Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002213.1 Hibiscus syriacus cultivar Beakdansim tig00004507_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: 108772
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:3404 original size:12 final size:12
Alignment explanation
Indices: 3387--3412 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3377 GTGCTTACAT
3387 AAGAACATGAGA
1 AAGAACATGAGA
3399 AAGAACATGAGA
1 AAGAACATGAGA
3411 AA
1 AA
3413 TAAAATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.23, T:0.08
Consensus pattern (12 bp):
AAGAACATGAGA
Found at i:4984 original size:21 final size:25
Alignment explanation
Indices: 4956--5009 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 25
4946 TGGACCTGAA
4956 ATTA-AATAAA-AGAAA-A-ATAAT
1 ATTATAATAAATAGAAATATATAAT
4977 ATT-TAATAAATAGAAATATATAAT
1 ATTATAATAAATAGAAATATATAAT
5001 ATTATAATA
1 ATTATAATA
5010 TAAATATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 9 0.32
22 5 0.18
23 1 0.04
24 8 0.29
25 5 0.18
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
ATTATAATAAATAGAAATATATAAT
Found at i:4991 original size:22 final size:24
Alignment explanation
Indices: 4956--5041 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 24
4946 TGGACCTGAA
4956 ATTA-AATAAAAGAAA-A-ATAAT
1 ATTATAATAAAAGAAATATATAAT
4977 ATT-TAATAAATAGAAATATATAAT
1 ATTATAATAAA-AGAAATATATAAT
* *
5001 ATTATAATATAAATATACTATATAAAT
1 ATTATAATA-AAAGA-AATATAT-AAT
5028 AATATATAATAAAA
1 -AT-TATAATAAAA
5042 AATATAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
21 9 0.17
22 5 0.09
23 1 0.02
24 8 0.15
25 7 0.13
26 8 0.15
27 3 0.06
28 5 0.09
29 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (24 bp):
ATTATAATAAAAGAAATATATAAT
Found at i:5001 original size:7 final size:7
Alignment explanation
Indices: 4991--5144 Score: 108
Period size: 7 Copynumber: 22.1 Consensus size: 7
4981 AATAAATAGA
4991 AATATAT
1 AATATAT
4998 AATATTAT
1 AATA-TAT
5006 AATATA-
1 AATATAT
5012 AATATACT
1 AATATA-T
*
5020 ATATAAAT
1 A-ATATAT
5028 AATATAT
1 AATATAT
5035 AATA-A-
1 AATATAT
*
5040 AAAATAT
1 AATATAT
*
5047 AA-ATAC
1 AATATAT
5053 AATATAT
1 AATATAT
*
5060 AACACTAT
1 AATA-TAT
5068 AATA-AT
1 AATATAT
5074 AATATAT
1 AATATAT
5081 -A-ATA-
1 AATATAT
5085 AATATAT
1 AATATAT
*
5092 GATATAT
1 AATATAT
5099 AATATAT
1 AATATAT
**
5106 TTTATAT
1 AATATAT
5113 AATATACTAT
1 -A-ATA-TAT
5123 AATATAT
1 AATATAT
*
5130 AATATGT
1 AATATAT
*
5137 ATTATAT
1 AATATAT
5144 A
1 A
5145 TATTGTACGG
Statistics
Matches: 116, Mismatches: 16, Indels: 30
0.72 0.10 0.19
Matches are distributed among these distances:
5 7 0.06
6 23 0.20
7 57 0.49
8 19 0.16
9 7 0.06
10 3 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (7 bp):
AATATAT
Found at i:5034 original size:2 final size:2
Alignment explanation
Indices: 4992--5147 Score: 60
Period size: 2 Copynumber: 85.0 Consensus size: 2
4982 ATAAATAGAA
* *
4992 AT AT AT A- AT AT -T AT A- AT AT AA AT AT ACT AT AT AA AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * * *
5031 AT AT A- AT A- AA AA AT AT AA AT AC A- AT AT AT A- AC ACT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
*
5069 AT A- AT A- AT AT AT A- AT AA AT AT AT GAT AT AT A- AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
* *
5107 TT AT AT A- AT AT ACT AT A- AT AT AT A- AT AT GT AT -T AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5146 AT
1 AT
5148 TGTACGGCGA
Statistics
Matches: 118, Mismatches: 14, Indels: 44
0.67 0.08 0.25
Matches are distributed among these distances:
1 18 0.15
2 93 0.79
3 7 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (2 bp):
AT
Found at i:5070 original size:62 final size:65
Alignment explanation
Indices: 4982--5102 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 65
4972 ATAATATTTA
* * * *
4982 ATAAATAGAAATATATAATATTATAAT-ATAA-ATATACTATATAAATAATATATAATAAAAAAT
1 ATAAATAGAAATATATAACACTATAATAATAATATATAATAAATAAATAATATATAATAAAAAAT
* * *
5045 ATAAATA-CAATATATAACACTATAATAATAATATATAATAAATATATGATATATAATA
1 ATAAATAGAAATATATAACACTATAATAATAATATATAATAAATAAATAATATATAATA
5103 TATTTTATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 16 0.33
63 11 0.22
64 22 0.45
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (65 bp):
ATAAATAGAAATATATAACACTATAATAATAATATATAATAAATAAATAATATATAATAAAAAAT
Found at i:5075 original size:36 final size:36
Alignment explanation
Indices: 4991--5061 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
4981 AATAAATAGA
* * * *
4991 AATATATAATATTATAATATAAATATACTATATAAAT
1 AATATATAATA-AAAAATATAAATACAATATATAAAT
5028 AATATATAATAAAAAATATAAATACAATATATAA
1 AATATATAATAAAAAATATAAATACAATATATAA
5062 CACTATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 19 0.63
37 11 0.37
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (36 bp):
AATATATAATAAAAAATATAAATACAATATATAAAT
Found at i:5128 original size:31 final size:29
Alignment explanation
Indices: 5054--5144 Score: 84
Period size: 31 Copynumber: 3.2 Consensus size: 29
5044 TATAAATACA
*
5054 ATATATAACACTATAATA-ATAATATA--T
1 ATATA-AATACTATAATATATAATATATTT
*
5081 A-ATAAATA-TATGATATATAATATATTTT
1 ATATAAATACTATAATATATAATATA-TTT
*
5109 ATATAATATACTATAATATATAATATGTATT
1 ATATAA-ATACTATAATATATAATATAT-TT
5140 ATATA
1 ATATA
5145 TATTGTACGG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
24 6 0.12
25 11 0.21
26 3 0.06
27 1 0.02
28 2 0.04
29 4 0.08
30 4 0.08
31 21 0.40
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (29 bp):
ATATAAATACTATAATATATAATATATTT
Found at i:8653 original size:2 final size:2
Alignment explanation
Indices: 8646--8673 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8636 AATTTGTCTA
8646 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8674 TCACATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11195 original size:2 final size:2
Alignment explanation
Indices: 11188--11216 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11178 CGACGTCGTT
11188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11217 GAAACAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18077 original size:17 final size:17
Alignment explanation
Indices: 18057--18094 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
18047 GGAAGACTGC
18057 TGGGTGTGGACAGGAAA
1 TGGGTGTGGACAGGAAA
18074 TGGGTGTGGACAGGAAA
1 TGGGTGTGGACAGGAAA
18091 TGGG
1 TGGG
18095 AAGGGCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.50, T:0.18
Consensus pattern (17 bp):
TGGGTGTGGACAGGAAA
Found at i:24923 original size:27 final size:27
Alignment explanation
Indices: 24893--24944 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
24883 TCATCCAGAT
*
