATTGGTGGCTCCGCCACAATC
*
26368113 ACTGTTATTGGTGGCTCTGCCACAATC
1 ACTGTTATTGGTGGCTCCGCCACAATC
26368140 ACTGTTATTGGTGGCT
1 ACTGTTATTGGTGGCT
26368156 TGGCCACACA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (27 bp):
ACTGTTATTGGTGGCTCCGCCACAATC
Found at i:26368161 original size:27 final size:26
Alignment explanation
Indices: 26368087--26368163 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 26
26368077 TGGATGAAGT
*
26368087 ACTG-TATTGGTGGCTCCGCCACAATC
1 ACTGTTATTGGTGGCT-TGCCACAATC
26368113 ACTGTTATTGGTGGCTCTGCCACAATC
1 ACTGTTATTGGTGGCT-TGCCACAATC
26368140 ACTGTTATTGGTGGCTTGGCCACA
1 ACTGTTATTGGTGGCTT-GCCACA
26368164 CATACTATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 5 0.10
27 43 0.90
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (26 bp):
ACTGTTATTGGTGGCTTGCCACAATC
Found at i:26368195 original size:26 final size:26
Alignment explanation
Indices: 26368166--26368221 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
26368156 TGGCCACACA
26368166 TACTATTACTAGCAGCTTTGTTGCGG
1 TACTATTACTAGCAGCTTTGTTGCGG
*
26368192 TACTATTACTTGCAGCTTTGTTGCGG
1 TACTATTACTAGCAGCTTTGTTGCGG
26368218 TACT
1 TACT
26368222 GTTGCTGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (26 bp):
TACTATTACTAGCAGCTTTGTTGCGG
Found at i:26368232 original size:26 final size:26
Alignment explanation
Indices: 26368166--26368232 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 26
26368156 TGGCCACACA
*
26368166 TACTATTACTAGCAGCTTTGTTGCGG
1 TACTATTACTGGCAGCTTTGTTGCGG
*
26368192 TACTATTACTTGCAGCTTTGTTGCGG
1 TACTATTACTGGCAGCTTTGTTGCGG
* *
26368218 TACTGTTGCTGGCAG
1 TACTATTACTGGCAG
26368233 GTTTACTGCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.39
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGTTGCGG
Found at i:26375830 original size:23 final size:23
Alignment explanation
Indices: 26375804--26375852 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
26375794 TAGCGGTTTA
26375804 ATTATATACATAAAATTTTAATT
1 ATTATATACATAAAATTTTAATT
26375827 ATTATATACATAAAATTTTAATT
1 ATTATATACATAAAATTTTAATT
26375850 ATT
1 ATT
26375853 GTTGATATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATATACATAAAATTTTAATT
Found at i:26380747 original size:18 final size:18
Alignment explanation
Indices: 26380719--26380753 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26380709 TTTTAGCTTC
26380719 TCCCTAAAAGTTCTTTTTG
1 TCCCTAAAAGTT-TTTTTG
26380738 TCCC-AAAAGTTTTTTT
1 TCCCTAAAAGTTTTTTT
26380754 AGAAGCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (18 bp):
TCCCTAAAAGTTTTTTTG
Found at i:26383946 original size:16 final size:17
Alignment explanation
Indices: 26383922--26383955 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
26383912 TTAAAGTTAG
26383922 AATGAGAAAATT-ATTT
1 AATGAGAAAATTAATTT
*
26383938 AATGGGAAAATTAATTT
1 AATGAGAAAATTAATTT
26383955 A
1 A
26383956 TTTAAACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (17 bp):
AATGAGAAAATTAATTT
Found at i:26387960 original size:27 final size:27
Alignment explanation
Indices: 26387921--26388281 Score: 419
Period size: 27 Copynumber: 13.4 Consensus size: 27
26387911 CCCTAAAATA
26387921 GGTAAAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * *
26387948 GATAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
26387975 GATAGAAA-GACCGAAATAACCCC-ATAG
1 GGTA-AAATGACCGAAAT-ACCCCTATAG
* * * *
26388002 CGTAGAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* ** *
26388029 GGTAGAATGATAGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
26388056 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
**
26388083 GGTAAAATGATAGAAATACCCC-ATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
26388109 GGTAAAATGACCAAAATACCCCTGTAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
26388136 GGTAAAATGACCAAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATACCCCT-ATAG
*
26388163 GGTAAAATGATCGAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATACCCCT-ATAG
*
26388190 GGTAAAATGACTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
26388217 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
26388244 GTTAAAATGACCAAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATACCCCT-ATAG
26388271 GGTAAAATGAC
1 GGTAAAATGAC
26388282 TATTATACCC
Statistics
Matches: 296, Mismatches: 30, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
26 37 0.12
27 248 0.84
28 11 0.04
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:26398225 original size:20 final size:20
Alignment explanation
Indices: 26398200--26398243 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
26398190 AAAAGGTAAT
*
26398200 GATACTAAGCCTA-CAGTACC
1 GATACTAA-CCTATAAGTACC
*
26398220 GATACTTACCTATAAGTACC
1 GATACTAACCTATAAGTACC
26398240 GATA
1 GATA
26398244 TCGATACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (20 bp):
GATACTAACCTATAAGTACC
Found at i:26400637 original size:86 final size:86
Alignment explanation
Indices: 26400489--26400655 Score: 244
Period size: 86 Copynumber: 1.9 Consensus size: 86
26400479 AAAAAACACT
* *** * *
26400489 GCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACACTGCTAAAGGTTATGATCTTTAGG
1 GCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACACCGCTAAAGAACATGACCTTTAGC
26400554 GGCACTTTTATCACAAACGCC
66 GGCACTTTTATCACAAACGCC
* **
26400575 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAATGCCGCTAAAGAACATGACCTTTAGC
1 GCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACACCGCTAAAGAACATGACCTTTAGC
*
26400640 GGCGCTTTTATCACAA
66 GGCACTTTTATCACAA
26400656 CCATCGCTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (86 bp):
GCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACACCGCTAAAGAACATGACCTTTAGC
GGCACTTTTATCACAAACGCC
Found at i:26400655 original size:43 final size:43
Alignment explanation
Indices: 26400489--26400647 Score: 203
Period size: 43 Copynumber: 3.7 Consensus size: 43
26400479 AAAAAACACT
* * *
26400489 GCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACACT
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCC
*** * * *
26400532 GCTAAAGGTTATGATCTTTAGGGGCACTTTTA-TCACAAACGCC
1 GCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCACAAACGCC
*
26400575 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAATGCC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCC
*
26400618 GCTAAAGAACATGACCTTTAGCGGCGCTTT
1 GCTAAAGAACATGATCTTTAGCGGCGCTTT
26400648 TATCACAACC
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
42 4 0.04
43 89 0.92
44 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCC
Found at i:26400664 original size:43 final size:43
Alignment explanation
Indices: 26400489--26400666 Score: 173
Period size: 43 Copynumber: 4.1 Consensus size: 43
26400479 AAAAAACACT
*
26400489 GCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACA-C
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACATC
*** * * * **
26400531 TGCTAAAGGTTATGATCTTTAGGGGCACTTTTA-TCACAAACGCC
1 -GCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCACAAACATC
***
26400575 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAATGCC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACATC
* * *
