Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009031.1 Hibiscus syriacus cultivar Beakdansim tig00112432_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: 141121
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1770 original size:22 final size:26
Alignment explanation
Indices: 1742--1800 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
1732 GACGAACCAT
1742 TGAATTCATT-G-ATA-TC-GTAGCG
1 TGAATTCATTGGAATATTCTGTAGCG
*
1764 TGAATTCATTTGGAATATTCTTTAGCG
1 TGAATTCA-TTGGAATATTCTGTAGCG
1791 TGAATTCATT
1 TGAATTCATT
1801 CATTGAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 8 0.26
23 2 0.06
24 1 0.03
25 3 0.10
26 4 0.13
27 13 0.42
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (26 bp):
TGAATTCATTGGAATATTCTGTAGCG
Found at i:9427 original size:13 final size:14
Alignment explanation
Indices: 9403--9433 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
9393 CCATTTTCAT
9403 TCCCTCATTTTCCC
1 TCCCTCATTTTCCC
9417 TCCCT-ATTTTCCC
1 TCCCTCATTTTCCC
9430 TCCC
1 TCCC
9434 AAGTTTGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.06, C:0.52, G:0.00, T:0.42
Consensus pattern (14 bp):
TCCCTCATTTTCCC
Found at i:13958 original size:10 final size:10
Alignment explanation
Indices: 13943--13967 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13933 CTGCAGACCA
13943 CATCTGCAGG
1 CATCTGCAGG
13953 CATCTGCAGG
1 CATCTGCAGG
13963 CATCT
1 CATCT
13968 ACAGCAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (10 bp):
CATCTGCAGG
Found at i:14601 original size:16 final size:15
Alignment explanation
Indices: 14543--14622 Score: 54
Period size: 16 Copynumber: 5.0 Consensus size: 15
14533 TTAACCCTTA
14543 TTATTTATATGTATATAT
1 TTATTTAT-T-TATAT-T
* *
14561 ATATTTAATTATATT
1 TTATTTATTTATATT
14576 TTATTTATTTATAATT
1 TTATTTATTTAT-ATT
* *
14592 TT-TTTCATTTTTCTT
1 TTATTT-ATTTATATT
*
14607 TTCTTTATATTATATT
1 TTATTTAT-TTATATT
14623 ATTTTCCTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
15 20 0.40
16 23 0.46
17 1 0.02
18 6 0.12
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.68
Consensus pattern (15 bp):
TTATTTATTTATATT
Found at i:14680 original size:32 final size:31
Alignment explanation
Indices: 14630--14710 Score: 78
Period size: 32 Copynumber: 2.6 Consensus size: 31
14620 ATTATTTTCC
* * *
14630 TATTATTATATATATATATATA-TATATTATAT
1 TATTATTTTTTATCTATATATACT-TATT-TAT
*
14662 TATTATTTTTTATCTATATTTACTTATTTAT
1 TATTATTTTTTATCTATATATACTTATTTAT
14693 TATGT-TTTTTTA-CTATAT
1 TAT-TATTTTTTATCTATAT
14711 TTTCCAAACG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
30 6 0.14
31 13 0.30
32 23 0.53
33 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (31 bp):
TATTATTTTTTATCTATATATACTTATTTAT
Found at i:14690 original size:21 final size:21
Alignment explanation
Indices: 14657--14713 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
14647 ATATATATAT
14657 TATA-TTA-TTATTTTTTATC
1 TATATTTACTTATTTTTTATC
* *
14676 TATATTTACTTATTTATTATG
1 TATATTTACTTATTTTTTATC
* *
14697 TTTTTTTACTATATTTT
1 TATATTTACT-TATTTT
14714 CCAAACGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 18 0.60
22 5 0.17
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (21 bp):
TATATTTACTTATTTTTTATC
Found at i:14692 original size:28 final size:30
Alignment explanation
Indices: 14630--14712 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 30
14620 ATTATTTTCC
* * * *
14630 TATTATTATATATATATA-TATATATATTA
1 TATTATTATGTTTTTATACTATATTTATTA
14659 TATTATTAT-TTTTTAT-CTATATTTACTTA
1 TATTATTATGTTTTTATACTATATTTA-TTA
*
14688 T-TTATTATGTTTTTTTACTATATTT
1 TATTATTATGTTTTTATACTATATTT
14713 TCCAAACGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 19 0.41
29 19 0.41
30 8 0.17
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (30 bp):
TATTATTATGTTTTTATACTATATTTATTA
Found at i:14702 original size:31 final size:31
Alignment explanation
Indices: 14654--14712 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
14644 TATATATATA
14654 TATTATATTATTATTTTTTATCTATATTTACT
1 TATTATATTATTATTTTTTA-CTATATTTACT
14686 TATT-TATTATGT-TTTTTTACTATATTT
1 TATTATATTAT-TATTTTTTACTATATTT
14713 TCCAAACGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 8 0.31
31 13 0.50
32 5 0.19
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (31 bp):
TATTATATTATTATTTTTTACTATATTTACT
Found at i:14880 original size:18 final size:18
Alignment explanation
Indices: 14859--14915 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 18
14849 TATACATACA
14859 TTTTTATATTTTATATAT
1 TTTTTATATTTTATATAT
14877 TTTTTAT-TTTT-TAT-T
1 TTTTTATATTTTATATAT
*
14892 TTATTTATACTATTTATTTAT
1 TT-TTTATA-T-TTTATATAT
14913 TTT
1 TTT
14916 CATTATGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
15 3 0.09
16 8 0.25
17 4 0.12
18 8 0.25
19 3 0.09
20 3 0.09
21 3 0.09
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTATATTTTATATAT
Found at i:14898 original size:16 final size:16
Alignment explanation
Indices: 14858--14928 Score: 55
Period size: 17 Copynumber: 4.5 Consensus size: 16
14848 ATATACATAC
14858 ATTTTTATATTTTATAT
1 ATTTTT-TATTTTATAT
14875 ATTTTTTATTTT-T-T
1 ATTTTTTATTTTATAT
14889 A--TTTTA-TTTATACT
1 ATTTTTTATTTTATA-T
14903 ATTTATTTATTTTCAT-T
1 ATTT-TTTATTTT-ATAT
14920 ATGTTTTTA
1 AT-TTTTTA
14929 GTTTCTTTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 18
0.71 0.00 0.29
Matches are distributed among these distances:
11 3 0.07
12 6 0.13
14 4 0.09
15 1 0.02
16 7 0.16
17 17 0.38
18 5 0.11
19 2 0.04
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (16 bp):
ATTTTTTATTTTATAT
Found at i:16231 original size:19 final size:19
Alignment explanation
Indices: 16207--16243 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16197 ACCTTACTAA
16207 CTATTTTCATTTT-TTTCCT
1 CTATTTT-ATTTTATTTCCT
16226 CTATTTTATTTTATTTCC
1 CTATTTTATTTTATTTCC
16244 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.68
Consensus pattern (19 bp):
