Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008419.1 Hibiscus syriacus cultivar Beakdansim tig00111199_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: 1038719
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 5
Found at i:7943 original size:13 final size:13
Alignment explanation
Indices: 7927--7961 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
7917 AAATGGATGG
7927 AAGAAAAAAAAAA
1 AAGAAAAAAAAAA
*
7940 AAGAAAGAAAAAA
1 AAGAAAAAAAAAA
7953 AAGAAAAAA
1 AAGAAAAAA
7962 GGGGGGTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:8310 original size:16 final size:18
Alignment explanation
Indices: 8282--8336 Score: 73
Period size: 16 Copynumber: 3.2 Consensus size: 18
8272 CAATTCTATC
8282 TATTTC-AAG-TTCAATT
1 TATTTCGAAGATTCAATT
8298 TATTT-G-AGATTCAATT
1 TATTTCGAAGATTCAATT
8314 TATTTTCGAAGATTCAATT
1 TA-TTTCGAAGATTCAATT
8333 TATT
1 TATT
8337 CTTTTATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.06
16 14 0.41
17 3 0.09
18 3 0.09
19 12 0.35
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TATTTCGAAGATTCAATT
Found at i:8328 original size:19 final size:17
Alignment explanation
Indices: 8291--8336 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
8281 CTATTTCAAG
8291 TTCAATTTA-TTTGAGA
1 TTCAATTTATTTTGAGA
8307 TTCAATTTATTTTCGAAGA
1 TTCAATTTATTTT-G-AGA
8326 TTCAATTTATT
1 TTCAATTTATT
8337 CTTTTATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 1 0.04
19 14 0.52
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (17 bp):
TTCAATTTATTTTGAGA
Found at i:9259 original size:83 final size:83
Alignment explanation
Indices: 9120--9455 Score: 584
Period size: 83 Copynumber: 4.0 Consensus size: 83
9110 TAATGGGCTC
9120 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
9185 TGGAAGATGAATTTGCTA
66 TGGAAGATGAATTTGCTA
* *
9203 ATAGCATATTCTGGAACTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
9268 TGGAAGATGAATTTGCTA
66 TGGAAGATGAATTTGCTA
* *
9286 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAATCAATCATTGAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAGAACCAATCATTGAAT
*
9350 TTAGAAGATGAATTTGCTA
65 TTGGAAGATGAATTTGCTA
* *
9369 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
*
9434 TGGAAGATGAATTTGCTC
66 TGGAAGATGAATTTGCTA
9452 ATAG
1 ATAG
9456 TAGAAATAAG
Statistics
Matches: 240, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
82 3 0.01
83 233 0.97
84 4 0.02
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
TGGAAGATGAATTTGCTA
Found at i:10596 original size:116 final size:116
Alignment explanation
Indices: 10276--10914 Score: 1032
Period size: 116 Copynumber: 5.6 Consensus size: 116
10266 TCCAGAAAAG
*
10276 GTTCATAATGAGAAGAA--C-TCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * * * * *
10337 TCAACCTTTTACCTGAATTCATCAAATTGATGGATTATC-TTTCTAGAGAAG-
66 TCAACCTTTTGCTTGAATTCATC-ATTTGATGGATCAACATTGCCAG-GTAGA
10388 GTTCATAATGAGAA-AA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGA-AAGAA-TTGT
1 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
*
10447 TCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
66 TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
*
10498 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGT
1 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
10563 TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
66 TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
*
10614 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGT
1 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
*
10679 TCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
66 TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
*
10730 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGT
1 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
10795 TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
66 TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
* *
10846 GTTCATAATGAGAAGAACTTGTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
1 GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
10911 TCAA
66 TCAA
10915 TAATTCTATC
Statistics
Matches: 500, Mismatches: 18, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
109 15 0.03
110 43 0.09
111 22 0.04
112 34 0.07
113 1 0.00
114 32 0.06
115 5 0.01
116 348 0.70
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (116 bp):
GTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGA
Found at i:11246 original size:3 final size:3
Alignment explanation
Indices: 11238--11308 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
11228 ATATTATAAA
* *
11238 TAT TAT TAT TAT TGT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
11286 TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
11309 AATATATATT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:11320 original size:11 final size:10
Alignment explanation
Indices: 11304--11344 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
11294 TTATTATTAT
11304 TATTAAATATA
1 TATTAAATA-A
11315 TATTAAATACA
1 TATTAAATA-A
11326 TATATAAATAA
1 TAT-TAAATAA
11337 TATTAAAT
1 TATTAAAT
11345 TACAAAGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:12765 original size:13 final size:13
Alignment explanation
Indices: 12749--12788 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
12739 ATATAATAAA
12749 TAAATATTTATTT
1 TAAATATTTATTT
*
12762 TAAATAAATTATTT
1 TAAAT-ATTTATTT
12776 T-AATATTTATTT
1 TAAATATTTATTT
12788 T
1 T
12789 TCAATATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:15678 original size:35 final size:35
Alignment explanation
Indices: 15638--15754 Score: 216
Period size: 35 Copynumber: 3.3 Consensus size: 35
15628 TTTATGCACC
15638 GATGCATAGATAGTGCATCGATGCACCCGTCAAGG
1 GATGCATAGATAGTGCATCGATGCACCCGTCAAGG
15673 GATGCATAGATAGTGCATCGATGCACCCGTCAAGG
1 GATGCATAGATAGTGCATCGATGCACCCGTCAAGG
*
15708 GATGTATAGATAGTGCATCGATGCACCCGTCAAGG
1 GATGCATAGATAGTGCATCGATGCACCCGTCAAGG
*
15743 GATGCATCGATA
1 GATGCATAGATA
15755 CATGGTGTAG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 79 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (35 bp):
GATGCATAGATAGTGCATCGATGCACCCGTCAAGG
Found at i:25884 original size:18 final size:18
Alignment explanation
Indices: 25861--25899 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
25851 TAGGAATAAA
25861 TTAAAGGTTTAGCTCATT
1 TTAAAGGTTTAGCTCATT
25879 TTAAAGGTTTAGCTCATT
1 TTAAAGGTTTAGCTCATT
25897 TTA
1 TTA
25900 GAATATAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (18 bp):
TTAAAGGTTTAGCTCATT
Found at i:27141 original size:31 final size:31
Alignment explanation
Indices: 27069--27147 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
27059 AGTTTCAAAA
* * *
27069 GTAACAAATTAGTCACTAACGTTATCAATTT
1 GTAACAAAATGGTCACTAACATTATCAATTT
* *
27100 GTAACAAAATGGTTACTAACATTATCGATTT
1 GTAACAAAATGGTCACTAACATTATCAATTT
*
27131 GTAACAAAATGATCACT
1 GTAACAAAATGGTCACT
27148 CCACCATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (31 bp):
GTAACAAAATGGTCACTAACATTATCAATTT
Found at i:28226 original size:31 final size:31
Alignment explanation
Indices: 28183--28309 Score: 209
Period size: 31 Copynumber: 4.1 Consensus size: 31
28173 GTCCTGAAGG
* ** *
28183 ACCTATCCATATGTTTCGAAGAACATAGGTA
1 ACCTGTCCATATGTCCCGAAGGACATAGGTA
28214 ACCTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTGTCCATATGTCCCGAAGGACATAGGTA
28245 ACCTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTGTCCATATGTCCCGAAGGACATAGGTA
*
28276 AACTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTGTCCATATGTCCCGAAGGACATAGGTA
28307 ACC
1 ACC
28310 CTCGACTCTT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 90 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (31 bp):
ACCTGTCCATATGTCCCGAAGGACATAGGTA
Found at i:28676 original size:31 final size:31
Alignment explanation
Indices: 28640--28701 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
28630 ATGACTTATC
28640 ACACTAACATATACTTATACAAATCATGTAA
1 ACACTAACATATACTTATACAAATCATGTAA
28671 ACACTAACATATACTTATACAAATCATGTAA
1 ACACTAACATATACTTATACAAATCATGTAA
28702 CATACATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.29
Consensus pattern (31 bp):
ACACTAACATATACTTATACAAATCATGTAA
Found at i:29707 original size:10 final size:10
Alignment explanation
Indices: 29692--29720 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
29682 CTTCACGTAT
29692 GAAGAAGAAA
1 GAAGAAGAAA
29702 GAAGAAGAAA
1 GAAGAAGAAA
29712 GAAGAAGAA
1 GAAGAAGAA
29721 GCAAGTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAA
Found at i:30249 original size:30 final size:31
Alignment explanation
Indices: 30215--30286 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
30205 TGGAGTGACT
* * * *
30215 ATTTTGTTACAATTC-ATAACGTTAGTGATC
1 ATTTTGTTACAAATCAATAACATTAGTAACC
30245 ATTTTGTTACAAATCAATAACATTAGTAACC
1 ATTTTGTTACAAATCAATAACATTAGTAACC
*
30276 AATTTGTTACA
1 ATTTTGTTACA
30287 TTTGAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 14 0.39
31 22 0.61
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (31 bp):
ATTTTGTTACAAATCAATAACATTAGTAACC
Found at i:30804 original size:10 final size:10
Alignment explanation
Indices: 30786--30816 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30776 AGCCAAACCC
*
30786 TTTACTTTTT
1 TTTATTTTTT
30796 TTTATTTTTT
1 TTTATTTTTT
30806 TTTATTTTTT
1 TTTATTTTTT
30816 T
1 T
30817 AGTGTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:37036 original size:22 final size:21
Alignment explanation
Indices: 37011--37063 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
37001 TACTCAGGAA
*
37011 AGTATCGATACCTCATA-TAAGG
1 AGTATCGATACCTCAAACT-A-G
37033 AGTATCGATA-CTCAAACTAG
1 AGTATCGATACCTCAAACTAG
37053 AGTATCGATAC
1 AGTATCGATAC
37064 TAGCCCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 11 0.39
21 6 0.21
22 11 0.39
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (21 bp):
AGTATCGATACCTCAAACTAG
Found at i:45431 original size:15 final size:16
Alignment explanation
Indices: 45399--45438 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
45389 CGACGTGTAT
**
45399 ATATATTTTAAACTTA
1 ATATATTTTAAAAATA
45415 ATAT-TTTTAAAAATA
1 ATATATTTTAAAAATA
45430 ATATATTTT
1 ATATATTTT
45439 TTATATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTTTAAAAATA
Found at i:46180 original size:17 final size:16
Alignment explanation
Indices: 46158--46211 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
46148 TAATGTTAAT
46158 ATTTAAATTTATTTTTA
1 ATTTAAA-TTATTTTTA
* *
46175 ATTTAAAGTTATTATGA
1 ATTTAAA-TTATTTTTA
* *
46192 ATTTATATTAATTTTA
1 ATTTAAATTATTTTTA
46208 ATTT
1 ATTT
46212 TTTATAATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
ATTTAAATTATTTTTA
Found at i:47694 original size:21 final size:21
Alignment explanation
Indices: 47664--47711 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
47654 GCAGGGGTAC
* *
47664 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
47685 ATGCCAAGCCCACCAGTTCAT
1 ATGCCAAGCCCACCACTTCAT
47706 ATGCCA
1 ATGCCA
47712 TATCCGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:47741 original size:21 final size:21
Alignment explanation
Indices: 47715--47829 Score: 153
Period size: 21 Copynumber: 5.5 Consensus size: 21
47705 TATGCCATAT
*
47715 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
47736 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
47757 CCGCCA-GGTTACATTCCGAGC
1 CCG-CAGGGTTACATTCCTAGC
*
47778 TCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
* *
47799 CCTCCA-GGTTACATGCCTAGC
1 CC-GCAGGGTTACATTCCTAGC
47820 CCGCAGGGTT
1 CCGCAGGGTT
47830 TTATATAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.05
21 74 0.90
22 4 0.05
ACGTcount: A:0.18, C:0.34, G:0.25, T:0.23
