Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008073.1 Hibiscus syriacus cultivar Beakdansim tig00110575_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: 510636
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 3
Found at i:881 original size:81 final size:83
Alignment explanation
Indices: 731--891 Score: 227
Period size: 81 Copynumber: 2.0 Consensus size: 83
721 CGTATATTTG
* * * *
731 TTTAATATTTTAAATTTAAAAGATATTGTTATCTGTTTAAATTTAGATATTAAAACATATCTGGT
1 TTTAATATTTTAAATTTAAAAGATATTATTATCTGTTTAAATTTAGATATTAAAACAGATCTAGA
*
796 TGGAGTAAATCTCTCAGA
66 TGGAGTAAAACTCTCAGA
* * * *
814 TTTAATATTTTAAATTT-AAA-ATATTATTATCTTTTTAAATTTAGTTATTAAAAGAGATTTAGA
1 TTTAATATTTTAAATTTAAAAGATATTATTATCTGTTTAAATTTAGATATTAAAACAGATCTAGA
877 TGGAGTAAAACTCTC
66 TGGAGTAAAACTCTC
892 TCGAAATTCC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 49 0.71
82 3 0.04
83 17 0.25
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.45
Consensus pattern (83 bp):
TTTAATATTTTAAATTTAAAAGATATTATTATCTGTTTAAATTTAGATATTAAAACAGATCTAGA
TGGAGTAAAACTCTCAGA
Found at i:7583 original size:17 final size:17
Alignment explanation
Indices: 7561--7597 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7551 TAGTTCAGGC
7561 ATCGACCCAAGTTAGGG
1 ATCGACCCAAGTTAGGG
7578 ATCGACCCAAGTTAGGG
1 ATCGACCCAAGTTAGGG
7595 ATC
1 ATC
7598 AGAGTAGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (17 bp):
ATCGACCCAAGTTAGGG
Found at i:11263 original size:6 final size:6
Alignment explanation
Indices: 11252--11285 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
11242 CAGATCACTT
11252 GTAGCA GTAGCA GTAGCA GTAGCA GTAGCA GTAG
1 GTAGCA GTAGCA GTAGCA GTAGCA GTAGCA GTAG
11286 GTAAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.35, T:0.18
Consensus pattern (6 bp):
GTAGCA
Found at i:13145 original size:21 final size:21
Alignment explanation
Indices: 13115--13162 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
13105 TAATTTTCAA
*
13115 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
13136 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
13157 ACATTG
1 ACATTG
13163 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:17793 original size:21 final size:21
Alignment explanation
Indices: 17763--17810 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
17753 TAATTTTCAA
17763 ACATTATTGCACCTAATTTTG
1 ACATTATTGCACCTAATTTTG
*
17784 ACATTGTTGCACCTAATTTTG
1 ACATTATTGCACCTAATTTTG
17805 ACATTA
1 ACATTA
17811 CAATATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (21 bp):
ACATTATTGCACCTAATTTTG
Found at i:19247 original size:22 final size:22
Alignment explanation
Indices: 19222--19271 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
19212 GATTAATTAA
19222 GATGATGTTTATTTGTTATCAT
1 GATGATGTTTATTTGTTATCAT
19244 GATGATGTTTATTTGTTATCAT
1 GATGATGTTTATTTGTTATCAT
19266 GATGAT
1 GATGAT
19272 TTTCTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (22 bp):
GATGATGTTTATTTGTTATCAT
Found at i:25848 original size:42 final size:42
Alignment explanation
Indices: 25786--25941 Score: 294
Period size: 42 Copynumber: 3.7 Consensus size: 42
25776 GTCATTGCCA
*
25786 TCTTCTCCAGCCAAGCCAGTGGCGACTACTGCCTCTGTTCCC
1 TCTTCTCCAGCCAAGTCAGTGGCGACTACTGCCTCTGTTCCC
25828 TCTTCTCCAGCCAAGTCAGTGGCGACTACTGCCTCTGTTCCC
1 TCTTCTCCAGCCAAGTCAGTGGCGACTACTGCCTCTGTTCCC
*
25870 TCTTCTCCAGCCAAGTCAGTGGCGACTACTGCCTCTATTCCC
1 TCTTCTCCAGCCAAGTCAGTGGCGACTACTGCCTCTGTTCCC
25912 TCTTCTCCAGCCAAGTCAGTGGCGACTACT
1 TCTTCTCCAGCCAAGTCAGTGGCGACTACT
25942 ACTTCCTCGG
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 112 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.28
Consensus pattern (42 bp):
TCTTCTCCAGCCAAGTCAGTGGCGACTACTGCCTCTGTTCCC
Found at i:25983 original size:84 final size:83
Alignment explanation
Indices: 25787--25974 Score: 250
Period size: 84 Copynumber: 2.2 Consensus size: 83
25777 TCATTGCCAT
* * *
25787 CTTCTCCAGCCAAGCCAGTGGCGACTACTGCCTCTGTTCCCTCTTCTCCAGCCAAGTCAGTGGCG
1 CTTCACCAGCCAAGACAGT-GCGACTACTGCCTCTATTCCCTCTTCTCCAGCCAAGTCAGTGGCG
* **
25852 ACTACTGCCTCTGTTCCCT
65 ACTACTGCCTCGGTTCCAA
* *
25871 CTTCTCCAGCCAAGTCAGTGGCGACTACTGCCTCTATTCCCTCTTCTCCAGCCAAGTCAGTGGCG
1 CTTCACCAGCCAAGACAGT-GCGACTACTGCCTCTATTCCCTCTTCTCCAGCCAAGTCAGTGGCG
*
25936 ACTACTACTTCCTCGGTTCCAA
65 ---ACTACTGCCTCGGTTCCAA
25958 CTTCACCAGCCAAGACA
1 CTTCACCAGCCAAGACA
25975 TCTCCTACTA
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
84 63 0.68
87 30 0.32
ACGTcount: A:0.18, C:0.38, G:0.18, T:0.26
Consensus pattern (83 bp):
CTTCACCAGCCAAGACAGTGCGACTACTGCCTCTATTCCCTCTTCTCCAGCCAAGTCAGTGGCGA
CTACTGCCTCGGTTCCAA
Found at i:31826 original size:16 final size:16
Alignment explanation
Indices: 31802--31835 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
31792 TATCGCCGAC
*
31802 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
31818 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
31834 CG
1 CG
31836 TGAATAGTAA
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:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:35501 original size:21 final size:22
Alignment explanation
Indices: 35476--35526 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
35466 AGTTGTGGGG
35476 ATGTTTTTAGT-TTTTTATTAA
1 ATGTTTTTAGTATTTTTATTAA
* *
35497 ATGTTTTTTGTATTTTTATTTA
1 ATGTTTTTAGTATTTTTATTAA
35519 AT-TTTTTA
1 ATGTTTTTA
35527 AATAATTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.71
Consensus pattern (22 bp):
ATGTTTTTAGTATTTTTATTAA
Found at i:39180 original size:18 final size:17
Alignment explanation
Indices: 39159--39193 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
39149 TTTTTTTATT
*
39159 ATAATATTATTTTTAAAA
1 ATAAAATTA-TTTTAAAA
39177 ATAAAATTATTTTAAAA
1 ATAAAATTATTTTAAAA
39194 TTTTATATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAAAATTATTTTAAAA
Found at i:39959 original size:16 final size:16
Alignment explanation
Indices: 39938--39976 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
39928 TTACCCGACT
39938 TGTTTTTCACCTGACA
1 TGTTTTTCACCTGACA
* *
39954 TGTTTTCCACCTGACC
1 TGTTTTTCACCTGACA
39970 TGTTTTT
1 TGTTTTT
39977 AATCTGACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.49
Consensus pattern (16 bp):
TGTTTTTCACCTGACA
Found at i:40506 original size:27 final size:28
Alignment explanation
Indices: 40476--40579 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 28
40466 CCCGAACCCG
*
40476 AAAATATTATATATATAATTA-ATATGA
1 AAAATATTATATATATAATTATATATAA
40503 AAAATA-T-TATATATAATTAATATATAA
1 AAAATATTATATATATAATT-ATATATAA
* *
40530 AAAATATAAAATAATATATATATATATATAA
1 AAAATATTATAT-ATATA-AT-TATATATAA
40561 AATAATATATATATATATA
1 AA-AATAT-TATATATATA
40580 TAATCGGGGC
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
25 11 0.17
26 2 0.03
27 17 0.27
29 2 0.03
30 5 0.08
31 12 0.19
32 11 0.17
33 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (28 bp):
AAAATATTATATATATAATTATATATAA
Found at i:40547 original size:10 final size:10
Alignment explanation
Indices: 40524--40569 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
40514 TATAATTAAT
40524 ATATAAAA-A
1 ATATAAAATA
40533 ATATAAAATA
1 ATATAAAATA
*
40543 ATATATATATA
1 ATATA-AAATA
40554 TATATAAAATA
1 -ATATAAAATA
40565 ATATA
1 ATATA
40570 TATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 8 0.25
10 11 0.34
11 8 0.25
12 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATATAAAATA
Found at i:40548 original size:2 final size:2
Alignment explanation
Indices: 40543--40581 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
40533 ATATAAAATA
*
40543 AT AT AT AT AT AT AT AT A- AA AT A- 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 AT A
40582 ATCGGGGCGG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:40558 original size:22 final size:22
Alignment explanation
Indices: 40479--40582 Score: 106
Period size: 22 Copynumber: 4.7 Consensus size: 22
40469 GAACCCGAAA
*
40479 ATAT-TATATATAT-AATTAAT
1 ATATATATATATATAAAATAAT
* * *
40499 ATGAAAAATATTATATATAATTAAT
1 AT-ATATATA-TATATA-AAATAAT
* *
40524 ATATA-AAAAATATAAAATAAT
1 ATATATATATATATAAAATAAT
40545 ATATATATATATATAAAATAAT
1 ATATATATATATATAAAATAAT
40567 ATATATATATATATAA
1 ATATATATATATATAA
40583 TCGGGGCGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.03
21 12 0.17
22 38 0.54
23 7 0.10
24 2 0.03
25 9 0.13
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (22 bp):
ATATATATATATATAAAATAAT
Found at i:40640 original size:12 final size:12
Alignment explanation
Indices: 40623--40648 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
40613 AACCCGACCC
40623 GAAAAAATCCCT
1 GAAAAAATCCCT
40635 GAAAAAATCCCT
1 GAAAAAATCCCT
40647 GA
1 GA
40649 TACCCAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAAAATCCCT
Found at i:40834 original size:7 final size:7
Alignment explanation
Indices: 40822--40862 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
40812 TTTACATTAG
40822 GGTTTAT
1 GGTTTAT
40829 GGTTTAT
1 GGTTTAT
*
40836 GATTTA-
1 GGTTTAT
40842 GTGTTTAT
1 G-GTTTAT
40850 GGTTTAT
1 GGTTTAT
40857 GGTTTA
1 GGTTTA
40863 AAATTTAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 1 0.03
7 28 0.93
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (7 bp):
GGTTTAT
Found at i:40842 original size:21 final size:21
Alignment explanation
Indices: 40818--40862 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
40808 TCCATTTACA
40818 TTAGGGTTTATGGTTTATGAT
1 TTAGGGTTTATGGTTTATGAT
* *
40839 TTAGTGTTTATGGTTTATGGT
1 TTAGGGTTTATGGTTTATGAT
40860 TTA
1 TTA
40863 AAATTTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.56
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTATGAT
Found at i:40869 original size:21 final size:21
Alignment explanation
Indices: 40824--40876 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
40814 TACATTAGGG
***
40824 TTTATGGTTTATGATTTAGTG
1 TTTATGGTTTATGATTTAAAA
*
40845 TTTATGGTTTATGGTTTAAAA
1 TTTATGGTTTATGATTTAAAA
*
40866 TTTAGGGTTTA
1 TTTATGGTTTA
40877 GAATTTATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (21 bp):
TTTATGGTTTATGATTTAAAA
Found at i:40876 original size:7 final size:7
Alignment explanation
Indices: 40818--40908 Score: 51
Period size: 7 Copynumber: 13.3 Consensus size: 7
40808 TCCATTTACA
40818 TTAGGGT
1 TTAGGGT
*
40825 TTATGGT
1 TTAGGGT
* *
40832 TTATGAT
1 TTAGGGT
*
40839 TTAGTGT
1 TTAGGGT
*
40846 TTATGGT
1 TTAGGGT
*
40853 TTATGGT