CTATTTTATTTTATTTCCT
Found at i:19676 original size:15 final size:14
Alignment explanation
Indices: 19658--19710 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
19648 GGGCAAAAAA
19658 AAAAAGAAAAGAAGC
1 AAAAAGAAAAGAA-C
19673 AAAAAGAAGAA-AAC
1 AAAAAGAA-AAGAAC
19687 AAAAA-AGAAAGAAC
1 AAAAAGA-AAAGAAC
*
19701 AAAAATAAAA
1 AAAAAGAAAA
19711 AAGAAAAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.09
14 18 0.53
15 11 0.32
16 2 0.06
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAGAAC
Found at i:19676 original size:16 final size:15
Alignment explanation
Indices: 19657--19715 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
19647 AGGGCAAAAA
19657 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAAGAA-C
19673 -AAAAAGAAGAA-AAC
1 AAAAAAGAA-AAGAAC
19687 AAAAAAG-AAAGAAC
1 AAAAAAGAAAAGAAC
*
19701 AAAAATAAAAAAGAA
1 AAAAA-AGAAAAGAA
19716 AAGGGGACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
13 2 0.05
14 10 0.27
15 17 0.46
16 8 0.22
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (15 bp):
AAAAAAGAAAAGAAC
Found at i:20353 original size:22 final size:22
Alignment explanation
Indices: 20325--20379 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
20315 GCTACCCCAT
*
20325 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAACATCAAATGC
20347 CAAACCTTTGAACATCAAATGC
1 CAAACCTTTGAACATCAAATGC
20369 CAAACCTTTGA
1 CAAACCTTTGA
20380 CCAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAACATCAAATGC
Found at i:22397 original size:106 final size:106
Alignment explanation
Indices: 21339--22388 Score: 1591
Period size: 106 Copynumber: 9.9 Consensus size: 106
21329 CGAGACAAAA
* * *
21339 CAAGTTCAACTTCACAACGAA-GGAACGCCTGGTTGTCAACAAACAACTTCCCAAATTCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCC
* *
21403 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACA
65 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
*
21445 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
21510 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* ** * *
21551 CAAGTTCAACTTTACGACGAAGGGACATCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* ***
21616 ATTTCAACTTCACAGCGAAGGATATTGGACGAAAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *** * *
21657 CAAGTTCAACTTCATGACGAAGACCCCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
21722 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
21763 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * *
21828 ATTTCAACTTTACAGCGAAGGATATTGGACTCGAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * *
21869 CAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTTAACAAAAAATTTCCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
21934 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
21975 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCATTTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
22040 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
22081 CAAGTTCAACTTCGCGACAAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
22146 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACG
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * *
22187 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * **
22252 ATTTCAACTTCACAACAAAGGATATTGGACTCGATACAATA
66 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * * * * *
22293 CAAGTTCAACTTCACAACGAAGGGA-CGTCTAGTTATCAACAAACAATTTCCCGATTCCAGAGTC
1 CAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCC
* * *
22357 AATTTCAAATTCACGACGGAGGATATTGGACT
65 AATTTCAACTTCACAACGAAGGATATTGGACT
22389 TGGAACAATG
Statistics
Matches: 861, Mismatches: 81, Indels: 4
0.91 0.09 0.00
Matches are distributed among these distances:
105 2 0.00
106 854 0.99
107 5 0.01
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
Found at i:23126 original size:37 final size:37
Alignment explanation
Indices: 23073--23177 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
23063 CATTTTCGTC
23073 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
23110 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
23147 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
23178 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:23942 original size:30 final size:30
Alignment explanation
Indices: 23904--23971 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
23894 TACATTTTTA
*
23904 TATTTTTATATA-TATTT-TTTATTTT-AT
1 TATTTTTTTATACTATTTATTTATTTTCAT
23931 TATTTTATTTATACTATTTATTTATTTTCAT
1 TATTTT-TTTATACTATTTATTTATTTTCAT
23962 TATTTTTTTA
1 TATTTTTTTA
23972 GTTTCTTTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 6 0.17
28 5 0.14
29 5 0.14
30 12 0.33
31 8 0.22
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (30 bp):
TATTTTTTTATACTATTTATTTATTTTCAT
Found at i:23950 original size:13 final size:14
Alignment explanation
Indices: 23907--23955 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
23897 ATTTTTATAT
* *
23907 TTTTATATATA-TT
1 TTTTATTTATACTA
*
23920 TTTTATTT-TATTA
1 TTTTATTTATACTA
23933 TTTTATTTATACTA
1 TTTTATTTATACTA
23947 -TTTATTTAT
1 TTTTATTTAT
23956 TTTCATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 2 0.06
13 25 0.81
14 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTATACTA
Found at i:24058 original size:18 final size:16
Alignment explanation
Indices: 24023--24087 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 16
24013 CTTTACCTTT
*
24023 TTTATTTTTTTTGT-A
1 TTTATTTTTTTTTTCA
24038 TTTATATTTTTTTCTTCA
1 TTTAT-TTTTTTT-TTCA
24056 TTTATTTTATTTTATTCAA
1 TTTATTTT-TTTT-TTC-A
24075 TTTCATTTTTTTT
1 TTT-ATTTTTTTT
24088 ATATTTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.12
16 7 0.17
17 4 0.10
18 13 0.31
19 8 0.19
20 5 0.12
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTATTTTTTTTTTCA
Found at i:24596 original size:31 final size:31
Alignment explanation
Indices: 24560--24619 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
