Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007336.1 Hibiscus syriacus cultivar Beakdansim tig00019633_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: 219927
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3444 original size:7 final size:7
Alignment explanation
Indices: 3434--3459 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3424 TGAAAAAGAA
3434 AAAGAGG
1 AAAGAGG
3441 AAAGAGG
1 AAAGAGG
3448 AAAGAGG
1 AAAGAGG
3455 AAAGA
1 AAAGA
3460 AAAATAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (7 bp):
AAAGAGG
Found at i:4990 original size:2 final size:2
Alignment explanation
Indices: 4977--5156 Score: 109
Period size: 2 Copynumber: 99.5 Consensus size: 2
4967 TTTTGCTTTT
*
4977 TA TA TG TA TA TA TA GTA TA TA GTA TA TA T- TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
5019 GTA TA T- TA T- TA T- TA T- TA T- TA T- TA T- TA T- TA TA TA T-
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
5053 TA T- TA TA TA T- TG TA TA TA T- TA TA CA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
5091 TA T- TA T- TA TG TA TA TA TA T- TA TA TA TA TA T- TC TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5128 TA TA T- TA TA TA TT TA GT- TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA T
5157 TTTATTATTA
Statistics
Matches: 142, Mismatches: 9, Indels: 54
0.69 0.04 0.26
Matches are distributed among these distances:
1 23 0.16
2 112 0.79
3 7 0.05
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (2 bp):
TA
Found at i:4995 original size:7 final size:7
Alignment explanation
Indices: 4985--5166 Score: 157
Period size: 7 Copynumber: 26.3 Consensus size: 7
4975 TTTATATGTA
*
4985 TATATAG
1 TATATAT
*
4992 TATATAG
1 TATATAT
4999 TATATAT
1 TATATAT
5006 TATATAT
1 TATATAT
*
5013 TATATAG
1 TATATAT
5020 TATATTAT
1 TATA-TAT
5028 TAT-TAT
1 TATATAT
5034 TAT-TAT
1 TATATAT
5040 TAT-TAT
1 TATATAT
5046 TATATAT
1 TATATAT
5053 TAT-TA-
1 TATATAT
5058 TATAT-T
1 TATATAT
5064 GTATATAT
1 -TATATAT
* *
5072 TATACAA
1 TATATAT
5079 TATATAT
1 TATATAT
5086 ATATATAT
1 -TATATAT
*
5094 TATTATGT
1 TA-TATAT
5102 ATATATAT
1 -TATATAT
5110 TATATAT
1 TATATAT
*
5117 ATATTCTAT
1 -TA-TATAT
5126 TATATAT
1 TATATAT
5133 TATATAT
1 TATATAT
*
5140 T-TA-GT
1 TATATAT
5145 TATATAT
1 TATATAT
*
5152 TATATTT
1 TATATAT
5159 TAT-TAT
1 TATATAT
5165 TA
1 TA
5167 ATTTATTTTC
Statistics
Matches: 147, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
5 5 0.03
6 29 0.20
7 82 0.56
8 25 0.17
9 6 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (7 bp):
TATATAT
Found at i:5009 original size:12 final size:11
Alignment explanation
Indices: 4983--5157 Score: 145
Period size: 12 Copynumber: 15.9 Consensus size: 11
4973 TTTTTATATG
*
4983 TATATATAGTA
1 TATATATATTA
4994 TATAGTATA-TA
1 TATA-TATATTA
5005 T-TATATATTA
1 TATATATATTA
5015 TATAGTATATTA
1 TATA-TATATTA
5027 T-TAT-TATTA
1 TATATATATTA
5036 T-TAT-TATTA
1 TATATATATTA
5045 T-TATATATTA
1 TATATATATTA
5055 T-TATATA-T-
1 TATATATATTA
*
5063 TGTATATATTA
1 TATATATATTA
*
5074 TACAATATATATA
1 TA-TATATAT-TA
5087 TATATATTATTA
1 TATATA-TATTA
5099 TGTATATATATTA
1 --TATATATATTA
*
5112 TATATATATTC
1 TATATATATTA
5123 TATTATATATTA
1 TA-TATATATTA
*
5135 TATATTTAGTTA
1 TATATATA-TTA
5147 TATATTATATT
1 TATA-TATATT
5158 TTATTATTAA
Statistics
Matches: 141, Mismatches: 7, Indels: 31
0.79 0.04 0.17
Matches are distributed among these distances:
8 1 0.01
9 29 0.21
10 19 0.13
11 29 0.21
12 42 0.30
13 15 0.11
14 6 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TATATATATTA
Found at i:5127 original size:54 final size:54
Alignment explanation
Indices: 4983--5164 Score: 98
Period size: 51 Copynumber: 3.6 Consensus size: 54
4973 TTTTTATATG
* * * *
4983 TATATATAGTATATAGTA-TA-TAT-TATATATTATATAGTATAT-TATTAT-TAT
1 TATATATA-TATATATTATTATTATATAT-TATTATATATTATATATATTATACAA
*
5034 TAT-TAT-TAT-TATTA-TA-TAT-TATTA-TATAT-T-GTATATATTATACAA
1 TATATATATATATATTATTATTATATATTATTATATATTATATATATTATACAA
*
5079 TATATATATATATATTATTATGTATATA-TATTATATA-TATATTCTATTAT---A
1 TATATATATATATATTATTAT-TATATATTATTATATATTATA-TATATTATACAA
* *
5130 TAT-TATATATTTAGTTATATATTATATTTTATTAT
1 TATATATATATATA-TTAT-TATTATATATTATTAT
5165 TAATTTATTT
Statistics
Matches: 106, Mismatches: 9, Indels: 31
0.73 0.06 0.21
Matches are distributed among these distances:
43 3 0.03
44 6 0.06
45 9 0.08
46 5 0.05
47 15 0.14
48 8 0.08
49 2 0.02
50 12 0.11
51 21 0.20
52 16 0.15
53 2 0.02
54 7 0.07
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (54 bp):
TATATATATATATATTATTATTATATATTATTATATATTATATATATTATACAA
Found at i:7258 original size:30 final size:32
Alignment explanation
Indices: 7214--7276 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
7204 TTTCTATACA
*
7214 TTTTTGGTTCTTTA-CTATTATAT-TATATTAT
1 TTTTTGGTTCTTTACCT-TTATATATACATTAT
*
7245 TTTTTTGTT-TTTACCTTTATATATACATTAT
1 TTTTTGGTTCTTTACCTTTATATATACATTAT
7276 T
1 T
7277 CTTTATACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (32 bp):
TTTTTGGTTCTTTACCTTTATATATACATTAT
Found at i:8767 original size:53 final size:51
Alignment explanation
Indices: 8684--8800 Score: 198
Period size: 53 Copynumber: 2.3 Consensus size: 51
8674 TTAAGTAGAT
*
8684 ATTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATATAATCA
1 ATTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCA
*
8735 ATTTTTTATTCTGTTAGTTATTAGATATGATCAGTTTTAATTAGATAGAATCA
1 A--TTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCA
8788 ATTTTATTCTGTT
1 ATTTTATTCTGTT
8801 GCTAATTTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
51 13 0.21
53 49 0.79
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (51 bp):
ATTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCA
Found at i:8779 original size:20 final size:19
Alignment explanation
Indices: 8699--8795 Score: 62
Period size: 20 Copynumber: 5.3 Consensus size: 19
8689 ATTCTGTTAG
*
8699 TTATTAGATAGGATCAGTT
1 TTATTAGATATGATCAGTT
* *
8718 TTAATTAGATATAATCAATT
1 TT-ATTAGATATGATCAGTT
* * *
8738 TT-TTA-TTCTG-TTAG--
1 TTATTAGATATGATCAGTT
8752 TTATTAGATATGATCAGTT
1 TTATTAGATATGATCAGTT
*
8771 TTAATTAGATA-GAATCAATT
1 TT-ATTAGATATG-ATCAGTT
8791 TTATT
1 TTATT
8796 CTGTTGCTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
14 2 0.03
15 3 0.05
16 5 0.09
17 5 0.09
18 3 0.05
19 8 0.14
20 32 0.55
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.48
Consensus pattern (19 bp):
TTATTAGATATGATCAGTT
Found at i:13397 original size:20 final size:20
Alignment explanation
Indices: 13364--13402 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13354 TCTGTTAGTT
*
13364 ATTAGATAAGATCAGTTTTA
1 ATTAGATAAGATCAATTTTA
13384 ATTAGAT-AGAATCAATTTT
1 ATTAGATAAG-ATCAATTTT
13403 TTATTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
ATTAGATAAGATCAATTTTA
Found at i:13411 original size:53 final size:51
Alignment explanation
Indices: 13348--13467 Score: 197
Period size: 53 Copynumber: 2.3 Consensus size: 51
13338 TAACTAGATA
*
13348 TTTTATTCTGTTAGTTATTAGATAAGATCAGTTTTAATTAGATAGAATCAATT
1 TTTTATTCTGTTAGTTATTAGATAAGATCAGTTTTAATTAGATAGAATC-A-G
*
13401 TTTTATTCTGTTAGTTATTAGATATGATCAGTTTTAATTAGATAGAATCAG
1 TTTTATTCTGTTAGTTATTAGATAAGATCAGTTTTAATTAGATAGAATCAG
13452 TTTTATTCTGTT-GTTA
1 TTTTATTCTGTTAGTTA
13468 ATTTTATTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
50 4 0.06
51 12 0.18
52 1 0.02
53 48 0.74