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:47768 original size:42 final size:42
Alignment explanation
Indices: 47721--47829 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
47711 ATATCCGCAG
47721 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
* *
47763 GGTTACATTCCGAGCTCGCAGGGTTACATTCCTAGCCCTCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
* *
47805 GGTTACATGCCTAGCCCGCAGGGTT
1 GGTTACATTCCGAGCCCGCAGGGTT
47830 TTATATAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.18, C:0.33, G:0.25, T:0.24
Consensus pattern (42 bp):
GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
Found at i:48447 original size:34 final size:33
Alignment explanation
Indices: 48349--48455 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
48339 ATAAATGTTT
*
48349 TTAAAATACAAATTATATTATTCAAATTTTAAAA
1 TTAAAATAAAAATTATATTATTCAAA-TTTAAAA
* *
48383 TAAAAATAAAAATAATATTATTCAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTC-AAATTTAAAA
* * *
48417 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAATAAAAATTATATTATTC-AAATTTAAAA
48451 TTAAA
1 TTAAA
48456 TTTCAACTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 60 0.95
35 3 0.05
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCAAATTTAAAA
Found at i:49262 original size:127 final size:128
Alignment explanation
Indices: 48851--49583 Score: 1290
Period size: 128 Copynumber: 5.7 Consensus size: 128
48841 ACAATCCATC
48851 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
48916 GGAAGGCGCGCCTCTGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
48979 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
49044 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATAAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
49107 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTAACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
49172 GGAAGGCGC-CCCCCGAGAACACGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
49234 TAGTGTTCCCGAGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
49299 GGAAGGCGCGCCCCCGGGAACGCGCCTTTAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
49362 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
49427 GAAAGGCGC-CCCCCGGGAACGCGCCTTCAAGTTCCTTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
49489 TAGTGTCCCCGAGGGACACGAGTGACAGAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
49554 GGAAGGCGCGCCCTCGGGAACGCGCCTTCA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
49584 TGTGAATAGT
Statistics
Matches: 574, Mismatches: 29, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
127 240 0.42
128 334 0.58
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:49303 original size:255 final size:255
Alignment explanation
Indices: 48851--49583 Score: 1304
Period size: 255 Copynumber: 2.9 Consensus size: 255
48841 ACAATCCATC
48851 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
48916 GGAAGGCGCGCCTCTGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATA
66 GGAAGGCGC-CCCCCGGGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAATA
*
48981 GTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTCTGACAAAATAATGG
130 GTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGG
49046 AAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATAAA
195 AAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATAAA
* *
49107 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTAACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
49172 GGAAGGCGCCCCCCGAGAACACGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAATAG
66 GGAAGGCGCCCCCCGGGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAATAG
* *
49237 TGTTCCCGAGGGACATGAGTGACATAATAAGGCAATGATAACATATTCTCTGACAAAATAATGGA
131 TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGA
* *
49302 AGGCGCGCCCCCGGGAACGCGCCTTTAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
196 AGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATAAA
49362 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
49427 GAAAGGCGCCCCCCGGGAACGCGCCTTCAAGTTCCTTGAGAAATAATAGGTACTGATATGAATAG
66 GGAAGGCGCCCCCCGGGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAATAG
* *
49492 TGTCCCCGAGGGACACGAGTGACAGAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGA
131 TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGA
*
49557 AGGCGCGCCCTCGGGAACGCGCCTTCA
196 AGGCGCGCCCCCGGGAACGCGCCTTCA
49584 TGTGAATAGT
Statistics
Matches: 453, Mismatches: 24, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
255 381 0.84
256 72 0.16
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (255 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCCCCCCGGGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAATAG
TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGA
AGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATAAA
Found at i:49677 original size:8 final size:8
Alignment explanation
Indices: 49664--49704 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
49654 TCACAAGCTT
49664 TCAAATTC
1 TCAAATTC
49672 TCAAATTC
1 TCAAATTC
* *
49680 CCAAACTC
1 TCAAATTC
49688 T-AAATTC
1 TCAAATTC
49695 TCAAATTC
1 TCAAATTC
49703 TC
1 TC
49705 TAAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:53876 original size:44 final size:42
Alignment explanation
Indices: 53814--53914 Score: 125
Period size: 44 Copynumber: 2.4 Consensus size: 42
53804 TCTTTTTTGT
* *
53814 ATTAATAA-TAATA-TTTTATTATTTATTAAAAAAATAATAG
1 ATTAATAATTATTATTTTTATTATTTATTAAAAAAATAATAA
* * *
53854 ATTAGTTAACTTATTATTTTTATTATTTATTAATAAATTAATAA
1 ATTA-ATAA-TTATTATTTTTATTATTTATTAAAAAAATAATAA
53898 ATTAATAATTATTATTT
1 ATTAATAATTATTATTT
53915 AGATTTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.08
41 3 0.06
42 9 0.18
43 7 0.14
44 28 0.55
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (42 bp):
ATTAATAATTATTATTTTTATTATTTATTAAAAAAATAATAA
Found at i:63994 original size:33 final size:33
Alignment explanation
Indices: 63932--64026 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
63922 CCCATATGCA
* * *
63932 AAGTTGGTCACCTACCAAAGATTAATTTTTCAAT
1 AAGTTGGCCACCAACC-AAGATGAATTTTTCAAT
* * *
63966 AAGTTTGCCACCAACCAAGATGATTTTTTGAAT
1 AAGTTGGCCACCAACCAAGATGAATTTTTCAAT
63999 AAGTTGGCCACCAACCAAGATGAATTTT
1 AAGTTGGCCACCAACCAAGATGAATTTT
64027 CCAACTTGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 40 0.75
34 13 0.25
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (33 bp):
AAGTTGGCCACCAACCAAGATGAATTTTTCAAT
Found at i:66756 original size:30 final size:30
Alignment explanation
Indices: 66721--66779 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
66711 TTGCAACATT
66721 CTCGACAAAGGATACA-GGCTCACCCACTTC
1 CTCGACAAAGGATA-ATGGCTCACCCACTTC
*
66751 CTCGACAAAGGATAATGGCTTACCCACTT
1 CTCGACAAAGGATAATGGCTCACCCACTT
66780 TGATTCTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (30 bp):
CTCGACAAAGGATAATGGCTCACCCACTTC
Found at i:67129 original size:86 final size:87
Alignment explanation
Indices: 66979--67146 Score: 241
Period size: 86 Copynumber: 1.9 Consensus size: 87
66969 CCTTAAGCTT
* *
66979 ACCATTCTCTATGATTCCCACTTGTTGACACCATGCCAAGTGATTTACCTTGTCTAAATCATTCT
1 ACCATTCTCTATGATTCCCACTTGTTGACACCATGCCAAGTGATTTACCTGGTCTAAACCATTCT
67044 TTTCGAATCTGTATCCTGCGAC
66 TTTCGAATCTGTATCCTGCGAC
* * * * *
67066 ACCA-TCTCTATGATTCTCATTTGTTGACATCATGCCAAGTTATTTACCTGGT-TGGAACCATTC
1 ACCATTCTCTATGATTCCCACTTGTTGACACCATGCCAAGTGATTTACCTGGTCT-AAACCATTC
*
67129 TTTTTGAATCTGTATCCT
65 TTTTCGAATCTGTATCCT
67147 ACACATCTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
85 1 0.01
86 67 0.93
87 4 0.06
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (87 bp):
ACCATTCTCTATGATTCCCACTTGTTGACACCATGCCAAGTGATTTACCTGGTCTAAACCATTCT
TTTCGAATCTGTATCCTGCGAC
Found at i:70158 original size:103 final size:104
Alignment explanation
Indices: 70016--70209 Score: 282
Period size: 103 Copynumber: 1.9 Consensus size: 104
70006 CCTAAAAAGT
* * *
70016 AAGAGCACCACTGTGCTAAATTCATAGCACCTTTGTGCTTGAATTAAGGATTGGGCACCTCTGTG
1 AAGAGAACCACTGTGCTAAATTCATAGCACCTCTGTGCTTGAATTAAGGATTGAGCACCTCTGTG
* *
70081 CGTTAATCGACAACTGACACCTCTGTGCAGTTAAAGGAA
66 CATCAATCGACAACTGACACCTCTGTGCAGTTAAAGGAA
* * *
70120 AAGAGAACCACTGTGCTGAATTCA-AGCACCTCTGTGCTTGAATTAATGATTGAGCACCTTTGTG
1 AAGAGAACCACTGTGCTAAATTCATAGCACCTCTGTGCTTGAATTAAGGATTGAGCACCTCTGTG
* **
70184 CATCAATCGAGAGTTGACACCTCTGT
66 CATCAATCGACAACTGACACCTCTGT
70210 ATAGCTAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
103 57 0.72
104 22 0.28
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (104 bp):
AAGAGAACCACTGTGCTAAATTCATAGCACCTCTGTGCTTGAATTAAGGATTGAGCACCTCTGTG
CATCAATCGACAACTGACACCTCTGTGCAGTTAAAGGAA
Found at i:70230 original size:55 final size:55
Alignment explanation
Indices: 70166--70330 Score: 204
Period size: 55 Copynumber: 3.0 Consensus size: 55
70156 CTTGAATTAA
* * *
70166 TGATTGAGCACCTTTGTGCATCAATCGAGAGTTGACACCTCTGTATAGCTAAAAC
1 TGATTGAGCACCTATGTGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAAC
* * * * * * *
70221 TGATTGAGCACCTATGTTCTTCAATCGGGAACTGACACCTCTGTGCAGTTAAAAA
1 TGATTGAGCACCTATGTGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAAC
* * * *
70276 TGACTAAGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAAC
1 TGATTGAGCACCTATGTGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAAC
70331 GGATCAAGCA
Statistics
Matches: 89, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (55 bp):
TGATTGAGCACCTATGTGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAAC
Found at i:70340 original size:55 final size:55
Alignment explanation
Indices: 70172--70355 Score: 199
Period size: 55 Copynumber: 3.3 Consensus size: 55
70162 TTAATGATTG
* * * * **
70172 AGCACCTTTGTGCATCAATCGAGAGTTGACACCTCTGTATAGCTAAAACTGATTG
1 AGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAACTGATCA
* * * * * * * * *
70227 AGCACCTATGTTCTTCAATCGGGAACTGACACCTCTGTGCAGTTAAAAATGA-CTA
1 AGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAACTGATC-A
*
70282 AGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAACGGATCA
1 AGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAACTGATCA
*
70337 AGCACCTCTATGCTTCAAT
1 AGCACCTCTATGCATCAAT
70356 ATAAAATATG
Statistics
Matches: 104, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
55 103 0.99
56 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (55 bp):
AGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAACTGATCA
Found at i:70399 original size:110 final size:110
Alignment explanation
Indices: 70164--70400 Score: 260
Period size: 110 Copynumber: 2.2 Consensus size: 110
70154 TGCTTGAATT
* * * * **
70164 AATGATTGAGCACCTTTGTGCATCAATCGAGAGTTGACACCTCTGTATAGCTAAAACTGATTGAG
1 AATGATTGAGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTATAGCTAAAACGGATCAAG
* * * ** *
70229 CACCTATGTTCTTCAATCGGGAACTGACACCTCTGTGCAGTTAAA
66 CACCTATATGCTTCAATAGAAAAATGACACCTCTGTGCAGTTAAA
* * *
70274 AATGACTAAGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTGTAGCTAAAACGGATCAAG
1 AATGATTGAGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTATAGCTAAAACGGATCAAG
* * * * *
70339 CACCTCTATGCTTCAATATAAAATATGGCACCTCTGTGCA-TTTAG
66 CACCTATATGCTTCAATAGAAAA-ATGACACCTCTGTGCAGTTAAA
* *
70384 GATGATTGAGTACCTCT
1 AATGATTGAGCACCTCT
70401 GTGTTGCAAT
Statistics
Matches: 102, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
110 88 0.86
111 14 0.14
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (110 bp):
AATGATTGAGCACCTCTATGCATCAATCGAGAGCTGACACCTCTGTATAGCTAAAACGGATCAAG
CACCTATATGCTTCAATAGAAAAATGACACCTCTGTGCAGTTAAA
Found at i:72847 original size:106 final size:106
Alignment explanation
Indices: 72662--72876 Score: 421
Period size: 106 Copynumber: 2.0 Consensus size: 106
72652 ATGACTACAA