1 TTAGGGT
***
40860 TTAAAAT
1 TTAGGGT
40867 TTAGGGT
1 TTAGGGT
**
40874 TTAGAAT
1 TTAGGGT
* *
40881 TTA-TGA
1 TTAGGGT
40887 TTAGGG-
1 TTAGGGT
40893 TTAGGGT
1 TTAGGGT
40900 TTAGGGT
1 TTAGGGT
40907 TT
1 TT
40909 CTATAATTTA
Statistics
Matches: 63, Mismatches: 19, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
6 9 0.14
7 54 0.86
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (7 bp):
TTAGGGT
Found at i:41010 original size:15 final size:13
Alignment explanation
Indices: 40983--41035 Score: 76
Period size: 13 Copynumber: 4.3 Consensus size: 13
40973 TAATTTACTT
40983 TATATAGTTTATA
1 TATATAGTTTATA
*
40996 TATATAGGTTATA
1 TATATAGTTTATA
41009 TATATA---TATA
1 TATATAGTTTATA
41019 TATATAGTTTATA
1 TATATAGTTTATA
41032 TATA
1 TATA
41036 CTATACATTG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
10 10 0.28
13 26 0.72
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:41048 original size:20 final size:19
Alignment explanation
Indices: 41009--41049 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
40999 ATAGGTTATA
*
41009 TATATATATATATATAGTT
1 TATATATATATACATAGTT
*
41028 TATATATACTATACATTGTT
1 TATATATA-TATACATAGTT
41048 TA
1 TA
41050 CACATACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
TATATATATATACATAGTT
Found at i:41874 original size:14 final size:14
Alignment explanation
Indices: 41852--41909 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
41842 TTCATTTACA
* *
41852 TTAAGGTTTATGGT
1 TTAAAGTTTAGGGT
41866 TTAAAGTTTAGGGT
1 TTAAAGTTTAGGGT
* * * *
41880 GTATAGTTTATGAT
1 TTAAAGTTTAGGGT
*
41894 TTAAGGTTTAGGGT
1 TTAAAGTTTAGGGT
41908 TT
1 TT
41910 TTATAAACTA
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (14 bp):
TTAAAGTTTAGGGT
Found at i:42589 original size:4 final size:4
Alignment explanation
Indices: 42580--42761 Score: 256
Period size: 4 Copynumber: 45.5 Consensus size: 4
42570 TATATAGTTT
42580 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
42628 ATGC ATAC ATGC ATAC ATGC ATAC ATGC ATAC ATGC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
42676 ATGC ATGC ATGC ATAC ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
42724 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
42762 GGTTATTTTA
Statistics
Matches: 162, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 162 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:43084 original size:842 final size:846
Alignment explanation
Indices: 41922--43607 Score: 3200
Period size: 842 Copynumber: 2.0 Consensus size: 846
41912 ATAAACTATA
41922 TATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTTATTTACTTTAT
1 TATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTTATTTACTTTAT
41987 ATATATATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATT
66 ATATATATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATT
42052 TAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATAT
131 TAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATAT
42117 TATATGCTTCATAAATAGCAGTACATGTCATTAATTTTATTTGCATAATTAGTATTTTAGTTATA
196 TATATGCTTCATAAATAGCAGTACATGTCATTAATTTTATTTGCATAATTAGTATTTTAGTTATA
42182 TGTTAGGTTAATTCACAATAATAGCCCATTTATTTTGTTGTTATAAATAAGTAATAATAAAACCC
261 TGTTAGGTTAATTCACAATAATAGCCCATTTATTTTGTTGTTATAAATAAGTAATAATAAAACCC
42247 AAAAATAAGTCCATTTGCATTAGTGTTTGTCCATTTACATTAGTTTACATAGGCCCAATACATAA
326 AAAAATAAGTCCATTTGCATTAGTGTTTGTCCATTTACATTAGTTTACATAGGCCCAATACATAA
42312 GCCCACTCTTTTATTACAAATATATATGCATTAGTGTTAGTCCATTTACATTAGAGTTTAGTATA
391 GCCCACTCTTTTATTACAAATATATATGCATTAGTGTTAGTCCATTTACATTAGAGTTTAGTATA
*
42377 TATGGTTTAAAGTTTAGGATTTAGTGTTTAGGGTTTAGAGTTTTCTAATAAACTATATACTTTAT
456 TATGGTTTAAAGTTTAGGATTTAGTATTTAGGGTTTAGAGTTTTCTAATAAACTATATACTTTAT
42442 TACTTTATATAGTTTATACAGTGTTTCTAT-A-ATATATATATATATATAATCTATAGATTACTT
521 TACTTTATATAGTTTATACAGTGTTTCTATAATATATATATATATATATAATCTATAGATTACTT
42505 ATATTAGTTATACATACATATATATACTATATTAATATAATTTATAATTTATAAACTATATATTT
586 ATATTAGTTATACATACATATATATACTATATTAATATAATTTATAATTTATAAACTATATATTT
*
42570 TATATAGTTTATACATACATACATACATACATACATACATACATACATACATACATACATGCATA
651 TATATAGTTTATACATACATACATACATACATACATACATACATACATACATACATACATACATA
* * * * * * * * * *
42635 CATGCATACATGCATACATGC-ATACATGCATACATGCATACATGCATGCATGCATACATGCATG
716 CATACATACATACATACATACAATACATACATACATACATACATACATACATACATACATACATA
*
42699 CATGCATACATACATACATACATACATACATACATACATACATACATACATACATACATACATGG
781 CATACATACATACATACATACATACATACATACATACATACATACATACATACATACATACATGG
42764 T
846 T
42765 TATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTTATTTACTTTAT
1 TATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTTATTTACTTTAT
42830 ATATATATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATT
66 ATATATATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATT
42895 TAAATGT-AATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATAT
131 TAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATAT
42959 TATATGCTTCATAAATAGCAGTACATGTCATTAATTTTATTTGCATAATTAGTATTTTAGTTATA
196 TATATGCTTCATAAATAGCAGTACATGTCATTAATTTTATTTGCATAATTAGTATTTTAGTTATA
43024 TGTTAGGTTAATTCACAATAATAGCCCATTTATTTTGTTGTTATAAATAAGTAATAATAAAACCC
261 TGTTAGGTTAATTCACAATAATAGCCCATTTATTTTGTTGTTATAAATAAGTAATAATAAAACCC
43089 AAAAATAAGTCCATTTGCATTAGTGTTTGTCCATTTACATTAGTTTACATAGGCCCAATACATAA
326 AAAAATAAGTCCATTTGCATTAGTGTTTGTCCATTTACATTAGTTTACATAGGCCCAATACATAA
* *
43154 GCCCACTCTTTTATTACAAATATATATGCATTAGTGTTAGTCCATTTATATTAGAGTTTAGTGTA
391 GCCCACTCTTTTATTACAAATATATATGCATTAGTGTTAGTCCATTTACATTAGAGTTTAGTATA
43219 TATGGTTTAAAGTTTAGGATTTAGTATTTAGGGTTTAGAGTTTTCTAATAAACTATATACTTTAT
456 TATGGTTTAAAGTTTAGGATTTAGTATTTAGGGTTTAGAGTTTTCTAATAAACTATATACTTTAT
43284 TACTTTATATAGTTTATACAGTGTTTCTATAATATATATATATATATATAATCTATAGATTACTT
521 TACTTTATATAGTTTATACAGTGTTTCTATAATATATATATATATATATAATCTATAGATTACTT
43349 ATATTAGTTATACATACATATATATACTATATTAATATAATTTATAATTTATAAACTATATATTT
586 ATATTAGTTATACATACATATATATACTATATTAATATAATTTATAATTTATAAACTATATATTT
43414 TATATAGTTTATACATACATACATACATACATACATACATACATACATACATACATACATACATA
651 TATATAGTTTATACATACATACATACATACATACATACATACATACATACATACATACATACATA
43479 CATACATACATACATACATACATATACATACATACATACATACATACATACATACATACATACAT
716 CATACATACATACATACATACA-ATACATACATACATACATACATACATACATACATACATACAT
43544 ACATACATACATACATACATACATACATACATACATACATACATACATACATACATACATACAT
780 ACATACATACATACATACATACATACATACATACATACATACATACATACATACATACATACAT
43608 ACATACATAC
Statistics
Matches: 824, Mismatches: 15, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
842 409 0.50
843 138 0.17
844 179 0.22
846 98 0.12
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (846 bp):
TATTTTATTACTTTATATAGTTTATGCATAGTGTTTCTATAAACTATATAAGTTATTTACTTTAT
ATATATATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATT
TAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATAT
TATATGCTTCATAAATAGCAGTACATGTCATTAATTTTATTTGCATAATTAGTATTTTAGTTATA
TGTTAGGTTAATTCACAATAATAGCCCATTTATTTTGTTGTTATAAATAAGTAATAATAAAACCC
AAAAATAAGTCCATTTGCATTAGTGTTTGTCCATTTACATTAGTTTACATAGGCCCAATACATAA
GCCCACTCTTTTATTACAAATATATATGCATTAGTGTTAGTCCATTTACATTAGAGTTTAGTATA
TATGGTTTAAAGTTTAGGATTTAGTATTTAGGGTTTAGAGTTTTCTAATAAACTATATACTTTAT
TACTTTATATAGTTTATACAGTGTTTCTATAATATATATATATATATATAATCTATAGATTACTT
ATATTAGTTATACATACATATATATACTATATTAATATAATTTATAATTTATAAACTATATATTT
TATATAGTTTATACATACATACATACATACATACATACATACATACATACATACATACATACATA
CATACATACATACATACATACAATACATACATACATACATACATACATACATACATACATACATA
CATACATACATACATACATACATACATACATACATACATACATACATACATACATACATACATGG
T
Found at i:43433 original size:4 final size:4
Alignment explanation
Indices: 43424--46260 Score: 5250
Period size: 4 Copynumber: 716.5 Consensus size: 4
43414 TATATAGTTT
43424 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43472 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43518 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43566 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43614 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43662 ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43708 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43756 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43804 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43852 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
43900 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
43948 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC
* * * * * * * * * * *
43997 ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44045 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44093 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44139 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44187 ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC
44236 ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44282 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44330 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44378 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44426 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44474 ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44518 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44566 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44614 ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44661 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44709 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44757 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44805 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44853 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44901 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44949 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
44997 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45045 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45093 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45141 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45188 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45236 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45284 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45332 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45378 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45426 ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45472 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