26400618 GCTAAAGAACATGACCTTTAGCGGCGCTTTTA-TCACAACCATC
1 GCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCACAAACATC
26400661 GCTAAA
1 GCTAAA
26400667 AGTACCGTTC
Statistics
Matches: 110, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 4 0.04
43 97 0.88
44 9 0.08
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
GCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACATC
Found at i:26404411 original size:46 final size:46
Alignment explanation
Indices: 26404344--26404440 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
26404334 TTGACAACTC
**
26404344 TACTTCTGACTTCACCAATGCTAAACCCTAATCTGGAAACACCCAA
1 TACTTCTGACTTCACCAATGCTAAACCCTAATCTAAAAACACCCAA
*
26404390 TACTTCTGACTTCGCCAATGCTAAACCCTAATCTAAAAACACCCAA
1 TACTTCTGACTTCACCAATGCTAAACCCTAATCTAAAAACACCCAA
26404436 TACTT
1 TACTT
26404441 TAATGCTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.32, G:0.07, T:0.26
Consensus pattern (46 bp):
TACTTCTGACTTCACCAATGCTAAACCCTAATCTAAAAACACCCAA
Found at i:26405566 original size:7 final size:7
Alignment explanation
Indices: 26405554--26405685 Score: 61
Period size: 7 Copynumber: 18.0 Consensus size: 7
26405544 ACTAATTAAT
26405554 CTAAACC
1 CTAAACC
26405561 CTAAACC
1 CTAAACC
**
26405568 TCTATCCC
1 -CTAAACC
26405576 CTAAACC
1 CTAAACC
*
26405583 CTAAATC
1 CTAAACC
*
26405590 ATAAACCC
1 CTAAA-CC
26405598 CT-AACC
1 CTAAACC
26405604 CTTAAGTACCC
1 C-TAA--A-CC
*
26405615 CTAACCC
1 CTAAACC
*
26405622 CTAAACT
1 CTAAACC
*
26405629 TTAAA-C
1 CTAAACC
*
26405635 CTCAACC
1 CTAAACC
26405642 CTTAAACC
1 C-TAAACC
*
26405650 ATAAACC
1 CTAAACC
* *
26405657 ATAATCC
1 CTAAACC
26405664 CTAAACC
1 CTAAACC
*
26405671 CATAATCC
1 C-TAAACC
*
26405679 ATAAACC
1 CTAAACC
26405686 TTAAGATAGT
Statistics
Matches: 92, Mismatches: 23, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
6 6 0.07
7 61 0.66
8 18 0.20
10 4 0.04
11 3 0.03
ACGTcount: A:0.39, C:0.39, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:26405634 original size:39 final size:38
Alignment explanation
Indices: 26405573--26405646 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
26405563 AAACCTCTAT
26405573 CCCCTAAACCCTAAATCATAAACCCCTAACCCTTAAGTA
1 CCCCTAAACCCTAAATCATAAACCCC-AACCCTTAAGTA
* * *
26405612 CCCCTAACCCCTAAA-CTTTAAACCTCAACCCTTAA
1 CCCCTAAACCCTAAATC-ATAAACCCCAACCCTTAA
26405647 ACCATAAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 10 0.32
39 21 0.68
ACGTcount: A:0.36, C:0.41, G:0.01, T:0.22
Consensus pattern (38 bp):
CCCCTAAACCCTAAATCATAAACCCCAACCCTTAAGTA
Found at i:26405673 original size:15 final size:15
Alignment explanation
Indices: 26405638--26405685 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
26405628 TTTAAACCTC
* *
26405638 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
26405653 AA-CCATAATCCCTA
1 AACCCATAATCCATA
26405667 AACCCATAATCCATA
1 AACCCATAATCCATA
26405682 AACC
1 AACC
26405686 TTAAGATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:26405926 original size:21 final size:22
Alignment explanation
Indices: 26405865--26405928 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
26405855 CTAAATCATA
*
26405865 AACCCTTAACCCTTAAGTACCCCT
1 AACCCTTAAACCTTAA--ACCCCT
* *
26405889 AACCCCTAAACTTTAAACCCC-
1 AACCCTTAAACCTTAAACCCCT
*
26405910 AACCCTTAAACCATAAACC
1 AACCCTTAAACCTTAAACC
26405929 ATAATACCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.47
22 5 0.15
24 13 0.38
ACGTcount: A:0.38, C:0.41, G:0.02, T:0.20
Consensus pattern (22 bp):
AACCCTTAAACCTTAAACCCCT
Found at i:26406211 original size:15 final size:15
Alignment explanation
Indices: 26406176--26406223 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
26406166 TTTAAACCCC
* *
26406176 AACCCTTAAACCATA
1 AACCCATAATCCATA
*
26406191 AA-CCATAATCCCTA
1 AACCCATAATCCATA
*
26406205 AACCCATGATCCATA
1 AACCCATAATCCATA
26406220 AACC
1 AACC
26406224 TTAAGATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:26406625 original size:41 final size:41
Alignment explanation
Indices: 26406568--26406764 Score: 193
Period size: 41 Copynumber: 4.8 Consensus size: 41
26406558 ATGTTTTTTG
* * *
26406568 CGGCGCTTTTTCAAAAATGTCGCTAAATC-CTCGAGCACTAA
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGCAC-CGAGCACTAA
* * *
26406609 CGGCGCTTTTTCAAAAACGCCGTTAAAGCACCGAGCATTAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCACTAA
* * * * *
26406650 CGGCGCTTTTTCAGAAACGCCGCTAAAGCACCAAACATTAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCACTAA
* * * * *
26406691 CGGCACTTTTTCAAAAATGCAC-CT-AAGCCCCGAGCATTAG
1 CGGCGCTTTTTCAAAAACGC-CGCTAAAGCACCGAGCACTAA
* *
26406731 TGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGA
26406765 AAGGTCGGTT
Statistics
Matches: 133, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 32 0.24
41 98 0.74
42 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (41 bp):
CGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCACTAA
Found at i:26406873 original size:40 final size:38
Alignment explanation
Indices: 26406785--26406919 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 38
26406775 GGGCTTAGGT
* *
26406785 CTTTTGCGGCGTTTTCTGGAAAAACGCCGCTAATGCTCA
1 CTTTAGCGGCGTTTTCT-GAAAAGCGCCGCTAATGCTCA
* * *
26406824 TTTTCAGCGGCGTGTTCTGAAAAGCGCCGCAAATGCTCAA
1 CTTT-AGCGGCGTTTTCTGAAAAGCGCCGCTAATGCTC-A
*
26406864 CCTTTAGCGGCGTTTTC-CATAAAGCGCCGCTAATGCTCGA
1 -CTTTAGCGGCGTTTTCTGA-AAAGCGCCGCTAATGCTC-A
*
26406904 TTTTTAGCGGCGTTTT
1 -CTTTAGCGGCGTTTT
26406920 TTGTCCAAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 22 0.28
40 55 0.69
41 3 0.04
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (38 bp):
CTTTAGCGGCGTTTTCTGAAAAGCGCCGCTAATGCTCA
Found at i:26410244 original size:16 final size:16
Alignment explanation
Indices: 26410223--26410253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26410213 AAAAATTCAG
26410223 AAAAAATTAATAAAAT
1 AAAAAATTAATAAAAT
*
26410239 AAAAAATTATTAAAA
1 AAAAAATTAATAAAA
26410254 ACATAAAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATTAATAAAAT
Found at i:26418665 original size:32 final size:32
Alignment explanation
Indices: 26418625--26418685 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
26418615 AAGAAAATTA
*
26418625 TTAATTAAAAATTGATAAAGATTAATTAATGG
1 TTAATTAAAAATTAATAAAGATTAATTAATGG
*
26418657 TTAATTAAAAGTTAATAAAGATTAATTAA
1 TTAATTAAAAATTAATAAAGATTAATTAA
26418686 CTTATAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (32 bp):
TTAATTAAAAATTAATAAAGATTAATTAATGG
Found at i:26429284 original size:9 final size:9
Alignment explanation
Indices: 26429268--26429301 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
26429258 TTTAATTAGA
26429268 AATTAATTT
1 AATTAATTT
*
26429277 AGTTAATTT
1 AATTAATTT
*
26429286 AATTAATTA
1 AATTAATTT
26429295 AATTAAT
1 AATTAAT
26429302 AGAATAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (9 bp):
AATTAATTT
Found at i:26429901 original size:18 final size:18
Alignment explanation
Indices: 26429880--26429914 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26429870 TATATTCAAA
*
26429880 ATTTTATTAATTTTTATG
1 ATTTTATTAATATTTATG
*
26429898 ATTTTTTTAATATTTAT
1 ATTTTATTAATATTTAT
26429915 TTAATTATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTATTAATATTTATG
Found at i:26431009 original size:24 final size:24
Alignment explanation
Indices: 26430946--26430997 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
26430936 TTTCTAGAAG
* * *
26430946 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26430970 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26430994 ATTT
1 ATTT
26430998 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:26435426 original size:24 final size:24
Alignment explanation
Indices: 26435394--26435469 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
26435384 TTCCTAGAAG
26435394 ATTTAGCATTTATGAGAATAATAT
1 ATTTAGCATTTATGAGAATAATAT
*
26435418 ATTTAGCATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGAATAATAT
* *
26435442 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGAATAATAT
26435466 ATTT
1 ATTT
26435470 GACTTTGATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (24 bp):
ATTTAGCATTTATGAGAATAATAT
Found at i:26436225 original size:16 final size:16
Alignment explanation
Indices: 26436204--26436234 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26436194 AGTAAAAATA
26436204 ATATAAAATTTATAAC
1 ATATAAAATTTATAAC
*
26436220 ATATAACATTTATAA
1 ATATAAAATTTATAA
26436235 AAAATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAAAATTTATAAC
Found at i:26437788 original size:44 final size:43
Alignment explanation
Indices: 26437731--26437881 Score: 117
Period size: 44 Copynumber: 3.4 Consensus size: 43
26437721 ATAACAAATT
** * *
26437731 ATATCATTTCATATCAAATTTCATATTAGAATATATTAAGTAAC
1 ATATCATAGCATATCAAATTTCATATAAGAATATATTAA-TCAC
* * * ** * *
26437775 ATTTCATAGCATATC-ATTTATCATGTCGGAACATATCATATCAC
1 ATATCATAGCATATCAAATT-TCATATAAGAATATATTA-ATCAC
* * *
26437819 ATGTCATAGCATATCATATTTCATATCAAAACATATATT-ATCAC
1 ATATCATAGCATATCAAATTTCATAT-AAGA-ATATATTAATCAC
26437863 ATATCATAGCATATCAAAT
1 ATATCATAGCATATCAAAT
26437882 CCTACCCCCA
Statistics
Matches: 81, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
43 3 0.04
44 69 0.85
45 4 0.05
46 5 0.06
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (43 bp):
ATATCATAGCATATCAAATTTCATATAAGAATATATTAATCAC
Found at i:26437821 original size:22 final size:22
Alignment explanation
Indices: 26437796--26437878 Score: 60
Period size: 22 Copynumber: 3.8 Consensus size: 22
26437786 TATCATTTAT
*
26437796 CATGTCGGAACATATCATATCA
1 CATGTCAGAACATATCATATCA
* * **
26437818 CATGTCATAGCATATCATATTT
1 CATGTCAGAACATATCATATCA
* *
26437840 CATATCAAAACATAT-ATTATCA
1 CATGTCAGAACATATCA-TATCA
* * *
26437862 CATATCATAGCATATCA
1 CATGTCAGAACATATCA
26437879 AATCCTACCC
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
21 1 0.02
22 45 0.96
23 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (22 bp):
CATGTCAGAACATATCATATCA
Found at i:26438412 original size:12 final size:12
Alignment explanation
Indices: 26438395--26438427 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
26438385 CCGTGTGGTG
*
26438395 CACACGATCTAC
1 CACACGACCTAC
26438407 CACACGACCTAC
1 CACACGACCTAC
26438419 CACACGACC
1 CACACGACC
26438428 GTGTGGCGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.48, G:0.09, T:0.09
Consensus pattern (12 bp):
CACACGACCTAC
Found at i:26447185 original size:28 final size:28
Alignment explanation
Indices: 26447145--26447201 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
26447135 CCATTTTGAA
26447145 CAGGATTGTCAGTGACTATTCATACTTT
1 CAGGATTGTCAGTGACTATTCATACTTT
26447173 CAGGATTGTCAGTGACTATTCATACTTT
1 CAGGATTGTCAGTGACTATTCATACTTT
26447201 C
1 C
26447202 TTACTAGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (28 bp):
CAGGATTGTCAGTGACTATTCATACTTT
Found at i:26448888 original size:53 final size:53
Alignment explanation
Indices: 26448826--26448980 Score: 229
Period size: 53 Copynumber: 2.9 Consensus size: 53
26448816 ACGCTAAGGG
* * * *
26448826 ACCATATCGTGTAAGACTGTAATTGGTGGGTTATGGGATCATATGGAAAGAAT
1 ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAAA
** *
26448879 ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGATATCATATGGAAATAAA
1 ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAAA
* *
26448932 ACCATATCGTGTAAGACCATAACTGGTGGCTTATGGCATCATATGGAAA
1 ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAA
26448981 AATTCAAGGA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 92 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (53 bp):
ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAAA
Found at i:26456625 original size:40 final size:39
Alignment explanation
Indices: 26456551--26456680 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 39
26456541 GGCACTTTAC
* * *
26456551 GCGGCGTTTTCAACAAAAGTGCCACTAAAAATCGAGCATTA
1 GCGGCGTTTT--ACCAAAGCGCCGCTAAAAATCGAGCATTA
* *
26456592 GCGGCGTTTTGACCAAAGCGCCGCTAAAGATCGAGCATCA
1 GCGGCGTTTT-ACCAAAGCGCCGCTAAAAATCGAGCATTA
* *
26456632 GCGGCGGATTT-CCAAAAGCGCCGCTAAAAATAG-GCATTA
1 GCGGC-GTTTTACC-AAAGCGCCGCTAAAAATCGAGCATTA
*
26456671 GCGGCATTTT
1 GCGGCGTTTT
26456681 TTATAAAGCG
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
38 3 0.04
39 12 0.16
40 46 0.61
41 14 0.19
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.21
Consensus pattern (39 bp):
GCGGCGTTTTACCAAAGCGCCGCTAAAAATCGAGCATTA
Found at i:26456808 original size:41 final size:41
Alignment explanation
Indices: 26456785--26456958 Score: 208
Period size: 41 Copynumber: 4.2 Consensus size: 41
26456775 TTATCAAAAA
* * *
26456785 CGCCGCTAATGCTCTGGCCTTTAGTGGCGTTTTTGTTTAAG
1 CGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGGTAAAG
* * *
26456826 CGCCGCTAATGCTCGGGCCTTTAGTGGCGTTTTTGGTTAAG
1 CGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGGTAAAG
* * *
26456867 CGCCGCTAATGCTCTGGCCTTTAGAGGCGCTTTTGGGAAAG
1 CGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGGTAAAG
** *
26456908 CGCCGCTAATGCTCTTACCTTTAGCGGTGTTTTT--TACTAAG
1 CGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGGTA--AAG
26456949 CGCCGCTAAT
1 CGCCGCTAAT
26456959 AGTAACAAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
41 117 0.99
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (41 bp):
CGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGGTAAAG
Found at i:26456885 original size:82 final size:82
Alignment explanation
Indices: 26456785--26456958 Score: 231
Period size: 82 Copynumber: 2.1 Consensus size: 82
26456775 TTATCAAAAA
* * *** *
26456785 CGCCGCTAATGCTCTGGCCTTTAGTGGCGTTTTTGTTTAAGCGCCGCTAATGCTCGGGCCTTTAG
1 CGCCGCTAATGCTCTGGCCTTTAGAGGCGCTTTTGGGAAAGCGCCGCTAATGCTCGGACCTTTAG
* **
26456850 TGGCGTTTTTGGTTAAG
66 CGGCGTTTTTGACTAAG
**
26456867 CGCCGCTAATGCTCTGGCCTTTAGAGGCGCTTTTGGGAAAGCGCCGCTAATGCTCTTACCTTTAG
1 CGCCGCTAATGCTCTGGCCTTTAGAGGCGCTTTTGGGAAAGCGCCGCTAATGCTCGGACCTTTAG
* *
26456932 CGGTGTTTTTTACTAAG
66 CGGCGTTTTTGACTAAG
26456949 CGCCGCTAAT
1 CGCCGCTAAT
26456959 AGTAACAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.15, C:0.24, G:0.27, T:0.34
Consensus pattern (82 bp):
CGCCGCTAATGCTCTGGCCTTTAGAGGCGCTTTTGGGAAAGCGCCGCTAATGCTCGGACCTTTAG
CGGCGTTTTTGACTAAG
Found at i:26457547 original size:15 final size:16
Alignment explanation
Indices: 26457513--26457550 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26457503 TTTAAGGTTA
