Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002321.1 Hibiscus syriacus cultivar Beakdansim tig00004728_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 80965
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:6419 original size:30 final size:30
Alignment explanation
Indices: 6385--6446 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
6375 AAAATATATG
*
6385 AGCCAAATATAAAAATATAAATAAGAAGTA
1 AGCCAAATATAAAAATATAAATAAGAAATA
*
6415 AGCCAATTATAAAAATATAAATAAGAAATA
1 AGCCAAATATAAAAATATAAATAAGAAATA
6445 AG
1 AG
6447 AATGGGCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.63, C:0.06, G:0.10, T:0.21
Consensus pattern (30 bp):
AGCCAAATATAAAAATATAAATAAGAAATA
Found at i:6667 original size:9 final size:9
Alignment explanation
Indices: 6653--6687 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
6643 CATAGTTTAT
6653 TATATAAAC
1 TATATAAAC
6662 TATATATGAAC
1 TATATA--AAC
6673 TATATAAAC
1 TATATAAAC
6682 TATATA
1 TATATA
6688 GTTTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 15 0.62
11 9 0.38
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (9 bp):
TATATAAAC
Found at i:6798 original size:31 final size:32
Alignment explanation
Indices: 6754--6837 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 32
6744 TATATAAACC
*
6754 ATATACACTATATAATTTATTA-ATGAACTAT
1 ATATAAACTATATAATTTATTATATGAACTAT
* **
6785 ATATAAACAATATAAAGTA-TATATGAACTAT
1 ATATAAACTATATAATTTATTATATGAACTAT
*
6816 ATATAAACTATATAGTTTATTA
1 ATATAAACTATATAATTTATTA
6838 CTATAAATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
30 2 0.05
31 39 0.91
32 2 0.05
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (32 bp):
ATATAAACTATATAATTTATTATATGAACTAT
Found at i:6808 original size:11 final size:11
Alignment explanation
Indices: 6779--6972 Score: 76
Period size: 11 Copynumber: 17.9 Consensus size: 11
6769 TTTATTAATG
6779 AACTATATATA
1 AACTATATATA
6790 AAC-A-ATATA
1 AACTATATATA
* *
6799 AAGTATATATG
1 AACTATATATA
6810 AACTATATATA
1 AACTATATATA
*
6821 AACTATATAGTT
1 AACTATATA-TA
*
6833 TA-T-TACTATA
1 AACTATA-TATA
* *
6843 AATTATGTA-A
1 AACTATATATA
6853 AACTATTTATATA
1 AACTA--TATATA
6866 AACTATATATA
1 AACTATATATA
*
6877 TAATCTAAATAGATA
1 -AA-CT--ATATATA
*
6892 AATTATATGTATA
1 AACTATA--TATA
*
6905 AATTATATATA
1 AACTATATATA
6916 TAA--ACTATATA
1 -AACTA-TATATA
6927 AAC----TATA
1 AACTATATATA
6934 AACTATATAT-
1 AACTATATATA
*
6944 AAC--TATATG
1 AACTATATATA
*
6953 AAC-AAATATA
1 AACTATATATA
6963 AACTATATAT
1 AACTATATAT
6973 TATATATAAT
Statistics
Matches: 141, Mismatches: 17, Indels: 50
0.68 0.08 0.24
Matches are distributed among these distances:
7 7 0.05
8 5 0.04
9 10 0.07
10 24 0.17
11 58 0.41
12 10 0.07
13 19 0.13
14 2 0.01
15 6 0.04
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.38
Consensus pattern (11 bp):
AACTATATATA
Found at i:6870 original size:13 final size:13
Alignment explanation
Indices: 6852--6944 Score: 96
Period size: 13 Copynumber: 6.9 Consensus size: 13
6842 AAATTATGTA
*
6852 AAACTATTTATAT
1 AAACTATATATAT
6865 AAACTATATATAT
1 AAACTATATATAT
* * *
6878 AATCTAAATAGAT
1 AAACTATATATAT
* *
6891 AAATTATATGTAT
1 AAACTATATATAT
*
6904 AAATTATATATAT
1 AAACTATATATAT
6917 AAACTATATAAACTAT
1 AAACTATAT--A-TAT
6933 AAACTATATATA
1 AAACTATATATA
6945 ACTATATGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
13 52 0.79
14 1 0.02
15 1 0.02
16 12 0.18
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (13 bp):
AAACTATATATAT
Found at i:6918 original size:26 final size:26
Alignment explanation
Indices: 6839--6925 Score: 83
Period size: 26 Copynumber: 3.5 Consensus size: 26
6829 AGTTTATTAC
* *
6839 TATAAA-T-TATGTA-AAACTATTTA
1 TATAAACTATATGTATAAATTATATA
* *
6862 TATAAACTATATATAT-AATCTAAATA
1 TATAAACTATATGTATAAAT-TATATA
* *
6888 GATAAATTATATGTATAAATTATATA
1 TATAAACTATATGTATAAATTATATA
6914 TATAAACTATAT
1 TATAAACTATAT
6926 AAACTATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
23 6 0.12
24 1 0.02
25 7 0.14
26 32 0.65
27 3 0.06
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (26 bp):
TATAAACTATATGTATAAATTATATA
Found at i:6924 original size:9 final size:9
Alignment explanation
Indices: 6912--6971 Score: 70
Period size: 9 Copynumber: 6.7 Consensus size: 9
6902 ATAAATTATA
6912 TATATAAAC
1 TATATAAAC
6921 TATATAAAC
1 TATATAAAC
6930 --TATAAAC
1 TATATAAAC
6937 TATATATAAC
1 TATATA-AAC
*
6947 TATATGAAC
1 TATATAAAC
*
6956 AAATATAAAC
1 -TATATAAAC
6966 TATATA
1 TATATA
6972 TTATATATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
7 7 0.16
9 21 0.49
10 15 0.35
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (9 bp):
TATATAAAC
Found at i:6962 original size:29 final size:27
Alignment explanation
Indices: 6910--6997 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 27
6900 GTATAAATTA
*
6910 TATATATAAACTATATAAACTATAAAC
1 TATATATAAACTATATAAAATATAAAC
6937 TATATAT-AACTATATGAACAAATATAAAC
1 TATATATAAACTATAT--A-AAATATAAAC
* * *
6966 TATATAT-TA-TATATAATATATATA-
1 TATATATAAACTATATAAAATATAAAC
6990 TATATATA
1 TATATATA
6998 TTCATTAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
24 7 0.13
25 7 0.13
26 9 0.17
27 7 0.13
28 6 0.11
29 17 0.32
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (27 bp):
TATATATAAACTATATAAAATATAAAC
Found at i:6978 original size:2 final size:2
Alignment explanation
Indices: 6966--6998 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
6956 AAATATAAAC
6966 TA TA TA T- TA TA TA TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6999 TCATTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6991 original size:13 final size:13
Alignment explanation
Indices: 6860--6998 Score: 50
Period size: 13 Copynumber: 10.9 Consensus size: 13
6850 TAAAACTATT
6860 TATATAA-ACTATA
1 TATATAATA-TATA
* *
6873 TATATAATCTAAA
1 TATATAATATATA
*
6886 TAGATAA-ATTATA
1 TATATAATA-TATA
*
6899 TGTATAA-ATTATA
1 TATATAATA-TATA
6912 TATATAAACTATATA
1 TATAT-AA-TATATA
*
6927 AACTATAA-ACTATA
1 TA-TATAATA-TATA
*
6941 TATA-ACTATATGA
1 TATATAATATAT-A
*
6954 -ACA-AATATA-A
1 TATATAATATATA
6964 -ACTAT-ATAT-TA
1 TA-TATAATATATA
6975 TATATAATATATA
1 TATATAATATATA
6988 TATAT-ATATAT
1 TATATAATATAT
6999 TCATTAATTT
Statistics
Matches: 97, Mismatches: 14, Indels: 31
0.68 0.10 0.22
Matches are distributed among these distances:
10 2 0.02
11 9 0.09
12 22 0.23
13 46 0.47
14 7 0.07
15 7 0.07
16 4 0.04
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.40
Consensus pattern (13 bp):
TATATAATATATA
Found at i:7013 original size:22 final size:22
Alignment explanation
Indices: 6986--7032 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
6976 ATATAATATA
*
6986 TATATATATATATTCATTAATTTT
1 TATAT-TATAT-TTAATTAATTTT
7010 TATATTATATTTAATTAATTTT
1 TATATTATATTTAATTAATTTT
7032 T
1 T
7033 CGATATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 5 0.23
24 5 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATTATATTTAATTAATTTT
Found at i:7302 original size:28 final size:28
Alignment explanation
Indices: 7271--7328 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
7261 GTAGAAATGG
7271 TGCCTGCTGCCTATTGTTGCCAGTTGGT
1 TGCCTGCTGCCTATTGTTGCCAGTTGGT
7299 TGCCTGCTGCCTATTGTTGCCAGTTGGT
