Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 173 of 343
Found at i:57308608 original size:37 final size:37
Alignment explanation
Indices: 57308549--57308636 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
57308539 TATTAGAACT
* * *
57308549 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTTAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* * * *
57308586 AGAATCAGAATCATAATTAGAATCAGAATTAGGTGAT
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
*
57308623 AGAAACAGAATCAG
1 AGAATCAGAATCAG
57308637 TTTCAAGTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:57308888 original size:27 final size:27
Alignment explanation
Indices: 57308782--57308890 Score: 87
Period size: 27 Copynumber: 4.0 Consensus size: 27
57308772 AGCATGGCTC
* * *
57308782 CCAGAACAGATAT-TGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAAAGCCA
* * *
57308808 CCAGATACAGGTATTTGTGGCACAGCCA
1 CCAGA-ACAGATATATGTGGCAAAGCCA
* ** *
57308836 CCAGAACAGATATTTGTGTTATAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCA
*
57308863 CCAGAAATAGATA-ATGTGGCAAAGCCA
1 CCAG-AACAGATATATGTGGCAAAGCCA
57308890 C
1 C
57308891 TTAATAGAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.07
27 40 0.60
28 22 0.33
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAAAGCCA
Found at i:57309085 original size:22 final size:23
Alignment explanation
Indices: 57309060--57309111 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
57309050 TGGCACACAA
*
57309060 CCATAATCT-GGTTGG-GACAGAG
1 CCATAATCTAGGTTGGCG-CAAAG
*
57309082 CCAT-ATGTAGGTTGGCGCAAAG
1 CCATAATCTAGGTTGGCGCAAAG
57309104 CCATAATC
1 CCATAATC
57309112 AGAATAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (23 bp):
CCATAATCTAGGTTGGCGCAAAG
Found at i:57309962 original size:27 final size:27
Alignment explanation
Indices: 57309502--57309960 Score: 526
Period size: 27 Copynumber: 17.0 Consensus size: 27
57309492 GGGCAAAATG
* * * * *
57309502 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57309529 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
57309556 GTATTTCTACCCTACAAGGGTA-TTCTG
1 GTAATTCTACCCTACAGGGGTATTTC-A
* *
57309583 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
57309610 GTAATTCTACCCTATAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
57309637 GTAGTTCTACCCTACACGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57309664 GTAGTTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57309691 GTAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
57309718 GTAATTCTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57309745 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
57309772 GTAATTTTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57309799 GTAATTCTACCCTACAAGGTTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57309826 ATAATTATACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
57309853 GTAATTCTATCATACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57309880 GTATTTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
57309906 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
57309934 ATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
57309961 ATTATTTTGT
Statistics
Matches: 377, Mismatches: 51, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.01
27 371 0.98
28 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:57314527 original size:40 final size:40
Alignment explanation
Indices: 57314472--57314551 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
57314462 TTACGGTACT
57314472 TAGCATTTTTCCATTTGGTACAGTCGAGGTAAGTCATCCC
1 TAGCATTTTTCCATTTGGTACAGTCGAGGTAAGTCATCCC
57314512 TAGCATTTTTCCATTTGGTACAGTCGAGGTAAGTCATCCC
1 TAGCATTTTTCCATTTGGTACAGTCGAGGTAAGTCATCCC
57314552 AAGTTCGGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (40 bp):
TAGCATTTTTCCATTTGGTACAGTCGAGGTAAGTCATCCC
Found at i:57314996 original size:55 final size:55
Alignment explanation
Indices: 57314936--57315043 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 55
57314926 CGGGTGTGTG
**
57314936 ACACGCCCGTGCCTTGA-AACCATGGGCAAAACTGTCAAATTAACACGAGCGTGCA
1 ACACGCCCGTGCC-AAACAACCATGGGCAAAACTGTCAAATTAACACGAGCGTGCA
* * * * * *
57314991 ACACGCTCGTGCCAAACAACCATGGTCGAACCTGTTAGATTAACACGAGCGTG
1 ACACGCCCGTGCCAAACAACCATGGGCAAAACTGTCAAATTAACACGAGCGTG
57315044 GGAGAAGCGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 1 0.02
55 43 0.98
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (55 bp):
ACACGCCCGTGCCAAACAACCATGGGCAAAACTGTCAAATTAACACGAGCGTGCA
Found at i:57325011 original size:6 final size:6
Alignment explanation
Indices: 57325002--57325075 Score: 105
Period size: 6 Copynumber: 12.2 Consensus size: 6
57324992 ATCTTTATGC
*
57325002 TTATTT TTATTT TTATTT TTATTT TTATCT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
57325050 TTATGT TTATTT TGT-TTT TATATTT T
1 TTATTT TTATTT T-TATTT T-TATTT T
57325076 GAACTTTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
6 56 0.92
7 5 0.08
ACGTcount: A:0.16, C:0.01, G:0.03, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:57325022 original size:24 final size:24
Alignment explanation
Indices: 57324990--57325062 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
57324980 TTGAGTCCAT
**
57324990 TTATCTTTATGCTTATTTTTATTT
1 TTATCTTTATTTTTATTTTTATTT
* *
57325014 TTATTTTTATTTTTATCTTTATTT
1 TTATCTTTATTTTTATTTTTATTT
* *
57325038 TTATTTTTATTTTTATGTTTATTT
1 TTATCTTTATTTTTATTTTTATTT
57325062 T
1 T
57325063 GTTTTTATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (24 bp):
TTATCTTTATTTTTATTTTTATTT
Found at i:57325068 original size:18 final size:18
Alignment explanation
Indices: 57324989--57325062 Score: 103
Period size: 18 Copynumber: 4.1 Consensus size: 18
57324979 ATTGAGTCCA
* *
57324989 TTTATCTTTATGCTTATT
1 TTTATTTTTATGTTTATT
*
57325007 TTTATTTTTATTTTTATT
1 TTTATTTTTATGTTTATT
* *
57325025 TTTATCTTTATTTTTATT
1 TTTATTTTTATGTTTATT
57325043 TTTATTTTTATGTTTATT
1 TTTATTTTTATGTTTATT
57325061 TT
1 TT
57325063 GTTTTTATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTATTTTTATGTTTATT
Found at i:57352658 original size:38 final size:38
Alignment explanation
Indices: 57352615--57352834 Score: 332
Period size: 38 Copynumber: 5.8 Consensus size: 38
57352605 AAAGGCCCAA
* * *
57352615 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCAGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
57352653 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
57352691 ATATATTATCAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
57352729 ATATAATACCAGTACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
57352767 ATATAATACCATCACGAAGCCTGTGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
57352805 ACATATTACCAGCACGAAGCCTGCGGGATT
1 ATATAATACCAGCACGAAGCCTGCGGGATT
57352835 CATACACAAC
Statistics
Matches: 164, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 164 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:57357832 original size:38 final size:38
Alignment explanation
Indices: 57357780--57358012 Score: 313
Period size: 38 Copynumber: 6.1 Consensus size: 38
57357770 AAAGGCCCAA
* * *
57357780 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
* * *
57357818 ATATATTACTAGCACGAAGCCTGCGAGATTTAACCCTG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
* * *
57357856 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
* * * * *
57357894 ACATATTACCAGCATGAAGCCTGCGAGATTTAATCCAG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
*
57357932 ATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
* *
57357970 ATATAATACCAGCACGAAGCCTGCGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
57358008 ATATA
1 ATATA
57358013 CATCAAATAT
Statistics
Matches: 168, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 168 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
Found at i:57357986 original size:114 final size:114
Alignment explanation
Indices: 57357798--57358003 Score: 358
Period size: 114 Copynumber: 1.8 Consensus size: 114
57357788 CCAGCACTAG
* * * *
57357798 GCCTGCGGGATTTAACCCGGATATATTACTAGCACGAAGCCTGCGAGATTTAACCCTGATATAAT
1 GCCTGCGAGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAAT
*
57357863 ACCAGCACGAAGCCTGTGGGATTTAACCTGGACATATTACCAGCATGAA
66 ACCAGCACGAAGCCTGCGGGATTTAACCTGGACATATTACCAGCATGAA
*
57357912 GCCTGCGAGATTTAATCCAGATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAAT
1 GCCTGCGAGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAAT
57357977 ACCAGCACGAAGCCTGCGGGATTTAAC
66 ACCAGCACGAAGCCTGCGGGATTTAAC
57358004 TCGGATATAC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 86 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (114 bp):
GCCTGCGAGATTTAACCCAGATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAAT
ACCAGCACGAAGCCTGCGGGATTTAACCTGGACATATTACCAGCATGAA
Found at i:57360988 original size:16 final size:16
Alignment explanation
Indices: 57360967--57361000 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
57360957 GTCAAGTGGT
*
57360967 TTTGGAAAATGAGGTA
1 TTTGGAAAATAAGGTA
57360983 TTTGGAAAATAAGGTA
1 TTTGGAAAATAAGGTA
57360999 TT
1 TT
57361001 GGGACCTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (16 bp):
TTTGGAAAATAAGGTA
Found at i:57362183 original size:6 final size:6
Alignment explanation
Indices: 57362162--57362277 Score: 69
Period size: 6 Copynumber: 18.8 Consensus size: 6
57362152 TATTAGAACT
* * *
57362162 AGAATC AAAATG AGAATC AGAATC -GAAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAAT--C AGAATC AGAATC
* * * *
57362211 AGAATC AGAATT AGGTAA-C AGAATT AGAATC ATAATC AGTATC AGGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
57362261 AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAAT
57362278 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
5 6 0.07
6 64 0.77
7 9 0.11
8 4 0.05
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:57362212 original size:31 final size:31
Alignment explanation
Indices: 57362174--57362277 Score: 138
