Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007461.1 Hibiscus syriacus cultivar Beakdansim tig00020466_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: 102653
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:2281 original size:65 final size:65
Alignment explanation
Indices: 2068--2273 Score: 306
Period size: 65 Copynumber: 3.2 Consensus size: 65
2058 AGAGTGAACA
* * *
2068 AGTACAAATCACTTATATGACTCATGTACCTTTGTGATGCATG-GGATAGAGTGATAATTGAATA
1 AGTACATATCACTCATATGACTCATGTACCTTTGTGATGCATGAGG-TGGAGTGATAATTGAATA
2132 C
65 C
* *
2133 AATACATATCACTCATATGACTCATGTACCTATGTGATGCATGAGGTGGAGTGATAATTGAATAC
1 AGTACATATCACTCATATGACTCATGTACCTTTGTGATGCATGAGGTGGAGTGATAATTGAATAC
* * * * *
2198 AGTACAGATCACTCATATGAATCATGTACCTTTGTGGTGCATGAAGTGGAGTGATAATTGAATAT
1 AGTACATATCACTCATATGACTCATGTACCTTTGTGATGCATGAGGTGGAGTGATAATTGAATAC
2263 AGTACATATCA
1 AGTACATATCA
2274 ATTATATGTA
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
65 125 0.98
66 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (65 bp):
AGTACATATCACTCATATGACTCATGTACCTTTGTGATGCATGAGGTGGAGTGATAATTGAATAC
Found at i:2544 original size:63 final size:65
Alignment explanation
Indices: 2436--2688 Score: 366
Period size: 65 Copynumber: 3.9 Consensus size: 65
2426 GATCTTTGTA
* * *
2436 GTATTTAATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGACTGATTTGTATT
1 GTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATTTGTATT
* * *
2501 GTATTCAATTATCACTCCACCTCATGCA-C-CAAAGGTACATGAGTCATATAAGTGATCTGTATT
1 GTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATTTGTATT
* * * *
2564 GTATCCAATTATCACTCCACCTCATGTACTACAAAGGTACACGAGTCATATGAGTGATGTGTATT
1 GTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATTTGTATT
* * * *
2629 TTATTCAATTATCATTCCACCCCATGCACCACAAAGGTACACAAGTCATATGAGTGATTT
1 GTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATTT
2689 TGGCCCAAAA
Statistics
Matches: 168, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
63 57 0.34
64 1 0.01
65 110 0.65
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (65 bp):
GTATTCAATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATTTGTATT
Found at i:2655 original size:128 final size:130
Alignment explanation
Indices: 2442--2686 Score: 377
Period size: 128 Copynumber: 1.9 Consensus size: 130
2432 TGTAGTATTT
* *
2442 AATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGACTGATTTGTATTGTATTC
1 AATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGACTGATGTGTATTGTATTC
* **
2507 AATTATCACTCCACCTCATGCA-C-CAAAGGTACATGAGTCATATAAGTGATCTGTATTGTATCC
66 AATTATCACTCCACCCCATGCACCACAAAGGTACACAAGTCATATAAGTGATCTGTATTGTATCC
* * * *
2570 AATTATCACTCCACCTCATGTACTACAAAGGTACACGAGTCATATGAGTGATGTGTATTTTATTC
1 AATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGACTGATGTGTATTGTATTC
* *
2635 AATTATCATTCCACCCCATGCACCACAAAGGTACACAAGTCATATGAGTGAT
66 AATTATCACTCCACCCCATGCACCACAAAGGTACACAAGTCATATAAGTGAT
2687 TTTGGCCCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
128 79 0.76
129 1 0.01
130 24 0.23
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (130 bp):
AATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGACTGATGTGTATTGTATTC
AATTATCACTCCACCCCATGCACCACAAAGGTACACAAGTCATATAAGTGATCTGTATTGTATCC
Found at i:3787 original size:19 final size:19
Alignment explanation
Indices: 3763--3807 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
3753 GAATGCAATT
*
3763 AGTGCATCAATGCATGAGG
1 AGTGCATCAATGCATAAGG
*
3782 AGTGCATCGATGCATAAGG
1 AGTGCATCAATGCATAAGG
3801 AGTGCAT
1 AGTGCAT
3808 GATGCACCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (19 bp):
AGTGCATCAATGCATAAGG
Found at i:4308 original size:24 final size:21
Alignment explanation
Indices: 4281--4338 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 21
4271 ATGTGAAATA
4281 ATGAAAGTGATCACATGTGTGTAT
1 ATGAAAGTGAT-ACATGT-T-TAT
4305 ATG-AAGTGAAATACATGTTTAT
1 ATGAAAGTG--ATACATGTTTAT
4327 ATGAAAAGTGAT
1 ATG-AAAGTGAT
4339 GAGAAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 8 0.27
23 6 0.20
24 14 0.47
25 2 0.07
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (21 bp):
ATGAAAGTGATACATGTTTAT
Found at i:4555 original size:18 final size:18
Alignment explanation
Indices: 4532--4602 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
4522 GTTCTTAAGG
4532 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * * *
4550 AGTGGTTCTTAGGAATAAT