24550 AACTTAAAAG
* * *
24560 AGTTTTGCAATATTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
24591 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
24620 CATACAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:25102 original size:20 final size:19
Alignment explanation
Indices: 25054--25102 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
25044 AACTTAAATC
*
25054 AAAATAATTAAAATAAATAT
1 AAAATAATT-TAATAAATAT
25074 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAA-ATAT
25092 AAAATAATTTA
1 AAAATAATTTA
25103 TATGATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
20 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTTAATAAATAT
Found at i:25179 original size:13 final size:13
Alignment explanation
Indices: 25163--25243 Score: 62
Period size: 13 Copynumber: 6.4 Consensus size: 13
25153 ATTTATTTAA
25163 AAAATTTAATATT
1 AAAATTTAATATT
25176 AAAA-TTAATATAT
1 AAAATTTAATAT-T
* *
25189 ATAATATAATATT
1 AAAATTTAATATT
*
25202 AAAAATTAATATT
1 AAAATTTAATATT
*
25215 -TAATTT-AT-TT
1 AAAATTTAATATT
* *
25225 AAAAAATTAACATT
1 -AAAATTTAATATT
25239 AAAAT
1 AAAAT
25244 CAAAATCAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 15 0.29
13 24 0.47
14 8 0.16
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATTTAATATT
Found at i:25181 original size:26 final size:26
Alignment explanation
Indices: 25130--25211 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
25120 ATCTATAATA
* *
25130 TAATATTAAAAAA-GTAATATT-TAAT
1 TAAT-TTAAAAAATATAATATTAAAAT
* *
25155 TTATTTAAAAAATTTAATATTAAAAT
1 TAATTTAAAAAATATAATATTAAAAT
* * *
25181 TAATATATATAATATAATATTAAAAAT
1 TAATTTAAAAAATATAATATT-AAAAT
25208 TAAT
1 TAAT
25212 ATTTAATTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 8 0.17
25 10 0.22
26 19 0.41
27 9 0.20
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (26 bp):
TAATTTAAAAAATATAATATTAAAAT
Found at i:25185 original size:12 final size:12
Alignment explanation
Indices: 25163--25269 Score: 60
Period size: 13 Copynumber: 8.7 Consensus size: 12
25153 ATTTATTTAA
25163 AAAATTTAATATT
1 AAAA-TTAATATT
25176 AAAATTAATATAT
1 AAAATTAATAT-T
*
25189 ATAATATAATATT
1 AAAAT-TAATATT
25202 AAAAATTAATATT
1 -AAAATTAATATT
* *
25215 -TAATTTAT-TT
1 AAAATTAATATT
*
25225 AAAAAATTAACATT
1 --AAAATTAATATT
* *
25239 AAAATCAA-AAT
1 AAAATTAATATT
*
25250 CAAATATAATA-T
1 AAAAT-TAATATT
25262 AAAATTAA
1 AAAATTAA
25270 ATATAAAACC
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
10 2 0.03
11 15 0.21
12 21 0.29
13 23 0.32
14 12 0.16
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATTAATATT
Found at i:25203 original size:65 final size:64
Alignment explanation
Indices: 25111--25270 Score: 214
Period size: 64 Copynumber: 2.4 Consensus size: 64
25101 TATATGATAT
* *
25111 AAATTAAATATCTATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTTAATATT
1 AAATT-AATATATATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAA-TTAACATT
25176 A
64 A
*
25177 AAATTAATATATATAATATAATATT-AAAAATTAATATTTAATTTATTTAAAAAATTAACATTA
1 AAATTAATATATATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAACATTA
* * *
25240 AAATCAAAATCAAATATAATATAAAATTAAA
1 AAAT--TAAT-ATATATAATATAATATTAAA
25271 TATAAAACCT
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
63 12 0.14
64 28 0.33
65 22 0.26
66 20 0.24
67 2 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (64 bp):
AAATTAATATATATAATATAATATTAAAAAAGTAATATTTAATTTATTTAAAAAATTAACATTA
Found at i:25271 original size:17 final size:18
Alignment explanation
Indices: 25227--25277 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
25217 ATTTATTTAA
25227 AAAATTAACAT-TAAAATC
1 AAAATTAA-ATATAAAATC
* *
25245 AAAATCAAATATAATAT-
1 AAAATTAAATATAAAATC
25262 AAAATTAAATATAAAA
1 AAAATTAAATATAAAA
25278 CCTCTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATTAAATATAAAATC
Found at i:30333 original size:16 final size:17
Alignment explanation
Indices: 30312--30345 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30302 TTTTTTTATT
*
30312 ATTTAATATA-AAAATA
1 ATTTAAAATATAAAATA
30328 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
30345 A
1 A
30346 AAACAGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:30731 original size:16 final size:17
Alignment explanation
Indices: 30698--30731 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30688 CCTTCTATTT
*
30698 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
30715 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
30731 T
1 T
30732 AATAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:32046 original size:39 final size:39
Alignment explanation
Indices: 32003--32079 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
31993 TTCCAACTTC
* * *
32003 TCCTGTATTAATGGTTCATTAGTACAATAATCAATGCAA
1 TCCTGCATTAATGCTTCATTAATACAATAATCAATGCAA
32042 TCCTGCATTAATGCTTCATTAATACAATAATCAATGCA
1 TCCTGCATTAATGCTTCATTAATACAATAATCAATGCA
32080 GTAGATCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (39 bp):
TCCTGCATTAATGCTTCATTAATACAATAATCAATGCAA
Found at i:33096 original size:16 final size:16
Alignment explanation
Indices: 33046--33104 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
33036 TAAAATTTTC
33046 AATATAAAATAATTC-A
1 AATATAAAA-AATTCTA
*
33062 AATATTCAAAAAAAT-TA
1 AATA-T-AAAAAATTCTA
33079 AATATAAAAAATTCTA
1 AATATAAAAAATTCTA
*
33095 AAAATAAAAA
1 AATATAAAAA
33105 TTAAATTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 7 0.19
16 16 0.44
17 9 0.25
18 4 0.11
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (16 bp):
AATATAAAAAATTCTA
Found at i:34347 original size:21 final size:22
Alignment explanation
Indices: 34314--34365 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
34304 CGAATGAAGG
* *
34314 TATTTCTAAATTTAAATAAAAA
1 TATTTATACATTTAAATAAAAA
* *
34336 TA-TTATACATTTAATTATAAA
1 TATTTATACATTTAAATAAAAA
34357 TATTTATAC
1 TATTTATAC