1 TGCCTGCTGCCTATTGTTGCCAGTTGGT
7327 TG
1 TG
7329 TTGCTGATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.07, C:0.24, G:0.29, T:0.40
Consensus pattern (28 bp):
TGCCTGCTGCCTATTGTTGCCAGTTGGT
Found at i:17870 original size:182 final size:182
Alignment explanation
Indices: 17396--17972 Score: 666
Period size: 180 Copynumber: 3.2 Consensus size: 182
17386 TGACATATAG
* * * * * * * * *
17396 TGACAAATTTTGTGACTATAAGTTTTAGTAATTATGACAAGAAAAAATTATCACAAAAAATAATG
1 TGACAAATTTTGTAACTATAACTTATAATTATTGTTACTAGAAAAAATTATCACAAAAAATATTG
* * * *
17461 AGATTCAATTTTTTTGTGACAAATTTTGTTTGTAGTTATATATTTTAATTATATTGACAAAATGT
66 AGATTCAAATTTTTGGTGACAAATTATGTTTGTAGTTATATATTTTAATTATAGTGACAAAATGT
* * *
17526 ATAGTCCCAAATCTTTTCTTTCAATTTTTGGCACAAAAACAAAGTTATAGAG
131 ATAGTCACAAATCTTTTCTTCCAATTTTTGGCACAAAAACAAAGTTATAGAA
* *
17578 TGACAAATTTTGTAACTATAACTTATAATTATTGTTACT-G-AAAAATTATCACAACAAATCTTG
1 TGACAAATTTTGTAACTATAACTTATAATTATTGTTACTAGAAAAAATTATCACAAAAAATATTG
* * *
17641 AGATTCAAATATTTGGTGACAAATTATGTTTGTATTTATATATTTTAATTGTAGTGACAAAATGT
66 AGATTCAAATTTTTGGTGACAAATTATGTTTGTAGTTATATATTTTAATTATAGTGACAAAATGT
* *** *
17706 ATAGTCACAAATGTTTTAC-TCCAATTTTTGGTGTAAAAACAAAAGTTATGGAA
131 ATAGTCACAAATCTTTT-CTTCCAATTTTTGGCACAAAAAC-AAAGTTATAGAA
**
17759 TGACATGTTTTGTAACTATAACTTATAATTATTGTTA-TAGAAAAAATTATCACAAAAAATATTG
1 TGACAAATTTTGTAACTATAACTTATAATTATTGTTACTAGAAAAAATTATCACAAAAAATATTG
* * * * *
17823 AGATTTAAATTTTTGGTGAAAAATTAAGTTTGTAGTTATATATTTTAATTATAGTGA-GAAATAT
66 AGATTCAAATTTTTGGTGACAAATTATGTTTGTAGTTATATATTTTAATTATAGTGACAAAATGT
* * * * * * * * *
17887 ATTGTCATAAATATTTCCCTCAATATTTTTGGCAC-AAAAC--ATTTATATAC
131 ATAGTCACAAATCTTTTCTTCCA-ATTTTTGGCACAAAAACAAAGTTATAGAA
17937 TGACAAATTTTGTAACTATAAACTTTAATAATTATT
1 TGACAAATTTTGTAACTAT-AAC-TT-ATAATTATT
17973 ACAAATAAAA
Statistics
Matches: 334, Mismatches: 52, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
178 23 0.07
179 3 0.01
180 114 0.34
181 83 0.25
182 111 0.33
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.40
Consensus pattern (182 bp):
TGACAAATTTTGTAACTATAACTTATAATTATTGTTACTAGAAAAAATTATCACAAAAAATATTG
AGATTCAAATTTTTGGTGACAAATTATGTTTGTAGTTATATATTTTAATTATAGTGACAAAATGT
ATAGTCACAAATCTTTTCTTCCAATTTTTGGCACAAAAACAAAGTTATAGAA
Found at i:18218 original size:20 final size:20
Alignment explanation
Indices: 18193--18285 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
18183 TTTTCCGACT
18193 ATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAATATG-ACA
* *
18213 ATCGCAATGCGAGTATGACT
1 ATCGCAATGCGAATATGACA
* *
18233 ATCGCAATGCGAGTATGACT
1 ATCGCAATGCGAATATGACA
*
18253 TTCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAATATG-ACA
*
18273 ATCGCAACGCGAA
1 ATCGCAATGCGAA
18286 CTTCGACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
19 1 0.02
20 62 0.97
21 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATATGACA
Found at i:18299 original size:21 final size:21
Alignment explanation
Indices: 18273--18423 Score: 134
Period size: 21 Copynumber: 7.4 Consensus size: 21
18263 GAATATGTAA
18273 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
18294 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
18313 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * *
18334 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
18353 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * * **
18376 ATCGCAA--CAAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
18395 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
18416 ATCGCAAC
1 ATCGCAAC
18424 ACTTGGACTA
Statistics
Matches: 98, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
19 38 0.39
21 51 0.52
23 9 0.09
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:18315 original size:40 final size:40
Alignment explanation
Indices: 18271--18423 Score: 279
Period size: 40 Copynumber: 3.8 Consensus size: 40
18261 GCGAATATGT
18271 AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGA
1 AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGA
18311 AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAA
1 AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGG-A
*
18352 TAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGA
1 -AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGA
18393 AAATCGCAACGCGAACTTCGACTATCGCAAC
1 AAATCGCAACGCGAACTTCGACTATCGCAAC
18424 ACTTGGACTA
Statistics
Matches: 110, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
40 70 0.64
41 2 0.02
42 38 0.35
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGA
Found at i:18364 original size:82 final size:82
Alignment explanation
Indices: 18270--18423 Score: 299
Period size: 82 Copynumber: 1.9 Consensus size: 82
18260 TGCGAATATG
*
18270 TAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTA
1 TAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAAATCGCAACGCGAACTTCGACTA
18335 TCGCAACGAATTTGGAA
66 TCGCAACGAATTTGGAA
18352 TAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAAATCGCAACGCGAACTTCGACTA
1 TAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAAATCGCAACGCGAACTTCGACTA
18417 TCGCAAC
66 TCGCAAC
18424 ACTTGGACTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (82 bp):
TAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAAATCGCAACGCGAACTTCGACTA
TCGCAACGAATTTGGAA
Found at i:18432 original size:17 final size:17
Alignment explanation
Indices: 18407--18439 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18397 CGCAACGCGA
18407 ACTTCGACTATCGCAAC
1 ACTTCGACTATCGCAAC
*
18424 ACTTGGACTATCGCAA
1 ACTTCGACTATCGCAA
18440 TGCGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (17 bp):
ACTTCGACTATCGCAAC
Found at i:18879 original size:20 final size:20
Alignment explanation
Indices: 18854--18892 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
18844 AAAACTATTT
18854 TTAAAA-TAAAATACAAAAAG
1 TTAAAAGTAAAATA-AAAAAG
18874 TTAAAAGTTAAAATAAAAA
1 TTAAAAG-TAAAATAAAAA
18893 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
TTAAAAGTAAAATAAAAAAG
Found at i:19774 original size:2 final size:2
Alignment explanation
Indices: 19767--19805 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19757 TTGATTTAGA
19767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19806 AAATAAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20948 original size:12 final size:11
Alignment explanation
Indices: 20927--20990 Score: 65
Period size: 12 Copynumber: 5.4 Consensus size: 11
20917 TCTAATCTAA
20927 TATTATTTATT
1 TATTATTTATT
20938 TATTAATTTATT
1 TATT-ATTTATT
*
20950 AGTATTATTAATAT
1 --TATTATTTAT-T
*
20964 TATTATTGATT
1 TATTATTTATT
20975 TATTAATTTATT
1 TATT-ATTTATT
20987 TATT
1 TATT
20991 TTCTTTTCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.20
12 26 0.58
13 5 0.11
14 5 0.11
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TATTATTTATT
Found at i:20959 original size:9 final size:9
Alignment explanation
Indices: 20924--20986 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 9
20914 TAATCTAATC
20924 TAATATTAT
1 TAATATTAT
*
20933 TTAT-TTAT
1 TAATATTAT
20941 TAAT-TTAT
1 TAATATTAT
*
20949 TAGTATTAT
1 TAATATTAT
20958 TAATATTAT
1 TAATATTAT
*
20967 TATTGATTTAT
1 TAAT-A-TTAT
20978 TAAT-TTAT
1 TAATATTAT