45520 ATAC ATGC ATGC ATGC ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45568 ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45614 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45661 ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45706 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45753 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45801 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45849 ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45895 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45943 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
45991 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
46039 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
46087 ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
46131 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
46179 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
46227 ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
46261 GGTTATTTTA
Statistics
Matches: 2794, Mismatches: 6, Indels: 66
0.97 0.00 0.02
Matches are distributed among these distances:
2 26 0.01
3 15 0.01
4 2745 0.98
5 8 0.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:46818 original size:2 final size:2
Alignment explanation
Indices: 46811--46844 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
46801 ACAGTGTTTC
*
46811 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46845 GATTACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46905 original size:2 final size:2
Alignment explanation
Indices: 46898--46923 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46888 TATAATTTAT
46898 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
46924 GGGTTGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:47321 original size:27 final size:26
Alignment explanation
Indices: 47290--47353 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 26
47280 TGATAGTGGC
*
47290 TCTGAATCATTCAGAATGTACTTCTGT
1 TCTGAATCATTCAG-ATGTACTTCTAT
47317 TCTGAATCATT---ATGTACTTCTAT
1 TCTGAATCATTCAGATGTACTTCTAT
*
47340 GCTGAATCATTCAG
1 TCTGAATCATTCAG
47354 TACTATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
23 21 0.66
27 11 0.34
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (26 bp):
TCTGAATCATTCAGATGTACTTCTAT
Found at i:52942 original size:20 final size:20
Alignment explanation
Indices: 52917--52959 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
52907 GAAGGGACTT
52917 TTCCCCTATATCCCTTCTTC
1 TTCCCCTATATCCCTTCTTC
52937 TTCCCCTATATCCCTTCTTC
1 TTCCCCTATATCCCTTCTTC
52957 TTC
1 TTC
52960 AGTACATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.44, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCCCCTATATCCCTTCTTC
Found at i:55049 original size:62 final size:60
Alignment explanation
Indices: 54966--55277 Score: 186
Period size: 62 Copynumber: 5.0 Consensus size: 60
54956 AACAGATATC
* *
54966 AATA-TATTTTCATTTGAAATATTCAAAAGATAAAACTCATTTTACCATTCAAACTTAAAT
1 AATATTATTTTAATTTGAAATATTCAAAAGATAAAA-TCATTTTAACATTCAAACTTAAAT
* * * *
55026 AAGTATTATTTTAATTTGAAATATACAAAAGTATATAATTATCTTTAACATTCAAAGTTAAAAAG
1 AA-TATTATTTTAATTTGAAATATTCAAAAG-ATAAAATCAT-TTTAACATTCAAACTT--AAA-
55091 GT
60 -T
* * * * * ** *
55093 AACAAATACCTTTTTAAGTTGACATATTC-AAAGAGTAATTATCATACTAATATTCAAA-TTAAA
1 AA-TATTA---TTTTAATTTGAAATATTCAAAAGA-TAA-AATCATTTTAACATTCAAACTTAAA
55156 T
60 T
* ** * * *
55157 AATA-TA-TTTAATTTGCAATGGTCAAAAGATAAACTCCTTTT-ACTATTCAAACTTAAAC
1 AATATTATTTTAATTTGAAATATTCAAAAGATAAAATCATTTTAAC-ATTCAAACTTAAAT
** * * *
55215 ATATATTATTTTAATTTGAAATATAAAAAAGTATATAATCATCTTTTAATATTCAAAATTAAA
1 A-ATATTATTTTAATTTGAAATATTCAAAAG-ATAAAATCA--TTTTAACATTCAAACTTAAA
55278 AAGATAACAA
Statistics
Matches: 188, Mismatches: 41, Indels: 42
0.69 0.15 0.15
Matches are distributed among these distances:
56 1 0.01
57 11 0.06
58 21 0.11
59 8 0.04
60 4 0.02
61 19 0.10
62 34 0.18
63 20 0.11
64 19 0.10
65 4 0.02
66 3 0.02
67 6 0.03
68 3 0.02
69 16 0.09
70 19 0.10
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (60 bp):
AATATTATTTTAATTTGAAATATTCAAAAGATAAAATCATTTTAACATTCAAACTTAAAT
Found at i:55318 original size:190 final size:190
Alignment explanation
Indices: 54988--55345 Score: 576
Period size: 190 Copynumber: 1.9 Consensus size: 190
54978 TTTGAAATAT
* *
54988 TCAAAAGATAAAACTCATTTTACCATTCAAACTTAAATAAGTATTATTTTAATTTGAAATATACA
1 TCAAAAGATAAAACTCATTTTACCATTCAAACTTAAACAAGTATTATTTTAATTTGAAATATAAA
* * * * *
55053 AAAGTATATAATTATCTTTAACATTCAAAGTTAAAAAGGTAACAAATACCTTTTTAAGTTGACAT
66 AAAGTATATAATCATCTTTAACATTCAAAATTAAAAAGATAACAAATACCTTTTCAAATTGACAT
*
55118 ATTCAAAGAGTAATTATCATACTAATATTCAAATTAAATAATATATTTAATTTGCAATGG
131 ATTAAAAGAGTAATTATCATACTAATATTCAAATTAAATAATATATTTAATTTGCAATGG
* *
55178 TCAAAAGAT-AAACTCCTTTTACTATTCAAACTTAAACATA-TATTATTTTAATTTGAAATATAA
1 TCAAAAGATAAAACTCATTTTACCATTCAAACTTAAACA-AGTATTATTTTAATTTGAAATATAA
*
55241 AAAAGTATATAATCATCTTTTAATATTCAAAATTAAAAAGATAACAAATACCTTTTCAAATTGAC
65 AAAAGTATATAATCATC-TTTAACATTCAAAATTAAAAAGATAACAAATACCTTTTCAAATTGAC
*
55306 TTATTAAAAGAGTAATTATCATACTAATATTCAAATTAAA
129 ATATTAAAAGAGTAATTATCATACTAATATTCAAATTAAA
55346 AATTATCTTT
Statistics
Matches: 154, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
189 64 0.42
190 90 0.58
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (190 bp):
TCAAAAGATAAAACTCATTTTACCATTCAAACTTAAACAAGTATTATTTTAATTTGAAATATAAA
AAAGTATATAATCATCTTTAACATTCAAAATTAAAAAGATAACAAATACCTTTTCAAATTGACAT
ATTAAAAGAGTAATTATCATACTAATATTCAAATTAAATAATATATTTAATTTGCAATGG
Found at i:75089 original size:67 final size:67
Alignment explanation
Indices: 74827--75096 Score: 287
Period size: 67 Copynumber: 4.0 Consensus size: 67
74817 AATCAAATTG
* * * * * * *
74827 ATCAACCATATCGTATACGACAAAAAGAGTTAAGATCAAATCCCCTGCATTACCAAGAACTTCCA
1 ATCAACCACATCGAACACGACAAAAAGA-AT-A-ATTAAATCCCCTGCATGACCAACAACTTCCA
74892 ATTTA
63 ATTTA
* * * *
74897 ATCAACCACATCGAACACGACAAAAAGAATAATTAGATCCCC-GACATGAACGACAACTTCCCAT
1 ATCAACCACATCGAACACGACAAAAAGAATAATTAAATCCCCTG-CATGACCAACAACTTCCAAT
74961 TTA
65 TTA
* * * **
74964 ATCAACCATATCGTAAGCA--ACAAAAAGAACAATTAGATCCCCAACATGACCAACAACTTCCAA
1 ATCAACCACATCG-AA-CACGACAAAAAGAATAATTAAATCCCCTGCATGACCAACAACTTCCAA
75027 TTTA
64 TTTA
* * *
75031 ATCAACCACATCGAACACGACAAAAAGAATAATTAAATCCCCTGCATCAGCAATAACTTCC-ATT
1 ATCAACCACATCGAACACGACAAAAAGAATAATTAAATCCCCTGCATGACCAACAACTTCCAATT
75095 TA
66 TA
75097 CCTCTCTATG
Statistics
Matches: 169, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
65 2 0.01
66 8 0.05
67 128 0.76
68 3 0.02
69 3 0.02
70 25 0.15
ACGTcount: A:0.44, C:0.27, G:0.09, T:0.21
Consensus pattern (67 bp):
ATCAACCACATCGAACACGACAAAAAGAATAATTAAATCCCCTGCATGACCAACAACTTCCAATT
TA
Found at i:85276 original size:24 final size:24
Alignment explanation
Indices: 85226--85297 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
85216 AACAGATTAG
85226 ATAGATTTATTAATCATA--TTGA
1 ATAGATTTATTAATCATACTTTGA
85248 ATAGATTTATTAATCATACTTTGA
1 ATAGATTTATTAATCATACTTTGA
*
85272 ATAGATGTATTAATCATACTTTGA
1 ATAGATTTATTAATCATACTTTGA
85296 AT
1 AT
85298 TTTATTCCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
22 18 0.38
24 29 0.62
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (24 bp):
ATAGATTTATTAATCATACTTTGA
Found at i:85663 original size:58 final size:56
Alignment explanation
Indices: 85566--85681 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 56
85556 AACCTACAAA
* * * *
85566 TTTATGTTGTTATAACAATAATAACATCGATTCAGTAAATGCTTAAAAGAAATCGTTG
1 TTTATGTTGTTATAACAATAATAACATCAACTAAATAAATGCTT-AAA-AAATCGTTG
* * *
85624 TTTATGTTGTTATAACAATAATAATATTAACTAAATAAATGGTTAAAAAATCGTTG
1 TTTATGTTGTTATAACAATAATAACATCAACTAAATAAATGCTTAAAAAATCGTTG
85680 TT
1 TT
85682 GTTCCCAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 11 0.22
57 3 0.06
58 37 0.73
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (56 bp):
TTTATGTTGTTATAACAATAATAACATCAACTAAATAAATGCTTAAAAAATCGTTG
Found at i:93465 original size:21 final size:21
Alignment explanation
Indices: 93439--93581 Score: 164
Period size: 21 Copynumber: 6.7 Consensus size: 21
93429 AGGGTGTCAA
*
93439 AGTGCATCTATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* * * *
93460 AGTGCATCTATACACCCTTAC
1 AGTGCATCCATGCACCCCTGC
*
93481 AGTGCATCCATGCACCTCTGC
1 AGTGCATCCATGCACCCCTGC
*
93502 AGTGCATCCATGCACCTCTGC
1 AGTGCATCCATGCACCCCTGC
93523 AGTGCATCCATGCACATGCCACT--
1 AGTGCATCCATGCAC---CC-CTGC
*
93546 AGTGCATCCATGCACCTCTGC
1 AGTGCATCCATGCACCCCTGC
93567 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
93582 ATGCCACTAG
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
19 2 0.02
20 1 0.01
21 85 0.80
23 15 0.14
24 1 0.01
25 2 0.02
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:93502 original size:42 final size:42
Alignment explanation
Indices: 93439--93604 Score: 181
Period size: 44 Copynumber: 3.9 Consensus size: 42
93429 AGGGTGTCAA
* * * * *
93439 AGTGCATCTATGCACCCCTGCAGTGCATCTATACACC-CTTAC
1 AGTGCATCCATGCACCTCTGCAGTGCATCCATGCACCTC-TGC
93481 AGTGCATCCATGCACCTCTGCAGTGCATCCATGCACCTCTGC
1 AGTGCATCCATGCACCTCTGCAGTGCATCCATGCACCTCTGC
* **
93523 AGTGCATCCATGCACATGCCACTAGTGCATCCATGCACCTCTGC
1 AGTGCATCCATGCACCT-CTGC-AGTGCATCCATGCACCTCTGC
* **
93567 AGTGCATCCATGCACATGCCACTAGTGCATCCATGCAC
1 AGTGCATCCATGCACCT-CTGC-AGTGCATCCATGCAC
93605 TCCATTTCGA
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
42 51 0.45
43 3 0.03
44 59 0.52
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (42 bp):
AGTGCATCCATGCACCTCTGCAGTGCATCCATGCACCTCTGC
Found at i:93561 original size:44 final size:44
Alignment explanation
Indices: 93480--93604 Score: 209
Period size: 44 Copynumber: 2.9 Consensus size: 44
93470 TACACCCTTA
* **
93480 CAGTGCATCCATGCACCT-CTGC-AGTGCATCCATGCACCTCTG
1 CAGTGCATCCATGCACATGCCACTAGTGCATCCATGCACCTCTG
93522 CAGTGCATCCATGCACATGCCACTAGTGCATCCATGCACCTCTG
1 CAGTGCATCCATGCACATGCCACTAGTGCATCCATGCACCTCTG
93566 CAGTGCATCCATGCACATGCCACTAGTGCATCCATGCAC
1 CAGTGCATCCATGCACATGCCACTAGTGCATCCATGCAC
93605 TCCATTTCGA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
42 17 0.22
43 2 0.03
44 59 0.76
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.22
Consensus pattern (44 bp):
CAGTGCATCCATGCACATGCCACTAGTGCATCCATGCACCTCTG
Found at i:95348 original size:23 final size:23
Alignment explanation
Indices: 95322--95366 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