Period size: 31 Copynumber: 3.4 Consensus size: 31
57362164 AATCAAAATG
*
57362174 AGAATCAGAATC-GAAATCAGGTGACAGAATC
1 AGAATCAGAATCAG-AATCAGGTAACAGAATC
* *
57362205 AGAATCAGAATCAGAATTAGGTAACAGAATT
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
57362236 AGAATCATAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
57362267 AAAATCAGAAT
1 AGAATCAGAAT
57362278 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 62 0.98
32 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:57362444 original size:27 final size:26
Alignment explanation
Indices: 57362396--57362455 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
57362386 GCAAGGCTGC
*
57362396 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
57362423 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
57362449 TAGATAT
1 CAGATAT
57362456 ATATATGGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:57362810 original size:27 final size:27
Alignment explanation
Indices: 57362780--57363296 Score: 727
Period size: 27 Copynumber: 19.2 Consensus size: 27
57362770 AACACCCTAG
* *
57362780 GGGTAAAATGGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57362807 GGGTAAAA-CGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
*
57362834 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
57362861 -GGTAAAACATTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
57362887 GGGTAAAATGGTAATTTTGTCAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57362914 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57362941 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57362968 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57362995 GGGTAAAATAGTAATTCTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57363022 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57363049 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57363076 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57363103 GGGTAAAA-AGGTAATTTTGTAAATCGA
1 GGGTAAAATA-GTAATTTTGTAAATCGA
*
57363130 GGGTAAAATAGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57363157 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** *
57363184 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57363211 GGGTAAAA-AGGTAATTTTGTAAATCGA
1 GGGTAAAATA-GTAATTTTGTAAATCGA
* *
57363238 GGGTAAAATAGTAATTCTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57363265 GGGTAAAATAGTAATTTTATAATTCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57363292 GGGTA
1 GGGTA
57363297 CTTTGATAAT
Statistics
Matches: 442, Mismatches: 41, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
26 25 0.06
27 414 0.94
28 3 0.01
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:57363332 original size:54 final size:53
Alignment explanation
Indices: 57363274--57363442 Score: 159
Period size: 54 Copynumber: 3.2 Consensus size: 53
57363264 AGGGTAAAAT
* *
57363274 AGTAATTTTATAATTCGAGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTC
1 AGTAATTTTATAATT-GAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTC
* * *
57363328 AGTAATTTCGCA-AACTT-AGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTG
1 AGTAATTT--TATAA-TTGAGGGTACTTT-GGTAATTTTACAAATCGAGGGTATTTC
* * * *
57363382 GGTAATTTTATAAACTG-GAGGTACTTTGGTAATTTTACAACT-GGGGGTATTTC
1 AGTAATTTTAT-AATTGAG-GGTACTTTGGTAATTTTACAAATCGAGGGTATTTC
57363435 AGTAATTT
1 AGTAATTT
57363443 GGTAAACTAA
Statistics
Matches: 93, Mismatches: 13, Indels: 19
0.74 0.10 0.15
Matches are distributed among these distances:
52 1 0.01
53 20 0.22
54 64 0.69
55 5 0.05
56 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
AGTAATTTTATAATTGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTC
Found at i:57363333 original size:27 final size:27
Alignment explanation
Indices: 57363274--57363442 Score: 123
Period size: 27 Copynumber: 6.3 Consensus size: 27
57363264 AGGGTAAAAT
* * *
57363274 AGTAATTTTATAATTCGAGGGTACTTTG
1 AGTAATTTTACAACTCGAGGGTA-TTTC
*
57363302 A-TAATTTTACAAGTCGAGGGTATTTC
1 AGTAATTTTACAACTCGAGGGTATTTC
** *
57363328 AGTAATTTCGCAAACT-TAGGGTATTTC
1 AGTAATTTTAC-AACTCGAGGGTATTTC
* * * *
57363355 GGTAATTTTACAAATCGAGGATATTTG
1 AGTAATTTTACAACTCGAGGGTATTTC
* * *
57363382 GGTAATTTTATAAACTGGA-GGTACTTT-
1 AGTAATTTTA-CAACTCGAGGGTA-TTTC
* *
57363409 GGTAATTTTACAACT-GGGGGTATTTC
1 AGTAATTTTACAACTCGAGGGTATTTC
57363435 AGTAATTT
1 AGTAATTT
57363443 GGTAAACTAA
Statistics
Matches: 113, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
25 4 0.04
26 22 0.19
27 75 0.66
28 12 0.11
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGTAATTTTACAACTCGAGGGTATTTC
Found at i:57370560 original size:41 final size:41
Alignment explanation
Indices: 57370503--57370585 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
57370493 CAATGGATGC
*
57370503 ATAAAAAGTGATTAGAAAAGA-TGATGATGCGTTTTTAGCTT
1 ATAAAAAGTGATTAGAAAAGATTG-TGATGCATTTTTAGCTT
57370544 ATAAAAAGTGATTAGAAAAGATTGTGATGCATTTTTAGCTT
1 ATAAAAAGTGATTAGAAAAGATTGTGATGCATTTTTAGCTT
57370585 A
1 A
57370586 CATTCTGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 38 0.95
42 2 0.05
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (41 bp):
ATAAAAAGTGATTAGAAAAGATTGTGATGCATTTTTAGCTT
Found at i:57373304 original size:33 final size:34
Alignment explanation
Indices: 57373261--57373332 Score: 128
Period size: 33 Copynumber: 2.1 Consensus size: 34
57373251 AAGTTCTAGA
*
57373261 CTAAGACTCGAAACGTAAAATGACAATTAAAAAC
1 CTAAGACTCGAAACGTAAAATGAAAATTAAAAAC
57373295 CTAAG-CTCGAAACGTAAAATGAAAATTAAAAAC
1 CTAAGACTCGAAACGTAAAATGAAAATTAAAAAC
57373328 CTAAG
1 CTAAG
57373333 GCGAAGCCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 32 0.86
34 5 0.14
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.18
Consensus pattern (34 bp):
CTAAGACTCGAAACGTAAAATGAAAATTAAAAAC
Found at i:57374561 original size:21 final size:20
Alignment explanation
Indices: 57374535--57374606 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 20
57374525 ATCTTTCAGC
57374535 CATGATCTTACTCGTCTTTAT
1 CATGATCTTACTC-TCTTTAT
* *
57374556 CATGATGCCATAGCATCT-TTTAGC
1 CATGAT--CTTA-C-TCTCTTTA-T
57374580 CATGATCTTACTCATCTTTAT
1 CATGATCTTACTC-TCTTTAT
57374601 CATGAT
1 CATGAT
57374607 GCCATAGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
20 2 0.05
21 14 0.35
22 7 0.17
23 7 0.17
24 8 0.20
25 2 0.05
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (20 bp):
CATGATCTTACTCTCTTTAT
Found at i:57374572 original size:45 final size:45
Alignment explanation
Indices: 57374511--57374643 Score: 205
Period size: 45 Copynumber: 3.0 Consensus size: 45
57374501 GTCCCATTAC
* * *
57374511 CATGATGTCATGGCATCTTTCAGCCATGATCTTACTCGTCTTTAT
1 CATGATGCCATAGCATCTTTCAGCCATGATCTTACTCATCTTTAT
*
57374556 CATGATGCCATAGCATCTTTTAGCCATGATCTTACTCATCTTTAT
1 CATGATGCCATAGCATCTTTCAGCCATGATCTTACTCATCTTTAT
* *
57374601 CATGATGCCATAGCATCTTTCAGCTATGTTCTTACTCAT-TTTA
1 CATGATGCCATAGCATCTTTCAGCCATGATCTTACTCATCTTTA
57374644 AGCGTATAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 4 0.05
45 77 0.95
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.41
Consensus pattern (45 bp):
CATGATGCCATAGCATCTTTCAGCCATGATCTTACTCATCTTTAT
Found at i:57374595 original size:23 final size:23
Alignment explanation
Indices: 57374524--57374598 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
57374514 GATGTCATGG
*
57374524 CATCTTTCAGCCATGATCTTACT
1 CATCTTTTAGCCATGATCTTACT
* * * *
57374547 CGTC-TTTA-TCATGATGCCATA-G
1 CATCTTTTAGCCATGAT--CTTACT
57374569 CATCTTTTAGCCATGATCTTACT
1 CATCTTTTAGCCATGATCTTACT
57374592 CATCTTT
1 CATCTTT
57374599 ATCATGATGC
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
21 6 0.16
22 9 0.24
23 17 0.45
24 6 0.16
ACGTcount: A:0.21, C:0.27, G:0.11, T:0.41
Consensus pattern (23 bp):
CATCTTTTAGCCATGATCTTACT
Found at i:57374617 original size:22 final size:22
Alignment explanation
Indices: 57374549--57374620 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 22
57374539 ATCTTACTCG
57374549 TCTTTATCATGATGCCATAGCA
1 TCTTTATCATGATGCCATAGCA
* * *
57374571 TCTTTTAGCCATGAT--CTTACTCA
1 TC-TTTA-TCATGATGCCATA-GCA
57374594 TCTTTATCATGATGCCATAGCA
1 TCTTTATCATGATGCCATAGCA
57374616 TCTTT
1 TCTTT
57374621 CAGCTATGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
21 6 0.15
22 16 0.41
23 11 0.28
24 6 0.15
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (22 bp):
TCTTTATCATGATGCCATAGCA
Found at i:57389306 original size:71 final size:67
Alignment explanation
Indices: 57389165--57389306 Score: 160
Period size: 67 Copynumber: 2.1 Consensus size: 67
57389155 GAGGTATTGT
* * * * *
57389165 TCTGGCATCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCATCACAA
1 TCTGGCAGCCTCACTGCAATATGGTGGCCTCGCCACATATATCTATTCTGGTGACCTCACCACAA
57389230 TA
66 TA
* * *
57389232 TCTGGCAGCCTCCCTGCAATATGGTGGCTTCGCCACATATATATATCTATTCTGGTGGCCT-AGC
1 TCTGGCAGCCTCACTGCAATATGGTGGCCTCGCCAC----ATATATCTATTCTGGTGACCTCA-C
57389296 CACAATA
61 CACAATA
57389303 TCTG
1 TCTG
57389307 TATCTGGTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
67 32 0.52
70 1 0.02
71 29 0.47
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCACTGCAATATGGTGGCCTCGCCACATATATCTATTCTGGTGACCTCACCACAA
TA
Found at i:57396356 original size:73 final size:67
Alignment explanation
Indices: 57396214--57396357 Score: 164
Period size: 67 Copynumber: 2.1 Consensus size: 67
57396204 GAGGAAGCAT
* * * *
57396214 TCTGGCAGCGTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTTACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTTACCTAGCCACAA
57396279 TA
66 TA
* *
57396281 TCTGGCAGCCTCGCTTCAATCTGGTGGCTTCGCCACACATATATATATCTGTTCTGG-TAGCCTA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCG-C-CAC----ATATATCTGTTCTGGTTA-CCTA
57396345 GCCACAATA
59 GCCACAATA
57396354 TCTG
1 TCTG
57396358 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
67 29 0.45
68 1 0.02
69 3 0.05
72 2 0.03
73 29 0.45
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTTACCTAGCCACAA
TA