20986 T
1 T
20987 TATTTTCTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 19 0.42
9 18 0.40
10 1 0.02
11 7 0.16
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TAATATTAT
Found at i:21682 original size:23 final size:23
Alignment explanation
Indices: 21638--21683 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21628 GTAAAAAATT
* **
21638 ATTTAGTCAAAGTAACTTATTAA
1 ATTTAGTCAAAATAACAAATTAA
*
21661 ATTTAGTCAAAATAAGAAATTAA
1 ATTTAGTCAAAATAACAAATTAA
21684 GTAAAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (23 bp):
ATTTAGTCAAAATAACAAATTAA
Found at i:25698 original size:3 final size:3
Alignment explanation
Indices: 25692--25758 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
25682 ATTATTTTTT
* *
25692 TAA TAA TAA TAA T-A TATA TATA TAA TAA TTA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
25738 TAA TAA TAA TTA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
25759 AAAAATTAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 2 0.04
3 45 0.83
4 7 0.13
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:26285 original size:116 final size:116
Alignment explanation
Indices: 26078--27214 Score: 1745
Period size: 116 Copynumber: 9.9 Consensus size: 116
26068 GAGCAAAAAT
*
26078 TTGAACAAATTCTTCTCATTATGAA-TTCCTTCTTTCTTCTTCAGAT---GAGTTCTTCTCATTA
1 TTGAACAAATTCTTCTCATTATGAACTT-CTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
* * * * * * * * *
26139 TGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGA-AAAAGG
65 TGAACTCTAC-CTGGCAATGTTAATCCATCAAATAATGAATTT-AAACAAAAGG
* *
26191 TT-AACCAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTA
1 TTGAA-CAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
* * * *
26255 TGAACTCTACCTGGAAATTTTAATCCATCAAATGATGAATTCAAACAAAAGG
65 TGAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
*
26307 TTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * * * * * *
26369 GAACT-TTCTCTGGAAAAGCTGATCCATCAAATAATGAATTTGAGCAAAAGG
66 GAACTCTAC-CTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
26420 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * * * * * *
26482 GAACT-TTCTCTGGAAAAGCTGATCCATCAAATAATGAATTTGAGCAAAAGG
66 GAACTCTAC-CTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
*
26533 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-T-TT-AGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
*
26595 GAACTCTACCTGGTAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
26646 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
26711 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
26762 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
26827 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
*
26878 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTATCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
26943 GAACTCTACCTGGCAATGTTAATCCATC-AATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
26993 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
27058 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
27109 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
** * *
27174 GAACTCTACCTGGCAATACTGATCCATCAAATAATGGATTT
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTT
27215 GAATCTTTGC
Statistics
Matches: 970, Mismatches: 37, Indels: 31
0.93 0.04 0.03
Matches are distributed among these distances:
110 4 0.00
111 2 0.00
112 5 0.01
113 333 0.34
114 5 0.01
115 118 0.12
116 499 0.51
117 4 0.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (116 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
Found at i:26680 original size:342 final size:344
Alignment explanation
Indices: 26078--27216 Score: 1755
Period size: 342 Copynumber: 3.3 Consensus size: 344
26068 GAGCAAAAAT
*
26078 TTGAACAAATTCTTCTCATTATGAA-TTCCTTCTTTCTTCTTCAGAT-GAGTTCTTCTCATTATG
1 TTGAACAAATTCTTCTCATTATGAACTT-CTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATG
* * * * *
26141 AACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGAAAAAGGTT-AACCAAATTCT
65 AACTCTAC-CTGGAAAAGCTGATCCATCAAATAATGAATTTGAGCAAAAGGTTGAA-CAAATTCT
*
26204 TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACCTGG
128 TCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGG
* * * *
26269 AAATTTTAATCCATCAAATGATGAATTCAAACAAAAGGTTAAACAAATTCTTCTCATTATGAACT
193 AAATGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* *
26334 TCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATC
258 TCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAAGCTAATCCATC
* *
26397 AAATAATGAATTTGAGCAAAAGG
322 AAATAATGAATTTAAACAAAAGG
26420 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
*
26484 ACT-TTCTCTGGAAAAGCTGATCCATCAAATAATGAATTTGAGCAAAAGGTTGAACAAATTCTTC
66 ACTCTAC-CTGGAAAAGCTGATCCATCAAATAATGAATTTGAGCAAAAGGTTGAACAAATTCTTC
*
26548 TCATTATGAATTTCTTCTTCC-T-TT-AGATGACGAGTTCTTCTCATTATGAACTCTACCTGGTA
130 TCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAA
26610 ATGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
195 ATGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
* * *
26675 TTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCA
260 TTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATCA
26740 AATAATGAATTTAAACAAAAGG
323 AATAATGAATTTAAACAAAAGG
26762 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTAT
* * * * * *
26827 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGAACAAATTCTT
64 GAACTCTACCTGGAAAAGCTGATCCATCAAATAATGAATTTGAGCAAAAGGTTGAACAAATTCTT
* * *
26892 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTATCATTATGAACTCTACCTGGC
129 CTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGA
26957 AATGTTAATCCATC-AATAATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
194 AATGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
* * *
27021 CTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATC
259 CTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATC
27086 AAATAATGAATTTAAACAAAAGG
322 AAATAATGAATTTAAACAAAAGG
27109 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTAT
* *
27174 GAACTCTACCTGGCAATA-CTGATCCATCAAATAATGGATTTGA
64 GAACTCTACCTGG-AAAAGCTGATCCATCAAATAATGAATTTGA
27217 ATCTTTGCTA
Statistics
Matches: 748, Mismatches: 35, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
339 114 0.15
340 2 0.00
341 1 0.00
342 241 0.32
343 6 0.01
345 92 0.12
346 3 0.00
347 239 0.32
348 50 0.07
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (344 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
ACTCTACCTGGAAAAGCTGATCCATCAAATAATGAATTTGAGCAAAAGGTTGAACAAATTCTTCT
CATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAA
TGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCT
TCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATCAAAT
AATGAATTTAAACAAAAGG
Found at i:28188 original size:93 final size:93
Alignment explanation
Indices: 27899--28912 Score: 1453
Period size: 94 Copynumber: 10.9 Consensus size: 93
27889 GATCATGCAG
* * * *
27899 TTCATCTTT-TAATTCCAATGATTGG-TTCT-GCGGTTCCTACCGAACCAGATCAGATAACTCAA
1 TTCATCTTTCAAATT-CAATGATTGGTTTTTAG-GGTTCATACCAAACCAGATCAGATAACTCAA
*
27961 AGAACACTTCCAGAAGATGCTATGAGTACA
64 AGAACACTTCCAGAAGATGCTATGAGCACA
* * *
