Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_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: 5962497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 30
Found at i:3443 original size:20 final size:19
Alignment explanation
Indices: 3418--3467 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
3408 TTGTGCCACA
* *
3418 GTATCGATATTGACCCTTGG
1 GTATCGATACTCACCC-TGG
3438 GTATCGATACTCACCCTGG
1 GTATCGATACTCACCCTGG
*
3457 ATATCGATACT
1 GTATCGATACT
3468 GAAATAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (19 bp):
GTATCGATACTCACCCTGG
Found at i:3463 original size:19 final size:20
Alignment explanation
Indices: 3419--3467 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
3409 TGTGCCACAG
* * *
3419 TATCGATATTGACCCTTGGG
1 TATCGATACTCACCCTTGGA
3439 TATCGATACTCACCC-TGGA
1 TATCGATACTCACCCTTGGA
3458 TATCGATACT
1 TATCGATACT
3468 GAAATAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (20 bp):
TATCGATACTCACCCTTGGA
Found at i:7273 original size:2 final size:2
Alignment explanation
Indices: 7268--7305 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7258 TTTTTAGAAA
7268 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
7306 TAAAAGTGGT
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:7803 original size:21 final size:21
Alignment explanation
Indices: 7746--7804 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
7736 GGTTTTATGC
* * *
7746 TTTATGATTTAGGATTTGAGA
1 TTTAAGATTTTGGGTTTGAGA
* *
7767 TTT-GGAGTTTGAGGTTTGAGA
1 TTTAAGATTTTG-GGTTTGAGA
7788 TTTAAGATTTTGGGTTT
1 TTTAAGATTTTGGGTTT
7805 ACTGCGAGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 5 0.17
21 19 0.63
22 6 0.20
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (21 bp):
TTTAAGATTTTGGGTTTGAGA
Found at i:10084 original size:2 final size:2
Alignment explanation
Indices: 10077--10103 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10067 TTTGATAAAT
10077 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10104 TGTAAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10165 original size:30 final size:31
Alignment explanation
Indices: 10110--10172 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
10100 ATATTGTAAA
*
10110 AGTTTGATAAATTTAATGAACATTTTATAAT
1 AGTTTGATAAATATAATGAACATTTTATAAT
**
10141 AGTTTGAT-AATATAATGATGATTTTATAAT
1 AGTTTGATAAATATAATGAACATTTTATAAT
10171 AG
1 AG
10173 ATCATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.44
Consensus pattern (31 bp):
AGTTTGATAAATATAATGAACATTTTATAAT
Found at i:10187 original size:30 final size:30
Alignment explanation
Indices: 10116--10199 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
10106 TAAAAGTTTG
* * *
10116 ATAAATTTAATGAACATTTTATAATAGTTTG
1 ATAAATTTAATG-ATATTTTATAATAGTATC
*
10147 AT-AATATAATGATGATTTTATAATAG-ATC
1 ATAAATTTAATGAT-ATTTTATAATAGTATC
10176 ATAAATTTAATGATAGTTTTATAA
1 ATAAATTTAATGATA-TTTTATAA
10200 CTTTTGAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 5 0.11
30 38 0.84
31 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (30 bp):
ATAAATTTAATGATATTTTATAATAGTATC
Found at i:10656 original size:23 final size:24
Alignment explanation
Indices: 10628--10688 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
10618 TTCATAAATG
10628 AACGAGTTCATAAATGAACTTAT-
1 AACGAGTTCATAAATGAACTTATA
*
10651 AACGAGCTT-ATGAATGAACTTATA
1 AACGAG-TTCATAAATGAACTTATA
*
10675 AACGAGCTCATAAA
1 AACGAGTTCATAAA
10689 CGAGTTTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (24 bp):
AACGAGTTCATAAATGAACTTATA
Found at i:13012 original size:16 final size:17
Alignment explanation
Indices: 12984--13021 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
12974 CACGTTAATT
12984 TTTTTAAATAAATATTA
1 TTTTTAAATAAATATTA
13001 TTTTTAAA-AAATATTA
1 TTTTTAAATAAATATTA
13017 TTTTT
1 TTTTT
13022 TATTATACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTAAATAAATATTA
Found at i:13022 original size:17 final size:18
Alignment explanation
Indices: 12983--13023 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
12973 TCACGTTAAT
12983 TTTTTTAAATAAATATTA
1 TTTTTTAAATAAATATTA
13001 -TTTTTAAA-AAATATTA
1 TTTTTTAAATAAATATTA
13017 TTTTTTA
1 TTTTTTA
13024 TTATACACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTTAAATAAATATTA
Found at i:13997 original size:17 final size:17
Alignment explanation
Indices: 13975--14008 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13965 CGGATTGAGT
13975 TTTGTTCACCCTTAATC
1 TTTGTTCACCCTTAATC
13992 TTTGTTCACCCTTAATC
1 TTTGTTCACCCTTAATC
14009 AGAAAGGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTGTTCACCCTTAATC
Found at i:28599 original size:13 final size:13
Alignment explanation
Indices: 28581--28619 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
28571 TATTTTGCTT
28581 GAAGAAAAAA-GAA
1 GAAGAAAAAATG-A
28594 GAAGAAAAAATGA
1 GAAGAAAAAATGA
28607 GAAGAAAAAATGA
1 GAAGAAAAAATGA
28620 AAAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 24 0.96
14 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (13 bp):
GAAGAAAAAATGA
Found at i:28635 original size:21 final size:21
Alignment explanation
Indices: 28597--28637 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
28587 AAAAGAAGAA
* *
28597 GAAAAAATGAGAAGAAAAAAT
1 GAAAAAATAAAAAGAAAAAAT
*
28618 GAAAAAATAAAAATAAAAAA
1 GAAAAAATAAAAAGAAAAAA
28638 AATAATAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (21 bp):
GAAAAAATAAAAAGAAAAAAT
Found at i:29728 original size:55 final size:55
Alignment explanation
Indices: 29659--30145 Score: 648
Period size: 55 Copynumber: 8.9 Consensus size: 55
29649 AGGTTTCCCA
* *
29659 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAAGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
29714 ACGATTGTTGAAGATTGTTCAAGTCTTATACTCTCTAAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
29769 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
29824 ACGTTTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGAC
29880 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
29935 ACG-TTCGTTGAAGATTGTTCGAGTCTCATTCTCTCTGAAGAAAATAGGGAGCATG-C
1 ACGATT-GTTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCA-GAC
* *
29991 ACGATTATTG-AGAATTGTTCGAGTCTCATACTCTCTGAAAAAATAGGGAGCAGAC
1 ACGATTGTTGAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * ** *
30046 ACGATTATCG-AGAATCGTTTGAGTCTTGTACTCTCTGGAA-AAATGGGGAGCAGAC
1 ACGATTGTTGAAG-ATTGTTCGAGTCTCATACTCTCT-GAAGAAATAGGGAGCAGAC
** * * * *
30101 ACGATTGACGAAGA-TATTCGAGT-T-TTACTCCCTGAAGCAATAGGG
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGG
30146 GGTAAAACCA
Statistics
Matches: 391, Mismatches: 31, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
51 3 0.01
52 13 0.03
53 1 0.00
54 9 0.02
55 260 0.66
56 102 0.26
57 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:29923 original size:111 final size:111
Alignment explanation
Indices: 29659--30107 Score: 642
Period size: 111 Copynumber: 4.1 Consensus size: 111
29649 AGGTTTCCCA
*
29659 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATA-AGGAGCAGACACGATTGTT
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGA-GAGCAGACACGATTGTT
* * *
29723 GAAGATTGTTCAAGTCTTATACTCTCTAAAG-AAATAGGGAGCAGAC
65 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGAC
*
29769 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACACGTTTGTTG
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTTG
29834 AAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGAC
66 AAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGAC
*
29880 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACG-TTCGTT
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACACGATT-GTT
*
29944 GAAGATTGTTCGAGTCTCATTCTCTCTGAAGAAAATAGGGAGCATG-C
65 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCA-GAC
* * * * *
29991 ACGATTATTG-AGAATTGTTCGAGTCTCATACTCTCTGAAAAAATAGGGAGCAGACACGATTATC
1 ACGATTGTTGAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
* * ** * *
30055 G-AGAATCGTTTGAGTCTTGTACTCTCTGGA-AAAATGGGGAGCAGAC
65 GAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGAC
30101 ACGATTG
1 ACGATTG
30108 ACGAAGATAT
Statistics
Matches: 312, Mismatches: 19, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
109 1 0.00
110 113 0.36
111 195 0.62
112 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (111 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTTG
AAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGAC
Found at i:29936 original size:166 final size:167
Alignment explanation
Indices: 29659--30107 Score: 662
Period size: 166 Copynumber: 2.7 Consensus size: 167
29649 AGGTTTCCCA
* *
29659 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAG-AAATAAGGAGCAGACACGATTGTT
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGTT
* *
29723 GAAGATTGTTCAAGTCTTATACTCTCTAAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTT
66 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTT
29788 CGAGTCTCATACTCTCTGAAG-AAATAGAGAGCA-GAC
131 CGAGTCTCATACTCTCTGAAGAAAATAGAGAGCATG-C
*
29824 ACGTTTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGTT
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGTT
*
29889 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACG-TTCGTTGAAGATTGT
66 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATT-GTTGAAGATTGT
* *
29953 TCGAGTCTCATTCTCTCTGAAGAAAATAGGGAGCATGC
130 TCGAGTCTCATACTCTCTGAAGAAAATAGAGAGCATGC
* *
29991 ACGATTATTG-AGAATTGTTCGAGTCTCATACTCTCTGAA-AAAATAGGGAGCAGACACGATTAT
1 ACGATTGTTGAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGT
* * * * *
30054 CG-AGAATCGTTTGAGTCTTGTACTCTCTGGAA-AAATGGGGAGCAGACACGATTG
65 TGAAG-ATTGTTCGAGTCTTATACTCTCT-GAAGAAATAGGGAGCAGACACGATTG
30108 ACGAAGATAT
Statistics
Matches: 259, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
165 42 0.16
166 165 0.64
167 51 0.20
168 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (167 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGTT
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTT
CGAGTCTCATACTCTCTGAAGAAAATAGAGAGCATGC