Found at i:57400520 original size:40 final size:40
Alignment explanation
Indices: 57400476--57400569 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
57400466 TATATTCAGA
57400476 ACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAAT-A-GC
1 ACTAAGTGTGCGATTTGAAATAGCTTCGGCTAT--ATGAGGC
* * *
57400516 ACTAAGTGTGCGAATTGGAATAGCTTTGGCTATATGAGGC
1 ACTAAGTGTGCGATTTGAAATAGCTTCGGCTATATGAGGC
57400556 ACTAAGTGTGCGAT
1 ACTAAGTGTGCGAT
57400570 ACTGAGATAG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 45 0.94
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (40 bp):
ACTAAGTGTGCGATTTGAAATAGCTTCGGCTATATGAGGC
Found at i:57404195 original size:25 final size:23
Alignment explanation
Indices: 57404140--57404199 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
57404130 TATAGCTCGA
57404140 TCGAGCAATCCTGTTATAAGCCTC
1 TCGAGC-ATCCTGTTATAAGCCTC
* **
57404164 TCAAGCATCCTGTTATATAGTTTC
1 TCGAGCATCCTGTTATA-AGCCTC
57404188 TGCGAGCATCCT
1 T-CGAGCATCCT
57404200 AATCGGTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 11 0.37
24 10 0.33
25 9 0.30
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (23 bp):
TCGAGCATCCTGTTATAAGCCTC
Found at i:57405413 original size:27 final size:27
Alignment explanation
Indices: 57405378--57405444 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
57405368 AGCATGGCTG
*
57405378 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGACAGAGCCA
* *
57405404 CTAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGACAGAGCCA
57405432 CCAGAACAGATAA
1 CCAGAACAGATAA
57405445 CACCAGATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.11
27 16 0.46
28 15 0.43
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGACAGAGCCA
Found at i:57405914 original size:16 final size:15
Alignment explanation
Indices: 57405893--57405923 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
57405883 CAAAATATCA
57405893 GCTTTTCGGCATTTTG
1 GCTTTTCGGC-TTTTG
57405909 GCTTTTCGGCTTTTG
1 GCTTTTCGGCTTTTG
57405924 CCGATCTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.03, C:0.19, G:0.26, T:0.52
Consensus pattern (15 bp):
GCTTTTCGGCTTTTG
Found at i:57406762 original size:37 final size:38
Alignment explanation
Indices: 57406690--57406762 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 38
57406680 TTCAGCTATG
57406690 GAGAAAAGAAGAGGAGAAAGTAGATGGAAAGAAAAAGAA
1 GAGAAAAGAAGAGGAGAAAG-AGATGGAAAGAAAAAGAA
* * **
57406729 GAGAAGAGAAGAGGAGGAAG-GATGGTCAGAAAAA
1 GAGAAAAGAAGAGGAGAAAGAGATGGAAAGAAAAA
57406763 CGGCACAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 12 0.40
39 18 0.60
ACGTcount: A:0.56, C:0.01, G:0.37, T:0.05
Consensus pattern (38 bp):
GAGAAAAGAAGAGGAGAAAGAGATGGAAAGAAAAAGAA
Found at i:57409215 original size:18 final size:18
Alignment explanation
Indices: 57409194--57409228 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57409184 AAATAGTAAG
* *
57409194 CTTTCAATTGGCAGTATA
1 CTTTCAAATGGAAGTATA
57409212 CTTTCAAATGGAAGTAT
1 CTTTCAAATGGAAGTAT
57409229 GCTTATGTTC
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:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (18 bp):
CTTTCAAATGGAAGTATA
Found at i:57411595 original size:21 final size:21
Alignment explanation
Indices: 57411571--57411623 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
57411561 GTTTTTGATA
* *
57411571 AGGAAGTTGCTACTGCAGGAG
1 AGGAAGTTGCTACTGAAGAAG
* *
57411592 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGCTACTGAAGAAG
*
57411613 AAGAAGTTGCT
1 AGGAAGTTGCT
57411624 GAAAATAAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.09, G:0.36, T:0.23
Consensus pattern (21 bp):
AGGAAGTTGCTACTGAAGAAG
Found at i:57414877 original size:47 final size:47
Alignment explanation
Indices: 57414810--57415048 Score: 363
Period size: 47 Copynumber: 5.0 Consensus size: 47
57414800 TTATCACAGT
* *
57414810 TATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATA
1 TATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCATATA
* *
57414857 TATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATA
*
57414904 CATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATA
* *
57414953 CATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCATATA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATA
* *
57415000 TATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATA
57415047 TA
1 TA
57415049 CATATCTTGT
Statistics
Matches: 177, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 130 0.73
48 2 0.01
49 45 0.25
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATA
Found at i:57414995 original size:96 final size:96
Alignment explanation
Indices: 57414811--57415052 Score: 382
Period size: 96 Copynumber: 2.5 Consensus size: 96
57414801 TATCACAGTT
* * * * *
57414811 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTAT--CATATATATATACTTTCACATT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATT
57414873 CATCACATTGGCCATTCGGCCTTATCACATAC
65 CATCACATTGGCCATTCGGCCTTATCACATAC
57414905 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATTC
* *
57414970 ATCACATTGGCCATTCGGCCTTATCATATAT
66 ATCACATTGGCCATTCGGCCTTATCACATAC
*
57415001 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATA
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATA
57415053 TCTTGTACAT
Statistics
Matches: 137, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
94 35 0.26
95 2 0.01
96 100 0.73
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (96 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACCTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:57419264 original size:21 final size:21
Alignment explanation
Indices: 57419228--57419270 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
57419218 TCCTTTTCTA
*
57419228 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGTCAAAACAATT
57419249 AAGTTAAAAGGT-AAAACAATT
1 AAGTTAAAA-GTCAAAACAATT
57419270 A
1 A
57419271 TATTGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (21 bp):
AAGTTAAAAGTCAAAACAATT
Found at i:57432548 original size:20 final size:19
Alignment explanation
Indices: 57432510--57432549 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
57432500 CATCAATGGA
* *
57432510 AACTTTCAAAATCTTTAAC
1 AACTTTCAAAATATGTAAC
57432529 AACTTTGCAAAATATGTAAC
1 AACTTT-CAAAATATGTAAC
57432549 A
1 A
57432550 CCCCTTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (19 bp):
AACTTTCAAAATATGTAAC
Found at i:57434282 original size:37 final size:36
Alignment explanation
Indices: 57434193--57434318 Score: 147
Period size: 33 Copynumber: 3.6 Consensus size: 36
57434183 AGTCATACCT
* *
57434193 GGATTACCAGTCCAGGCTAAATCCAGTCGA-T-T-A
1 GGATTACCAGTCCAGGCTAAATCTAGTCAATTATGA
* *
57434226 GGATTACTAGTCTAGGCTAAATCTAGTCAATTATGA
1 GGATTACCAGTCCAGGCTAAATCTAGTCAATTATGA
*
57434262 TGGATTACCAGTCCAAGCTAAATCTAGTCAATTA-GA
1 -GGATTACCAGTCCAGGCTAAATCTAGTCAATTATGA
*
57434298 --ATTACTAGTCCAGGCTAAATC
1 GGATTACCAGTCCAGGCTAAATC
57434319 CGAATTGAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
33 45 0.56
34 1 0.01
35 1 0.01
36 3 0.04
37 30 0.38
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (36 bp):
GGATTACCAGTCCAGGCTAAATCTAGTCAATTATGA
Found at i:57446263 original size:40 final size:40
Alignment explanation
Indices: 57446162--57446382 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
57446152 TATTCGAATG
* * * *
57446162 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
57446203 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
57446243 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
57446283 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
57446323 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
57446362 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
57446383 ATACTTGGGT
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 15 0.10
40 96 0.63
41 27 0.18
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:57451623 original size:29 final size:29
Alignment explanation
Indices: 57451541--57451610 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
57451531 GTCATTTGGG
* *
57451541 TTATC-AGACACTAGGTGTCGATGTTTATT
1 TTATCAAG-CACTATGTGTCGATGTTTATA
*
57451570 TTATCAAGCACTATGTGTCGGTGTTTATA
1 TTATCAAGCACTATGTGTCGATGTTTATA
57451599 TTATCAAGCACT
1 TTATCAAGCACT
57451611 TTGTACTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (29 bp):
TTATCAAGCACTATGTGTCGATGTTTATA
Found at i:57458531 original size:47 final size:47
Alignment explanation
Indices: 57458477--57458940 Score: 469
Period size: 47 Copynumber: 9.5 Consensus size: 47
57458467 TATTTGAATA
*
57458477 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57458524 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
57458573 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * **
57458620 AATGTGAAAGTGATGAATGTGAAAGTGTATATATGTG-ATAA-GGCCTAATG-GCCG
1 AATGTGAAAGTG-T--ATAT--ATGTG-ATA-A-G-GCCTAATGGCC-GATGTGATG
* *
57458674 -ATGTGATGAA-TGTGA-A-A-GTGTATATATGTG-ATAAGGCCTAATAGCCGATGTGATG
1 AATGTGA--AAGTGT-ATATATGTG-ATA-A-G-GCCTAATG-------GCCGATGTGATG
57458729 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57458776 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
57458823 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
57458870 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
57458917 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
57458941 GAGTCCCGAA
Statistics
Matches: 363, Mismatches: 25, Indels: 58
0.81 0.06 0.13
Matches are distributed among these distances:
47 243 0.67
48 3 0.01
49 46 0.13
50 3 0.01
52 5 0.01
53 11 0.03
54 19 0.05
55 19 0.05
56 11 0.03
57 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:57458642 original size:62 final size:62
Alignment explanation
Indices: 57458567--57458693 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 62
57458557 AATGGCCGAT
57458567 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
*
57458629 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