1 AGTGGTCCTTCGGGA-CAT
*
4569 CA-TTGTCCTTC-GGACAT
1 -AGTGGTCCTTCGGGACAT
*
4586 AATGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
4603 AATATTCAGT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
16 1 0.03
17 10 0.26
18 19 0.49
19 8 0.21
20 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:5741 original size:25 final size:25
Alignment explanation
Indices: 5710--5762 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
5700 AGTGTTTTTC
5710 TAAGTTAAAGATTATATTTTTCTCA
1 TAAGTTAAAGATTATATTTTTCTCA
* * *
5735 TAAGTTAGAGATTATTTTTTTCTTA
1 TAAGTTAAAGATTATATTTTTCTCA
5760 TAA
1 TAA
5763 TAAATTAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (25 bp):
TAAGTTAAAGATTATATTTTTCTCA
Found at i:10454 original size:20 final size:20
Alignment explanation
Indices: 10423--10473 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
10413 ATTTACATAT
*
10423 ATATTGCTTTTGAAATTTGCC
1 ATATT-CTTTTGAAACTTGCC
*
10444 ATATTCTTTTGTAACTTGCC
1 ATATTCTTTTGAAACTTGCC
10464 ATATTCTTTT
1 ATATTCTTTT
10474 ATAACAACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.53
Consensus pattern (20 bp):
ATATTCTTTTGAAACTTGCC
Found at i:10478 original size:20 final size:20
Alignment explanation
Indices: 10439--10478 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10429 CTTTTGAAAT
*
10439 TTGCCATATTCTTTTGTAAC
1 TTGCCATATTCTTTTATAAC
10459 TTGCCATATTCTTTTATAAC
1 TTGCCATATTCTTTTATAAC
10479 AACCATGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (20 bp):
TTGCCATATTCTTTTATAAC
Found at i:13235 original size:20 final size:20
Alignment explanation
Indices: 13197--13234 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
13187 AACAATTGCG
13197 TTTTTAGTATTTTATTTTTA
1 TTTTTAGTATTTTATTTTTA
13217 TTTTTAGTA-TTTATTTTT
1 TTTTTAGTATTTTATTTTT
13235 TGAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTAGTATTTTATTTTTA
Found at i:13839 original size:2 final size:2
Alignment explanation
Indices: 13832--13895 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
13822 TAATTCGTTG
13832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13874 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
13896 TAAAAAAATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14047 original size:21 final size:22
Alignment explanation
Indices: 13998--14047 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
13988 AGATTTACTG
13998 TAAAAAT-ACTTTTAAAAAATC
1 TAAAAATAACTTTTAAAAAATC
* *
14019 T-AAAATAACTTTTACAGAAT-
1 TAAAAATAACTTTTAAAAAATC
14039 TAAAAATAA
1 TAAAAATAA
14048 TAGATTGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (22 bp):
TAAAAATAACTTTTAAAAAATC
Found at i:18479 original size:53 final size:56
Alignment explanation
Indices: 18412--18519 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 56
18402 GTCTCTCGAC
18412 TATACGATATTG-TT-TT-GTCATTTGACTATTAAAAGTTACAAAATAATCATGAT
1 TATACGATATTGTTTGTTAGTCATTTGACTATTAAAAGTTACAAAATAATCATGAT
* * * *
18465 TATATGATGTTGTTTTGTTAAGTCCTTTGACTATTAAAAGTTACAAAATACTCAT
1 TATACGATATTG-TTTGTT-AGTCATTTGACTATTAAAAGTTACAAAATAATCAT
18520 TTGACTATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 10 0.22
55 2 0.04
56 2 0.04
58 32 0.70
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (56 bp):
TATACGATATTGTTTGTTAGTCATTTGACTATTAAAAGTTACAAAATAATCATGAT
Found at i:21821 original size:15 final size:15
Alignment explanation
Indices: 21801--21829 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21791 ATAAATAAAT
21801 ACGTGAAAATTAACC
1 ACGTGAAAATTAACC
21816 ACGTGAAAATTAAC
1 ACGTGAAAATTAAC
21830 TATGTGCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (15 bp):
ACGTGAAAATTAACC
Found at i:23646 original size:6 final size:6
Alignment explanation
Indices: 23637--23664 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23627 AAAATCCCAC
23637 GCAATG GCAATG GCAATG GCAATG GCAA
1 GCAATG GCAATG GCAATG GCAATG GCAA
23665 CGACAACGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.14
Consensus pattern (6 bp):
GCAATG
Found at i:25165 original size:3 final size:3
Alignment explanation
Indices: 25157--25280 Score: 176
Period size: 3 Copynumber: 40.7 Consensus size: 3
25147 TTATCCATTT
* * * *
25157 TTA TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TCA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
25205 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
25251 ATA TTA TATA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT
25281 TAATAAATAA
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
3 102 0.95
4 5 0.05
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:26641 original size:20 final size:21
Alignment explanation
Indices: 26596--26641 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
26586 CCACTTTTAA
26596 ATATA-TGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
26616 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
26635 ATATATT
1 ATATATT
26642 TAAATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:26715 original size:15 final size:16
Alignment explanation
Indices: 26685--26718 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
26675 TATATATGAA
26685 TAATAAATAATATTTTT
1 TAATAAAT-ATATTTTT
26702 TAATAAAT-TATTTTT
1 TAATAAATATATTTTT
26717 TA
1 TA
26719 TATCGAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATAAATATATTTTT
Found at i:27394 original size:17 final size:17
Alignment explanation
Indices: 27372--27413 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
27362 TTTCAAATTT
27372 TTTTTAT-ATATTTATTA
1 TTTTTATAATATTTA-TA
27389 TTTTTATAATATTTATA
1 TTTTTATAATATTTATA
27406 TGTTTTAT
1 T-TTTTAT
27414 TTGCAAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTTATAATATTTATA
Found at i:38011 original size:9 final size:8
Alignment explanation
Indices: 38000--38057 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
37990 ATGCTTGAAG
38000 AAAAGAAA
1 AAAAGAAA
38008 GAAAA-AAA
1 -AAAAGAAA
38016 AAAAGAAA
1 AAAAGAAA
38024 AAAA-AATA
1 AAAAGAA-A
* * *
38032 AATATAGA
1 AAAAGAAA
38040 AAAAG-AA
1 AAAAGAAA
38047 AAAAGAAA
1 AAAAGAAA
38055 AAA
1 AAA
38058 GGAGGGTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
7 12 0.30
8 23 0.57
9 5 0.12
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.05
Consensus pattern (8 bp):
AAAAGAAA
Found at i:38420 original size:19 final size:20
Alignment explanation
Indices: 38387--38428 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
38377 TTTAAGTTCA
*
38387 ATTTATTGGAGATTCAATTT
1 ATTTATTGGAAATTCAATTT
38407 ATTT-TTGGAAATTCAATTT
1 ATTTATTGGAAATTCAATTT
38426 ATT
1 ATT
38429 CTTTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTATTGGAAATTCAATTT
Found at i:39062 original size:52 final size:52
Alignment explanation
Indices: 38984--39404 Score: 735
Period size: 52 Copynumber: 8.1 Consensus size: 52
38974 TATGTGCTCA
*
38984 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAATAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
39036 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
39088 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-AGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGA-ACAGAAC
39139 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
*
39191 ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTT-AGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGA-ACAGAAC
*
39242 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
*
39294 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
*
39346 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAA-C
39399 A-AGCAT
1 ATAGCAT
39405 TGAATTTAGA
Statistics
Matches: 358, Mismatches: 4, Indels: 14
0.95 0.01 0.04
Matches are distributed among these distances:
51 99 0.28
52 257 0.72
53 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
Found at i:39176 original size:103 final size:104
Alignment explanation
Indices: 38984--39404 Score: 751
Period size: 103 Copynumber: 4.1 Consensus size: 104
38974 TATGTGCTCA
*
38984 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GAATAGAACATAGCATCTTCT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAG-ACAGAACATAGCATCTTCT
39048 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
65 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
39088 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
39152 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
*
39191 ATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTAGA-AGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
*
39255 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
*
39294 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
*
39359 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATC
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAA-C
39399 A-AGCAT
1 ATAGCAT
39405 TGAATTTAGA
Statistics
Matches: 310, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