Found at i:35085 original size:3 final size:3
Alignment explanation
Indices: 35077--35225 Score: 226
Period size: 3 Copynumber: 49.7 Consensus size: 3
35067 TTAATATATT
* * *
35077 TAA TAA TAA TAA TAA TGA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
35125 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA CAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
35173 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35221 TAA TA
1 TAA TA
35226 TGGATAAAAA
Statistics
Matches: 130, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 130 1.00
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:35596 original size:24 final size:23
Alignment explanation
Indices: 35559--35605 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
35549 GTTAAACAAG
35559 TTCTTCTTATTATGAACTTCTTCT
1 TTCTTCTTATTATG-ACTTCTTCT
*
35583 TTCTTCTTCA-TATGAGTTCTTCT
1 TTCTTCTT-ATTATGACTTCTTCT
35606 CATTATGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.57
Consensus pattern (23 bp):
TTCTTCTTATTATGACTTCTTCT
Found at i:35796 original size:113 final size:113
Alignment explanation
Indices: 35544--36441 Score: 1584
Period size: 113 Copynumber: 8.0 Consensus size: 113
35534 AAAATTATGC
* * * * * *
35544 AAAAAGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCATATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* ** * * *
35609 TATGAAC-TTCTCCGGAAAAAATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
*
35656 AAAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
35721 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
35769 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
35834 TATGAACTTTCTCTGGAAAAGCTGATCTC-TCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATC-CATCAAATGATGGATTCAGGT
35882 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
35947 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
*
35995 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
36060 TATGAATTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
36108 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
36173 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
36221 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
36286 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
36334 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* ** *
36399 TATGAACTTTCTCTGGAAAAGCTAATCTTTCAAATGATAGATT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATT
36442 TGAATCTTTG
Statistics
Matches: 761, Mismatches: 22, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
112 67 0.09
113 693 0.91
114 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
Found at i:37130 original size:83 final size:83
Alignment explanation
Indices: 37023--37566 Score: 966
Period size: 83 Copynumber: 6.6 Consensus size: 83
37013 CATACCAAAC
37023 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
37088 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
* *
37106 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
37171 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
37189 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
37254 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
37272 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
37337 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
*
37355 CAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
37420 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
* * *
37438 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
* * *
37503 G-TTCTG-CTAAACCAGGT
66 GATTCTGTC-CAATCAGAT
**
37520 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCAT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
37567 TTGTTCTATT
Statistics
Matches: 446, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
81 1 0.00
82 56 0.13
83 389 0.87
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (83 bp):
CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
GATTCTGTCCAATCAGAT
Found at i:38745 original size:16 final size:15
Alignment explanation
Indices: 38726--38787 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 15
38716 TTTTTCCTCT
38726 TTTTTTTCATTTTTTA
1 TTTTTTTC-TTTTTTA
*
38742 TTTTTTTCTTTTCTTT
1 TTTTTTTCTTTT-TTA
38758 TTTTTTTCTATTTTT-
1 TTTTTTTCT-TTTTTA
38773 TCTTTCTTTCTTTTT
1 T-TTT-TTTCTTTTT
38788 CTTTTTCTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
15 5 0.12
16 28 0.68
17 8 0.20
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTCTTTTTTA
Found at i:38745 original size:26 final size:25
Alignment explanation
Indices: 38710--38781 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 25
38700 CTTGACCCCC
*
38710 TTTTTCTTTTTCCTCTTTT-TTTTCAT
1 TTTTTATTTTT-CTCTTTTCTTTT-AT
* *
38736 TTTTTATTTTTTTCTTTTCTTTTTT
1 TTTTTATTTTTCTCTTTTCTTTTAT
38761 TTTTCTATTTTT-TC-TTTCTTT
1 TTTT-TATTTTTCTCTTTTCTTT
38782 CTTTTTCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.17
25 13 0.32
26 21 0.51
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTTTATTTTTCTCTTTTCTTTTAT
Found at i:38753 original size:13 final size:13
Alignment explanation
Indices: 38737--38792 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
38727 TTTTTTCATT
38737 TTTTATTTTTTTC
1 TTTTATTTTTTTC
*
38750 TTTTCTTTTTTT-
1 TTTTATTTTTTTC
38762 TTTCTA-TTTTTTC
1 TTT-TATTTTTTTC
38775 TTTCT-TTCTTTTTC
1 TTT-TATT-TTTTTC
38789 TTTT
1 TTTT
38793 TCTTCAAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 9 0.24
13 19 0.51
14 9 0.24
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTTC
Found at i:38753 original size:24 final size:24
Alignment explanation
Indices: 38726--38787 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
38716 TTTTTCCTCT
38726 TTTTTTTCATTTTTTAT-TTTTTTC
1 TTTTTTTC-TTTTTTATATTTTTTC
* *
38750 TTTTCTTTTTTTTTTCTATTTTTTC
1 TTTT-TTTCTTTTTTATATTTTTTC
*
38775 TTTCTTTCTTTTT
1 TTTTTTTCTTTTT
38788 CTTTTTCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (24 bp):
TTTTTTTCTTTTTTATATTTTTTC
Found at i:38759 original size:29 final size:31
Alignment explanation
Indices: 38723--38798 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 31
38713 TTCTTTTTCC
*
38723 TCTTTTTTTTCATTTTTTATTTTTTTCTTTT
1 TCTTTTTTTTCATTTTTTATTTCTTTCTTTT
* *
38754 CTTTTTTTTTTCTATTTTTTCTTTCTTTCTTTT
1 -TCTTTTTTTTC-ATTTTTTATTTCTTTCTTTT
*
38787 TCTTTTTCTTCA
1 TCTTTTTTTTCA
38799 AGCATAATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 1 0.03
32 19 0.50
33 18 0.47
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.80
Consensus pattern (31 bp):
TCTTTTTTTTCATTTTTTATTTCTTTCTTTT
Found at i:38772 original size:25 final size:25
Alignment explanation
Indices: 38710--38787 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
38700 CTTGACCCCC
* *
38710 TTTTTCT-TTTTCCTCTTTT-TTTTCA
1 TTTTTCTATTTT-TTCTTTTCTTTT-T
38735 TTTTT-TATTTTTTTCTTTTCTTTTT
1 TTTTTCTA-TTTTTTCTTTTCTTTTT
*
38760 TTTTTCTATTTTTTC-TTTCTTTCT
1 TTTTTCTATTTTTTCTTTTCTTTTT
38784 TTTT
1 TTTT
38788 CTTTTTCTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
24 13 0.28
25 23 0.50
26 10 0.22
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTTTCTATTTTTTCTTTTCTTTTT
Found at i:38789 original size:34 final size:33
Alignment explanation
Indices: 38712--38793 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
38702 TGACCCCCTT
* *
38712 TTTCTTTTTCCTCTTTTTTTTCATTTTTTATTTT
1 TTTCTTTTT-CTTTTTTTTTTCATTTTTTATTTC
*
38746 TTTC-TTTTCTTTTTTTTTTCTATTTTTTCTTTC
1 TTTCTTTTTCTTTTTTTTTTC-ATTTTTTATTTC
38779 TTTCTTTTTCTTTTT
1 TTTCTTTTTCTTTTT
38794 CTTCAAGCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 11 0.26
33 18 0.42
34 14 0.33
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (33 bp):
TTTCTTTTTCTTTTTTTTTTCATTTTTTATTTC
Found at i:49478 original size:6 final size:7
Alignment explanation
Indices: 49459--49483 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49449 AAGAATTAAA
49459 AATTTTT
1 AATTTTT
49466 AATTTTT
1 AATTTTT
49473 AATTTTT
1 AATTTTT
49480 AATT
1 AATT
49484 AATAGAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:51579 original size:3 final size:3
Alignment explanation
Indices: 51571--51719 Score: 244
Period size: 3 Copynumber: 49.7 Consensus size: 3
51561 AATATATATT
* *
51571 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
51619 TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
51667 TAA TAG TAA TAA TAA TAA TAA 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
51715 TAA TA
1 TAA TA
51720 TGAATAAAAA
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 134 1.00
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:54545 original size:20 final size:20
Alignment explanation
Indices: 54470--54548 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
54460 GATATTGATT
* * *
54470 AAATATTTTAGAATATGATG
1 AAATATTTTATAACATTATG
**
54490 AAA-AGTTTTATAACACCAT-
1 AAATA-TTTTATAACATTATG
54509 AGAATATTTTATAACATTATG
1 A-AATATTTTATAACATTATG
54530 AAATATTTTATAACATTAT
1 AAATATTTTATAACATTAT
54549 TGATTACCAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
19 2 0.04
20 45 0.92
21 2 0.04
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (20 bp):
AAATATTTTATAACATTATG
Found at i:61469 original size:2 final size:2
Alignment explanation
Indices: 61462--61488 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
61452 AATGTTATGA
61462 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
61489 AGAAATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89809 original size:30 final size:30
Alignment explanation
Indices: 89773--89830 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
89763 GTGATCGAAC
89773 AAAGTGTCATTAATGCAGAAAAAATAATTT
1 AAAGTGTCATTAATGCAGAAAAAATAATTT
*
89803 AAAGTGTTATTAATGCAGAAAAAATAAT
1 AAAGTGTCATTAATGCAGAAAAAATAAT
89831 GTGAAAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.52, C:0.05, G:0.14, T:0.29
Consensus pattern (30 bp):
AAAGTGTCATTAATGCAGAAAAAATAATTT
Found at i:92028 original size:25 final size:25
Alignment explanation
Indices: 92000--92053 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
91990 CGATCTCCTG