24893 CACTATCAGCATT-TTCTTCATCAAATG
1 CACTATCAGC-TTCTTCTCCATCAAATG
*
24920 CACTATCATCTTCTTCTCCATCAAA
1 CACTATCAGCTTCTTCTCCATCAAA
24945 CTGGTATCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.29, C:0.31, G:0.04, T:0.37
Consensus pattern (27 bp):
CACTATCAGCTTCTTCTCCATCAAATG
Found at i:28932 original size:24 final size:24
Alignment explanation
Indices: 28905--28952 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
28895 GGCTCGATTT
28905 TCTTCCAACAGTCAGACCTTTTAA
1 TCTTCCAACAGTCAGACCTTTTAA
28929 TCTTCCAACAGTCAGACCTTTTAA
1 TCTTCCAACAGTCAGACCTTTTAA
28953 ATTCCAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (24 bp):
TCTTCCAACAGTCAGACCTTTTAA
Found at i:29324 original size:24 final size:26
Alignment explanation
Indices: 29297--29355 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
29287 TCCTACATGG
*
29297 TTAATTT-A-CTTCACTGTAATTTGT
1 TTAATTTCATCTTCAATGTAATTTGT
29321 TTAATTGCTTCATCTTCAATGTAATTTGT
1 TTAA-T--TTCATCTTCAATGTAATTTGT
29350 TTAATT
1 TTAATT
29356 GTTTATATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
24 4 0.14
25 1 0.03
26 1 0.03
27 2 0.07
28 2 0.07
29 19 0.66
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.54
Consensus pattern (26 bp):
TTAATTTCATCTTCAATGTAATTTGT
Found at i:29412 original size:20 final size:19
Alignment explanation
Indices: 29386--29536 Score: 77
Period size: 20 Copynumber: 8.3 Consensus size: 19
29376 CTAAATTAAA
*
29386 TATTAGATAGGATCAGTTT
1 TATTAGATAGAATCAGTTT
29405 TAATTAGATAGAATCAGTTT
1 T-ATTAGATAGAATCAGTTT
*** *
29425 T-TT--ATTCTATTAG--T
1 TATTAGATAGAATCAGTTT
* *
29439 TATTAGATAGGATCATTTT
1 TATTAGATAGAATCAGTTT
29458 TAATTAGATAGAATCAGTTT
1 T-ATTAGATAGAATCAGTTT
* *** *
29478 T-TT-TATTCTATTAG--T
1 TATTAGATAGAATCAGTTT
* *
29493 TATTAGATAGGATCATTTT
1 TATTAGATAGAATCAGTTT
*
29512 TAATTAGATAGAATCATTTT
1 T-ATTAGATAGAATCAGTTT
29532 TATTA
1 TATTA
29537 TGTTGCTAAT
Statistics
Matches: 96, Mismatches: 24, Indels: 24
0.67 0.17 0.17
Matches are distributed among these distances:
14 2 0.02
15 4 0.04
16 8 0.08
17 16 0.17
18 4 0.04
19 9 0.09
20 53 0.55
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.48
Consensus pattern (19 bp):
TATTAGATAGAATCAGTTT
Found at i:29504 original size:54 final size:54
Alignment explanation
Indices: 29386--29537 Score: 272
Period size: 54 Copynumber: 2.8 Consensus size: 54
29376 CTAAATTAAA
*
29386 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAG-TTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTTATTCTATTAGT
29439 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTTATTCTATTAGT
29493 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATTAT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTT-TTAT
29538 GTTGCTAATT
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
53 40 0.42
54 56 0.58
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (54 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTTATTCTATTAGT
Found at i:34121 original size:20 final size:19
Alignment explanation
Indices: 34095--34244 Score: 77
Period size: 20 Copynumber: 8.3 Consensus size: 19
34085 CTAAATTAAA
*
34095 TATTAGATAGGATCAGTTT
1 TATTAGATAGAATCAGTTT
34114 TAATTAGATAGAATCAGTTT
1 T-ATTAGATAGAATCAGTTT
*** *
34134 T-TT--ATTCTATTAG--T
1 TATTAGATAGAATCAGTTT
* *
34148 TATTAGATAGGATCATTTT
1 TATTAGATAGAATCAGTTT
34167 TAATTAGATAGAATCAGTTT
1 T-ATTAGATAGAATCAGTTT
*** *
34187 T-TT--ATTCTATTAG--T
1 TATTAGATAGAATCAGTTT
* *
34201 TATTAGATAGGATCATTTT
1 TATTAGATAGAATCAGTTT
*
34220 TAATTAGATAGAATCATTTT
1 T-ATTAGATAGAATCAGTTT
34240 TATTA
1 TATTA
34245 TGTTGCTAAT
Statistics
Matches: 96, Mismatches: 22, Indels: 26
0.67 0.15 0.18
Matches are distributed among these distances:
14 4 0.04
15 4 0.04
16 12 0.12
17 10 0.10
18 4 0.04
19 9 0.09
20 53 0.55
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.48
Consensus pattern (19 bp):
TATTAGATAGAATCAGTTT
Found at i:34175 original size:53 final size:53
Alignment explanation
Indices: 34095--34240 Score: 276
Period size: 53 Copynumber: 2.8 Consensus size: 53
34085 CTAAATTAAA
*
34095 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
34148 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
34201 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTT
34241 ATTATGTTGC
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 5 0.05
53 87 0.95
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (53 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
Found at i:34516 original size:20 final size:20
Alignment explanation
Indices: 34456--34518 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 20
34446 ACTTGTTATT
34456 TTGTTAAGGTAATCTGTTTAA
1 TTGTT-AGGTAATCTGTTTAA
* ** *
34477 TTCTTTATCTATAATATGTTTAA
1 TT-GTTA--GGTAATCTGTTTAA
34500 TTGTTAGGTAATCTGTTTA
1 TTGTTAGGTAATCTGTTTA
34519 GAATTTAGAT
Statistics
Matches: 31, Mismatches: 8, Indels: 7
0.67 0.17 0.15
Matches are distributed among these distances:
20 10 0.32
21 3 0.10
22 5 0.16
23 13 0.42
ACGTcount: A:0.27, C:0.06, G:0.14, T:0.52
Consensus pattern (20 bp):
TTGTTAGGTAATCTGTTTAA
Found at i:37182 original size:32 final size:32
Alignment explanation
Indices: 37141--37215 Score: 118
Period size: 31 Copynumber: 2.4 Consensus size: 32
37131 AACTTTATTT
37141 TGTTCGGGTCGGATCGGG-TTTTTTAAGTGTGA
1 TGTTCGGGTCGG-TCGGGTTTTTTTAAGTGTGA
37173 TGTTCGGGTC-GTCGGGTTTTTTTAAGTGTGA
1 TGTTCGGGTCGGTCGGGTTTTTTTAAGTGTGA
*
37204 TATTCGGGTCGG
1 TGTTCGGGTCGG
37216 GTTTAGGGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 5 0.12
31 24 0.60
32 11 0.28
ACGTcount: A:0.11, C:0.11, G:0.37, T:0.41
Consensus pattern (32 bp):
TGTTCGGGTCGGTCGGGTTTTTTTAAGTGTGA
Found at i:37936 original size:31 final size:31
Alignment explanation
Indices: 37901--37961 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
37891 AATTAATTAT
*
37901 TAATGTTATTAATTTATAACAAAATAGTCAC
1 TAATGTTATCAATTTATAACAAAATAGTCAC
* * *
37932 TAATGTTATCGATTTATAATAAAATGGTCA
1 TAATGTTATCAATTTATAACAAAATAGTCA
37962 TTCTACCATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (31 bp):
TAATGTTATCAATTTATAACAAAATAGTCAC
Found at i:40053 original size:31 final size:31
Alignment explanation
Indices: 40015--40170 Score: 278
Period size: 31 Copynumber: 5.0 Consensus size: 31
40005 CCCGAAGGAC
* *
40015 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
40046 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
40077 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
40108 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
40139 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
40170 C
1 C
40171 CCTCGACCCT
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