103 202 0.65
104 105 0.34
105 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (104 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
Found at i:39293 original size:155 final size:155
Alignment explanation
Indices: 38984--39404 Score: 749
Period size: 155 Copynumber: 2.7 Consensus size: 155
38974 TATGTGCTCA
*
38984 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAATAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTG
39049 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
39114 AGTTATCTGATCTGGTTAGAAGAAC
131 AGTTATCTGATCTGGTTAGAAGAAC
39139 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTG
*
39204 GAAGTGTTCTTTAAGTTATCTGATCTGGTT-AGA-AGAACATAGCATCTTCTGGAAGTGTTCTTT
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGA-ACAGAACATAGCATCTTCTGGAAGTGTTCTTT
*
39267 GAGTTATCTGATCTGGTTGGACAGAAC
130 GAGTTATCTGATCTGGTTAGA-AGAAC
*
39294 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTG
*
39359 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATCA-AGCAT
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAA-CATAGCAT
39405 TGAATTTAGA
Statistics
Matches: 255, Mismatches: 6, Indels: 9
0.94 0.02 0.03
Matches are distributed among these distances:
154 51 0.20
155 193 0.76
156 9 0.04
157 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (155 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
AGTTATCTGATCTGGTTAGAAGAAC
Found at i:40220 original size:113 final size:113
Alignment explanation
Indices: 40022--40811 Score: 1339
Period size: 113 Copynumber: 7.0 Consensus size: 113
40012 TTTAGCAAAG
* * * *
40022 ACCTGAATCCATCATTTGGTGGATCAACATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
40087 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
40135 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
40200 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
40248 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
40313 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
*
40361 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
40426 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
40474 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
*
40539 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
* *
40586 GCTTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
* *
40651 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
*** * * * * * ** * *
40699 GTTTAAATTCATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACACATC
1 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATC
* **
40764 TGAAGAAGGAAGAATAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
65 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
40812 GTTTGATATC
Statistics
Matches: 652, Mismatches: 23, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
112 109 0.17
113 482 0.74
114 61 0.09
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
Found at i:41112 original size:3 final size:3
Alignment explanation
Indices: 41104--41222 Score: 168
Period size: 3 Copynumber: 39.7 Consensus size: 3
41094 TTTATCCATT
* * * *
41104 TTA TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TCA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
41152 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA -TA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41199 TTA TATA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TT
41223 TAATAAATAA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
2 2 0.02
3 97 0.95
4 3 0.03
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:42574 original size:20 final size:21
Alignment explanation
Indices: 42528--42574 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
42518 CCACTTTTAA
42528 ATATATTGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
42549 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
42568 ATATATT
1 ATATATT
42575 TAAATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:42651 original size:15 final size:16
Alignment explanation
Indices: 42621--42654 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
42611 ATATAATGAA
42621 TAATAAATAATATTTTT
1 TAATAAAT-ATATTTTT
42638 TAATAAAT-TATTTTT
1 TAATAAATATATTTTT
42653 TA
1 TA
42655 TATCGAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATAAATATATTTTT
Found at i:44473 original size:16 final size:16
Alignment explanation
Indices: 44432--44487 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