95312 CACCACAGCT
*
95322 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
95345 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
95367 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:95604 original size:149 final size:149
Alignment explanation
Indices: 95334--95648 Score: 605
Period size: 149 Copynumber: 2.1 Consensus size: 149
95324 TATAATTGCA
95334 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
95398 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
95463 CCAAAGAATATACATATGTC
130 CCAAAGAATATACATATGTC
95483 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
95548 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
95613 CAAAGAATATACATATGTC
131 CAAAGAATATACATATGTC
*
95632 TCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
95649 CCCTCGACTC
Statistics
Matches: 164, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 1 0.01
149 163 0.99
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATGTC
Found at i:96349 original size:15 final size:15
Alignment explanation
Indices: 96326--96448 Score: 210
Period size: 15 Copynumber: 8.2 Consensus size: 15
96316 CGTAGGACTC
96326 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
* *
96341 CTACGTCCCGAAGAA
1 CTACATCCCGAAGGA
96356 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
96371 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
96386 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
96401 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
96416 CTATATCCCGAAGGA
1 CTACATCCCGAAGGA
96431 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
96446 CTA
1 CTA
96449 TTATACCCTC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 100 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:96575 original size:29 final size:29
Alignment explanation
Indices: 96533--96606 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
96523 TTTCATATGT
*
96533 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTAA
96561 TCATGTAGCTCATGTCATTTCTCTTGTAA
1 TCATGTAGCTCATGTCATTTCTCTTGTAA
96590 TCATGTAGCTCATGTCA
1 TCATGTAGCTCATGTCA
96607 CTTCATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.16
29 37 0.84
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTAA
Found at i:96639 original size:12 final size:12
Alignment explanation
Indices: 96622--96667 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
96612 TATCATATTC
*
96622 TCATATCACAGG
1 TCATATCACAGA
*
96634 TCATATCACATA
1 TCATATCACAGA
*
96646 TCATATCACATA
1 TCATATCACAGA
*
96658 GCATATCACA
1 TCATATCACA
96668 TGAACATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (12 bp):
TCATATCACAGA
Found at i:96653 original size:24 final size:24
Alignment explanation
Indices: 96622--96668 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
96612 TATCATATTC
*
96622 TCATATCACA-GGTCATATCACATA
1 TCATATCACATAG-CATATCACATA
96646 TCATATCACATAGCATATCACAT
1 TCATATCACATAGCATATCACAT
96669 GAACATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (24 bp):
TCATATCACATAGCATATCACATA
Found at i:96668 original size:12 final size:12
Alignment explanation
Indices: 96635--96668 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
96625 TATCACAGGT
*
96635 CATATCACATAT
1 CATATCACATAG
96647 CATATCACATAG
1 CATATCACATAG
96659 CATATCACAT
1 CATATCACAT
96669 GAACATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.29
Consensus pattern (12 bp):
CATATCACATAG
Found at i:97087 original size:64 final size:63
Alignment explanation
Indices: 96979--97203 Score: 215
Period size: 64 Copynumber: 3.5 Consensus size: 63
96969 TAATGACAGT
* * * ** * * **
96979 ATGCATCGATGCACTACTGATGCATCGGTGCATCAAAGGTATTCGATGTAGT-ATTATTGTTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGT-GTCACTATTAATGGG
* *
97043 ATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTGTCACTATTAATGGG
* *
97107 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTCTTTA-TATTAAAAT-
1 ATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCGATGT-GTCACTATT--AATG
*
97170 AG
62 GG
**
97172 -TGCATCGATGCACTACCAATGCATCGATGCAC
1 ATGCATCGATGCACTACTTATGCATCGATGCAC
97204 ATTCATATAA
Statistics
Matches: 139, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
63 3 0.02
64 129 0.93
65 4 0.03
66 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCGATGTGTCACTATTAATGGG
Found at i:103410 original size:15 final size:15
Alignment explanation
Indices: 103387--103509 Score: 210
Period size: 15 Copynumber: 8.2 Consensus size: 15
103377 CGTAGGACTC
103387 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
103402 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
*
103417 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
103432 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
103447 CTACATCCCAAAGGA
1 CTACATCCCGAAGGA
103462 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
103477 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
103492 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
103507 CTA
1 CTA
103510 TTATACCCTC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 102 1.00
ACGTcount: A:0.32, C:0.33, G:0.21, T:0.14
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:103636 original size:29 final size:29
Alignment explanation
Indices: 103594--103667 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
103584 TTTCATATGT
103594 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
103622 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
103651 TCATGTAGCTCATGTCA
1 TCATGTAGCTCATGTCA
103668 CTTCATATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:104141 original size:64 final size:63
Alignment explanation
Indices: 104033--104257 Score: 206
Period size: 64 Copynumber: 3.5 Consensus size: 63
104023 TAATGACAGT
* * * ** * * **
104033 ATGCATCGATGCACTACTGATGCATCGGTGCATCAAAGGTATTCGATGTAGT-ATTATTGTTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGT-GTCACTATTAATGGG
* *
104097 ATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTGTCACTATTAATGGG
* * *
104161 ATGCATCGATGCACTACTTATGCGTCGATGCACGAATTGCATTCGATGTCTTTA-TATTAAAAT-
1 ATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCGATGT-GTCACTATT--AATG
*
104224 AG
62 GG
**
104226 -TGCATCGATGCACTACCAATGCATCGATGCAC
1 ATGCATCGATGCACTACTTATGCATCGATGCAC
104258 ATTCATATAA
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
63 3 0.02
64 127 0.93
65 4 0.03
66 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCGATGTGTCACTATTAATGGG
Found at i:106503 original size:21 final size:21
Alignment explanation
Indices: 106479--106523 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
106469 TGTTGTTCGT
* *
106479 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
106500 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
106521 TTG
1 TTG
106524 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:107541 original size:19 final size:20
Alignment explanation
Indices: 107517--107564 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
107507 AATGATTTTC
*
107517 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
107536 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
107556 TTTTGAAAA
1 TTTTGAAAA
107565 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:108352 original size:20 final size:20
Alignment explanation
Indices: 108329--108366 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
108319 ATATGTACTT
*
108329 AATTTTAACAATTGGTATCA
1 AATTTAAACAATTGGTATCA
108349 AATTTAAACAATTGGTAT
1 AATTTAAACAATTGGTAT
108367 TGCATAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AATTTAAACAATTGGTATCA
Found at i:108725 original size:21 final size:21
Alignment explanation
Indices: 108691--108730 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
108681 AAACAATTGG
*
108691 TAACAGTTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
108712 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
108731 CATTAAACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:108978 original size:21 final size:21
Alignment explanation
Indices: 108952--109051 Score: 89
Period size: 21 Copynumber: 4.7 Consensus size: 21
108942 AGGGTGTCAA
108952 AGTGCATCCATGCACCCCTAC
1 AGTGCATCCATGCACCCCTAC
* *
108973 AGTGCATCCATGCACCTCTGC
1 AGTGCATCCATGCACCCCTAC
*
108994 AGTGTATCCATGCATCTGCCGCT--
1 AGTGCATCCATGCA-C--CC-CTAC
** *
109017 AGTGCATTGATGCA-CCATAC
1 AGTGCATCCATGCACCCCTAC
109037 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
109052 TCCATTTCGA
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
18 1 0.02
19 2 0.03
20 12 0.19
21 32 0.52
22 1 0.02
23 11 0.18
24 1 0.02
25 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTAC
Found at i:109539 original size:22 final size:22
Alignment explanation
Indices: 109492--109539 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
109482 AAAGCTAGGG
* *
109492 AAAAGTTCTAGTTTAACCCGGG
1 AAAAGTTCTAGTTTAACCCAGA
* *
109514 AAAAGTTCTAGTTTAGCTCAGA
1 AAAAGTTCTAGTTTAACCCAGA
109536 AAAA
1 AAAA
109540 CTAGGGAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (22 bp):
AAAAGTTCTAGTTTAACCCAGA
Found at i:115404 original size:262 final size:262
Alignment explanation
Indices: 114939--115465 Score: 1045
Period size: 262 Copynumber: 2.0 Consensus size: 262
114929 GACCTGAACC
114939 TAACGGGTTCCAATCCGACCCAGCCAGGTCGTTTTTTTAAATGGATTTGGGTCGGGTCAAGTTGA
1 TAACGGGTTCCAATCCGACCCAGCCAGGTCGTTTTTTTAAATGGATTTGGGTCGGGTCAAGTTGA
115004 GTTTTTTAGAAAATATGTTCAGGTCAAAGCAAGTTTGGGTTTAGGGTGAAAAATATTCGATCCAA
66 GTTTTTTAGAAAATATGTTCAGGTCAAAGCAAGTTTGGGTTTAGGGTGAAAAATATTCGATCCAA
115069 CCGAACCCGAAAAATAATGTAAATTTACATTATATATATAGGGATAATTGCAATAATAACCCTCT
131 CCGAACCCGAAAAATAATGTAAATTTACATTATATATATAGGGATAATTGCAATAATAACCCTCT
115134 ATATATTATTTTAGATAAATTACACATTTAATATCTAAACTTTCAATTTTTGATTTATTATAATG
196 ATATATTATTTTAGATAAATTACACATTTAATATCTAAACTTTCAATTTTTGATTTATTATAATG
115199 CT
261 CT
*
115201 TAACGGGTTCCAATCCGACCCAGCCGGGTCGTTTTTTTAAATGGATTTGGGTCGGGTCAAGTTGA
1 TAACGGGTTCCAATCCGACCCAGCCAGGTCGTTTTTTTAAATGGATTTGGGTCGGGTCAAGTTGA
115266 GTTTTTTAGAAAATATGTTCAGGTCAAAGCAAGTTTGGGTTTAGGGTGAAAAATATTCGATCCAA
66 GTTTTTTAGAAAATATGTTCAGGTCAAAGCAAGTTTGGGTTTAGGGTGAAAAATATTCGATCCAA
115331 CCGAACCCGAAAAATAATGTAAATTTACATTATATATATAGGGATAATTGCAATAATAACCCTCT
131 CCGAACCCGAAAAATAATGTAAATTTACATTATATATATAGGGATAATTGCAATAATAACCCTCT
115396 ATATATTATTTTAGATAAATTACACATTTAATATCTAAACTTTCAATTTTTGATTTATTATAATG