31 121 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:41199 original size:21 final size:21
Alignment explanation
Indices: 41175--41217 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41165 TTTTGTTCGT
* *
41175 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
41196 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
41217 T
1 T
41218 GCCCAGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:44639 original size:31 final size:31
Alignment explanation
Indices: 44601--44668 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
44591 TTAAAAAACA
*
44601 TAAGATATGACCACTTCCGTTTTTATTTAAT
1 TAAGATATGACAACTTCCGTTTTTATTTAAT
** * *
44632 TAAGATATGTTAACTTTCGTTTTTATTTCAT
1 TAAGATATGACAACTTCCGTTTTTATTTAAT
44663 TAAGAT
1 TAAGAT
44669 GTGGTAATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (31 bp):
TAAGATATGACAACTTCCGTTTTTATTTAAT
Found at i:47723 original size:31 final size:31
Alignment explanation
Indices: 47685--47754 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
47675 CAGAGGAATA
* * *
47685 ATCATTTTGTTATAAATCGATAATGTTACTG
1 ATCATTTTATTATAAATCGATAATATTAATG
*
47716 ATCATTTTATTATAAATTGATAATATTAATG
1 ATCATTTTATTATAAATCGATAATATTAATG
*
47747 ATAATTTT
1 ATCATTTT
47755 TTTGAAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (31 bp):
ATCATTTTATTATAAATCGATAATATTAATG
Found at i:48061 original size:14 final size:13
Alignment explanation
Indices: 48020--48066 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 13
48010 AAAATAGAGA
48020 TAAAAATAATTAT
1 TAAAAATAATTAT
48033 T--AAATAATTAAAT
1 TAAAAATAATT--AT
48046 TAAAATATAATTAT
1 TAAAA-ATAATTAT
48060 TAAAAAT
1 TAAAAAT
48067 TTCATTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
11 8 0.28
13 6 0.21
14 7 0.24
15 2 0.07
16 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAAATAATTAT
Found at i:48377 original size:37 final size:36
Alignment explanation
Indices: 48336--48442 Score: 155
Period size: 37 Copynumber: 3.0 Consensus size: 36
48326 ATAATAATAT
48336 AACAAGAATGCACCAAAGCATCATT-AATATTATTAC
1 AACAAGAATGCACCAAAGCATCATTAAATA-TATTAC
48372 AAACAAGAATGCACCAAAGCATCATTAAATATATTAC
1 -AACAAGAATGCACCAAAGCATCATTAAATATATTAC
* * *
48409 AAC-AGAATACGCCAAAGCATCATTAAATAAATTA
1 AACAAGAATGCACCAAAGCATCATTAAATATATTA
48443 TGTTTAGTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
35 28 0.42
36 3 0.05
37 31 0.47
38 4 0.06
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.22
Consensus pattern (36 bp):
AACAAGAATGCACCAAAGCATCATTAAATATATTAC
Found at i:49141 original size:20 final size:20
Alignment explanation
Indices: 49116--49208 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
49106 TTTTCCCAAT
49116 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
49136 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
*
49157 TCGCAATACGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* **
49177 TCGCAACGCGAATTGGTAAAA
1 TCGCAATGCGAATAAGT-AAA
49198 TCGCAATGCGA
1 TCGCAATGCGA
49209 TACTGACTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 29 0.51
21 28 0.49
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:49159 original size:21 final size:21
Alignment explanation
Indices: 49133--49208 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
49123 GCGAATAAGT
49133 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
** ** *
49154 AAATCGCAATACGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
*
49174 AAATCGCAACGCGAATTGGTA
1 AAATCGCAACGCGAATTGGGA
*
49195 AAATCGCAATGCGA
1 AAATCGCAACGCGA
49209 TACTGACTAT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.17
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:49161 original size:41 final size:41
Alignment explanation
Indices: 49116--49208 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
49106 TTTTCCCAAT
49116 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
* *
49157 TCGCAATACGAATAAGTAAATCGCAACGCGAATTGGTAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
49198 TCGCAATGCGA
1 TCGCAATGCGA
49209 TACTGACTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:49221 original size:41 final size:41
Alignment explanation
Indices: 49135--49269 Score: 114
Period size: 41 Copynumber: 3.3 Consensus size: 41
49125 GAATAAGTAA
* * * *
49135 ATCGCAACGCGAATTGGGAAAATCGCAATACGAATA-AGTA-A
1 ATCGCAACGCGAATTGGCAAAATCGCAATGCG-ATACTG-ACT
*
49176 ATCGCAACGCGAATTGGTAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGCAAAATCGCAATGCGATACTGACT
* * * * * *
49217 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGCAAAATCGCAATGCGATACTGACT
*
49258 TTCGCAACGCGA
1 ATCGCAACGCGA
49270 TACTGACTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
40 4 0.05
41 72 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGCAAAATCGCAATGCGATACTGACT
Found at i:49222 original size:20 final size:20
Alignment explanation
Indices: 49197--49311 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
49187 AATTGGTAAA
*
49197 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
49217 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
49238 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
49258 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
49278 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
49298 TTCGCAACGCGATA
1 ATCGCAACGCGATA
49312 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:49270 original size:41 final size:41
Alignment explanation
Indices: 49194--49331 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
49184 GCGAATTGGT
* * *
49194 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
49235 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** *
49277 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
49316 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
49332 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.39
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:51152 original size:18 final size:18
Alignment explanation
Indices: 51126--51170 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
51116 TCCACTTCGG
51126 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCGCCCA
*
51144 GAGCTATCACCTCGCCCA
1 GAGCCATCACCTCGCCCA
51162 GAGCCATCA
1 GAGCCATCA
51171 TCTGATCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.44, G:0.18, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCGCCCA
Found at i:51706 original size:19 final size:20
Alignment explanation
Indices: 51663--51707 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
51653 CGCAACACGA
*
51663 AAATGACTATCGCAAAGAGG
1 AAATGACTATCGCAAAGACG
* *
51683 AAATGGCTATCGCAATG-CG
1 AAATGACTATCGCAAAGACG
51702 AAATGA
1 AAATGA