44422 CTAGAATGTT
*
44432 TCTGAGGGAATTGAAA
1 TCTGAAGGAATTGAAA
44448 TCTGTGAAGGAATTGAAA
1 TC--TGAAGGAATTGAAA
44466 TCTGAAGGAATT-AGAA
1 TCTGAAGGAATTGA-AA
44482 TCTGAA
1 TCTGAA
44488 TCTGAAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 1 0.03
16 20 0.56
18 15 0.42
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (16 bp):
TCTGAAGGAATTGAAA
Found at i:46300 original size:3 final size:3
Alignment explanation
Indices: 46292--46355 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
46282 GAAAAGGCAA
46292 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
46340 AAT AAT AA- AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT
46356 TAATCAATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.07
3 55 0.93
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49408 original size:3 final size:3
Alignment explanation
Indices: 49400--49448 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
49390 AGGATTGAAA
*
49400 TAT TAT TAT TAT TAT TAC 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
49448 T
1 T
49449 TAGGGAGGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:50836 original size:9 final size:9
Alignment explanation
Indices: 50822--50851 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
50812 TAGAATTGTT
50822 CACACGCCG
1 CACACGCCG
50831 CACACGCCG
1 CACACGCCG
50840 CACACGCCG
1 CACACGCCG
50849 CAC
1 CAC
50852 GCGCTACCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.57, G:0.20, T:0.00
Consensus pattern (9 bp):
CACACGCCG
Found at i:59679 original size:14 final size:14
Alignment explanation
Indices: 59660--59710 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
59650 ATTTAATCCA
59660 TAATTTTTTATATT
1 TAATTTTTTATATT
*
59674 TAA-TTTTGATGAGTT
1 TAATTTTTTAT-A-TT
59689 GATAATTTTTTATATT
1 --TAATTTTTTATATT
59705 TAATTT
1 TAATTT
59711 AGAACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 6 0.20
14 10 0.33
15 2 0.07
16 2 0.07
17 4 0.13
18 6 0.20
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (14 bp):
TAATTTTTTATATT
Found at i:62776 original size:3 final size:3
Alignment explanation
Indices: 62768--62799 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
62758 GGCAGATAAA
62768 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
62800 AGGGGTTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:69275 original size:30 final size:30
Alignment explanation
Indices: 69234--69313 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
69224 TTGACAGACA
* * *
69234 TTTGAATCACTCGACTTCTTTCGGAAAGATG
1 TTTGGATCACTCGACATCTTT-AGAAAGATG
* *
69265 -TTGGATCACTCGGCATCTTTAGATAGATG
1 TTTGGATCACTCGACATCTTTAGAAAGATG
* *
69294 TTTGGATCATTCGGCATCTT
1 TTTGGATCACTCGACATCTT
69314 CTGTTTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 7 0.17
30 35 0.83
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (30 bp):
TTTGGATCACTCGACATCTTTAGAAAGATG
Found at i:70809 original size:35 final size:36
Alignment explanation
Indices: 70763--70837 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
70753 TTTGTCACCA
70763 GTTCAAAGAAAAAGGTTTTAATCCCTTACATTA-CG
1 GTTCAAAGAAAAAGGTTTTAATCCCTTACATTATCG
*
70798 GTTCAAAGAAAAATGTTTTAATCCCTTACATTATCG
1 GTTCAAAGAAAAAGGTTTTAATCCCTTACATTATCG
70834 GTTC
1 GTTC
70838 GTTTGATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 32 0.84
36 6 0.16
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (36 bp):
GTTCAAAGAAAAAGGTTTTAATCCCTTACATTATCG
Found at i:75852 original size:20 final size:21
Alignment explanation
Indices: 75811--75859 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
75801 TAAAACGCCT
75811 AATAATAACAAAATCGGTAGA
1 AATAATAACAAAATCGGTAGA
75832 AATAATAACAAAATC-GTAGA
1 AATAATAACAAAATCGGTAGA
75852 AATAATAA
1 AATAATAA
75860 TGTTTCCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20
Consensus pattern (21 bp):
AATAATAACAAAATCGGTAGA
Found at i:77919 original size:20 final size:20
Alignment explanation
Indices: 77894--77945 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
77884 TAGTTGAAAA
*
77894 TCGCGTTGTGATTTTTCATT
1 TCGCGTTGCGATTTTTCATT
77914 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTTCATT
77934 TCGCGTTGCGAT
1 TCGCGTTGCGAT
77946 AGTCTACAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (20 bp):
TCGCGTTGCGATTTTTCATT
Found at i:87012 original size:26 final size:26
Alignment explanation
Indices: 86971--87046 Score: 86