26457513 ATTTAGGGGTTAGAGG
1 ATTTAGGGGTTAGAGG
*
26457529 -TTTAGGGGTTTG-GG
1 ATTTAGGGGTTAGAGG
26457543 ATTTAGGG
1 ATTTAGGG
26457551 TTTCAACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (16 bp):
ATTTAGGGGTTAGAGG
Found at i:26457943 original size:28 final size:28
Alignment explanation
Indices: 26457911--26457965 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
26457901 TTAAAATAAA
*
26457911 TAAATAATTACG-CAATTAATTATTTAAG
1 TAAATAAATACGTC-ATTAATTATTTAAG
*
26457939 TAAATAAATAGGTCATTAATTATTTAA
1 TAAATAAATACGTCATTAATTATTTAA
26457966 ATGTAAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (28 bp):
TAAATAAATACGTCATTAATTATTTAAG
Found at i:26459160 original size:27 final size:27
Alignment explanation
Indices: 26459122--26459173 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
26459112 AATAAAGAAA
* *
26459122 TAAATAAGTAGGTAATTATTTATTTGT
1 TAAATAAATAGGTAATTAATTATTTGT
26459149 TAAATAAATAGGTAATTAATTATTT
1 TAAATAAATAGGTAATTAATTATTT
26459174 AAATGTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (27 bp):
TAAATAAATAGGTAATTAATTATTTGT
Found at i:26462811 original size:19 final size:19
Alignment explanation
Indices: 26462787--26462825 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
26462777 TATATCATAT
26462787 CATAACTCATTTATACTTA
1 CATAACTCATTTATACTTA
26462806 CATAACTCATTTATACTTA
1 CATAACTCATTTATACTTA
26462825 C
1 C
26462826 CACTGAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (19 bp):
CATAACTCATTTATACTTA
Found at i:26468426 original size:19 final size:18
Alignment explanation
Indices: 26468392--26468427 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
26468382 GTAAATATTT
*
26468392 TTATCATTTCACTTTTAA
1 TTATCATTTAACTTTTAA
26468410 TTATCATTTTAACTTTTA
1 TTATCA-TTTAACTTTTA
26468428 TCATTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATCATTTAACTTTTAA
Found at i:26468760 original size:85 final size:86
Alignment explanation
Indices: 26468608--26468918 Score: 322
Period size: 85 Copynumber: 3.6 Consensus size: 86
26468598 ATCCGCCAAA
* * * * * *
26468608 ATTAGCGGCGTTTGTGGAAAAAAATCACCGTTAAAGGTCAGGGTCTTTAGCGGTGTTTGTGGCAA
1 ATTAGCGGCGTTTGT--AGAAAAATCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAAA
***
26468673 AAGCGCCGCTAAAGGTCCTTGTC
64 AAGCGCCGCTAAAGGTCAGAGTC
* *
26468696 ATT-GTGGCGTTTGT-GAAAACATCGCCGCTAAAGTTCAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 ATTAGCGGCGTTTGTAGAAAA-ATCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAAAA
26468759 AGCGCCGCTAAAGGTCAGAGTC
65 AGCGCCGCTAAAGGTCAGAGTC
* * * * * * *
26468781 TTTAGCGGCGATTGTAGGAAAAGCGCCGCTAAAGATCAAGGTCTTTAGAGGCGTTTGTCGAAAAA
1 ATTAGCGGCGTTTGTAGAAAAATCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAAAAA
* *
26468846 GCGCCGCTAAAGATCAGGGTC
66 GCGCCGCTAAAGGTCAGAGTC
* * * * * * * *
26468867 TTTAGCTGCGTTT-TTGTAAAAGCGCCGGTAAAGGTCATGGTCTTTAGCGGCG
1 ATTAGCGGCGTTTGTAGAAAAATCGCCGCTAAAGATCAGGGTCTTTAGCGGCG
26468919 CATTCCCAAA
Statistics
Matches: 191, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
84 4 0.02
85 92 0.48
86 78 0.41
87 14 0.07
88 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (86 bp):
ATTAGCGGCGTTTGTAGAAAAATCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAAAAA
GCGCCGCTAAAGGTCAGAGTC
Found at i:26468765 original size:43 final size:43
Alignment explanation
Indices: 26468609--26468918 Score: 340
Period size: 43 Copynumber: 7.2 Consensus size: 43
26468599 TCCGCCAAAA
* * *
26468609 TTAGCGGCGTTTGTGGAAAAAAATCACCGTTAAAGGTCAGGGTCT
1 TTAGCGGCGTTTGTGG--AAAAAGCGCCGCTAAAGGTCAGGGTCT
* * *** *
26468654 TTAGCGGTGTTTGTGGCAAAAGCGCCGCTAAAGGTCCTTGTCA
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAGGGTCT
* * *
26468697 TT-GTGGCGTTTGT-GAAAACATCGCCGCTAAAGTTCAGGGTCT
1 TTAGCGGCGTTTGTGGAAAA-AGCGCCGCTAAAGGTCAGGGTCT
*
26468739 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAGAGTCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAGGGTCT
* * *
26468782 TTAGCGGCGATTGTAGG-AAAAGCGCCGCTAAAGATCAAGGTCT
1 TTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGGTCAGGGTCT
* * *
26468825 TTAGAGGCGTTTGTCGAAAAAGCGCCGCTAAAGATCAGGGTCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAGGGTCT
* * * * *
26468868 TTAGCTGCGTTT-TTGTAAAAGCGCCGGTAAAGGTCATGGTCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAGGGTCT
26468910 TTAGCGGCG
1 TTAGCGGCG
26468919 CATTCCCAAA
Statistics
Matches: 222, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.02
42 62 0.28
43 134 0.60
44 7 0.03
45 15 0.07
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAGGGTCT
Found at i:26468888 original size:128 final size:127
Alignment explanation
Indices: 26468609--26468918 Score: 374
Period size: 128 Copynumber: 2.4 Consensus size: 127
26468599 TCCGCCAAAA
* * * * *
26468609 TTAGCGGCGTTTGTGGAAAAAAATCACCGTTAAAGGTCAGGGTCTTTAGCGGTGTTTGTGGCAAA
1 TTAGCGGCGTTTGTGG--AAAAAGCGCCGCTAAAGGTCA-GGTCTTTAGCGGCGATTGTGGCAAA
* *** * * *
26468674 AGCGCCGCTAAAGGTCCTTGTCATTGTGGCGTTTGTGAAAACATCGCCGCTAAAGTTCAGGGTCT
63 AGCGCCGCTAAAGATCAAGGTCATTGAGGCGTTTGTGAAAACAGCGCCGCTAAAGATCAGGGTCT
26468739 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAGAGTCTTTAGCGGCGATTGTAGG-AAAA
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAG-GTCTTTAGCGGCGATTGT-GGCAAAA
*
26468803 GCGCCGCTAAAGATCAAGGTCTTTAGAGGCGTTTGTCGAAAA-AGCGCCGCTAAAGATCAGGGTC
64 GCGCCGCTAAAGATCAAGGTCATT-GAGGCGTTTGT-GAAAACAGCGCCGCTAAAGATCAGGGTC
26468867 T
127 T
* * * *
26468868 TTAGCTGCGTTT-TTGTAAAAGCGCCGGTAAAGGTCATGGTCTTTAGCGGCG
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCA-GGTCTTTAGCGGCG
26468919 CATTCCCAAA
Statistics
Matches: 158, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
127 1 0.01
128 91 0.58
129 45 0.28
130 21 0.13
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (127 bp):
TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAGGTCTTTAGCGGCGATTGTGGCAAAAGC
GCCGCTAAAGATCAAGGTCATTGAGGCGTTTGTGAAAACAGCGCCGCTAAAGATCAGGGTCT
Found at i:26469063 original size:13 final size:13
Alignment explanation
Indices: 26469045--26469083 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
26469035 CGCAAATGCT
*
26469045 TTTAGCGCCGTTA
1 TTTAGCGCCGCTA
26469058 TTTAGCGCCGCTA
1 TTTAGCGCCGCTA
26469071 TTTAGCGCCGCTA
1 TTTAGCGCCGCTA
26469084 AAAGCCTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.28, G:0.23, T:0.33
Consensus pattern (13 bp):
TTTAGCGCCGCTA
Found at i:26477660 original size:18 final size:18
Alignment explanation
Indices: 26477639--26477693 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
26477629 TTCTAAGTTA
26477639 ATAAATAATTCAGTTGCC
1 ATAAATAATTCAGTTGCC
* *
26477657 ATAAA-GATTCTAAGTT--A
1 ATAAATAATTC--AGTTGCC
26477674 ATAAATAATTCAGTTGCC
1 ATAAATAATTCAGTTGCC
26477692 AT
1 AT
26477694 GGACTTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 11 0.39
19 4 0.14
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (18 bp):
ATAAATAATTCAGTTGCC
Found at i:26477669 original size:35 final size:35
Alignment explanation
Indices: 26477623--26477693 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
26477613 AGCTTATGAC
26477623 TAAAGATTCTAAGTTAATAAATAATTCAGTTGCCA
1 TAAAGATTCTAAGTTAATAAATAATTCAGTTGCCA