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (51 bp):
TTTTATTCTGTTAGTTATTAGATAAGATCAGTTTTAATTAGATAGAATCAG
Found at i:13442 original size:20 final size:20
Alignment explanation
Indices: 13417--13456 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13407 TCTGTTAGTT
13417 ATTAGATATG-ATCAGTTTTA
1 ATTAGATA-GAATCAGTTTTA
13437 ATTAGATAGAATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
13457 TTCTGTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:22653 original size:7 final size:7
Alignment explanation
Indices: 22641--22698 Score: 62
Period size: 8 Copynumber: 7.6 Consensus size: 7
22631 CTCTAAATTA
22641 AAAAAAG
1 AAAAAAG
22648 AAAAAAGAG
1 -AAAAA-AG
22657 AAAAAGAG
1 AAAAA-AG
22665 AAAAAGAG
1 AAAAA-AG
22673 AAAAAAG
1 AAAAAAG
22680 AACAAAAG
1 AA-AAAAG
*
22688 AAAAGAG
1 AAAAAAG
22695 AAAA
1 AAAA
22699 GAAAAATAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
7 12 0.26
8 33 0.70
9 2 0.04
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:22662 original size:15 final size:15
Alignment explanation
Indices: 22642--22698 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
22632 TCTAAATTAA
22642 AAAAAGAAAAAAGAG
1 AAAAAGAAAAAAGAG
22657 AAAAAGAGAAAAAGAG
1 AAAAAGA-AAAAAGAG
22673 AAAAAAGAACAAAAGA-
1 -AAAAAGAA-AAAAGAG
*
22689 AAAGAGAAAA
1 AAAAAGAAAA
22699 GAAAAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 2 0.05
15 14 0.37
16 9 0.24
17 13 0.34
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAGAG
Found at i:22699 original size:7 final size:7
Alignment explanation
Indices: 22643--22704 Score: 63
Period size: 7 Copynumber: 8.6 Consensus size: 7
22633 CTAAATTAAA
*
22643 AAAAGAA
1 AAAAGAG
22650 AAAAGAG
1 AAAAGAG
22657 AAAAAGAG
1 -AAAAGAG
22665 AAAAAGAG
1 -AAAAGAG
*
22673 AAAAAAG
1 AAAAGAG
*
22680 AACAAAAG
1 AA-AAGAG
22688 AAAAGAG
1 AAAAGAG
22695 AAAAGA-
1 AAAAGAG
22701 AAAA
1 AAAA
22705 TAAGGTGGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
6 4 0.08
7 24 0.48
8 22 0.44
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:24022 original size:110 final size:110
Alignment explanation
Indices: 23820--24026 Score: 299
Period size: 110 Copynumber: 1.9 Consensus size: 110
23810 TCCTATTTTT
* * *
23820 AGAGGCAATTTCAACTTCACAGCGAAGGATATTGGACTCAATGCAACACAAGTTCAACTTCACGA
1 AGAGGCAATTTCAACTTCACAGCGAAGGATATTAGACTCAATGCAACACAAGCTCAACTTCACAA
**
23885 CGAAGGGGCGACTGGTTGTCAACAAACAATTTATTAGTTTCATTC
66 CGAAGGGGCGACTGACTGTCAACAAACAATTTATTAGTTTCATTC
* * **
23930 AGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGA-GACAGTACAAGCTCAACTTCACA
1 AGAGGCAATTTCAACTTCACAGCGAAGGATATTAGACTCAATG-CAACACAAGCTCAACTTCACA
* *
23994 ACGAAGGGGCGGCTGACTGTCAATAAACAATTT
65 ACGAAGGGGCGACTGACTGTCAACAAACAATTT
24027 CCCAGTTCCA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 1 0.01
110 84 0.99
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (110 bp):
AGAGGCAATTTCAACTTCACAGCGAAGGATATTAGACTCAATGCAACACAAGCTCAACTTCACAA
CGAAGGGGCGACTGACTGTCAACAAACAATTTATTAGTTTCATTC
Found at i:26207 original size:25 final size:26
Alignment explanation
Indices: 26157--26212 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
26147 GTTTTTGTTT
26157 TTTTTTTTACCGTTATATATACATTA
1 TTTTTTTTACCGTTATATATACATTA
*
26183 TTTTTTTTA-CTTTCATATATA-ATTA
1 TTTTTTTTACCGTT-ATATATACATTA
26208 TTTTT
1 TTTTT
26213 GTCTTTACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTTTTTACCGTTATATATACATTA
Found at i:26219 original size:28 final size:26
Alignment explanation
Indices: 26157--26231 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
26147 GTTTTTGTTT
** *
26157 TTTTTTTTACCGTTATATATACATTA
1 TTTTTTTTACTATCATATATACATTA
*
26183 TTTTTTTTACTTTCATATATA-ATTA
1 TTTTTTTTACTATCATATATACATTA
26208 TTTTTGTCTTTACTATCAT-TATAC
1 -TTTT-T-TTTACTATCATATATAC
26232 TTGCCTATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.10
26 22 0.54
27 5 0.12
28 10 0.24
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.60
Consensus pattern (26 bp):
TTTTTTTTACTATCATATATACATTA
Found at i:31302 original size:2 final size:2
Alignment explanation
Indices: 31297--31335 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
31287 TATATACACT
31297 TA TA TA TA TA 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 TA TA TA TA TA T
31336 TTGTGCACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31421 original size:15 final size:15
Alignment explanation
Indices: 31370--31410 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
31360 TATAGTTTTG
*
31370 TATATACTTGTATAT
1 TATATACTTTTATAT
*
31385 ACATATACTTTTATAT
1 -TATATACTTTTATAT
31401 TATATACTTT
1 TATATACTTT
31411 ATACTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (15 bp):
TATATACTTTTATAT
Found at i:31951 original size:131 final size:132
Alignment explanation
Indices: 31776--32031 Score: 365
Period size: 131 Copynumber: 1.9 Consensus size: 132
31766 ATAACGTATA
* * *
31776 TATATATTATAAGTAGATTGGACTATGTATTTAGTAGTATAAATGGACTTATATTAATAAAATTG
1 TATATATTAAAAGTAGATTGAACTATGTATTTAGTAGTACAAATGGACTTATATTAATAAAATTG
* *
31841 ACTTCTATAT-ATATAGATATATACTTAATTGTATATTCGACTTACAAATGGGTTTATAAGAAAT
66 ACTTCTAT-TCATATACATATATACTTAATTGTATATTCGACTTACAAATGAGTTTATAAGAAAT
31905 TTT
130 TTT
*
31908 TATATA-TAAAAGTAGATTGAACTATGTACTTT-GTAGTACAAATGGGCTTATATTAATAAAATT
1 TATATATTAAAAGTAGATTGAACTATGTA-TTTAGTAGTACAAATGGACTTATATTAATAAAATT
* * * * * *
31971 GGCTTCTATTCATATACATTTATACTTAATTGTGTATTGGGCTTACATATGAGTTTATAAG
65 GACTTCTATTCATATACATATATACTTAATTGTATATTCGACTTACAAATGAGTTTATAAG
32032 TATTGGATTA
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
130 1 0.01
131 100 0.91
132 9 0.08
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (132 bp):
TATATATTAAAAGTAGATTGAACTATGTATTTAGTAGTACAAATGGACTTATATTAATAAAATTG
ACTTCTATTCATATACATATATACTTAATTGTATATTCGACTTACAAATGAGTTTATAAGAAATT
TT
Found at i:32162 original size:2 final size:2
Alignment explanation
Indices: 32157--32222 Score: 107
Period size: 2 Copynumber: 33.0 Consensus size: 2
32147 TACGTCATAC
*
32157 AT AT AT AT AT AT AG ACT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
32199 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
32223 GCACACACAC
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32409 original size:19 final size:20
Alignment explanation
Indices: 32375--32414 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
32365 ATATATTTTG
32375 TAATACAAATGGACTTATAT
1 TAATACAAATGGACTTATAT
*
32395 TAATA-AAATGTACTTATAT
1 TAATACAAATGGACTTATAT
32414 T
1 T
32415 TATTTCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (20 bp):
TAATACAAATGGACTTATAT
Found at i:32464 original size:2 final size:2
Alignment explanation
Indices: 32459--32599 Score: 67
Period size: 2 Copynumber: 70.0 Consensus size: 2
32449 ATTTTATACT
* * ** * * * *
32459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA CC CA CA CA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
32501 TCA TA CA TA TA TA CT- TA TA TA TA TA TA TA TGC T- TG TA CTT TA
1 T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA T-A TA TA TA -TA TA
*
32543 TA TA TA TG TA CT- TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
32584 AA TA CTA -A TA TA TA TA
1 TA TA -TA TA TA TA TA TA
32600 CTTATATTTA
Statistics
Matches: 114, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
1 5 0.04
2 101 0.89
3 8 0.07
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:32600 original size:12 final size:12