196 ATATATTATTTTAGATAAATTACACATTTAATATCTAAACTTTCAATTTTTGATTTATTATAATG
115461 CT
261 CT
115463 TAA
1 TAA
115466 ATTTTCAAAA
Statistics
Matches: 264, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
262 264 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (262 bp):
TAACGGGTTCCAATCCGACCCAGCCAGGTCGTTTTTTTAAATGGATTTGGGTCGGGTCAAGTTGA
GTTTTTTAGAAAATATGTTCAGGTCAAAGCAAGTTTGGGTTTAGGGTGAAAAATATTCGATCCAA
CCGAACCCGAAAAATAATGTAAATTTACATTATATATATAGGGATAATTGCAATAATAACCCTCT
ATATATTATTTTAGATAAATTACACATTTAATATCTAAACTTTCAATTTTTGATTTATTATAATG
CT
Found at i:115779 original size:32 final size:31
Alignment explanation
Indices: 115743--115828 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 31
115733 AATAAAAAAT
115743 AAATTTGAAAGTTAGAGTGAGTAAATTAGGAG
1 AAATTTGAAAGTTA-AGTGAGTAAATTAGGAG
115775 AAATTTGAAAG-T---TGAGTAAATTAGGAG
1 AAATTTGAAAGTTAAGTGAGTAAATTAGGAG
* * *
115802 CAATTTGAAAGTTAAGTAATTAAATTA
1 AAATTTGAAAGTTAAGTGAGTAAATTA
115829 AAAAAAATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 25 0.53
28 1 0.02
31 10 0.21
32 11 0.23
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.31
Consensus pattern (31 bp):
AAATTTGAAAGTTAAGTGAGTAAATTAGGAG
Found at i:116376 original size:18 final size:20
Alignment explanation
Indices: 116353--116410 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
116343 TTAAAAAATA
*
116353 TAAATGA-AAAACAATGT-T
1 TAAATGATAAAAAAATGTAT
116371 TAAATGATAAAAAAATGTAT
1 TAAATGATAAAAAAATGTAT
*
116391 TAAAAGATATAAGAAAATGT
1 TAAATGATA-AA-AAAATGT
116411 GTCATAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.21
19 9 0.26
20 9 0.26
21 2 0.06
22 7 0.21
ACGTcount: A:0.59, C:0.02, G:0.12, T:0.28
Consensus pattern (20 bp):
TAAATGATAAAAAAATGTAT
Found at i:116402 original size:22 final size:23
Alignment explanation
Indices: 116377--116424 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
116367 TGTTTAAATG
*
116377 ATAAAAAAATGTATTA-AAAGAT
1 ATAAAAAAATGTATCATAAAGAT
* *
116399 ATAAGAAAATGTGTCATAAAGAT
1 ATAAAAAAATGTATCATAAAGAT
116422 ATA
1 ATA
116425 TGAAAACGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.27
Consensus pattern (23 bp):
ATAAAAAAATGTATCATAAAGAT
Found at i:116407 original size:23 final size:24
Alignment explanation
Indices: 116377--116430 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
116367 TGTTTAAATG
*
116377 ATAA-AAAAATGTATTA-AAAGAT
1 ATAAGAAAAATGTATCATAAAGAT
*
116399 ATAAG-AAAATGTGTCATAAAGAT
1 ATAAGAAAAATGTATCATAAAGAT
*
116422 ATATGAAAA
1 ATAAGAAAA
116431 CGTGTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 13 0.50
23 10 0.38
24 3 0.12
ACGTcount: A:0.59, C:0.02, G:0.13, T:0.26
Consensus pattern (24 bp):
ATAAGAAAAATGTATCATAAAGAT
Found at i:116435 original size:23 final size:23
Alignment explanation
Indices: 116393--116441 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
116383 AAATGTATTA
*
116393 AAAGATATAAGAAAATGTGTCAT
1 AAAGATATAAGAAAACGTGTCAT
* *
116416 AAAGATATATGAAAACGTGTTAT
1 AAAGATATAAGAAAACGTGTCAT
116439 AAA
1 AAA
116442 ACATAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.16, T:0.27
Consensus pattern (23 bp):
AAAGATATAAGAAAACGTGTCAT
Found at i:120405 original size:21 final size:21
Alignment explanation
Indices: 120366--120423 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
120356 CCGAAATAAT
*
120366 AAAAAAA-ATATTATTTTTATTC
1 AAAAAAACATA-TA-TTTAATTC
*
120388 AATAAAAACATATATTTAATTG
1 AA-AAAAACATATATTTAATTC
*
120410 AAAAAAATATATAT
1 AAAAAAACATATAT
120424 AGAGGGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 11 0.35
22 10 0.32
23 7 0.23
24 3 0.10
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAAAAACATATATTTAATTC
Found at i:120423 original size:23 final size:23
Alignment explanation
Indices: 120367--120424 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
120357 CGAAATAATA
*
120367 AAAAAAATAT-TAT-TTTTATTC
1 AAAAAAATATATATATTTAATTC
* * *
120388 AATAAAA-ACATATATTTAATTG
1 AAAAAAATATATATATTTAATTC
120410 AAAAAAATATATATA
1 AAAAAAATATATATA
120425 GAGGGATACT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 9 0.32
22 12 0.43
23 6 0.21
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAAAAATATATATATTTAATTC
Found at i:121700 original size:7 final size:7
Alignment explanation
Indices: 121688--121717 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
121678 ATAGTTTTAT
121688 TTTAGGA
1 TTTAGGA
*
121695 TTTAGGT
1 TTTAGGA
121702 TTTAGGA
1 TTTAGGA
121709 TTTAGGA
1 TTTAGGA
121716 TT
1 TT
121718 GAGTGTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (7 bp):
TTTAGGA
Found at i:127521 original size:27 final size:28
Alignment explanation
Indices: 127464--127521 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
127454 ATCAGTCAAC
* * *
127464 GATGAATACCTAATTTCTTTTTCCATCA
1 GATGAATACCTAATTTCTATTTCAAACA
*
127492 GATGAATACCTAATTTC-ATTTCAAAGA
1 GATGAATACCTAATTTCTATTTCAAACA
127519 GAT
1 GAT
127522 AATGGACTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (28 bp):
GATGAATACCTAATTTCTATTTCAAACA
Found at i:133576 original size:23 final size:23
Alignment explanation
Indices: 133550--133597 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
133540 ATAAAGTACA
*
133550 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
133573 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
133596 AT
1 AT
133598 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:134348 original size:18 final size:18
Alignment explanation
Indices: 134325--134361 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
134315 CGAAATATAT
134325 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
134343 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
134361 A
1 A
134362 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:134591 original size:23 final size:23
Alignment explanation
Indices: 134565--134629 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
134555 ATGCGAGATA
134565 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
134588 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
134611 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
134630 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:135013 original size:21 final size:20
Alignment explanation
Indices: 134983--135036 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
134973 GATAGACACT
*
134983 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
135004 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
135027 TTACATTATA
1 TTACATTATA
135037 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:135024 original size:23 final size:23
Alignment explanation
Indices: 134998--135060 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
134988 ATATAACCAT
134998 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
135021 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
135044 TACCTATTACATCATAT
1 TACCTATTACATTATAT
135061 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:135370 original size:431 final size:431
Alignment explanation
Indices: 134567--136021 Score: 2838
Period size: 431 Copynumber: 3.4 Consensus size: 431
134557 GCGAGATAGA
134567 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
134632 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
134697 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
134762 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
134827 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
134892 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
134957 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
134998 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
135063 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
135128 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
* * * * * *
135193 ATTTCGTTTGCACAAAAAATTAGTTGATTGTGTTGATATTTTATAAAATAATATTAAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
*
135258 AATTTAACAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
135323 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
*
135388 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACAAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
135429 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
135494 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
135559 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
135624 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
135689 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
135754 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
135819 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
135860 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
135925 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
135990 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
136022 ACTGCGAATT
Statistics
Matches: 1008, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
431 1008 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (431 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
Found at i:135455 original size:23 final size:23
Alignment explanation
Indices: 135429--135491 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
135419 ATATAACAAT
135429 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
135452 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
135475 TACCTATTACATCATAT
1 TACCTATTACATTATAT
135492 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:135875 original size:21 final size:20
Alignment explanation
Indices: 135845--135898 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
135835 GATAGACACT
*
135845 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
135866 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
135889 TTACATTATA
1 TTACATTATA
135899 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:135886 original size:23 final size:23
Alignment explanation
Indices: 135860--135922 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
135850 ATATAACCAT
135860 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
135883 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
135906 TACCTATTACATCATAT
1 TACCTATTACATTATAT
135923 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:138790 original size:184 final size:184
Alignment explanation
Indices: 138481--139033 Score: 1070
Period size: 184 Copynumber: 3.0 Consensus size: 184
138471 TTTTAAATGG
* *
138481 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