57458691 GTG
1 GTG
57458694 TATATATGTG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.34, C:0.06, G:0.31, T:0.29
Consensus pattern (62 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
Found at i:57458657 original size:16 final size:15
Alignment explanation
Indices: 57458614--57458646 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
57458604 AATAGCCGAT
57458614 GTGATGAATGTGAAA
1 GTGATGAATGTGAAA
57458629 GTGATGAATGTGAAA
1 GTGATGAATGTGAAA
57458644 GTG
1 GTG
57458647 TATATATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.27
Consensus pattern (15 bp):
GTGATGAATGTGAAA
Found at i:57458687 original size:31 final size:31
Alignment explanation
Indices: 57458590--57458688 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
57458580 AAGTGTATAT
*
57458590 ATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
57458621 ATGTGA-AAGTG-ATGAATGTG--AAAGTGTAT-A
1 ATGTGATAAG-GCCT-AATG-GCCGATGTG-ATGA
57458651 TATGTGATAAGGCCTAATGGCCGATGTGATGA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGA
57458683 ATGTGA
1 ATGTGA
57458689 AAGTGTATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 20
0.65 0.09 0.26
Matches are distributed among these distances:
30 10 0.20
31 31 0.61
32 10 0.20
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:57458711 original size:109 final size:110
Alignment explanation
Indices: 57458518--57458740 Score: 430
Period size: 109 Copynumber: 2.0 Consensus size: 110
57458508 AATGGCTGAT
57458518 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
57458583 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
65 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
57458629 GTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
57458693 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
66 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
57458738 GTG
1 GTG
57458741 TATATATGTG
Statistics
Matches: 112, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
109 94 0.84
111 18 0.16
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.30
Consensus pattern (110 bp):
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
Found at i:57458738 original size:94 final size:94
Alignment explanation
Indices: 57458629--57458940 Score: 543
Period size: 94 Copynumber: 3.3 Consensus size: 94
57458619 GAATGTGAAA
57458629 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
57458694 TATATATGTGATAAGGCCTAATAGCCGAT
66 TATATATGTGATAAGGCCTAATGGCCGAT
57458723 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
57458788 TATATATGTGATAAGGCCTAATGGCCGAT
66 TATATATGTGATAAGGCCTAATGGCCGAT
57458817 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
57458882 TATATATGTGACAGGGCCGAGTGGCCAAC
66 TATATATGTGATAAGGCCTAATGGCCGAT
* *
57458911 GTGATGGATGTGAAAGTGTATAAATGTGAT
1 GTGATGAATGTGAAAGTGTATATATGTGAT
57458941 GAGTCCCGAA
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 209 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCGAT
Found at i:57458796 original size:141 final size:141
Alignment explanation
Indices: 57458629--57458940 Score: 543
Period size: 141 Copynumber: 2.2 Consensus size: 141
57458619 GAATGTGAAA
57458629 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
57458694 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
66 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCC
* * *
57458759 TAATGGCCGAT
131 GAATGGCCAAC
57458770 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
57458835 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
66 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCC
*
57458900 GAGTGGCCAAC
131 GAATGGCCAAC
* *
57458911 GTGATGGATGTGAAAGTGTATAAATGTGAT
1 GTGATGAATGTGAAAGTGTATATATGTGAT
57458941 GAGTCCCGAA
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 162 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCC
GAATGGCCAAC
Found at i:57461385 original size:28 final size:28
Alignment explanation
Indices: 57461353--57461444 Score: 132
Period size: 28 Copynumber: 3.3 Consensus size: 28
57461343 TGTACTAGAG
*
57461353 TACCCCTATGTATGCAAGATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
57461381 TACCCCTATGTATACAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
* *
57461409 TACCCTTATGTATGCAAAATGACC-TCTA
1 TACCCCTATGTATGCAAAATTACCAT-TA
57461437 TACCCCTA
1 TACCCCTA
57461445 GGGTTAATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 1 0.02
28 56 0.98
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:57461608 original size:27 final size:28
Alignment explanation
Indices: 57461550--57461639 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
57461540 AGGAAGCGTC
*
57461550 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
57461578 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
57461605 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
57461634 CTGGTG
1 CTGGTG
57461640 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:57461650 original size:29 final size:28
Alignment explanation
Indices: 57461560--57461650 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
57461550 CTGGTGGCTA
* * *
57461560 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
57461588 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
57461615 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
57461644 TGTCACA
1 TGCCACA
57461651 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:57461658 original size:55 final size:56
Alignment explanation
Indices: 57461550--57461664 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
57461540 AGGAAGCGTC
* * *
57461550 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
57461605 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
57461661 CTGG
1 CTGG
57461665 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:57469304 original size:28 final size:28
Alignment explanation
Indices: 57469264--57469327 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
57469254 TGTACTAGAG
*
57469264 TACCCCTATGTATGCAAAATTACCAT-TA
1 TACCCCTATGTATGCAAAATGACC-TCTA
57469292 TACCCCTATGTATGCAAAATGACCTCTA
1 TACCCCTATGTATGCAAAATGACCTCTA
57469320 TACCCCTA
1 TACCCCTA
57469328 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCTCTA
Found at i:57469474 original size:28 final size:27
Alignment explanation
Indices: 57469433--57469522 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
57469423 AGGAAGCGTC
57469433 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* ** *
57469461 CTGGTGGCCCTGCCACGTAGATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
57469488 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
57469517 CTGGTG
1 CTGGTG
57469523 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:57469541 original size:55 final size:56
Alignment explanation
Indices: 57469433--57469547 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
57469423 AGGAAGCGTC
* * *
57469433 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTAGATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATAGATCTGTAT
* * **
57469488 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATAGATCTGTAT
57469544 CTGG
1 CTGG
57469548 CAGCCATACT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATAGATCTGTAT
Found at i:57470010 original size:19 final size:19
Alignment explanation
Indices: 57469986--57470022 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57469976 GCTTAATTAT
*
57469986 TTTTATGGTTTTATTTTAC
1 TTTTATGATTTTATTTTAC
*
57470005 TTTTATTATTTTATTTTA
1 TTTTATGATTTTATTTTA
57470023 TTATGATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:57470021 original size:13 final size:14
Alignment explanation
Indices: 57469996--57470026 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
57469986 TTTTATGGTT
57469996 TTATTTTACTTTTA
1 TTATTTTACTTTTA
57470010 TTATTTTA-TTTTA
1 TTATTTTACTTTTA
57470023 TTAT
1 TTAT
57470027 GATGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTACTTTTA
Found at i:57471923 original size:38 final size:38
Alignment explanation
Indices: 57471881--57471956 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
57471871 ATAAAAGTGT
57471881 GATATGACAAAGTTAATAATGCTTGAACATGAAATTGG
1 GATATGACAAAGTTAATAATGCTTGAACATGAAATTGG
57471919 GATATGACAAAGTTAATAATGCTTGAACATGAAATTGG
1 GATATGACAAAGTTAATAATGCTTGAACATGAAATTGG
57471957 TGTGGAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (38 bp):
GATATGACAAAGTTAATAATGCTTGAACATGAAATTGG
Found at i:57476015 original size:32 final size:32
Alignment explanation
Indices: 57475974--57476038 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
57475964 GTAATAATAG
57475974 ACAAAAATTCAAAACTTAATCACAATTTTTTA
1 ACAAAAATTCAAAACTTAATCACAATTTTTTA
57476006 ACAAAAATTCAAAACTTAATCACAATTTTTTA
1 ACAAAAATTCAAAACTTAATCACAATTTTTTA
57476038 A
1 A
57476039 GCCCTAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (32 bp):
ACAAAAATTCAAAACTTAATCACAATTTTTTA
Found at i:57486610 original size:6 final size:6
Alignment explanation
Indices: 57486592--57486660 Score: 79
Period size: 6 Copynumber: 11.3 Consensus size: 6
57486582 AAGAAACATT
* *
57486592 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
57486641 ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
57486661 TAGGTGACAG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
5 2 0.04
6 47 0.87
7 4 0.07
8 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:57486635 original size:37 final size:36
Alignment explanation
Indices: 57486594--57486685 Score: 139
Period size: 37 Copynumber: 2.5 Consensus size: 36
57486584 GAAACATTAT
57486594 CAGAACTAGAATCAGAATCAGAATCAAAATCAGGTGA
1 CAGAA-TAGAATCAGAATCAGAATCAAAATCAGGTGA
* *
57486631 CAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAAT-AGAATCAGAATCAGAATCAAAATCAGGTGA
57486668 CAGAATACGAATCAGAAT
1 CAGAATA-GAATCAGAAT
57486686 TAGGTGACAG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 2 0.04
37 49 0.96
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (36 bp):