Alignment explanation
Indices: 32544--32611 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
32534 TGTACTTTAT
* *
32544 ATATATGTACTT
1 ATATATATACTA
32556 ATATATATA-T-
1 ATATATATACTA
32566 ATATATATA-TA
1 ATATATATACTA
*
32577 TATATTAAATACTA
1 -ATA-TATATACTA
*
32591 ATATATATACTT
1 ATATATATACTA
*
32603 ATATTTATA
1 ATATATATA
32612 AAAGTATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
10 10 0.21
11 1 0.02
12 26 0.55
13 8 0.17
14 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (12 bp):
ATATATATACTA
Found at i:33621 original size:16 final size:16
Alignment explanation
Indices: 33600--33640 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
33590 CTGTTTTGAC
33600 CTGAACTGATATCGAT
1 CTGAACTGATATCGAT
33616 CTGAACTGATATCGAT
1 CTGAACTGATATCGAT
33632 CTGAACTGA
1 CTGAACTGA
33641 AATTAACTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (16 bp):
CTGAACTGATATCGAT
Found at i:33640 original size:21 final size:21
Alignment explanation
Indices: 33616--33668 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
33606 TGATATCGAT
*
33616 CTGAACTGATA-TCGATCTGAA
1 CTGAACTGA-ACTCGATCCGAA
* *
33637 CTGAAATTAACTCGATCCGAA
1 CTGAACTGAACTCGATCCGAA
33658 CTCGAACTGAA
1 CT-GAACTGAA
33669 TCTAATGTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 18 0.72
22 6 0.24
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (21 bp):
CTGAACTGAACTCGATCCGAA
Found at i:34474 original size:17 final size:18
Alignment explanation
Indices: 34452--34491 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
34442 TAAAAATACA
34452 AATAAAAATATA-TTTAT
1 AATAAAAATATATTTTAT
34469 AATAAAAATATATTTTAT
1 AATAAAAATATATTTTAT
34487 AATAA
1 AATAA
34492 CTCACTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAAAAATATATTTTAT
Found at i:35127 original size:28 final size:27
Alignment explanation
Indices: 35087--35143 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
35077 GTTATATTTT
35087 ATATAAATAAATATGAGTAATAATAAAA
1 ATATAAATAAATATGA-TAATAATAAAA
* *
35115 ATATAAATAAATATGATACTTATAAAA
1 ATATAAATAAATATGATAATAATAAAA
35142 AT
1 AT
35144 TATTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
ATATAAATAAATATGATAATAATAAAA
Found at i:35451 original size:80 final size:80
Alignment explanation
Indices: 35362--35510 Score: 280
Period size: 80 Copynumber: 1.9 Consensus size: 80
35352 AACACAAATT
* *
35362 CAAACACAAATAATCTTATCTTCTGTTAATGAAACCCTCCTCAAAGATAAATTAAAAACACCCTA
1 CAAACACAAATAATCTTATCTTCCGTGAATGAAACCCTCCTCAAAGATAAATTAAAAACACCCTA
35427 AACCTAACCCTAACA
66 AACCTAACCCTAACA
35442 CAAACACAAATAATCTTATCTTCCGTGAATGAAACCCTCCTCAAAGATAAATTAAAAACACCCTA
1 CAAACACAAATAATCTTATCTTCCGTGAATGAAACCCTCCTCAAAGATAAATTAAAAACACCCTA
35507 AACC
66 AACC
35511 CACTGAGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.45, C:0.28, G:0.05, T:0.23
Consensus pattern (80 bp):
CAAACACAAATAATCTTATCTTCCGTGAATGAAACCCTCCTCAAAGATAAATTAAAAACACCCTA
AACCTAACCCTAACA
Found at i:39945 original size:24 final size:24
Alignment explanation
Indices: 39912--39957 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
39902 ACCGTCGCGT
*
39912 AGAATTTGCAACGAAGTGCCACGA
1 AGAATATGCAACGAAGTGCCACGA
* *
39936 AGAATATGCACCGGAGTGCCAC
1 AGAATATGCAACGAAGTGCCAC
39958 ATAGATTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.15
Consensus pattern (24 bp):
AGAATATGCAACGAAGTGCCACGA
Found at i:39987 original size:23 final size:23
Alignment explanation
Indices: 39954--40031 Score: 111
Period size: 23 Copynumber: 3.4 Consensus size: 23
39944 CACCGGAGTG
39954 CCACATAGATTTGTCCCGAAGGA
1 CCACATAGATTTGTCCCGAAGGA
* * *
39977 CCGCATAGATTTGTCCTGAAAGA
1 CCACATAGATTTGTCCCGAAGGA
*
40000 CCACATAGAGTTGTCCCGAAGGA
1 CCACATAGATTTGTCCCGAAGGA
*
40023 CCACTTAGA
1 CCACATAGA
40032 ACCCTCGACT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CCACATAGATTTGTCCCGAAGGA
Found at i:42119 original size:83 final size:83
Alignment explanation
Indices: 42017--42182 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 83
42007 AGGACCAAGA
*
42017 ACGTCCCAATATTTTAATTTGAACCAATTAAGCTGTGTTCTACATTTTCTTCCATACAAAGCCTC
1 ACGTCCCAATATTTTAATTTGAACCAATTAAGCTGTGTTCTACATTTTCTTCCACACAAAGCCTC
42082 ATACGGTTCCATTTTAAT
66 ATACGGTTCCATTTTAAT
*
42100 ACGTCCCAATCTTTTAATTTGAACCAATTAAGCTGTGTTCTACATTTTCTTCCACACAAAGCCTC
1 ACGTCCCAATATTTTAATTTGAACCAATTAAGCTGTGTTCTACATTTTCTTCCACACAAAGCCTC
42165 ATACGGTTCCATTTTAAT
66 ATACGGTTCCATTTTAAT
42183 GCTCGATTGA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (83 bp):
ACGTCCCAATATTTTAATTTGAACCAATTAAGCTGTGTTCTACATTTTCTTCCACACAAAGCCTC
ATACGGTTCCATTTTAAT
Found at i:46770 original size:11 final size:11
Alignment explanation
Indices: 46754--46792 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
46744 AGATCAATTT
46754 CATATAAATAA
1 CATATAAATAA
**
46765 CATATAAATTT
1 CATATAAATAA
46776 CATATAAATAA
1 CATATAAATAA
46787 CATATA
1 CATATA
46793 CTGTTATGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (11 bp):
CATATAAATAA
Found at i:46774 original size:22 final size:22
Alignment explanation
Indices: 46749--46792 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
46739 AAACAAGATC
46749 AATTTCATATAAATAACATATA
1 AATTTCATATAAATAACATATA
46771 AATTTCATATAAATAACATATA
1 AATTTCATATAAATAACATATA
46793 CTGTTATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTTCATATAAATAACATATA
Found at i:47500 original size:20 final size:20
Alignment explanation
Indices: 47475--47519 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
47465 TTAAGTTGAA
*
47475 CAGTATCGGTACTCTACACC
1 CAGTATCAGTACTCTACACC
47495 CAGTATCAGTACTCTACACC
1 CAGTATCAGTACTCTACACC
47515 CAGTA
1 CAGTA
47520 CCGATACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.24
Consensus pattern (20 bp):
CAGTATCAGTACTCTACACC
Found at i:47873 original size:24 final size:24
Alignment explanation
Indices: 47854--47913 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
47844 CCTTTAACAT
47854 TAAAATTTCATCTTATTTTAAAAC
1 TAAAATTTCATCTTATTTTAAAAC
47878 TAAAATTTCATCTTATTTTAAAAC
1 TAAAATTTCATCTTATTTTAAAAC
47902 TAAAATTTCATC
1 TAAAATTTCATC
47914 CATTCTTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (24 bp):
TAAAATTTCATCTTATTTTAAAAC
Found at i:50758 original size:17 final size:17
Alignment explanation
Indices: 50721--50756 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
50711 GTTATATATA
50721 TGTTGGAACTGAAATTG
1 TGTTGGAACTGAAATTG
50738 TGTT-GAAC-GAAATT-
1 TGTTGGAACTGAAATTG
50752 TGTTG
1 TGTTG
50757 TTTAGAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.22
15 6 0.33
16 4 0.22
17 4 0.22
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.39
Consensus pattern (17 bp):
TGTTGGAACTGAAATTG
Found at i:60651 original size:2 final size:2
Alignment explanation
Indices: 60644--60730 Score: 165
Period size: 2 Copynumber: 43.5 Consensus size: 2
60634 CTATGTTGAT
60644 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
60686 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
60728 AG A
1 AG A
60731 TTACAACACG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:61255 original size:2 final size:2
Alignment explanation
Indices: 61248--61273 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61238 AATCATCCTT
61248 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
61274 AATTTAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:63911 original size:24 final size:24