*
72662 CATATATAGGTTCTTTTCCCATAGATACAATGACAACAAAAGAGCAAAGGGGATGATGATGCTCA
1 CATATATAGGTTCTTTTCCCATAGATACAACGACAACAAAAGAGCAAAGGGGATGATGATGCTCA
72727 TACATAATCAGTTTGCACTGTCAAATCATGTATTCCCAACT
66 TACATAATCAGTTTGCACTGTCAAATCATGTATTCCCAACT
72768 CATATATAGGTTCTTTTCCCATAGATACAACGACAACAAAAGAGCAAAGGGGATGATGATGCTCA
1 CATATATAGGTTCTTTTCCCATAGATACAACGACAACAAAAGAGCAAAGGGGATGATGATGCTCA
72833 TACATAATCAGTTTGCACTGTCAAATCATGTATTCCCAACT
66 TACATAATCAGTTTGCACTGTCAAATCATGTATTCCCAACT
72874 CAT
1 CAT
72877 GGTATAAACC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 108 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (106 bp):
CATATATAGGTTCTTTTCCCATAGATACAACGACAACAAAAGAGCAAAGGGGATGATGATGCTCA
TACATAATCAGTTTGCACTGTCAAATCATGTATTCCCAACT
Found at i:73166 original size:22 final size:24
Alignment explanation
Indices: 73135--73181 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
73125 ATTAAATTAT
73135 AATTCAGAC-AAGAAAGATGCATA
1 AATTCAGACAAAGAAAGATGCATA
**
73158 AATTC-GACAAAGAAATTTGCATA
1 AATTCAGACAAAGAAAGATGCATA
73181 A
1 A
73182 GAATCACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (24 bp):
AATTCAGACAAAGAAAGATGCATA
Found at i:89629 original size:22 final size:22
Alignment explanation
Indices: 89601--89645 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
89591 AGATGAATGC
*
89601 AAGTCGTGCAGCAGTGGTATGT
1 AAGTCGTGCAACAGTGGTATGT
*
89623 AAGTCGTGCAACAGTGGTGTGT
1 AAGTCGTGCAACAGTGGTATGT
89645 A
1 A
89646 TGCTCAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.36, T:0.27
Consensus pattern (22 bp):
AAGTCGTGCAACAGTGGTATGT
Found at i:94336 original size:22 final size:21
Alignment explanation
Indices: 94314--94368 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
94304 CTGATGTTGT
94314 TTTATTTTAATTTAGTCACTG
1 TTTATTTTAATTTAGTCACTG
* * *
94335 TTAATTTCTGATTTAGTTACTG
1 TTTATTT-TAATTTAGTCACTG
94357 -TTATTTTAATTT
1 TTTATTTTAATTT
94369 TTGCATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 12 0.43
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTATTTTAATTTAGTCACTG
Found at i:94682 original size:20 final size:20
Alignment explanation
Indices: 94643--94682 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
94633 CTTTTAGAAA
* *
94643 TTAACATTTTCTTGAGTTTT
1 TTAACAGTTTCTTCAGTTTT
94663 TTAACAGTTTCTTCA-TTTT
1 TTAACAGTTTCTTCAGTTTT
94682 T
1 T
94683 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.60
Consensus pattern (20 bp):
TTAACAGTTTCTTCAGTTTT
Found at i:94881 original size:12 final size:12
Alignment explanation
Indices: 94864--94890 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
94854 AATTGAATTT
94864 TTTAAATTTCAA
1 TTTAAATTTCAA
94876 TTTAAATTTCAA
1 TTTAAATTTCAA
94888 TTT
1 TTT
94891 TCGTAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAAATTTCAA
Found at i:100123 original size:84 final size:84
Alignment explanation
Indices: 99904--100107 Score: 363
Period size: 84 Copynumber: 2.4 Consensus size: 84
99894 GCCCACAAGA
* *
99904 AGCATAGCTCAAGGCAAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTTAAC
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAAC
99969 TCAAAGGCACATCATTTGT
66 TCAAAGGCACATCATTTGT
*
99988 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAAC
100053 TCAAAGGCACATCATTTGT
66 TCAAAGGCACATCATTTGT
* *
100072 AGCATAGCTCAAGGCAAGAAGAGCTATCTGCCAACA
1 AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACA
100108 GGAAACTGTC
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 115 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (84 bp):
AGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAAC
TCAAAGGCACATCATTTGT
Found at i:102342 original size:84 final size:84
Alignment explanation
Indices: 102121--102324 Score: 354
Period size: 84 Copynumber: 2.4 Consensus size: 84
102111 CTGCCCACAA
* *
102121 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTTA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
*
102186 ACTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* *
102205 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAATACCTTCGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
102270 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
*
102289 GCAGCATAGCTCAAGGCAAGAAGAGCTATCTGCCAA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAA
102325 TAGGAAACTG
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 113 1.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (84 bp):
GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
GCTCAAAGGCACATCATTT
Found at i:104563 original size:84 final size:84
Alignment explanation
Indices: 104342--104545 Score: 372
Period size: 84 Copynumber: 2.4 Consensus size: 84
104332 GTGCCCACAA
*
104342 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTTA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
*
104407 ACTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
*
104426 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
104491 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
*
104510 GCAGCATAGCTCAAGGCAAGAAGAGCTATCTGCCAA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAA
104546 TAGGAAACTG
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 115 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (84 bp):
GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
GCTCAAAGGCACATCATTT
Found at i:106292 original size:110 final size:113
Alignment explanation
Indices: 106157--106503 Score: 306
Period size: 136 Copynumber: 2.9 Consensus size: 113
106147 CAATACAAGC
* ** * *
106157 TTGGATTTCAACTGCACGACAAAGGATATTCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
106222 CCACGATTTCAACTTCACGAC-AAAGGATATCGTGCCA-A-CTCTAGA
66 CCACGATTTCAACTTCACGACAAAAGGATATCGTGCCATATCTCTAGA
* **
106267 TTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGCTTC
1 TTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGG---C
* * * *
106332 CAGCTTCATTTAGAGCCAATTTCAACTTCACGACAAAAGATATTGGACTCGAAGCAACATTCATC
63 CA---TC-----CA--CGATTTCAACTTCACGACAAAAG-GA-T--A-TCG-TGC--CA-T-ATC
*
106397 TTTAGA
108 TCTAGA
*
106403 TTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGTCAT
1 TTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
106468 CCACGGTTTCAACTTCACGACGAAGGGA-ATCGTGCC
66 CCACGATTTCAACTTCACGACAAAAGGATATCGTGCC
106504 CACCAGCAAC
Statistics
Matches: 187, Mismatches: 24, Indels: 48
0.72 0.09 0.19
Matches are distributed among these distances:
110 53 0.28
113 3 0.02
114 1 0.01
116 4 0.02
117 3 0.02
118 1 0.01
121 1 0.01
122 1 0.01
123 36 0.19
124 4 0.02
125 2 0.01
126 1 0.01
128 1 0.01
129 3 0.02
130 4 0.02
132 2 0.01
133 2 0.01
135 1 0.01
136 64 0.34
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (113 bp):
TTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGATTTCAACTTCACGACAAAAGGATATCGTGCCATATCTCTAGA
Found at i:106784 original size:84 final size:84
Alignment explanation
Indices: 106563--106768 Score: 340
Period size: 84 Copynumber: 2.5 Consensus size: 84
106553 GTGCCCACAA
* *
106563 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTTA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
*
106628 ACTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * *
106647 GTAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAATACCTTCGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
106712 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* *
106731 GCAGCATAGCTCAAGGCAAAAAGAGCTATCTGCCAACA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACA
106769 GGAAACTGTC
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 112 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (84 bp):
GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
GCTCAAAGGCACATCATTT
Found at i:106797 original size:84 final size:84
Alignment explanation
Indices: 106563--106799 Score: 327
Period size: 84 Copynumber: 2.8 Consensus size: 84
106553 GTGCCCACAA
*
106563 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTT-
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACA-TTC
*
106627 AACTCAAAGGCACATCATTT
65 AGCTCAAAGGCACATCATTT
* * * *
106647 GTAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAATACCTTCGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCA
106712 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * *
106731 GCAGCATAGCTCAAGGCAAAAAGAGCTATCTGCCAACAGGAA-A-CTGTCGAGTTCAATTCCATT
1 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACA-AAAGACCT-TCGAGTTCGATTACATT
106794 CAGCTC
64 CAGCTC
106800 GATGACATAT
Statistics
Matches: 136, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
83 3 0.02
84 131 0.96
85 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (84 bp):
GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCA
GCTCAAAGGCACATCATTT
Found at i:107908 original size:22 final size:21
Alignment explanation
Indices: 107886--107940 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
107876 TTGATGTTGT
107886 TTTATTTTAATTTAG-TCACTG
1 TTTATTTTAATTTAGCT-ACTG
* *
107907 TTAATTTCTGATTTAGCTACTG
1 TTTATTT-TAATTTAGCTACTG
107929 -TTATTTTAATTT
1 TTTATTTTAATTT
107941 TTGCATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 11 0.39
23 1 0.04
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (21 bp):
TTTATTTTAATTTAGCTACTG
Found at i:111191 original size:28 final size:28
Alignment explanation
Indices: 111150--111227 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
111140 TGATAAGGTT
* * *
111150 TAGGATTTAGGGTTTAGAGTTTATGTAA
1 TAGGATTTAAGGTTTAGGGTTTATATAA
**
111178 TAGGATTTAAGGTTTAGGGTTTATATGT
1 TAGGATTTAAGGTTTAGGGTTTATATAA
*
111206 TAGG-GTTAAGGTTTAGGGTTTA
1 TAGGATTTAAGGTTTAGGGTTTA
111228 GGGTTTAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.39
28 27 0.61
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (28 bp):
TAGGATTTAAGGTTTAGGGTTTATATAA
Found at i:111195 original size:14 final size:14
Alignment explanation
Indices: 111143--111234 Score: 57
Period size: 14 Copynumber: 6.6 Consensus size: 14
111133 AATTATGTGA
111143 TAAGGTTTAGGATT
1 TAAGGTTTAGGATT
*
111157 TAGGGTTTA-GAGTT
1 TAAGGTTTAGGA-TT
* *
111171 T-ATGTAATAGGATT
1 TAAGGT-TTAGGATT
*
111185 TAAGGTTTAGGGTT
1 TAAGGTTTAGGATT
* *
111199 TATATG-TTAGG-GT
1 TA-AGGTTTAGGATT
*
111212 TAAGGTTTAGGGTT
1 TAAGGTTTAGGATT
*
111226 TAGGGTTTA
1 TAAGGTTTA
111235 AGTTATGCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
12 2 0.03
13 12 0.20
14 38 0.64
15 7 0.12
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (14 bp):
TAAGGTTTAGGATT
Found at i:112643 original size:23 final size:23
Alignment explanation
Indices: 112617--112682 Score: 123
Period size: 23 Copynumber: 2.9 Consensus size: 23
112607 AACTATTTTC
112617 AATTGAGCTTGAATCGAGCTCGA
1 AATTGAGCTTGAATCGAGCTCGA
112640 AATTGAGCTTGAATCGAGCTCGA
1 AATTGAGCTTGAATCGAGCTCGA
*
112663 AATTGAGCTTGAATCAAGCT
1 AATTGAGCTTGAATCGAGCT
112683 TAGTTTCGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (23 bp):
AATTGAGCTTGAATCGAGCTCGA
Found at i:112700 original size:23 final size:23
Alignment explanation
Indices: 112674--112774 Score: 193
Period size: 23 Copynumber: 4.4 Consensus size: 23
112664 ATTGAGCTTG
*
112674 AATCAAGCTTAGTTTCGAGTTTT
1 AATCGAGCTTAGTTTCGAGTTTT
112697 AATCGAGCTTAGTTTCGAGTTTT
1 AATCGAGCTTAGTTTCGAGTTTT
112720 AATCGAGCTTAGTTTCGAGTTTT
1 AATCGAGCTTAGTTTCGAGTTTT
112743 AATCGAGCTTAGTTTCGAGTTTT
1 AATCGAGCTTAGTTTCGAGTTTT
112766 AATCGAGCT
1 AATCGAGCT
112775 CTTGAATTTT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
23 77 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.42
Consensus pattern (23 bp):
AATCGAGCTTAGTTTCGAGTTTT
Found at i:112701 original size:46 final size:46
Alignment explanation
Indices: 112651--112751 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 46