92000 TTTC-CTCGTCTATCTCTGTTTTTTT
1 TTTCTCTC-TCTATCTCTGTTTTTTT
* *
92025 TTTCTGTCTCTGTCTCTGTTTTTTT
1 TTTCTCTCTCTATCTCTGTTTTTTT
92050 TTTC
1 TTTC
92054 AGGTTGGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.02, C:0.22, G:0.09, T:0.67
Consensus pattern (25 bp):
TTTCTCTCTCTATCTCTGTTTTTTT
Found at i:92474 original size:15 final size:14
Alignment explanation
Indices: 92445--92485 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
92435 GGTCTGTAAT
*
92445 TATTTATTTATATA
1 TATTTATTAATATA
92459 TATTTAGTTAATATA
1 TATTTA-TTAATATA
*
92474 TATTTAATAATA
1 TATTTATTAATA
92486 ATAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TATTTATTAATATA
Found at i:92486 original size:3 final size:3
Alignment explanation
Indices: 92478--92544 Score: 116
Period size: 3 Copynumber: 22.3 Consensus size: 3
92468 AATATATATT
*
92478 TAA TAA TAA TAA TAA TAA TGA 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
*
92526 TAA TAA TAA TAA TAG TAA T
1 TAA TAA TAA TAA TAA TAA T
92545 GTGGGTAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:93188 original size:114 final size:113
Alignment explanation
Indices: 92681--93517 Score: 1184
Period size: 113 Copynumber: 7.5 Consensus size: 113
92671 ATTGAATAAA
* * ** *
92681 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT-CTGGAAAAGATGATCCATC
* * * *
92745 AAATGATGAATTCAAGCAAAAGATTGAAC-AAGTCTTCTCATTATGAAC
65 AAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * * *
92793 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTTCTCTGGAAAAGATGATCC
* * * *
92857 ATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
62 ATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
92909 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
* *
92974 ATTTGATGAATTCA-GAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 A-GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
93022 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
* *
93087 ATTTGATGAATTCAGGAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 A-GTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
93136 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
*
93201 AGTGATAGAATT-AGGCAGAAGGTTGAACAAATTCTTCTC-------A-
66 AGTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
93241 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGGAAAAGATAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC-TGGAAAAGATGATCCATC
* * *
93306 AAGTGATGAATTCAGGTAACAGGTTGAACAAATTCTTCTCATTATGAAT
65 AAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
93355 TTCTTCTTCCTTCTT-AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
*
93419 AGTGATAGAATT-AGGC-AAAGGTTGAACAAATTCTTCTCATTATGAAT
66 AGTGAT-GAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
93466 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTTGAAA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAA
93518 TGTCAATCCA
Statistics
Matches: 671, Mismatches: 32, Indels: 44
0.90 0.04 0.06
Matches are distributed among these distances:
105 51 0.08
106 48 0.07
111 45 0.07
112 70 0.10
113 224 0.33
114 129 0.19
115 45 0.07
116 57 0.08
117 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
AGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:94326 original size:83 final size:83
Alignment explanation
Indices: 94187--94662 Score: 758
Period size: 83 Copynumber: 5.7 Consensus size: 83
94177 GTAGTTCTTA
*
94187 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
94252 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
94270 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
94335 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * * *
94353 CTAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
94418 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
94436 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCC
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCA
*
94500 AAGTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* * * * *
94519 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
94584 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
94602 CTAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATTG-GCAAATTCATCTT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTT
94663 TCAGTTAATG
Statistics
Matches: 361, Mismatches: 29, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
82 1 0.00
83 358 0.99
84 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:95773 original size:13 final size:13
Alignment explanation
Indices: 95755--95794 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
95745 TTGACCCCTC
95755 TTTTTTCTCTTTT
1 TTTTTTCTCTTTT
95768 TTTTTTCT-TTTT
1 TTTTTTCTCTTTT
*
95780 TTTTTCTTTCTTTT
1 TTTTT-TCTCTTTT
95794 T
1 T
95795 CTTCAAGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 9 0.38
13 10 0.42
14 5 0.21
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTCTTTT
Found at i:95782 original size:10 final size:11
Alignment explanation
Indices: 95755--95794 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
95745 TTGACCCCTC
*
95755 TTTTTTCTCTT
1 TTTTTTTTCTT
95766 TTTTTTTTCTT
1 TTTTTTTTCTT
95777 TTTTTTTTCTT
1 TTTTTTTTCTT
95788 TCTTTTT
1 T-TTTTT
95795 CTTCAAGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:95782 original size:15 final size:15
Alignment explanation
Indices: 95764--95794 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
95754 CTTTTTTCTC
95764 TTTTTTT-TTTCTTT
1 TTTTTTTCTTTCTTT
95778 TTTTTTTCTTTCTTT
1 TTTTTTTCTTTCTTT
95793 TT
1 TT
95795 CTTCAAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTCTTTCTTT
Found at i:108518 original size:14 final size:15
Alignment explanation
Indices: 108499--108533 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
108489 GGTCTGTAAT
108499 TATTTATTT-ATATA
1 TATTTATTTAATATA
108513 TATTTATTTAATATA
1 TATTTATTTAATATA
108528 TATTTA
1 TATTTA
108534 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTATTTAATATA
Found at i:108540 original size:3 final size:3
Alignment explanation
Indices: 108532--108589 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
108522 AATATATATT
108532 TAA TAA TAA TAA TAA TAA TAA 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
*
108580 TAA TAG TAA T
1 TAA TAA TAA T
108590 GTGGGTAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:109846 original size:32 final size:32
Alignment explanation
Indices: 109780--109846 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
109770 AAATCCAACT
* *
109780 TGACTCAAAAATTATATATCATTCATCCGATC
1 TGACCCAAAAATTATATATCATTCACCCGATC
*
109812 TGACCCAAAAA-TATATAT-TTTCCACCCGACTC
1 TGACCCAAAAATTATATATCATT-CACCCGA-TC
109844 TGA
1 TGA
109847 TCTGATCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 2 0.07
31 13 0.43
32 15 0.50
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (32 bp):
TGACCCAAAAATTATATATCATTCACCCGATC
Found at i:119572 original size:60 final size:60
Alignment explanation
Indices: 119524--119638 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 60
119514 TTATAAGGTA
* *
119524 TTATTTTATTAAGT-TCATCGACTATTAAAAGTTACAGAATGATCCTCTGACTATTGAGCG
1 TTATTTTATTAAGTCT-ATCGACTATTAAAAGTTACAAAATGATCCTCTGACTATTAAGCG
119584 TTATTTTATTAAGTCTATCGACTATTAAAAGTTACAAAATGATCAC-CTGACTATT
1 TTATTTTATTAAGTCTATCGACTATTAAAAGTTACAAAATGATC-CTCTGACTATT
119639 CATTATGTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
60 50 0.96
61 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (60 bp):
TTATTTTATTAAGTCTATCGACTATTAAAAGTTACAAAATGATCCTCTGACTATTAAGCG
Found at i:126573 original size:18 final size:19
Alignment explanation
Indices: 126536--126575 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
126526 TTTTATTAAG
*
126536 TTATAAAATGATTTTTTTA
1 TTATAAAATGATTATTTTA
*
126555 TTATAGAATG-TTATTTTA
1 TTATAAAATGATTATTTTA
126573 TTA
1 TTA
126576 AGTACTTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TTATAAAATGATTATTTTA
Found at i:127993 original size:38 final size:36
Alignment explanation
Indices: 127928--128032 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 36
127918 AATAACAATT
127928 ATAAAATATA-GTTATTTA--TTAAAATAATTTTA-A
1 ATAAAATA-AGGTTATTTATTTTAAAATAATTTTATA
*
127961 ATAATTTAATAAGGTTATTTATTTTAAAATAA-TTTATT
1 ATAA---AATAAGGTTATTTATTTTAAAATAATTTTATA
*
127999 ATAAAATATGGATTGATTTATTTTAAAATAATTT
1 ATAAAATAAGG-TT-ATTTATTTTAAAATAATTT
128033 ATTTTAAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
33 4 0.07
35 7 0.12
36 14 0.23
37 20 0.33
38 15 0.25
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (36 bp):
ATAAAATAAGGTTATTTATTTTAAAATAATTTTATA
Found at i:128025 original size:37 final size:37
Alignment explanation
Indices: 127977--128107 Score: 128
Period size: 37 Copynumber: 3.4 Consensus size: 37
127967 TAATAAGGTT
127977 ATTTATTTTAAAATAATTTATTATAAAATATGGATTG
1 ATTTATTTTAAAATAATTTATTATAAAATATGGATTG
128014 ATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATAATTTA--TT--ATAA---A--A-TATGGATTG
*
128061 ATTTATTTT-AAATAATTTA-T-T--AGTATGGATTG
1 ATTTATTTTAAAATAATTTATTATAAAATATGGATTG
128093 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
128108 TGGATTGATT
Statistics
Matches: 82, Mismatches: 1, Indels: 26
0.75 0.01 0.24
Matches are distributed among these distances:
32 18 0.22
33 5 0.06
35 1 0.01
37 20 0.24
39 2 0.02
40 1 0.01
41 4 0.05
43 1 0.01
44 1 0.01
46 11 0.13
47 18 0.22
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (37 bp):
ATTTATTTTAAAATAATTTATTATAAAATATGGATTG
Found at i:128043 original size:14 final size:15
Alignment explanation
Indices: 127977--128049 Score: 67
Period size: 15 Copynumber: 4.5 Consensus size: 15
127967 TAATAAGGTT
127977 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
127992 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
128011 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
128029 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
128043 ATTTATT
1 ATTTATT
128050 AGTATGGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 12 0.24
15 16 0.33
16 4 0.08
17 2 0.04
18 1 0.02
19 1 0.02
20 2 0.04
21 4 0.08
22 7 0.14