Alignment explanation
Indices: 63874--63931 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
63864 CTCTTGTGGT
* *
63874 TGGCTGCTGTTGAGACTGAGATTG
1 TGGCTGCTGCTGAGACTGAGACTG
* *
63898 TGGCTGTTGCTGAGGCTGAGACTG
1 TGGCTGCTGCTGAGACTGAGACTG
*
63922 TGGCGGCTGC
1 TGGCTGCTGC
63932 GGAGGCTGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.17, G:0.41, T:0.29
Consensus pattern (24 bp):
TGGCTGCTGCTGAGACTGAGACTG
Found at i:63936 original size:24 final size:24
Alignment explanation
Indices: 63889--63939 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
63879 GCTGTTGAGA
* * * *
63889 CTGAGATTGTGGCTGTTGCTGAGG
1 CTGAGACTGTGGCGGCTGCGGAGG
63913 CTGAGACTGTGGCGGCTGCGGAGG
1 CTGAGACTGTGGCGGCTGCGGAGG
63937 CTG
1 CTG
63940 TAGTGGCTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.18, G:0.45, T:0.25
Consensus pattern (24 bp):
CTGAGACTGTGGCGGCTGCGGAGG
Found at i:65057 original size:21 final size:21
Alignment explanation
Indices: 65024--65082 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
65014 ATTTACCGTG
**
65024 ATTGTGGCCGTCGCGGGTGCT
1 ATTGTGGCCGTCGCGGACGCT
* *
65045 ATTGCGGCTGTCGCGGACGCT
1 ATTGTGGCCGTCGCGGACGCT
65066 ATTGTGGCCGTCGCGGA
1 ATTGTGGCCGTCGCGGA
65083 TAACTCGGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.08, C:0.25, G:0.41, T:0.25
Consensus pattern (21 bp):
ATTGTGGCCGTCGCGGACGCT
Found at i:67605 original size:3 final size:3
Alignment explanation
Indices: 67597--67621 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
67587 ATTGTACACG
67597 GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA G
67622 GAGGAGGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:68763 original size:20 final size:20
Alignment explanation
Indices: 68738--68778 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
68728 TAAAAGAAAA
68738 ATAATG-ATTTGTAAAAATAT
1 ATAATGAATTT-TAAAAATAT
*
68758 ATAATGAATTTTAATAATAT
1 ATAATGAATTTTAAAAATAT
68778 A
1 A
68779 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
ATAATGAATTTTAAAAATAT
Found at i:69738 original size:65 final size:64
Alignment explanation
Indices: 69625--69769 Score: 177
Period size: 65 Copynumber: 2.2 Consensus size: 64
69615 GCACCAATCC
* * *
69625 ATGCATCGATGCACTTACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCACCATGCACCGATGCACTCAGGATTTTATG-AAACATCGAATGCACTTG
* * * *
69690 ATGCATTGATGCAC-CAGCCATGCATCGATGCACTCTGGCTATTT-TGAAACATCGAATGCACTT
1 ATGCATCGATGCACTCA-CCATGCACCGATGCACTCAGGAT-TTTATGAAACATCGAATGCACTT
69753 G
64 G
*
69754 ATGCATCGATACACTC
1 ATGCATCGATGCACTC
69770 TTAGTGCACC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
64 30 0.44
65 35 0.51
66 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (64 bp):
ATGCATCGATGCACTCACCATGCACCGATGCACTCAGGATTTTATGAAACATCGAATGCACTTG
Found at i:69783 original size:64 final size:63
Alignment explanation
Indices: 69645--69785 Score: 144
Period size: 64 Copynumber: 2.2 Consensus size: 63
69635 GCACTTACCA
* * * *
69645 TGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATTGATGCACCAGCC
1 TGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATACACCAG-C
* * *
69709 ATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTTGATGCATCGATACACTCTT
1 -TGCACCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCACTTGATGCATCGATACAC-C--
69772 AG-
61 AGC
69774 TGCACCGATGCA
1 TGCACCGATGCA
69786 GTAAAGGTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
64 40 0.62
65 19 0.30
66 3 0.05
67 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (63 bp):
TGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATACACCAGC
Found at i:75406 original size:17 final size:17
Alignment explanation
Indices: 75384--75441 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
75374 GGTGAAAATT
75384 AATTTTATGTTCAAACA
1 AATTTTATGTTCAAACA
75401 AATTTTATGTTCAAACA
1 AATTTTATGTTCAAACA
75418 AATTTTATGTTCAAACA
1 AATTTTATGTTCAAACA
*
75435 AAGTTTA
1 AATTTTA
75442 AAGATTAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (17 bp):
AATTTTATGTTCAAACA
Found at i:75612 original size:16 final size:16
Alignment explanation
Indices: 75591--75628 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
75581 AGTGCACCGA
75591 TGCATCCCTTTGAATG
1 TGCATCCCTTTGAATG
75607 TGCATCCCTTTGAATG
1 TGCATCCCTTTGAATG
75623 TGCATC
1 TGCATC
75629 GATACATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.37
Consensus pattern (16 bp):
TGCATCCCTTTGAATG
Found at i:75697 original size:45 final size:44
Alignment explanation
Indices: 75607--75702 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
75597 CCTTTGAATG
* *
75607 TGCATCCCTTTGAATGTGCATCGATACATCAGCTGATGCACCGA
1 TGCATCCCTTTGAATGTGCATCGATACAACAGCTCATGCACCGA
* *
75651 TGCATGCCC-TTGAATGTGCATCGATGCACAAGAGC-CATGCATCGA
1 TGCAT-CCCTTTGAATGTGCATCGAT--ACAACAGCTCATGCACCGA
75696 TGCATCC
1 TGCATCC
75703 GTCGGGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 23 0.51
45 16 0.36
46 6 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (44 bp):
TGCATCCCTTTGAATGTGCATCGATACAACAGCTCATGCACCGA
Found at i:77747 original size:19 final size:19
Alignment explanation
Indices: 77723--77774 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
77713 AATGCATTTG
* *
77723 ATGCATTGATGCACCAGCC
1 ATGCATCGATGCACCAACC
77742 ATGCATCGATGCACCAACC
1 ATGCATCGATGCACCAACC
*
77761 ATGAATCGATGCAC
1 ATGCATCGATGCAC
77775 TCTGGCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (19 bp):
ATGCATCGATGCACCAACC
Found at i:77754 original size:84 final size:83
Alignment explanation
Indices: 77657--77819 Score: 209
Period size: 84 Copynumber: 2.0 Consensus size: 83
77647 GAATGCTTTT
** * * * * *
77657 CATGCATCGATGCACTTACCATGCACCGATGCATTGAGGATGTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACCAACCATGAACCGATGCACTCAGGATATTATG-AAACATCGAATGCACTT
*
77722 GATGCATTGATGCACCAGC
65 GATGCATCGATGCACCAGC
* * * *
77741 CATGCATCGATGCACCAACCATGAATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTG
1 CATGCATCGATGCACCAACCATGAACCGATGCACTCAGGATATTATGAAACATCGAATGCACTTG
77806 ATGCATCGATGCAC
66 ATGCATCGATGCAC
77820 TCTTAGTGCA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
83 30 0.45
84 37 0.55
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (83 bp):
CATGCATCGATGCACCAACCATGAACCGATGCACTCAGGATATTATGAAACATCGAATGCACTTG
ATGCATCGATGCACCAGC
Found at i:77819 original size:17 final size:19
Alignment explanation
Indices: 77791--77839 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
77781 TATTTTGAAA
77791 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
77809 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
77828 CACCGATGCACT
1 CATCGATGCACT
77840 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:82208 original size:20 final size:20
Alignment explanation
Indices: 82185--82246 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
82175 TGACCGGGTT
82185 TTATATTTTTATTTTTATTA
1 TTATATTTTTATTTTTATTA
*
82205 TTATA-ATTTATTTATTATTA
1 TTATATTTTTATTT-TTATTA
*
82225 TTAATAATTTTTTTATTTTATT
1 TT-AT-ATTTTTAT-TTTTATT
82247 TTTTTTGTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 7 0.21
20 13 0.38
21 2 0.06
22 1 0.03
23 9 0.26
24 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATATTTTTATTTTTATTA
Found at i:82225 original size:23 final size:20
Alignment explanation
Indices: 82192--82246 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