34366 TCACAATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (22 bp):
TATTTATACATTTAAATAAAAA
Found at i:35392 original size:45 final size:45
Alignment explanation
Indices: 35340--35430 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
35330 TCCTACTTAT
* * *
35340 TGTTGGAGTTATTACTAACATTACCCAACTTATTTCCTAATTCTA
1 TGTTGGAGCTATTACTAACATTACCCAACTTATTTCATAAGTCTA
** *
35385 TGTTGGAGCTATTACTAGTATTACCTAACTTATTTCATAAGTCTA
1 TGTTGGAGCTATTACTAACATTACCCAACTTATTTCATAAGTCTA
35430 T
1 T
35431 CATTATTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (45 bp):
TGTTGGAGCTATTACTAACATTACCCAACTTATTTCATAAGTCTA
Found at i:35801 original size:10 final size:10
Alignment explanation
Indices: 35783--35816 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
35773 GCAGGCAACA
35783 AAAACAAAAT
1 AAAACAAAAT
*
35793 AAAATAAAAT
1 AAAACAAAAT
*
35803 AAAACAAACT
1 AAAACAAAAT
35813 AAAA
1 AAAA
35817 TAGGAGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAACAAAAT
Found at i:38160 original size:21 final size:21
Alignment explanation
Indices: 38134--38181 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
38124 TGTGCTAGTA
38134 ACCACCCAAATGGGACACACT
1 ACCACCCAAATGGGACACACT
38155 ACCACCCAAATGGGACACACT
1 ACCACCCAAATGGGACACACT
38176 ACCACC
1 ACCACC
38182 TATGAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.42, G:0.12, T:0.08
Consensus pattern (21 bp):
ACCACCCAAATGGGACACACT
Found at i:83382 original size:22 final size:21
Alignment explanation
Indices: 83341--83394 Score: 92
Period size: 22 Copynumber: 2.6 Consensus size: 21
83331 GCGTTTTACT
83341 GGTTTTGTTA-TTTTTTTATC
1 GGTTTTGTTATTTTTTTTATC
83361 GGTTTTGTTATTTTTTTCTATC
1 GGTTTTGTTATTTTTTT-TATC
83383 GGTTTTGTTATT
1 GGTTTTGTTATT
83395 GTTGAGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 10 0.31
21 6 0.19
22 16 0.50
ACGTcount: A:0.09, C:0.06, G:0.17, T:0.69
Consensus pattern (21 bp):
GGTTTTGTTATTTTTTTTATC
Found at i:92823 original size:2 final size:2
Alignment explanation
Indices: 92816--92864 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
92806 TTATTTTTAA
92816 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
92858 AT AT AT A
1 AT AT AT A
92865 AATTCTAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93051 original size:39 final size:38
Alignment explanation
Indices: 93006--93119 Score: 135
Period size: 39 Copynumber: 2.9 Consensus size: 38
92996 TTTTTAAAAT
93006 AATTTAGAATGTTAATGTGAAATAATTTAAGATATTAAG
1 AATTTAGAATGTTAATGTGAAATAATTTAAGA-ATTAAG
* *
93045 AATTTAGAATGTT-ATGGTGACAA-ATTTTAAGAAATTGAG
1 AATTTAGAATGTTAAT-GTGA-AATAATTTAAG-AATTAAG
*
93084 AATTTAGAATGTTAGA-GTGAAATAATTTGAGAATTA
1 AATTTAGAATGTTA-ATGTGAAATAATTTAAGAATTA
93120 TAAATACAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
38 8 0.12
39 52 0.81
40 3 0.05
41 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.18, T:0.37
Consensus pattern (38 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAATTAAG
Found at i:93995 original size:28 final size:28
Alignment explanation
Indices: 93964--94021 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
93954 TAAAGTTATC
* *
93964 TTTTTTGCCAAAATAAGCACCTAAAGTA
1 TTTTGTGCCAAAATAAGCACCTAAACTA
* * *
93992 TTTTGTGTCAAAATAGGTACCTAAACTA
1 TTTTGTGCCAAAATAAGCACCTAAACTA
94020 TT
1 TT
94022 CAAACTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (28 bp):
TTTTGTGCCAAAATAAGCACCTAAACTA
Found at i:101365 original size:27 final size:27
Alignment explanation
Indices: 101333--101400 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
101323 ATTATTTCTT
*
101333 CCAGTTTTGTTATTATTAGG-TGTTTTA
1 CCAGTTTTGTTATTATT-GGACGTTTTA
*
101360 CTAGTTTTGTTATTATTGGACGTTTTA
1 CCAGTTTTGTTATTATTGGACGTTTTA
*
101387 CCGGTTTTGTTATT
1 CCAGTTTTGTTATT
101401 GTTGATCACT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.16, C:0.09, G:0.19, T:0.56
Consensus pattern (27 bp):
CCAGTTTTGTTATTATTGGACGTTTTA
Found at i:102231 original size:21 final size:20
Alignment explanation
Indices: 102190--102248 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
102180 TTATTTTTAA
102190 TATTTTAAATATAAAATATT
1 TATTTTAAATATAAAATATT
*
102210 TATTTTATAT-TATAAATAATT
1 TATTTTAAATATA-AAAT-ATT
**
102231 TAAATTAAATA-AAAATAT
1 TATTTTAAATATAAAATAT
102249 AATTAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 4 0.12
20 17 0.53
21 11 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTTAAATATAAAATATT
Found at i:105433 original size:29 final size:29
Alignment explanation
Indices: 105391--105502 Score: 215
Period size: 29 Copynumber: 3.9 Consensus size: 29
105381 TCTTCCAGAT
105391 AATGCTCATAAGATGAGAACAAAGTAGAC
1 AATGCTCATAAGATGAGAACAAAGTAGAC
105420 AATGCTCATAAGATGAGAACAAAGTAGAC
1 AATGCTCATAAGATGAGAACAAAGTAGAC
105449 AATGCTCATAAGATGAGAACAAAGTAGAC
1 AATGCTCATAAGATGAGAACAAAGTAGAC
*
105478 AATGCTCATAAGATGAGAGCAAAGT
1 AATGCTCATAAGATGAGAACAAAGT
105503 TCATTTAGTT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 82 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (29 bp):
AATGCTCATAAGATGAGAACAAAGTAGAC
Found at i:116077 original size:12 final size:12
Alignment explanation
Indices: 116060--116084 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
116050 TCTATTATTA
116060 AAAATTCAAAAT
1 AAAATTCAAAAT
116072 AAAATTCAAAAT
1 AAAATTCAAAAT
116084 A
1 A
116085 TATTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATTCAAAAT
Found at i:116331 original size:13 final size:13
Alignment explanation
Indices: 116294--116333 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
116284 TCGATATTGA
116294 AAAATAAATA-TT
1 AAAATAAATATTT
*
116306 AAAATAATTTATTT
1 AAAATAA-ATATTT
116320 AAAATAAATATTT
1 AAAATAAATATTT
116333 A
1 A
116334 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:117489 original size:16 final size:16
Alignment explanation
Indices: 117468--117508 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
117458 ACCGTTGGCT