27991 TTCATCTTTCAAATTTAATGATGGGGTTTTGT-GGTTTCATACCAAACCAGATCAGATAACTCAA
1 TTCATCTTTCAAATTCAATGAT-TGGTTTT-TAGGGTTCATACCAAACCAGATCAGATAACTCAA
***
28055 AGAACACTTCCAGAAGATGCTATTGAG-TTT
64 AGAACACTTCCAGAAGATGCTA-TGAGCACA
** * ** *
28085 TTTTTATTTCAAA-TCTAATGATTGGTTTTCGGGGTTCATATCAAACCAGATCAGATAACTCAAA
1 TTCATCTTTCAAATTC-AATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
28149 GAACACTTCCAGAAGATGCTATGAGTACA
65 GAACACTTCCAGAAGATGCTATGAGCACA
* * *
28178 TTCATCTTTCAAATTTAATGATGGGGTTTTGT-GGTTTCATACCAAACCAGATCAGATAACTCAA
1 TTCATCTTTCAAATTCAATGAT-TGGTTTT-TAGGGTTCATACCAAACCAGATCAGATAACTCAA
28242 AGAACACTTCCAGAAGATGCTATGAGCACA
64 AGAACACTTCCAGAAGATGCTATGAGCACA
*
28272 TTCATCTTCCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
28337 AACACTTCCAGAAGATGCTATTGAG---T
66 AACACTTCCAGAAGATGCTA-TGAGCACA
** * *
28363 TTTTTTTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAAATCAGATAACTCAAAG
1 TTCATCTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
28428 AACACTTCCAGAAAATGCTATGAGCACA
66 AACACTTCCAGAAGATGCTATGAGCACA
* * *
28456 TTCATTTTTTAAATTCAATGATTGGTTTTTTAGGGTTCATACCAAACCAGATCAAATAACTCAAA
1 TTCATCTTTCAAATTCAATGATTGG-TTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
28521 GAATACTTCCAGAAGATGCTATGAGCACA
65 GAACACTTCCAGAAGATGCTATGAGCACA
*
28550 TTCATCTTCCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
28615 AACACTTCCAGAAGATGCTATTGAG----
66 AACACTTCCAGAAGATGCTA-TGAGCACA
** *
28640 TTTTTTTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
28705 AACACTTCCAGAAGATGCTATGAGCACA
66 AACACTTCCAGAAGATGCTATGAGCACA
* * * *
28733 TTCATTTTTCAAATTCAATGATTGATTTTTTAGGGTTCATACCAAACCAGATCAAATAACTCATA
1 TTCATCTTTCAAATTCAATGATTG-GTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
28798 GAACACTTCCAGAAGATGCTATGAGCACA
65 GAACACTTCCAGAAGATGCTATGAGCACA
*
28827 TTCATCTTCCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
28892 AACACTTCCAGAAGATGCTAT
66 AACACTTCCAGAAGATGCTAT
28913 TGGGTCTACG
Statistics
Matches: 831, Mismatches: 68, Indels: 45
0.88 0.07 0.05
Matches are distributed among these distances:
89 4 0.00
90 85 0.10
91 79 0.10
92 20 0.02
93 301 0.36
94 336 0.40
95 6 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (93 bp):
TTCATCTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATGAGCACA
Found at i:28256 original size:187 final size:184
Alignment explanation
Indices: 27909--28912 Score: 1425
Period size: 187 Copynumber: 5.4 Consensus size: 184
27899 TTCATCTTTT
* * *
27909 AATTCCAATGATTGG-TTCT-GCGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACACTTCC
1 AATT-CAATGATTGGTTTTTAG-GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCC
* * *
27972 AGAAGATGCTATGAGTACATTCATCTTTCAAATTTAATGATGGGGTTTTGT-GGTTTCATACCAA
64 AGAAGATGCTATGAGTACATTCATCTTTCAAATTCAATGAT-TGGTTTT-TAGGGTTCATACCAA
* **
28036 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTTTTTTTTATTTCA
127 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAG-CTCATTTATTTCA
** *
28096 AA-TCTAATGATTGGTTTTCGGGGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCA
1 AATTC-AATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
* * *
28160 GAAGATGCTATGAGTACATTCATCTTTCAAATTTAATGATGGGGTTTTGT-GGTTTCATACCAAA
65 GAAGATGCTATGAGTACATTCATCTTTCAAATTCAATGAT-TGGTTTT-TAGGGTTCATACCAAA
* *
28224 CCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCA
128 CCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCTCATTTAT-TT-CA
28283 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
** *
28348 AAGATGCTATTGAGT---TTTTTTTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACC
66 AAGATGCTA-TGAGTACATTCATCTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACC
* * * * *
28410 AAATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGAGCACATTCATTTTTTA
130 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCTCATT--TATTTCA
* *
28467 AATTCAATGATTGGTTTTTTAGGGTTCATACCAAACCAGATCAAATAACTCAAAGAATACTTCCA
1 AATTCAATGATTGG-TTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
* *
28532 GAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACC
65 GAAGATGCTATGAGTACATTCATCTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACC
* *
28597 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAG-T-TTTTTTTTCA
130 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCTCATTTATTTCA
28651 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
* * *
28716 AAGATGCTATGAGCACATTCATTTTTCAAATTCAATGATTGATTTTTTAGGGTTCATACCAAACC
66 AAGATGCTATGAGTACATTCATCTTTCAAATTCAATGATTG-GTTTTTAGGGTTCATACCAAACC
* * * *
28781 AGATCAAATAACTCATAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCA
130 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCTCATTTAT-TT-CA
28838 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
28903 AAGATGCTAT
66 AAGATGCTAT
28913 TGGGTCTACG
Statistics
Matches: 750, Mismatches: 47, Indels: 40
0.90 0.06 0.05
Matches are distributed among these distances:
183 93 0.12
184 164 0.22
185 86 0.11
186 21 0.03
187 374 0.50
188 12 0.02
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (184 bp):
AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
AAGATGCTATGAGTACATTCATCTTTCAAATTCAATGATTGGTTTTTAGGGTTCATACCAAACCA
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCTCATTTATTTCA
Found at i:37264 original size:15 final size:15
Alignment explanation
Indices: 37241--37272 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37231 TGAAATGAAT
37241 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
37256 AATGTATGTATGCAA
1 AATGAATGTATGCAA
37271 AA
1 AA
37273 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:41430 original size:22 final size:21
Alignment explanation
Indices: 41362--41430 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
41352 TATAATAATA
*
41362 ATAAAAATAATATTTAAA-TAT
1 ATAAAAAT-ATAATTAAACTAT
*
41383 ATAAACAAGTAAAATTAAAAC-A-
1 ATAAA-AA-TATAATT-AAACTAT
41405 ATAAAAATATAATTAGAACTAT
1 ATAAAAATATAATTA-AACTAT
41427 ATAA
1 ATAA
41431 TTAAAAGCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
19 1 0.03
20 9 0.24
21 8 0.21
22 15 0.39
23 5 0.13
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (21 bp):
ATAAAAATATAATTAAACTAT
Found at i:42740 original size:3 final size:3
Alignment explanation
Indices: 42734--42814 Score: 101
Period size: 3 Copynumber: 27.0 Consensus size: 3
42724 ATTATTTTTT
*
42734 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * *
42779 TAA TAA TTA TTA TAA TAA TAA TAA TTA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
42815 AAAAATTAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.03
3 63 0.93
4 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:46098 original size:304 final size:305
Alignment explanation
Indices: 45545--47016 Score: 2149
Period size: 304 Copynumber: 4.8 Consensus size: 305
45535 TTAAAATGAG
*
45545 AACGAGACAAACACACTCCATTATTAGGGAAAAAAGATATAAAGAAAAACTATAGACACATTTAA
1 AACGAGACAAACACACTCCATTATTAGGGAAAAAAGATAT-AA-AAAAACTATAGACACGTTTAA
*
45610 GTTTCATGTATTGGGGTTGGATTGAAAACTCTTT-AAAAAA-TCACTGTTAGGGAAAAGATTACA
64 GTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACA
*
45673 TTGTACAAGTTTTCACTGTATTGGGAACGAGACAAACACACACCATTATTAGGGAAAAAAAGATA