26477658 TAAAGATTCTAAGTTAATAAATAATTCAGTTGCCA
1 TAAAGATTCTAAGTTAATAAATAATTCAGTTGCCA
26477693 T
1 T
26477694 GGACTTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (35 bp):
TAAAGATTCTAAGTTAATAAATAATTCAGTTGCCA
Found at i:26477677 original size:17 final size:17
Alignment explanation
Indices: 26477623--26477678 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
26477613 AGCTTATGAC
26477623 TAAAGATTCTAAGTTAA
1 TAAAGATTCTAAGTTAA
* *
26477640 TAAATAATTC--AGTTGCCA
1 TAAA-GATTCTAAGTT--AA
26477658 TAAAGATTCTAAGTTAA
1 TAAAGATTCTAAGTTAA
26477675 TAAA
1 TAAA
26477679 TAATTCAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 4 0.13
17 13 0.43
18 9 0.30
19 4 0.13
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (17 bp):
TAAAGATTCTAAGTTAA
Found at i:26478562 original size:18 final size:17
Alignment explanation
Indices: 26478535--26478569 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26478525 AGAAAATTGG
26478535 TTATTGAGTTGGATAAA
1 TTATTGAGTTGGATAAA
*
26478552 TTATATGAGTTGGTTAAA
1 TTAT-TGAGTTGGATAAA
26478570 AATTCAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TTATTGAGTTGGATAAA
Found at i:26479171 original size:10 final size:10
Alignment explanation
Indices: 26479141--26479181 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
26479131 ATTACAAGTC
26479141 TTGTGATATA
1 TTGTGATATA
*
26479151 GTGTGATATA
1 TTGTGATATA
26479161 TTGTGATATA
1 TTGTGATATA
*
26479171 TATATGATATA
1 T-TGTGATATA
26479182 CGTAGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (10 bp):
TTGTGATATA
Found at i:26489334 original size:95 final size:95
Alignment explanation
Indices: 26489235--26489493 Score: 256
Period size: 95 Copynumber: 2.7 Consensus size: 95
26489225 ATTTTTTTTT
* * * *
26489235 AAAATTGGATTA-GTTTTCGTGTTTATTGTTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGG
1 AAAATTAGATTAGGATTTAGTGTTTA-GGTTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGG
* *
26489299 GTTACTTGAGTAATTTAATTAAAAAAATT-TA
65 GTTACTTGAGTAAATAAATT-AAAAAATTATA
* * * * * * *
26489330 AAAATCAGATTAGGATTTAGAGTTAAGGGTTTTTAA-AGAAAAATTAAATAAATT-GGAGTTCAT
1 AAAATTAGATTAGGATTTAGTGTTTAGGTTTTTTAAGA-AAAAATCAAATAAATTAGG-GTTTAG
* *
26489393 GGTTACTTGAGTAAATAAATTATAAATTTATA
64 GGTTACTTGAGTAAATAAATTAAAAAATTATA
* * * * *
26489425 ATAAATTAGTTTAGGGTTTAGTGTTTAGGGTTTTTAAGTAAAAACTCAAATAAATTAGGGTTTGG
1 A-AAATTAGATTAGGATTTAGTGTTTAGGTTTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAG
26489490 GGTT
64 GGTT
26489494 TACAATTACT
Statistics
Matches: 131, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
94 9 0.07
95 59 0.45
96 39 0.30
97 21 0.16
98 3 0.02
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (95 bp):
AAAATTAGATTAGGATTTAGTGTTTAGGTTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGG
TTACTTGAGTAAATAAATTAAAAAATTATA
Found at i:26489884 original size:126 final size:126
Alignment explanation
Indices: 26489536--26489952 Score: 597
Period size: 126 Copynumber: 3.3 Consensus size: 126
26489526 AAAGACACTC
* * * *
26489536 CCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAGAAAATAATTTCGAGTAGACATTTCTGAGC
1 CCACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGC
* *
26489601 AAACAGTGTCAAAAACGCTTTAAGTAGGATACTTTGTCAGCAGAAGTACTGAAAAAAGC-T
66 AAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTT
* *
26489661 CTCACGTAGACGCGCTTTTGCTACAGTAGCTCCT-AAAAAATGATTTCGAGTAGACGTTTTTGAG
1 C-CACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAG
**
26489725 CAAACAGTGTCAAAAACGCTTTAAGAAAAATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTT
65 CAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTT
* **
26489787 CCACGT-GAACGCGCTTTTGCTATAGTAGCTATTGAAAAAATAATTTCGAGTAGACGTTTCTGAG
1 CCACGTAG-ACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAG
* * * * * *
26489851 CAAACAATGTCAAAAACACTTTAAGCAGGATGCTTTGTTAGCAGAAGTACTGAAAGAAGCTC
65 CAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTT
* * *
26489913 CCACATAGACGCACTTTTGCTACAGTAACTCCTGAAAAAA
1 CCACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAA
26489953 GCTCCCACGT
Statistics
Matches: 258, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
124 1 0.00
125 110 0.43
126 146 0.57
127 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (126 bp):
CCACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTGAGC
AAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTGAAAAAAGCTT
Found at i:26493588 original size:16 final size:17
Alignment explanation
Indices: 26493567--26493601 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
26493557 AAAAGGAAAC
26493567 ATAT-AAGGGTTAGGAT
1 ATATAAAGGGTTAGGAT
26493583 ATATAAAAGGGTTAGGAT
1 ATAT-AAAGGGTTAGGAT
26493601 A
1 A
26493602 CGCACCTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (17 bp):
ATATAAAGGGTTAGGAT
Found at i:26495272 original size:18 final size:18
Alignment explanation
Indices: 26495214--26495275 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
26495204 AACAAATAAT
26495214 AAATT-AATAATTATTT-A
1 AAATTAAATAA-TATTTAA
* **
26495231 AAATTACATAA-ATAAAA
1 AAATTAAATAATATTTAA
26495248 AATATTAAATAATATTTAA
1 AA-ATTAAATAATATTTAA
26495267 AAATTAAAT
1 AAATTAAAT
26495276 TTAACACTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
16 2 0.06
17 8 0.23
18 19 0.54
19 6 0.17
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTAAATAATATTTAA
Found at i:26495494 original size:51 final size:51
Alignment explanation
Indices: 26495438--26495539 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
26495428 TAAAGCTCTT
26495438 TTAAATAGGGATTTGAGAGGAA-TTTGAGAGAAAATAGAGAGCAAATGGAGA
1 TTAAATAGGGATTTGAGA-GAACTTTGAGAGAAAATAGAGAGCAAATGGAGA
* *
26495489 TTAAATAGGGATTTGAGAGAACTTTGAGAGAAAATTGAGAGCAAATTGAGA
1 TTAAATAGGGATTTGAGAGAACTTTGAGAGAAAATAGAGAGCAAATGGAGA
26495540 GGAAATTAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 3 0.06
51 45 0.94
ACGTcount: A:0.44, C:0.03, G:0.29, T:0.24
Consensus pattern (51 bp):
TTAAATAGGGATTTGAGAGAACTTTGAGAGAAAATAGAGAGCAAATGGAGA
Found at i:26495526 original size:11 final size:11
Alignment explanation
Indices: 26495501--26495553 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
26495491 AAATAGGGAT
**
26495501 TTGAGAGAACT
1 TTGAGAGAAAA
26495512 TTGAGAGAAAA
1 TTGAGAGAAAA
*
26495523 TTGAGAGCAAA
1 TTGAGAGAAAA
*
26495534 TTGAGAGGAAA
1 TTGAGAGAAAA
26495545 TT-AGAGAAA
1 TTGAGAGAAA
26495554 GGATTTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
10 6 0.16
11 31 0.84
ACGTcount: A:0.47, C:0.04, G:0.28, T:0.21
Consensus pattern (11 bp):
TTGAGAGAAAA
Found at i:26500830 original size:19 final size:19
Alignment explanation
Indices: 26500806--26500844 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
26500796 CAATTAAGGG
*
26500806 TAATTAATGACTTAATTGA
1 TAATTAAGGACTTAATTGA
* *
26500825 TAATTAGGGATTTAATTGA
1 TAATTAAGGACTTAATTGA
26500844 T
1 T
26500845 TAGAGGCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (19 bp):
TAATTAAGGACTTAATTGA
Found at i:26502549 original size:17 final size:17
Alignment explanation
Indices: 26502527--26502562 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
26502517 AGGGTTTCTC
26502527 TTTTAAATTT-TGTTTAA
1 TTTTAAATTTAT-TTTAA