82182 GTTTTATATT
82192 TTTATTT-TTATTATT-ATAA
1 TTTATTTATT-TTATTAATAA
82211 TTTATTTATTATTATTAATAA
1 TTTATTTATT-TTATTAATAA
*
82232 TTTTTTTATTTTATT
1 TTTATTTATTTTATT
82247 TTTTTTGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 7 0.21
20 13 0.39
21 13 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTTATTTTATTAATAA
Found at i:82251 original size:14 final size:15
Alignment explanation
Indices: 82183--82252 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 15
82173 TTTGACCGGG
* *
82183 TTTTATATTTTTATT
1 TTTTTTATTATTATT
* *
82198 TTTATTATTATAATT
1 TTTTTTATTATTATT
82213 TATTTATTATTATTAATAAT
1 T-TTT-TTATTATT-AT--T
82233 TTTTTTATT-TTATT
1 TTTTTTATTATTATT
82247 TTTTTT
1 TTTTTT
82253 GTAGGAACCC
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
14 7 0.16
15 12 0.27
16 4 0.09
17 9 0.20
18 7 0.16
19 3 0.07
20 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATTATTATT
Found at i:86808 original size:16 final size:16
Alignment explanation
Indices: 86787--86818 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
86777 ACACCATCTG
86787 CCAGAGATGGATTACC
1 CCAGAGATGGATTACC
86803 CCAGAGATGGATTACC
1 CCAGAGATGGATTACC
86819 AATCAGCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (16 bp):
CCAGAGATGGATTACC
Found at i:89887 original size:18 final size:18
Alignment explanation
Indices: 89865--89908 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
89855 CTTAAAATTA
89865 AATATTATTATA-AATAAT
1 AATATT-TTATATAATAAT
* *
89883 TATATTTTTTATAATAAT
1 AATATTTTATATAATAAT
89901 AATATTTT
1 AATATTTT
89909 CACCTCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATATTTTATATAATAAT
Found at i:89903 original size:21 final size:21
Alignment explanation
Indices: 89820--89903 Score: 59
Period size: 24 Copynumber: 3.9 Consensus size: 21
89810 ACAAATATAT
*
89820 TATTTTTT-TAATATATAATATC
1 TATTTTTTATAATA-ATAAT-TA
89842 TATTTTTTAATAACTTAA-AATTA
1 TATTTTTT-ATAA--TAATAATTA
* *
89865 AATATTATTAT-A-AATAATTA
1 TAT-TTTTTATAATAATAATTA
89885 TATTTTTTATAATAATAAT
1 TATTTTTTATAATAATAAT
89904 ATTTTCACCT
Statistics
Matches: 49, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
19 8 0.16
20 8 0.16
21 6 0.12
22 9 0.18
23 5 0.10
24 10 0.20
25 1 0.02
26 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTTTATAATAATAATTA
Found at i:90022 original size:3 final size:3
Alignment explanation
Indices: 90014--90051 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
90004 TCTCTTTGTA
90014 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
90052 AGTTTATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:90739 original size:14 final size:14
Alignment explanation
Indices: 90720--90746 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
90710 AACAGACTAT
90720 TCTGTTTTCTACAG
1 TCTGTTTTCTACAG
90734 TCTGTTTTCTACA
1 TCTGTTTTCTACA
90747 TGGTATCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.11, T:0.52
Consensus pattern (14 bp):
TCTGTTTTCTACAG
Found at i:95459 original size:13 final size:13
Alignment explanation
Indices: 95441--95467 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95431 TGAATGAAAT
95441 AAGAAAACATAAC
1 AAGAAAACATAAC
95454 AAGAAAACATAAC
1 AAGAAAACATAAC
95467 A
1 A
95468 GACTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.07, T:0.07
Consensus pattern (13 bp):
AAGAAAACATAAC
Found at i:96158 original size:30 final size:30
Alignment explanation
Indices: 96124--96181 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
96114 CACAAATCGA
*
96124 TCACTAATGTTATCATTTGTTTCAAAATGT
1 TCACTAATGTTATCATTTGTTACAAAATGT
*
96154 TCACTAATGTTATCTTTTGTTACAAAAT
1 TCACTAATGTTATCATTTGTTACAAAAT
96182 AATCACTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (30 bp):
TCACTAATGTTATCATTTGTTACAAAATGT
Found at i:96188 original size:30 final size:30
Alignment explanation
Indices: 96123--96188 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
96113 TCACAAATCG
* *
96123 ATCACTAATGTTATCATTTGTTTCAAAATG
1 ATCACTAATGTTATCATTTGTTACAAAATA
* *
96153 TTCACTAATGTTATCTTTTGTTACAAAATA
1 ATCACTAATGTTATCATTTGTTACAAAATA
96183 ATCACT
1 ATCACT
96189 CGACGTTAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (30 bp):
ATCACTAATGTTATCATTTGTTACAAAATA
Found at i:97718 original size:28 final size:28
Alignment explanation
Indices: 97677--97738 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
97667 ATCCATATAG
*
97677 AGAGCATGGCAAAAATGGTGGAAATCAA
1 AGAGCATGGAAAAAATGGTGGAAATCAA
97705 AGAGCATGGAAAAAATGGTGGAAATCAA
1 AGAGCATGGAAAAAATGGTGGAAATCAA
*
97733 GGAGCA
1 AGAGCA
97739 AACACTGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.10, G:0.31, T:0.13
Consensus pattern (28 bp):
AGAGCATGGAAAAAATGGTGGAAATCAA
Found at i:97943 original size:30 final size:30
Alignment explanation
Indices: 97870--97943 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
97860 GTTAACATCA
*
97870 AGTGACCATTTTGTAACAAACGATAACGTC
1 AGTGACCATTTTGTAACAAACAATAACGTC
* * *
97900 AGGGACCATTTTGTAGCAAACAATAACGTT
1 AGTGACCATTTTGTAACAAACAATAACGTC
* *
97930 AGTGATCAATTTGT
1 AGTGACCATTTTGT
97944 GACTTTTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (30 bp):
AGTGACCATTTTGTAACAAACAATAACGTC
Found at i:99236 original size:29 final size:29
Alignment explanation
Indices: 99185--99348 Score: 186
Period size: 29 Copynumber: 5.7 Consensus size: 29
99175 ACCGATGAAT
*
99185 TCCTGATTCTGCATGGGAATATATCCTCG
1 TCCTGATTCTGCATGGGATTATATCCTCG
* * *
99214 TCATGATTCTACATAGGATTATATTCC-CG
1 TCCTGATTCTGCATGGGATTATA-TCCTCG
* *
99243 TCCTGAGTCTGCATGGGATTATATCCTCT
1 TCCTGATTCTGCATGGGATTATATCCTCG
** * *
99272 TGTTGATTTTGCATGGGATTATATCCCCG
1 TCCTGATTCTGCATGGGATTATATCCTCG
* * *
99301 TTCTGATTTTGCATGAGATTATATCCTCG
1 TCCTGATTCTGCATGGGATTATATCCTCG
*
99330 TCCTGATTCTACATGGGAT
1 TCCTGATTCTGCATGGGAT
99349 CCTCTACATA
Statistics
Matches: 110, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
28 3 0.03
29 104 0.95
30 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (29 bp):
TCCTGATTCTGCATGGGATTATATCCTCG
Found at i:99254 original size:58 final size:58
Alignment explanation
Indices: 99185--99348 Score: 211
Period size: 58 Copynumber: 2.8 Consensus size: 58
99175 ACCGATGAAT
* * *
99185 TCCTGATTCTGCATGGGAATATATCCTCGTCATGATTCTACATAGGATTATATTCCCG
1 TCCTGATTCTGCATGGGATTATATCCTCGTCATGATTCTACATGGGATTATATCCCCG
* * ** * *
99243 TCCTGAGTCTGCATGGGATTATATCCTCTTGTTGATTTTGCATGGGATTATATCCCCG
1 TCCTGATTCTGCATGGGATTATATCCTCGTCATGATTCTACATGGGATTATATCCCCG
* * * *
99301 TTCTGATTTTGCATGAGATTATATCCTCGTCCTGATTCTACATGGGAT
1 TCCTGATTCTGCATGGGATTATATCCTCGTCATGATTCTACATGGGAT
99349 CCTCTACATA
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 88 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (58 bp):
TCCTGATTCTGCATGGGATTATATCCTCGTCATGATTCTACATGGGATTATATCCCCG
Found at i:99286 original size:87 final size:87
Alignment explanation
Indices: 99188--99348 Score: 211
Period size: 87 Copynumber: 1.9 Consensus size: 87
99178 GATGAATTCC
*
99188 TGATTCTGCATGGGAATATATCCTCG-TCATGATTCTACAT-AGGATTATATTCC-CGTCCTGAG
1 TGATTCTGCATGGGAATATATCCCCGTTC-TGATTCTACATGA-GATTATA-TCCTCGTCCTGAG
*
99250 TCTGCATGGGATTATATCCTCTTGT
63 TCTACATGGGATTATATCCTCTTGT
* * * * *
99275 TGATTTTGCATGGGATTATATCCCCGTTCTGATTTTGCATGAGATTATATCCTCGTCCTGATTCT
1 TGATTCTGCATGGGAATATATCCCCGTTCTGATTCTACATGAGATTATATCCTCGTCCTGAGTCT
99340 ACATGGGAT
66 ACATGGGAT