51708 AAATCGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAAAGACG
Found at i:51726 original size:14 final size:14
Alignment explanation
Indices: 51707--51764 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
51697 ATGCGAAATG
51707 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
51721 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
51737 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
51753 AAAAGCGCAACG
1 AAAATCGCAACG
51765 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.19, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:51749 original size:32 final size:33
Alignment explanation
Indices: 51691--51781 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
51681 GGAAATGGCT
*
51691 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
51724 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
51756 AGCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
51782 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:51819 original size:14 final size:14
Alignment explanation
Indices: 51800--51855 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
51790 GTGTTTCGCA
51800 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
51814 TTGCGATTTCATTTCGCG
1 TTGCGATTT--TGT--CG
51832 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
51846 TTGCGATTTT
1 TTGCGATTTT
51856 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 21 0.58
16 4 0.11
18 11 0.31
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:51836 original size:32 final size:33
Alignment explanation
Indices: 51793--51871 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
51783 GCGATTTGTG
51793 TTTCGCATTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
51825 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
51858 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
51872 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:51870 original size:19 final size:19
Alignment explanation
Indices: 51812--51929 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
51802 GCGATTTTGT
51812 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
51830 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
51844 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
51863 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
51883 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
51902 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
51922 TGTTGCGA
1 CGTTGCGA
51930 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:54157 original size:23 final size:23
Alignment explanation
Indices: 54122--54166 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
54112 TATTCGAAAT
* *
54122 TTGATCTTAGTCAATACCCGGAC
1 TTGATATTAGTCAATACACGGAC
*
54145 TTGATATTGGTCAATACACGGA
1 TTGATATTAGTCAATACACGGA
54167 TTTTGATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (23 bp):
TTGATATTAGTCAATACACGGAC
Found at i:56658 original size:19 final size:19
Alignment explanation
Indices: 56636--56785 Score: 114
Period size: 19 Copynumber: 8.7 Consensus size: 19
56626 GGAAATTACT
56636 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
56655 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
56669 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
56688 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
56702 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
56721 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
56735 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
56754 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
56773 ATCGCAACGCGAA
1 ATCGCAATGCGAA
56786 TTTAATTTCG
Statistics
Matches: 102, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
14 27 0.26
15 3 0.03
16 6 0.06
17 6 0.06
18 3 0.03
19 57 0.56
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:56678 original size:33 final size:33
Alignment explanation
Indices: 56636--56762 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
56626 GGAAATTACT
56636 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
56669 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
56701 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
56735 ATCGCAATACGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
56763 CGAAATGAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:56748 original size:66 final size:66
Alignment explanation
Indices: 56637--56763 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
56627 GAAATTACTA
*
56637 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCTAAT
56702 T
66 T
*
56703 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATACGAAATGAAAATCGCAACGC
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGC
56764 GAAATGAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCAACGCTAAT
T
Found at i:56796 original size:19 final size:19
Alignment explanation
Indices: 56616--56785 Score: 109
Period size: 19 Copynumber: 9.7 Consensus size: 19
56606 CTTAATGTCT
* **
56616 ATCGCAACGCGGAAATTACT
1 ATCGCAACGC-GAAATGAAA
*
56636 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
56655 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
56669 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
56688 ATCGCAACGC----T-AAT
1 ATCGCAACGCGAAATGAAA
* *
56702 TTCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
**
56721 ATCGCAA--CG--A-GGGA
1 ATCGCAACGCGAAATGAAA
**
56735 ATCGCAATACGAAATGAAA
1 ATCGCAACGCGAAATGAAA
56754 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
56773 ATCGCAACGCGAA
1 ATCGCAACGCGAA
56786 TTTAATTTCG
Statistics
Matches: 117, Mismatches: 18, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
14 29 0.25
15 3 0.03
16 4 0.03
17 4 0.03
18 3 0.03
19 65 0.56
20 9 0.08
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:56803 original size:19 final size:20
Alignment explanation
Indices: 56781--56823 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
56771 AAATCGCAAC
56781 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
56800 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
56820 GCGA
1 GCGA
56824 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:56808 original size:14 final size:14
Alignment explanation
Indices: 56809--56842 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
56799 TGCGATTTTC
56809 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
56823 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
56837 ATTTTC
1 ATTTTC
56843 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:56983 original size:14 final size:14
Alignment explanation
Indices: 56964--57000 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
56954 CATCAATTAA