112641 ATTGAGCTTG
112651 AATCGAGCTCGAAATT-GAGCTTGAATCAAGCTTAGTTTCGAGTTTT
1 AATCGAGCT-GAAATTCGAGCTTGAATCAAGCTTAGTTTCGAGTTTT
* ** * * *
112697 AATCGAGCTTAGTTTCGAGTTTTAATCGAGCTTAGTTTCGAGTTTT
1 AATCGAGCTGAAATTCGAGCTTGAATCAAGCTTAGTTTCGAGTTTT
112743 AATCGAGCT
1 AATCGAGCT
112752 TAGTTTCGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
45 3 0.06
46 45 0.94
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.38
Consensus pattern (46 bp):
AATCGAGCTGAAATTCGAGCTTGAATCAAGCTTAGTTTCGAGTTTT
Found at i:112705 original size:69 final size:70
Alignment explanation
Indices: 112628--112775 Score: 167
Period size: 69 Copynumber: 2.1 Consensus size: 70
112618 ATTGAGCTTG
112628 AATCGAGCTCGAAATT-GAGCTTGAATCGAGCTCGAAATT-GAGCTTGAATCAAGCTTAGTTTCG
1 AATCGAGCTCGAAATTCGAGCTTGAATCGAGCT-GAAATTCGAGCTTGAATCAAGCTTAGTTTCG
112691 AGTTTT
65 AGTTTT
* ** * * * ** * * *
112697 AATCGAGCT-TAGTTTCGAGTTTTAATCGAGCTTAGTTTCGAGTTTTAATCGAGCTTAGTTTCGA
1 AATCGAGCTCGAAATTCGAGCTTGAATCGAGCTGAAATTCGAGCTTGAATCAAGCTTAGTTTCGA
112761 GTTTT
66 GTTTT
112766 AATCGAGCTC
1 AATCGAGCTC
112776 TTGAATTTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
68 6 0.09
69 59 0.91
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (70 bp):
AATCGAGCTCGAAATTCGAGCTTGAATCGAGCTGAAATTCGAGCTTGAATCAAGCTTAGTTTCGA
GTTTT
Found at i:118956 original size:14 final size:14
Alignment explanation
Indices: 118937--118971 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
118927 AAGGTAAATT
118937 ATATTTTTTTAAAA
1 ATATTTTTTTAAAA
118951 ATA-TTTTTTAAAA
1 ATATTTTTTTAAAA
118964 ATTATTTT
1 A-TATTTT
118972 ATGATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 11 0.58
14 5 0.26
15 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATTTTTTTAAAA
Found at i:118959 original size:13 final size:14
Alignment explanation
Indices: 118941--118971 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
118931 TAAATTATAT
118941 TTTTTTAAAAA-TA
1 TTTTTTAAAAATTA
118954 TTTTTTAAAAATTA
1 TTTTTTAAAAATTA
118968 TTTT
1 TTTT
118972 ATGATGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTTTAAAAATTA
Found at i:119140 original size:20 final size:20
Alignment explanation
Indices: 119088--119141 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
119078 AATTTAATAT
*
119088 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT--ATTATTAAAA
*
119110 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
119130 TATTATTTTTAT
1 TATTATTTTTAT
119142 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
22 5 0.19
23 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:120074 original size:14 final size:14
Alignment explanation
Indices: 120055--120083 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
120045 ACGGCAAAAG
120055 AAATAAATATTTAA
1 AAATAAATATTTAA
120069 AAATAAATATTTAA
1 AAATAAATATTTAA
120083 A
1 A
120084 GCCTTTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATAAATATTTAA
Found at i:120234 original size:33 final size:33
Alignment explanation
Indices: 120191--120296 Score: 167
Period size: 33 Copynumber: 3.2 Consensus size: 33
120181 GCAATAATGG
* *
120191 TAAAAGGAGATGTATGTTTTTCTTCAAAATATA
1 TAAAAAGAGATGTATGTTTTTCTTCATAATATA
*
120224 TAAAAAGAGATGTATGTATTTCTTCATAATATA
1 TAAAAAGAGATGTATGTTTTTCTTCATAATATA
*
120257 TAGAAAGAGATGTATGTTTTTCTTCATAATATA
1 TAAAAAGAGATGTATGTTTTTCTTCATAATATA
*
120290 TAGAAAG
1 TAAAAAG
120297 GGAAGTTCTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (33 bp):
TAAAAAGAGATGTATGTTTTTCTTCATAATATA
Found at i:120411 original size:21 final size:21
Alignment explanation
Indices: 120387--120430 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
120377 CGGTAAAAAA
*
120387 TTACCTAAAACATTATTATTT
1 TTACCTAAAACATTAATATTT
*
120408 TTACCTAAAATATTAATATTT
1 TTACCTAAAACATTAATATTT
120429 TT
1 TT
120431 TTAACAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (21 bp):
TTACCTAAAACATTAATATTT
Found at i:121110 original size:118 final size:115
Alignment explanation
Indices: 120988--121570 Score: 330
Period size: 118 Copynumber: 5.1 Consensus size: 115
120978 CAAACATAAT
* *
120988 AACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTGA
1 AACATATTAGGTAGCGCTTATATAATGTAATAGGTAGAG-CTTTTTAAAGCTGATGGGGCTTTGA
* * *
121053 AAATCAGACGATAACAAAATATGTTAATTAATTAAGTTGTTATTATTATTATC
65 AAATC-GACGATAACAAAATAGGTTAATTACTTAA-TTGTTATTAGTATTATC
* * ** * * * *
121106 AACATATTAGGTAACGCCTA-A-AATGT--TA-CCAAAG---TTT-AAGCTGATAGAGCCTTAGA
1 AACATATTAGGTAGCGCTTATATAATGTAATAGGTAGAGCTTTTTAAAGCTGAT-GGGGCTTTGA
* * ** *** * * *
121162 AATTCGACGATAACATAACCGGTTAATTACTTGAAACATTATCAAGCATGAT-
65 AAATCGACGATAACAAAATAGGTTAATTACTT-AATTGTTAT-TAGTATTATC
* * * *
121214 AACATATTAGGTAGCGCTTATGTAATGTAATAGGTAGTGCATTATTAAAGCTGATGGGGCCTT-A
1 AACATATTAGGTAGCGCTTATATAATGTAATAGGTAGAGC-TTTTTAAAGCTGATGGGGCTTTGA
121278 GAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATC
65 -AAAT-CGACGATAACAAAATAGGTTAATTACTTAA-TTGTTATTAGTATTATC
* * * ** * * * *
121332 AACATATTAGGTAACACCTA-A-AATGT--TA-CCAAAG---TTT-AAGCTGATGGAGCCTTAAA
1 AACATATTAGGTAGCGCTTATATAATGTAATAGGTAGAGCTTTTTAAAGCTGATGGGGCTTTGAA
** * *** * * *
121388 AATCCGACGATAACATAACCA-GTTAATTACTGGAAACATTATCAAGCATAAT-
66 AAT-CGACGATAACA-AAATAGGTTAATTACT-TAATTGTTAT-TAGTATTATC
* * * * * * * * *
121440 AACATATTAGGTAGTGTTTATGTAACGTAATAGGCAGCGCATTATTCAAGCTGATGGGGCATT-A
1 AACATATTAGGTAGCGCTTATATAATGTAATAGGTAGAGC-TTTTTAAAGCTGATGGGGCTTTGA
* * *
121504 GAAATCCGACGATAATAAAATAGGTTAATTAATTAATTTGTTATCAGTATTATC
65 -AAAT-CGACGATAACAAAATAGGTTAATTACTTAA-TTGTTATTAGTATTATC
121558 AACATATTAGGTA
1 AACATATTAGGTA
121571 ACACCTAAAA
Statistics
Matches: 342, Mismatches: 88, Indels: 70
0.68 0.18 0.14
Matches are distributed among these distances:
108 112 0.33
109 35 0.10
110 9 0.03
112 4 0.01
113 9 0.03
114 4 0.01
116 10 0.03
117 32 0.09
118 127 0.37
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (115 bp):
AACATATTAGGTAGCGCTTATATAATGTAATAGGTAGAGCTTTTTAAAGCTGATGGGGCTTTGAA
AATCGACGATAACAAAATAGGTTAATTACTTAATTGTTATTAGTATTATC
Found at i:121187 original size:108 final size:107
Alignment explanation
Indices: 121035--121675 Score: 408
Period size: 108 Copynumber: 5.7 Consensus size: 107
121025 CGCCTTTTTA
* * * * *** * *
121035 AAGCTGATGG-GGCTTTGAAAATCAGACGATAACAAAATATGTTAATTAATTAAGTTGTTATTAT
1 AAGCTGATGGAGCCTTAG-AAATCCGACGATAACATAACCGGTTAATTACTTAA-TTGTTATTAG
121099 TATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTT
64 TATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTT
* * *** *
121143 AAGCTGATAGAGCCTTAGAAATTCGACGATAACATAACCGGTTAATTACTTGAAACATTATCAAG
1 AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTT-AATTGTTAT-TAG
* * * * * ** * *
121208 CATGAT-AACATATTAGGTAGCGCTTATGTAATGTAATAGGTAGTGCATTATT
64 TATTATCAACATATTAGGTAACGCCTA--AAATGT--TA-CCA---AAGT-TT
* * **
121260 AAAGCTGATGGGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATTAG
1 -AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTTAA-TTGTTATTAG
*
121325 TATTATCAACATATTAGGTAACACCTAAAATGTTACCAAAGTTT
64 TATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTT
* * * *** *
121369 AAGCTGATGGAGCCTTAAAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAG
1 AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACT-TAATTGTTAT-TAG
* * ** ** * * ** *
121434 CATAAT-AACATATTAGGTAGTGTTTATGTAACGTAATAGGCAGCGCATTATT
64 TATTATCAACATATTAGGTAACGCCTA--AAATGT--TA--C--CAAAGT-TT
* * * * ** * *
121486 CAAGCTGATGGGGCATTAGAAATCCGACGATAATAAAATAGGTTAATTAATTAATTTGTTATCAG
1 -AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTTAA-TTGTTATTAG
* * *
121551 TATTATCAACATATTAGGTAACACCTAAAATGTTAACAAAATTT
64 TATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTT
* * * * *
121595 AAGCTGATGGAGCCTTAGAAATCCGACAATAACATAACAGGTTGATTACTTTATTTGTTATCAAG
1 AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTAC-TTAATTGTTAT-TAG
121660 CT-TTATCAACATATTA
64 -TATTATCAACATATTA
121676 CCATGTACAT
Statistics
Matches: 397, Mismatches: 104, Indels: 63
0.70 0.18 0.11
Matches are distributed among these distances:
108 168 0.42
109 43 0.11
110 15 0.04
112 4 0.01
113 2 0.01
114 5 0.01
116 14 0.04
117 20 0.05
118 126 0.32
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (107 bp):
AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACCGGTTAATTACTTAATTGTTATTAGTA
TTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTT
Found at i:121335 original size:226 final size:226
Alignment explanation
Indices: 120941--121645 Score: 1092
Period size: 226 Copynumber: 3.1 Consensus size: 226
120931 AAAAAATATA
*
120941 GACGATAACATAACCAGTTAATTAC-TGTAAACATTATCAAACATAATAACATATTAGGTAGCGC
1 GACGATAACATAACCAGTTAATTACTTG-AAACATTATCAAGCATAATAACATATTAGGTAGCGC
* * * * *
121005 TTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGG-CTTTGAAAATCAGACGATAACA
65 TTATGTAACGTAATAGGTAGCGCATTATTAAAGCTGATGGGGCCTTAG-AAATCCGACGATAACA
* * * *
121069 AAATATGTTAATTAATTAAGTTGTTATTATTATTATCAACATATTAGGTAACGCCTAAAATGTTA
129 AAATAGGTTAATTAATTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAATGTTA
* *
121134 CCAAAGTTTAAGCTGATAGAGCCTTAGAAATTC
194 CCAAAGTTTAAGCTGATGGAGCCTTAGAAATCC
* *
121167 GACGATAACATAACCGGTTAATTACTTGAAACATTATCAAGCATGATAACATATTAGGTAGCGCT
1 GACGATAACATAACCAGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* *
121232 TATGTAATGTAATAGGTAGTGCATTATTAAAGCTGATGGGGCCTTAGAAATCCGACGATAACAAA
66 TATGTAACGTAATAGGTAGCGCATTATTAAAGCTGATGGGGCCTTAGAAATCCGACGATAACAAA
*
121297 ATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAATGTTACC
131 ATAGGTTAATTAATTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAATGTTACC
*
121362 AAAGTTTAAGCTGATGGAGCCTTAAAAATCC
196 AAAGTTTAAGCTGATGGAGCCTTAGAAATCC
* * *
121393 GACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGTT
1 GACGATAACATAACCAGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * *
121458 TATGTAACGTAATAGGCAGCGCATTATTCAAGCTGATGGGGCATTAGAAATCCGACGATAATAAA
66 TATGTAACGTAATAGGTAGCGCATTATTAAAGCTGATGGGGCCTTAGAAATCCGACGATAACAAA
* *
121523 ATAGGTTAATTAATTAATTTGTTATCAGTATTATCAACATATTAGGTAACACCTAAAATGTTAAC
131 ATAGGTTAATTAATTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAATGTTACC
*
121588 AAAATTTAAGCTGATGGAGCCTTAGAAATCC
196 AAAGTTTAAGCTGATGGAGCCTTAGAAATCC
* *
121619 GACAATAACATAA-CAGGTTGATTACTT
1 GACGATAACATAACCA-GTTAATTACTT
121646 TATTTGTTAT
Statistics
Matches: 439, Mismatches: 37, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
225 2 0.00
226 431 0.98
227 6 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (226 bp):
GACGATAACATAACCAGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
TATGTAACGTAATAGGTAGCGCATTATTAAAGCTGATGGGGCCTTAGAAATCCGACGATAACAAA
ATAGGTTAATTAATTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAATGTTACC
AAAGTTTAAGCTGATGGAGCCTTAGAAATCC
Found at i:121959 original size:272 final size:271
Alignment explanation
Indices: 121583--122129 Score: 695
Period size: 272 Copynumber: 2.0 Consensus size: 271
121573 ACCTAAAATG
* * *
121583 TTAACAAAATTTAAGCTGATGGAGCCTTAGAAATCCGACAATAACATAACAGGTTGATTACTTTA
1 TTAACAAAATTAAAGCTGATGGAGCCTTAGAAATCCGACAATAACATAACAGGTTAATTACTTGA
* *
121648 TTTGTTATCAAGCTTTATCAACATATTACCATGTACATTGTTTACGCATATTATCATGATACCGA
66 TTTGTTATCAAGCTTTATCAACATATTACCATGTACATTGTTTACGCATATTATAATGATACCAA
* * * * * *
121713 TTTACTTTAACCATTTTTATTGGAAATTAATCTATTACTTTAAAGTAATAGGTTTCGAAATTATA
131 ATGACTTTAACCATTTTCATTGGAAATTAACCTATTACTTAAAAGCAATAGGTTTCGAAATTATA
* * * *
121778 AGTATG-AATATATATGTTTGTTTGTATGTGTATGTGTCGATACATTTTACGTGCAGATTGTTTG
196 AGTATGTAA-A-ATATG--TATATGTATGTGTATGTATCGATACATTTTACGTGCAGATTCTTTG
121842 AGCCTTTAAGTGGAA
257 AGCCTTTAAGTGGAA
* * * * *
121857 TTAACAAAGTTAAAGTTGATGGAGCCTTAG-AA-CTGACGATAACATAACCGGTTAATTACTTGA