99349 CCTCTACATA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
86 3 0.05
87 58 0.91
88 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (87 bp):
TGATTCTGCATGGGAATATATCCCCGTTCTGATTCTACATGAGATTATATCCTCGTCCTGAGTCT
ACATGGGATTATATCCTCTTGT
Found at i:100527 original size:13 final size:13
Alignment explanation
Indices: 100505--100548 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
100495 ACCTTGACCA
*
100505 TTGATTGTTGACT
1 TTGATCGTTGACT
*
100518 TTGATCGTTGATCA
1 TTGATCGTTGA-CT
*
100532 TTGATGGTTGACT
1 TTGATCGTTGACT
100545 TTGA
1 TTGA
100549 CTATTTATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.18, C:0.09, G:0.25, T:0.48
Consensus pattern (13 bp):
TTGATCGTTGACT
Found at i:101129 original size:14 final size:14
Alignment explanation
Indices: 101110--101136 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101100 TTTATTAAAC
101110 AAATGATTTTGTTT
1 AAATGATTTTGTTT
101124 AAATGATTTTGTT
1 AAATGATTTTGTT
101137 ACTGGTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (14 bp):
AAATGATTTTGTTT
Found at i:107953 original size:14 final size:15
Alignment explanation
Indices: 107920--107956 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
107910 TCCAATCACT
*
107920 GAGTCAACTCTATTC
1 GAGTCAACTCTATCC
107935 GAGTCAACTC-ATCC
1 GAGTCAACTCTATCC
107949 GAGTCAAC
1 GAGTCAAC
107957 CCGTTGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (15 bp):
GAGTCAACTCTATCC
Found at i:123445 original size:17 final size:19
Alignment explanation
Indices: 123416--123450 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
123406 ATTTAAGAAA
123416 AAAATTGAAATAA-AAAAG
1 AAAATTGAAATAATAAAAG
123434 AAAATT-AAATAATAAAA
1 AAAATTGAAATAATAAAA
123451 ATTTAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (19 bp):
AAAATTGAAATAATAAAAG
Found at i:123722 original size:51 final size:51
Alignment explanation
Indices: 123640--123789 Score: 137
Period size: 51 Copynumber: 2.9 Consensus size: 51
123630 AAATAATTAG
* *
123640 TGACCAAAATGCATAAAATAGAAGGAT--AATAGCCAAATTATAAATAAACAA
1 TGACCAAAATGCAT-AAATTGAA-AATACAATAGCCAAATTATAAATAAACAA
** * * * * *
123691 TGACTGAAATGCATAAATTGAAAGA-ACAATAGCTAAATCAGAAATAAAGAG
1 TGACCAAAATGCATAAATTGAAA-ATACAATAGCCAAATTATAAATAAACAA
* *
123742 TGACCAAAATGCATAAATTGAAAATACAACA-CCAAATTCATGAATAAA
1 TGACCAAAATGCATAAATTGAAAATACAATAGCCAAATT-ATAAATAAA
123790 TAAAAAAAAC
Statistics
Matches: 78, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
50 14 0.18
51 64 0.82
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.20
Consensus pattern (51 bp):
TGACCAAAATGCATAAATTGAAAATACAATAGCCAAATTATAAATAAACAA
Found at i:123881 original size:17 final size:16
Alignment explanation
Indices: 123857--123888 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
123847 TTTGAATAAA
123857 TGGCAAAATAAAATAG
1 TGGCAAAATAAAATAG
123873 TGGCTAAAATAAAATA
1 TGGC-AAAATAAAATA
123889 AAATAGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (16 bp):
TGGCAAAATAAAATAG
Found at i:125358 original size:40 final size:42
Alignment explanation
Indices: 125285--125378 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 42
125275 AAACATTGAC
**
125285 CCAACTCCTT-TGTGATGGTTAACCAAAAGTGATG-T-TAAT
1 CCAACTCCTTATGTGATGGACAACCAAAAGTGATGATATAAT
* *
125324 CCAACTCCTTATGTGATGGACGACCTAAAA-TGATGATACTGAT
1 CCAACTCCTTATGTGATGGACAACC-AAAAGTGATGATA-TAAT
125367 CCAACTCCTTAT
1 CCAACTCCTTAT
125379 CCGATGGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 10 0.22
40 16 0.35
41 5 0.11
43 15 0.33
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (42 bp):
CCAACTCCTTATGTGATGGACAACCAAAAGTGATGATATAAT
Found at i:125987 original size:91 final size:91
Alignment explanation
Indices: 125825--125996 Score: 229
Period size: 91 Copynumber: 1.9 Consensus size: 91
125815 ATCGAGCTAT
* * *
125825 GGTTGAACAAGTTCTTCTCATTACGAACTTTTTCTCCCTCATCAGATGAGTTATTCTCATTATGA
1 GGTTGAACAAATTCTTCTCATTACGAACTTCTTCTCCCTCATCAGATGAGTTATTCTCAATATGA
* *
125890 ACTCTCCGCTGGAAATGTTGATTCCA
66 ACTCTCCACTAGAAATGTTGATTCCA
* * * * *
125916 GGTTGAACAAATTCTTGTCATTATGAACTTCTTCTCCCTCGTTC-GATGAGTTCTTCTCAATATT
1 GGTTGAACAAATTCTTCTCATTACGAACTTCTTCTCCCTC-ATCAGATGAGTTATTCTCAATATG
*
125980 AAGTCTCCACTAGAAAT
65 AACTCTCCACTAGAAAT
125997 TTTAACTGGT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
91 67 0.97
92 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (91 bp):
GGTTGAACAAATTCTTCTCATTACGAACTTCTTCTCCCTCATCAGATGAGTTATTCTCAATATGA
ACTCTCCACTAGAAATGTTGATTCCA
Found at i:128950 original size:29 final size:28
Alignment explanation
Indices: 128903--128975 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
128893 TGACTTGGGA
*
128903 AGGTAATGTGTTTTAGGTTAATTTTGAGG
1 AGGTAATGTGTTTCAGGTTAA-TTTGAGG
* *
128932 AGGTAATGTGTTTCGGGTTAATTTGGGG
1 AGGTAATGTGTTTCAGGTTAATTTGAGG
* *
128960 AGGTAATATGCTTCAG
1 AGGTAATGTGTTTCAG
128976 TTTGGCATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 19 0.50
29 19 0.50
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.40
Consensus pattern (28 bp):
AGGTAATGTGTTTCAGGTTAATTTGAGG
Found at i:128965 original size:28 final size:29
Alignment explanation
Indices: 128897--128975 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 29
128887 TTAAGCTGAC
* *
128897 TTGGGAAGGTAATGTGTTTTAGGTTAATT
1 TTGGGGAGGTAATGTGTTTCAGGTTAATT
* *
128926 TTGAGGAGGTAATGTGTTTCGGGTTAA-T
1 TTGGGGAGGTAATGTGTTTCAGGTTAATT
* *
128954 TTGGGGAGGTAATATGCTTCAG
1 TTGGGGAGGTAATGTGTTTCAG
128976 TTTGGCATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 19 0.45
29 23 0.55
ACGTcount: A:0.23, C:0.04, G:0.34, T:0.39
Consensus pattern (29 bp):
TTGGGGAGGTAATGTGTTTCAGGTTAATT
Found at i:129661 original size:31 final size:29
Alignment explanation
Indices: 129617--129718 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 29
129607 TCTTGAAGTA
129617 TTTCATTTGTTTTCTTTCTTCTTTTTCCTTTT
1 TTTC-TTT-TTTTCTTTCTTCTTTTT-CTTTT
*
129649 TTTCTTTATTTTCTCTCTAT-TTTTTCTTTT
1 TTTCTTT-TTTTCTTTCT-TCTTTTTCTTTT
*
129679 TATTC-TTCTTTC-TTCTTCTTCTTTCTTTT
1 T-TTCTTTTTTTCTTTCTTCTT-TTTCTTTT
*
129708 CTATCTTTTTT
1 -TTTCTTTTTT
129719 ATGTTGTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
27 1 0.02
28 5 0.09
29 14 0.24
30 13 0.22
31 20 0.34
32 5 0.09
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.75
Consensus pattern (29 bp):
TTTCTTTTTTTCTTTCTTCTTTTTCTTTT
Found at i:129697 original size:13 final size:12
Alignment explanation
Indices: 129635--129715 Score: 62
Period size: 13 Copynumber: 6.8 Consensus size: 12
129625 GTTTTCTTTC
129635 TTCTT-TTTCCTT
1 TTCTTCTTT-CTT
* *
129647 TTTTTCTTTATT
1 TTCTTCTTTCTT
* *
129659 TTC-TCTCTATT
1 TTCTTCTTTCTT
129670 TT-TTCTTT-TT
1 TTCTTCTTTCTT
129680 ATTCTTCTTTCTT
1 -TTCTTCTTTCTT
129693 CTTCTTCTTTCTT
1 -TTCTTCTTTCTT
129706 TTCTATCTTT
1 TTCT-TCTTT
129716 TTTATGTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
10 2 0.04
11 15 0.26
12 18 0.32
13 22 0.39
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (12 bp):
TTCTTCTTTCTT
Found at i:129717 original size:10 final size:9
Alignment explanation
Indices: 129631--129717 Score: 65
Period size: 9 Copynumber: 9.3 Consensus size: 9
129621 ATTTGTTTTC
129631 TTTCTTCTT
1 TTTCTTCTT
129640 TTTCCTT-TT
1 TTT-CTTCTT
129649 TTTCTT-TAT
1 TTTCTTCT-T
129658 TTTCTCTCTAT
1 TTTCT-TCT-T
129669 TTT-TTCTT
1 TTTCTTCTT
*
129677 TTTATTCTT
1 TTTCTTCTT
129686 CTTTCTTCTT
1 -TTTCTTCTT
*
129696 CTTCTT-TCT
1 TTTCTTCT-T