56964 ACAAATCAACTTTT
1 ACAAATCAACTTTT
56978 ACAAATCAACTTTT
1 ACAAATCAACTTTT
56992 ACAAATCAA
1 ACAAATCAA
57001 TTAAACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:58417 original size:21 final size:21
Alignment explanation
Indices: 58351--58417 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
58341 GTGAATCGGG
*
58351 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
58371 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
58393 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
58414 CTCT
1 CTCT
58418 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:59623 original size:21 final size:22
Alignment explanation
Indices: 59581--59623 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
59571 AATAACAAAC
*
59581 ATTAGTAATTGTTAAATAATTA
1 ATTAGTAATTGTTAAAAAATTA
59603 ATTA-TAATT-TTAAAAACATTA
1 ATTAGTAATTGTTAAAAA-ATTA
59624 TATAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTAGTAATTGTTAAAAAATTA
Found at i:60541 original size:19 final size:19
Alignment explanation
Indices: 60477--60614 Score: 177
Period size: 19 Copynumber: 7.1 Consensus size: 19
60467 TCTTTTGGTT
*
60477 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
60496 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
60516 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
60536 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* *
60556 GAAATAAAAATCGTAACGC
1 GAAATGAAAATCGCAACGC
60575 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
60594 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
60613 GA
1 GA
60615 TTTTTGTTTC
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 55 0.53
20 47 0.45
21 2 0.02
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:60560 original size:39 final size:38
Alignment explanation
Indices: 60477--60614 Score: 177
Period size: 39 Copynumber: 3.6 Consensus size: 38
60467 TCTTTTGGTT
* *
60477 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
**
60516 GGAAATGACTATCGCAACGCGAAATGAAAATCGCAACCGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAA-CGC
* *
60556 GAAATAAAAATCGTAACGCGAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
60594 GAAATAAAAATCGCAATGCGA
1 GAAATGAAAATCGCAACGCGA
60615 TTTTTGTTTC
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 22 0.25
39 44 0.51
40 21 0.24
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:60646 original size:19 final size:19
Alignment explanation
Indices: 60610--60654 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
60600 AAAATCGCAA
*
60610 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
60629 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
60648 TGCGATT
1 TGCGATT
60655 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.16, G:0.24, T:0.53
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:61232 original size:20 final size:20
Alignment explanation
Indices: 61207--61259 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
61197 GCGCTATGTA
61207 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
61227 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
61247 TATCTCGTTGCGA
1 AATCGCGTTGCGA
61260 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:61296 original size:20 final size:20
Alignment explanation
Indices: 61268--61321 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
61258 GATTTTGTAT
61268 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
* * *
61288 TATCACATTACGATAGTCAG
1 TATCGCATTGCGATAGTAAG
61308 TATCGCATTGCGAT
1 TATCGCATTGCGAT
61322 TTTCCCAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:61339 original size:21 final size:21
Alignment explanation
Indices: 61310--61365 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
61300 ATAGTCAGTA
* *
61310 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTACCAAT
**
61331 TCGCGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTACCAAT
61351 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
61366 GCGAATTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (21 bp):
TCGCGTTGCGATTTTACCAAT
Found at i:74682 original size:11 final size:11
Alignment explanation
Indices: 74663--74705 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
74653 TCAAGAACAT
*
74663 GTTCGTTTAGC
1 GTTCATTTAGC
*
74674 GTTCATTTAGT
1 GTTCATTTAGC
**
74685 GTTTGTTTAGC
1 GTTCATTTAGC
74696 GTTCATTTAG
1 GTTCATTTAG
74706 TGATTGTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.14, C:0.12, G:0.23, T:0.51
Consensus pattern (11 bp):
GTTCATTTAGC
Found at i:74692 original size:22 final size:22
Alignment explanation
Indices: 74662--74736 Score: 107
Period size: 22 Copynumber: 3.5 Consensus size: 22
74652 TTCAAGAACA
*
74662 TGTTCGTTTAGCGTTCATTTAG
1 TGTTTGTTTAGCGTTCATTTAG
74684 TGTTTGTTTAGCGTTCATTTAG
1 TGTTTGTTTAGCGTTCATTTAG
* **
74706 TGATTGTTTAGCGTTTTTTTAG
1 TGTTTGTTTAGCGTTCATTTAG
74728 T-TTTGTTTA
1 TGTTTGTTTA
74737 TCATTCGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 7 0.15
22 41 0.85
ACGTcount: A:0.13, C:0.08, G:0.21, T:0.57
Consensus pattern (22 bp):
TGTTTGTTTAGCGTTCATTTAG
Found at i:74969 original size:12 final size:12
Alignment explanation
Indices: 74952--74999 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
74942 AACATAAATG
74952 AACGAGTTGATA
1 AACGAGTTGATA
74964 AACGAGTTGATA
1 AACGAGTTGATA
* *
74976 AACGAGCTCATA
1 AACGAGTTGATA
74988 AACGAGTTGATA
1 AACGAGTTGATA
75000 TTGTTCGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (12 bp):
AACGAGTTGATA
Found at i:76212 original size:20 final size:20
Alignment explanation
Indices: 76187--76299 Score: 136
Period size: 20 Copynumber: 5.5 Consensus size: 20
76177 TTTTCCCAAT
76187 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
76207 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
76228 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
76248 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
76268 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
76289 TCGCAATGCGA
1 TCGCAATGCGA
76300 TACTTACTAT
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
20 47 0.60
21 31 0.40
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:76312 original size:41 final size:41
Alignment explanation
Indices: 76285--76362 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
76275 GCGAATTGGG
*
76285 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTTACTATCGCAACGCGATAATAC
* * *
76326 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAATGCGATACTTACTATCGCAACGCGATA
76363 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTTACTATCGCAACGCGATAATAC
Found at i:76313 original size:20 final size:20
Alignment explanation