CAGAATAGAATCAGAATCAGAATCAAAATCAGGTGA
Found at i:57486671 original size:25 final size:25
Alignment explanation
Indices: 57486643--57486710 Score: 111
Period size: 25 Copynumber: 2.7 Consensus size: 25
57486633 GAATCAGAAT
57486643 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTGA
57486668 CAGAAT-ACGAATCAGAATTAGGTGA
1 CAGAATCA-GAATCAGAATTAGGTGA
*
57486693 CAGAATCAGAACCAGAAT
1 CAGAATCAGAATCAGAAT
57486711 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTGA
Found at i:57487445 original size:27 final size:27
Alignment explanation
Indices: 57487104--57487432 Score: 424
Period size: 27 Copynumber: 12.2 Consensus size: 27
57487094 AACACCCTAG
* *
57487104 GGGTAAAATGATAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
57487131 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*** * * *
57487158 GGGTAAAACAATAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
57487185 GGGTAAAATGGTAATTCTATAGATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** *
57487212 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
57487239 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
57487266 GGGTAAAATGATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
57487293 GGGTAAAACGGTAATTCTATAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
57487320 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
57487347 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
57487374 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
57487401 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
57487428 GGGTA
1 GGGTA
57487433 CTTTGGTAAT
Statistics
Matches: 266, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 266 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:57487468 original size:81 final size:79
Alignment explanation
Indices: 57487104--57487472 Score: 382
Period size: 81 Copynumber: 4.5 Consensus size: 79
57487094 AACACCCTAG
* * * **
57487104 GGGTAAAATGATAATTTTATAAATCGAGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAACA
1 GGGTAAAATGGTAA-TTT-TAAATCGAGGGTAAATCAG-TAATTTTGTAAATCGAGGGTAAAATG
* * * *
57487168 ATAATTCTATAAATTGA
63 GTAATTTTGTAAATCGA
* * *
57487185 GGGTAAAATGGTAATTCTATAGATCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATGG
1 GGGTAAAATGGTAATT-T-TAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAATGG
57487250 TAATTTTGTAAATCGA
64 TAATTTTGTAAATCGA
* * * * * *
57487266 GGGTAAAATGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGG
1 GGGTAAAATGGTAA-TTT-TAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAATGG
*
57487331 TAATTTTATAAATCGA
64 TAATTTTGTAAATCGA
*
57487347 GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT-AGTAATTTTGTAAATCGAGGGTAAAATG
1 GGGTAAAATGGTAATT-T-TAAATCGAGGGT-AAATCAGTAATTTTGTAAATCGAGGGTAAAATG
57487411 GTAATTTTGTAAATCGA
63 GTAATTTTGTAAATCGA
*** * **
57487428 GGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAGTAATTTT
1 GGGTAAAATGGTAATTTTA-AA-TCGAGGGTAAATCAGTAATTTT
57487473 ACAATCGACG
Statistics
Matches: 246, Mismatches: 34, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
79 2 0.01
80 9 0.04
81 229 0.93
82 6 0.02
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (79 bp):
GGGTAAAATGGTAATTTTAAATCGAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAATGGTA
ATTTTGTAAATCGA
Found at i:57487492 original size:26 final size:27
Alignment explanation
Indices: 57487438--57487497 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
57487428 GGGTACTTTG
* *
57487438 GTAATTTTACAAGTTGAGGGTATTTCA
1 GTAATTTTACAAGTCGACGGTATTTCA
57487465 GTAATTTTACAA-TCGACGGTATTTCA
1 GTAATTTTACAAGTCGACGGTATTTCA
57487491 GTAATTT
1 GTAATTT
57487498 GATATTTGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAGTCGACGGTATTTCA
Found at i:57490492 original size:18 final size:18
Alignment explanation
Indices: 57490464--57490517 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
57490454 TGGCCCATTG
*
57490464 CAGTAACAGTAAACAGTA
1 CAGTAATAGTAAACAGTA
*
57490482 CAGTAGTAGTAAACAGTA
1 CAGTAATAGTAAACAGTA
57490500 CAGTAATAGTAAACAGTA
1 CAGTAATAGTAAACAGTA
57490518 TGCAAGTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (18 bp):
CAGTAATAGTAAACAGTA
Found at i:57490857 original size:27 final size:26
Alignment explanation
Indices: 57490812--57490994 Score: 147
Period size: 27 Copynumber: 6.8 Consensus size: 26
57490802 TCTTACCACA
*
57490812 AAGGGCAAAACAATT-ATTTTACCATAT
1 AAGGGCAAAA-TATTCATTTTACC-TAT
57490839 AAGGGCAAAATATTCATTTTACCTCAT
1 AAGGGCAAAATATTCATTTTACCT-AT
*
57490866 AAGTGCGAAACA-ATT-ATTTTACCTTAT
1 AAGGGC-AAA-ATATTCATTTTACC-TAT
* * *
57490893 ATGGGCAAAACAATCATTTTACCCTAT
1 AAGGGCAAAATATTCATTTTA-CCTAT
* * *
57490920 AAAGGCAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAATATTCATTTTACCT-AT
* * *
57490947 AAGGGAAAAATAGTCATTTTACCCCAT
1 AAGGGCAAAATATTCATTTTA-CCTAT
* *
57490974 AAGGGAAAAATAATCATTTTA
1 AAGGGCAAAATATTCATTTTA
57490995 ACAATTTGGG
Statistics
Matches: 133, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.01
26 12 0.09
27 108 0.81
28 11 0.08
29 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (26 bp):
AAGGGCAAAATATTCATTTTACCTAT
Found at i:57490966 original size:81 final size:81
Alignment explanation
Indices: 57490804--57490994 Score: 228
Period size: 81 Copynumber: 2.4 Consensus size: 81
57490794 AACAGTCATC
* * * * *
57490804 TTACCACA-AAGGGCAAAACAATTATTTTACCATATAAGGGCAAAATATTCATTTTACCTCATAA
1 TTACCCCATAAGGGCAAAACAATCATTTTACCATATAAAGGCAAAACAGTCATTTTACCTCATAA
57490868 GTGCGAAACAATTATT
66 GTGCGAAACAATTATT
** * *
57490884 TTACCTTATATGGGCAAAACAATCATTTTACCCTATAAAGGCAAAACAGTCATTTTACCTCATAA
1 TTACCCCATAAGGGCAAAACAATCATTTTACCATATAAAGGCAAAACAGTCATTTTACCTCATAA
57490949 G-G-GAAA-AATAGTCATT
66 GTGCGAAACAAT--T-ATT
* *
57490965 TTACCCCATAAGGGAAAAATAATCATTTTA
1 TTACCCCATAAGGGCAAAACAATCATTTTA
57490995 ACAATTTGGG
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 4 0.04
80 8 0.09
81 79 0.84
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.30
Consensus pattern (81 bp):
TTACCCCATAAGGGCAAAACAATCATTTTACCATATAAAGGCAAAACAGTCATTTTACCTCATAA
GTGCGAAACAATTATT
Found at i:57490991 original size:54 final size:53
Alignment explanation
Indices: 57490787--57490994 Score: 211
Period size: 54 Copynumber: 3.9 Consensus size: 53
57490777 TACACCACAT
* * * *
57490787 AGGGTAAAACAGTCATCTTACCACA-AAGGGCAAAACAATTATTTTACCATATA
1 AGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACC-TATA
* * * * * *
57490840 AGGGCAAAATATTCATTTTACCTCATAAGTGCGAAACAATTATTTTACCTTATA
1 AGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACC-TATA
* * * * *
57490894 TGGGCAAAACAATCATTTTACCCTATAAAGGCAAAACAGTCATTTTACCTCATA
1 AGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCT-ATA
* * * *
57490948 AGGGAAAAATAGTCATTTTACCCCATAAGGGAAAAATAATCATTTTA
1 AGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTA
57490995 ACAATTTGGG
Statistics
Matches: 126, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 21 0.17
54 105 0.83
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (53 bp):
AGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCTATA
Found at i:57494351 original size:18 final size:18
Alignment explanation
Indices: 57494325--57494361 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
57494315 CTTGGCCCAT
57494325 TGCACTAACAGTAAACAG
1 TGCACTAACAGTAAACAG
*
57494343 TGCAGTAACAGTAAACAG
1 TGCACTAACAGTAAACAG
57494361 T
1 T
57494362 ATGCAAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (18 bp):
TGCACTAACAGTAAACAG
Found at i:57494725 original size:27 final size:26
Alignment explanation
Indices: 57494695--57494913 Score: 163
Period size: 27 Copynumber: 8.1 Consensus size: 26
57494685 AACAGTTATC
*
57494695 TTACCATAAACGGGCAAAAAAATCATT
1 TTACCATAAA-GGGCAAAACAATCATT
* * * * *
57494722 TTACCACATAGGGGTAAAATAGTCATT
1 TTACCATA-AAGGGCAAAACAATCATT
*
57494749 TTACCATAAAAGGGCAAAAAAATCATT
1 TTACCAT-AAAGGGCAAAACAATCATT
* * * *
57494776 TTACCACATAGGGGTAAAACAATCATC
1 TTACCATA-AAGGGCAAAACAATCATT
* *
57494803 TTACCATAAAAAGGCAAAACGATCATT
1 TTACCAT-AAAGGGCAAAACAATCATT
* *
57494830 TTACCCCATAAA-GGCAAAACGACCATT
1 TTA--CCATAAAGGGCAAAACAATCATT
* *
57494857 TTACCTTATAAGGGCAAAACAGTCATT
1 TTACCATA-AAGGGCAAAACAATCATT
* *
57494884 TTACACCAT-AAGGGAAAAACAGTCATT
1 TT--ACCATAAAGGGCAAAACAATCATT
57494911 TTA
1 TTA
57494914 ACAATTTAAG
Statistics
Matches: 154, Mismatches: 28, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
25 5 0.03
26 3 0.02
27 132 0.86
28 6 0.04
29 8 0.05
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.24
Consensus pattern (26 bp):
TTACCATAAAGGGCAAAACAATCATT
Found at i:57494911 original size:54 final size:54
Alignment explanation
Indices: 57494672--57494913 Score: 256
Period size: 54 Copynumber: 4.5 Consensus size: 54
57494662 AAACATATAT
* * *
57494672 CACAT-AGTGGTAAAACAGTTATCTTACCATAAACGGGCAAAAAAATCATTTTAC
1 CACATAAG-GGTAAAACAGTCATTTTACCATAAAAGGGCAAAAAAATCATTTTAC
* *
57494726 CACATAGGGGTAAAATAGTCATTTTACCATAAAAGGGCAAAAAAATCATTTTAC
1 CACATAAGGGTAAAACAGTCATTTTACCATAAAAGGGCAAAAAAATCATTTTAC
* * * * **
57494780 CACATAGGGGTAAAACAATCATCTTACCATAAAAAGGCAAAACGATCATTTTAC
1 CACATAAGGGTAAAACAGTCATTTTACCATAAAAGGGCAAAAAAATCATTTTAC
* * * * * * * *
57494834 CCCATAAAGGCAAAAC-GACCATTTTACCTTATAAGGGCAAAACAGTCATTTTA-
1 CACATAAGGGTAAAACAG-TCATTTTACCATAAAAGGGCAAAAAAATCATTTTAC
*
57494887 CACCATAAGGGAAAAACAGTCATTTTA
1 CA-CATAAGGGTAAAACAGTCATTTTA
57494914 ACAATTTAAG
Statistics
Matches: 157, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 154 0.98
55 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (54 bp):
CACATAAGGGTAAAACAGTCATTTTACCATAAAAGGGCAAAAAAATCATTTTAC
Found at i:57497399 original size:44 final size:45
Alignment explanation
Indices: 57497335--57497423 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 45
57497325 CACTAGGAAT
* * *
57497335 TAAGACATCTGAACTTATTGAGTTGGT-CGAGTTCAT-GATATATG
1 TAAGAAATCCGAACTTATTGAGTTGGTCCAAGTTCATAG-TATATG
*
57497379 TAAGAAATCCGAAGTTATTGAGTTGGTCCAAGTTCATAGTATATG