1 TTAACAAAATTAAAGCTGATGGAGCCTTAGAAATCCGACAATAACATAACAGGTTAATTACTTGA
* * * * * *
121920 TTTGTTATCAAGTTTTATCAATATGTTACCGTGTACATTGTTTACTCATATTATAATGATATCAA
66 TTTGTTATCAAGCTTTATCAACATATTACCATGTACATTGTTTACGCATATTATAATGATACCAA
** ** * *
121985 ATGACTTTAACTGTTTTCATTGTCAATTAACCTATTACTTAAAAGCATTAGGTTTCGGAATTATA
131 ATGACTTTAACCATTTTCATTGGAAATTAACCTATTACTTAAAAGCAATAGGTTTCGAAATTATA
* * * *
122050 AGTATGTAAAATATGTATATGTGTGTGTGTGTATCGATACATTTTACGTGCAGATTCTTTGATCT
196 AGTATGTAAAATATGTATATGTATGTGTATGTATCGATACATTTTACGTGCAGATTCTTTGAGCC
* *
122115 TTTATGTGTAA
261 TTTAAGTGGAA
122126 TTAA
1 TTAA
122130 AGTATCGAGA
Statistics
Matches: 234, Mismatches: 38, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
269 55 0.24
271 5 0.02
272 143 0.61
273 4 0.02
274 27 0.12
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (271 bp):
TTAACAAAATTAAAGCTGATGGAGCCTTAGAAATCCGACAATAACATAACAGGTTAATTACTTGA
TTTGTTATCAAGCTTTATCAACATATTACCATGTACATTGTTTACGCATATTATAATGATACCAA
ATGACTTTAACCATTTTCATTGGAAATTAACCTATTACTTAAAAGCAATAGGTTTCGAAATTATA
AGTATGTAAAATATGTATATGTATGTGTATGTATCGATACATTTTACGTGCAGATTCTTTGAGCC
TTTAAGTGGAA
Found at i:124553 original size:304 final size:305
Alignment explanation
Indices: 123963--124569 Score: 763
Period size: 304 Copynumber: 2.0 Consensus size: 305
123953 ACTCTTACTG
* * * * * * **
123963 AAGTGTCGATATTTTTGTGTAAGGTATCGATACTTTCGAGACGTTTTGTTTTTGTGTTAATTGGT
1 AAGTGTCGATACTTTTGTGTAAGGCATCGATACTTTCAAGACGTTTCGTTTTTGTATAAACCGGT
* * * * * *
124028 ATCTTCTTACCTATTTTGTCATATTGAAACTGGTTTTGTTAATTTTCAACTTTTTATATTGTCAT
66 AGCTTCTTACCGATTTTGTCATATTGAAACTGGTTTTATCAATTTTCAACATGTTATATTGTCAT
* ** * * * * *
124093 GTATCGATACATTTGTTTTAGGTATCGATACTTTCTACGTGCATTTAGTTTGGGAAGCATATTGG
131 GTATCGATACATGTGTCATAGGTATCGATACGTTCTACATGCATCTAGTTTGGGAAGCATATAGA
* * * * *
124158 ACAAAAAGTTTTGATACATATACAAAAAGTATCGATATTTTATGTAAACATATTTTGTCATTAAA
196 AAAAAAAGTATCGATACACATACAAAAAGTATCGATACTTTATGTAAACATATTTTGTCATTAAA
* ** *
124223 TCGGTATTTTTTGTACAGCCTACATTGTAAATTTACCTATTACAT
261 CCAATATATTTTGTACAGCCTACATTGTAAATTTACCTATTACAT
*
124268 AAGTGTCGATACTTTTGTGTAAGGCATCGATACTTTCAAGATGTTTCGTTTTT-TATAAACCGGT
1 AAGTGTCGATACTTTTGTGTAAGGCATCGATACTTTCAAGACGTTTCGTTTTTGTATAAACCGGT
* * * *
124332 AGC-TCTTTACCGGTTTTGTCATATTGAAATTGGTTTTATCAATTTTGAACATGTTATATTTTCA
66 AGCTTC-TTACCGATTTTGTCATATTGAAACTGGTTTTATCAATTTTCAACATGTTATATTGTCA
* *
124396 TGTATCGATACATGTGTCATAGGTATCGATACGTTCTGCATGCATCTAGTTTGGGAAGTATACTA
130 TGTATCGATACATGTGTCATAGGTATCGATACGTTCTACATGCATCTAGTTTGGGAAGCATA-TA
* *
124461 GAAAAAAAAGTATCGATACACATTA-AAAAAGTATCGATACTTTATGTTAACGTATTTTGTCATT
194 GAAAAAAAAGTATCGATACACA-TACAAAAAGTATCGATACTTTATGTAAACATATTTTGTCATT
* ** *
124525 AAACCAATATATTTTG-ACCGGTTACATTGTAATTTTACCTATTAC
258 AAACCAATATATTTTGTACAGCCTACATTGTAAATTTACCTATTAC
124570 TTTAAAGTAA
Statistics
Matches: 255, Mismatches: 44, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
303 2 0.01
304 137 0.54
305 114 0.45
306 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (305 bp):
AAGTGTCGATACTTTTGTGTAAGGCATCGATACTTTCAAGACGTTTCGTTTTTGTATAAACCGGT
AGCTTCTTACCGATTTTGTCATATTGAAACTGGTTTTATCAATTTTCAACATGTTATATTGTCAT
GTATCGATACATGTGTCATAGGTATCGATACGTTCTACATGCATCTAGTTTGGGAAGCATATAGA
AAAAAAAGTATCGATACACATACAAAAAGTATCGATACTTTATGTAAACATATTTTGTCATTAAA
CCAATATATTTTGTACAGCCTACATTGTAAATTTACCTATTACAT
Found at i:125333 original size:30 final size:30
Alignment explanation
Indices: 125299--125364 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
125289 GGAGCCGAAA
125299 TTGAAATTCAAACTC-AAGTTAAAATTGAAT
1 TTGAAATTCAAACTCTAA-TTAAAATTGAAT
*
125329 TTGAAATTCAAACTCTAATTAAAATTTAAT
1 TTGAAATTCAAACTCTAATTAAAATTGAAT
125359 TTGAAA
1 TTGAAA
125365 ATGAAATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 32 0.94
31 2 0.06
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (30 bp):
TTGAAATTCAAACTCTAATTAAAATTGAAT
Found at i:125335 original size:36 final size:34
Alignment explanation
Indices: 125295--125375 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 34
125285 TAGTGGAGCC
125295 GAAATTGAAATTCAAACTC-AAGTTAAAATTGAAT
1 GAAATTGAAATTCAAACTCTAA-TTAAAATTGAAT
*
125329 ----TTGAAATTCAAACTCTAATTAAAATTTAATTT
1 GAAATTGAAATTCAAACTCTAATTAAAATTGAA--T
*
125361 GAAAATGAAATTCAA
1 GAAATTGAAATTCAA
125376 TATGAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
30 25 0.66
31 2 0.05
32 1 0.03
36 10 0.26
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (34 bp):
GAAATTGAAATTCAAACTCTAATTAAAATTGAAT
Found at i:125389 original size:18 final size:18
Alignment explanation
Indices: 125345--125389 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
125335 TTCAAACTCT
* *
125345 AATTAAAATTTAATTTGA
1 AATTAAAATTCAATATGA
* *
125363 AAATGAAATTCAATATGA
1 AATTAAAATTCAATATGA
125381 AATTAAAAT
1 AATTAAAAT
125390 GAAAACTGCA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (18 bp):
AATTAAAATTCAATATGA
Found at i:126137 original size:12 final size:12
Alignment explanation
Indices: 126122--126172 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
126112 CTACCTTATC
*
126122 TTCTTCCTTCTA
1 TTCTTCATTCTA
*
126134 TTCTTCATTCTT
1 TTCTTCATTCTA
* *
126146 TTGTTCATTCTC
1 TTCTTCATTCTA
*
126158 TTCTTCATCCTA
1 TTCTTCATTCTA
126170 TTC
1 TTC
126173 CTCCTCTTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.10, C:0.29, G:0.02, T:0.59
Consensus pattern (12 bp):
TTCTTCATTCTA
Found at i:127859 original size:19 final size:19
Alignment explanation
Indices: 127831--127869 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
127821 CATTTATATA
*
127831 ACCTACAATATCATTTTCT
1 ACCTACAATATCACTTTCT
*
127850 ACCTATAATATCACTTTCT
1 ACCTACAATATCACTTTCT
127869 A
1 A
127870 ACACTAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (19 bp):
ACCTACAATATCACTTTCT
Found at i:137116 original size:24 final size:24
Alignment explanation
Indices: 137089--137167 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 24
137079 ACCATGTTCG
137089 GTATCGATACTACTATACATAGTA
1 GTATCGATACTACTATACATAGTA
* **
137113 GTATCGATACTCCT-T--GGA-TA
1 GTATCGATACTACTATACATAGTA
137133 GTATCGATACTACTATACATAGTA
1 GTATCGATACTACTATACATAGTA
*
137157 GTATCAATACT
1 GTATCGATACT
137168 CCTTGAAGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 15 0.34
21 2 0.05
23 2 0.05
24 25 0.57
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (24 bp):
GTATCGATACTACTATACATAGTA
Found at i:137143 original size:44 final size:44
Alignment explanation
Indices: 137089--137186 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 44
137079 ACCATGTTCG
* * *
137089 GTATCGATACTACTATACATAGTAGTATCGATACTCCTTGGATA
1 GTATCGATACTACTATACATAGTAGTATCAATACTCCTTGAAGA
*
137133 GTATCGATACTACTATACATAGTAGTATCAATACTCCTTGAAGG
1 GTATCGATACTACTATACATAGTAGTATCAATACTCCTTGAAGA
137177 GTATCGATAC
1 GTATCGATAC
137187 CATTGGGTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (44 bp):
GTATCGATACTACTATACATAGTAGTATCAATACTCCTTGAAGA
Found at i:138487 original size:124 final size:123
Alignment explanation
Indices: 138262--138517 Score: 316
Period size: 124 Copynumber: 2.1 Consensus size: 123
138252 TCTTTTAAAA
* * * **
138262 GTATCGATAATATGATACATATACTTATTAAAGTATTGATACCTTTAACATATTCGATAGCACTT
1 GTATCGATAATATGATACATACACTTATAAAACTATCAATACCTTTAACATATTCGATAGCACTT
* ** * *
138327 TACCGGTTTTGTCATATTGAAACCGGTTTTGCCATATTTTAACCTGTTATATTGTCAT
66 TACCGGATTTGTCATATTGAAACCAATTTTGCCATATTTTAACATGTTATATTATCAT
* * * *
138385 GTATCGATAATATGATACATGCACTTATAAAAACTATCAATA-TTTTCAACATATTCGGTAGCTC
1 GTATCGATAATATGATACATACACTTAT-AAAACTATCAATACCTTT-AACATATTCGATAGCAC
* ** * *
138449 TTTACTGGATTTGTCATATTGAAACCAATTTTTTCATATTTTAACATGTTATGTTATTAT
64 TTTACCGGATTTGTCATATTGAAACCAATTTTGCCATATTTTAACATGTTATATTATCAT
138509 GTATCGATA
1 GTATCGATA
138518 CATGTTTATA
Statistics
Matches: 112, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
123 29 0.26
124 83 0.74
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (123 bp):
GTATCGATAATATGATACATACACTTATAAAACTATCAATACCTTTAACATATTCGATAGCACTT
TACCGGATTTGTCATATTGAAACCAATTTTGCCATATTTTAACATGTTATATTATCAT
Found at i:145499 original size:16 final size:17
Alignment explanation
Indices: 145468--145502 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
145458 CGTACCGCCG
145468 ACAAAATTTCACTATTC
1 ACAAAATTTCACTATTC
145485 ACAAAATTT-ACTATTC
1 ACAAAATTTCACTATTC
145501 AC
1 AC
145503 GTGAATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:147293 original size:23 final size:23
Alignment explanation
Indices: 147267--147319 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
147257 ATTATTGTGG
*
147267 GTGGAAGAAGGAAACATAGAATA
1 GTGGAAGAAGAAAACATAGAATA
* * * *
147290 GTGGAAAAATAAAACATGGAATG
1 GTGGAAGAAGAAAACATAGAATA
147313 GTGGAAG
1 GTGGAAG
147320 GTTTAGTGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.32, T:0.15
Consensus pattern (23 bp):
GTGGAAGAAGAAAACATAGAATA
Found at i:147360 original size:3 final size:3
Alignment explanation
Indices: 147352--147439 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
147342 GTGGGTAAGG
147352 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
147400 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
147440 TTTTTAGAAC
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 82 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:147966 original size:129 final size:130
Alignment explanation
Indices: 147693--148241 Score: 714
Period size: 129 Copynumber: 4.3 Consensus size: 130
147683 AAGAGTTCTA
* ** * * * *
147693 GTCGGGTGATGACACTGTTCCTACGCCATGAGGACGGCA-GTCCATCTAAGGATGATAACACGAT
1 GTCGGGTGATGACACGGTTCCTACGTGATGAGGAAGGCATGACCATCTAAGGGTGATAACACGGT
* * * *
147757 TCATACGCGATGATGACGGCTGGTTATCT-GGGTTGACACGGCTCCTACGTGATGAGGAGATCAG
66 TCCTACGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTCCTACGTGATGAGGAGATCAG
* *
147821 GTCGGGTGATGACACGGTTCCTACGTGATGAGGAAGGCATG-CCATCTAAGGCTGATAACATGGT
1 GTCGGGTGATGACACGGTTCCTACGTGATGAGGAAGGCATGACCATCTAAGGGTGATAACACGGT
* * * * * * * *
147885 TTCTACGTGGTGAGGAAGGCCGGTTATCTGGGGTTTATATGGCTCCTATGTGATAAGGAGATCAG
66 TCCTACGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTCCTACGTGATGAGGAGATCAG
* ** *
147950 GTCGGGTGATGACACGGTTCCTACGTGATAAGGAAAACAT-ACCATATAAGGGTGATAACACGGT
1 GTCGGGTGATGACACGGTTCCTACGTGATGAGGAAGGCATGACCATCTAAGGGTGATAACACGGT
* * * * * * *
148014 TCCTACGTGATGAGGACGACTGGTTATCTAGGGTTGACACGACTCGTACATGATGAGAAGATCAG
66 TCCTACGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTCCTACGTGATGAGGAGATCAG
* * *
148079 GTCGAGTGATGACACGGCTCCTACGTGATGAGGACA-G-AAGACCATCTAAGGGTGATAACACGG
1 GTCGGGTGATGACACGGTTCCTACGTGATGAGGA-AGGCATGACCATCTAAGGGTGATAACACGG
* *
148142 TTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTCCTATGTGATGAGGAGATCA
65 TTCCTACGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTCCTACGTGATGAGGAGATCA
148207 G
130 G
148208 GTCGGGTGATGACACGGTTCCTACGTGATGAGGA
1 GTCGGGTGATGACACGGTTCCTACGTGATGAGGA
148242 GATCAGGTCG
Statistics
Matches: 359, Mismatches: 57, Indels: 9
0.84 0.13 0.02
Matches are distributed among these distances:
128 78 0.22
129 280 0.78
130 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (130 bp):
GTCGGGTGATGACACGGTTCCTACGTGATGAGGAAGGCATGACCATCTAAGGGTGATAACACGGT
TCCTACGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTCCTACGTGATGAGGAGATCAG
Found at i:148245 original size:298 final size:298
Alignment explanation
Indices: 147928--148539 Score: 940
Period size: 298 Copynumber: 2.1 Consensus size: 298
147918 TTTATATGGC
* *
147928 TCCTATGTGATAAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATAAGGAAAACATACC
1 TCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATAAGGAAAACATACC
*
147993 ATATAAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAGGGTTGACAC-GAC
66 ATATAAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGCTATCTAGGGTTGACACAG-C
* * *
148057 TCGTACATGATGAGAAGATCAGGTC-GAGTGATGACACGGCTCCTACGTGATGAGGACAGAAGAC
130 TCCTACATGATGAGAAGATCAGGTCAG-GTGATAACACGGCTCCTACATGATGAGGACAGAAGAC
* *
148121 CATCTAAGGGTGATAACACGGTTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGC
194 CATCTAAGGATGATAACACGATTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGC
* *
148186 TCCTATGTGATGAGGAGATCAGGTCGGGTGATGACACGGT
259 TCCTACGTGATGAGAAGATCAGGTCGGGTGATGACACGGT
* *
148226 TCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACAACATACC
1 TCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATAAGGAAAACATACC
* **
148291 ATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGTTGGCTATCTAGGGTTGACACAGCT
66 ATATAAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGCTATCTAGGGTTGACACAGCT
** * * * * * * *
148356 CCTATTTGATGAGGATATCATGTCAGGTGATAACACGGTTCCTACATGATGAGGACGGTAGGCCA
131 CCTACATGATGAGAAGATCAGGTCAGGTGATAACACGGCTCCTACATGATGAGGACAGAAGACCA
* *
148421 TCTAAGGATGATAACACGATTCCTACGTGATGAGGATGGCTGGTTATCTGGGGTTGACACGGCTC
196 TCTAAGGATGATAACACGATTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTC
*
148486 CTACGTGATTAGAAGATCAGGTCGGGTGATGACACGGT
261 CTACGTGATGAGAAGATCAGGTCGGGTGATGACACGGT
*
148524 TCCTACGTAATGAGGA
1 TCCTACGTGATGAGGA
148540 CAGAAGACCA
Statistics
Matches: 284, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
298 282 0.99
299 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (298 bp):
TCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATAAGGAAAACATACC
ATATAAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGCTATCTAGGGTTGACACAGCT
CCTACATGATGAGAAGATCAGGTCAGGTGATAACACGGCTCCTACATGATGAGGACAGAAGACCA
TCTAAGGATGATAACACGATTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTC
CTACGTGATGAGAAGATCAGGTCGGGTGATGACACGGT
Found at i:148350 original size:129 final size:129
Alignment explanation
Indices: 148217--148766 Score: 753
Period size: 129 Copynumber: 4.3 Consensus size: 129
148207 GGTCGGGTGA
*
148217 TGACACGGTTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
* * * * *
148282 CAACATACCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGTTGGCTATCTAGGGT
66 CAATAGACCATCTAAGGGTGATAACACGATTCCTACGTGATGAGGACGGCTGGTTATCTAGGGT
* ** * * * * *
148346 TGACACAGCTCCTATTTGATGAGGATATCATGTCAGGTGATAACACGGTTCCTACATGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
** * * * *
148411 CGGTAGGCCATCTAAGGATGATAACACGATTCCTACGTGATGAGGATGGCTGGTTATCTGGGGT
66 CAATAGACCATCTAAGGGTGATAACACGATTCCTACGTGATGAGGACGGCTGGTTATCTAGGGT
* * *
148475 TGACACGGCTCCTACGTGATTAGAAGATCAGGTCGGGTGATGACACGGTTCCTACGTAATGAGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
* * * * *
148540 CAGA-AGACCATCTAAGGGTAATAATACGGTTCCTACGTGATGAGGATGGCTGGTTATCTGGGGT
66 CA-ATAGACCATCTAAGGGTGATAACACGATTCCTACGTGATGAGGACGGCTGGTTATCTAGGGT
* *
148604 TGACACTGCTTCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
* ** * *
148669 CGATATG-CCATCTAAGGGTGATAACATAATTCCTACGTGATGAGGACGGTTGGTTATCTAGAGT
66 CAATA-GACCATCTAAGGGTGATAACACGATTCCTACGTGATGAGGACGGCTGGTTATCTAGGGT
148733 TGACACGGCTCCTACGTGATGAGGAGATCAGGTC
1 TGACACGGCTCCTACGTGATGAGGAGATCAGGTC
148767 AGGTTGGATA
Statistics
Matches: 363, Mismatches: 55, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
128 1 0.00
129 361 0.99
130 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (129 bp):
TGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
CAATAGACCATCTAAGGGTGATAACACGATTCCTACGTGATGAGGACGGCTGGTTATCTAGGGT
Found at i:148359 original size:258 final size:255
Alignment explanation
Indices: 147830--148628 Score: 678
Period size: 258 Copynumber: 3.1 Consensus size: 255
147820 GGTCGGGTGA
* * * * * *
147830 TGACACGGTTCCTACGTGATGAGGAAGGCATG-CCATCTAAGGCTGATAACATGGTTTCTACGTG
1 TGACACGGCTCCTACGTGATGAGGAA-G-AAGACCATCTAAGGGTGATAACACGGTTCCTAAGTG
* * * * * *
147894 GTGAGGAAGGCCGGTTATCTGGGGTTTATATGGCTCCTATGTGATAAGGAGATCAGGTCGGGTGA
64 ATGAGGAAGGCTGGTTATCTGGGGTTAACACGGCTCCTATGTGATGAGGAGATCAGGTCGGGTGA
* ** * *
147959 TGACACGGTTCCTACGTGATAAGGAAAACATACCATATAAGGGTGATAACACGGTTCCTACGTGA
129 TGACACGGTTCCTACGTGATAAGG---AGAT--CAGGT-CGGGTGATGACACGGTTCCTACGTGA
* *** * ** * * * * *
148024 TGAGGACGAC-TGGTTATCT-AGGGT-TGACACGACTCGTACATGATGA-GAAGATCAGG--TCG
188 TGAGGACAACAT-ACCATCTAAGGGTATAACACGGTTCCTACGTGATGAGGAAGGT-TGGTATCT
* *
148083 AGTGA
251 AGGGT
148088 TGACACGGCTCCTACGTGATGAGGACAGAAGACCATCTAAGGGTGATAACACGGTTCCTAAGTGA
1 TGACACGGCTCCTACGTGATGAGGA-AGAAGACCATCTAAGGGTGATAACACGGTTCCTAAGTGA
*
148153 TGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTCCTATGTGATGAGGAGATCAGGTCGGGTGAT
65 TGAGGAAGGCTGGTTATCTGGGGTTAACACGGCTCCTATGTGATGAGGAGATCAGGTCGGGTGAT
*
148218 GACACGGTTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGAC
130 GACACGGTTCCTACGTGATAAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGAC
*
148283 AACATACCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGTTGGCTATCTAGGGT
195 AACATACCATCTAAGGGT-ATAACACGGTTCCTACGTGATGAGGAAGGTTGG-TATCTAGGGT
* ** * * * *
148346 TGACACAGCTCCTATTTGATGA-G--G-ATATCATGTCA-GGTGATAACACGGTTCCTACA-TGA
1 TGACACGGCTCCTACGTGATGAGGAAGAAGACCATCTAAGGGTGATAACACGGTTCCTA-AGTGA
* ** * * ** * * *
148405 TGAGGACGG-TAGGCCATCTAAGGATGATAACACGATTCCTACGTGATGAGGATG-GCTGGTTAT
65 TGAGGAAGGCT-GGTTATCT--GG-GGTTAACACGGCTCCTATGTGATGAGGA-GATCAGG---T
* * * *
148468 CTGGG-GTTGACACGGCTCCTACGTGATTAGAAGATCAGGTCGGGTGATGACACGGTTCCTACGT
122 C-GGGTGATGACACGGTTCCTACGTGATAAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGT
* * * * *
148532 AATGAGGACAGA-AGACCATCTAAGGGTAATAATACGGTTCCTACGTGATGAGGATGGCTGGTTA
186 GATGAGGACA-ACATACCATCTAAGGGT-ATAACACGGTTCCTACGTGATGAGGAAGGTTGG-TA
*
148596 TCTGGGGT
248 TCTAGGGT
* *
148604 TGACACTGCTTCTACGTGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGA
148629 GATCAGGTCG
Statistics
Matches: 451, Mismatches: 67, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
251 1 0.00
252 73 0.16
253 17 0.04
254 3 0.01
255 47 0.10
256 5 0.01
257 3 0.01
258 296 0.66
259 6 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (255 bp):
TGACACGGCTCCTACGTGATGAGGAAGAAGACCATCTAAGGGTGATAACACGGTTCCTAAGTGAT
GAGGAAGGCTGGTTATCTGGGGTTAACACGGCTCCTATGTGATGAGGAGATCAGGTCGGGTGATG
ACACGGTTCCTACGTGATAAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACA
ACATACCATCTAAGGGTATAACACGGTTCCTACGTGATGAGGAAGGTTGGTATCTAGGGT
Found at i:148409 original size:169 final size:169
Alignment explanation
Indices: 148060--148410 Score: 542
Period size: 169 Copynumber: 2.1 Consensus size: 169
148050 ACACGACTCG
*
148060 TACATGATGAGAAGATCAGGTCGAGTGATGACACGGCTCCTACGTGATGAGGACAGAAGACCATC
1 TACATGATGAGGAGATCAGGTCGAGTGATGACACGGCTCCTACGTGATGAGGACAGAAGACCATC
* * *
148125 TAAGGGTGATAACACGGTTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTGACACGGCTCCT
66 TAAGGGTGATAACACGGTTCCTAAGTGATGAGGAAGGCTGGCTATCTAGGGTTGACACAGCTCCT
* *
148190 ATGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCC
131 ATGTGATGAGGAGATCAGGTCAGGTGATAACACGGTTCC
* * * *
148229 TACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACA-ACATACCAT
1 TACATGATGAGGAGATCAGGTCGAGTGATGACACGGCTCCTACGTGATGAGGACAGA-AGACCAT
* * *
148293 CTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGTTGGCTATCTAGGGTTGACACAGCTCC
65 CTAAGGGTGATAACACGGTTCCTAAGTGATGAGGAAGGCTGGCTATCTAGGGTTGACACAGCTCC
* * *
148358 TATTTGATGAGGATATCATGTCAGGTGATAACACGGTTCC
130 TATGTGATGAGGAGATCAGGTCAGGTGATAACACGGTTCC
148398 TACATGATGAGGA
1 TACATGATGAGGA
148411 CGGTAGGCCA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
168 1 0.01
169 163 0.99
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (169 bp):
TACATGATGAGGAGATCAGGTCGAGTGATGACACGGCTCCTACGTGATGAGGACAGAAGACCATC
TAAGGGTGATAACACGGTTCCTAAGTGATGAGGAAGGCTGGCTATCTAGGGTTGACACAGCTCCT
ATGTGATGAGGAGATCAGGTCAGGTGATAACACGGTTCC
Found at i:148492 original size:43 final size:43
Alignment explanation
Indices: 148441--148668 Score: 118
Period size: 40 Copynumber: 5.4 Consensus size: 43
148431 ATAACACGAT
*
148441 TCCTACGTGATGAGGATGGCTGGTTATCTGGGGTTGACACGGC
1 TCCTACGTGATGAGGATGGCAGGTTATCTGGGGTTGACACGGC
* * *
148484 TCCTACGTGATTAGAAGAT--CAGG---TC-GGGTGATGACACGGT
1 TCCTACGTGA-T-GAGGATGGCAGGTTATCTGGG-GTTGACACGGC
* ** * *** * * * *
148524 TCCTACGTAATGAGGACAGAAGACCATCTAAGGGTAATAATACGGT
1 TCCTACGTGATGAGGATGGCAGGTTATCT-GGGGT--TGACACGGC
* *
148570 TCCTACGTGATGAGGATGGCTGGTTATCTGGGGTTGACACTGC
1 TCCTACGTGATGAGGATGGCAGGTTATCTGGGGTTGACACGGC
* * * *
148613 TTCTACGTGATGAGGA-GATCAGG---TC-GGGTGATGACACGGT
1 TCCTACGTGATGAGGATG-GCAGGTTATCTGGG-GTTGACACGGC
148653 TCCTACGTGATGAGGA
1 TCCTACGTGATGAGGA
148669 CGATATGCCA
Statistics
Matches: 138, Mismatches: 33, Indels: 31
0.68 0.16 0.15
Matches are distributed among these distances:
38 4 0.03
39 7 0.05
40 47 0.34
42 1 0.01
43 38 0.28
44 2 0.01
45 11 0.08
46 28 0.20
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.26
Consensus pattern (43 bp):
TCCTACGTGATGAGGATGGCAGGTTATCTGGGGTTGACACGGC
Found at i:148585 original size:427 final size:427
Alignment explanation
Indices: 147790--148668 Score: 1292
Period size: 427 Copynumber: 2.1 Consensus size: 427
147780 TTATCTGGGT
*
147790 TGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
1 TGACACGGTTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
* * * * * * *
147855 AGGCATGCCATCTAAGGCTGATAACATGGTTTCTACGTGGTGAGGAAGGCCGGTTATCTGGGGTT
66 AGACATACCATCTAAGGCTGATAACACGGTTCCTACGTGATGAGGAAGGCCGGCTATCTAGGGTT
* * ** * * *
147920 TATATGGCTCCTATGTGATAAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATAAGGAA
131 GACACAGCTCCTATGTGATAAGGAGATCAGGTCAGGTGATAACACGGTTCCTACATGATAAGGAA
* * *
147985 AACATACCATATAAGGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAGGGTTG
196 AACAGACCATATAAGGATGATAACACGATTCCTACGTGATGAGGACGACTGGTTATCTAGGGTTG
* *
148050 ACACGACTCGTACATGATGAGAAGATCAGGTCGAGTGATGACACGGCTCCTACGTGATGAGGACA
261 ACACGACTCCTACATGATGAGAAGATCAGGTCGAGTGATGACACGGCTCCTACGTAATGAGGACA
*
148115 GAAGACCATCTAAGGGTGATAACACGGTTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTGA
326 GAAGACCATCTAAGGGTAATAACACGGTTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTGA
*
148180 CACGGCTCCTATGTGATGAGGAGATCAGGTCGGGTGA
391 CACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGA
148217 TGACACGGTTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
1 TGACACGGTTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
* * **
148282 CA-ACATACCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGTTGGCTATCTAGGGT
66 -AGACATACCATCTAAGGCTGATAACACGGTTCCTACGTGATGAGGAAGGCCGGCTATCTAGGGT
* * * * *
148346 TGACACAGCTCCTATTTGATGAGGATATCATGTCAGGTGATAACACGGTTCCTACATGATGAGGA
130 TGACACAGCTCCTATGTGATAAGGAGATCAGGTCAGGTGATAACACGGTTCCTACATGATAAGGA
**** * * * * *
148411 CGGTAGGCCATCTAAGGATGATAACACGATTCCTACGTGATGAGGATGGCTGGTTATCTGGGGTT
195 AAACAGACCATATAAGGATGATAACACGATTCCTACGTGATGAGGACGACTGGTTATCTAGGGTT
* * * * *
148476 GACACGGCTCCTACGTGATTAGAAGATCAGGTCGGGTGATGACACGGTTCCTACGTAATGAGGAC
260 GACACGACTCCTACATGATGAGAAGATCAGGTCGAGTGATGACACGGCTCCTACGTAATGAGGAC
* * *
148541 AGAAGACCATCTAAGGGTAATAATACGGTTCCTACGTGATGAGGATGGCTGGTTATCTGGGGTTG
325 AGAAGACCATCTAAGGGTAATAACACGGTTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTG
* *
148606 ACACTGCTTCTACGTGATGAGGAGATCAGGTCGGGTGA
390 ACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGA
148644 TGACACGGTTCCTACGTGATGAGGA
1 TGACACGGTTCCTACGTGATGAGGA
148669 CGATATGCCA
Statistics
Matches: 401, Mismatches: 50, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
427 400 1.00
428 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (427 bp):
TGACACGGTTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
AGACATACCATCTAAGGCTGATAACACGGTTCCTACGTGATGAGGAAGGCCGGCTATCTAGGGTT
GACACAGCTCCTATGTGATAAGGAGATCAGGTCAGGTGATAACACGGTTCCTACATGATAAGGAA