129705 TTTCTATCTT
1 TTTCT-TCTT
129715 TTT
1 TTT
129718 TATGTTGTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
8 9 0.14
9 32 0.48
10 18 0.27
11 7 0.11
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCTTCTT
Found at i:149864 original size:18 final size:18
Alignment explanation
Indices: 149841--149881 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
149831 AGGCATTTGA
*
149841 TCCTCTGGCT-GTGCTTTT
1 TCCTCT-GCTCGTGCTTGT
149859 TCCTCTGCTCGTGCTTGT
1 TCCTCTGCTCGTGCTTGT
149877 TCCTC
1 TCCTC
149882 GTGTTGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.00, C:0.34, G:0.20, T:0.46
Consensus pattern (18 bp):
TCCTCTGCTCGTGCTTGT
Found at i:153887 original size:21 final size:21
Alignment explanation
Indices: 153863--153902 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
153853 GTTTGTTTTC
*
153863 ATTTTTCA-ATTTTGAAACATT
1 ATTTTT-ATATTTTAAAACATT
153884 ATTTTTATATTTTAAAACA
1 ATTTTTATATTTTAAAACA
153903 ATTTCTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTTTATATTTTAAAACATT
Found at i:170207 original size:57 final size:58
Alignment explanation
Indices: 170116--170313 Score: 290
Period size: 58 Copynumber: 3.4 Consensus size: 58
170106 TCGAATTTAT
* * *
170116 TTTTGGGGCCCCTATTTTTTTGGACTTCTTAATGGCAACAACTGATAGATATACTCGA
1 TTTTGGGGCCCCTATTTTTTAGGGCTTCTTAATGGCAATAACTGATAGATATACTCGA
* * *
170174 TTTTGGGACCCCTATTTTTT-GGGCTTCTTAATGGCAATAACTTATAGATATAATCGA
1 TTTTGGGGCCCCTATTTTTTAGGGCTTCTTAATGGCAATAACTGATAGATATACTCGA
** * *
170231 TTTCAGGGCCCCTATTTTTTGGGGCTTTTTAATGGCAATAACTGATAGATATACTCGA
1 TTTTGGGGCCCCTATTTTTTAGGGCTTCTTAATGGCAATAACTGATAGATATACTCGA
*
170289 TTTCGGGGCCCCTATTTTTTAGGGC
1 TTTTGGGGCCCCTATTTTTTAGGGC
170314 CCTGTGCCGT
Statistics
Matches: 126, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
57 50 0.40
58 76 0.60
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (58 bp):
TTTTGGGGCCCCTATTTTTTAGGGCTTCTTAATGGCAATAACTGATAGATATACTCGA
Found at i:171666 original size:47 final size:47
Alignment explanation
Indices: 171612--171706 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
171602 CTTTATTAGA
171612 GTTAGAGAATCTTATTTATACTCTTCAATTTTTATCCTTCATAACCT
1 GTTAGAGAATCTTATTTATACTCTTCAATTTTTATCCTTCATAACCT
*
171659 GTTAGAGAATCTTATTTATACTCTTCAATTTTTATCTTTCATAACCT
1 GTTAGAGAATCTTATTTATACTCTTCAATTTTTATCCTTCATAACCT
171706 G
1 G
171707 ACCTAGAAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.47
Consensus pattern (47 bp):
GTTAGAGAATCTTATTTATACTCTTCAATTTTTATCCTTCATAACCT
Found at i:174216 original size:4 final size:4
Alignment explanation
Indices: 174170--174205 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
174160 TTTTTCTTTG
174170 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
174206 TCTTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:177362 original size:29 final size:30
Alignment explanation
Indices: 177294--177369 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
177284 GAACAAAGAG
177294 AAAAAAGG-AAAA-AAGAAAAAGAAACGAA
1 AAAAAAGGAAAAAGAAGAAAAAGAAACGAA
177322 AAAGAAATGGAAAAAGAAGAAAAA-AAAC-AA
1 AAA-AAA-GGAAAAAGAAGAAAAAGAAACGAA
*
177352 AGAAAAAGGAACAAGAAG
1 A-AAAAAGGAAAAAGAAG
177370 CACATGTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
28 3 0.07
29 13 0.31
30 8 0.19
31 10 0.24
32 8 0.19
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.01
Consensus pattern (30 bp):
AAAAAAGGAAAAAGAAGAAAAAGAAACGAA
Found at i:178903 original size:36 final size:35
Alignment explanation
Indices: 178819--178915 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 35
178809 TAATGTAGAT
* * *
178819 GATTTATCTCACTTGAGATTATTTTTCTTAAAACA
1 GATTTATCTCACTTGAGACTGTTTTACTTAAAACA
*
178854 GACTTTGTCTCACTTGAGACTGTTTTACTCTAAATA-A
1 GA-TTTATCTCACTTGAGACTGTTTTACT-TAAA-ACA
* **
178891 GATTTATTTCACTCAAGACTGTTTT
1 GATTTATCTCACTTGAGACTGTTTT
178916 TAAAGAAGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 2 0.04
36 41 0.80
37 7 0.14
38 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.44
Consensus pattern (35 bp):
GATTTATCTCACTTGAGACTGTTTTACTTAAAACA
Found at i:178974 original size:39 final size:39
Alignment explanation
Indices: 178921--179112 Score: 244
Period size: 39 Copynumber: 5.0 Consensus size: 39
178911 GTTTTTAAAG
178921 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * *
178960 AAGATTTTATCTCGCTTTAGATAGGTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * * *
178999 AAGATTTTGTCTCACTTAAGATAGTTTCCCTCAAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
179038 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-A
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * * * * *
179076 AA-ATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACA
179113 TAAACATTGA
Statistics
Matches: 133, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
37 29 0.22
38 3 0.02
39 101 0.76
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
Found at i:179175 original size:36 final size:36
Alignment explanation
Indices: 179128--179213 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
179118 ATTGAAAACA
** * * *
179128 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACAG
179164 TTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACAG
**
179200 TTTATCTTGAAACA
1 TTTCCCTTGAAACA
179214 TAAACTTTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACAG
Found at i:179217 original size:101 final size:102
Alignment explanation
Indices: 179041--179240 Score: 330
Period size: 101 Copynumber: 2.0 Consensus size: 102
179031 AAAACAAAAG
* *
179041 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCATGAGACAGTTTCTCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCATAAGACAGTTTATCT
179106 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
* * *
179143 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTAAGACAGTTTATCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCATAAGACAGTTTATCT
* *
179207 TGAAACATAAACTTTGAAAACGTTTCCCTTGAAA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAA
179241 CACAAAATAT
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 59 0.65
102 32 0.35
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCATAAGACAGTTTATCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
Found at i:179387 original size:66 final size:66
Alignment explanation
Indices: 179278--179434 Score: 215
Period size: 66 Copynumber: 2.4 Consensus size: 66
179268 TAAATGAGTT
* * ** ** *
179278 TTGAGACAGTTTCCCTTGAAACACCCACATTTGAGATTGTTTCCCTTGAAACATGTTTTGTCTCT
1 TTGAGACAGTTTCCCTTGAAACAACAACATTTGAGATCATTTCCCTTGAAACAAATTTTGTCTCC
179343 C
66 C
* *
179344 TTGAGACAGTTTCTCTTGAAACAACAACCTTTGAGATCATTTCCCTTGAAACAAATTTTGTCTCC
1 TTGAGACAGTTTCCCTTGAAACAACAACATTTGAGATCATTTCCCTTGAAACAAATTTTGTCTCC
179409 C
66 C
*
179410 TTGAGACAATTTTCCCTTGAAACAA
1 TTGAGAC-AGTTTCCCTTGAAACAA
179435 TAAATTTTAT
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
66 64 0.81
67 15 0.19
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (66 bp):
TTGAGACAGTTTCCCTTGAAACAACAACATTTGAGATCATTTCCCTTGAAACAAATTTTGTCTCC
C
Found at i:179435 original size:16 final size:16
Alignment explanation
Indices: 179383--179435 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 16
179373 TTTGAGATCA
179383 TTTCCCTTGAAACAAATTT
1 TTTCCCTTGAAAC-AA--T
*
179402 TGTCTCCCTTGAGACAAT
1 T-T-TCCCTTGAAACAAT
179420 TTTCCCTTGAAACAAT
1 TTTCCCTTGAAACAAT