Indices: 76288--76381 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
76278 AATTGGGAAA
*
76288 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
76308 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
76329 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
76349 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
76369 TTCGCAACGCGAT
1 ATCGCAACGCGAT
76382 TTACATAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:76938 original size:19 final size:19
Alignment explanation
Indices: 76900--76985 Score: 118
Period size: 19 Copynumber: 4.5 Consensus size: 19
76890 TTCGAGAATG
76900 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
76920 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
76939 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
* **
76958 AAAATCGCAACGTGAAACC
1 AAAATCGCAACGCGAAATA
76977 AAAATCGCA
1 AAAATCGCA
76986 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
19 48 0.81
20 11 0.19
ACGTcount: A:0.49, C:0.23, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:77027 original size:20 final size:19
Alignment explanation
Indices: 76981--77112 Score: 139
Period size: 19 Copynumber: 7.1 Consensus size: 19
76971 GAAACCAAAA
*
76981 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
77000 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
77019 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
77039 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
77055 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
77072 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
77091 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
77111 TC
1 TC
77113 AACCAAAAGA
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 46 0.48
20 35 0.37
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:77062 original size:39 final size:39
Alignment explanation
Indices: 76986--77062 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
76976 CAAAATCGCA
* **
76986 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
77025 TTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
77063 ATAGTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:79174 original size:42 final size:42
Alignment explanation
Indices: 79114--79236 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
79104 GCCCGACTCG
* * *
79114 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
79156 CCTATCATTCCTCGAGAGTCCTCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
79198 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
79237 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:80613 original size:14 final size:14
Alignment explanation
Indices: 80594--80629 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
80584 ATTGTTTAAT
80594 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
80608 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
80622 TGATTTGT
1 TGATTTGT
80630 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:80840 original size:19 final size:19
Alignment explanation
Indices: 80809--80940 Score: 96
Period size: 19 Copynumber: 7.7 Consensus size: 19
80799 CGAAATTAAA
80809 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
80828 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
80844 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
80861 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
80875 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
80894 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
80910 CTCG--TTGCGATTTTTCAT
1 TTCGCATTGCGA-TTTTCAT
80928 TTCGCATTGCGAT
1 TTCGCATTGCGAT
80941 GGACATTAAG
Statistics
Matches: 85, Mismatches: 12, Indels: 32
0.66 0.09 0.25
Matches are distributed among these distances:
14 23 0.27
16 10 0.12
17 12 0.14
18 4 0.05
19 30 0.35
20 6 0.07
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:80857 original size:33 final size:32
Alignment explanation
Indices: 80815--80940 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 32
80805 TAAATTCGCA
80815 TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
1 TTGCGATTTTCATTTCGCATTGCGATT-CCTCG
**
80848 TTGCGATTTTCATTTCGCATTGCGAAATT-AGCG
1 TTGCGATTTTCATTTCGCATTGCG--ATTCCTCG
80881 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTC-CTCG
80914 TTGCGATTTTTCATTTCGCATTGCGAT
1 TTGCGA-TTTTCATTTCGCATTGCGAT
80941 GGACATTAAG
Statistics
Matches: 84, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
31 3 0.04
33 58 0.69
34 20 0.24
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCATTGCGATTCCTCG
Found at i:80902 original size:66 final size:67
Alignment explanation
Indices: 80806--80939 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 67
80796 ACGCGAAATT
*
80806 AAATTCGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGA-TTTTCATTTCGCATTG
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTTCATTTCGCATTG
80870 CG
66 CG
* *
80872 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTTCATTTCGCATTG
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTTCATTTCGCATTG
80937 CG
66 CG
80939 A
1 A
80940 TGGACATTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 45 0.70
67 19 0.30
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (67 bp):
AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTTCATTTCGCATTG
CG
Found at i:83227 original size:12 final size:12
Alignment explanation
Indices: 83210--83234 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83200 TCTTCGGGGA
83210 CTTTTTCTTCTT
1 CTTTTTCTTCTT
83222 CTTTTTCTTCTT
1 CTTTTTCTTCTT
83234 C
1 C
83235 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:83448 original size:24 final size:24
Alignment explanation
Indices: 83421--83467 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
83411 CAAAATCCGT
*
83421 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
83445 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
83468 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:83476 original size:24 final size:24
Alignment explanation
Indices: 83425--83476 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
83415 ATCCGTGTAT
* ** *
83425 TGACCAATATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
83449 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
83473 TGAC
1 TGAC
83477 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:84524 original size:20 final size:20
Alignment explanation
Indices: 84499--84556 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
84489 ATTCATTTGA
84499 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
84519 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
84539 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