117468 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
117484 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
117500 GAGGCGGCT
1 GAGGCGGCT
117509 AGGGTTAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.56, T:0.07
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:117629 original size:3 final size:3
Alignment explanation
Indices: 117621--117764 Score: 189
Period size: 3 Copynumber: 48.0 Consensus size: 3
117611 TATATATATT
* *
117621 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
117669 TAA TTA TAA TAA TAA TAT TTA TAG TAA TAA TAA TAA TAA TAT TTA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
117717 TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
117765 ATAAATCAAA
Statistics
Matches: 119, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 119 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:118346 original size:113 final size:112
Alignment explanation
Indices: 118084--118849 Score: 1072
Period size: 113 Copynumber: 6.8 Consensus size: 112
118074 ATCTCCTTCT
* * * * *
118084 GTGATAGAATTATGCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGAT-GAATTAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAG
* * **
118149 ACGAGTTCTTCTCATTATGAACTTCT--CTGGAAAAGCTGCTCCATCAA
65 ATGAGTTCTTCTCATTATGAACTT-TAACTGGAAAAGATAATCCATCAA
* * *
118196 GTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTAG-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAG
** * * *
118261 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGCTGATCCATCAA
65 ATGAGTTCTTCTCATTATGAACTTTAACTGGAAAAGATAATCCATCAA
* *
118309 GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAG
1 GTGATGAATT-AGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAG
* ** ** *
118374 ATGAGTTCTTCTTATTATGAACTTTCTCTGGCGAAGCTAATCCATCAA
65 ATGAGTTCTTCTCATTATGAACTTTAACTGGAAAAGATAATCCATCAA
* *
118422 GTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAG
1 GTGATGAATTAG-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAG
**
118487 ATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAA
65 ATGAGTTCTTCTCATTATGAACTTTAACTGGAAAAGATAATCCATCAA
*
118535 GTGAT-AGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
1 GTGATGA-ATTAG-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
*
118599 GATGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATAATCCATCAA
64 GATGAGTTCTTCTCATTATGAACTTTAACTGGAAAAGATAATCCATCAA
* *
118648 GTGAT-AGATTTGAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
1 GTGATGA-ATTAG-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
* *
118712 GATGAGTTCTTCTCATTATGAACTCTAACTGGAAAATATAATCCATCAA
64 GATGAGTTCTTCTCATTATGAACTTTAACTGGAAAAGATAATCCATCAA
* * *
118761 GTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAT
1 GTGATGAATTAG-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAG
118826 ATGAGTTCTTCTCATTATGAACTT
65 ATGAGTTCTTCTCATTATGAACTT
118850 CTTCTTCCTT
Statistics
Matches: 610, Mismatches: 37, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
111 5 0.01
112 78 0.13
113 526 0.86
114 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (112 bp):
GTGATGAATTAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTAACTGGAAAAGATAATCCATCAA
Found at i:118469 original size:226 final size:226
Alignment explanation
Indices: 118084--118849 Score: 1189
Period size: 226 Copynumber: 3.4 Consensus size: 226
118074 ATCTCCTTCT
* * * * *
118084 GTGATAGAATTATGCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATAGAATTAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAG
* **
118149 ACGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGAGCAA
66 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAA
*
118213 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
131 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTA
* ** * * *
118278 TGAACTTTCTCTGGAAAGGCTGATCCATCAA
196 TGAACTCTAACTGGAAAAGATAATCCATCAA
* *
118309 GTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCA
1 GTGATAGAATT-AGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
* **
118373 GATGAGTTCTTCTTATTATGAACTTTCTCTGGCGAAGCTAATCCATCAAGTGATGGATTTGAGCA
65 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCA
118438 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATT
130 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATT
*
118503 ATGAACTCGAACTGGAAAAGATAATCCATCAA
195 ATGAACTCTAACTGGAAAAGATAATCCATCAA
*
118535 GTGATAG-ATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
1 GTGATAGAATTAG-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
* ** * * *
118599 GATGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAGTA
65 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCA
118664 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATT
130 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATT
*
118729 ATGAACTCTAACTGGAAAATATAATCCATCAA
195 ATGAACTCTAACTGGAAAAGATAATCCATCAA
* *
118761 GTGAT-GGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
1 GTGATAGAATTAG-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
*
118825 TATGAGTTCTTCTCATTATGAACTT
65 GATGAGTTCTTCTCATTATGAACTT
118850 CTTCTTCCTT
Statistics
Matches: 501, Mismatches: 35, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
224 5 0.01
225 76 0.15
226 419 0.84
227 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (226 bp):
GTGATAGAATTAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAA
AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTAACTGGAAAAGATAATCCATCAA
Found at i:118582 original size:339 final size:337
Alignment explanation
Indices: 118097--118848 Score: 1182
Period size: 339 Copynumber: 2.2 Consensus size: 337
118087 ATAGAATTAT
* * * * *
118097 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTC
* * ** *
118162 ATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
66 ATTATGAAC-TCACTGGAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAAT
* * **