1 TAAGAAATCCGAACTTATTGAGTTGGTCCAAGTTCATAGTATATG
57497424 CGAAGCATCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
44 24 0.62
45 14 0.36
46 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.35
Consensus pattern (45 bp):
TAAGAAATCCGAACTTATTGAGTTGGTCCAAGTTCATAGTATATG
Found at i:57501820 original size:22 final size:22
Alignment explanation
Indices: 57501792--57501837 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
57501782 TTTTGAGTAA
57501792 AGGACAGATAGTCTGAATGAAG
1 AGGACAGATAGTCTGAATGAAG
57501814 AGGACAGATAGTCTGAATGAAG
1 AGGACAGATAGTCTGAATGAAG
57501836 AG
1 AG
57501838 TTTATATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.33, T:0.17
Consensus pattern (22 bp):
AGGACAGATAGTCTGAATGAAG
Found at i:57504144 original size:45 final size:45
Alignment explanation
Indices: 57504080--57504202 Score: 160
Period size: 45 Copynumber: 2.7 Consensus size: 45
57504070 CTAGGAATTA
*
57504080 AGAAATCCGAACTTGTTGAGTTGGTCCGAGTTCGT-GATATATGTG
1 AGAAATCCGAACTTGTTGAGTTGGTCCAAGTTCGTAG-TATATGTG
*
57504125 AGAAATCTGAACTTGTTGAGTTGGTCCAAGTTCGTAGTATATGTG
1 AGAAATCCGAACTTGTTGAGTTGGTCCAAGTTCGTAGTATATGTG
* * * *
57504170 A-AGCATCCGAGCTCGTTGAGTTGGTCGAAGTTC
1 AGA-AATCCGAACTTGTTGAGTTGGTCCAAGTTC
57504203 ATTATGGATG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.01
45 67 0.97
46 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (45 bp):
AGAAATCCGAACTTGTTGAGTTGGTCCAAGTTCGTAGTATATGTG
Found at i:57522547 original size:18 final size:18
Alignment explanation
Indices: 57522524--57522561 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
57522514 AGGCTTGGAT
*
57522524 AATAAGGAAATTTGATAA
1 AATAAGGAAATTCGATAA
57522542 AATAAGGAAATTCGATAA
1 AATAAGGAAATTCGATAA
57522560 AA
1 AA
57522562 ATCAACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.16, T:0.24
Consensus pattern (18 bp):
AATAAGGAAATTCGATAA
Found at i:57528572 original size:61 final size:62
Alignment explanation
Indices: 57528474--57528606 Score: 196
Period size: 61 Copynumber: 2.2 Consensus size: 62
57528464 GTGACAACAC
* * * *
57528474 GGCCGTGTGAACAACAAAAGCCAGGTCGTGCGTGAGACACGGTCGAGTGATGGCCAGAGTGT
1 GGCCGTGTGAACAACAAAAGCCAGGTCGTGCGCGAGACACAGCCGAGTGATAGCCAGAGTGT
* * *
57528536 GGCCGTGTGAACAA-AAAGGCCAGGTCGTGCGCGAGACATAGCCGTGTGATAGCCAGAGTGT
1 GGCCGTGTGAACAACAAAAGCCAGGTCGTGCGCGAGACACAGCCGAGTGATAGCCAGAGTGT
57528597 GGCCGTGTGA
1 GGCCGTGTGA
57528607 GCCACACGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
61 50 0.78
62 14 0.22
ACGTcount: A:0.25, C:0.21, G:0.38, T:0.17
Consensus pattern (62 bp):
GGCCGTGTGAACAACAAAAGCCAGGTCGTGCGCGAGACACAGCCGAGTGATAGCCAGAGTGT
Found at i:57531207 original size:19 final size:20
Alignment explanation
Indices: 57531183--57531220 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
57531173 GGTACCACCA
57531183 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
57531202 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
57531221 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:57531559 original size:93 final size:92
Alignment explanation
Indices: 57531450--57531619 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
57531440 GCCCCTAAGT
* *
57531450 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
57531515 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * *
57531542 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
57531607 CGAGTTCGGATGC
65 CGAGTTCGGATGC
57531620 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 6 0.08
93 66 0.92
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57531616 original size:46 final size:46
Alignment explanation
Indices: 57531445--57531616 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
57531435 AACCCGCCCC
* * * *
57531445 TAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
57531490 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
57531538 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
57531583 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57531617 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 12 0.11
46 49 0.46
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:57538784 original size:19 final size:20
Alignment explanation
Indices: 57538760--57538797 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
57538750 GGTACCACCA
57538760 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
57538779 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
57538798 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:57539136 original size:93 final size:93
Alignment explanation
Indices: 57539027--57539195 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
57539017 GCCCCTAAGT
* *
57539027 GAACTCGAACTCAACTCAACGAGGTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGGTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
57539092 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
57539120 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGGTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
57539185 CGAGTTCGGAT
66 CGAGTTCGGAT
57539196 CCTCAACCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGGTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57539185 original size:46 final size:46
Alignment explanation
Indices: 57539022--57539194 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
57539012 AACCCGCCCC
* * * * *
57539022 TAAGTGAACTCGAACTCAACTCAACGAGGTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
57539068 TAAATGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
57539116 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
57539161 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57539195 TCCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:57539213 original size:46 final size:45
Alignment explanation
Indices: 57539020--57539213 Score: 146
Period size: 46 Copynumber: 4.2 Consensus size: 45
57539010 GTAACCCGCC
* * * * **
57539020 CCTAAGTGAACTCGAACTCAACTCAACGAGGTCGG-GCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATC-CTAACAT
* *
57539065 CCATAAATGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT-CCTA---ACAT
* * * **
57539115 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATC-CTAACAT
57539158 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATCCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATCCT-AA-CAT
57539206 CCT-AGTGA
1 CCTAAGTGA
57539214 CATGTCACTT
Statistics
Matches: 117, Mismatches: 19, Indels: 25
0.73 0.12 0.16
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 5 0.04
46 65 0.56
47 31 0.26
48 8 0.07
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATCCTAACAT
Found at i:57542138 original size:64 final size:64
Alignment explanation
Indices: 57542057--57542240 Score: 174
Period size: 67 Copynumber: 2.8 Consensus size: 64
57542047 AGACATTATG
* *
57542057 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGCTACGAGATAA
* * * * * * * *
57542121 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAAAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAAACAAGAGAGCTACGAGAT
57542186 AA
63 AA
* * * * **
57542188 ACTGT--CTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGC
57542241 CGAACTATAT
Statistics
Matches: 94, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
63 18 0.19
64 21 0.22
65 8 0.09
66 15 0.16
67 29 0.31
68 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGCTACGAGATAA
Found at i:57545046 original size:31 final size:30
Alignment explanation
Indices: 57545005--57545067 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
57544995 ACTTATTTTA
*
57545005 TTGTTATTTTTGTTATTATTTTAAAGGCAT
1 TTGTTATTTTTGTTATTATTTTAAAGACAT
* *
57545035 TTGTTAATTTTTTTTATTATTTTAGAGACAT
1 TTGTT-ATTTTTGTTATTATTTTAAAGACAT
57545066 TT
1 TT
57545068 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.62
Consensus pattern (30 bp):
TTGTTATTTTTGTTATTATTTTAAAGACAT
Found at i:57545174 original size:18 final size:18
Alignment explanation
Indices: 57545151--57545190 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
57545141 GAAATATTTA
*
57545151 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
57545169 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
57545187 TTTT
1 TTTT
57545191 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:57545222 original size:12 final size:12
Alignment explanation
Indices: 57545192--57545224 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
57545182 TATATTTTTT
57545192 AAAATT-ATATA
1 AAAATTAATATA
57545203 AAAA-TAATATA
1 AAAATTAATATA
57545214 AAAATTAATAT
1 AAAATTAATAT
57545225 GGGTGGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:57548738 original size:62 final size:62
Alignment explanation
Indices: 57548641--57548926 Score: 371
Period size: 62 Copynumber: 4.6 Consensus size: 62
57548631 GTGCGGGGTT
* *
57548641 CACACGGCCAAGGACACGGGCGTATGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAAC
1 CACACGGCCAAGGACACGGGCATGTGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAAC
* *
57548703 CACACGGCCAGGGACACAGGCATGTGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAA-
1 CACACGGCCAAGGACACGGGCATGTGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAAC
* * *
57548764 C-CATGGCCAAGGACACGGGCATGTTCCC-GGTCCGTGTAACTCACTGTTTGTGCTTAAAAAC
1 CACACGGCCAAGGACACGGGCATGTGCCCAGG-CCATGTAACTCACTGTTTGTGCTTAAAAAC
* * ** * * * *
57548825 CACATGGCTAAGGACACAAGCTTGTGCCCAGGTCACGTAACTCACTATTTGTGCTTAAAAAC
1 CACACGGCCAAGGACACGGGCATGTGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAAC
* * *
57548887 CACACTGCCAAGGCACACGGGCGTGTGCCAAGGCCATGTA
1 CACACGGCCAAGG-ACACGGGCATGTGCCCAGGCCATGTA
57548927 GTAGGATATT
Statistics
Matches: 192, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
59 2 0.01
60 51 0.27
61 2 0.01
62 115 0.60
63 22 0.11
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (62 bp):
CACACGGCCAAGGACACGGGCATGTGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAAC
Found at i:57548822 original size:122 final size:122