84557 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:84616 original size:19 final size:19
Alignment explanation
Indices: 84575--84747 Score: 231
Period size: 19 Copynumber: 9.6 Consensus size: 19
84565 GAAATGAAAA
84575 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
84591 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
84608 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
84627 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
84643 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
84660 TCGTATTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
84679 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
84698 TCGCATTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
*
84717 TCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTCATT
*
84736 TCGCGTTGCGAT
1 TCGCATTGCGAT
84748 AGTCTGTTTT
Statistics
Matches: 140, Mismatches: 7, Indels: 17
0.85 0.04 0.10
Matches are distributed among these distances:
14 22 0.16
16 6 0.04
17 6 0.04
19 106 0.76
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:84631 original size:52 final size:52
Alignment explanation
Indices: 84575--84747 Score: 256
Period size: 52 Copynumber: 3.2 Consensus size: 52
84565 GAAATGAAAA
84575 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
* *
84627 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGTATTACGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
* *
84679 TCGCATTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATT
*
84736 TCGCGTTGCGAT
1 TCGCATTGCGAT
84748 AGTCTGTTTT
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
52 66 0.61
55 3 0.03
57 40 0.37
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:86766 original size:19 final size:19
Alignment explanation
Indices: 86742--86808 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
86732 GAAACTTAAA
86742 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* *
86761 ATCGCAACACGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
86781 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
86800 ATCGCAACG
1 ATCGCAACG
86809 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:86777 original size:20 final size:19
Alignment explanation
Indices: 86723--86807 Score: 71
Period size: 20 Copynumber: 4.4 Consensus size: 19
86713 TAGTTTACTT
* **
86723 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAA-TGACTA
*
86743 TCGCAACGCGAAATGACTA
1 TCGCAACACGAAATGACTA
*
86762 TCGCAACACGGAAATGGCTA
1 TCGCAACAC-GAAATGACTA
** **
86782 TCGCAATGCGAAATGAAAA
1 TCGCAACACGAAATGACTA
86801 TCGCAAC
1 TCGCAAC
86808 GACAAAATCG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
19 24 0.46
20 28 0.54
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (19 bp):
TCGCAACACGAAATGACTA
Found at i:86816 original size:14 final size:14
Alignment explanation
Indices: 86797--86836 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
86787 ATGCGAAATG
86797 AAAATCGCAACGAC
1 AAAATCGCAACGAC
86811 AAAATCGCAACGAC
1 AAAATCGCAACGAC
86825 AAAATCGCAACG
1 AAAATCGCAACG
86837 CGAAACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.28, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:86870 original size:19 final size:17
Alignment explanation
Indices: 86848--86942 Score: 76
Period size: 19 Copynumber: 5.6 Consensus size: 17
86838 GAAACACAAA
86848 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
86867 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
86883 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
86899 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
86915 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
86932 TCGCATTGCGA
1 TCGC-TTGCGA
86943 AAGCCATTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 16 0.26
ACGTcount: A:0.12, C:0.20, G:0.23, T:0.45
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:86889 original size:14 final size:14
Alignment explanation
Indices: 86870--86927 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
86860 TTTCATTTCG
86870 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
86884 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
86900 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
86916 CGTTGCGATTTT
1 CGTTGCGATTTT
86928 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:86934 original size:33 final size:33
Alignment explanation
Indices: 86853--86942 Score: 164
Period size: 32 Copynumber: 2.8 Consensus size: 33
86843 ACAAATCGCA
86853 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
86886 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
86918 TTGCGATTTTCATTTCGCATTGCGA
1 TTGCGATTTTCATTTCGCGTTGCGA
86943 AAGCCATTTC
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.58
33 23 0.42
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:86962 original size:20 final size:19
Alignment explanation
Indices: 86928--86984 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
86918 TTGCGATTTT
*
86928 CATTTCGCATTGCGAAAGC
1 CATTTCGCGTTGCGAAAGC
* *
86947 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGAAAGC
*
86967 CATTTCGTGTTGCGAAAG
1 CATTTCGCGTTGCGAAAG
86985 TAAACTATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (19 bp):
CATTTCGCGTTGCGAAAGC
Found at i:87473 original size:18 final size:18
Alignment explanation
Indices: 87447--87491 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
87437 GTCGATCAGA
* *
87447 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
87465 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
87483 TGATGGCTC
1 TGATGGCTC
87492 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:89050 original size:22 final size:22
Alignment explanation
Indices: 89025--89068 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
89015 GATTTAGATA
89025 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
89047 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
89069 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:89327 original size:41 final size:41
Alignment explanation
Indices: 89275--89352 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
89265 CGAAAGTCAG
* * *
89275 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
*
89316 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
89353 CCCAATTCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
Found at i:89349 original size:20 final size:20
Alignment explanation
Indices: 89236--89349 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
89226 CGCTTTGAAA
89236 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
89256 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