118227 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
130 TCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
* * *
118292 AAAGGCTGATCCATCAAGTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
195 AAAAGATAATCCATCAAGTGATAGAATTCA-GCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * * ** ** *
118356 TTCTTCTTTCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCGAAGCTAATCCATCA
259 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATAATCCATCA
118421 AGTGATGGATTTGA
324 AGTGATGGATTTGA
118435 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTC
118500 ATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 ATTATGAACTC--ACTGGAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
118565 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
129 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
* * *
118630 GAAAAGATAATCCATCAAGTGATAGATTTGAGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
194 GAAAAGATAATCCATCAAGTGATAGAATTCAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
118695 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGAAAATATAATCCATCA
259 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATAATCCATCA
118760 AGTGATGGATTTGA
324 AGTGATGGATTTGA
*
118774 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCATATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTC
118839 ATTATGAACT
66 ATTATGAACT
118849 TCTTCTTCCT
Statistics
Matches: 380, Mismatches: 31, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
337 2 0.01
338 69 0.18
339 304 0.80
340 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (337 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCACTGGAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGA
AAAGATAATCCATCAAGTGATAGAATTCAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATAATCCATCAAG
TGATGGATTTGA
Found at i:118846 original size:40 final size:40
Alignment explanation
Indices: 118791--118888 Score: 178
Period size: 40 Copynumber: 2.5 Consensus size: 40
118781 GTTGAACAAA
*
118791 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCATATGAG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAG
*
118831 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAG
118871 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
118889 CTAACTGGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.48
Consensus pattern (40 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAG
Found at i:118864 original size:266 final size:266
Alignment explanation
Indices: 118565--119116 Score: 1009
Period size: 266 Copynumber: 2.1 Consensus size: 266
118555 GTTGAACAAA
118565 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
*
118630 GAAAAGATAATCCATCAAGTGATAGATTTGAGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
118695 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-T-CTAACTGGAAAATATAATCCAT
131 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCT--CTGGAAAAGATAATCCAT
*
118758 CAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTT
194 CAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTT
*
118823 CATATGAG
259 CAGATGAG
*
118831 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
*
118896 GAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
118961 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAGGATAATCCATCA
131 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGATAATCCATCA
119026 AGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
196 AGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
119091 GATGAG
261 GATGAG
119097 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
119117 CTCTGGAAAG
Statistics
Matches: 277, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
266 274 0.99
267 1 0.00
268 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (266 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGATAATCCATCA
AGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
GATGAG
Found at i:118867 original size:153 final size:153
Alignment explanation
Indices: 118678--119003 Score: 625
Period size: 153 Copynumber: 2.1 Consensus size: 153
118668 GTTGAACAAA
118678 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
*
118743 GAAAATATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
118808 TTCTTCATCCTTCTTCATATGAG
131 TTCTTCATCCTTCTTCAGATGAG
*
118831 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
118896 GAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
118961 TTCTTCATCCTTCTTCAGATGAG
131 TTCTTCATCCTTCTTCAGATGAG
118984 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
119004 CTCTGGAAAG
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 170 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (153 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
GAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCATCCTTCTTCAGATGAG
Found at i:119029 original size:113 final size:113
Alignment explanation
Indices: 118831--119152 Score: 558
Period size: 113 Copynumber: 2.8 Consensus size: 113
118821 TTCATATGAG
*
118831 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-T-CTAAC
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCT--C
*
118894 TGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
64 TGGAAAGGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
118944 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTG
*
119009 GAAAGGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAGGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
119057 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTG
* * *
119122 GAAAGGCTGATCCATCAAATGATGGATTTGA
66 GAAAGGATAATCCATCAAGTGATGGATTTGA
119153 ATCTTTGCTA
Statistics
Matches: 200, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
113 197 0.99
114 1 0.00
115 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTG
GAAAGGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:119151 original size:379 final size:377