Alignment explanation
Indices: 57548646--57548926 Score: 368
Period size: 122 Copynumber: 2.3 Consensus size: 122
57548636 GGGTTCACAC
*
57548646 GGCCAAGGACACGGGCGTATGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAACCACACGGC
1 GGCCAAGGACACGGGCATATGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAACCACACGGC
* * * *
57548711 CAGGGACACAGGCATGTGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAACCAT
66 CAAGGACACAAGCATGTGCCCAGGCCACGTAACTCACTATTTGTGCTTAAAAACCAT
* * * *
57548768 GGCCAAGGACACGGGCATGTTCCC-GGTCCGTGTAACTCACTGTTTGTGCTTAAAAACCACATGG
1 GGCCAAGGACACGGGCATATGCCCAGG-CCATGTAACTCACTGTTTGTGCTTAAAAACCACACGG
* * *
57548832 CTAAGGACACAAGCTTGTGCCCAGGTCACGTAACTCACTATTTGTGCTTAAAAACCACACT
65 CCAAGGACACAAGCATGTGCCCAGGCCACGTAACTCACTATTTGTGCTTAAAAA-C-CA-T
* * *
57548893 -GCCAAGGCACACGGGCGTGTGCCAAGGCCATGTA
1 GGCCAAGG-ACACGGGCATATGCCCAGGCCATGTA
57548927 GTAGGATATT
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
121 2 0.01
122 103 0.75
123 1 0.01
124 9 0.07
125 20 0.15
126 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.21
Consensus pattern (122 bp):
GGCCAAGGACACGGGCATATGCCCAGGCCATGTAACTCACTGTTTGTGCTTAAAAACCACACGGC
CAAGGACACAAGCATGTGCCCAGGCCACGTAACTCACTATTTGTGCTTAAAAACCAT
Found at i:57550827 original size:46 final size:46
Alignment explanation
Indices: 57550756--57550864 Score: 132
Period size: 46 Copynumber: 2.3 Consensus size: 46
57550746 GCGTCGATGC
* *
57550756 CATGTCCCAGATATAGTCTTACACTGAC-TATCATCTC-ATAGCCGACG
1 CATGTCCCAGACAT-GTCTTACACTGACTTA-CATCTCGAGA-CCGACG
* *
57550803 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGACCGATG
1 CATGTCCCAGACATGTCTTACACTGACTTACATCTCGAGACCGACG
*
57550849 CATGTCCAAGACATGT
1 CATGTCCCAGACATGT
57550865 ATTGCACTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
46 38 0.69
47 17 0.31
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTTACATCTCGAGACCGACG
Found at i:57553333 original size:52 final size:53
Alignment explanation
Indices: 57553259--57553362 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 53
57553249 ATAAACTACG
* * * * *
57553259 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAG-GATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTC
* *
57553311 ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTT
57553363 TAAAAAGGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 30 0.68
53 14 0.32
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTC
Found at i:57563290 original size:257 final size:257
Alignment explanation
Indices: 57562829--57563321 Score: 734
Period size: 257 Copynumber: 1.9 Consensus size: 257
57562819 AAAAATGTTA
* * * * * * *
57562829 AAACATTAGGGAACGATCGAGCCTTCGACACTGACCTAGTAAGTATTTTTGTTCTGTTGTAAATA
1 AAACATTAGGGAACGACCAAGCCTCCAACACTGACCCAGTAAGTATTTTTCTTCTGTTGTAAAGA
* *
57562894 TTATGATACCTAACTGTTATTCGTAGATTGCTTGGTGTGAACTAGTGAAACCGTTTGCTAGATGT
66 TTATGATACCTAACTGTTATTCGTAGATTACTTGGTGTGAACTAGTGAAACCGTTTGCTAGATAT
* * * *
57562959 GTGAACTGATCTGTGTACTCTGAAATTGTAGCTAGATTGCAATATGAGTTCGCATGGTAGTCTTG
131 GTGAACTGATCTGTGTACTCTGAAATTATAGCTAGATTGCAATATAAGTTCACATGGTAGTCATG
* * * * * *
57563024 GATGAGGTATGCGGGGGCTTCGAAGATGCTGGAGAGGAGCTCGAACTAATATAGAAACACTG
196 GACGAGGTATGCGGAGGCGTCGAAGACGCCGGAAAGGAGCTCGAACTAATATAGAAACACTG
* *
57563086 AAACATTAGGGAACGACCAAGCCTCCAACGCTGACCCAGTAAGTATTTTTCTTTTGTTGTAAAGA
1 AAACATTAGGGAACGACCAAGCCTCCAACACTGACCCAGTAAGTATTTTTCTTCTGTTGTAAAGA
* * * *
57563151 TTATGGTACCTAACTGTTATTGGTAGATTACTTGGTGTGAACTGGTGAAACCGTTTGCTGGATAT
66 TTATGATACCTAACTGTTATTCGTAGATTACTTGGTGTGAACTAGTGAAACCGTTTGCTAGATAT
* *
57563216 GTGAACTGATCTGTGTACTTTGAAATTATAGCTAGATTGCAATATAAGTTCACATTGTAGTCATG
131 GTGAACTGATCTGTGTACTCTGAAATTATAGCTAGATTGCAATATAAGTTCACATGGTAGTCATG
*
57563281 GACGAGGTATGCGGAGGCGTCGAGGACGCCGGAAAGGAGCT
196 GACGAGGTATGCGGAGGCGTCGAAGACGCCGGAAAGGAGCT
57563322 TGAGCCAAGT
Statistics
Matches: 208, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
257 208 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (257 bp):
AAACATTAGGGAACGACCAAGCCTCCAACACTGACCCAGTAAGTATTTTTCTTCTGTTGTAAAGA
TTATGATACCTAACTGTTATTCGTAGATTACTTGGTGTGAACTAGTGAAACCGTTTGCTAGATAT
GTGAACTGATCTGTGTACTCTGAAATTATAGCTAGATTGCAATATAAGTTCACATGGTAGTCATG
GACGAGGTATGCGGAGGCGTCGAAGACGCCGGAAAGGAGCTCGAACTAATATAGAAACACTG
Found at i:57565655 original size:40 final size:40
Alignment explanation
Indices: 57565576--57565767 Score: 237
Period size: 40 Copynumber: 4.8 Consensus size: 40
57565566 TATTACCACA
* * * *
57565576 AGCACAATTGCCTTCGGGTCTTAACCCAGG--CATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCC-GGATCAAATC-ACT
* * *
57565616 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATC-ACT
* *
57565656 CGCACAAATGCCTTCGGGTCTTAGACCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
*
57565696 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
*
57565736 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATC
57565768 TCATTCAAAT
Statistics
Matches: 138, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.01
40 132 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
Found at i:57572391 original size:261 final size:261
Alignment explanation
Indices: 57571921--57572441 Score: 961
Period size: 261 Copynumber: 2.0 Consensus size: 261
57571911 TAAGTAATCT
57571921 TTATTAATTTTCTGTAAGTTTTGGTTTCGTTGAATGTTGATGTCAAATTTTTCGACGTAGGTACT
1 TTATTAATTTTCTGTAAGTTTTGGTTTCGTTGAATGTTGATGTCAAATTTTTCGACGTAGGTACT
57571986 TTGAGTATAATTGTGCATTGCTGTTGATAAACTTGATTGATTGAGTTATTGAATGATCGTTTTAG
66 TTGAGTATAATTGTGCATTGCTGTTGATAAACTTGATTGATTGAGTTATTGAATGATCGTTTTAG
*
57572051 GCTTTAGAACTTCTATTCATTATCACTACTTTGAAATCGTTATAGGTGCGTATCAAAAACCTTAG
131 GCTTCAGAACTTCTATTCATTATCACTACTTTGAAATCGTTATAGGTGCGTATCAAAAACCTTAG
* *
57572116 ATTTTGCAAGTTTTGTTGTCGAAAATAGTGGTTGTCAACCTCATATGGCCAGGCGCCGTGTGAAC
196 ATTTTGCAAGTTTTGTTGTCAAAAATAGTGGTTGTCAACCTCATATGGCCAAGCGCCGTGTGAAC
57572181 A
261 A
* *
57572182 TTATTGATTTTCTGTAAGTTTTGGTTTCGTTGAATGTTGATGTCGAATTTTTCGACGTAGGTACT
1 TTATTAATTTTCTGTAAGTTTTGGTTTCGTTGAATGTTGATGTCAAATTTTTCGACGTAGGTACT
*
57572247 TTGAGTATAATTGTGCATTGTTGTTGATAAACTTGATTGATTGAGTTATTGAATGATCGTTTTAG
66 TTGAGTATAATTGTGCATTGCTGTTGATAAACTTGATTGATTGAGTTATTGAATGATCGTTTTAG
*
57572312 GCTTCAGAACTTCTATTCATTATCACTACTTTGAAATCGTTATAGGTGCGTATCGAAAACCTTAG
131 GCTTCAGAACTTCTATTCATTATCACTACTTTGAAATCGTTATAGGTGCGTATCAAAAACCTTAG
* *
57572377 ATTTTGCAAGTTTTGTTGTCAAAAATAGTGGTTGTCAACCTCATATGGCCAAGTGCTGTGTGAAC
196 ATTTTGCAAGTTTTGTTGTCAAAAATAGTGGTTGTCAACCTCATATGGCCAAGCGCCGTGTGAAC
57572442 GGCCATGTAA
Statistics
Matches: 251, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
261 251 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (261 bp):
TTATTAATTTTCTGTAAGTTTTGGTTTCGTTGAATGTTGATGTCAAATTTTTCGACGTAGGTACT
TTGAGTATAATTGTGCATTGCTGTTGATAAACTTGATTGATTGAGTTATTGAATGATCGTTTTAG
GCTTCAGAACTTCTATTCATTATCACTACTTTGAAATCGTTATAGGTGCGTATCAAAAACCTTAG
ATTTTGCAAGTTTTGTTGTCAAAAATAGTGGTTGTCAACCTCATATGGCCAAGCGCCGTGTGAAC
A
Found at i:57578892 original size:18 final size:17
Alignment explanation
Indices: 57578865--57578903 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
57578855 TTTCTCTACT
*
57578865 TTTTGATTTTCTTCACAC
1 TTTTGATTTT-TGCACAC
*
57578883 TTTTGGTTTTTGCACAC
1 TTTTGATTTTTGCACAC
57578900 TTTT
1 TTTT
57578904 TTCTGTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.13, C:0.18, G:0.10, T:0.59
Consensus pattern (17 bp):
TTTTGATTTTTGCACAC
Found at i:57578904 original size:18 final size:19
Alignment explanation
Indices: 57578862--57578904 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
57578852 TATTTTCTCT
*
57578862 ACTTTTTGATTTTCTTCAC
1 ACTTTTTGATTTTCTGCAC
*
57578881 AC-TTTTGGTTTT-TGCAC
1 ACTTTTTGATTTTCTGCAC
57578898 ACTTTTT
1 ACTTTTT
57578905 TCTGTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.14, C:0.19, G:0.09, T:0.58
Consensus pattern (19 bp):
ACTTTTTGATTTTCTGCAC
Found at i:57582063 original size:29 final size:29
Alignment explanation
Indices: 57582002--57582057 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
57581992 TTTAAAAGAT
*
57582002 GATTGATTTCCAAAATAAAAGAAGTTACA
1 GATTGATTTCCAAAATAAAAGAAGTCACA
57582031 GATTGATTTCCAAAATAAAAGAAGTCA
1 GATTGATTTCCAAAATAAAAGAAGTCA
57582058 TGGATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (29 bp):
GATTGATTTCCAAAATAAAAGAAGTCACA
Found at i:57590592 original size:46 final size:45
Alignment explanation
Indices: 57590525--57590699 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
57590515 TGTAACCCGC
*
57590525 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTAGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* *
57590571 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGCAT
* *** * * * *
57590617 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTGGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* *
57590664 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
57590700 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.65
47 34 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:57590664 original size:93 final size:93
Alignment explanation
Indices: 57590533--57590703 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
57590523 GCCCATAAGT
* * * *
57590533 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTAGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
57590598 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
57590626 GAACTCGGACTCAACTCAACGAGTTCAGACATTGGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
*
57590691 CGAGTTCGGATGC
66 CGAGCTCGGATGC
57590704 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:57592666 original size:18 final size:18
Alignment explanation
Indices: 57592623--57592671 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
57592613 TTCTCTTTTT
*
57592623 AAATAAAAAC-AAATAAA
1 AAATAAAAACAAAACAAA
* *
57592640 ATATTAAAACAAAACAAA
1 AAATAAAAACAAAACAAA
*
57592658 AAATAAAAATAAAA
1 AAATAAAAACAAAA
57592672 ACCAATTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (18 bp):