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:128067 original size:32 final size:32
Alignment explanation
Indices: 128029--128158 Score: 190
Period size: 32 Copynumber: 4.4 Consensus size: 32
128019 TTTTAAAATA
128029 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
128061 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
128093 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
128115 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
128147 ATTTATTTTAAA
1 ATTTATTTTAAA
128159 ATATGGATTG
Statistics
Matches: 88, Mismatches: 0, Indels: 20
0.81 0.00 0.19
Matches are distributed among these distances:
22 14 0.16
23 4 0.05
25 1 0.01
26 3 0.03
28 3 0.03
29 1 0.01
31 4 0.05
32 58 0.66
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:128109 original size:22 final size:22
Alignment explanation
Indices: 128084--128126 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
128074 AATTTATTAG
128084 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
128106 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
128127 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:128121 original size:54 final size:54
Alignment explanation
Indices: 128052--129052 Score: 348
Period size: 54 Copynumber: 18.6 Consensus size: 54
128042 AATTTATTAG
128052 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
128106 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
128160 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTA-TTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
** ** * ** * * * * ***
128207 TAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTAATTTATTATTGTAGTTG
1 T-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAA
** ** * ** * * *
128266 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAA
** ** * ** * * *
128320 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAA
* ** ** *
128374 TATGGATTGATTTATTTTAAATTATGGATT-G-ATTTATT-ATTGTAGTTGT---A
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT-TA-TTTTAAAA
128424 TA--GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
128476 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
** ** * ** * * *
128523 TAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAA
1 T-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA
* *
128580 TTTATTAGTATGAATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAA
1 --TA-T-G---G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
**
128642 TATGGATTGATTTA--TT--AT--TGCAGTT-GTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
* * * * * *
128689 TA---ATTTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAA
* * * * * * ***
128743 TA---ATTTA-TTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAA
* *
128802 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
128856 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * ** * * * ***
128909 TA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAA
* *
128968 TATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
129022 TATAGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
129053 TTGTAGTTGT
Statistics
Matches: 739, Mismatches: 121, Indels: 174
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.00
44 4 0.01
46 1 0.00
47 17 0.02
48 94 0.13
49 12 0.02
50 39 0.05
51 7 0.01
52 12 0.02
53 12 0.02
54 367 0.50
55 15 0.02
56 16 0.02
57 19 0.03
58 37 0.05
59 8 0.01
60 6 0.01
62 32 0.04
63 18 0.02
64 20 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:128195 original size:134 final size:134
Alignment explanation
Indices: 128005--128908 Score: 718
Period size: 134 Copynumber: 6.8 Consensus size: 134
127995 TATTATAAAA
* ** *
128005 TATGGATTGATTTATTTTAAAATA---ATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT
1 TATGGATTGATTTATTTTAAAATATGGATTGA-TTTATTTATTTTATTAGTATGGATTGATTTAT
*
128067 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT
65 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT-ATG
128132 TA-TTAG
129 TAGTT-G
*
128138 TATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTATTGTAGTT-GTATGGATTGATTTAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATTTTA-TTAGTATGGATTGATTTAT
* *
128201 TTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAATTTA--TT--AT-TGT
65 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATATGT
128261 AGTTG
130 AGTTG
*
128266 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTATTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--AT--TTTATTAGTATGGATTGAT
** ** * ** * * *
128331 TTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
61 TTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTA
*
128393 AATTATGGA-TTG
123 AA-TATGTAGTTG
** * * * ** *
128405 -ATTTATT-ATTGTAGTTGTATAGAT-T-GATTTATTTTAAATAATTTATTAGTATGGATTGATT
1 TATGGATTGATT-TA-TTTTA-AAATATGGATTGA-TTTATTTATTTTATTAGTATGGATTGATT
* * * * ***
128466 TATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAAT
62 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGATTTATTTTAAAT
*
128524 AATTTA-TTAG
126 -ATGTAGTT-G
*
128534 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--AT--TTTATTAGTATGGATTGAT
* *
128599 TTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGATTTA--TT--AT
61 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
*
128660 -TGCAGTTG
126 ATGTAGTTG
* * * *
128668 TATGGATTGATTTATTTTAAATAATTTAT-TAGTATGAATTGATTTATTTTA-AAATATGGATTG
1 TATGGATTGATTTATTTT-AA-AA--TATGGA-T-TG-ATTTATTTATTTTATTAGTATGGATTG
*
128731 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
59 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
128792 AT-TGTAGTTG
124 ATATGTAGTTG
* * * * * * *
128802 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTA-AAATATGAATTGA
1 TATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTATTTATTTTATTAGTATGGATTGA
128866 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
60 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
128909 TAATTTATTT
Statistics
Matches: 645, Mismatches: 71, Indels: 109
0.78 0.09 0.13
Matches are distributed among these distances:
127 1 0.00
128 76 0.12
129 18 0.03
130 22 0.03
131 3 0.00
132 9 0.01
133 40 0.06
134 356 0.55
135 18 0.03
136 14 0.02
137 8 0.01
138 22 0.03
139 19 0.03
140 32 0.05
141 7 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (134 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATTTTATTAGTATGGATTGATTTATT
TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATATGTA
GTTG
Found at i:128221 original size:32 final size:32
Alignment explanation
Indices: 128185--128343 Score: 106
Period size: 32 Copynumber: 4.8 Consensus size: 32
128175 TATTGTAGTT
128185 GTATGGATTGATTTATTTAAAATAATTTATTA
1 GTATGGATTGATTTATTTAAAATAATTTATTA
*
128217 GTATGGATTGATTTATTTTAAAATATGGATTAATTTA
1 GTATGGATTGATTTA-TTTAAAATA---ATTTA-TTA
* * ** * ** * *
128254 TTATTGTAGTTGTATGGA-TTGATTTATTTTA-AA
1 GTA-TGGA-TTG-ATTTATTTAAAATAATTTATTA
* *
128287 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTAAAATAATTTATTA
*
128319 TTATGGATTGATTTATTTTAAAATA
1 GTATGGATTGATTTA-TTTAAAATA
128344 TGGATTGATT
Statistics
Matches: 94, Mismatches: 22, Indels: 21
0.69 0.16 0.15
Matches are distributed among these distances:
30 3 0.03
31 12 0.13
32 33 0.35
33 20 0.21
35 3 0.03
36 4 0.04
37 5 0.05
38 8 0.09
39 3 0.03
40 3 0.03
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTAAAATAATTTATTA
Found at i:128230 original size:80 final size:80
Alignment explanation
Indices: 128106--128737 Score: 911
Period size: 80 Copynumber: 7.9 Consensus size: 80
128096 TATTTTAAAA
128106 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
128171 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* *
128186 TATGGATTGATTTATTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTAAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
128251 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
** ** * ** * * *
128266 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTATTATGGATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
***
128328 GATTTA-T-TT-TA-AAA
63 GATTTATTATTGTAGTTG
*
128342 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATTATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
128407 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
128422 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
128487 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
128502 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
128567 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
* * *
128588 TATGAATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
128653 TTATTATTGCAGTTG
66 TTATTATTGTAGTTG
*
128668 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
128733 TTATT
66 TTATT
128738 TTAAATAATT
Statistics
Matches: 492, Mismatches: 42, Indels: 36
0.86 0.07 0.06
Matches are distributed among these distances:
76 42 0.09
77 14 0.03
78 10 0.02
79 14 0.03
80 331 0.67
81 2 0.00
82 4 0.01
84 4 0.01
85 2 0.00
86 69 0.14
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:128243 original size:22 final size:22
Alignment explanation
Indices: 128218--128308 Score: 110
Period size: 22 Copynumber: 4.0 Consensus size: 22
128208 AATTTATTAG
128218 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* ***
128240 TATGGATTAATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
128266 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
128288 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
128309 TAATTTATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
22 34 0.60
23 3 0.05
24 4 0.07
25 3 0.05
26 13 0.23
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:128336 original size:22 final size:22
Alignment explanation
Indices: 128320--128362 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
128310 AATTTATTAT
128320 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
128342 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
128363 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:128399 original size:22 final size:23
Alignment explanation