Alignment explanation
Indices: 118452--119152 Score: 1244
Period size: 379 Copynumber: 1.8 Consensus size: 377
118442 GTTGAACAAA
118452 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
118517 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
118582 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGATAATCCATCA
131 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-ACTGGAAAAGATAATCCATCA
*
118647 AGTGATAGATTTGAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
195 AGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
* *
118712 GATGAGTTCTTCTCATTATGAACTCTAACTGGAAAATATAATCCATCAAGTGATGGATTTGAGCA
260 GATGAGTTCTTCTCATTATGAACTCT-ACTGGAAAAGATAATCCATCAAATGATGGATTTGAGCA
118777 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCATATGAG
324 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCATATGAG
* *
118831 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
*
118896 GAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
118961 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCT-CTGGAAAGGATAATCCATC
131 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-T-CTACTGGAAAAGATAATCCATC
119025 AAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTC
194 AAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTC
* * *
119090 AGATGAGTTCTTCTCATTATGAACTTCCT-CTGGAAAGGCTGATCCATCAAATGATGGATTTGA
259 AGATGAGTTCTTCTCATTATGAAC-T-CTACTGGAAAAGATAATCCATCAAATGATGGATTTGA
119153 ATCTTTGCTA
Statistics
Matches: 308, Mismatches: 10, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
379 302 0.98
380 2 0.01
381 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (377 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACTGGAAAAGATAATCCATCAA
GTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTCTACTGGAAAAGATAATCCATCAAATGATGGATTTGAGCAAA
AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCATATGAG
Found at i:120076 original size:83 final size:84
Alignment explanation
Indices: 119934--120519 Score: 906
Period size: 83 Copynumber: 7.1 Consensus size: 84
119924 ATTTCTACTA
* *
119934 TGAGCAAATTCATCTTCCATATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAA
1 TGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTTCCAAACCAGATCAGATAACTCAAAGAA
*
119999 CACATCCAGAAGATGCTAT
66 CACTTCCAGAAGATGCTAT
* *
120018 TG-GCAAATTCATCTTCTAAATTCAATGATTGGTTCTACCAAACCAGATCAGATAACTCAAAGAA
1 TGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTTCCAAACCAGATCAGATAACTCAAAGAA
*
120082 CACTTCTAGAAGATGCTAT
66 CACTTCCAGAAGATGCTAT
* *
120101 TG-GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAA
1 TGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTTCCAAACCAGATCAGATAACTCAAAGAA
120165 CACTTCCAGAAGATGCTA-
66 CACTTCCAGAAGATGCTAT
* *
120183 TGAGTACATTCATCTTCCAAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAAAGA
1 TGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCT-TCCAAACCAGATCAGATAACTCAAAGA
120247 ACACTTCCAGAAGATGCTA-
65 ACACTTCCAGAAGATGCTAT
* *
120266 TGAGTACATTCATCTTCCAAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAAAGA
1 TGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCT-TCCAAACCAGATCAGATAACTCAAAGA
120330 ACACTTCCAGAAGATGCTA-
65 ACACTTCCAGAAGATGCTAT
* * *
120349 TGAGTACATTCATCTTCCAAATTCAATGATTGGTTCTGTCC-AACCAGATCAAATAACTCAAAGA
1 TGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCT-TCCAAACCAGATCAGATAACTCAAAGA
120413 ACACTTCCAGAAGATGCTAT
65 ACACTTCCAGAAGATGCTAT
* * *
120433 TG-GCAAATTCATCTTCTAAATTCAATGATTGGTT-TACCAAACTAGATCAGATAACTCAAAGAA
1 TGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTTCCAAACCAGATCAGATAACTCAAAGAA
120496 CACTTCCAGAAGATGCTA-
66 CACTTCCAGAAGATGCTAT
120514 TGAGCA
1 TGAGCA
120520 CATTGCATTT
Statistics
Matches: 479, Mismatches: 18, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
81 4 0.01
82 46 0.10
83 423 0.88
84 6 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (84 bp):
TGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTTCCAAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTAT
Found at i:121601 original size:9 final size:9
Alignment explanation
Indices: 121569--121652 Score: 79
Period size: 9 Copynumber: 9.6 Consensus size: 9
121559 TTGACCTCCC
121569 CTTTTTCTTT
1 CTTTTT-TTT
*
121579 TTTATTTTTCT
1 CTT-TTTTT-T
121590 CTTTTTTTT
1 CTTTTTTTT
*
121599 CTTTTTTCT
1 CTTTTTTTT
121608 CTTTTTTTT
1 CTTTTTTTT
121617 C----TTTT
1 CTTTTTTTT
121622 C-TTTTTTT
1 CTTTTTTTT
*
121630 CTTTTCTTT
1 CTTTTTTTT
121639 CTTTTTTTT
1 CTTTTTTTT
121648 CTTTT
1 CTTTT
121653 CTTCAAGCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
5 5 0.08
8 5 0.08
9 37 0.60
10 9 0.15
11 6 0.10
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.83
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:121604 original size:18 final size:17
Alignment explanation
Indices: 121576--121652 Score: 90
Period size: 18 Copynumber: 4.6 Consensus size: 17
121566 CCCCTTTTTC
* *
121576 TTTTTTATTTTTCTCTT
1 TTTTTTCTTTTTTTCTT
121593 TTTTTTCTTTTTTCTCTT
1 TTTTTTCTTTTTT-TCTT
121611 TTTTTTC---TTTTC-T
1 TTTTTTCTTTTTTTCTT
121624 TTTTTTCTTTTCTTTCTT
1 TTTTTTCTTTT-TTTCTT
121642 TTTTTTCTTTT
1 TTTTTTCTTTT
121653 CTTCAAGCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
13 8 0.15
14 2 0.04
15 3 0.06
16 1 0.02
17 15 0.29
18 23 0.44
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTCTTTTTTTCTT
Found at i:121606 original size:31 final size:30
Alignment explanation
Indices: 121570--121655 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 30
121560 TGACCTCCCC
121570 TTTTTCTTTTTTATTTTTCTCTTTTTTTTCTT
1 TTTTTCTTTTTT-TTTTTCTC-TTTTTTTCTT
121602 TTTTCTCTTTTTTTTCTTT-TCTTTTTTTCTT
1 TTTT-TCTTTTTTTT-TTTCTCTTTTTTTCTT
121633 TTCTTTCTTTTTTTTCTTT-TCTT
1 TT-TTTCTTTTTTTT-TTTCTCTT
121656 CAAGCATAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
31 30 0.59
32 10 0.20
33 11 0.22
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (30 bp):