129 TTGTACAAGTTTTCACTGTATTGGGAACGAGACAAACACACTCCATTATTA-GGAAAAAAAGATA
* *
45738 TAGAAAAAACTATAGACACGTTTAAATTTCATGTATTGGGTTTGGATTGTAAACTCTTTAAAAAA
193 T--AAAAAACTATAGACACGTTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAA
* *
45803 A-TCAATGTTAGGGAAAAGATTACATTGTACAAATTTTTACTGTATTGGA
256 ATTCAATGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGA
*
45852 AACGAGACAAACACACTCCATTATTA-GGAAAAAAGATATAAAAAAACTATAGACGCGTTTAAGT
1 AACGAGACAAACACACTCCATTATTAGGGAAAAAAGATATAAAAAAACTATAGACACGTTTAAGT
* *
45916 TTCATGTATTGGGTTTGAATTGAAAACTCTTTAAAACAAATTCACTGTTAGGGAAAATATTACAT
66 TTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAA-AAATTCACTGTTAGGGAAAAGATTACAT
*
45981 TGTACAAGTTTTCACTGTATTGGGAACAAGACAAACACACTCCATTATTAGGAAAAAAAGATATA
130 TGTACAAGTTTTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATA
46046 AAAAACTATAGACACGTTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTT-AAAAAATTC
195 AAAAACTATAGACACGTTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTC
** * * *
46110 GTTGTTATGAAAAAGATTACATTGTACAAGTTTTCACTGTATT-CA
260 AATGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGA
* * *
46155 GAACGAGACAAACATACTCCATTATTA-GGAAAAAATATATAAAAAAACTAGAGACACGTTTAAG
1 -AACGAGACAAACACACTCCATTATTAGGGAAAAAAGATATAAAAAAACTATAGACACGTTTAAG
* *
46219 TTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTATGGAAAAGATTATAT
65 TTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACAT
** * *
46284 TGTACAAACTTTCAGTGTATTGAGAACGAGACAAACACACTCCATTATTAGGAAAAAACAAGATA
130 TGTACAAGTTTTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGG-AAAAA-AAGATA
* *
46349 TAAAAAAACTATAGACATGTTTAAGTTTCATGAATTGGGTTTGGATTGAAAACTCTTTAAAAAAA
193 T-AAAAAACTATAGACACGTTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAA
*
46414 TTCACA----A-GGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGG
257 TTCA-ATGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGA
46459 AACGAGACAAACACACTCCATTATTAGGGAAAAAAAGATATAAAAAAACTATAGACACGTTTAAG
1 AACGAGACAAACACACTCCATTATTAGGG-AAAAAAGATATAAAAAAACTATAGACACGTTTAAG
* * * *
46524 TTTCATGTATTGGGTTTGGATTG--AA---TTAAAAAAAAATCATTGTTATGGAAAAGATTACAT
65 TTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACAT
* * *
46584 TGTACACGTTTTCACTGTATTGGGAACGAGGCAAACACACTCCATTATTAGG-AAAAAATATATA
130 TGTACAAGTTTTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATA
* * * *
46648 AAAAATTATAAACACGTTTAAGTTTCAGGTACTGGGTTTGGATTGAAAACTCTTTAAAAAAACTT
195 AAAAACTATAGACACGTTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAA-TT
*
46713 CACTGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGA
259 CAATGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGA
* *
46760 AATGAGACAAACACATTCCATTATTAGGGGAAAAAAGATAT--AAAAACTATAGACACGTTTAAG
1 AACGAGACAAACACACTCCATTATTA-GGGAAAAAAGATATAAAAAAACTATAGACACGTTTAAG
* *
46823 TTTCATGAATTGGGTTTGGATTGAAAATTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACA
65 TTTCATGTATTGGGTTTGGATTGAAAACTCTTT-AAAAAAATTCACTGTTAGGGAAAAGATTACA
* * * * *
46888 TTGTACAAATTTTCACTATATTGGAAATGAGACAAACACATTCCATTATTAGGAAAAAAAAAGAT
129 TTGTACAAGTTTTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGG--AAAAAAAGAT
** * * *
46953 ATAAAAAACTATAGACACACTTAAGTTTC-CGCTATTGGGTTCGGATTAAAAACTCTTTAAAAAA
192 ATAAAAAACTATAGACACGTTTAAGTTTCATG-TATTGGGTTTGGATTGAAAACTCTTTAAAAAA
47017 TGGTAATGAA
Statistics
Matches: 1054, Mismatches: 81, Indels: 59
0.88 0.07 0.05
Matches are distributed among these distances:
296 57 0.05
297 10 0.01
298 4 0.00
299 44 0.04
300 78 0.07
301 74 0.07
302 3 0.00
303 140 0.13
304 249 0.24
305 142 0.13
306 84 0.08
307 107 0.10
308 62 0.06
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (305 bp):
AACGAGACAAACACACTCCATTATTAGGGAAAAAAGATATAAAAAAACTATAGACACGTTTAAGT
TTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACATT
GTACAAGTTTTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAA
AAAACTATAGACACGTTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCA
ATGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGA
Found at i:46200 original size:151 final size:152
Alignment explanation
Indices: 45544--47016 Score: 2111
Period size: 153 Copynumber: 9.7 Consensus size: 152
45534 TTTAAAATGA
*
45544 GAACGAGACAAACACACTCCATTATTAGGGAAAAAAGATATAAAGAAAAACTATAGACACATTTA
1 GAACGAGACAAACACACTCCATTATTA-GGAAAAAAGATAT-AA-AAAAACTATAGACACGTTTA
*
45609 AGTTTCATGTATTGGGGTTGGATTGAAAACTCTTT-AAAAAA-TCACTGTTAGGGAAAAGATTAC
63 AGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTAC
45672 ATTGTACAAGTTTTCACTGTATTGG
128 ATTGTACAAGTTTTCACTGTATTGG
*
45697 GAACGAGACAAACACACACCATTATTAGGGAAAAAAAGATATAGAAAAAACTATAGACACGTTTA
1 GAACGAGACAAACACACTCCATTATTA-GG-AAAAAAGATATA-AAAAAACTATAGACACGTTTA
* * *
45762 AATTTCATGTATTGGGTTTGGATTGTAAACTCTTTAAAAAAA-TCAATGTTAGGGAAAAGATTAC
63 AGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTAC
* *
45826 ATTGTACAAATTTTTACTGTATTGG
128 ATTGTACAAGTTTTCACTGTATTGG
* *
45851 AAACGAGACAAACACACTCCATTATTAGGAAAAAAGATATAAAAAAACTATAGACGCGTTTAAGT
1 GAACGAGACAAACACACTCCATTATTAGGAAAAAAGATATAAAAAAACTATAGACACGTTTAAGT
* *
45916 TTCATGTATTGGGTTTGAATTGAAAACTCTTTAAAACAAATTCACTGTTAGGGAAAATATTACAT
66 TTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAA-AAATTCACTGTTAGGGAAAAGATTACAT
45981 TGTACAAGTTTTCACTGTATTGG
130 TGTACAAGTTTTCACTGTATTGG
*
46004 GAACAAGACAAACACACTCCATTATTAGGAAAAAAAGATAT-AAAAAACTATAGACACGTTTAAG
1 GAACGAGACAAACACACTCCATTATTAGG-AAAAAAGATATAAAAAAACTATAGACACGTTTAAG
** * *
46068 TTTCATGTATTGGGTTTGGATTGAAAACTCTTT-AAAAAATTCGTTGTTATGAAAAAGATTACAT
65 TTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACAT
**
46132 TGTACAAGTTTTCACTGTATTCA
130 TGTACAAGTTTTCACTGTATTGG
* * *
46155 GAACGAGACAAACATACTCCATTATTAGGAAAAAATATATAAAAAAACTAGAGACACGTTTAAGT
1 GAACGAGACAAACACACTCCATTATTAGGAAAAAAGATATAAAAAAACTATAGACACGTTTAAGT
* *
46220 TTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTATGGAAAAGATTATATT
66 TTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACATT
** * *
46285 GTACAAACTTTCAGTGTATTGA
131 GTACAAGTTTTCACTGTATTGG
*
46307 GAACGAGACAAACACACTCCATTATTAGGAAAAAACAAGATATAAAAAAACTATAGACATGTTTA
1 GAACGAGACAAACACACTCCATTATTAGG--AAAA-AAGATATAAAAAAACTATAGACACGTTTA
* *
46372 AGTTTCATGAATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCAC----AAGGAAAAGATTAC
63 AGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTAC
46433 ATTGTACAAGTTTTCACTGTATTGG
128 ATTGTACAAGTTTTCACTGTATTGG
46458 GAACGAGACAAACACACTCCATTATTAGGGAAAAAAAGATATAAAAAAACTATAGACACGTTTAA
1 GAACGAGACAAACACACTCCATTATTA-GG-AAAAAAGATATAAAAAAACTATAGACACGTTTAA
* * * *
46523 GTTTCATGTATTGGGTTTGGATTG--AA---TTAAAAAAAAATCATTGTTATGGAAAAGATTACA
64 GTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACA
*
46583 TTGTACACGTTTTCACTGTATTGG
129 TTGTACAAGTTTTCACTGTATTGG
* * * *
46607 GAACGAGGCAAACACACTCCATTATTAGGAAAAAATATAT-AAAAAATTATAAACACGTTTAAGT
1 GAACGAGACAAACACACTCCATTATTAGGAAAAAAGATATAAAAAAACTATAGACACGTTTAAGT
* *
46671 TTCAGGTACTGGGTTTGGATTGAAAACTCTTTAAAAAAACTTCACTGTTAGGGAAAAGATTACAT
66 TTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAA-TTCACTGTTAGGGAAAAGATTACAT
46736 TGTACAAGTTTTCACTGTATTGG
130 TGTACAAGTTTTCACTGTATTGG
* * *
46759 AAATGAGACAAACACATTCCATTATTAGGGGAAAAAAGATAT--AAAAACTATAGACACGTTTAA