138546 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
138611 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
138665 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
138730 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
138795 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
138849 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
138914 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
138979 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
139033 T
1 T
139034 TAGTGTCGAC
Statistics
Matches: 365, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 365 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:139556 original size:19 final size:19
Alignment explanation
Indices: 139529--139573 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
139519 ATTCACATAA
*
139529 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
139548 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
139567 AAAATTA
1 AAAATTA
139574 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:141398 original size:33 final size:33
Alignment explanation
Indices: 141361--141426 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
141351 CATCTTAATA
*
141361 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
141394 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
141427 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:143584 original size:24 final size:24
Alignment explanation
Indices: 143547--143599 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
143537 CCGTTCTATC
143547 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
143571 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
143595 TATTT
1 TATTT
143600 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:143936 original size:20 final size:20
Alignment explanation
Indices: 143910--143955 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
143900 CACTTTTAAA
143910 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
143929 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
143950 TTTACC
1 TTTACC
143956 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:147989 original size:14 final size:14
Alignment explanation
Indices: 147972--148004 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
147962 ATGGTAAACT
*
147972 TTTTGTTTCCTTTC
1 TTTTATTTCCTTTC
147986 TTTTATTTCCTTTC
1 TTTTATTTCCTTTC
148000 TTTTA
1 TTTTA
148005 ACTGGGTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTTATTTCCTTTC
Found at i:155923 original size:33 final size:33
Alignment explanation
Indices: 155881--155945 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
155871 GTGCAGTTTA
*
155881 TAAACCGACCCTTAGGTTTAACTTTGGTAGATT
1 TAAACCGACCCTTAGGTTTAACTTTAGTAGATT
155914 TAAACCGACCCTTAGGTTTAACTTTAGTAGAT
1 TAAACCGACCCTTAGGTTTAACTTTAGTAGAT
155946 CACATGAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (33 bp):
TAAACCGACCCTTAGGTTTAACTTTAGTAGATT
Found at i:156708 original size:2 final size:2
Alignment explanation
Indices: 156701--156766 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
156691 AAACCAGAAC
156701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
156743 AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
156767 CATTACTTCG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:159025 original size:15 final size:17
Alignment explanation
Indices: 158991--159028 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
158981 TGAATCATAT
158991 TTCAAATTTGAGTCCAA
1 TTCAAATTTGAGTCCAA
*
159008 TTCAAATTTTA-T-CAA
1 TTCAAATTTGAGTCCAA
159023 TTCAAA
1 TTCAAA
159029 AAATCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 1 0.05
17 10 0.50
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (17 bp):
TTCAAATTTGAGTCCAA
Found at i:164907 original size:12 final size:12
Alignment explanation
Indices: 164880--164912 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
164870 CGCCCGTCTC
164880 GGGTCG-GGTCG
1 GGGTCGTGGTCG
164891 GGGTCGTGGTCG
1 GGGTCGTGGTCG
*
164903 TGGTCGTGGT
1 GGGTCGTGGT
164913 AATACTGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.00, C:0.15, G:0.58, T:0.27
Consensus pattern (12 bp):
GGGTCGTGGTCG
Found at i:165042 original size:6 final size:6
Alignment explanation
Indices: 165028--165063 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
165018 AAGTTAAAAT
165028 CCCCC- CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA C
1 CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA C
165064 ACACCAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.14, C:0.86, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCCCA
Found at i:189980 original size:13 final size:13
Alignment explanation
Indices: 189962--189988 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
189952 TTTAAAAATA
189962 AAATATTATTTAT
1 AAATATTATTTAT
189975 AAATATTATTTAT
1 AAATATTATTTAT
189988 A
1 A
189989 GTATTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATATTATTTAT
Found at i:192992 original size:18 final size:18
Alignment explanation
Indices: 192965--193020 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
192955 AGTCACAACA
192965 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
* *
192983 CGACCTGACCCGTTTACC
1 CGACCCGACCCGTTGACC
193001 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
193019 CG
1 CG
193021 TTGACCGTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.16, C:0.48, G:0.21, T:0.14
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:194343 original size:18 final size:18
Alignment explanation
Indices: 194317--194351 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
194307 TCGAAAGGAC
*
194317 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
194335 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
194352 CCGGATGGAA
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:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:198065 original size:18 final size:18
Alignment explanation
Indices: 198042--198118 Score: 127
Period size: 18 Copynumber: 4.3 Consensus size: 18
198032 ACCGGTCAAC
*
198042 ACCCGAACCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
198060 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
*
198078 ACCCGACCCGACACGTTG
1 ACCCGACCCGACCCGTTG
198096 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
198114 ACCCG
1 ACCCG
198119 TTCCGTTGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.19, C:0.48, G:0.21, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:199461 original size:18 final size:18
Alignment explanation
Indices: 199435--199469 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
199425 TCGAAAGGAC
*
199435 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
199453 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
199470 CCGGATGGAA
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:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:207589 original size:11 final size:11
Alignment explanation
Indices: 207554--207601 Score: 62
Period size: 11 Copynumber: 4.2 Consensus size: 11
207544 GGTCCTGAAA
207554 AATAAATAAAAT
1 AATAAAT-AAAT
207566 AAT-AATACTAAT
1 AATAAATA--AAT
207578 AATAAATAAAT
1 AATAAATAAAT
207589 AATAAATAAAT
1 AATAAATAAAT
207600 AA
1 AA
207602 ATGTTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
10 1 0.03
11 19 0.58
12 9 0.27
13 4 0.12
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:207596 original size:15 final size:15
Alignment explanation
Indices: 207553--207603 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
207543 GGGTCCTGAA
207553 AAATAAAT-A-AAAT
1 AAATAAATAATAAAT
207566 -AATAATACTAAT-AAT
1 AAATAA-A-TAATAAAT
207581 AAATAAATAATAAAT
1 AAATAAATAATAAAT
207596 AAATAAAT
1 AAATAAAT
207604 GTTTTTATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.16
13 1 0.03
14 5 0.16
15 16 0.50
16 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:208082 original size:37 final size:36
Alignment explanation
Indices: 208040--208291 Score: 211
Period size: 37 Copynumber: 7.1 Consensus size: 36
208030 CAAAAATTGG
208040 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
208077 TGTTTCAAGGGAAACTGTATCAAGAGAGAC-AAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
208112 TGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
208149 AGTTCCGAA-AGAAACTGACTCAAGGGAGACGAAATT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
208185 TGTTTCAAG-GAAAACAAAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* * * *
208214 TGTTTCAAGGGAAACTGTCTTAAGATAGATAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
208250 TATTTCAAGAGAATCTGTCTCAAGAGAAACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
208287 TGTTT
1 TGTTT
208292 TAAGTAAATT
Statistics
Matches: 169, Mismatches: 30, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
28 1 0.01
29 17 0.10
30 2 0.01
31 1 0.01
32 2 0.01
33 2 0.01
35 33 0.20
36 48 0.28
37 61 0.36
38 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:208091 original size:67 final size:68
Alignment explanation
Indices: 207973--208148 Score: 180
Period size: 67 Copynumber: 2.5 Consensus size: 68
207963 TTTTTTTGTA
** * * * *
207973 TGTTTCAAGAGAAACTGTCAAAAGGGAGGCAAAATTTTATTTTAAGAGAAACT-TATTC-A-A-A
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTATTTCAAGAGAAACTGTA-TCAAGACA
208034 AATT
65 AATT
* *
208038 GGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTATCAAGAG
1 --TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTATTTCAAGAGAAACTGTATC---A-
208103 AGACAAATT
60 AGACAAATT
*
208112 TGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
208149 AGTTCCGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
67 47 0.51
68 2 0.02
72 37 0.40
73 1 0.01
74 5 0.05
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.26
Consensus pattern (68 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTATTTCAAGAGAAACTGTATCAAGACAA
ATT
Found at i:208121 original size:20 final size:20
Alignment explanation
Indices: 208059--208123 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
208049 AGAAACTGTC
208059 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAGAC-AAA-TTTGTT
* *
208081 TCAAG-G-G--AAA-CTGTA
1 TCAAGAGAGACAAATTTGTT
208096 TCAAGAGAGACAAATTTGTT
1 TCAAGAGAGACAAATTTGTT
208116 TCAAGAGA
1 TCAAGAGA
208124 AACAGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 8 0.24
16 1 0.03