TTTTTCTTTTTTTTTTTCTCTTTTTTTCTT
Found at i:132786 original size:12 final size:12
Alignment explanation
Indices: 132769--132793 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
132759 TCTATTATTA
132769 AAAATTCAAAAT
1 AAAATTCAAAAT
132781 AAAATTCAAAAT
1 AAAATTCAAAAT
132793 A
1 A
132794 TATTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATTCAAAAT
Found at i:133038 original size:13 final size:13
Alignment explanation
Indices: 133001--133040 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
132991 TCGATATTGA
133001 AAAATAAATA-TT
1 AAAATAAATATTT
*
133013 AAAATAATTTATTT
1 AAAATAA-ATATTT
133027 AAAATAAATATTT
1 AAAATAAATATTT
133040 A
1 A
133041 TTTATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:134374 original size:3 final size:3
Alignment explanation
Indices: 134366--134473 Score: 110
Period size: 3 Copynumber: 36.0 Consensus size: 3
134356 TATATATATT
* * * * * *
134366 TAA TAA TAA TAA TAA TAA TAT TTA TAA TTA -AA TATA TAT TTA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * *
134411 TAA TAA TAA TAA TAA TAT TTA TAG TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
134459 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
134474 ATAAATCAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
2 1 0.01
3 79 0.95
4 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:134393 original size:24 final size:24
Alignment explanation
Indices: 134366--134473 Score: 147
Period size: 24 Copynumber: 4.8 Consensus size: 24
134356 TATATATATT
134366 TAATAATAATAATAATAATATTTA
1 TAATAATAATAATAATAATATTTA
134390 TAAT--T-A-AAT-AT-ATATTTA
1 TAATAATAATAATAATAATATTTA
*
134408 TAGTAATAATAATAATAATATTTA
1 TAATAATAATAATAATAATATTTA
* *
134432 TAGTAATAATAATAATAATAATTA
1 TAATAATAATAATAATAATATTTA
134456 TAATAATAATAATAATAA
1 TAATAATAATAATAATAA
134474 ATAAATCAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 12
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.13
19 2 0.03
20 4 0.05
21 2 0.03
22 4 0.05
23 2 0.03
24 51 0.68
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
TAATAATAATAATAATAATATTTA
Found at i:135828 original size:22 final size:23
Alignment explanation
Indices: 135803--135856 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
135793 ATTTTTTATG
135803 AATTATAAAA-ATTAAAGACT-CT
1 AATTATAAAATATT-AAGACTCCT
* *
135825 AATTATAAAATATTAGGAGTCCT
1 AATTATAAAATATTAAGACTCCT
135848 AATTATAAA
1 AATTATAAA
135857 CAAAAGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (23 bp):
AATTATAAAATATTAAGACTCCT
Found at i:138886 original size:20 final size:19
Alignment explanation
Indices: 138861--138903 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
138851 TGAACCTACA
138861 AATAAA-ATCAAAATAATAAT
1 AATAAATAT-AAAATAAT-AT
*
138881 AATAAATATAATATAATAT
1 AATAAATATAAAATAATAT
138900 AATA
1 AATA
138904 TACTCTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 13 0.62
21 2 0.10
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAATATAAAATAATAT
Found at i:138895 original size:5 final size:5
Alignment explanation
Indices: 138873--138977 Score: 65
Period size: 5 Copynumber: 20.6 Consensus size: 5
138863 TAAAATCAAA
* *
138873 ATAAT AATAAT A-AAT ATAAT ATAAT ATAAT ATACT CTACAT A-AAT AT-AT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT
* ** * *
138922 ACTATAT ATAAA AT-AT ATGCT ATATT ATAAT ATATAT AATAAT ATTAT
1 A-TA-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT -ATAAT ATAAT
138970 ATAAT ATA
1 ATAAT ATA
138978 TGCATATAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
4 13 0.17
5 47 0.60
6 12 0.15
7 6 0.08
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:138930 original size:9 final size:9
Alignment explanation
Indices: 138876--139089 Score: 74
Period size: 9 Copynumber: 23.9 Consensus size: 9
138866 AATCAAAATA
138876 ATAATA-AT
1 ATAATATAT
138884 A-AATATAAT
1 ATAATAT-AT
138893 ATAATATAAT
1 ATAATAT-AT
* * *
138903 ATACTCTAC
1 ATAATATAT
138912 ATAA-ATAT
1 ATAATATAT
*
138920 ATACTATAT
1 ATAATATAT
*
138929 ATAAAATAT
1 ATAATATAT
**
138938 ATGCTATATT
1 ATAATATA-T
138948 ATAATATAT
1 ATAATATAT
138957 ATAATA-AT
1 ATAATATAT
*
138965 ATTATATA-
1 ATAATATAT
138973 AT-ATATGCAT
1 ATAATAT--AT
*
138983 ATAATACA-
1 ATAATATAT
* *
138991 CTAATGTAT
1 ATAATATAT
** *
139000 ATACCATACC
1 ATAATATA-T
139010 ATAATATAT
1 ATAATATAT
*
139019 AT-ATATAC
1 ATAATATAT
*
139027 ACACACTA-AT
1 ATA-A-TATAT
139037 ATAATACTAT
1 ATAATA-TAT
139047 A-AATATAT
1 ATAATATAT
*
139055 AT-ATATACC
1 ATAATATA-T
*
139064 AT-GTAGTAT
1 ATAATA-TAT
*
139073 ATAATAAAT
1 ATAATATAT
139082 ATAATATA
1 ATAATATA
139090 ACATAATTAA
Statistics
Matches: 148, Mismatches: 37, Indels: 41
0.65 0.16 0.18
Matches are distributed among these distances:
7 8 0.05
8 37 0.25
9 59 0.40
10 39 0.26
11 5 0.03
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAATATAT
Found at i:138972 original size:13 final size:13
Alignment explanation
Indices: 138942--138988 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
138932 AAATATATGC
*
138942 TATATTATAATA-
1 TATATAATAATAT
138954 TATATAATAATAT
1 TATATAATAATAT
138967 TATATAAT-ATAT
1 TATATAATAATAT
*
138979 GCATATAATA
1 -TATATAATA
138989 CACTAATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 15 0.50
13 15 0.50
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (13 bp):
TATATAATAATAT
Found at i:138978 original size:39 final size:37
Alignment explanation
Indices: 138912--138985 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 37
138902 TATACTCTAC
*
138912 ATAAATATATACTATATATAAAATATATGC-TATATT
1 ATAAATATATAATATATATAAAATATATGCATATATT
*
138948 ATAATATATATAATAATATTATATAATATATGCATATA
1 ATAA-ATATATAAT-ATA-TATAAAATATATGCATATA
138986 ATACACTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 4 0.12
37 8 0.25
38 3 0.09
39 13 0.41
40 4 0.12
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (37 bp):
ATAAATATATAATATATATAAAATATATGCATATATT
Done.