AAATAAAAACAAAACAAA
Found at i:57604245 original size:27 final size:28
Alignment explanation
Indices: 57604161--57604256 Score: 124
Period size: 27 Copynumber: 3.4 Consensus size: 28
57604151 CATGAGATTG
* * *
57604161 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
57604190 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57604218 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57604245 GCACTGAGTGTG
1 GCACTAAGTGTG
57604257 TGGACTTAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.35
28 21 0.34
29 19 0.31
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57604271 original size:29 final size:27
Alignment explanation
Indices: 57604189--57604273 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 27
57604179 TAAATTGTTC
* *
57604189 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
57604217 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
* *
57604244 AGCACTGAGTGTGTGGACTTAATATATAT
1 AGCACTAAGTGTG-CGACTTAAT-TATAT
57604273 A
1 A
57604274 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.44
28 22 0.44
29 6 0.12
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:57607866 original size:7 final size:7
Alignment explanation
Indices: 57607856--57607881 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57607846 TTACTATATC
57607856 ATATAAT
1 ATATAAT
57607863 ATATAAT
1 ATATAAT
57607870 ATATAAT
1 ATATAAT
57607877 ATATA
1 ATATA
57607882 TTAATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:57612947 original size:23 final size:24
Alignment explanation
Indices: 57612911--57612955 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
57612901 CAAAAATTGA
57612911 TTCAATATAGAAAGAAAAAATAAT
1 TTCAATATAGAAAGAAAAAATAAT
* *
57612935 TTCAATA-ATAAAGAGAAAATA
1 TTCAATATAGAAAGAAAAAATA
57612956 TTTTGCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.24
Consensus pattern (24 bp):
TTCAATATAGAAAGAAAAAATAAT
Found at i:57613116 original size:21 final size:21
Alignment explanation
Indices: 57613092--57613132 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
57613082 ATTCTATTGG
57613092 AATTTTGGGAAGGACAAAGAT
1 AATTTTGGGAAGGACAAAGAT
57613113 AATTTTGGGAAGGACAAAGA
1 AATTTTGGGAAGGACAAAGA
57613133 GATGAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.29, T:0.22
Consensus pattern (21 bp):
AATTTTGGGAAGGACAAAGAT
Found at i:57615489 original size:17 final size:17
Alignment explanation
Indices: 57615467--57615501 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
57615457 ATCTAATGTG
*
57615467 TTTGTGTTGTATTGGAT
1 TTTGTGTTGTAATGGAT
*
57615484 TTTGTGTTTTAATGGAT
1 TTTGTGTTGTAATGGAT
57615501 T
1 T
57615502 GATGAGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.26, T:0.60
Consensus pattern (17 bp):
TTTGTGTTGTAATGGAT
Found at i:57616828 original size:4 final size:4
Alignment explanation
Indices: 57616819--57616845 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
57616809 GAATGTTATT
57616819 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
57616846 GTTTTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:57618216 original size:22 final size:22
Alignment explanation
Indices: 57618183--57618230 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
57618173 TGGGAAACTA
57618183 CATCTGATTCTGATCTATTCTT
1 CATCTGATTCTGATCTATTCTT
* *
57618205 CATCT-ATATCTGATTTTTTCTT
1 CATCTGAT-TCTGATCTATTCTT
57618227 CATC
1 CATC
57618231 GTATTTGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (22 bp):
CATCTGATTCTGATCTATTCTT
Found at i:57619737 original size:25 final size:24
Alignment explanation
Indices: 57619702--57619757 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
57619692 CATCTCAACC
57619702 CTTTTCATCTCTTCACTT-CTCTTTCA
1 CTTTTC-TCTCTTCA-TTGCTC-TTCA
57619728 CTTTTCTCTCTTCATTGCTCTTCA
1 CTTTTCTCTCTTCATTGCTCTTCA
57619752 -TTTTCT
1 CTTTTCT
57619758 TCCCCATTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.21
24 6 0.21
25 11 0.38
26 6 0.21
ACGTcount: A:0.09, C:0.32, G:0.02, T:0.57
Consensus pattern (24 bp):
CTTTTCTCTCTTCATTGCTCTTCA
Found at i:57620580 original size:58 final size:58
Alignment explanation
Indices: 57620490--57620605 Score: 187
Period size: 58 Copynumber: 2.0 Consensus size: 58
57620480 ACAAAGAGAT
*
57620490 ATAGTCAAGAGATAAATGGATTTTCGAAGCTAAGTAAATTCATAAGCTAGCAAATTAC
1 ATAGTCAAGAGATAAAAGGATTTTCGAAGCTAAGTAAATTCATAAGCTAGCAAATTAC
* * * *
57620548 ATAGTCAAGAGATAAAAGGATTTTTGGAGCTAAGTATATTCATAAGTTAGCAAATTAC
1 ATAGTCAAGAGATAAAAGGATTTTCGAAGCTAAGTAAATTCATAAGCTAGCAAATTAC
57620606 CGTGTTGTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.29
Consensus pattern (58 bp):
ATAGTCAAGAGATAAAAGGATTTTCGAAGCTAAGTAAATTCATAAGCTAGCAAATTAC
Found at i:57621506 original size:54 final size:54
Alignment explanation
Indices: 57621424--57621531 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
57621414 GCAGAAAGAT
57621424 TCCTCATAAAGTATTTCCTACCTAGCAAGAATGCTAAGTTGAGTAATGATATCA
1 TCCTCATAAAGTATTTCCTACCTAGCAAGAATGCTAAGTTGAGTAATGATATCA
57621478 TCCTCATAAAGTATTTCCTACCTAGCAAGAATGCTAAGTTGAGTAATGATATCA
1 TCCTCATAAAGTATTTCCTACCTAGCAAGAATGCTAAGTTGAGTAATGATATCA
57621532 CTATTTTCCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (54 bp):
TCCTCATAAAGTATTTCCTACCTAGCAAGAATGCTAAGTTGAGTAATGATATCA
Found at i:57629837 original size:10 final size:11
Alignment explanation
Indices: 57629812--57629845 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
57629802 AAATGTTCAT
57629812 AAAAAAAGATAC
1 AAAAAAAGA-AC
57629824 AAAAAAAGAA-
1 AAAAAAAGAAC
57629834 AAAAAAAGAAC
1 AAAAAAAGAAC
57629845 A
1 A
57629846 TATGTACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 2 0.10
12 9 0.43
ACGTcount: A:0.82, C:0.06, G:0.09, T:0.03
Consensus pattern (11 bp):
AAAAAAAGAAC
Found at i:57632054 original size:27 final size:27
Alignment explanation
Indices: 57632037--57632214 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
57632027 ATATTAAGTC
57632037 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
57632064 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57632091 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *** ** *
57632119 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
57632146 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
57632173 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
57632200 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
57632215 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:57632176 original size:82 final size:81
Alignment explanation
Indices: 57632058--57632213 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57632048 TGCTATATAA
* *
57632058 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
57632123 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
57632140 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
57632204 CACTTAGTGC
65 CACTTAGTGC
57632214 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57632197 original size:54 final size:54
Alignment explanation
Indices: 57632037--57632213 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
57632027 ATATTAAGTC
* * * *
57632037 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
57632091 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
57632146 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
57632200 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57632214 TGTACAATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 45 0.43
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:57639893 original size:27 final size:27
Alignment explanation
Indices: 57639863--57640039 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
57639853 ATATTGAGTC
* * * *
57639863 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
57639890 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
57639917 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
57639944 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
57639971 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
57639998 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
57640025 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57640040 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 128 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:57640001 original size:81 final size:81
Alignment explanation
Indices: 57639884--57640038 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
57639874 TGCTATATAA
* * *
57639884 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
57639949 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
57639965 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
57640029 CACTTAGTGC
65 CACTTAGTGC
57640039 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57647967 original size:28 final size:29
Alignment explanation
Indices: 57647932--57648030 Score: 100
Period size: 28 Copynumber: 3.5 Consensus size: 29
57647922 ATAATAAGCC
*
57647932 CGCACACTTAGTGCTTA-ATAGTCGAA-CT
1 CGCACACTTAGTGCTTATATAATC-AACCT
*
57647960 CGTACACTTAGTGC-TATATAATCAACCT
1 CGCACACTTAGTGCTTATATAATCAACCT
* *
57647988 CGCACACTTAGTGC-TATACAATTTGAACCT
1 CGCACACTTAGTGCTTATATAA--TCAACCT
57648018 -GCACACTTAGTGC
1 CGCACACTTAGTGC
57648031 CAATCTCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.06
28 39 0.63
29 13 0.21
30 6 0.10
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAACCT
Found at i:57654817 original size:49 final size:51
Alignment explanation
Indices: 57654756--57654883 Score: 179
Period size: 51 Copynumber: 2.5 Consensus size: 51
57654746 ATCTGGTACG
*
57654756 CATAGTAGCCTGCACATAGTACTACACACGTGA-C-CAATTATCCGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGATACA
* * * * * *
57654805 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGATACA
57654856 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
57654884 TGCGACCTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 31 0.45
50 1 0.01
51 37 0.54
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGATACA
Done.