17 4 0.12
19 3 0.09
20 12 0.35
21 1 0.03
22 5 0.15
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (20 bp):
TCAAGAGAGACAAATTTGTT
Found at i:208125 original size:72 final size:72
Alignment explanation
Indices: 208040--208291 Score: 238
Period size: 72 Copynumber: 3.6 Consensus size: 72
208030 CAAAAATTGG
208040 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTATCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTATCAAGAGAG
208105 ACAAATT
66 ACAAATT
* * * * *
208112 TGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAACTTAGTTCCGAA-AGAAACTG-ACTCAAGGG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTC-AAGGGAAACTGTA-TCAAGAG
208175 AGACGAAATT
64 AGAC-AAATT
* ** * * * *
208185 TGTTTCAAG-GAAA-----AC-A-A-ATTCAAAGATTTTGTTTCAAGGGAAACTGTCTTAAGATA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ACTTTGTTTCAAGGGAAACTGTATCAAGAGA
*
208241 GATAAAATT
65 GA-CAAATT
* * *
208250 TATTTCAAGAGAATCTGTCTCAAGAGAAACAAAACTTTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
208292 TAAGTAAATT
Statistics
Matches: 141, Mismatches: 23, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
64 7 0.05
65 35 0.25
66 4 0.03
67 1 0.01
71 2 0.01
72 62 0.44
73 25 0.18
74 5 0.04
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (72 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTATCAAGAGAG
ACAAATT
Found at i:210434 original size:27 final size:24
Alignment explanation
Indices: 210401--210494 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
210391 TGCTTATGCA
*
210401 TCTTGTTTTCTTTTTTCTTTATTTT
1 TCTTTTTTTCTTTTTT-TTTATTTT
* * * *
210426 TCATTTGTT-TTTGTTTTTGTTTT
1 TCTTTTTTTCTTTTTTTTTATTTT
*
210449 TGTTTTTTTTCTTTTTTATTTTATTTT
1 T-CTTTTTTTC-TTTTT-TTTTATTTT
*
210476 TCTTTTTTTCTTTATTTTT
1 TCTTTTTTTCTTTTTTTTT
210495 CTCTTTTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
23 8 0.15
24 14 0.26
25 10 0.19
26 12 0.23
27 9 0.17
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.82
Consensus pattern (24 bp):
TCTTTTTTTCTTTTTTTTTATTTT
Found at i:210436 original size:11 final size:10
Alignment explanation
Indices: 210412--210496 Score: 63
Period size: 10 Copynumber: 8.7 Consensus size: 10
210402 CTTGTTTTCT
210412 TTTTTCTTTA
1 TTTTTCTTTA
*
210422 TTTTTCATTTG
1 TTTTTC-TTTA
*
210433 TTTTTGTTT-
1 TTTTTCTTTA
* *
210442 TTGTTTTTGTTT
1 TT-TTTCT-TTA
210454 TTTTTCTTT-
1 TTTTTCTTTA
*
210463 TTTAT-TTTA
1 TTTTTCTTTA
210472 TTTTTC-TT-
1 TTTTTCTTTA
210480 TTTTTCTTTA
1 TTTTTCTTTA
210490 TTTTTCT
1 TTTTTCT
210497 CTTTTTTATT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
8 9 0.15
9 14 0.23
10 22 0.36
11 14 0.23
12 2 0.03
ACGTcount: A:0.06, C:0.07, G:0.05, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:210440 original size:6 final size:6
Alignment explanation
Indices: 210429--210455 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
210419 TTATTTTTCA
210429 TTTGTT TTTGTT TTTGTT TTTGTT TTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTT
210456 TTTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTGTT
Found at i:210470 original size:12 final size:11
Alignment explanation
Indices: 210406--210523 Score: 62
Period size: 12 Copynumber: 10.2 Consensus size: 11
210396 ATGCATCTTG
210406 TTTTCTTTTTTC
1 TTTT-TTTTTTC
*
210418 -TTTATTTTTC
1 TTTTTTTTTTC
* * *
210428 ATTTGTTTTTG
1 TTTTTTTTTTC
*
210439 TTTTTGTTTTTG
1 TTTTT-TTTTTC
210451 TTTTTTTTCTT-
1 TTTTTTTT-TTC
210462 TTTTATTTTATT-
1 TTTT-TTTT-TTC
210474 TTTCTTTTTTTC
1 TTT-TTTTTTTC
*
210486 TTTATTTTTCTC
1 TTT-TTTTTTTC
210498 TTTTTTATTCTTC
1 TTTTTT-TT-TTC
* *
210511 TCTTTTTGTTC
1 TTTTTTTTTTC
210522 TT
1 TT
210524 GATTGGATCT
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
10 6 0.07
11 30 0.35
12 42 0.49
13 8 0.09
ACGTcount: A:0.05, C:0.10, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:210477 original size:18 final size:17
Alignment explanation
Indices: 210406--210503 Score: 101
Period size: 18 Copynumber: 5.7 Consensus size: 17
210396 ATGCATCTTG
*
210406 TTTTCTTTTTTCTTTAT
1 TTTTCTTTTTTTTTTAT
* * *
210423 TTTTCATTTGTTTTTGT
1 TTTTCTTTTTTTTTTAT
* *
210440 TTTT-GTTTTTGTTT-T
1 TTTTCTTTTTTTTTTAT
210455 TTTTCTTTTTTATTTTAT
1 TTTTCTTTTTT-TTTTAT
210473 TTTTCTTTTTTTCTTTAT
1 TTTTCTTTTTTT-TTTAT
210491 TTTTCTCTTTTTT
1 TTTTCT-TTTTTT
210504 ATTCTTCTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
15 5 0.07
16 12 0.18
17 21 0.31
18 23 0.34
19 6 0.09
ACGTcount: A:0.05, C:0.08, G:0.04, T:0.83
Consensus pattern (17 bp):
TTTTCTTTTTTTTTTAT
Found at i:210501 original size:26 final size:26
Alignment explanation
Indices: 210401--210502 Score: 72
Period size: 26 Copynumber: 4.0 Consensus size: 26
210391 TGCTTATGCA
* *
210401 TCTTGTTTTCTTTTTTCTT-TATTTT
1 TCTTTTTTTCTTTTTTATTCTATTTT
* * *
210426 TCATTTGTTT-TTGTTT-TTGT-TTTT
1 TC-TTTTTTTCTTTTTTATTCTATTTT
*
210450 GT-TTTTTTTCTTTTTTATTTTATTTT
1 -TCTTTTTTTCTTTTTTATTCTATTTT
*
210476 TCTTTTTTTCTTTATTT-TTCTCTTTT
1 TCTTTTTTTCTTT-TTTATTCTATTTT
210502 T
1 T
210503 TATTCTTCTC
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
23 6 0.10
24 11 0.18
25 13 0.21
26 28 0.46
27 3 0.05
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.81
Consensus pattern (26 bp):
TCTTTTTTTCTTTTTTATTCTATTTT
Found at i:210506 original size:15 final size:15
Alignment explanation
Indices: 210467--210517 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
210457 TTCTTTTTTA
*
210467 TTTTATTTTTCTTTTTT
1 TTTTATTTTTC--TCTT
210484 TCTTTATTTTTCTCTT
1 T-TTTATTTTTCTCTT
*
210500 TTTTATTCTTCTCTT
1 TTTTATTTTTCTCTT
210515 TTT
1 TTT
210518 GTTCTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 16 0.52
16 4 0.13
17 1 0.03
18 10 0.32
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTATTTTTCTCTT
Found at i:213501 original size:12 final size:12
Alignment explanation
Indices: 213484--213510 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
213474 TTAATTGCAA
213484 AAATTGAAATTT
1 AAATTGAAATTT
213496 AAATTGAAATTT
1 AAATTGAAATTT
213508 AAA
1 AAA
213511 AATTCAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AAATTGAAATTT
Found at i:215243 original size:528 final size:524
Alignment explanation
Indices: 214182--215184 Score: 1754
Period size: 528 Copynumber: 1.9 Consensus size: 524
214172 AAGTGATTTG
* *
214182 AATAAATGGTTTTTTAAAATAATTTGGGAGTCGCCATCTGCCTTTTGGGTTAGGTAGGTCAAATA
1 AATAAATGGTTTTTTAAAATAATTTGGGAGTCGCCATCGGCCTTTAGGGTTAGGTAGGTCAAATA
214247 CCTAAAAATTATCTTTTAAAAGAGTTTTAAGAAAACATCAGTTAAAAGATGAACTGATCTGCGTT
66 CCTAAAAATTATCTTTTAAAAGAGTTTTAAGAAAACATCAGTTAAAAGATGAACTGATCTGCGTT
* *
214312 TATAACTAAAAATTCGTTCTTTTTAATAATAAAAAGGGATTCGTAGTCGGTTACGTTTAGGGAAG
131 TATAACAAAAAAATCGTTCTTTTTAATAATAAAAAGGGATTCGTAGTCGGTTACGTTTAGGGAAG
*
214377 GATTAGCACCCCTACAACGCCCTAAATTGGTACTTTTAATTATAAATTGTCTCTATTATTAGAAA
196 GATTAGCACCCCTACAACGCCCAAAATTGGTACTTTTAATTATAAATTGTCTCTATTATTAGAAA
214442 TTTAAAAATTCAAAGATATATTTAATTCATAATTCTACTATTTCAAATAATTTTAAGAAAATATA
261 TTTAAAAATTCAAAGATATATTTAATTCATAATTCTACTATTTCAAATAATTTTAAGAAAATATA
214507 TTAATATACATAAATAAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTACCTTA
326 TTAATATACATAAATAAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTACCTTA
214572 AGACAGCTCTTTTCTTTGATATTTAAAAATAAATATCAAAAACATTTTATTTTAATATAGTAAGA
391 AGACAGCTCTTTTCTTTGATATTTAAAAATAAATATCAAAAACATTTTATTTTAATATAGTAAGA
***** *** * * ** * *
214637 TATTTATTTATTTGTCGTAACCAGTTTTCGCCCGGGCACGAAATTTTTTTATTTGGCGGGAAAAG
456 TATTTATTTATTAAAAATAACCAGAAATCGCCAGGGCAAGAAAGCTCTTTAATT-GC-GGAAAAG
**
214702 TGACGTG
519 TGAC-AA
214709 AATAAATGGTTTTTTAAAATAATTTGGGAGTCGCCATCGGCCTTTAGGGTTAGGTAGGTCAAATA
1 AATAAATGGTTTTTTAAAATAATTTGGGAGTCGCCATCGGCCTTTAGGGTTAGGTAGGTCAAATA
214774 CCTAAAAATTATCTTTTAAAAGAGTTTTAAGAAAACATCAGTTAAAAGATGAACTGATCTGCGTT
66 CCTAAAAATTATCTTTTAAAAGAGTTTTAAGAAAACATCAGTTAAAAGATGAACTGATCTGCGTT
*
214839 TATAACAAAAAAATCGTTTTTTTTAATAATAAAAAGGGATTCGTAGTCGGTTACGTTTAGGGAAG
131 TATAACAAAAAAATCGTTCTTTTTAATAATAAAAAGGGATTCGTAGTCGGTTACGTTTAGGGAAG
*
214904 GATTAGCACCCCTACAACGCCCAAAATTGGTACTTTTTAATTATAAATTGTCTTTATTATTAGAA
196 GATTAGCACCCCTACAACGCCCAAAATTGGTAC-TTTTAATTATAAATTGTCTCTATTATTAGAA
214969 ATTTAAAAATTCAAAGATATATTTAATTCATAATTCTACTATTTCAAATAATTTTAAGAAAATAT
260 ATTTAAAAATTCAAAGATATATTTAATTCATAATTCTACTATTTCAAATAATTTTAAGAAAATAT
215034 ATTAATATACATAAATAAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTACCTT
325 ATTAATATACATAAATAAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTACCTT
215099 AAGACAGCTCTTTTCTTTGATATTTAAAAATAAATATCAAAAACATTTTATTTTAATATAGTAAG
390 AAGACAGCTCTTTTCTTTGATATTTAAAAATAAATATCAAAAACATTTTATTTTAATATAGTAAG
215164 ATATTTATTTATTCAAAAATA
455 ATATTTATTTATT-AAAAATA
215185 TCAGAAAATG
Statistics
Matches: 462, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
527 222 0.48
528 238 0.52
529 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (524 bp):
AATAAATGGTTTTTTAAAATAATTTGGGAGTCGCCATCGGCCTTTAGGGTTAGGTAGGTCAAATA
CCTAAAAATTATCTTTTAAAAGAGTTTTAAGAAAACATCAGTTAAAAGATGAACTGATCTGCGTT
TATAACAAAAAAATCGTTCTTTTTAATAATAAAAAGGGATTCGTAGTCGGTTACGTTTAGGGAAG
GATTAGCACCCCTACAACGCCCAAAATTGGTACTTTTAATTATAAATTGTCTCTATTATTAGAAA
TTTAAAAATTCAAAGATATATTTAATTCATAATTCTACTATTTCAAATAATTTTAAGAAAATATA
TTAATATACATAAATAAGATATTTACTTATTTAGAAATATCAGAAAAGGGCTTCTAGGTACCTTA
AGACAGCTCTTTTCTTTGATATTTAAAAATAAATATCAAAAACATTTTATTTTAATATAGTAAGA
TATTTATTTATTAAAAATAACCAGAAATCGCCAGGGCAAGAAAGCTCTTTAATTGCGGAAAAGTG
ACAA
Found at i:216719 original size:3 final size:3
Alignment explanation
Indices: 216701--216780 Score: 99
Period size: 3 Copynumber: 26.3 Consensus size: 3
216691 TTGTAATATT
* *
216701 TAA TAAA TAA TAAA TAA TAT TAC T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
216747 TAA TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
216781 TTAAAATGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
2 1 0.01
3 60 0.90
4 6 0.09
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:217063 original size:76 final size:76
Alignment explanation
Indices: 216950--217660 Score: 931
Period size: 76 Copynumber: 8.9 Consensus size: 76
216940 ACCATGAGGG
*
216950 TTTGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACT-ATAGGACTTACAGA
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA-AGGACTTACAGA
217014 TGACCCTAAGGC
65 TGACCCTAAGGC
*
217026 TTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
*
217091 GACCCGAAGGC
66 GACCCTAAGGC
217102 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