Period size: 25 Copynumber: 3.0 Consensus size: 26
86961 TATTTAAGTC
* * *
86971 TTATTTTATAACTCAAAATTTATTCAT
1 TTATTTT-TAAATCAAAATTAAATCAT
86998 TTATTTTTAAATC-AAATTAAATCAT
1 TTATTTTTAAATCAAAATTAAATCAT
87023 TT-TTTTTAACATCAAAA-TAAATCA
1 TTATTTTTAA-ATCAAAATTAAATCA
87047 AAATGTTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.16
25 22 0.50
26 8 0.18
27 7 0.16
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (26 bp):
TTATTTTTAAATCAAAATTAAATCAT
Found at i:91473 original size:17 final size:18
Alignment explanation
Indices: 91449--91486 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
91439 TAACACGTTA
91449 ATAATTTAG-AT-TATAT
1 ATAATTTAGCATATATAT
91465 ATAATTTTAGCATATATAT
1 ATAA-TTTAGCATATATAT
91484 ATA
1 ATA
91487 TATATTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 5 0.26
18 2 0.11
19 8 0.42
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (18 bp):
ATAATTTAGCATATATAT
Found at i:95511 original size:31 final size:32
Alignment explanation
Indices: 95452--95529 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
95442 GTAATATATT
*
95452 TCATGTCATCACTTTTTGACACTTGATATGTG
1 TCATGTCATCACTTTTTGACACTCGATATGTG
*
95484 TCATGTCATTA-TTTTTGACA-TACGATATGT-
1 TCATGTCATCACTTTTTGACACT-CGATATGTG
*
95514 ACATTGTCATCA-TTTT
1 TCA-TGTCATCACTTTT
95530 CAACATGGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 3 0.08
31 27 0.68
32 10 0.25
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (32 bp):
TCATGTCATCACTTTTTGACACTCGATATGTG
Found at i:95555 original size:31 final size:31
Alignment explanation
Indices: 95520--95615 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
95510 ATGTACATTG
* * *
95520 TCATCATTTTCAACATGGGATATGTAACACA
1 TCATCATTTTCAACAAGTGATATGTATCACA
* * *
95551 TCATCACTTTT-AACAAGTGACATTTATTACA
1 TCATCA-TTTTCAACAAGTGATATGTATCACA
* * *
95582 TCATCACTTTCGACACGTGATATGTATCACA
1 TCATCATTTTCAACAAGTGATATGTATCACA
95613 TCA
1 TCA
95616 GCAACATGTA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
30 3 0.06
31 44 0.86
32 4 0.08
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (31 bp):
TCATCATTTTCAACAAGTGATATGTATCACA
Found at i:99687 original size:103 final size:103
Alignment explanation
Indices: 99483--99792 Score: 480
Period size: 101 Copynumber: 3.1 Consensus size: 103
99473 GTCGAGGGTC
*
99483 TATGTGGTCTTTCGGGACATATATGTA-T-TTTGGAACATGTGTGAAGTCTGG-GAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
99545 TTGATCCTTGGC--ATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
99581 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
**
99646 TTGATTATTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
99684 TATGTGGTCCTTCGGGAC--ATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
99747 TTGATCCCTAGTATATG--TATGA-T-TTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
99781 TATGTGGTCCTT
1 TATGTGGTCCTT
99793 ATGGACATTA
Statistics
Matches: 198, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
97 23 0.12
98 27 0.14
99 6 0.03
100 23 0.12
101 77 0.39
103 42 0.21
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:99851 original size:47 final size:47
Alignment explanation
Indices: 99799--99918 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
99789 CCTTATGGAC
*
99799 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGTA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
99846 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
* *
99893 ATTA-TATGTGGCACTTCGGTGCAATT
1 ATTATTATATGGCACTACGGTGCAATT
99919 ATATGAGCTG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 20 0.29
47 50 0.71
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (47 bp):
ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
Found at i:99919 original size:23 final size:23
Alignment explanation
Indices: 99799--99923 Score: 124
Period size: 23 Copynumber: 5.3 Consensus size: 23
99789 CCTTATGGAC
*
99799 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * * *
99823 ATTCTACGCGGCACTCCGGTGTA
1 ATTATATGTGGCACTACGGTGCA
*
99846 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
99870 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
99893 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
99916 ATTATATG
1 ATTATATG
99924 AGCTGTTGTG
Statistics
Matches: 79, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
23 59 0.75
24 20 0.25
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Done.