AACAGACCATATAAGGATGATAACACGATTCCTACGTGATGAGGACGACTGGTTATCTAGGGTTG
ACACGACTCCTACATGATGAGAAGATCAGGTCGAGTGATGACACGGCTCCTACGTAATGAGGACA
GAAGACCATCTAAGGGTAATAACACGGTTCCTAAGTGATGAGGAAGGCTGGTTATCTGGGGTTGA
CACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGA
Found at i:148918 original size:34 final size:33
Alignment explanation
Indices: 148877--148987 Score: 93
Period size: 34 Copynumber: 3.3 Consensus size: 33
148867 CTCATTCTTT
*
148877 GTGAAGTTGAGCTTTAAATTGGATATCCTTCGTC
1 GTGAAGTTGAACTTTAAATTGGATAT-CTTCGTC
* ** * *
148911 GTGAAGTTGAAATTGTGGA-TGGCTCAT-TT-GTT
1 GTGAAGTTGAACTT-TAAATTGGAT-ATCTTCGTC
* *
148943 GTGAAGTTGATCTTTTAATTGGATATCATTCGTC
1 GTGAAGTTGAACTTTAAATTGGATATC-TTCGTC
148977 GTGAAGTTGAA
1 GTGAAGTTGAA
148988 ATCCAATCTT
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
31 4 0.07
32 18 0.31
33 4 0.07
34 28 0.48
35 4 0.07
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (33 bp):
GTGAAGTTGAACTTTAAATTGGATATCTTCGTC
Found at i:148938 original size:66 final size:66
Alignment explanation
Indices: 148832--148990 Score: 257
Period size: 66 Copynumber: 2.4 Consensus size: 66
148822 TTGTGGCCAC
*
148832 GATATCCTTCGTTGTGAAGTTGAAATCGTGGATGGCTCATTCT-TTGTGAAGTTGAGCTTTAAAT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATT-TGTTGTGAAGTTGAGCTTTAAAT
148896 TG
65 TG
* * *
148898 GATATCCTTCGTCGTGAAGTTGAAATTGTGGATGGCTCATTTGTTGTGAAGTTGATCTTTTAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTTGTTGTGAAGTTGAGCTTTAAATT
148963 G
66 G
*
148964 GATATCATTCGTCGTGAAGTTGAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
148991 CAATCTTTGG
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
65 1 0.01
66 85 0.99
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.40
Consensus pattern (66 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTTGTTGTGAAGTTGAGCTTTAAATT
G
Found at i:148952 original size:32 final size:32
Alignment explanation
Indices: 148842--148952 Score: 93
Period size: 32 Copynumber: 3.4 Consensus size: 32
148832 GATATCCTTC
*
148842 GTTGTGAAGTTGAAATCGTGGATGGCTCATTCT
1 GTTGTGAAGTTGAAATTGTGGATGGCTCATT-T
** ** *
148875 -TTGTGAAGTTGAGCTT-TAAATTGGAT-ATCCTT
1 GTTGTGAAGTTGAAATTGTGGA-TGGCTCAT--TT
*
148907 CGTCGTGAAGTTGAAATTGTGGATGGCTCATTT
1 -GTTGTGAAGTTGAAATTGTGGATGGCTCATTT
148940 GTTGTGAAGTTGA
1 GTTGTGAAGTTGA
148953 TCTTTTAATT
Statistics
Matches: 58, Mismatches: 13, Indels: 15
0.67 0.15 0.17
Matches are distributed among these distances:
31 4 0.07
32 30 0.52
33 3 0.05
34 17 0.29
35 4 0.07
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.39
Consensus pattern (32 bp):
GTTGTGAAGTTGAAATTGTGGATGGCTCATTT
Found at i:149098 original size:65 final size:64
Alignment explanation
Indices: 149023--149168 Score: 168
Period size: 64 Copynumber: 2.3 Consensus size: 64
149013 TATCCTTCGT
** * ** *
149023 TGTGAAGTTGAGCTTTGAATTGGAATGAAACTGGAAATTTATTTGTTGAGT-TCAATATCCCTCA
1 TGTGAAGTTGA-AATTGAATTGGAATAAAACTAAAAAGTTATTTGTTGAGTCT-AATATCCCTCA
149087 C
64 C
* * * *
149088 TGTGAAGTTGAAATTGACTTTGAATAAAACTAAAAAGTTGTTTGTTGAGTCTAATATCCTTCAC
1 TGTGAAGTTGAAATTGAATTGGAATAAAACTAAAAAGTTATTTGTTGAGTCTAATATCCCTCAC
*
149152 TGTGAAATTGAAATTGA
1 TGTGAAGTTGAAATTGA
149169 CTCTAAAAGT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
64 57 0.83
65 12 0.17
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (64 bp):
TGTGAAGTTGAAATTGAATTGGAATAAAACTAAAAAGTTATTTGTTGAGTCTAATATCCCTCAC
Found at i:150965 original size:21 final size:22
Alignment explanation
Indices: 150910--150966 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
150900 TTGTTCATTT
** *
150910 TTCTTTGTTTATTTTCTTTTTGC
1 TTCTTTGTTT-TTTGATTTATGC
150933 TTCTTT-TCTTTTTGATTTATG-
1 TTCTTTGT-TTTTTGATTTATGC
150954 TTCTTTGTTTTTT
1 TTCTTTGTTTTTT
150967 TTCTTCTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 11 0.38
22 10 0.34
23 8 0.28
ACGTcount: A:0.05, C:0.11, G:0.09, T:0.75
Consensus pattern (22 bp):
TTCTTTGTTTTTTGATTTATGC
Found at i:154366 original size:9 final size:9
Alignment explanation
Indices: 154352--154378 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
154342 AAATTAAAAG
154352 ACTAAAACA
1 ACTAAAACA
154361 ACTAAAACA
1 ACTAAAACA
154370 ACTAAAACA
1 ACTAAAACA
154379 TAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (9 bp):
ACTAAAACA
Found at i:154466 original size:29 final size:28
Alignment explanation
Indices: 154402--154466 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
154392 CATAAATAGC
* *
154402 AAAAATAGAAACTTAAGTGACTAAAATA
1 AAAAACAGAAACTAAAGTGACTAAAATA
*
154430 AAATAACAGAAACTAAAGTGTC-AAAATCA
1 AAA-AACAGAAACTAAAGTGACTAAAAT-A
154459 GAAAAACA
1 -AAAAACA
154467 CAGAGATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 8 0.26
29 20 0.65
30 3 0.10
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.17
Consensus pattern (28 bp):
AAAAACAGAAACTAAAGTGACTAAAATA
Found at i:154977 original size:146 final size:146
Alignment explanation
Indices: 154713--155002 Score: 377
Period size: 146 Copynumber: 2.0 Consensus size: 146
154703 TCGGCTCCGT
* * * *
154713 TCGTCGTAAAAAGGCCAAAATCTGCTTGGCTTAATTTTCTCTGATTCACCGTCGTCCACCGTCCG
1 TCGTCGTAAAAAGGCCAAAATCTGCTTGGATTAATTTTCTCTAATCCACCGCCGTCCACCGTCCG
* * *
154778 ATTATCCTGATTTTTCATTATGTTGTTCGCATTGGCCTTGCACAACTTTTCACCGTTCAGATCAT
66 ATCATCATGATTTTTCAGTATGTTGTTCGCATTGGCCTTGCACAACTTTTCACCGTTCAGATCAT
*
154843 TGATCAGAGTTCCCGA
131 TGATCAGAGATCCCGA
* * *
154859 TCGTCGTATAAAGGCCAAATAT-TG-TTCGGATTTATTTTCTCTAATCCGCCGCCGTCCACCGTC
1 TCGTCGTAAAAAGGCCAAA-ATCTGCTT-GGATTAATTTTCTCTAATCCACCGCCGTCCACCGTC
* * ** * * **
154922 CGATCGTCATGATTTTTTAGTATGTTGTTCGTGTTGGCGTTGCGCAACTTTTCACCGTTTGGATC
64 CGATCATCATGATTTTTCAGTATGTTGTTCGCATTGGCCTTGCACAACTTTTCACCGTTCAGATC
154987 ATTGATCAGAGATCCC
129 ATTGATCAGAGATCCC
155003 AAACGCCGGA
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
145 2 0.02
146 119 0.97
147 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (146 bp):
TCGTCGTAAAAAGGCCAAAATCTGCTTGGATTAATTTTCTCTAATCCACCGCCGTCCACCGTCCG
ATCATCATGATTTTTCAGTATGTTGTTCGCATTGGCCTTGCACAACTTTTCACCGTTCAGATCAT
TGATCAGAGATCCCGA
Found at i:155187 original size:23 final size:23
Alignment explanation
Indices: 155157--155210 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
155147 AATTGTTGTG
*
155157 GGTGGAAGAA-AGAAACATGGAAT
1 GGTGGAAGAATA-AAACATAGAAT
155180 GGTGGAAGAATAAAACATAGAAT
1 GGTGGAAGAATAAAACATAGAAT
*
155203 TGTGGAAG
1 GGTGGAAG
155211 GTTTAGTGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.33, T:0.17
Consensus pattern (23 bp):
GGTGGAAGAATAAAACATAGAAT
Found at i:155943 original size:4 final size:4
Alignment explanation
Indices: 155934--155958 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
155924 AATTTCTATG
155934 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
155959 GAAACCCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:168658 original size:38 final size:38
Alignment explanation
Indices: 168603--168679 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
168593 AGTTGTAAAC
168603 ATAACTCAATAACATCCTGTCCCACGACATTCCAATGT
1 ATAACTCAATAACATCCTGTCCCACGACATTCCAATGT
*
168641 ATAACTCAATAATATCCTGTCCCACGACATTCCAATGT
1 ATAACTCAATAACATCCTGTCCCACGACATTCCAATGT
168679 A
1 A
168680 CACGATAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.30, G:0.08, T:0.27
Consensus pattern (38 bp):
ATAACTCAATAACATCCTGTCCCACGACATTCCAATGT
Found at i:171049 original size:25 final size:25
Alignment explanation
Indices: 171021--171068 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
171011 TTGATAAATT
171021 ATTTTCGTACTTCTAAAATTTTATA
1 ATTTTCGTACTTCTAAAATTTTATA
** * *
171046 ATTTTTTTCCTTTTAAAATTTTA
1 ATTTTCGTACTTCTAAAATTTTA
171069 AAAATTCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTTCGTACTTCTAAAATTTTATA
Found at i:178464 original size:15 final size:15
Alignment explanation
Indices: 178441--178518 Score: 131
Period size: 15 Copynumber: 5.2 Consensus size: 15
178431 CGTAGGACTC
178441 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
178456 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
178471 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
178486 CTA-AGTCCCGAAGGA
1 CTACA-TCCCGAAGGA
178501 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
178516 CTA
1 CTA
178519 TTATACCCTC
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
14 1 0.02
15 57 0.97
16 1 0.02
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.14
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:178477 original size:30 final size:30
Alignment explanation
Indices: 178441--178518 Score: 147
Period size: 30 Copynumber: 2.6 Consensus size: 30
178431 CGTAGGACTC
*
178441 CTACATCCCGAAGGACTACGTCCCGAAGGA
1 CTACATCCCGAAGGACTAAGTCCCGAAGGA
178471 CTACATCCCGAAGGACTAAGTCCCGAAGGA
1 CTACATCCCGAAGGACTAAGTCCCGAAGGA
178501 CTACATCCCGAAGGACTA
1 CTACATCCCGAAGGACTA
178519 TTATACCCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.14
Consensus pattern (30 bp):
CTACATCCCGAAGGACTAAGTCCCGAAGGA
Found at i:178643 original size:29 final size:29
Alignment explanation
Indices: 178610--178680 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
178600 TGTTCATGCA
178610 CTCATGTCATTTCTCTTGTGATCATGTAG
1 CTCATGTCATTTCTCTTGTGATCATGTAG
178639 CTCATGTCATTTCTCTTGTGATCATGTAG
1 CTCATGTCATTTCTCTTGTGATCATGTAG
178668 CTCATGTCATTTC
1 CTCATGTCATTTC
178681 ACATCATGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (29 bp):
CTCATGTCATTTCTCTTGTGATCATGTAG
Found at i:178709 original size:12 final size:12
Alignment explanation
Indices: 178692--178737 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
178682 CATCATGTTC
*
178692 TCATATCACAGG
1 TCATATCACAGA
*
178704 TCATATCACATA
1 TCATATCACAGA
*
178716 TCATATCACATA
1 TCATATCACAGA
*
178728 GCATATCACA
1 TCATATCACA
178738 TGAACATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (12 bp):
TCATATCACAGA
Found at i:178719 original size:24 final size:24
Alignment explanation
Indices: 178692--178738 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
178682 CATCATGTTC
*
178692 TCATATCACA-GGTCATATCACATA
1 TCATATCACATAG-CATATCACATA
178716 TCATATCACATAGCATATCACAT
1 TCATATCACATAGCATATCACAT
178739 GAACATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (24 bp):
TCATATCACATAGCATATCACATA
Found at i:178738 original size:12 final size:12
Alignment explanation
Indices: 178705--178738 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
178695 TATCACAGGT
*
178705 CATATCACATAT
1 CATATCACATAG
178717 CATATCACATAG
1 CATATCACATAG
178729 CATATCACAT
1 CATATCACAT
178739 GAACATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.29
Consensus pattern (12 bp):
CATATCACATAG
Found at i:183201 original size:15 final size:15
Alignment explanation
Indices: 183178--183255 Score: 138
Period size: 15 Copynumber: 5.2 Consensus size: 15
183168 CGTAGGACTC
183178 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
183193 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
183208 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
183223 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
183238 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
183253 CTA
1 CTA
183256 TTATACCCTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 59 1.00
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.14
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:183214 original size:30 final size:30
Alignment explanation
Indices: 183178--183255 Score: 156
Period size: 30 Copynumber: 2.6 Consensus size: 30
183168 CGTAGGACTC
183178 CTACATCCCGAAGGACTACGTCCCGAAGGA
1 CTACATCCCGAAGGACTACGTCCCGAAGGA
183208 CTACATCCCGAAGGACTACGTCCCGAAGGA
1 CTACATCCCGAAGGACTACGTCCCGAAGGA
183238 CTACATCCCGAAGGACTA
1 CTACATCCCGAAGGACTA