26502544 TTTTAAATTTATTTTAA
1 TTTTAAATTTATTTTAA
26502561 TT
1 TT
26502563 GATTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTAAATTTATTTTAA
Found at i:26504209 original size:7 final size:8
Alignment explanation
Indices: 26504192--26504221 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
26504182 AAGTGAGTAG
26504192 AAAAATAA
1 AAAAATAA
26504200 AAAAATAA
1 AAAAATAA
26504208 AAAAATAA
1 AAAAATAA
26504216 AGAAAA
1 A-AAAA
26504222 ATACTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:26505664 original size:19 final size:19
Alignment explanation
Indices: 26505640--26505678 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
26505630 CAATTAAGGG
*
26505640 TAATTAATGACTTAATTGA
1 TAATTAAGGACTTAATTGA
* *
26505659 TAATTAGGGATTTAATTGA
1 TAATTAAGGACTTAATTGA
26505678 T
1 T
26505679 TAGAGGCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (19 bp):
TAATTAAGGACTTAATTGA
Found at i:26508610 original size:29 final size:29
Alignment explanation
Indices: 26508536--26508672 Score: 131
Period size: 29 Copynumber: 4.8 Consensus size: 29
26508526 CAAAGTCATT
26508536 CTTTG-AGAGGTTTGCCACAAAGGC-TAC
1 CTTTGTAGAGGTTTGCCACAAAGGCTTAC
*
26508563 CTTT-TAATAGGTTTGCCACAAAGGCTTAC
1 CTTTGT-AGAGGTTTGCCACAAAGGCTTAC
* * * * *
26508592 CTTTCTAGAGTTTTACCACAAGGGTTGTA-
1 CTTTGTAGAGGTTTGCCACAAAGGCT-TAC
* *
26508621 C-TTGAACAGGTTTGCCACAAAGGCTTAC
1 CTTTGTAGAGGTTTGCCACAAAGGCTTAC
* *
26508649 CTTTGTAGAGTTTTTCCACAAAGG
1 CTTTGTAGAGGTTTGCCACAAAGG
26508673 TGTCCTTAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
27 6 0.07
28 36 0.42
29 41 0.48
30 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (29 bp):
CTTTGTAGAGGTTTGCCACAAAGGCTTAC
Found at i:26508698 original size:57 final size:57
Alignment explanation
Indices: 26508575--26508701 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
26508565 TTTAATAGGT
* * *
26508575 TTGCCACAAAGGCTTACCTTTCTAGAGTTTTACCACAAGGGTTGTACTTGAACAGGT
1 TTGCCACAAAGGCTTACCTTTCTAGAGTTTTACCACAAAGGTTGTACTTAAACAGGA
* * * *
26508632 TTGCCACAAAGGCTTACCTTTGTAGAGTTTTTCCACAAAGG-TGTCCTTAAATAGAGA
1 TTGCCACAAAGGCTTACCTTTCTAGAGTTTTACCACAAAGGTTGTACTTAAACAG-GA
*
26508689 TTGCTACAAAGGC
1 TTGCCACAAAGGC
26508702 ATTCTTCTCT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 10 0.16
57 51 0.84
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (57 bp):
TTGCCACAAAGGCTTACCTTTCTAGAGTTTTACCACAAAGGTTGTACTTAAACAGGA
Found at i:26508938 original size:53 final size:54
Alignment explanation
Indices: 26508823--26508976 Score: 149
Period size: 53 Copynumber: 2.9 Consensus size: 54
26508813 CTTAAAATTT
* ** * * * *
26508823 TCCATATGATTCTATAACCTACTAGTTACAGTCTTACATGAAAT-GATTTTTTT
1 TCCATATGATACTATAACCTACTAGTTATGGTCTTACACGATATGGATTTCTTC
*
26508876 TCCACATGATACTATAACCTACTAGTTATGGTCTTACACGATATGGCA-TTCTTC
1 TCCATATGATACTATAACCTACTAGTTATGGTCTTACACGATATGG-ATTTCTTC
* * *
26508930 T-CATATGATAC-ATAA-CTCACCAATTATGGTCTTACACAATAT-GATTT
1 TCCATATGATACTATAACCT-ACTAGTTATGGTCTTACACGATATGGATTT
26508977 TATTCAGCTC
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
50 1 0.01
51 5 0.06
52 25 0.29
53 47 0.55
54 6 0.07
55 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.38
Consensus pattern (54 bp):
TCCATATGATACTATAACCTACTAGTTATGGTCTTACACGATATGGATTTCTTC
Found at i:26512944 original size:16 final size:17
Alignment explanation
Indices: 26512898--26512944 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
26512888 ATCATATCAC
26512898 ATATTCACATGTATC-ATT
1 ATATTCACA--TATCAATT
26512916 ATATTCACA-ATCAATT
1 ATATTCACATATCAATT
26512932 ATATTCA-ATATCA
1 ATATTCACATATCA
26512945 CCATCCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.15
16 14 0.52
18 9 0.33
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATTCACATATCAATT
Found at i:26516853 original size:23 final size:22
Alignment explanation
Indices: 26516810--26516867 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
26516800 AAAGGGTATC
* *
26516810 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
26516831 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
26516854 TGCATATCATATCT
1 TACAAATCATATCT
26516868 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:26517549 original size:131 final size:133
Alignment explanation
Indices: 26517329--26517650 Score: 454
Period size: 131 Copynumber: 2.4 Consensus size: 133
26517319 CACTGCAACT
26517329 TTAGGGAGATAAGG-CTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGA-CTCGC
1 TTAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATCTCGC
* * * *
26517392 CAACTTTGATTTGTTACACTACTGCTTAGAGAGACAAGATATACAATCTTTAACCTACTCCACTA
65 CAACTTCGATCTGCTACACTACTGCTTAGAGAGACAAGATATACAATCTTCAACCTACTCCACTA
26517457 CTGC
130 CTGC
* * * *
26517461 TTAGGGAGATAGGAATGATGGCTTAAATCTGCTT-CCTACTATCTCGGGAAGATAAGATC-CGTC
1 TTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATCTCGCC
** * * * * *
26517524 GTCTTCGATCTGCTCCACTATTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTAC
66 AACTTCGATCTGCTACACTACTGCTTAGAGAGACAAGATATACAATCTTCAACCTACTCCACTAC
26517589 TGC
131 TGC
* *
26517592 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGAT
1 TTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGAT
26517651 TCACTGTCTT
Statistics
Matches: 167, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
131 116 0.69
132 51 0.31
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (133 bp):
TTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATCTCGCC
AACTTCGATCTGCTACACTACTGCTTAGAGAGACAAGATATACAATCTTCAACCTACTCCACTAC
TGC
Found at i:26517813 original size:44 final size:44
Alignment explanation
Indices: 26517704--26518096 Score: 183
Period size: 44 Copynumber: 8.8 Consensus size: 44
26517694 GATTTACTAT
* * *
26517704 CTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGA--CTTCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
* * * **
26517746 CTTCAATCCGCTCCATTGCAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
*
26517790 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TTC-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
* * * * * * * *
26517832 CAT-GATCTACTCTACTGCAACTTTAGAGAGAAAAGATCTGTGATTTATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-TT-CA
* ** * * * * **
26517881 GCTTTAATCTATTCCACTGCAGCTTCAGGAAAATGAGATT-CGCTA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTC-A
* * * * * ** *
26517926 TCTTCAGTTTGCTCTACTGGAACTTCAGGGAGATAAGACTGGTCT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
* * * *
26517971 CTTCAGT-TCGCTCCACTGTAACTTCAGAGAGATAGGATTATT-A
1 CTTCAATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
* * * * *
26518014 GCTTTAATCTACTCCGCTGCAACTTCTGGGAGATAAGATT-TGCCA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-TCA
* * * *
26518059 TCTTCAGTCTGCCCCACTACAACTTCAGGGGGATAAGA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
26518097 CTTACTTTCT
Statistics
Matches: 255, Mismatches: 77, Indels: 35
0.69 0.21 0.10
Matches are distributed among these distances:
41 27 0.11
42 34 0.13
43 5 0.02
44 100 0.39
45 59 0.23
46 1 0.00
47 2 0.01
48 1 0.00
49 1 0.00
50 2 0.01
51 23 0.09
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTCA
Found at i:26518181 original size:44 final size:44
Alignment explanation
Indices: 26518117--26518826 Score: 640
Period size: 44 Copynumber: 16.1 Consensus size: 44
26518107 TCAATAAGAC
* * *
26518117 TTGTAACTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * *
26518161 TTGTAAATTTAATCCT-CTCCACTGCAACTTTAGAGAGATAGGAT
1 TTGTAACTTTAAT-CTGCTCCACTGCAACTTCAGGGAGATAGGAT
** * * * *
26518205 TAT-TGGCTTTAATCTGCTCCACTACAACTTTAGGGAGTTAAGAT
1 T-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
** * * * * * *
26518249 TTACCATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 TT-GTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * *
26518294 TTGTAACTTTAATCCGCTCAATTGCAACTTCAGGGAGATAGGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * *
26518338 TTATAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * *
26518382 TTGTAAATTTAATCCT-CTCCACTGCAACTTTAGAGAGATAGGAT
1 TTGTAACTTTAAT-CTGCTCCACTGCAACTTCAGGGAGATAGGAT
** * * *
26518426 TAT-TGGCTTTAATCTGCTCCACTACAACTTCAGGGAGTTAAGAT
1 T-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
** * * * * * *
26518470 TTACCATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 TT-GTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * *
26518515 TTGTAACTTTAATCCGCTCAATTGCAACTTCAGGGAGATAGGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * *
26518559 TTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
** ** * * * *
26518603 TACTGGCTTTAATCTGCTCCACTTCAACTTTAGGGAGATAAGAG
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
* * * * * * * *
26518647 TTGTCATCTTCAGTCTGCTCCATTGTAACTTCAGGTAGATAAGAC
1 TTGT-AACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
*
26518692 TTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
1 TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
** * *
26518736 TAT-TGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAGAAT
1 T-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
** * *
26518780 TAT-TGGCTTTAATCTGCTCCACTGCAACTTCATGGAGATAAGAT
1 T-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
26518824 TTG
1 TTG
26518827 CCATCTTCTT
Statistics
Matches: 537, Mismatches: 116, Indels: 26
0.79 0.17 0.04
Matches are distributed among these distances:
43 7 0.01
44 424 0.79
45 106 0.20
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT
Found at i:26518503 original size:221 final size:221
Alignment explanation
Indices: 26518120--26518826 Score: 922
Period size: 221 Copynumber: 3.2 Consensus size: 221
26518110 ATAAGACTTG
** *
26518120 TAACTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTTGTAAATTTAATCCTCTCCACTG
1 TAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGTAAATTTAATCCTCTCCACTG
*
26518185 CAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTTAGGGAGTTAAGATT
66 CAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGTTAAGATT
26518250 TACCATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCAA
131 TACCATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCAA
26518315 TTGCAACTTCAGGGAGATAGGATTTA
196 TTGCAACTTCAGGGAGATAGGATTTA
26518341 TAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGTAAATTTAATCCTCTCCACTG
1 TAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGTAAATTTAATCCTCTCCACTG
26518406 CAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGTTAAGATT
66 CAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGTTAAGATT
26518471 TACCATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCAA
131 TACCATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCAA
*
26518536 TTGCAACTTCAGGGAGATAGGATTTG
196 TTGCAACTTCAGGGAGATAGGATTTA
* ** ***
26518562 TAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTACTGGCTTTAAT-CTGCTCCACT
1 TAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGTAAATTTAATCCT-CTCCACT
* * * * *** * * * ** * *
26518626 TCAACTTTAGGGAGATAAGAGTTGTCATCTTCAGTCTGCTCCATTGTAACTTCAGGTAGATAAGA
65 GCAACTTTAGAGAGATAGGA-TTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGTTAAGA
* * ** * * ** *
26518691 CTTGTA--A-CTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTATTGGCTTTAATCTG
129 -TT-TACCATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAATCCG
* * * *
26518752 CTCCACTGTAACTTCAGGGAGATA-GAATTA
191 CTCAATTGCAACTTCAGGGAGATAGGATTTA
** * * * *
26518782 TTGGCTTTAATCTGCTCCACTGCAACTTCATGGAGATAAGATTTG
1 -TAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTG
26518827 CCATCTTCTT
Statistics
Matches: 432, Mismatches: 48, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
220 8 0.02
221 386 0.89
222 34 0.08
223 2 0.00
224 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (221 bp):
TAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTTGTAAATTTAATCCTCTCCACTG
CAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGTTAAGATT
TACCATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCAA
TTGCAACTTCAGGGAGATAGGATTTA
Found at i:26518834 original size:177 final size:177
Alignment explanation
Indices: 26518132--26518834 Score: 829
Period size: 177 Copynumber: 4.0 Consensus size: 177
26518122 ACTTTAATCC
* * * * * * * *
26518132 GCTCCACTGTAACTTCAAGGAGATAGGATTTGTAAATTTAATCCTCTCCACTGCAACTTTAGAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
** * * * *** *
26518197 GATAGGATTAT-TGGCTTTAATCTGCTCCACTACAACTTTAGGGAGTTAAGATTTACCATCTTCA
66 GATAGGATT-TGTAACTTTAATCTGCTCCACTACAACTTCAGGGAGAT-AGAATTACTGGCTTTA
* * * * * * * *
26518261 GTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAATCC
129 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT
* * * * * *
26518309 GCTCAATTGCAACTTCAGGGAGATAGGATTTATAACTTTAATCCGCTCCACTACAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
* * * * * *
26518374 GATAGGATTTGTAAATTTAATCCT-CTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAA
66 GATAGGATTTGTAACTTTAAT-CTGCTCCACTACAACTTCAGGGAGATAGAATTACTGGCTTTAA
* * * *
26518438 TCTGCTCCACTACAACTTCAGGGAGTTAAGATTTACCATCTTCAGTTT
130 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT
* *
26518486 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCAATTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
*
26518551 GATAGGATTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTACTGGCTTTAAT
66 GATAGGATTTGTAACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGAATTACTGGCTTTAAT
* * * *
26518616 CTGCTCCACTTCAACTTTAGGGAGATAAGAGTTGTCATCTTCAGTCT
131 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT
* * *
26518663 GCTCCATTGTAACTTCAGGTAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
** ** *
26518728 GATAGGATTAT-TGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAGAATTATTGGCTTTAA
66 GATAGGATT-TGTAACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGAATTACTGGCTTTAA
*
26518792 TCTGCTCCACTGCAACTTCATGGAGATAAGATTTGCCATCTTC
130 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
26518835 TTCAATACAT
Statistics
Matches: 448, Mismatches: 73, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
176 41 0.09
177 404 0.90
178 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (177 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTTGTAACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGAATTACTGGCTTTAAT
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCT
Found at i:26520110 original size:10 final size:10
Alignment explanation
Indices: 26520095--26520127 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
26520085 GCCTCTCCTC
26520095 TTTTTATTTT
1 TTTTTATTTT
26520105 TTTTTATTTT
1 TTTTTATTTT
26520115 TTTTTATTTT
1 TTTTTATTTT
26520125 TTT
1 TTT
26520128 CTCAAGGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:26523410 original size:19 final size:20
Alignment explanation
Indices: 26523386--26523432 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
26523376 TGTGAAAATC
26523386 TAATGCAAATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
26523405 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
26523425 -AATGCAAA
1 TAATGCAAA
26523433 AAGAAAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:26535254 original size:9 final size:11
Alignment explanation
Indices: 26535228--26535252 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26535218 GATAAAATTT
26535228 TATATTTAAAA
1 TATATTTAAAA
26535239 TATATTTAAAA
1 TATATTTAAAA
26535250 TAT
1 TAT
26535253 TTTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATATTTAAAA
Found at i:26542210 original size:61 final size:61
Alignment explanation
Indices: 26542105--26542272 Score: 185
Period size: 61 Copynumber: 2.8 Consensus size: 61
26542095 ATTTTTGAAG
* * * * * * *
26542105 GGAAAGCCTTTGTGGTGAGTACTGGTTATAAATGACAGCTTTTGTGGCATAACTTTGGACA
1 GGAAAGCCTTTGTGGTGAGTACTGGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACA
* * *
26542166 GGAAAGCCTTTATGGTGAGTATTGGATATAAAGGATAGCCTTTGTGACACAACTCTAGACA
1 GGAAAGCCTTTGTGGTGAGTACTGGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACA
** * * * *
26542227 ACAAAACCTTTGTGGGGAGCACTAGATATAAAGGAT-GCCTTTGTGG
1 GGAAAGCCTTTGTGGTGAGTACTGGATATAAAGGATAGCCTTTGTGG
26542273 AAAAACTCAG
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
60 9 0.10
61 79 0.90
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (61 bp):
GGAAAGCCTTTGTGGTGAGTACTGGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACA
Found at i:26542627 original size:16 final size:16
Alignment explanation
Indices: 26542606--26542636 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26542596 TTTCACTTTA
*
26542606 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
26542622 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26542637 GTATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:26550952 original size:15 final size:15
Alignment explanation
Indices: 26550932--26550963 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26550922 ATGTTATGCA
26550932 TGATATTACTATATC
1 TGATATTACTATATC
*
26550947 TGATATTTCTATATC
1 TGATATTACTATATC
26550962 TG
1 TG
26550964 TGACTGGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.50
Consensus pattern (15 bp):
TGATATTACTATATC
Found at i:26551422 original size:4 final size:4
Alignment explanation
Indices: 26551413--26551442 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
26551403 TAAAATAAAA
26551413 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
26551443 GAAGTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:26552865 original size:8 final size:8
Alignment explanation
Indices: 26552852--26552880 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
26552842 TTTTAAATGA
26552852 TATTTTAT
1 TATTTTAT
26552860 TATTTTAT
1 TATTTTAT
26552868 TATTTTAT
1 TATTTTAT
26552876 TATTT
1 TATTT
26552881 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:26554026 original size:2 final size:2
Alignment explanation
Indices: 26554019--26554068 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
26554009 AGGAGGAGGA
26554019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26554061 AT AT AT AT
1 AT AT AT AT
26554069 GAATATTCAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26567733 original size:52 final size:51
Alignment explanation
Indices: 26567650--26567801 Score: 215
Period size: 52 Copynumber: 3.0 Consensus size: 51
26567640 AAAGTTTAGG
* *
26567650 GTTTTGGGTGCAAGCTTTTTTAGGGTTTAGGGGTCTCGAAAAAAATTATTTC
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTC-CGAAAAAAATTATTTC
26567702 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTGCCGAAAAAAATTATTTC
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGT-CCGAAAAAAATTATTTC
*
26567754 GTTTAGGGTGCAGGC-----TAGGGTTTAGGGGTCCCGAAAAAATTTATTTC
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGT-CCGAAAAAAATTATTTC
26567801 G
1 G
26567802 AGTTGACGTT
Statistics
Matches: 95, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
47 31 0.33
52 63 0.66
53 1 0.01
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (51 bp):
GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCGAAAAAAATTATTTC
Found at i:26567974 original size:52 final size:51
Alignment explanation
Indices: 26567901--26568005 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
26567891 ATTTCAGCAC
* * * *
26567901 AGTTTAGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTCGAG
1 AGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGAG
* * *
26567952 AGTTTAAGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGACTTTGAG
1 AGTTT-AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGAG
26568004 AG
1 AG
26568006 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 5 0.11
52 41 0.89
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.33
Consensus pattern (51 bp):
AGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGAG
Found at i:26567985 original size:22 final size:22
Alignment explanation
Indices: 26567958--26568026 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
26567948 CGAGAGTTTA
*
26567958 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
**
26567980 AGAGAATTTTTGAAGGACTTTG
1 AGAGAATTTTTGAAGGAAATTG
*
26568002 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
26568024 AGA
1 AGA
26568027 TAGGATTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.39, C:0.01, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:26568330 original size:29 final size:26
Alignment explanation
Indices: 26568284--26568342 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 26
26568274 GATTTCGGGG
26568284 AAAACGGCCCATTCCGGTAAATAATTAA
1 AAAACGGCCCATTCCGGTAAAT--TTAA
* *
26568312 AAAATCGGCCTATTTCGGTAAATTTAA
1 AAAA-CGGCCCATTCCGGTAAATTTAA
26568339 AAAA
1 AAAA
26568343 AAAAGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 16 0.57
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (26 bp):
AAAACGGCCCATTCCGGTAAATTTAA
Found at i:26575236 original size:5 final size:5
Alignment explanation
Indices: 26575226--26575255 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
26575216 TCCAAAACTC
26575226 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
26575256 TTTAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:26579227 original size:16 final size:18
Alignment explanation
Indices: 26579191--26579227 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
26579181 TAATATTAAA
*
26579191 TAATAAAATATTATTATT
1 TAATAAAATATTATCATT
26579209 TAATAAAA-A-TATCATT
1 TAATAAAATATTATCATT
26579225 TAA
1 TAA
26579228 AAGCCATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAAATATTATCATT
Done.