89276 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
89296 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
89317 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
89337 ATCGCATTGCGAT
1 ATCGCATTGCGAT
89350 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:89368 original size:41 final size:41
Alignment explanation
Indices: 89275--89370 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
89265 CGAAAGTCAG
* * * ** *
89275 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
*
89316 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
89358 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
89371 TTACTTATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:90537 original size:16 final size:18
Alignment explanation
Indices: 90496--90538 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
90486 TCACGGAACG
*
90496 TAAGATTATCAATGAGAA
1 TAAGATTATCAATGAAAA
90514 TAAAGATTATC-A-GAAAA
1 T-AAGATTATCAATGAAAA
90531 TAAGATTA
1 TAAGATTA
90539 CTAGGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 7 0.30
17 5 0.22
18 2 0.09
19 9 0.39
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (18 bp):
TAAGATTATCAATGAAAA
Found at i:92562 original size:57 final size:57
Alignment explanation
Indices: 92473--92608 Score: 188
Period size: 57 Copynumber: 2.4 Consensus size: 57
92463 AGGGTTGTCT
*
92473 GCTTAGTTATTTTTCATTGTTTGGTACTCTGTGTACAGGG-AGGGAGT-TTCTGTTTAA
1 GCTTAGTTATTTTTCATTGTTTGGTACTCTGTGTACAGGGAAGGG-GTCGT-TGTTTAA
* *
92530 GCTTAGTTATTTTTCATTGTTTGGT-GTCCTGTGTATAGGGAAGGGGTCGTTGTTTAA
1 GCTTAGTTATTTTTCATTGTTTGGTACT-CTGTGTACAGGGAAGGGGTCGTTGTTTAA
92587 GCTTAGTTATTTTTTCATTGTT
1 GCTTAGTTA-TTTTTCATTGTT
92609 GGGTTTTTCT
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
56 1 0.01
57 54 0.75
58 17 0.24
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.49
Consensus pattern (57 bp):
GCTTAGTTATTTTTCATTGTTTGGTACTCTGTGTACAGGGAAGGGGTCGTTGTTTAA
Found at i:95500 original size:18 final size:18
Alignment explanation
Indices: 95452--95493 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
95442 ATCCAACTAC
95452 GCTTAGCAGTGTAGGTAA
1 GCTTAGCAGTGTAGGTAA
*
95470 GCTTAGCAGTGTAGGTAT
1 GCTTAGCAGTGTAGGTAA
95488 GCTTAG
1 GCTTAG
95494 TCGTGTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.12, G:0.33, T:0.31
Consensus pattern (18 bp):
GCTTAGCAGTGTAGGTAA
Found at i:95852 original size:29 final size:29
Alignment explanation
Indices: 95819--95887 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
95809 TCCTCAAACA
* *
95819 TAGGTCGTCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
*
95848 TAGGTTGCCATGCACTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
*
95877 TAGGTCACCAT
1 TAGGTCGCCAT
95888 AAACTCCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.14, C:0.32, G:0.29, T:0.25
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:95893 original size:29 final size:29
Alignment explanation
Indices: 95833--95894 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
95823 TCGTCATGCC
** **
95833 CTCCGGGCGACCTTGTAGGTTGCCATGCA
1 CTCCGGGCGACCTTGTAGGTCACCATAAA
95862 CTCCGGGCGACCTTGTAGGTCACCATAAA
1 CTCCGGGCGACCTTGTAGGTCACCATAAA
95891 CTCC
1 CTCC
95895 TTCCTACTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.18, C:0.34, G:0.26, T:0.23
Consensus pattern (29 bp):
CTCCGGGCGACCTTGTAGGTCACCATAAA
Found at i:99985 original size:14 final size:15
Alignment explanation
Indices: 99960--99990 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
99950 TAGATACTTT
99960 ATGAATTAAAATAAA
1 ATGAATTAAAATAAA
99975 ATGAA-TAAAATAAA
1 ATGAATTAAAATAAA
99989 AT
1 AT
99991 AGATGTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
ATGAATTAAAATAAA
Found at i:100247 original size:33 final size:32
Alignment explanation
Indices: 100210--100284 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 32
100200 GTAAAAGAAT
100210 ATATGTACATATAATACATAAACAAATAAATAA
1 ATATGTACATATAATACATAAACAAAT-AATAA
* *
100243 ATATGTACATATAATACATAGATAAATAATAA
1 ATATGTACATATAATACATAAACAAATAATAA
100275 ATATGTACAT
1 ATATGTACAT
100285 TACACATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 15 0.38
33 25 0.62
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (32 bp):
ATATGTACATATAATACATAAACAAATAATAA
Found at i:101359 original size:20 final size:20
Alignment explanation
Indices: 101322--101364 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
101312 TTTTAATGGG
*
101322 TTAGATTTGGTTTTATTTTA
1 TTAGATTTGGTTTTATTTCA
*
101342 TTAGATTT-TTTTTGATTTCA
1 TTAGATTTGGTTTT-ATTTCA
101362 TTA
1 TTA
101365 TTGATGTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.21, C:0.02, G:0.12, T:0.65
Consensus pattern (20 bp):
TTAGATTTGGTTTTATTTCA
Found at i:101611 original size:3 final size:3
Alignment explanation
Indices: 101605--101654 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
101595 ATATTATTAA
101605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
101653 AA
1 AA
101655 AACGTTGGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:103344 original size:25 final size:24
Alignment explanation
Indices: 103306--103373 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
103296 GTTGAACAAG
* *
103306 TTTTGAAAATGTTTTAAGAAAGGA
1 TTTTGAAAATGTTTGAAGAAAGAA
*
103330 TTTTGAATAATGTTTGATGAAAGAA
1 TTTTGAA-AATGTTTGAAGAAAGAA
*
103355 TTTAGAAAAATGTTTGAAG
1 TTTTG-AAAATGTTTGAAG
103374 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.19
25 28 0.76
26 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (24 bp):
TTTTGAAAATGTTTGAAGAAAGAA
Found at i:104699 original size:20 final size:20
Alignment explanation
Indices: 104674--104744 Score: 142
Period size: 20 Copynumber: 3.5 Consensus size: 20
104664 AAAATGACTG
104674 GTATCGATACTCTTTCTTGA
1 GTATCGATACTCTTTCTTGA
104694 GTATCGATACTCTTTCTTGA
1 GTATCGATACTCTTTCTTGA
104714 GTATCGATACTCTTTCTTGA
1 GTATCGATACTCTTTCTTGA
104734 GTATCGATACT
1 GTATCGATACT
104745 TCTGGCATGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (20 bp):
GTATCGATACTCTTTCTTGA
Found at i:104769 original size:40 final size:38
Alignment explanation
Indices: 104672--104776 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 38
104662 ACAAAATGAC
**
104672 TGGTATCGATACTCTTTCTTGAGTATCGATACTCTTTCT
1 TGGTATCGATAC-CTTTCTTGAGTATCGATACTCTGGCT
104711 TGAGTATCGATACTCTTTCTTGAGTATCGATACTTCTGGCAT
1 TG-GTATCGATAC-CTTTCTTGAGTATCGATAC-TCTGGC-T
104753 GTGGTATCGATA-CTTTCTTGAGTA
1 -TGGTATCGATACCTTTCTTGAGTA
104777 CATATATTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
39 2 0.03
40 42 0.70
41 4 0.07
42 10 0.17
43 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (38 bp):
TGGTATCGATACCTTTCTTGAGTATCGATACTCTGGCT
Done.