* *
217167 GACCCAAAGGT
66 GACCCTAAGGC
* * *
217178 TTTGAAAACATC-AAAAGCGCCCGAAGGTTTTTTTGAAACATCATTTTTAACATCATGCACTGAA
1 TTTGAAAACATCAAAAAGCTCCCGAAGG-CTTTTTG------GA-----AACATCATGCACTGAA
* *
217242 GGACTTACAGATGACCCGAAGGT
54 GGACTTACAGATGACCCTAAGGC
* * *
217265 TTTGAAAATATCAAAAAGCTCCCGAAGGTTTTTTTTTGAAACATCATTTTTAACATCATGCACTG
1 TTTGAAAACATCAAAAAGCTCCCGAAGG---CTTTTTG------GA-----AACATCATGCACTG
217330 AAGGACTTACAGATGACCCTAAGGC
52 AAGGACTTACAGATGACCCTAAGGC
217355 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
217420 GACCCTAAGGC
66 GACCCTAAGGC
217431 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATTTTTAACATCATGCACTGAA
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG-------A-----AACATCATGCACTGAA
217496 GGACTTACAGATGACCCTAAGGC
54 GGACTTACAGATGACCCTAAGGC
217519 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
217584 GACCCTAAGGC
66 GACCCTAAGGC
*
217595 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
217660 G
66 G
217661 TGGGAAATAG
Statistics
Matches: 589, Mismatches: 18, Indels: 56
0.89 0.03 0.08
Matches are distributed among these distances:
75 14 0.02
76 341 0.58
77 1 0.00
81 2 0.00
82 1 0.00
83 1 0.00
87 55 0.09
88 89 0.15
90 85 0.14
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
GACCCTAAGGC
Found at i:217525 original size:164 final size:164
Alignment explanation
Indices: 217226--217639 Score: 765
Period size: 164 Copynumber: 2.5 Consensus size: 164
217216 CATCATTTTT
* * *
217226 AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
* *
217291 GGTTTTTTTTTGAAACATCATTTTTAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCT
66 GG--CTTTTTGGAAACATCATTTTTAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCT
217356 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGA
129 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGA
217392 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
217457 GGCTTTTTGGAAACATCATTTTTAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
66 GGCTTTTTGGAAACATCATTTTTAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
217522 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGA
131 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGA
217556 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
217621 GGCTTTTTGGAAACATCAT
66 GGCTTTTTGGAAACATCAT
217640 GCACTGCAGG
Statistics
Matches: 243, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
164 179 0.74
166 64 0.26
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (164 bp):
AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
GGCTTTTTGGAAACATCATTTTTAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGA
Found at i:218355 original size:22 final size:22
Alignment explanation
Indices: 218330--218384 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
218320 CATAAAGCTT
218330 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
218352 TCATCTTTAAAAAGAGGATCTA
1 TCATCTTTGAAAAGAGAATCTA
218374 TCATCTTTGAA
1 TCATCTTTGAA
218385 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:219863 original size:74 final size:76
Alignment explanation
Indices: 219722--219891 Score: 220
Period size: 74 Copynumber: 2.3 Consensus size: 76
219712 ATTGTGGGCC
* *
219722 TTCAGCATGCCCCAACA-TTGGCTAATACAAGTGTTCAAAATGCATCAACAGTTCTGATTCTGAT
1 TTCAGCATGCCCCAACATTTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
*
219786 TGAAATGGGTT
66 TGAAAAGGGTT
* * * ** * *
219797 TTCAGCATGCCCCAACATTTTGCTGATA-AA-TATTCAGAATATTTCAACATTTCTGATTCTGTT
1 TTCAGCATGCCCCAACATTTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
219860 TGAAAAGGGTT
66 TGAAAAGGGTT
*
219871 TTCAGCATGCCCCAATATTTG
1 TTCAGCATGCCCCAACATTTG
219892 CTTCTTGTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
74 55 0.67
75 19 0.23
76 8 0.10
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (76 bp):
TTCAGCATGCCCCAACATTTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
TGAAAAGGGTT
Found at i:221280 original size:93 final size:93
Alignment explanation
Indices: 221094--221285 Score: 262
Period size: 93 Copynumber: 2.1 Consensus size: 93
221084 TCCTTATTTC
* * *
221094 TACTATGAGCAAAATTCATGTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATC
1 TACTATGAGCAAAATTCATCTTCCAAATCCAATGATTGATTTTGGAGTTCATACCAAACCAGATC
*
221159 AGATAACTCAAAGAACACTTCTAAAAGA
66 AGATAACTCAAAGAACACTTCCAAAAGA
* * * * *
221187 TGCTATGAGC-ATATTCATCTTCCAAATTCAATGATTGGTTCTGTGG-TTTCATACCAAACCAGA
1 TACTATGAGCAAAATTCATCTTCCAAATCCAATGATTGATT-T-TGGAGTTCATACCAAACCAGA
*
221250 TCAGATAACTCAAAGAACACTTCCAGAAGA
64 TCAGATAACTCAAAGAACACTTCCAAAAGA
221280 TACTAT
1 TACTAT
221286 TGGGTCTTCT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
92 25 0.29
93 58 0.67
94 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (93 bp):
TACTATGAGCAAAATTCATCTTCCAAATCCAATGATTGATTTTGGAGTTCATACCAAACCAGATC
AGATAACTCAAAGAACACTTCCAAAAGA
Found at i:223687 original size:2 final size:2
Alignment explanation
Indices: 223680--223717 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
223670 ACAACCAAGG
223680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
223718 TAAAGGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:230218 original size:3 final size:3
Alignment explanation
Indices: 230200--230268 Score: 75
Period size: 3 Copynumber: 22.3 Consensus size: 3
230190 TTGTAATATT
* * *
230200 TAA TAAA TAA TAAA TAA TAT TAC TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
230247 TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
230269 TTAAAATGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:231260 original size:6 final size:6
Alignment explanation
Indices: 231249--231294 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
231239 GGTCCAGGAA
** *
231249 AAAAAT AAAAAT AAAAAAT ATTAAT AATAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
231295 TAAATGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:231711 original size:37 final size:37
Alignment explanation
Indices: 231668--231987 Score: 234
Period size: 37 Copynumber: 9.1 Consensus size: 37
231658 TTTTTTTGTG
* *
231668 TGTTTCAAGAGAAACTGTCCCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * *
231705 TATTTCAAGAGAAACT-TATTC-------A-AAAATTGG
1 TGTTTCAAGAGAAACTGT-CTCAAGAGAGACAAAATT-T
*
231735 TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
231772 TGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
*
231808 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
** * * * * *
231845 AATTCCGAA-AAAAACTGTCTCTAGGGAGACGAAA-TT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATTT
* **
231881 TGTTTCAAG-GAAA-----AC-A-A-ATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ATTT
* * *
231910 TGTTTCATGGGAAACTGTCTCAAGAGAGATAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
231946 TGTTTCAAGAGAAACTGTCTCAAGAGTGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
231983 TGTTT
1 TGTTT
231988 TGAGTAAATT
Statistics
Matches: 219, Mismatches: 38, Indels: 52
0.71 0.12 0.17
Matches are distributed among these distances:
27 4 0.02
28 1 0.00
29 17 0.08
30 22 0.10
31 1 0.00
35 6 0.03
36 73 0.33
37 83 0.38
38 12 0.05
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:231810 original size:36 final size:36
Alignment explanation
Indices: 231735--231987 Score: 229
Period size: 36 Copynumber: 7.1 Consensus size: 36
231725 CAAAAATTGG
*
231735 TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
231772 TGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
231808 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
** * * * * *
231845 AATTCCGAA-AAAAACTGTCTCTAGGGAGACGAAATT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
231881 TGTTTCAAG-GAAAACAAAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* * *
231910 TGTTTCATGGGAAACTGTCTCAAGAGAGATAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
231946 TGTTTCAAGAGAAACTGTCTCAAGAGTGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
231983 TGTTT
1 TGTTT
231988 TGAGTAAATT
Statistics
Matches: 173, Mismatches: 28, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
28 1 0.01
29 17 0.10
30 2 0.01
31 1 0.01
32 2 0.01
33 2 0.01
35 3 0.02
36 78 0.45
37 65 0.38
38 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:231826 original size:73 final size:73
Alignment explanation
Indices: 231735--231988 Score: 249
Period size: 73 Copynumber: 3.6 Consensus size: 73
231725 CAAAAATTGG
* *
231735 TGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAATTTTGTTTTAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGGAAACTGTCTCAAGAGAG
231800 ACAAAATT
66 ACAAAATT
** ** ** * *
231808 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAATTCCGAA-AAAAACTGTCTCTAGGGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTT-TTAAGGGAAACTGTCTCAAGAGA
*
231872 GACGAAATT
65 GACAAAATT
* ** * * *
231881 TGTTTCAAG-GAAA-----AC-A-A-ATTCAAAGATTTTGTTTCATGGGAAACTGTCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ACTTTGTTTTAAGGGAAACTGTCTCAAGAGA
*
231937 GATAAAATT
65 GACAAAATT
*
231946 TGTTTCAAGAGAAACTGTCTCAAGAGTGACAAAACTTTGTTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTT
231989 GAGTAAATTA
Statistics
Matches: 137, Mismatches: 32, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
64 6 0.04
65 36 0.26
66 5 0.04
67 1 0.01
71 1 0.01
72 5 0.04
73 77 0.56
74 6 0.04
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGGAAACTGTCTCAAGAGAG
ACAAAATT
Found at i:232520 original size:40 final size:42
Alignment explanation
Indices: 232458--232557 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 42
232448 AGTTGGCACA
* * * * * *
232458 ATATCCTTCGTCGTGAATTTGAAATCGTGGA-TGTGGG-ATG
1 ATATCCTCCATCGTGGAGTTGAAATCGTGGATTATGGGTACG
*
232498 ATATCCTCCATCGTGGAGTTGAAATCTTGGATTTATGGGTACG
1 ATATCCTCCATCGTGGAGTTGAAATCGTGGA-TTATGGGTACG
232541 ATATCCTCCATCGTGGA
1 ATATCCTCCATCGTGGA
232558 TGGCCTCTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 26 0.52
42 5 0.10
43 19 0.38
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
ATATCCTCCATCGTGGAGTTGAAATCGTGGATTATGGGTACG
Found at i:233491 original size:13 final size:14
Alignment explanation
Indices: 233467--233496 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
233457 TGGTCAACGG
233467 TTTGACATTTTTGT
1 TTTGACATTTTTGT
233481 TTTGACATTTTTGT
1 TTTGACATTTTTGT
233495 TT
1 TT
233497 ATTTGATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (14 bp):
TTTGACATTTTTGT
Done.