Indices: 128373--128443 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 23
128363 TAATTTATTA
128373 GTATGGATTGATTTATTTTAAAT
1 GTATGGATTGATTTATTTTAAAT
**
128396 -TATGGATTGATTTATTATTGTAGTT
1 GTATGGATTGATTTA-T-TT-TAAAT
*
128421 GTATAGATTGATTTATTTTAAAT
1 GTATGGATTGATTTATTTTAAAT
128444 AATTTATTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
22 14 0.36
23 4 0.10
24 4 0.10
25 4 0.10
26 13 0.33
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.54
Consensus pattern (23 bp):
GTATGGATTGATTTATTTTAAAT
Found at i:128468 original size:18 final size:18
Alignment explanation
Indices: 128445--128492 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
128435 ATTTTAAATA
*
128445 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
128463 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
128485 ATTTATTA
1 ATTTATTA
128493 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:128559 original size:22 final size:22
Alignment explanation
Indices: 128534--128576 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
128524 AATTTATTAG
128534 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
128556 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
128577 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:128584 original size:14 final size:14
Alignment explanation
Indices: 128565--128618 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
128555 ATATGGATTG
128565 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
128579 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
128597 ATTTATTTTAAATA
1 ATTTATTTTAAATA
128611 ATTTATTT
1 ATTTATTT
128619 GTATGGATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:128725 original size:22 final size:22
Alignment explanation
Indices: 128700--128742 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
128690 AATTTATTAG
128700 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
128722 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
128743 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:128732 original size:300 final size:299
Alignment explanation
Indices: 128288--129052 Score: 1224
Period size: 300 Copynumber: 2.5 Consensus size: 299
128278 TATTTTAAAA
128288 TATGGATTGATTTATTTTAAATAATTTATTAT-TATGGATTGATTTATTTTAAAATATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATT-TGTATGGATTGATTTATTTTAAAATATGGATTGA
* * ** **
128352 TTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATTATGGATT-G-ATTTATT-A
65 TTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
* *
128413 TTGTAGTTGT---ATA-GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
123 TT-TA-TTTTAAAATATGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAA
* *
128474 AATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
186 AATATGGATTGATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATAG
*
128539 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
251 ATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAG
* *
128588 TATGAATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
128653 TTATTATTGCAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
128718 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGAT
131 AAAATAT-GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGAT
128783 TGATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTA
195 TGATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTA
128848 TTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAG
260 TTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAG
128888 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
128953 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
129018 AAAATATAGATTGATTTATTTTAAATAATTTATTA
131 AAAATAT-GATTGATTTATTTTAAATAATTTATTA
129053 TTGTAGTTGT
Statistics
Matches: 436, Mismatches: 19, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
294 30 0.07
295 6 0.01
296 9 0.02
297 3 0.01
298 5 0.01
299 1 0.00
300 382 0.88
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (299 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
AAAATATGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATT
GATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTAT
TTTAAAATATGAATTGATTTATTTTAAATAATTTATTAG
Found at i:128811 original size:80 final size:80
Alignment explanation
Indices: 128722--129037 Score: 467
Period size: 80 Copynumber: 3.9 Consensus size: 80
128712 TATTTTAAAA
*
128722 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
128787 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
128802 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
*
128867 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
* * *
128888 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
128953 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
128968 TAT-AGATTGATTTATTTTAAATAATTTATTAGTAT-GAATTGATTTATTTTAAAATATAGATTG
1 TATGA-ATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTG
129031 ATTTATT
64 ATTTATT
129038 TTAAATAATT
Statistics
Matches: 215, Mismatches: 11, Indels: 20
0.87 0.04 0.08
Matches are distributed among these distances:
79 1 0.00
80 134 0.62
81 2 0.01
82 4 0.02
84 4 0.02
85 2 0.01
86 68 0.32
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:128844 original size:166 final size:165
Alignment explanation
Indices: 128110--128950 Score: 807
Period size: 166 Copynumber: 5.2 Consensus size: 165
128100 TTAAAATATG
** * *
128110 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATGGATT-GTATGGATTAATTTATTGTAAAATATGGATTGATTTAT
* * *
128175 TATTGTAGTTGTATGGATTGATTTATTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
65 AATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
* * *
128240 TATGGATTAATTTA--TT--AT--TGTAGTT-GTATG
130 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATA
** * * * *
128270 GATTGATTTATTTTAAA-ATATGGATTG-ATTTATTTTAAATAATT-TATTATTATGGATTGATT
1 GATTGATTTATTTTAAATA-ATGGATTGTATGGA--TTAATTTATTGTA-AAATATGGATTGATT
*** *
128332 TAT--TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
62 TATAATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTA
* *
128393 AATTATGGATTGATTTA--TT--AT--TGTAGTT-GTATA
127 AAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATA
** * *
128426 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATGGATT-GTATGGATTAATTTATTGTAAAATATGGATTGATTTAT
* *
128491 TATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
65 AATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
128556 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-
130 TATGGATTGATTTATTTTAAATAATTTATTAGTATA
** *
128591 GAATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGATTTA
1 G-ATTGATTTATTTTAAATAATGGA-TTGTATGGATTAATTTATTGTAAAATATGGATTGATTTA
* *
128656 TTATTGCAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
64 TAATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
128721 ATATGGATTGATTTATTTTAAATAATTTATTAGTATA
129 ATATGGATTGATTTATTTTAAATAATTTATTAGTATA
** * *
128758 GATTGATTTATTTTAAA-ATATGGATTG-ATTTATT-ATTGTAGTTGTATGAAT-T-GATTTATT
1 GATTGATTTATTTTAAATA-ATGGATTGTATGGATTAATT-TA-TTGTA-AAATATGGATTGA-T
* * * * * *
128818 TTAAATAATT-TA-TTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTA-TTTTAAATAA
61 TT--ATAATTGTAGTT-GTATGGATTGATTTATTTT--AA-AT-AATTTA-TTAGTATGAATTGA
* * *
128880 TTTA--TT--AGTATGGATTGATTTATTTTAAATAATTTATTTGTATG
118 TTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATA
128924 GATTGATTTATTTTAAA-ATATGGATTG
1 GATTGATTTATTTTAAATA-ATGGATTG
128951 ATTTATTATT
Statistics
Matches: 595, Mismatches: 51, Indels: 64
0.84 0.07 0.09
Matches are distributed among these distances:
156 125 0.21
157 6 0.01
158 10 0.02
159 6 0.01
160 112 0.19
162 2 0.00
163 3 0.01
164 14 0.02
165 17 0.03
166 268 0.45
167 8 0.01
168 4 0.01
169 2 0.00
170 15 0.03
171 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (165 bp):
GATTGATTTATTTTAAATAATGGATTGTATGGATTAATTTATTGTAAAATATGGATTGATTTATA
ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
ATGGATTGATTTATTTTAAATAATTTATTAGTATA
Found at i:128869 original size:40 final size:39
Alignment explanation
Indices: 128745--128871 Score: 115
Period size: 40 Copynumber: 3.2 Consensus size: 39
128735 ATTTTAAATA
128745 ATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTAGTATAGATTGATTTATTTTAAAATAT-GATTG
128785 ATTTATTATTGTAGTTGTATGAATTGATTTATTTT--AA-AT-A---
1 ATTTATTA--GTA----TA-G-ATTGATTTATTTTAAAATATGATTG
128825 ATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTAGTATAGATTGATTTATTTTAAAATATG-ATTG
128865 ATTTATT
1 ATTTATT
128872 TTAAATAATT
Statistics
Matches: 71, Mismatches: 0, Indels: 32
0.69 0.00 0.31
Matches are distributed among these distances:
32 13 0.18
33 1 0.01
34 4 0.06
35 2 0.03
37 1 0.01
38 3 0.04
40 23 0.32
42 3 0.04
43 1 0.01
45 2 0.03
46 4 0.06
47 1 0.01
48 13 0.18
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (39 bp):
ATTTATTAGTATAGATTGATTTATTTTAAAATATGATTG
Found at i:128951 original size:166 final size:166
Alignment explanation
Indices: 128722--129052 Score: 596
Period size: 166 Copynumber: 2.0 Consensus size: 166
128712 TATTTTAAAA
128722 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
128787 TTATTATTGTAGTTGTAT-GAATTGATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATT
66 TTATTATTGTAGTTGTATAG-ATTGATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATT
128850 TTAAAATAT-GAATTGATTTATTTTAAATAATTTATTAG
129 TTAAAATATAG-ATTGATTTATTTTAAATAATTTATTAG
* *
128888 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
128953 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
66 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
129018 AAAATATAGATTGATTTATTTTAAATAATTTATTA
131 AAAATATAGATTGATTTATTTTAAATAATTTATTA
129053 TTGTAGTTGT
Statistics
Matches: 160, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
166 157 0.98
167 3 0.02
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (166 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
AAAATATAGATTGATTTATTTTAAATAATTTATTAG
Found at i:129030 original size:134 final size:131
Alignment explanation