179436 AAATTTTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 13 0.43
17 1 0.03
18 2 0.07
19 1 0.03
20 3 0.10
21 10 0.33
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (16 bp):
TTTCCCTTGAAACAAT
Found at i:180955 original size:26 final size:25
Alignment explanation
Indices: 180921--180970 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
180911 AACATTTTTT
* *
180921 CTTTGATTTATTTATTTATTTATTCC
1 CTTTGATTTAATTAATT-TTTATTCC
*
180947 CTTTTATTTAATTAATTTTTATTC
1 CTTTGATTTAATTAATTTTTATTC
180971 GATATTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (25 bp):
CTTTGATTTAATTAATTTTTATTCC
Found at i:185541 original size:45 final size:45
Alignment explanation
Indices: 185476--185587 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
185466 ACTTCTTTGT
* * *** *
185476 ATTAGGGTTAGGCTCGTTGCCTTTGGCTTCGGCGGCATTTTCTGC
1 ATTAGGTTTAGGCTCCTTGCCAAAGGCTTCGACGGCATTTTCTGC
* * *
185521 ATTAGGTTTAGGCTCCTTGCCAAAGGCTTCGATGGTATTTTCTGT
1 ATTAGGTTTAGGCTCCTTGCCAAAGGCTTCGACGGCATTTTCTGC
185566 ATTAGGTTTAGGCTCCTTGCCA
1 ATTAGGTTTAGGCTCCTTGCCA
185588 TCGGCTCCAG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.14, C:0.21, G:0.27, T:0.38
Consensus pattern (45 bp):
ATTAGGTTTAGGCTCCTTGCCAAAGGCTTCGACGGCATTTTCTGC
Found at i:187764 original size:3 final size:3
Alignment explanation
Indices: 187752--187867 Score: 223
Period size: 3 Copynumber: 38.3 Consensus size: 3
187742 CTACCAAAAA
187752 TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
187798 TAT TAT TAT TAT TAT TAT TAT 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
187846 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
187868 TTTGCAGGCC
Statistics
Matches: 112, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 109 0.97
4 3 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:192432 original size:20 final size:19
Alignment explanation
Indices: 192409--192445 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
192399 TGAACCCCAG
*
192409 GGGGGTATCGATTCCCCTA
1 GGGGGAATCGATTCCCCTA
*
192428 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
192446 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.27, G:0.35, T:0.24
Consensus pattern (19 bp):
GGGGGAATCGATTCCCCTA
Found at i:192458 original size:24 final size:24
Alignment explanation
Indices: 192428--192501 Score: 116
Period size: 23 Copynumber: 3.2 Consensus size: 24
192418 GATTCCCCTA
192428 GGGGGAATCGGTTCCCCTTCAAAG
1 GGGGGAATCGGTTCCCCTTCAAAG
* *
192452 GGGGGAATCGATTCCCTTTCAAA-
1 GGGGGAATCGGTTCCCCTTCAAAG
192475 GGGGGAATCGGTTCCCCTTC-AAG
1 GGGGGAATCGGTTCCCCTTCAAAG
192498 GGGG
1 GGGG
192502 TATCGATTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
22 2 0.04
23 22 0.49
24 21 0.47
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.22
Consensus pattern (24 bp):
GGGGGAATCGGTTCCCCTTCAAAG
Found at i:192468 original size:23 final size:23
Alignment explanation
Indices: 192427--192512 Score: 120
Period size: 24 Copynumber: 3.7 Consensus size: 23
192417 CGATTCCCCT
*
192427 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGATTCCCCTTCAA
*
192450 AGGGGGGAATCGATTCCCTTTCAA
1 A-GGGGGAATCGATTCCCCTTCAA
*
192474 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGATTCCCCTTCAA
*
192496 AGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
192513 TCTGCCCTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 16 0.29
23 19 0.34
24 21 0.38
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.23
Consensus pattern (23 bp):
AGGGGGAATCGATTCCCCTTCAA
Found at i:199102 original size:15 final size:15
Alignment explanation
Indices: 199082--199111 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
199072 TATTTTGATG
*
199082 GTTAGACTTATTGTT
1 GTTAGAATTATTGTT
199097 GTTAGAATTATTGTT
1 GTTAGAATTATTGTT
199112 TAACCCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.20, T:0.53
Consensus pattern (15 bp):
GTTAGAATTATTGTT
Found at i:206997 original size:32 final size:32
Alignment explanation
Indices: 206976--207037 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
206966 ATTTATTTTG
206976 ACTTTGTCCCCTTCATCTTTT-ATGGTTAATTAC
1 ACTTTGTCCCC-TCATCTTTTAAT-GTTAATTAC
*
207009 ACTTTGTCCCCTCATCTTTT-ATGATAATT
1 ACTTTGTCCCCTCATCTTTTAATGTTAATT
207038 TACTCCCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 6 0.21
32 11 0.39
33 11 0.39
ACGTcount: A:0.19, C:0.24, G:0.08, T:0.48
Consensus pattern (32 bp):
ACTTTGTCCCCTCATCTTTTAATGTTAATTAC
Found at i:210411 original size:19 final size:20
Alignment explanation
Indices: 210349--210441 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
210339 TTTTCTTAAT
210349 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
210369 TCGCAACGCGAATTTGAAAAA
1 TCGCAATGCGAATACG-TAAA
*
210390 TCGCAATGCG-CTACGTAAA
1 TCGCAATGCGAATACGTAAA
210409 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
210429 TCGCAACGCGAAT
1 TCGCAATGCGAAT
210442 CTGACTATCG
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
19 13 0.22
20 35 0.58
21 12 0.20
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:210451 original size:20 final size:20
Alignment explanation
Indices: 210428--210474 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
210418 GAATACGTAA
* *
210428 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACC
*
210448 ATCGCAACGAGATTCTGACC
1 ATCGCAACGAGAATCTGACC
210468 ATCGCAA
1 ATCGCAA
210475 TACTGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACC
Found at i:210475 original size:60 final size:60
Alignment explanation
Indices: 210349--210460 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 60
210339 TTTTCTTAAT
* * * *
210349 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTGAAAAATCGCAATGCGCTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATCTGAAAAATCGCAACGAGATACGTAAA
**
210409 TCGCAATGCGAATACGTAAATCGCAACGCGAATCTG-ACTATCGCAACGAGAT
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATCTGAAAAATCGCAACGAGAT
210461 TCTGACCATC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 11 0.24
60 35 0.76
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGAATCTGAAAAATCGCAACGAGATACGTAAA
Found at i:211340 original size:24 final size:24
Alignment explanation
Indices: 211313--211366 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
211303 GTATTCGAAA
211313 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
211337 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
211361 TTTGAT
1 TTTGAT
211367 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:218136 original size:29 final size:29
Alignment explanation
Indices: 218101--218161 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 29
218091 CCTTTGAATG
218101 TGCATCGATGCAT-CCGATGCACCGATGCA
1 TGCATCGATGCATACC-ATGCACCGATGCA
218130 TGCATCGATGCATAAGCCATGCACCGATGCA
1 TGCATCGATGCAT-A-CCATGCACCGATGCA
218161 T
1 T
218162 CCGTCGGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 13 0.45
31 14 0.48
32 2 0.07
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (29 bp):
TGCATCGATGCATACCATGCACCGATGCA
Found at i:219685 original size:21 final size:21
Alignment explanation
Indices: 219643--219686 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
219633 AACCCGGGAG
*
219643 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
219664 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
219685 CT
1 CT
219687 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Done.