1 GAACGAGACAAACACACTCCATTATTA--GGAAAAAAGATATAAAAAAACTATAGACACGTTTAA
* *
46822 GTTTCATGAATTGGGTTTGGATTGAAAATTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTAC
64 GTTTCATGTATTGGGTTTGGATTGAAAACTCTTT-AAAAAAATTCACTGTTAGGGAAAAGATTAC
* *
46887 ATTGTACAAATTTTCACTATATTGG
128 ATTGTACAAGTTTTCACTGTATTGG
* * * **
46912 AAATGAGACAAACACATTCCATTATTAGGAAAAAAAAAGATAT-AAAAAACTATAGACACACTTA
1 GAACGAGACAAACACACTCCATTATTAGG---AAAAAAGATATAAAAAAACTATAGACACGTTTA
* * *
46976 AGTTTC-CGCTATTGGGTTCGGATTAAAAACTCTTTAAAAAA
63 AGTTTCATG-TATTGGGTTTGGATTGAAAACTCTTTAAAAAA
47017 TGGTAATGAA
Statistics
Matches: 1200, Mismatches: 90, Indels: 59
0.89 0.07 0.04
Matches are distributed among these distances:
145 12 0.01
146 42 0.04
147 10 0.01
148 6 0.00
149 63 0.05
150 62 0.05
151 258 0.22
152 161 0.13
153 329 0.27
154 139 0.12
155 118 0.10
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (152 bp):
GAACGAGACAAACACACTCCATTATTAGGAAAAAAGATATAAAAAAACTATAGACACGTTTAAGT
TTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACATT
GTACAAGTTTTCACTGTATTGG
Found at i:47334 original size:8 final size:8
Alignment explanation
Indices: 47321--47348 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
47311 TCGAGTCAAG
47321 TTGAAATT
1 TTGAAATT
47329 TTGAAATT
1 TTGAAATT
47337 TTGAAATT
1 TTGAAATT
47345 TTGA
1 TTGA
47349 GTTACTCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (8 bp):
TTGAAATT
Found at i:51976 original size:155 final size:155
Alignment explanation
Indices: 51495--52256 Score: 1284
Period size: 155 Copynumber: 4.9 Consensus size: 155
51485 AAATGAGAAT
51495 GAGACAAACACACTCCATTATTAGGAAAAAAAGATAT-AAAAAAACTATAGACACATTTAAGTTT
1 GAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAAACTATAGACACATTTAAGTTT
51559 CATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTG
66 CATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTG
*
51624 TACAAGTTTTCATTGTATTGGGAAC
131 TACAAGTTTTCACTGTATTGGGAAC
* *
51649 GAGACACACACACTCCATTATTAGGAAAAATATATATATATATAAAGAGAAACTATAGACACATT
1 GAGACAAACACACTCCATTATTAGG-AAAA-A-A-AGATATA-AAA-A-AAACTATAGACACATT
* *
51714 TAAGTTTCATGAATTGGGTTTGGATTGAAAACTCTTT-AAAAAAATTCACTGTTAGGAAAAAGAT
59 TAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGAT
51778 TACATTGTACAAGTTTTCACTGTATTGGGAAC
124 TACATTGTACAAGTTTTCACTGTATTGGGAAC
*
51810 GAGACAAACACACTCCATTATTAGG-AAAAAAGATATAAAAAAAAACTATAGACACGTTTAAGTT
1 GAGACAAACACACTCCATTATTAGGAAAAAAAGATAT-AAAAAAAACTATAGACACATTTAAGTT
*
51874 TCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTCAGGGAAAAGATTACATT
65 TCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATT
*
51939 GTACAAGTTTTCACTGTATTGGAAAC
130 GTACAAGTTTTCACTGTATTGGGAAC
51965 GAGACAAACACACTCCATTATTAGG-AAAAAAGATAT-AAAAAAACTATAGACACATTTAAGTTT
1 GAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAAACTATAGACACATTTAAGTTT
* *
52028 CATGTATTGGGTTTGGATTGAAAACTCTTT-AAACAAATTCACTGTTAGGGAAAAGATTTCATTG
66 CATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTG
*
52092 TACAAGTTTTCATTGTATTGGGAAC
131 TACAAGTTTTCACTGTATTGGGAAC
*
52117 AAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAAACTATAGACACATTTAAGTTT
1 GAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAAACTATAGACACATTTAAGTTT
* *
52182 CATGTATTGGGTTTGGAGTGAAAATTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTG
66 CATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTG
52247 TACAAGTTTT
131 TACAAGTTTT
52257 TACTATAACC
Statistics
Matches: 572, Mismatches: 23, Indels: 25
0.92 0.04 0.04
Matches are distributed among these distances:
152 78 0.14
153 67 0.12
154 130 0.23
155 139 0.24
156 9 0.02
157 3 0.01
158 6 0.01
159 3 0.01
160 3 0.01
161 82 0.14
162 52 0.09
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (155 bp):
GAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAAACTATAGACACATTTAAGTTT
CATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTG
TACAAGTTTTCACTGTATTGGGAAC
Found at i:52160 original size:307 final size:314
Alignment explanation
Indices: 51496--52256 Score: 1306
Period size: 307 Copynumber: 2.4 Consensus size: 314
51486 AATGAGAATG
51496 AGACAAACACACTCCATTATTAGGAAAAAAAGATAT-AAAAAAACTATAGACACATTTAAGTTTC
1 AGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAAACTATAGACACATTTAAGTTTC
51560 ATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTGT
66 ATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTGT
* * * *
51625 ACAAGTTTTCATTGTATTGGGAACGAGACACACACACTCCATTATTAGGAAAAATATATATATAT
131 ACAAGTTTTCACTGTATTGGAAACGAGACAAACACACTCCATTATTAGG--AAATATATATAGAT
51690 ATAAAGAGAAACTATAGACACATTTAAGTTTCATGAATTGGGTTTGGATTGAAAACTCTTTAAAA
194 ATAAAGAGAAACTATAGACACATTTAAGTTTCATGAATTGGGTTTGGATTGAAAACTCTTTAAAA
*
51755 AAATTCACTGTTAGGAAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACG
259 AAATTCACTGTTAGGAAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACA
*
51811 AGACAAACACACTCCATTATTAGG-AAAAAAGATATAAAAAAAAACTATAGACACGTTTAAGTTT
1 AGACAAACACACTCCATTATTAGGAAAAAAAGATAT-AAAAAAAACTATAGACACATTTAAGTTT
*
51875 CATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTCAGGGAAAAGATTACATTG
65 CATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTG
51940 TACAAGTTTTCACTGTATTGGAAACGAGACAAACACACTCCATTATTAGG-AA-A-A-A-AGATA
130 TACAAGTTTTCACTGTATTGGAAACGAGACAAACACACTCCATTATTAGGAAATATATATAGATA
* *
52000 TAAA-A-AAACTATAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAACA
195 TAAAGAGAAACTATAGACACATTTAAGTTTCATGAATTGGGTTTGGATTGAAAACTCTTTAAAAA
* * *
52063 AATTCACTGTTAGGGAAAAGATTTCATTGTACAAGTTTTCATTGTATTGGGAACA
260 AATTCACTGTTAGGAAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACA
52118 AGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAAACTATAGACACATTTAAGTTTC
1 AGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAAACTATAGACACATTTAAGTTTC
* *
52183 ATGTATTGGGTTTGGAGTGAAAATTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTGT
66 ATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTGT
52248 ACAAGTTTT
131 ACAAGTTTT
52257 TACTATAACC
Statistics
Matches: 427, Mismatches: 16, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
307 230 0.54
308 12 0.03
309 8 0.02
310 1 0.00
311 1 0.00
312 1 0.00
313 2 0.00
314 11 0.03
315 24 0.06
316 137 0.32
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (314 bp):
AGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAAACTATAGACACATTTAAGTTTC
ATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAAATTCACTGTTAGGGAAAAGATTACATTGT
ACAAGTTTTCACTGTATTGGAAACGAGACAAACACACTCCATTATTAGGAAATATATATAGATAT
AAAGAGAAACTATAGACACATTTAAGTTTCATGAATTGGGTTTGGATTGAAAACTCTTTAAAAAA
ATTCACTGTTAGGAAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACA
Found at i:53084 original size:24 final size:23
Alignment explanation
Indices: 53057--53150 Score: 89
Period size: 24 Copynumber: 3.9 Consensus size: 23
53047 AAATCCAAAA
53057 AGAATTCAGATCAAATATCAGAAC
1 AGAATTCAGATCAAA-ATCAGAAC
*
53081 AGAATCCAGATCAGAAATCAGAAC
1 AGAATTCAGATCA-AAATCAGAAC
* * ** *
53105 ATAATTCAGGTCAGGTATCATAAC
1 AGAATTCAGATCA-AAATCAGAAC
*
53129 AGAATTCAAATCGAAAATCAGA
1 AGAATTCAGATC-AAAATCAGA
53151 TAAAACATTC
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