Indices: 128292--129051 Score: 484
Period size: 134 Copynumber: 5.6 Consensus size: 131
128282 TTAAAATATG
* * *
128292 GATTGATTTATTTTAAATAATTTATTATTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT--AATATAGATTGATTTAT
* *
128357 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATTATGGATTGATTTATTATTGTAGTTG
64 TTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA-TTG
128422 TATA
128 TATA
* *
128426 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT--AATATAGATTGATTTAT
* * * * *
128490 -TT--AT--TGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
64 TTTAAATAATTTATTTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATT
* *** *
128550 TTAAAATATG
122 GTATTGTATA
* * *
128560 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA-ATA-ATTTATTTGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAATATAGATTGATTTATTT
** * * ***
128623 GGATTAATTTATTTTAAAATATGGATTGATTTATTATTGCAGTTGTATGGATTGATTTATTTTAA
66 TAAATAATTTA-TTT---GTATGGATTGATTTATT-TT--A-AAATATGGATTGATTTA--TT--
*
128688 ATAATTTATTAGTAT-
119 AT--TGTATT-GTATA
* * * * * *
128703 GAATTGATTTATTTTAAAATATGGATTGATTTA-TTTTAAATAATTTA--TTAGTATAGATTGAT
1 G-ATTGATTTATTTT-AAATA---ATTTA-TTAGTATGAATTGATTTATTTTAATATAGATTGAT
** ** * * *
128765 TTATTTTAAA-ATATGGA-TTG-ATTTATT-ATTGTAGTTGTATGAAT-T-GATTTATTTTAAAT
60 TTATTTTAAATA-ATTTATTTGTATGGATTGATT-TA-TTTTA-AAATATGGATTGA-TTT--AT
*
128824 AATT-TATTAGTATA
118 TATTGTATT-GTATA
* * * * * * *
128838 GATTGATTTATTTTAAAATATGAATTGATTTA-TTTTAAATAATTTA--TTAGTATGGATTGATT
1 GATTGATTTATTTT--AA-AT-AATTTA-TTAGTATGAATTGATTTATTTTAATATAGATTGATT
128900 TATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAG
61 TATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA-
128965 TTGTATA
125 TTGTATA
128972 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT--AATATAGATTGATTTAT
129037 TTTAAATAATTTATT
64 TTTAAATAATTTATT
129052 ATTGTAGTTG
Statistics
Matches: 497, Mismatches: 72, Indels: 114
0.73 0.11 0.17
Matches are distributed among these distances:
128 23 0.05
129 5 0.01
130 25 0.05
131 4 0.01
132 11 0.02
133 6 0.01
134 246 0.49
135 26 0.05
136 17 0.03
137 8 0.02
138 13 0.03
139 9 0.02
140 20 0.04
141 8 0.02
142 9 0.02
143 7 0.01
144 16 0.03
145 5 0.01
146 5 0.01
147 4 0.01
148 27 0.05
149 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (131 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAATATAGATTGATTTATTT
TAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTATTGTAT
A
Found at i:129102 original size:31 final size:31
Alignment explanation
Indices: 129067--129125 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
129057 AGTTGTATGG
* *
129067 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
129098 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
129126 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:139407 original size:60 final size:59
Alignment explanation
Indices: 139337--139517 Score: 186
Period size: 60 Copynumber: 3.0 Consensus size: 59
139327 GAATCATGTA
139337 CCTAAACTATGACTCTCATTTCAAATTAGACCTTAAAATTTTAAATATTTCAATTTCATC
1 CCTAAACTATGACTCTCA-TTCAAATTAGACCTTAAAATTTTAAATATTTCAATTTCATC
* * * * * *
139397 CTTAAACTATGACTCTCATTCTAAGTTAGCCCTTAAACTTTTGAACA-TTCAAATTTCATC
1 CCTAAACTATGACTCTCATTC-AAATTAGACCTTAAAATTTTAAATATTTC-AATTTCATC
* * * * * * * *
139457 CCCAAACTATGAATCTCATTCTAATTAGTCC-CAAAACTATTAGATCTTTCAATTTCATC
1 CCTAAACTATGACTCTCATTCAAATTAGACCTTAAAA-TTTTAAATATTTCAATTTCATC
139516 CC
1 CC
139518 CAAATTCATC
Statistics
Matches: 98, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
58 3 0.03
59 28 0.29
60 67 0.68
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.38
Consensus pattern (59 bp):
CCTAAACTATGACTCTCATTCAAATTAGACCTTAAAATTTTAAATATTTCAATTTCATC
Found at i:139477 original size:31 final size:31
Alignment explanation
Indices: 139442--139521 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 31
139432 AACTTTTGAA
139442 CATTCAAATTTCATCCCCAAACTATGA-ATCT
1 CATTC-AATTTCATCCCCAAACTATGAGATCT
* *
139473 CATTCTAA-TT-AGTCCCAAAACTATTAGATCT
1 CATTC-AATTTCA-TCCCCAAACTATGAGATCT
139504 --TTCAATTTCATCCCCAAA
1 CATTCAATTTCATCCCCAAA
139522 TTCATCCAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
28 2 0.05
29 13 0.32
30 15 0.37
31 11 0.27
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (31 bp):
CATTCAATTTCATCCCCAAACTATGAGATCT
Found at i:147957 original size:60 final size:61
Alignment explanation
Indices: 147815--147957 Score: 159
Period size: 59 Copynumber: 2.4 Consensus size: 61
147805 AGTATAATCA
* * *
147815 TCATTTTAAATTGGT-CTCTAAACTTTTAAATATTTTAATTTCATCACAAAACTATAACTAT
1 TCATTTTAAATTAGTCCT-TAAACTGTTAAACATTTTAATTTCATCACAAAACTATAACTAT
* * * * * *
147876 T-A-TTTAAATTAGTCCTGAAACTGTTGAACATTTTAATTTCATCCCCAAATTATGACT-T
1 TCATTTTAAATTAGTCCTTAAACTGTTAAACATTTTAATTTCATCACAAAACTATAACTAT
*
147934 TCATTTTAAATTAATCCTTAAACT
1 TCATTTTAAATTAGTCCTTAAACT
147958 TTTTGAATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
58 2 0.03
59 44 0.65
60 21 0.31
61 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (61 bp):
TCATTTTAAATTAGTCCTTAAACTGTTAAACATTTTAATTTCATCACAAAACTATAACTAT
Found at i:148614 original size:59 final size:59
Alignment explanation
Indices: 148542--148689 Score: 172
Period size: 60 Copynumber: 2.5 Consensus size: 59
148532 TTCGGACGAA
* ** * * *
148542 TTAGGGATGAAATTGGAAGATTCAAAAGTTAGGGACTGATTTAGAAAGAGAATCGTAGT
1 TTAGGGATGAAATTAGAAGATTCAAAAGTTAACGACTAAGTTAGAAAGAGAATCGTAAT
* * * *
148601 TTAGGGATGAAATTAGAATATTCAAAAGTCAAACGACTAAGTTAGAAGGAGAGTCGTAAT
1 TTAGGGATGAAATTAGAAGATTCAAAAGT-TAACGACTAAGTTAGAAAGAGAATCGTAAT
* *
148661 TTAAGGATGACATTAGAAG-TTCAAAAGTT
1 TTAGGGATGAAATTAGAAGATTCAAAAGTT
148690 TAGGAATCAA
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
59 36 0.49
60 38 0.51
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (59 bp):
TTAGGGATGAAATTAGAAGATTCAAAAGTTAACGACTAAGTTAGAAAGAGAATCGTAAT
Found at i:163467 original size:21 final size:21
Alignment explanation
Indices: 163441--163485 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
163431 GATTTCTGGG
* *
163441 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
163462 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
163483 CAA
1 CAA
163486 ACGACAAAAT
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:164085 original size:18 final size:18
Alignment explanation
Indices: 164062--164096 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
164052 CTAGGAGATT
164062 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
164080 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
164097 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:164182 original size:21 final size:22
Alignment explanation
Indices: 164153--164196 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
164143 GTTGTATGAT
164153 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
164174 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
164196 A
1 A
164197 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:164425 original size:2 final size:2
Alignment explanation
Indices: 164418--164463 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
164408 GAACATGTGA
164418 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
164460 AT AT
1 AT AT
164464 GTCTAAGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:165282 original size:149 final size:149
Alignment explanation
Indices: 165101--165404 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
165091 AAGTCGAGGG
165101 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
165166 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATAGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATAGACATCATTA
165231 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
165250 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
*
165315 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATAGACATCATTA
165380 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
165399 TCTACG
1 TCTACG
165405 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATAGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:165427 original size:23 final size:23
Alignment explanation
Indices: 165383--165427 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
165373 ATCATTATAT
* *
165383 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGGGCAATTATACGG
* *
165406 GGCACTTCGGGGCATTTATACG
1 GGCACTACGGGGCAATTATACG
165428 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.24
Consensus pattern (23 bp):
GGCACTACGGGGCAATTATACGG
Found at i:168563 original size:21 final size:20
Alignment explanation
Indices: 168537--168580 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
168527 GATTTCTGGG
* *
168537 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCC-TT
168558 CAAGGGGAACCGATACCCTT
1 CAAGGGGAACCGATACCCTT
168578 CAA
1 CAA
168581 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (20 bp):
CAAGGGGAACCGATACCCTT
Found at i:169181 original size:18 final size:18
Alignment explanation
Indices: 169158--169192 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
169148 CTAGGAGATT
169158 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
169176 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
169193 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:169276 original size:21 final size:22
Alignment explanation
Indices: 169247--169290 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
169237 GTTGTATGAT
169247 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
169268 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
169290 A
1 A
169291 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:169520 original size:2 final size:2
Alignment explanation
Indices: 169513--169540 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
169503 GAACATGTGA
169513 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
169541 GTCTAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:170445 original size:149 final size:147
Alignment explanation
Indices: 170177--170478 Score: 541
Period size: 149 Copynumber: 2.0 Consensus size: 147