183256 TTATACCCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.14
Consensus pattern (30 bp):
CTACATCCCGAAGGACTACGTCCCGAAGGA
Found at i:183380 original size:29 final size:29
Alignment explanation
Indices: 183347--183417 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
183337 TGTTCATGCA
183347 CTCATGTCATTTCTCTTGTGATCATGTAG
1 CTCATGTCATTTCTCTTGTGATCATGTAG
183376 CTCATGTCATTTCTCTTGTGATCATGTAG
1 CTCATGTCATTTCTCTTGTGATCATGTAG
183405 CTCATGTCATTTC
1 CTCATGTCATTTC
183418 ACATCATGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (29 bp):
CTCATGTCATTTCTCTTGTGATCATGTAG
Found at i:183446 original size:12 final size:12
Alignment explanation
Indices: 183429--183474 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
183419 CATCATGTTC
*
183429 TCATATCACAGG
1 TCATATCACAGA
*
183441 TCATATCACATA
1 TCATATCACAGA
*
183453 TCATATCACATA
1 TCATATCACAGA
*
183465 GCATATCACA
1 TCATATCACA
183475 TGAACATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (12 bp):
TCATATCACAGA
Found at i:183456 original size:24 final size:24
Alignment explanation
Indices: 183429--183475 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
183419 CATCATGTTC
*
183429 TCATATCACA-GGTCATATCACATA
1 TCATATCACATAG-CATATCACATA
183453 TCATATCACATAGCATATCACAT
1 TCATATCACATAGCATATCACAT
183476 GAACATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (24 bp):
TCATATCACATAGCATATCACATA
Found at i:183475 original size:12 final size:12
Alignment explanation
Indices: 183442--183475 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
183432 TATCACAGGT
*
183442 CATATCACATAT
1 CATATCACATAG
183454 CATATCACATAG
1 CATATCACATAG
183466 CATATCACAT
1 CATATCACAT
183476 GAACATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.29
Consensus pattern (12 bp):
CATATCACATAG
Found at i:184502 original size:12 final size:15
Alignment explanation
Indices: 184465--184505 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
184455 GAGATACGGG
184465 AGGAGAGGAAGAAGA
1 AGGAGAGGAAGAAGA
184480 AGGAGAGGAAGAAGA
1 AGGAGAGGAAGAAGA
*
184495 AGGAGAAGAAG
1 AGGAGAGGAAG
184506 TTCTGGAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (15 bp):
AGGAGAGGAAGAAGA
Found at i:193206 original size:24 final size:24
Alignment explanation
Indices: 193179--193240 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
193169 CGTTCGTGAA
*
193179 CGTTCGGTTATGTTCGTTTATATG
1 CGTTCAGTTATGTTCGTTTATATG
* *
193203 CGTTTAGTTATGTTCGTTTATGTG
1 CGTTCAGTTATGTTCGTTTATATG
*
193227 CGTTCATTTATGTT
1 CGTTCAGTTATGTT
193241 TAACCTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.13, C:0.11, G:0.23, T:0.53
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATATG
Found at i:194784 original size:16 final size:16
Alignment explanation
Indices: 194763--194845 Score: 116
Period size: 16 Copynumber: 5.3 Consensus size: 16
194753 TTTATATTCG
194763 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
194779 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
194795 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
** *
194811 TTTATGTTTTTGTTCG
1 TTTATGTTCGTGTTCA
194827 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
194841 TTTAT
1 TTTAT
194846 TAAATGAACG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 5 0.08
15 2 0.03
16 54 0.89
ACGTcount: A:0.11, C:0.10, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:196251 original size:59 final size:60
Alignment explanation
Indices: 196171--196300 Score: 165
Period size: 59 Copynumber: 2.2 Consensus size: 60
196161 ATTTTAAAAC
** * *
196171 ATTTAAATTTCATCCTTAAACTATGA-CTATCATTCTAAATTAGT-CCTAAACTTTTGAAT
1 ATTTAAATTTCATCCCCAAACTATGACCT-TCATTCTAAATTAATCCCAAAACTTTTGAAT
* *
196230 ATTTCAATTTCATCCCCAAACTATGACCTTCATTCTAAATTAATCCCCAAAATTTTTGAAT
1 ATTTAAATTTCATCCCCAAACTATGACCTTCATTCTAAATTAAT-CCCAAAACTTTTGAAT
*
196291 ATTTTAATTT
1 ATTTAAATTT
196301 TATCTCAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
59 37 0.61
60 2 0.03
61 22 0.36
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (60 bp):
ATTTAAATTTCATCCCCAAACTATGACCTTCATTCTAAATTAATCCCAAAACTTTTGAAT
Found at i:208269 original size:3 final size:3
Alignment explanation
Indices: 208254--208304 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
208244 ATTGTAAATT
*
208254 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
208300 A-A ATA
1 ATA ATA
208305 GAAAATACCC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:208773 original size:134 final size:134
Alignment explanation
Indices: 208492--208825 Score: 472
Period size: 134 Copynumber: 2.5 Consensus size: 134
208482 GTTCGGGTCG
* * * * * *
208492 TCTAAGGGTGACACGGTTCCTCCGTGATGAGGAAATCTGGTCGGGGGATGACACTGCTCATATGT
1 TCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGGATGACAC-GCTCATACGT
* * *
208557 GATAAAGAGTTATTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGACGGCT
65 GATAAAGAGTTACTGGCCATCCTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGACGACT
208622 GGTTA
130 GGTTA
* * *
208627 TCTATGGTTGACACGGCTCATACGTGATGAAGAGATCTGGTCGCGGGATGACACGACTCATACGT
1 TCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGGATGACACG-CTCATACGT
* * *
208692 GATGAAGAGTT-CTGGTCATCCTTAGGAAGGGTGATAACTCGGTTCCTACGTGATGAGGACGACT
65 GATAAAGAGTTACTGGCCATCCTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGACGACT
208756 GGTTA
130 GGTTA
* * *
208761 TCTAGGGGTGACAAGGCTCATACGTGATGAAGAGATTTGGTCGGGGGATGACACGGCTCATACGT
1 TCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGGATGACAC-GCTCATACGT
208826 TAGGGATAAT
Statistics
Matches: 177, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
134 112 0.63
135 65 0.37
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (134 bp):
TCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGGATGACACGCTCATACGTG
ATAAAGAGTTACTGGCCATCCTTAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGACGACTG
GTTA
Found at i:209089 original size:82 final size:81
Alignment explanation
Indices: 208944--209099 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 81
208934 ATAGAAACAA
* *
208944 ACTCAAAGATGATCTTGTTTTAAGAGAAAATGTCTCAAGAGACAAAATTCGTTTCAAGGGAAACG
1 ACTCAAAGAT-ATCTTGTTTTAAGAGAAAATGCCTCAAGAGACAAAATTCGTTTCAAGAGAAACG
209009 A-CTCAAAGATGGTTTT
65 ATCTCAAAGATGGTTTT
* * * *
209025 ACTCAAAGAT-T-TTGTATTTCAAGAGAAACTGCCTCAAGGGAGACAAAATTTGTTTGAATAGAA
1 ACTCAAAGATATCTTGT-TTT-AAGAGAAAATGCCTCAA--GAGACAAAATTCGTTTCAAGAGAA
209088 ACGATCTCAAAG
62 ACGATCTCAAAG
209100 GTGGGTATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
78 4 0.06
79 4 0.06
80 15 0.23
81 10 0.16
82 24 0.38
83 7 0.11
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (81 bp):
ACTCAAAGATATCTTGTTTTAAGAGAAAATGCCTCAAGAGACAAAATTCGTTTCAAGAGAAACGA
TCTCAAAGATGGTTTT
Found at i:209488 original size:64 final size:63
Alignment explanation
Indices: 209429--209566 Score: 179
Period size: 64 Copynumber: 2.2 Consensus size: 63
209419 CAAAGATGGT
* *
209429 AAATTTTGTTTCCAAAGAAATAGACTCAAAGATTTTCTTAAAAGAAACTGTCTCCAAAGAGACA
1 AAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTT-TCAAAAGAAACTGTCTCCAAAGAGACA
* * * * *
209493 AAATTTTGTTTCCAAGGAAACATACTCAATGATTTTTCAAAAGAAATTGTCT-TAAGAGAGACA
1 AAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTCAAAAGAAACTGTCTCCAA-AGAGACA
*
209556 AAACTTTGTTT
1 AAATTTTGTTT
209567 TTTCAGAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
62 2 0.03
63 31 0.48
64 32 0.49
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (63 bp):
AAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTCAAAAGAAACTGTCTCCAAAGAGACA
Found at i:209564 original size:63 final size:64
Alignment explanation
Indices: 209433--209566 Score: 173
Period size: 63 Copynumber: 2.1 Consensus size: 64
209423 GATGGTAAAT
* * *
209433 TTTGTTTCCAAAGAAATAGACTCAAAGATTTTCTTAAAAGAAACTGTCTCCAAAGAGACAAAAT
1 TTTGTTTCCAAAGAAACAGACTCAAAGATTTTCTCAAAAGAAACTGTCTCCAAAGAGACAAAAC
* * * * *
209497 TTTGTTTCCAAGGAAACATACTCAATGATTTT-TCAAAAGAAATTGTCT-TAAGAGAGACAAAAC
1 TTTGTTTCCAAAGAAACAGACTCAAAGATTTTCTCAAAAGAAACTGTCTCCAA-AGAGACAAAAC
209560 TTTGTTT
1 TTTGTTT
209567 TTTCAGAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
62 2 0.03
63 31 0.51
64 28 0.46
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (64 bp):
TTTGTTTCCAAAGAAACAGACTCAAAGATTTTCTCAAAAGAAACTGTCTCCAAAGAGACAAAAC
Found at i:209568 original size:39 final size:39
Alignment explanation
Indices: 209525--209605 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
209515 TACTCAATGA
*
209525 TTTTTCAAAAGAAATTGTCT-TAAGAGAGACAAAACTTTGT
1 TTTTTC-AAA-AAATTGTATCTAAGAGAGACAAAACTTTGT
* * *
209565 TTTTTCAGAAAATTGTATCTAAGTGAGACAAAATTTTGT
1 TTTTTCAAAAAATTGTATCTAAGAGAGACAAAACTTTGT
209604 TT
1 TT
209606 CCAAAGAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 8 0.22
39 22 0.61
40 6 0.17
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (39 bp):
TTTTTCAAAAAATTGTATCTAAGAGAGACAAAACTTTGT
Found at i:209614 original size:39 final size:38
Alignment explanation
Indices: 209527--209614 Score: 88
Period size: 39 Copynumber: 2.3 Consensus size: 38
209517 CTCAATGATT
*
209527 TTTCAAAAG-AAATTGTCTTAAGAGAGACAAAACTTTG
1 TTTCAAAAGAAAATTGTATTAAGAGAGACAAAACTTTG
**** * *
209564 TTTTTTCAGAAAATTGTATCTAAGTGAGACAAAATTTTG
1 TTTCAAAAGAAAATTGTAT-TAAGAGAGACAAAACTTTG
*
209603 TTTCCAAAGAAA
1 TTTCAAAAGAAA
209615 CAAATTCAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
37 5 0.13
38 8 0.21
39 25 0.66
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (38 bp):
TTTCAAAAGAAAATTGTATTAAGAGAGACAAAACTTTG
Found at i:209678 original size:103 final size:102
Alignment explanation
Indices: 209487--209678 Score: 269
Period size: 103 Copynumber: 1.9 Consensus size: 102
209477 TGTCTCCAAA
* * * * *
209487 GAGACAAAATTTTGTTTCCAAGGAAACATACTCAATGATTTTTCAAAAGAAATTGTCTTAAGAGA
1 GAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCAAAAGAAATTGTCTCAAAAGA
* **
209552 GACAAAACTTTGTTTTTTCAGAAAATTGTATCTAAGT
66 GACAAAACTTTGTTATTAAAGAAAATTGTATCTAAGT
*
209589 GAGACAAAATTTTGTTTCCAAAGAAACAAATTCAAAGATTCTTTCAAAAGAAACTT-TCTCAAAA
1 GAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATT-TTTCAAAAGAAA-TTGTCTCAAAA
*
209653 GAGACAAAATTTTGTTATTAAAGAAA
64 GAGACAAAACTTTGTTATTAAAGAAA
209679 CATACTCAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
102 36 0.46
103 40 0.51
104 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (102 bp):
GAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCAAAAGAAATTGTCTCAAAAGA
GACAAAACTTTGTTATTAAAGAAAATTGTATCTAAGT
Found at i:209714 original size:35 final size:35
Alignment explanation
Indices: 209661--209730 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
209651 AAGAGACAAA
*
209661 ATTTTGTTATTAAAGAAACATACTCAAAGATTTTT
1 ATTTTGTTATTAAAGAAACAGACTCAAAGATTTTT
*
209696 ATTTTGTT-TTAAGTGAAACAGACTCAAAGATTTTT
1 ATTTTGTTATTAA-AGAAACAGACTCAAAGATTTTT
209731 CAAGAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 4 0.12
35 28 0.88
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (35 bp):
ATTTTGTTATTAAAGAAACAGACTCAAAGATTTTT
Found at i:209899 original size:36 final size:36
Alignment explanation
Indices: 209859--209990 Score: 142
Period size: 36 Copynumber: 3.7 Consensus size: 36
209849 TGGAAAATTG
*
209859 TCTCAAGTGAGACAACATTTGTTTTTAGAGAAACAA
1 TCTCAAGCGAGACAACATTTGTTTTTAGAGAAACAA
* * * ***
209895 TCTCAAACGAGACAAAAATTGTTTTTAGAGAAATTG
1 TCTCAAGCGAGACAACATTTGTTTTTAGAGAAACAA
* *
209931 TCTCAAGCGAGACAACGTTTATTTTTTAGA-AAACAA
1 TCTCAAGCGAGACAACATTT-GTTTTTAGAGAAACAA
*
209967 TCTCAAGTGAGATCAAC-TTTGTTT
1 TCTCAAGCGAGA-CAACATTTGTTT
209991 AATGTGAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
35 3 0.04
36 62 0.81
37 12 0.16
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (36 bp):
TCTCAAGCGAGACAACATTTGTTTTTAGAGAAACAA
Done.