24 52 0.95
25 3 0.05
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (23 bp):
AGAATTCAGATCAAAATCAGAAC
Found at i:53111 original size:48 final size:48
Alignment explanation
Indices: 53059--53150 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
53049 ATCCAAAAAG
*
53059 AATTCAGATCAAATATCAGAACAGAATCCAGATC-AGAAATCAGAACAT
1 AATTCAGATCAAATATCAGAACAGAATCCAAATCGA-AAATCAGAACAT
* ** * *
53107 AATTCAGGTCAGGTATCATAACAGAATTCAAATCGAAAATCAGA
1 AATTCAGATCAAATATCAGAACAGAATCCAAATCGAAAATCAGA
53151 TAAAACATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
48 36 0.97
49 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (48 bp):
AATTCAGATCAAATATCAGAACAGAATCCAAATCGAAAATCAGAACAT
Found at i:53113 original size:12 final size:12
Alignment explanation
Indices: 53057--53113 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
53047 AAATCCAAAA
*
53057 AGAATTCAGATC
1 AGAATTCAGAAC
53069 A-AATATCAGAAC
1 AGAAT-TCAGAAC
* *
53081 AGAATCCAGATC
1 AGAATTCAGAAC
*
53093 AGAAATCAGAAC
1 AGAATTCAGAAC
*
53105 ATAATTCAG
1 AGAATTCAG
53114 GTCAGGTATC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
11 3 0.09
12 29 0.83
13 3 0.09
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.19
Consensus pattern (12 bp):
AGAATTCAGAAC
Found at i:63474 original size:41 final size:41
Alignment explanation
Indices: 63375--63475 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
63365 GTAAACAATT
* * * ** *
63375 TAAGTCCCTCGGGCCATCAGTAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGGGTCATCAGTAAGCCTTTAAAGCAAGATGA
* * *
63416 TGAAATCCTTCGAGTCATCTGTAAGCCTTTAAAGCAAGATGA
1 T-AAGTCCTTCGGGTCATCAGTAAGCCTTTAAAGCAAGATGA
63458 TAAGTCCTTCGGGTCATC
1 TAAGTCCTTCGGGTCATC
63476 CATAAGACCT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 16 0.33
42 32 0.67
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (41 bp):
TAAGTCCTTCGGGTCATCAGTAAGCCTTTAAAGCAAGATGA
Found at i:63617 original size:20 final size:20
Alignment explanation
Indices: 63592--63664 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
63582 CCGCACTTAG
63592 TAAGTCCTTCGGGCCATCAA
1 TAAGTCCTTCGGGCCATCAA
* * * *
63612 TAAGTCTTTTGAG-CATGATGA
1 TAAGTCCTTCGGGCCATCA--A
*
63633 TGAAGTCCTTCGGGCCATCAG
1 T-AAGTCCTTCGGGCCATCAA
*
63654 TAAGTCTTTCG
1 TAAGTCCTTCG
63665 AGCATGATGA
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
19 4 0.10
20 19 0.49
21 3 0.08
22 9 0.23
23 4 0.10
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (20 bp):
TAAGTCCTTCGGGCCATCAA
Found at i:63652 original size:42 final size:42
Alignment explanation
Indices: 63593--63684 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
63583 CGCACTTAGT
*
63593 AAGTCCTTCGGGCCATCAATAAGTCTTTTGAGCATGATGATG
1 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATG
* *
63635 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATT
1 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATG
*
63677 AAATCCTT
1 AAGTCCTT
63685 AGGGTAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATG
Found at i:63747 original size:80 final size:80
Alignment explanation
Indices: 63648--63864 Score: 328
Period size: 80 Copynumber: 2.7 Consensus size: 80
63638 TCCTTCGGGC
* *
63648 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACGGAAAA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAAA
63713 GTAGTGAAGCAAAC-
66 GTAGTGAAGCAAACT
* * *
63727 CTATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGGAATTTGTAAGCCTTCACCGAAG
1 C-ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAA
*
63792 AGTAGTGAAGCAAATT
65 AGTAGTGAAGCAAACT
* * * *
63808 CATCAGTAAGTCTTTCGAGCATTATGATGAAATCCTTCGGGTCATTTGTAAGTCTTC
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTC
63865 TGAGCGAGAT
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 1 0.01
80 122 0.98
81 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (80 bp):
CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAAA
GTAGTGAAGCAAACT
Found at i:64388 original size:53 final size:53
Alignment explanation
Indices: 64281--64530 Score: 247
Period size: 53 Copynumber: 4.8 Consensus size: 53
64271 CAGAATGTTG
* * * * *
64281 TTCGAGTTTTACTCCTTGAAGAAAGAGGGA--GAA-CTGTAGGCAGAAGATTG
1 TTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTA
* * * *
64331 TTCGAGTTCTACACCCTGATGCAAGAGGGAGTGAACCCGTAGGCAGAAGATTT
1 TTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTA
* * *
64384 TTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAAGCATAAGATTA
1 TTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTA
* * * **** *
64437 TTCGAGTTCAACTCCCTGAAGTAATAGGGAGCGAACCCGTTTTTAGAAGATTG
1 TTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTA
* * *
64490 TTCGAGTTCCTTAATCCCTGAA-CAAGAGGGATCAAACCCGT
1 TTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCGAACCCGT
64531 CATTTGAAGA
Statistics
Matches: 165, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 25 0.15
52 3 0.02
53 112 0.68
54 16 0.10
55 9 0.05
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (53 bp):
TTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTA
Found at i:70156 original size:154 final size:152
Alignment explanation
Indices: 69749--71237 Score: 2241
Period size: 152 Copynumber: 9.8 Consensus size: 152
69739 GGGTATGACA
* **
69749 TTCACTGTATTTGGAACGAGACAAACACACAACATTATTAGG-AAAAAAGATATAAAAAAAC-AG
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTA-
* *
69812 CAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATCACTGTTAGG
65 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGG
*
69877 GAAAAGATTACATTGTAC-ATTT
130 GAAAAGATTACATTGTACAAGTT
* * * *
69899 TTCACTGTATTGGAAATGAGACAAACACACTCCATTATTAGGAAAAAACATATATAAAAAATCTA
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAA-AGATATAAAAAAACTA
* * *
69964 TAAACAAATTTAAGTTTCATGTATTGGGTTTGGATTGAAAATTC-TTAAAACAATTCACTGTTAG
65 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAA-AATTCACTGTTAG
70028 GGAAAAGATTACATTGTACAAGTT
129 GGAAAAGATTACATTGTACAAGTT
* *
70052 TTCACTGTATTGGAAACGAGACAAACACACTCCATTATTAGGAAAAAAACATATATAAAAAATCT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATA-AAAAAA-CT
* *
70117 ATAAACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAATTC-TTAAAACAATTCACTGTTA
64 ATAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAA-AATTCACTGTTA
70181 GGGAAAAGATTACATTGTACAAGTT
128 GGGAAAAGATTACATTGTACAAGTT
* * * ** *
70206 TTC-CTTTATTGGTAACAAGACAAACACACTCCATTATTAGGGGGGAAAAAGATATAAAAATACT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTA--GGAAAAAAAGATATAAAAAAACT
* *
70270 ATAGACTCATTTAAGATTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTA
64 ATAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTT-AAAAAATTCACTGTTA
70335 GGGAAAAGATTACATTGTACAAG-T
128 GGGAAAAGATTACATTGTACAAGTT
70359 TTCACTGTATTGGGAA-GAAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAA-TA
1 TTCACTGTATTGGGAACG-AGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTA
* * *
70422 TAGACACTTTTAAGTTT-ATGTATTGGGTTTTGATTGAAAACTCTTT-AAAAATCCACTGTTAGG
65 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGG
*
70485 GAAAAGATTACATTATACAAGTT
130 GAAAAGATTACATTGTACAAGTT
* * *
70508 TTCATTGTATTGGGAAGGAGACAAACACACTCCATTATTAGG-AAAAAAGATAAAAAAAAAACTA