170167 GAGTCGAGGG
170177 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAGTCTAGAAAGACACATA
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAGTCTAGAAAGACACATA
* * *
170242 CTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGATATTATTATA
66 CTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATA
170307 TGGCACTACGGTGCAAT
131 TGGCACTACGGTGCAAT
* *
170324 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTG-AGTCTAGAAAGACACAT
170389 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
65 AC-TGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
170454 TATGGCACTACGGTGCAAT
129 TATGGCACTACGGTGCAAT
170473 TCTACG
1 TCTACG
170479 GGGCACTTCG
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
147 46 0.31
148 18 0.12
149 84 0.57
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (147 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAGTCTAGAAAGACACATA
CTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATA
TGGCACTACGGTGCAAT
Found at i:170501 original size:23 final size:23
Alignment explanation
Indices: 170457--170501 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
170447 ATCATTATAT
*
170457 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
170480 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
170502 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:173655 original size:21 final size:21
Alignment explanation
Indices: 173629--173673 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
173619 GATTTCTGGG
* *
173629 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
173650 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
173671 CAA
1 CAA
173674 ACGACAAAAT
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:174276 original size:18 final size:18
Alignment explanation
Indices: 174253--174287 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
174243 CTAGGAGATT
174253 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
174271 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
174288 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:174373 original size:21 final size:22
Alignment explanation
Indices: 174344--174387 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
174334 GTTGTATGAT
174344 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
174365 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
174387 A
1 A
174388 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:174613 original size:2 final size:2
Alignment explanation
Indices: 174606--174645 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
174596 GAACATGTGA
174606 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
174646 GTCTAAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:175474 original size:147 final size:148
Alignment explanation
Indices: 175290--175591 Score: 552
Period size: 147 Copynumber: 2.0 Consensus size: 148
175280 GAGTCGAGGG
175290 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
175355 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTA-TGGTCCTTATGGATATTATTAT
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACTGGTCCTTATGGACATCATTAT
175419 ATGGCACTACGGTGCAAT
131 ATGGCACTACGGTGCAAT
* *
175437 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
175502 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTAC-TGGTCCTTATGGACATCATTA
175567 TATGGCACTACGGTGCAAT
130 TATGGCACTACGGTGCAAT
175586 TCTACG
1 TCTACG
175592 GGGCACTTCG
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
147 105 0.70
149 44 0.30
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (148 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACTGGTCCTTATGGACATCATTAT
ATGGCACTACGGTGCAAT
Found at i:175614 original size:23 final size:23
Alignment explanation
Indices: 175570--175614 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
175560 ATCATTATAT
*
175570 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
175593 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
175615 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:178108 original size:81 final size:78
Alignment explanation
Indices: 177976--178126 Score: 266
Period size: 81 Copynumber: 1.9 Consensus size: 78
177966 TACACCATGT
177976 AAATAGTTGACTTTACTACAAATGTCAACGATTTTTTATAACTCATTTATTATTTGGGTAAATTA
1 AAATAGTTGACTTTACTACAAATGTCAACGATTTTTTATAACTCATTTATTATTTGGGTAAATTA
178041 CAAATCTCCTAAA
66 CAAATCTCCTAAA
*
178054 AAATAGTTGACTTTACTACAAACGTAGTCAACGATTTTTTATAACTCGTTTATTATTTGGGTAAA
1 AAATAGTTGACTTTACTACAAA--T-GTCAACGATTTTTTATAACTCATTTATTATTTGGGTAAA
178119 TTACAAAT
63 TTACAAAT
178127 TTCGTCATCG
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
78 22 0.32
80 1 0.01
81 46 0.67
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (78 bp):
AAATAGTTGACTTTACTACAAATGTCAACGATTTTTTATAACTCATTTATTATTTGGGTAAATTA
CAAATCTCCTAAA
Found at i:181044 original size:5 final size:5
Alignment explanation
Indices: 181034--181209 Score: 292
Period size: 5 Copynumber: 36.0 Consensus size: 5
181024 AAGTGGACCA
181034 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
181084 TATAT TATAT T-TAT TATAT TATAT TATAT T-TAT TATAT TA-AT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
181131 TATAT TATAT TATA- T-TAT TATAT TATA- TATAT TATAT TATTTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA--TAT TATAT
181180 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
181210 GGTATGCCAA
Statistics
Matches: 163, Mismatches: 0, Indels: 16
0.91 0.00 0.09
Matches are distributed among these distances:
3 2 0.01
4 18 0.11
5 138 0.85
7 5 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:182586 original size:13 final size:13
Alignment explanation
Indices: 182568--182597 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
182558 GATTTAATTA
182568 ATAAATTAAATCG
1 ATAAATTAAATCG
*
182581 ATAAATTAAATTG
1 ATAAATTAAATCG
182594 ATAA
1 ATAA
182598 TTATATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (13 bp):
ATAAATTAAATCG
Found at i:182988 original size:29 final size:29
Alignment explanation
Indices: 182924--182982 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
182914 TATATTTTTA
182924 AAGAAAAGCCCAAAATTATCAAAAATATT
1 AAGAAAAGCCCAAAATTATCAAAAATATT
182953 AAGAAAAGCCCAAAATTATCAAAAATATT
1 AAGAAAAGCCCAAAATTATCAAAAATATT
182982 A
1 A
182983 TAAAAACCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.20
Consensus pattern (29 bp):
AAGAAAAGCCCAAAATTATCAAAAATATT
Found at i:188855 original size:51 final size:50
Alignment explanation
Indices: 188779--188901 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 50
188769 GAGTTTGCCC
* *
188779 AAATAATATTTCTTATTTAAATTTGTCACGTCGAAGTGGCGAGTTCCAATA
1 AAATAATATTT-TTATTTAAATTTGTCACGTCGAAGTGACAAGTTCCAATA
* * * *
188830 AAATATATATTTTTA-TTAGATTTTGTGACGTCGGAGTGACAAGTTTCAATA
1 AAATA-ATATTTTTATTTA-AATTTGTCACGTCGAAGTGACAAGTTCCAATA
*
188881 AAAAAATATTTTTTATTTAAA
1 AAATAATA-TTTTTATTTAAA
188902 CTCGTCATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
50 6 0.10
51 45 0.75
52 9 0.15
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.41
Consensus pattern (50 bp):
AAATAATATTTTTATTTAAATTTGTCACGTCGAAGTGACAAGTTCCAATA
Found at i:189310 original size:20 final size:20
Alignment explanation
Indices: 189287--189325 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
189277 TAAATATAAT
189287 AAATA-ATATTATTTATTATA
1 AAATATATATTA-TTATTATA
*
189307 AAATATTTATTATTATTAT
1 AAATATATATTATTATTAT
189326 TTTTAAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATATATATTATTATTATA
Found at i:191398 original size:27 final size:27
Alignment explanation
Indices: 191360--191422 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
191350 TTGGACACAT
191360 ACCCTAGTCCCTTATCTTTAAAGTCTC
1 ACCCTAGTCCCTTATCTTTAAAGTCTC
191387 ACCCTAGTCCCTTATCTTTAAAGTCTC
1 ACCCTAGTCCCTTATCTTTAAAGTCTC
191414 ACCCTAGTC
1 ACCCTAGTC
191423 ATAGTATAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (27 bp):
ACCCTAGTCCCTTATCTTTAAAGTCTC
Found at i:193446 original size:14 final size:15
Alignment explanation
Indices: 193425--193459 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
193415 GTATTTAATA
193425 AAAT-TTATTAAATT
1 AAATATTATTAAATT
193439 -AATATTATTAAATT
1 AAATATTATTAAATT
193453 AAATATT
1 AAATATT
193460 TTATTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.16
14 10 0.53
15 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATATTATTAAATT
Found at i:193690 original size:29 final size:29
Alignment explanation
Indices: 193648--193715 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
193638 TTAATGAAAT
193648 CATTCAGCGCTGAATGTTGAATCGTTCAA
1 CATTCAGCGCTGAATGTTGAATCGTTCAA
*
193677 CATTCAGCGTTGAATGTTGAATCGTTCAA
1 CATTCAGCGCTGAATGTTGAATCGTTCAA
193706 CATTCAGCGC
1 CATTCAGCGC
193716 GTTTGTTTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (29 bp):
CATTCAGCGCTGAATGTTGAATCGTTCAA
Found at i:194789 original size:18 final size:18
Alignment explanation
Indices: 194756--194795 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
194746 TAAAATAGGG
194756 TTTTTAATAAATATAATAT
1 TTTTTAATAAATATAA-AT
*
194775 TTTTTAATTAA-ATAAAT
1 TTTTTAATAAATATAAAT
194792 TTTT
1 TTTT
194796 CAAAATTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 4 0.20
19 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAATAAATATAAAT
Found at i:195062 original size:131 final size:131
Alignment explanation
Indices: 194916--195184 Score: 538
Period size: 131 Copynumber: 2.1 Consensus size: 131
194906 AAATAAACAC
194916 TTATTTTATGATTATGCCTAATTTTAAAACACAATGTTACTTTTACCGACGACAAAAGACAATCA
1 TTATTTTATGATTATGCCTAATTTTAAAACACAATGTTACTTTTACCGACGACAAAAGACAATCA
194981 TCACTATTGTTACTACTCTACTTATAAAATCAAGGGTAAACTAAATTGTCATTAAAATGTAAATT
66 TCACTATTGTTACTACTCTACTTATAAAATCAAGGGTAAACTAAATTGTCATTAAAATGTAAATT
195046 T
131 T
195047 TTATTTTATGATTATGCCTAATTTTAAAACACAATGTTACTTTTACCGACGACAAAAGACAATCA
1 TTATTTTATGATTATGCCTAATTTTAAAACACAATGTTACTTTTACCGACGACAAAAGACAATCA
195112 TCACTATTGTTACTACTCTACTTATAAAATCAAGGGTAAACTAAATTGTCATTAAAATGTAAATT