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGAT-ATAAAAAAACTA
70572 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGG
65 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGG
*
70637 GAAAAGTTTACATTGTACAAGTT
130 GAAAAGATTACATTGTACAAGTT
*
70660 TTCATTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
* *
70725 AGACACGTTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTATTAGG
66 AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTT-AAAAAATTCACTGTTAGG
70790 GAAAAGATTACATTGTACAAGTT
130 GAAAAGATTACATTGTACAAGTT
*
70813 TTCACTGTATTGGGAACAAGACAAACACACTCCATTATTAGGAAAAAAA-ATATAAAAAAAAACT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATAT--AAAAAAACT
* * * *
70877 ATAGACACTTTTAAGTTTCATGTACTGGGTTTCGATTGAAAACTCTTTAAAAAAAATTCAGTGTT
64 ATAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTT--AAAAAATTCACTGTT
70942 AGGGAAAAGATTACATTGTACAAGTT
127 AGGGAAAAGATTACATTGTACAAGTT
* * *
70968 TTCACTGTATTGGGAACGAGACAAACACACTCCATTAATAAGAAAAAAATATATAAAAAAAACTA
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATAT-AAAAAAACTA
* * * *
71033 TAGAGACTTTTAAGTTTCATGTATTGGGTTTGGATTGGAAACTCTTTAAAAAATT-ACTATTAGG
65 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGG
71097 GAAAAGATTACATTGTACAAGTT
130 GAAAAGATTACATTGTACAAGTT
* * *
71120 TTCAGTGTATTGGGAACAAGACAAACACATTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
1 TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
* * *
71185 AGATACGTTTAAGTTTCATGTATTGGGTTTGGATTAAAAACTCTTTAAAAAAT
66 AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAT
71238 GGCAATGAAG
Statistics
Matches: 1236, Mismatches: 78, Indels: 49
0.91 0.06 0.04
Matches are distributed among these distances:
148 45 0.04
149 48 0.04
150 84 0.07
151 115 0.09
152 324 0.26
153 239 0.19
154 221 0.18
155 156 0.13
156 4 0.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (152 bp):
TTCACTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGGG
AAAAGATTACATTGTACAAGTT
Found at i:71123 original size:460 final size:459
Alignment explanation
Indices: 69749--71236 Score: 2297
Period size: 460 Copynumber: 3.3 Consensus size: 459
69739 GGGTATGACA
* * * **
69749 TTCACTGTATTTGGAACGAGACAAACACACAACATTATTAGG-AAAAAAGATATAAAAAAAC-AG
1 TTCATTGTATTGGGAACAAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTA-
*
69812 CAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAA-TCACTGTTAG
65 TAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAG
* * **
69876 GGAAAAGATTACATTGTAC-ATTTTTCACTGTATTGGAAATGAGACAAACACACTCCATTATTAG
130 GGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACAAGACAAACACACTCCATTATTAG
* * * ** *
69940 GAAAAAACATATATAAAAAATCTATAAACAAATTTAAGTTTCATGTATTGGGTTTGGATTGAAAA
195 GAAAAAAAATATA-AAAAAAACTATAGACACTTTTAAGTTTCATGTATTGGGTTTCGATTGAAAA
* * *
70005 TTC-TTAAAACAATTCACTGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGAAAC
259 CTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAAC
* * *
70069 GAGACAAACACACTCCATTATTAGGAAAAAAACATATATAAAAAATCTATAAACACATTTAAGTT
324 GAGACAAACACACTCCATTATTAGGAAAAAAATATATA-AAAAAAACTATAGACACATTTAAGTT
*
70134 TCATGTATTGGGTTTGGATTGAAAATTC-TTAAAACAATTCACTGTTAGGGAAAAGATTACATTG
388 TCATGTATTGGGTTTGGATTGAAAACTCTTTAAAA-AATTCACTGTTAGGGAAAAGATTACATTG
70198 TACAAGTT
452 TACAAGTT
* * ** *
70206 TTCCTT-TATTGGTAACAAGACAAACACACTCCATTATTAGGGGGGAAAAAGATATAAAAATACT
1 TTCATTGTATTGGGAACAAGACAAACACACTCCATTATTA--GGAAAAAAAGATATAAAAAAACT
* *
70270 ATAGACTCATTTAAGATTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTA
64 ATAGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTA
*
70335 GGGAAAAGATTACATTGTACAAG-TTTCACTGTATTGGGAAGAAGACAAACACACTCCATTATTA
129 GGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACAAGACAAACACACTCCATTATTA
*
70399 GGAAAAAAAGATAT-AAAAAAA-TATAGACACTTTTAAGTTT-ATGTATTGGGTTTTGATTGAAA
194 GGAAAAAAA-ATATAAAAAAAACTATAGACACTTTTAAGTTTCATGTATTGGGTTTCGATTGAAA
* * *
70461 ACTCTTT--AAAAATCCACTGTTAGGGAAAAGATTACATTATACAAGTTTTCATTGTATTGGGAA
258 ACTCTTTAAAAAAATTCACTGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAA
*
70524 GGAGACAAACACACTCCATTATTAGGAAAAAAGATA-A-AAAAAAAACTATAGACACATTTAAGT
323 CGAGACAAACACACTCCATTATTAGGAAAAAA-ATATATAAAAAAAACTATAGACACATTTAAGT
*
70587 TTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGGGAAAAGTTTACATTG
387 TTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGGGAAAAGATTACATTG
70652 TACAAGTT
452 TACAAGTT
*
70660 TTCATTGTATTGGGAACGAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
1 TTCATTGTATTGGGAACAAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
* *
70725 AGACACGTTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTATTAGG
66 AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGG
70790 GAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACAAGACAAACACACTCCATTATTAGG
131 GAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACAAGACAAACACACTCCATTATTAGG
*
70855 AAAAAAAATATAAAAAAAAACTATAGACACTTTTAAGTTTCATGTACTGGGTTTCGATTGAAAAC
196 AAAAAAAATAT-AAAAAAAACTATAGACACTTTTAAGTTTCATGTATTGGGTTTCGATTGAAAAC
*
70920 TCTTTAAAAAAAATTCAGTGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAAC
260 TCTTT-AAAAAAATTCACTGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAAC
* * * *
70985 GAGACAAACACACTCCATTAATAAGAAAAAAATATATAAAAAAAACTATAGAGACTTTTAAGTTT
324 GAGACAAACACACTCCATTATTAGGAAAAAAATATATAAAAAAAACTATAGACACATTTAAGTTT
* *
71050 CATGTATTGGGTTTGGATTGGAAACTCTTTAAAAAATT-ACTATTAGGGAAAAGATTACATTGTA
389 CATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGGGAAAAGATTACATTGTA
71114 CAAGTT
454 CAAGTT
* *
71120 TTCAGTGTATTGGGAACAAGACAAACACATTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
1 TTCATTGTATTGGGAACAAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
* * *
71185 AGATACGTTTAAGTTTCATGTATTGGGTTTGGATTAAAAACTCTTTAAAAAA
66 AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAA
71237 TGGCAATGAA
Statistics
Matches: 946, Mismatches: 64, Indels: 39
0.90 0.06 0.04
Matches are distributed among these distances:
453 108 0.11
454 141 0.15
455 45 0.05
456 130 0.14
457 57 0.06
458 20 0.02
459 77 0.08
460 300 0.32
461 68 0.07
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (459 bp):
TTCATTGTATTGGGAACAAGACAAACACACTCCATTATTAGGAAAAAAAGATATAAAAAAACTAT
AGACACATTTAAGTTTCATGTATTGGGTTTGGATTGAAAACTCTTTAAAAAAATTCACTGTTAGG
GAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACAAGACAAACACACTCCATTATTAGG
AAAAAAAATATAAAAAAAACTATAGACACTTTTAAGTTTCATGTATTGGGTTTCGATTGAAAACT
CTTTAAAAAAATTCACTGTTAGGGAAAAGATTACATTGTACAAGTTTTCACTGTATTGGGAACGA
GACAAACACACTCCATTATTAGGAAAAAAATATATAAAAAAAACTATAGACACATTTAAGTTTCA
TGTATTGGGTTTGGATTGAAAACTCTTTAAAAAATTCACTGTTAGGGAAAAGATTACATTGTACA
AGTT
Found at i:79765 original size:21 final size:21
Alignment explanation
Indices: 79720--79778 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
79710 AAATCAGTCG
*
79720 TTTGTAACTCATGCAATAAAAC
1 TTTGTAACTCTTGC-ATAAAAC
*
79742 TTTGTAACTCTTGCATAAAGC
1 TTTGTAACTCTTGCATAAAAC
79763 TTTGTAACTCTTGCAT
1 TTTGTAACTCTTGCAT
79779 TTATTCTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 22 0.63
22 13 0.37
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (21 bp):
TTTGTAACTCTTGCATAAAAC
Done.