66 TCACTATTGTTACTACTCTACTTATAAAATCAAGGGTAAACTAAATTGTCATTAAAATGTAAATT
195177 T
131 T
195178 TTATTTT
1 TTATTTT
195185 TTTCATTGAA
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 138 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (131 bp):
TTATTTTATGATTATGCCTAATTTTAAAACACAATGTTACTTTTACCGACGACAAAAGACAATCA
TCACTATTGTTACTACTCTACTTATAAAATCAAGGGTAAACTAAATTGTCATTAAAATGTAAATT
T
Found at i:196295 original size:24 final size:26
Alignment explanation
Indices: 196267--196314 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
196257 AAAAGAAAAA
*
196267 TTAAATT-AATCAAATAT-TATATTT
1 TTAAATTCAATAAAATATATATATTT
196291 TTAAATTCAATAAAATATATATAT
1 TTAAATTCAATAAAATATATATAT
196315 ATAATTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TTAAATTCAATAAAATATATATATTT
Found at i:198642 original size:58 final size:59
Alignment explanation
Indices: 198504--198664 Score: 152
Period size: 58 Copynumber: 2.8 Consensus size: 59
198494 GATGAAATTG
* ** *
198504 GGATGAAATTTG-AATATTCTAAAGTTTAGGGACCAATTTAGAAATCAGGTCATAGTTAA
1 GGATGAAA-TTGAAATATTCAAAAGTTTAACGACCAATTTAGAAATCAGATCATAGTTAA
* ** * * *
198563 GGATAAAATT-AGAATGCTCAAAAGTTTAACGACTAA-TTAG-AATGAGAATCATAGTTTA
1 GGATGAAATTGA-AATATTCAAAAGTTTAACGACCAATTTAGAAATCAG-ATCATAGTTAA
* *
198621 GGATGAAATTGAAATATTCAAAAGTTCAAGGACCAATTTA-AAAT
1 GGATGAAATTGAAATATTCAAAAGTTTAACGACCAATTTAGAAAT
198665 TAAGGTTATA
Statistics
Matches: 80, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
57 5 0.06
58 43 0.54
59 32 0.40
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (59 bp):
GGATGAAATTGAAATATTCAAAAGTTTAACGACCAATTTAGAAATCAGATCATAGTTAA
Found at i:200165 original size:27 final size:27
Alignment explanation
Indices: 200111--200176 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
200101 GGTCTACTAG
200111 ATCCGACTCGAAAAATATAAATCCTCC
1 ATCCGACTCGAAAAATATAAATCCTCC
* * *
200138 ATCCGATTCGACAAATATACA-CCTTCC
1 ATCCGACTCGAAAAATATAAATCC-TCC
*
200165 ACCCGACTCGAA
1 ATCCGACTCGAA
200177 CATGACCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.36, C:0.33, G:0.09, T:0.21
Consensus pattern (27 bp):
ATCCGACTCGAAAAATATAAATCCTCC
Found at i:202732 original size:32 final size:32
Alignment explanation
Indices: 202696--202772 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
202686 CAACTTCTTT
202696 GCATTATCTAAATGAGACTCTAACTCGACTAA
1 GCATTATCTAAATGAGACTCTAACTCGACTAA
* * **
202728 GCATTATCTAAATGTGACTCTGACTCGACTGG
1 GCATTATCTAAATGAGACTCTAACTCGACTAA
*
202760 GCATTATCCAAAT
1 GCATTATCTAAAT
202773 ATGACTCAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (32 bp):
GCATTATCTAAATGAGACTCTAACTCGACTAA
Found at i:205524 original size:7 final size:7
Alignment explanation
Indices: 205507--205539 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
205497 ATTTAAGGTC
205507 AAAAATT
1 AAAAATT
205514 -AAAATT
1 AAAAATT
205520 AAAAATT
1 AAAAATT
205527 AAAAATT
1 AAAAATT
205534 AAAAAT
1 AAAAAT
205540 ACATATGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:208902 original size:23 final size:24
Alignment explanation
Indices: 208862--208907 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
208852 TAATGGTGAA
208862 CTTGTTATGACATGAAGA-GATAT
1 CTTGTTATGACATGAAGATGATAT
*
208885 CTTGTTAT-TCATGAAAGATGATA
1 CTTGTTATGACATG-AAGATGATA
208908 GTTCTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (24 bp):
CTTGTTATGACATGAAGATGATAT
Found at i:223652 original size:2 final size:2
Alignment explanation
Indices: 223645--223679 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
223635 AAAGCATCTG
223645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
223680 CTGTAGCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:223824 original size:2 final size:2
Alignment explanation
Indices: 223817--223857 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
223807 AACTACATTA
223817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
223858 CATGTATGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:226443 original size:4 final size:4
Alignment explanation
Indices: 226434--227106 Score: 1156
Period size: 4 Copynumber: 169.2 Consensus size: 4
226424 TATTTAATAA
* *
226434 ATGT ATGT ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATG- -TGT GTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
226480 GTGT GTGT GTGT GTGT ATGT GTGT ATGT GTGT ATGT GTGT ATGT GTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
226528 ATGT GTGT ATGT GTGT ATGT GTGT GTGT ATG- -TGT GTGT GTGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
226574 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
226622 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
226670 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
226718 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
226766 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
226814 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
226862 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
226910 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
226958 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
227006 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
227054 ATGT ATGT ATGT ATGT ATGT ATGT GTGT ATGT ATGT GTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
227102 ATGT A
1 ATGT A
227107 CTTAAACTAT
Statistics
Matches: 643, Mismatches: 22, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
2 4 0.01
4 639 0.99
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:227834 original size:28 final size:28
Alignment explanation
Indices: 227793--227853 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
227783 AAAAAAATTG
* *
227793 AATAGTTTAAGTACCTATTTTTACAT-AA
1 AATATTTTAAGTACATATTTTTAC-TGAA
*
227821 AATATTTTAGGTACATATTTTTACTGAA
1 AATATTTTAAGTACATATTTTTACTGAA
227849 AATAT
1 AATAT
227854 GCCATGACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (28 bp):
AATATTTTAAGTACATATTTTTACTGAA
Found at i:228502 original size:23 final size:24
Alignment explanation
Indices: 228475--228541 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
228465 ATTTAAACGG
228475 TTAAATTAATATATT-TTAATAATA
1 TTAAATTAATATATTATTAA-AATA
* * *
228499 TAAAAATAA-ACATTATTAAAATA
1 TTAAATTAATATATTATTAAAATA
228522 TTAAATATAATATATATATT
1 TTAAAT-TAATATAT-TATT
228542 TATATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 12 0.36
24 14 0.42
25 3 0.09
26 4 0.12
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAAATTAATATATTATTAAAATA
Found at i:232212 original size:21 final size:21
Alignment explanation
Indices: 232152--232206 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
232142 ATTTACCGTG
*
232152 ATTGTGGCCGTCACGGGCGTT
1 ATTGTGGCTGTCACGGGCGTT
** *
232173 ATTACGGTTGTCACGGGCGTT
1 ATTGTGGCTGTCACGGGCGTT
232194 ATTGTGGCTGTCA
1 ATTGTGGCTGTCA
232207 TTGGCGCTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.13, C:0.20, G:0.35, T:0.33
Consensus pattern (21 bp):
ATTGTGGCTGTCACGGGCGTT
Found at i:232616 original size:20 final size:20
Alignment explanation
Indices: 232591--232683 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
232581 TTTTCCCAAT
232591 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
232611 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
232631 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
232652 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
232673 TCGCAATGCGA
1 TCGCAATGCGA
232684 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:232633 original size:41 final size:41
Alignment explanation
Indices: 232588--232683 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
232578 CGATTTTCCC
232588 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
232629 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
232670 AAATCGCAATGCGA
1 AATTCGCAATGCGA
232684 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:232637 original size:21 final size:20
Alignment explanation
Indices: 232591--232683 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
232581 TTTTCCCAAT
*
232591 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
232611 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
232631 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
232652 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
232673 TCGCAATGCGA
1 TCGCAATGCGA
232684 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:232697 original size:20 final size:20
Alignment explanation
Indices: 232672--232766 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
232662 AATTGGGAAA
*
232672 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
232692 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
232713 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
232733 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
232753 TTCGCAACGCGATA
1 ATCGCAACGCGATA
232767 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:232746 original size:41 final size:41
Alignment explanation
Indices: 232669--232746 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
232659 GCGAATTGGG
* * **
232669 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
232710 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
232747 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:234617 original size:18 final size:18
Alignment explanation
Indices: 234596--234640 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
234586 TCCACTTCGG
*
234596 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
234614 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
234632 GAGCCATCA
1 GAGCCATCA
234641 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:235167 original size:19 final size:20
Alignment explanation
Indices: 235113--235179 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
235103 TAGTTTACTT
* *
235113 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
235133 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
235153 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
235172 TCGCAACG
1 TCGCAACG
235180 ACAAAAGCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Done.